Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 55
Found at i:6165021 original size:24 final size:24
Alignment explanation
Indices: 6164968--6165021 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
6164958 CTCTCTAAAG
*
6164968 ATTTAAAAAAAGAAATGAAAATTAT
1 ATTTAAAAAAAGAAAT-AAAATGAT
* *
6164993 TTTTAAAAAAGAGAAAT-AGATGAT
1 ATTTAAAAAA-AGAAATAAAATGAT
6165017 ATTTA
1 ATTTA
6165022 TAGAAAACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
24 9 0.38
25 9 0.38
26 6 0.25
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.31
Consensus pattern (24 bp):
ATTTAAAAAAAGAAATAAAATGAT
Found at i:6171442 original size:8 final size:9
Alignment explanation
Indices: 6171402--6171520 Score: 78
Period size: 9 Copynumber: 12.3 Consensus size: 9
6171392 AAAAAAATAT
6171402 AAAAAGAGA
1 AAAAAGAGA
* *
6171411 TAGAGAGAGA
1 -AAAAAGAGA
* *
6171421 AAAAATATA
1 AAAAAGAGA
*
6171430 AAAAAAAGGA
1 AAAAAGA-GA
6171440 AAAAAGAGAAA
1 AAAAAGAG--A
*
6171451 AAAAAGAAA
1 AAAAAGAGA
6171460 AAAAAGAAGA
1 AAAAAG-AGA
6171470 AAAAAGAG-
1 AAAAAGAGA
*
6171478 AAAAAGAAAA
1 AAAAAG-AGA
6171488 AGAGAAAGAGA
1 A-A-AAAGAGA
6171499 AAAAAGAAGA
1 AAAAAG-AGA
*
6171509 AAAGAGAGA
1 AAAAAGAGA
6171518 AAA
1 AAA
6171521 TAAATCAAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
8 6 0.07
9 32 0.37
10 32 0.37
11 12 0.14
12 4 0.05
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (9 bp):
AAAAAGAGA
Found at i:6171442 original size:9 final size:9
Alignment explanation
Indices: 6171418--6171511 Score: 82
Period size: 9 Copynumber: 9.9 Consensus size: 9
6171408 AGATAGAGAG
*
6171418 AGAAAAAAT
1 AGAAAAAAA
*
6171427 ATAAAAAAA
1 AGAAAAAAA
*
6171436 AGGAAAAAAG
1 A-GAAAAAAA
6171446 AGAAAAAAA
1 AGAAAAAAA
6171455 AGAAAAAAA
1 AGAAAAAAA
6171464 AGAAGAAAAA
1 AGAA-AAAAA
6171474 AGAGAAAAAGA
1 AGA-AAAAA-A
*
6171485 A-AAAGAGAA
1 AGAAA-AAAA
*
6171494 AGAGAAAAA
1 AGAAAAAAA
6171503 AGAAGAAAA
1 AGAA-AAAA
6171512 GAGAGAAAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
9 38 0.55
10 28 0.41
11 3 0.04
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (9 bp):
AGAAAAAAA
Found at i:6171447 original size:28 final size:29
Alignment explanation
Indices: 6171402--6171520 Score: 116
Period size: 30 Copynumber: 4.0 Consensus size: 29
6171392 AAAAAAATAT
* * * *
6171402 AAAAAGAGATAGAGAGAGAAAAAATATAAA
1 AAAAAGAGA-AAAAAGAGAAAAAAAAGAAA
6171432 AAAAAG-GAAAAAAGAGAAAAAAAAGAAA
1 AAAAAGAGAAAAAAGAGAAAAAAAAGAAA
*
6171460 AAAAAGAAGAAAAAAGAGAAAAAGAAA-AAG
1 AAAAAG-AGAAAAAAGAGAAAAA-AAAGAAA
* * *
6171490 AGAAAGAGAAAAAAGAAGAAAAGAGAGAAA
1 AAAAAGAGAAAAAAG-AGAAAAAAAAGAAA
6171520 A
1 A
6171521 TAAATCAAGT
Statistics
Matches: 75, Mismatches: 9, Indels: 10
0.80 0.10 0.11
Matches are distributed among these distances:
28 22 0.29
29 13 0.17
30 37 0.49
31 3 0.04
ACGTcount: A:0.76, C:0.00, G:0.21, T:0.03
Consensus pattern (29 bp):
AAAAAGAGAAAAAAGAGAAAAAAAAGAAA
Found at i:6171453 original size:21 final size:20
Alignment explanation
Indices: 6171416--6171520 Score: 87
Period size: 19 Copynumber: 5.4 Consensus size: 20
6171406 AGAGATAGAG
*
6171416 AGAGAAAAAATATAA-AAAAA
1 AGAGAAAAAA-AAAAGAAAAA
*
6171436 AG-GAAAAAAGAGAA-AAAAA
1 AGAGAAAAAA-AAAAGAAAAA
*
6171455 AGA-AAAAAAAGAAGAAAAA
1 AGAGAAAAAAAAAAGAAAAA
*
6171474 AGAGAAAAAGAAAAAG-AGAA
1 AGAGAAAAA-AAAAAGAAAAA
* *
6171494 AGAG-AAAAAAGAAGAAAAG
1 AGAGAAAAAAAAAAGAAAAA
6171513 AGAGAAAA
1 AGAGAAAA
6171521 TAAATCAAGT
Statistics
Matches: 72, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
18 9 0.12
19 41 0.57
20 17 0.24
21 5 0.07
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (20 bp):
AGAGAAAAAAAAAAGAAAAA
Found at i:6171504 original size:39 final size:38
Alignment explanation
Indices: 6171416--6171520 Score: 124
Period size: 39 Copynumber: 2.7 Consensus size: 38
6171406 AGAGATAGAG
* *
6171416 AGAGAAAAAATATAAAAAAAAG-GAAAAAAGAGAAAAAAA
1 AGAGAAAAAAGA-AGAAAAAAGAG-AAAAAGAGAAAAAAA
*
6171455 AGAAAAAAAAGAAGAAAAAAGAGAAAAAGA-AAAAGAGAA
1 AGAGAAAAAAGAAGAAAAAAGAGAAAAAGAGAAAA-A-AA
*
6171494 AGAGAAAAAAGAAGAAAAGAGAGAAAA
1 AGAGAAAAAAGAAGAAAAAAGAGAAAA
6171521 TAAATCAAGT
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
37 4 0.07
38 16 0.28
39 38 0.66
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (38 bp):
AGAGAAAAAAGAAGAAAAAAGAGAAAAAGAGAAAAAAA
Found at i:6171508 original size:12 final size:12
Alignment explanation
Indices: 6171439--6171508 Score: 65
Period size: 11 Copynumber: 5.8 Consensus size: 12
6171429 AAAAAAAAGG
6171439 AAAA-AAGAGAA
1 AAAAGAAGAGAA
*
6171450 AAAA-AAGAAAA
1 AAAAGAAGAGAA
6171461 AAAAGAAGA-AA
1 AAAAGAAGAGAA
*
6171472 AAAGAGAAAAAGAA
1 AAA-AG-AAGAGAA
6171486 AAAGAGAAAGAGAA
1 AAA-AG-AAGAGAA
6171500 AAAAGAAGA
1 AAAAGAAGA
6171509 AAAGAGAGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
11 19 0.37
12 10 0.19
13 5 0.10
14 18 0.35
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAAGAAGAGAA
Found at i:6172470 original size:24 final size:22
Alignment explanation
Indices: 6172438--6172504 Score: 64
Period size: 24 Copynumber: 2.9 Consensus size: 22
6172428 AGAAGGGGGC
6172438 AATATTTTTCAAATTTTTTGATT
1 AATA-TTTTCAAATTTTTTGATT
*
6172461 AAATACTTTTCAAAATTCTTTTAATT
1 -AATA-TTTTC-AAATT-TTTTGATT
*
6172487 GATATTTTC-AATTTTTTG
1 AATATTTTCAAATTTTTTG
6172505 GAAATAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
21 4 0.11
22 4 0.11
24 14 0.38
25 8 0.22
26 7 0.19
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.57
Consensus pattern (22 bp):
AATATTTTCAAATTTTTTGATT
Found at i:6173137 original size:257 final size:257
Alignment explanation
Indices: 6172648--6173589 Score: 1357
Period size: 257 Copynumber: 3.7 Consensus size: 257
6172638 TTCTTACTTA
* * * *
6172648 GTAAGTCATTCGGGTCATCAGTAAGTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTGTC
1 GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
* * *
6172713 AGTCTTTTGAGCAAGATTATAAGTCATTCGGGCCATCCGTAAGACCTTC-GAGTATGATG-TTTC
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCAG-GTAGGATGTTTTC
*
6172776 ACATGAATTTGAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAA
130 ACATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAA
*
6172841 ATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAATTTG
195 ATTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* *
6172904 GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATTCTTCGAGTCATCTATC
1 GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
* *
6172969 AGTCTTTCGAGCAAGATGATAAGTCATTCAGGCTATCCGTAAGACCTTCAGGTAGGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCA
* *
6173034 CATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAATGTTTTCAGAAAATGAAA
131 CATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
* * *
6173099 TTTTTGAAAAGTAAGAAAGCAATTTCCAAAGTTTCTTACCCAGTAAATTATTTACCAAATTG
196 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* * * * *
6173161 GTAAGTCCTTCGGGCCATCAATAAGTCTTTCGAGCATGGTGATTAAATCCTTCGGGTCACCTATA
1 GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
* * * * *
6173226 AGTCTTTCGAGCGAGATGATAACTCATTCGGGCCATCCTTAAGACCTTCAAGTAGGATGCTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCA
* * *
6173291 CATGAATTTGAAAAATTAGAAAGAGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
131 CATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
* * * * * *
6173356 TTTTTGAAAAATGAGAAAGCGATTTCCAAAATTTCTTACCTATTAAACTATTTCCAAAATTG
196 TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
* * * * * *
6173418 GTAAGTCTTTCGGGCCATTAGTAAGTCTTTTGAGCATGATGATTAAATCCTTTGGGTCATCTGTT
1 GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
* * * * ** * *
6173483 AGTCTTTCAAGTAAGATGTTAAGTCCTTCGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCA
66 AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCA
* * *
6173548 CATGATTTTTGAAAAAATGAGAAAGCAATTTTCAAAGTTTCT
131 CATGA-ATTT-AAAAAATGAGAAAGCGATTTCCAAAGTTTCT
6173590 TACCCGGTAA
Statistics
Matches: 609, Mismatches: 73, Indels: 5
0.89 0.11 0.01
Matches are distributed among these distances:
256 111 0.18
257 469 0.77
258 3 0.00
259 26 0.04
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (257 bp):
GTAAGTCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTCATCTATC
AGTCTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCGTAAGACCTTCAGGTAGGATGTTTTCA
CATGAATTTAAAAAATGAGAAAGCGATTTCCAAAGTTTCTCATTTAGTATTTTCAGAAAATGAAA
TTTTTGAAAAGTAAGAAAGCGATTTCCAAAGTTTCTTACCCAGTAAACTATTTCCCAAATTG
Found at i:6173520 original size:41 final size:43
Alignment explanation
Indices: 6173419--6173525 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 43
6173409 CCAAAATTGG
* ** *
6173419 TAAGTCTTTCGGGCCAT-TAGTAAGTCTTTTGAGCATGATGAT
1 TAAGTCCTTCGGGCCATCTAGTAAGTCTTTCAAGCAAGATGAT
* * * * *
6173461 TAAATCCTTTGGGTCATCT-GTTAGTCTTTCAAGTAAGATG-T
1 TAAGTCCTTCGGGCCATCTAGTAAGTCTTTCAAGCAAGATGAT
6173502 TAAGTCCTTCGGGCCATCTA-TAAG
1 TAAGTCCTTCGGGCCATCTAGTAAG
6173526 ACCTTCGGGC
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
41 20 0.40
42 29 0.58
43 1 0.02
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (43 bp):
TAAGTCCTTCGGGCCATCTAGTAAGTCTTTCAAGCAAGATGAT
Found at i:6174773 original size:2 final size:2
Alignment explanation
Indices: 6174766--6174809 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
6174756 TTTTTAACAT
6174766 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
6174807 TA T
1 TA T
6174810 TATCCTTTCG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6175037 original size:81 final size:81
Alignment explanation
Indices: 6174900--6175266 Score: 592
Period size: 81 Copynumber: 4.5 Consensus size: 81
6174890 TTAACATTCG
*
6174900 TCTAACTGGCATAATTGACACATTTCTGTC-ATTGCACAGTTAGACCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAAC
*
6174964 TGTACTTAACCGTTCA
66 GGTACTTAACCGTTCA
*
6174980 TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAAC
*
6175045 GGTGCTTAACCGTTCA
66 GGTACTTAACCGTTCA
* **
6175061 TCTAACTGGCATCATTGACACATTTCTGCCAATTGCACAGTTAGGTCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAAC
* *
6175126 AGTACTTAACTGTTCA
66 GGTACTTAACCGTTCA
* ** *
6175142 TCTAACTGGCATAATTGACATATTTCTATCAATTGCACAGTTAGACTATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAAC
6175207 GGTACTTAACCGTTCA
66 GGTACTTAACCGTTCA
* *
6175223 TCTAACTGGCATAATTGACACCTTTATGCCAATTGCACAGTTAG
1 TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAG
6175267 GCCTCAAAGA
Statistics
Matches: 261, Mismatches: 25, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
80 28 0.11
81 233 0.89
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACATTTCTGCCAATTGCACAGTTAGACCATTATTCTTTTACTCAAC
GGTACTTAACCGTTCA
Found at i:6175407 original size:68 final size:68
Alignment explanation
Indices: 6175210--6175407 Score: 254
Period size: 68 Copynumber: 2.9 Consensus size: 68
6175200 ACTCAACGGT
* * * * *
6175210 ACTTAACCGTTCATCTAACTGGCATAATTGACACCTTTATGCCA-ATTGCACAGTTAGGCCTCAA
1 ACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATA-TGCACAGTTAGGCCTTAA
6175274 AGAC
65 AGAC
* * * *
6175278 ACTTAGTCTTTTATCTATCTGGCATAAATGACACCTTTATGTAATATGCACAGTTAGGCCTTAAA
1 ACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTTAAA
*
6175343 GGC
66 GAC
* * * *
6175346 ACTTAGCCTTTCATCTAACTGGCATAAATGACACATTTCTATCATATGCACAATTAGGCCTT
1 ACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTT
6175408 TATTCTTTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
68 110 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.32
Consensus pattern (68 bp):
ACTTAGCCTTTCATCTAACTGGCATAAATGACACCTTTATGTCATATGCACAGTTAGGCCTTAAA
GAC
Found at i:6175918 original size:59 final size:58
Alignment explanation
Indices: 6175781--6175940 Score: 187
Period size: 59 Copynumber: 2.7 Consensus size: 58
6175771 TTCTCACACT
6175781 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAGGCGCCCGATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAGGCGCCCGATACA
* ** * ** *
6175839 TAAATTCATACACTTAGTATGAATTTCTTATCATATTAGCACGTGAA-GTGCCCTTTCCA
1 GAAATTCATACACTTAGTATGAATTTCTTATCAT-TTAGCAC-ACAAGGCGCCCGATACA
* * * * *
6175898 GAAATTCATACTCTTGGTATGAATATCTTAACATTTTGCACAC
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACAC
6175941 GAAGTGCCAT
Statistics
Matches: 85, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
58 39 0.46
59 44 0.52
60 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACAAGGCGCCCGATACA
Found at i:6176504 original size:95 final size:95
Alignment explanation
Indices: 6176306--6176509 Score: 218
Period size: 95 Copynumber: 2.1 Consensus size: 95
6176296 TACTACCCTA
* * * * * *
6176306 TTAGGGTATCGATACCCCCT-TCATGTATCGATACCAAAATTAGCTTAGATGTATCTTGGTATCG
1 TTAGGGTACCGATACCCCATAT-AGGTATCGATACCAAAATTAGATTAGATATATATTGGTATCG
*
6176370 ATACCCTCACCATGGTATCAATACCCCTATG
65 ATACCCTCACCATGGTATCAATACCCATATG
* * * *
6176401 TTATGGTACTGATACCCCATATAGGTATCGATACCCAAATTAGATTCA-ATATTTATTGGTATCG
1 TTAGGGTACCGATACCCCATATAGGTATCGATACCAAAATTAGATT-AGATATATATTGGTATCG
* * *
6176465 ATACTCTTACCATGGTATCGATACCACAT-TG
65 ATACCCTCACCATGGTATCAATACC-CATATG
6176496 CTT-GGGTACCGATA
1 -TTAGGGTACCGATA
6176510 TTGGTTGAAT
Statistics
Matches: 89, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
95 83 0.93
96 6 0.07
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (95 bp):
TTAGGGTACCGATACCCCATATAGGTATCGATACCAAAATTAGATTAGATATATATTGGTATCGA
TACCCTCACCATGGTATCAATACCCATATG
Found at i:6180178 original size:20 final size:21
Alignment explanation
Indices: 6180153--6180199 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
6180143 TGTATGAACA
*
6180153 GTAGCA-GTATCGGTA-CTCCT
1 GTAGCAGGTATCGATATC-CCT
6180173 GTAGCAGGTATCGATATCCCT
1 GTAGCAGGTATCGATATCCCT
6180194 GTAGCA
1 GTAGCA
6180200 TTATGGAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 17 0.71
22 1 0.04
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (21 bp):
GTAGCAGGTATCGATATCCCT
Found at i:6180270 original size:20 final size:20
Alignment explanation
Indices: 6180234--6180276 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6180224 ACTGTTCATC
*
6180234 ACTGTTCAAATAGTATCGAT
1 ACTGTTCAAACAGTATCGAT
* *
6180254 ACTGTTCAAACATTATCGGT
1 ACTGTTCAAACAGTATCGAT
6180274 ACT
1 ACT
6180277 ATTTATACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (20 bp):
ACTGTTCAAACAGTATCGAT
Found at i:6180541 original size:21 final size:19
Alignment explanation
Indices: 6180517--6180574 Score: 82
Period size: 18 Copynumber: 3.0 Consensus size: 19
6180507 ATGTTTAATG
6180517 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
*
6180536 ACAAAAGAGTATCAATTGTT-
1 A-AAAAGA-TACCAATTGTTA
6180556 AAAAAGATACCAATTGTTA
1 AAAAAGATACCAATTGTTA
6180575 CCAATTGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 10 0.29
19 7 0.21
20 7 0.21
21 10 0.29
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (19 bp):
AAAAAGATACCAATTGTTA
Found at i:6183681 original size:21 final size:21
Alignment explanation
Indices: 6183657--6183696 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6183647 AATAGTAGAA
*
6183657 GTATCGATACTCCTGTAGCAG
1 GTATCGATACCCCTGTAGCAG
6183678 GTATCGATACCCCTGTAGC
1 GTATCGATACCCCTGTAGC
6183697 CTTCTGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.28
Consensus pattern (21 bp):
GTATCGATACCCCTGTAGCAG
Found at i:6184690 original size:81 final size:81
Alignment explanation
Indices: 6184550--6184917 Score: 551
Period size: 81 Copynumber: 4.6 Consensus size: 81
6184540 TTAACATTCG
*
6184550 TCTAACTGGCATAATTGACACCTTTCTGCC-ATTGCACAGTTAGGCCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGACATTATTCTTTTACTCAAC
* *
6184614 TGTACTCAACCGTTCA
66 GGTACTTAACCGTTCA
* *
6184630 TCTAACTAGCATAATTGACACCTTTATGCCAATTGCACAGTTAGGACATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGACATTATTCTTTTACTCAAC
*
6184695 GGTACTTAATCGTTCA
66 GGTACTTAACCGTTCA
* *
6184711 TCTAACTGGCATCATTGACACCTTTCTGCCAATTGCACAGTTAGGTCATTATTCTTTTACTCAAC
1 TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGACATTATTCTTTTACTCAAC
*
6184776 GGTACTTAACTGTTCA
66 GGTACTTAACCGTTCA
* * **
6184792 TCTAACTGGCATAATTGACGCATTTCTATCAATTGCACAGTTA-GACCATTATTCTTTTACTCAA
1 TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGA-CATTATTCTTTTACTCAA
*
6184856 CGGTACTTAACAGTTCA
65 CGGTACTTAACCGTTCA
* * * *
6184873 TATAACTAGCATAATTGACACATTTATGCCAATTGCACAGTTAGG
1 TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGG
6184918 CCTCAAAGAC
Statistics
Matches: 260, Mismatches: 25, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
80 29 0.11
81 230 0.88
82 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (81 bp):
TCTAACTGGCATAATTGACACCTTTCTGCCAATTGCACAGTTAGGACATTATTCTTTTACTCAAC
GGTACTTAACCGTTCA
Found at i:6184960 original size:68 final size:68
Alignment explanation
Indices: 6184869--6185054 Score: 257
Period size: 68 Copynumber: 2.7 Consensus size: 68
6184859 TACTTAACAG
* * * * * *
6184869 TTCATATAACTAGCATAATTGACACATTTATGCCA-ATTGCACAGTTAGGCCTCAAAGACACTTA
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATA-TGCACAGTTAGGCCTCAAAGACACTTA
*
6184933 GTCT
65 GCCT
* * * *
6184937 TTCATCTAACTGGCATAAATGACACCTTTCTATCATATGTAAAGTTAGGCCTCAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
6185002 CCT
66 CCT
6185005 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGC
1 TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGC
6185055 ATTTATTCTT
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
68 102 0.99
69 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACCTTTCTGTCATATGCACAGTTAGGCCTCAAAGACACTTAG
CCT
Found at i:6185557 original size:59 final size:58
Alignment explanation
Indices: 6185431--6185599 Score: 223
Period size: 59 Copynumber: 2.9 Consensus size: 58
6185421 TTCTCATAAT
* **
6185431 GAAATTCATGCACTTAGTATGAATTTCTTATCATTTAGCACAC-AAGGTGCCTGATACA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACGAA-GTGCCACATACA
*
6185489 GAAATTCATACACTTAGTATGAATTTCTTATCATATTAGCACACGAAGTGCCACATACG
1 GAAATTCATACACTTAGTATGAATTTCTTATCAT-TTAGCACACGAAGTGCCACATACA
* * * ** *
6185548 GAAATTCATACTCTTGGTATGAATTTCTTAACATTTTTCACATGAAGTGCCA
1 GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACGAAGTGCCA
6185600 TTTGGTAATC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
58 48 0.48
59 49 0.49
60 2 0.02
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (58 bp):
GAAATTCATACACTTAGTATGAATTTCTTATCATTTAGCACACGAAGTGCCACATACA
Found at i:6186042 original size:19 final size:18
Alignment explanation
Indices: 6185971--6186045 Score: 60
Period size: 22 Copynumber: 3.8 Consensus size: 18
6185961 CGATGTATCC
*
6185971 TGGTATCGATACCCTCACCA
1 TGGTATCGATACCC-C-CTA
*
6185991 TCGTATCGATACCCCTATGCTA
1 TGGTATCGATACCCC----CTA
*
6186013 TGGTATTGATACCCCCTA
1 TGGTATCGATACCCCCTA
6186031 TAGGTATCGATACCC
1 T-GGTATCGATACCC
6186046 AAATTAGATT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.09
19 13 0.29
20 13 0.29
22 15 0.33
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (18 bp):
TGGTATCGATACCCCCTA
Found at i:6186086 original size:95 final size:96
Alignment explanation
Indices: 6185919--6186098 Score: 256
Period size: 95 Copynumber: 1.9 Consensus size: 96
6185909 GGCCCTTTGA
* * *
6185919 TATTGATACCCCTGCTTATGGCATCGCTACCAAAATTAGCTTCGATGTATCCTGGTATCGATACC
1 TATTGATACCCC-GCTTATGGCATCGATACCAAAATTAGATTCGATGTATACTGGTATCGATACC
6185984 CTCACCATCGTATCGATACCCCTATGCTATGG
65 CTCACCATCGTATCGATACCCCTATGCTATGG
* * *
6186016 TATTGATACCCC-C-TATAGGTATCGATACCCAAATTAGATTCGATGTTTACTGGTATCGATACC
1 TATTGATACCCCGCTTAT-GGCATCGATACCAAAATTAGATTCGATGTATACTGGTATCGATACC
* *
6186079 CTTACCATGGTATCGATACC
65 CTCACCATCGTATCGATACC
6186099 ACATTGCTTG
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
94 3 0.04
95 59 0.80
97 12 0.16
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.32
Consensus pattern (96 bp):
TATTGATACCCCGCTTATGGCATCGATACCAAAATTAGATTCGATGTATACTGGTATCGATACCC
TCACCATCGTATCGATACCCCTATGCTATGG
Found at i:6186119 original size:95 final size:95
Alignment explanation
Indices: 6185941--6186119 Score: 236
Period size: 95 Copynumber: 1.9 Consensus size: 95
6185931 TGCTTATGGC
* * * *
6185941 ATCGCTACCAAAATTAGCTTCGATGTATCCTGGTATCGATACCCTCACCATCGTATCGATACCCC
1 ATCGATACCAAAATTAGATTCGATGTATACTGGTATCGATACCCTCACCATCGTATCGATACCCA
**
6186006 TATGCTATGGTATTGATACCCCCTATAGGT
66 TATGCTATGGTACCGATACCCCCTATAGGT
* * * *
6186036 ATCGATACCCAAATTAGATTCGATGTTTACTGGTATCGATACCCTTACCATGGTATCGATACCAC
1 ATCGATACCAAAATTAGATTCGATGTATACTGGTATCGATACCCTCACCATCGTATCGATACC-C
6186101 AT-TGCT-TGGGTACCGATAC
65 ATATGCTAT-GGTACCGATAC
6186120 TGGTTGAATC
Statistics
Matches: 72, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
94 1 0.01
95 69 0.96
96 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (95 bp):
ATCGATACCAAAATTAGATTCGATGTATACTGGTATCGATACCCTCACCATCGTATCGATACCCA
TATGCTATGGTACCGATACCCCCTATAGGT
Found at i:6187004 original size:38 final size:38
Alignment explanation
Indices: 6186931--6187158 Score: 199
Period size: 38 Copynumber: 5.8 Consensus size: 38
6186921 GGGTATTACA
* * * *
6186931 GACTCCCTCATGAAGAGGAGTCAATCTTTGATATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* * *
6186969 GAATTCCTCGTGAAGAGAAGTCGATATTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
*
6187007 GACTTCCTCGTGAAGAGAAGTTAATCTTTGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
* *
6187045 GACTCCCTCGTGAAGAGGAGTC-ATCTTTCAATGTTATTCTT
1 GACTTCCTCGTGAAGAGAAGTCAATC-TT---TGTTATTCTT
* * * * *
6187086 AACTTTCTCGTG-ACAGAAGTTAATCTTTCAGTATTGCCATTCCT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTT--G--TT---ATTCTT
*
6187130 GACTTTCTCGTGAAGAGAAGTCAATCTTT
1 GACTTCCTCGTGAAGAGAAGTCAATCTTT
6187159 TGGTGTTGTC
Statistics
Matches: 153, Mismatches: 24, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
37 4 0.03
38 86 0.56
39 1 0.01
40 8 0.05
41 24 0.16
44 16 0.10
45 14 0.09
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (38 bp):
GACTTCCTCGTGAAGAGAAGTCAATCTTTGTTATTCTT
Found at i:6187157 original size:45 final size:45
Alignment explanation
Indices: 6187087--6187187 Score: 125
Period size: 45 Copynumber: 2.3 Consensus size: 45
6187077 GTTATTCTTA
*
6187087 ACTTTCTCGTG-ACAGAAGTTAATCTTTCAGTATTGCCATTCC-TG
1 ACTTTCTCGTGAACAGAAGTCAATCTTTCAGTATTGCC-TTCCTTG
* ** * *
6187131 ACTTTCTCGTGAAGAGAAGTCAATCTTTTGGTGTTGTCTTCCTTG
1 ACTTTCTCGTGAACAGAAGTCAATCTTTCAGTATTGCCTTCCTTG
6187176 ACTTTCTCGTGA
1 ACTTTCTCGTGA
6187188 GGAAGAGTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
44 15 0.31
45 34 0.69
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.41
Consensus pattern (45 bp):
ACTTTCTCGTGAACAGAAGTCAATCTTTCAGTATTGCCTTCCTTG
Found at i:6187197 original size:45 final size:45
Alignment explanation
Indices: 6187125--6187379 Score: 213
Period size: 45 Copynumber: 5.8 Consensus size: 45
6187115 AGTATTGCCA
*
6187125 TTCC-TGACTTTCTCGTGAAGAGAAGTCAATCTTTTGGTGTTGTC
1 TTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTGGTGTTGTC
* * * *
6187169 TTCCTTGACTTTCTCGTGAGGAAGAGTCAAT-ATTTAGTGTTG--
1 TTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTGGTGTTGTC
* * * * * *
6187211 -TCCTTAACTTTTTCGCGAAGAGGAGTCAATCATTCGATGTTGTC
1 TTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTGGTGTTGTC
** * * *
6187255 TTTATTGACTTTCTTGTGAAGAGGAGTCAA-CATTTTAGTGTTTTTC
1 TTCCTTGACTTTCTCGTGAAGAGGAGTCAATC-TTTTGGTG-TTGTC
* * *
6187301 TT-ATTGACTTTCTCGTGAAGAGGAGTCAATCTTTTGATGTTGTT
1 TTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTGGTGTTGTC
** * *
6187345 TTTTTTTATTTTCTCGCTG-AGAGGAGTCAA-CTTTT
1 TTCCTTGACTTTCTCG-TGAAGAGGAGTCAATCTTTT
6187380 CAGTAGTATC
Statistics
Matches: 169, Mismatches: 32, Indels: 20
0.76 0.14 0.09
Matches are distributed among these distances:
41 25 0.15
42 8 0.05
44 24 0.14
45 103 0.61
46 9 0.05
ACGTcount: A:0.20, C:0.15, G:0.21, T:0.44
Consensus pattern (45 bp):
TTCCTTGACTTTCTCGTGAAGAGGAGTCAATCTTTTGGTGTTGTC
Found at i:6187231 original size:86 final size:88
Alignment explanation
Indices: 6187131--6187343 Score: 268
Period size: 86 Copynumber: 2.4 Consensus size: 88
6187121 GCCATTCCTG
* * * *
6187131 ACTTTCTCGTGAAGAGAAGTCAATCTTTTGGTGTTGTCTTCCTTGACTTTCTCGTGAGGAAGAGT
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTGATGTTGTCTTCATTGACTTTCTCGTGAAGAAGAGT
*
6187196 CAATA-TTTAGTGTTGTCCTTA-
66 CAACATTTTAGTGTTGTCCTTAT
* * * * * * *
6187217 ACTTTTTCGCGAAGAGGAGTCAATCATTCGATGTTGTCTTTATTGACTTTCTTGTGAAGAGGAGT
1 ACTTTCTCGTGAAGAGGAGTCAATCTTTTGATGTTGTCTTCATTGACTTTCTCGTGAAGAAGAGT
* *
6187282 CAACATTTTAGTGTTTTTCTTATT
66 CAACATTTTAGTGTTGTCCTTA-T
6187306 GACTTTCTCGTGAAGAGGAGTCAATCTTTTGATGTTGT
1 -ACTTTCTCGTGAAGAGGAGTCAATCTTTTGATGTTGT
6187344 TTTTTTTTAT
Statistics
Matches: 105, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
86 58 0.55
87 14 0.13
90 33 0.31
ACGTcount: A:0.22, C:0.15, G:0.22, T:0.42
Consensus pattern (88 bp):
ACTTTCTCGTGAAGAGGAGTCAATCTTTTGATGTTGTCTTCATTGACTTTCTCGTGAAGAAGAGT
CAACATTTTAGTGTTGTCCTTAT
Found at i:6188142 original size:134 final size:134
Alignment explanation
Indices: 6187910--6188636 Score: 983
Period size: 134 Copynumber: 5.4 Consensus size: 134
6187900 TTAGATTCGA
* * * ** ** *
6187910 TCTTCTTGAAGA-CAAGAGAAGCAAATCAAATTTAATTCAATCTTCCCTGAAGAGA-AGTGAAGT
1 TCTTCCTGAAGAGC-AGCGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGA-ACAGCGAAGT
* *
6187973 GGATCAAAATTTTCTCGAGTCTGATTTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAG
64 GGATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTCTTTCAG
6188038 ATTTGG
129 ATTTGG
* * *
6188044 TCTTTCTGAAGAGCAACGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGAACATCGAAGTGG
1 TCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGAACAGCGAAGTGG
* * *
6188109 ATCAAAATTTTCTCGAGTCTGACCTCCCCTAAAGAGTAGTGGAGCAGATTCTTCTTCTTTCAAAT
66 ATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTCTTTCAGAT
6188174 TTGG
131 TTGG
* * * * * * * *
6188178 TATTCCTGAAGAACAACAAAGAAAATCAAGTTCGATCCAGCCTTCCCTGAAGAGCAACGAAGTGG
1 TCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGAACAGCGAAGTGG
* * *
6188243 ATCAAAATTTTCTCGAGTCTGATATCCCCTAAAGAGTAGTGGAACATATTCTTCTTCTTTCATAT
66 ATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTCTTTCAGAT
6188308 TTGG
131 TTGG
* * *
6188312 TCTTCCTGAAGAGCAGCGAAGAAAATCATGTTCGATTCAGCCTTCCCTGAAGAGCAGCGAAGTGG
1 TCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGAACAGCGAAGTGG
* * *
6188377 ATCAAAATTTTCTCGAGTCTGACCTCCCATAAAGAGTAGTGGAACAAATTCTTCTTCTTTCAGAT
66 ATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTCTTTCAGAT
6188442 TTGG
131 TTGG
* * * *
6188446 TCTTCCTGAAGTGCAGCGAAGCAAATCAAGTTCGATTTAGCCTTCCTTGAAGAGCAGCGAAGTGG
1 TCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGAACAGCGAAGTGG
* * * * *
6188511 ATCATAGTTTTCTCGAGTCTGATCTCCCTTAAAAAGTAGTGGAACATATTCTTCTTCTTTCAGAT
66 ATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTCTTTCAGAT
6188576 TTGG
131 TTGG
* * * **
6188580 TCTTCCTGAAGAGTAGTGAAGCAAATCGA-TTCCGATTCAATCTTCCCTGAAGAACAG
1 TCTTCCTGAAGAGCAGCGAAGCAAATCAAGTT-CGATTCAGCCTTCCCTGAAGAACAG
6188637 TGGAATGAAT
Statistics
Matches: 531, Mismatches: 59, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
133 3 0.01
134 527 0.99
135 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (134 bp):
TCTTCCTGAAGAGCAGCGAAGCAAATCAAGTTCGATTCAGCCTTCCCTGAAGAACAGCGAAGTGG
ATCAAAATTTTCTCGAGTCTGATCTCCCCTAAAGAGTAGTGGAACAGATTCTTCTTCTTTCAGAT
TTGG
Found at i:6188835 original size:3 final size:3
Alignment explanation
Indices: 6188827--6188888 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
6188817 TTGGAGACCC
6188827 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
6188875 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
6188889 CAACGTTTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:6205579 original size:25 final size:25
Alignment explanation
Indices: 6205542--6205589 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
6205532 CAACTAAACT
**
6205542 TTAAACCCCAAATCTTAATCAAATA
1 TTAAACCCCAAATCAAAATCAAATA
**
6205567 TTAAACCTTAAATCAAAATCAAA
1 TTAAACCCCAAATCAAAATCAAA
6205590 CCCTAAAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (25 bp):
TTAAACCCCAAATCAAAATCAAATA
Found at i:6205590 original size:18 final size:19
Alignment explanation
Indices: 6205558--6205596 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
6205548 CCCAAATCTT
* *
6205558 AATCAAATATTAAACCTTA
1 AATCAAATATCAAACCCTA
6205577 AATCAAA-ATCAAACCCTA
1 AATCAAATATCAAACCCTA
6205595 AA
1 AA
6205597 ATCCATAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.56, C:0.21, G:0.00, T:0.23
Consensus pattern (19 bp):
AATCAAATATCAAACCCTA
Found at i:6205598 original size:19 final size:19
Alignment explanation
Indices: 6205558--6205599 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
6205548 CCCAAATCTT
* *
6205558 AATCAAATATTAAACCTTA
1 AATCAAATATCAAACCTAA
6205577 AATCAAA-ATCAAACCCTAA
1 AATCAAATATCAAA-CCTAA
6205596 AATC
1 AATC
6205600 CATAACCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.55, C:0.21, G:0.00, T:0.24
Consensus pattern (19 bp):
AATCAAATATCAAACCTAA
Found at i:6214793 original size:43 final size:43
Alignment explanation
Indices: 6214569--6215112 Score: 430
Period size: 43 Copynumber: 12.8 Consensus size: 43
6214559 TTAATAACCC
* *
6214569 CACTTTTTAACTTTATAATTG-GGTCCCTAATTTTTTCAATCT
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* * * * * *
6214611 CACTTGTTA-CATT-TAATTGAAGCTCTTATTTTTTTCAATCAT
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATC-T
* * * * * *
6214653 -ACTTTTTACTTTTCTAATTGAGGTCCAT-AGTTTTTCTATCT
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* * * * * **
6214694 CTCTTTCTACCTTTATAATTAAAGACTATAA-TTTTT-AATCT
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* * *
6214735 CAGTTTTTACATTTATATTTGAGGCCCCTAATTTTGTTCAAT-T
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTT-TTCAATCT
* * *
6214778 CACTTTTTATCTTTATATTTGAGGCCCCTAATTTTGTTTAATCT
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTT-TTCAATCT
* * * * *
6214822 CA-TTTTATACCTTTATAATTAAAGCCTCTATTTTTTTTAATCT
1 CACTTTT-TACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* * * * *
6214865 CACATTTTACCTTTATAATTAACGCTCCTAA-ATTTTCAATC-
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* ** * *
6214906 CAACCTTTTATTTTTATAATTGAAGCTCCTAATTTTTTTCAATCT
1 C-ACTTTTTACCTTTATAATTGAGGCCCCTAA-TTTTTTCAATCT
* * * *
6214951 TACTTTTTACTTTTATAAGTGAGACCCCTAA-TTTTTCAATCT
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* * * * *
6214993 TATTTTTTACCTTTATAATTGAGGGCTCTAATTTTTTCAATCC
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* * *
6215036 CACTTTTTACCTTTATAATTGAGACCCTTATTTTTTTCAATC-
1 CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
* *
6215078 CTACTTTTTATCTTTCTAATTGAGGCCCCTAATTT
1 C-ACTTTTTACCTTTATAATTGAGGCCCCTAATTT
6215113 CTCTCTCTCT
Statistics
Matches: 399, Mismatches: 85, Indels: 35
0.77 0.16 0.07
Matches are distributed among these distances:
40 6 0.02
41 52 0.13
42 118 0.30
43 159 0.40
44 64 0.16
ACGTcount: A:0.25, C:0.19, G:0.07, T:0.50
Consensus pattern (43 bp):
CACTTTTTACCTTTATAATTGAGGCCCCTAATTTTTTCAATCT
Found at i:6215463 original size:43 final size:43
Alignment explanation
Indices: 6215350--6215738 Score: 316
Period size: 43 Copynumber: 9.1 Consensus size: 43
6215340 AAGCATGAAG
* * *
6215350 TTTTTT-AATCTTATTTTTTACCTTTATATTTGTAA--CTCCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTG-AAGCCT-CTAA
* *
6215392 TTTTTTTAAATCTCACTTTTTACTTTTATAATTGAAGCCTCTAA
1 -TTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCTCTAA
* *
6215436 TTATTTT-AATCTCACTTTTTACATTTATAATT-AA-CGATCCTAA
1 TT-TTTTCAATCTCACTTTTTACCTTTATAATTGAAGC-CT-CTAA
* * * * *
6215479 ATTTTTCAATCCCATTTTTTACTTTTATAATT-AAACCTCCTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCT-CTAA
* * * *
6215522 TTTTTTCAATATCTCTTTTTACTTTTATAAGTGAGAGCC-CTAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGA-AGCCTCTAA
* * * * *
6215565 TTTTTTCAATCTTACTTTTTACCTTTATAGTTGAGGCCCCAAA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCTCTAA
* * * *
6215608 ATTTTTCAATCCCA-TATATTACCTTTATAATTG-AGGCTCCTAA
1 TTTTTTCAATCTCACT-TTTTACCTTTATAATTGAAGCCT-CTAA
* *
6215651 TTTTTTCAATCTCACTTTCTACCTTTATAATTGAAGCC-CTTA
1 TTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCTCTAA
* * * *
6215693 TTTTTTCAAT-TAAACTTTTTACTTTTATAATTAAAGCCCCTAA
1 TTTTTTCAATCT-CACTTTTTACCTTTATAATTGAAGCCTCTAA
6215736 TTT
1 TTT
6215739 AATAATTTTT
Statistics
Matches: 283, Mismatches: 46, Indels: 34
0.78 0.13 0.09
Matches are distributed among these distances:
41 2 0.01
42 48 0.17
43 192 0.68
44 36 0.13
45 5 0.02
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.50
Consensus pattern (43 bp):
TTTTTTCAATCTCACTTTTTACCTTTATAATTGAAGCCTCTAA
Found at i:6215565 original size:129 final size:127
Alignment explanation
Indices: 6215362--6215726 Score: 412
Period size: 129 Copynumber: 2.8 Consensus size: 127
6215352 TTTTAATCTT
* * *
6215362 ATTTTTTACCTTTATATTTGTAACTCCTAATTTTTTTAA-ATCTCACTTTTTACTTTTATAATTG
1 ATTTTTTACCTTTATAATT-AAACTCCTAATTTTTTCAATATCT--CTTTTTACTTTTATAATTG
* * *
6215426 AAGCCTCTAATTATTTT-AATCTCACTTTTTACATTTATAATTAACGATCCTAAATTTTTCAATC
63 AAGCC-CTAATT-TTTTCAATCTAACTTTTTACATTTATAATTAACGACCCAAAATTTTTCAATC
6215490 CC
126 CC
* *
6215492 ATTTTTTACTTTTATAATTAAACCTCCTAATTTTTTCAATATCTCTTTTTACTTTTATAAGTGAG
1 ATTTTTTACCTTTATAATTAAA-CTCCTAATTTTTTCAATATCTCTTTTTACTTTTATAATTGA-
* * * * * *
6215557 AGCCCTAATTTTTTCAATCTTACTTTTTACCTTTATAGTTGAGGCCCCAAAATTTTTCAATCCC
64 AGCCCTAATTTTTTCAATCTAACTTTTTACATTTATAATTAACGACCCAAAATTTTTCAATCCC
* * ** * * * *
6215621 ATATATTACCTTTATAATTGAGGCTCCTAATTTTTTCAATCTCACTTTCTACCTTTATAATTGAA
1 ATTTTTTACCTTTATAATT-AAACTCCTAATTTTTTCAATATCTCTTTTTACTTTTATAATTGAA
* *
6215686 GCCCTTATTTTTTCAAT-TAAACTTTTTACTTTTATAATTAA
65 GCCCTAATTTTTTCAATCT-AACTTTTTACATTTATAATTAA
6215727 AGCCCCTAAT
Statistics
Matches: 201, Mismatches: 28, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
127 1 0.00
128 39 0.19
129 120 0.60
130 37 0.18
131 4 0.02
ACGTcount: A:0.28, C:0.18, G:0.05, T:0.49
Consensus pattern (127 bp):
ATTTTTTACCTTTATAATTAAACTCCTAATTTTTTCAATATCTCTTTTTACTTTTATAATTGAAG
CCCTAATTTTTTCAATCTAACTTTTTACATTTATAATTAACGACCCAAAATTTTTCAATCCC
Found at i:6216560 original size:2 final size:2
Alignment explanation
Indices: 6216553--6216580 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6216543 CTCAAAGTTA
6216553 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
6216581 TGAATTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6218406 original size:26 final size:24
Alignment explanation
Indices: 6218361--6218408 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
6218351 TATTATAATT
* *
6218361 AATAATATTTTATTATTTATTAAA
1 AATAATATATTATTACTTATTAAA
6218385 AATAATATATTAGTTAACTTATTA
1 AATAATATATTA-TT-ACTTATTA
6218409 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 2 0.10
26 7 0.35
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AATAATATATTATTACTTATTAAA
Found at i:6221638 original size:2 final size:2
Alignment explanation
Indices: 6221631--6221657 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6221621 CCTTTTGAGT
6221631 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
6221658 GTATCTCTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:6222078 original size:140 final size:140
Alignment explanation
Indices: 6221767--6222295 Score: 453
Period size: 140 Copynumber: 3.8 Consensus size: 140
6221757 CTGAAATTAG
* * * *
6221767 TTATGATTAGGTGTTCTCGTACCAGTCACTTTAAT-CTTTCGTGGCTCCCATATGAGTCACTCAA
1 TTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCCTTTCG-GGCTCCCATACGAGTCACTCAA
* ** * * * * *
6221831 AATTAATTATGATTAGGTATC-CCGTACGAGTCACTCAAATCCTTCA-GGCTCCCGTATGAGTCA
65 AATTAATTATGATTAGGTTTCTCATTATGAGTCACTCTAATCTTTCAGGGCTTCTGTATGAGTCA
6221894 -TCCGA-AAATAA
130 CT-C-ATAAATAA
* * * * *
6221905 TTATGATTAGGTGCTCCCGTACAAATCACTCTAACCCTTT-GGAGCTCCCGTACGAGTCACTCAA
1 TTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCCTTTCGG-GCTCCCATACGAGTCACTCAA
* *
6221969 AACTAATTATGATTAGGTTTTCTCATTA-GAGTCACTCTAATCTTTCAGGGCTTCTGTATGTGTC
65 AATTAATTATGATTAGG-TTTCTCATTATGAGTCACTCTAATCTTTCAGGGCTTCTGTATGAGTC
*
6222033 ACTCATAAATAG
129 ACTCATAAATAA
* * * *
6222045 TTATGATTAGGTTCTCTCGTACGAGTAACTCTAATCCTTTGGGGGATCCCATACGAGTCACAT-A
1 TTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCCTTT-CGGGCTCCCATACGAGTCAC-TCA
* * * * * * * *
6222109 GAATTAATTATGATTAAG-TGCACCTGTATGAGTCATTCTAATCCTTT-AGGG-ATCTTGTACGA
64 AAATTAATTATGATTAGGTTTCTCAT-TATGAGTCACTCTAAT-CTTTCAGGGCTTC-TGTATGA
6222171 GTCAC-C-TAGAATTAA
126 GTCACTCATA-AA-TAA
* * * *
6222186 TTATGATTAGGTGCTCTCGAACGAGTCATTCTAATCC-TTCGGGACTCCCGTACGAGTCACCCAT
1 TTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCCTTTCGGG-CTCCCATACGAGTCACTCA-
*
6222250 AAA-TAATTATGATTA-ATTGCTCTCA-TATGAGTCACTCTAATTCTTT
64 AAATTAATTATGATTAGGTT--TCTCATTATGAGTCACTCTAA-TCTTT
6222296 GTGGCTTCCG
Statistics
Matches: 317, Mismatches: 51, Indels: 44
0.77 0.12 0.11
Matches are distributed among these distances:
137 1 0.00
138 65 0.21
139 34 0.11
140 112 0.35
141 96 0.30
142 9 0.03
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (140 bp):
TTATGATTAGGTGCTCTCGTACGAGTCACTCTAATCCTTTCGGGCTCCCATACGAGTCACTCAAA
ATTAATTATGATTAGGTTTCTCATTATGAGTCACTCTAATCTTTCAGGGCTTCTGTATGAGTCAC
TCATAAATAA
Found at i:6222221 original size:211 final size:210
Alignment explanation
Indices: 6221745--6222296 Score: 527
Period size: 211 Copynumber: 2.6 Consensus size: 210
6221735 TTGGGGCTCA
* * *
6221745 CGTACGAGTCACCT-GAAATTAGTTATGATTAGGTGTTCTCGTACCAGTCACTT-TAATCTTTCG
1 CGTACGAGTCACCTAG-AATTAATTATGATTAGGTGTTCTCGAACGAGTCA-TTCTAATCTTTCG
* *
6221808 TGGCTCCCATATGAGTCACTCA-AAATTAATTATGATTAGGTATC-C-CGTACGAGTCACTCAAA
64 -GGCTCCCGTATGAGTCACTCATAAA-TAATTATGATTAGGT-TCTCTCGTACGAGTCACTCTAA
* * * * * *
6221870 TCC-TT-CAGGCTCCCGTATGAGTCATCCGAAAATAATTATGATTAGGTGCTCCCGTACAAATCA
126 TCCTTTGCAGGATCCCATACGAGTCATCAGAAAATAATTATGATTAAGTGCACCCGTACAAATCA
*
6221933 CTCTAACCCTTTGGAGCTCC
191 CTCTAACCCTTTGGAGATCC
* * * *
6221953 CGTACGAGTCA-CTCAAAACTAATTATGATTAGGTTTTCTC-ATTA-GAGTCACTCTAATCTTTC
1 CGTACGAGTCACCT-AGAATTAATTATGATTAGGTGTTCTCGA--ACGAGTCATTCTAATCTTTC
* * * * *
6222015 AGGGCTTCTGTATGTGTCACTCATAAATAGTTATGATTAGGTTCTCTCGTACGAGTAACTCTAAT
63 -GGGCTCCCGTATGAGTCACTCATAAATAATTATGATTAGGTTCTCTCGTACGAGTCACTCTAAT
** * * * ** *
6222080 CCTTTGGGGGATCCCATACGAGTCA-CATAGAATTAATTATGATTAAGTGCACCTGTATGAGTCA
127 CCTTTGCAGGATCCCATACGAGTCATCAGA-AAATAATTATGATTAAGTGCACCCGTACAAATCA
* * *
6222144 TTCTAATCCTTTAGG-GATCT
191 CTCTAACCCTTT-GGAGATCC
* * *
6222164 TGTACGAGTCACCTAGAATTAATTATGATTAGGTGCTCTCGAACGAGTCATTCTAATCCTTCGGG
1 CGTACGAGTCACCTAGAATTAATTATGATTAGGTGTTCTCGAACGAGTCATTCTAATCTTTCGGG
* * * * * *
6222229 ACTCCCGTACGAGTCACCCATAAATAATTATGATTA-ATTGCTCTCATATGAGTCACTCTAATTC
66 -CTCCCGTATGAGTCACTCATAAATAATTATGATTAGGTT-CTCTCGTACGAGTCACTCTAATCC
6222293 TTTG
129 TTTG
6222297 TGGCTTCCGT
Statistics
Matches: 276, Mismatches: 50, Indels: 33
0.77 0.14 0.09
Matches are distributed among these distances:
207 5 0.02
208 78 0.28
209 23 0.08
210 10 0.04
211 155 0.56
212 5 0.02
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (210 bp):
CGTACGAGTCACCTAGAATTAATTATGATTAGGTGTTCTCGAACGAGTCATTCTAATCTTTCGGG
CTCCCGTATGAGTCACTCATAAATAATTATGATTAGGTTCTCTCGTACGAGTCACTCTAATCCTT
TGCAGGATCCCATACGAGTCATCAGAAAATAATTATGATTAAGTGCACCCGTACAAATCACTCTA
ACCCTTTGGAGATCC
Found at i:6222307 original size:70 final size:70
Alignment explanation
Indices: 6221733--6222316 Score: 392
Period size: 70 Copynumber: 8.4 Consensus size: 70
6221723 CACTCAATTA
* * * * * *
6221733 CTTTGGGGCTCACGTACGAGTCA-CC-TGAAATTAGTTATGATTAGGTGTTCTCGTACCAGTCAC
1 CTTTAGGGCTCCCGTACGAGTCACCCAT-AAA-TAATTATGATTAGGTGCTCTCATACGAGTCAC
*
6221796 TTTAAT-
64 TCTAATC
* * * * * * *
6221802 CTTTCGTGGCTCCCATATGAGTCACTCA-AAATTAATTATGATTAGGT-ATCCCGTACGAGTCAC
1 CTTTAG-GGCTCCCGTACGAGTCACCCATAAA-TAATTATGATTAGGTGCTCTCATACGAGTCAC
*
6221865 TCAAATC
64 TCTAATC
* * * * * * *
6221872 CTTCA-GGCTCCCGTATGAGTCATCCGA-AAATAATTATGATTAGGTGCTCCCGTACAAATCACT
1 CTTTAGGGCTCCCGTACGAGTCA-CCCATAAATAATTATGATTAGGTGCTCTCATACGAGTCACT
*
6221935 CTAACC
65 CTAATC
* **
6221941 CTTT-GGAGCTCCCGTACGAGTCACTCA-AAACTAATTATGATTAGGTTTTCTCATTA-GAGTCA
1 CTTTAGG-GCTCCCGTACGAGTCACCCATAAA-TAATTATGATTAGGTGCTCTCA-TACGAGTCA
6222003 CTCTAAT-
63 CTCTAATC
* * * * * * * * *
6222010 CTTTCAGGGCTTCTGTATGTGTCACTCATAAATAGTTATGATTAGGTTCTCTCGTACGAGTAACT
1 CTTT-AGGGCTCCCGTACGAGTCACCCATAAATAATTATGATTAGGTGCTCTCATACGAGTCACT
6222075 CTAATC
65 CTAATC
* * * * * * *
6222081 CTTTGGGGGATCCCATACGAGTCA--CATAGAATTAATTATGATTAAGTGCAC-CTGTATGAGTC
1 CTTT-AGGGCTCCCGTACGAGTCACCCATA-AA-TAATTATGATTAGGTGCTCTC-ATACGAGTC
*
6222143 ATTCTAATC
62 ACTCTAATC
* ** * * * *
6222152 CTTTAGGGATCTTGTACGAGTCACCTAGAATTAATTATGATTAGGTGCTCTCGA-ACGAGTCATT
1 CTTTAGGGCTCCCGTACGAGTCACCCATAAATAATTATGATTAGGTGCTCTC-ATACGAGTCACT
6222216 CTAATC
65 CTAATC
* ** *
6222222 C-TTCGGGACTCCCGTACGAGTCACCCATAAATAATTATGATTAATTGCTCTCATATGAGTCACT
1 CTTTAGGG-CTCCCGTACGAGTCACCCATAAATAATTATGATTAGGTGCTCTCATACGAGTCACT
*
6222286 CTAATT
65 CTAATC
* *
6222292 CTTT-GTGGCTTCCGTACGTGTCACC
1 CTTTAG-GGCTCCCGTACGAGTCACC
6222317 TGAAATTAAA
Statistics
Matches: 409, Mismatches: 81, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
68 31 0.08
69 70 0.17
70 242 0.59
71 64 0.16
72 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.33
Consensus pattern (70 bp):
CTTTAGGGCTCCCGTACGAGTCACCCATAAATAATTATGATTAGGTGCTCTCATACGAGTCACTC
TAATC
Found at i:6222309 original size:140 final size:138
Alignment explanation
Indices: 6221722--6222325 Score: 450
Period size: 140 Copynumber: 4.3 Consensus size: 138
6221712 ATTTTCAAGT
* *
6221722 TCACTC-AATTACTTTGGGGC-TCACGTACGAGTCACCT-GAAATTAGTTATGATTAGGTGTTCT
1 TCACTCTAATT-CTTT-GGGCTTC-CGTACGAGTCACCTAG-AATTAATTATGATTAGGTGCTCT
* * * * *
6221784 CGTACCAGTCACTTTAATCTTTCGTGG-CTCCCATATGAGTCACTCAAAATTAATTATGATTAGG
62 CGTACGAGTCACTCTAATCCTTCG-GGACTCCCATACGAGTCACTCAAAATTAATTATGATTAAG
* * * *
6221848 TATCCCGTACGAG
126 TCTCTCATATGAG
* * ** * * * * *
6221861 TCACTCAAATCCTTCAGGCTCCCGTATGAGTCATCCGA-AAATAATTATGATTAGGTGCTCCCGT
1 TCACTCTAATTCTTTGGGCTTCCGTACGAGTCA-CCTAGAATTAATTATGATTAGGTGCTCTCGT
* * * * * * * *
6221925 ACAAATCACTCTAACCCTT-TGGAGCTCCCGTACGAGTCACTCAAAACTAATTATGATTAGGTTT
65 ACGAGTCACTCTAATCCTTCGGGA-CTCCCATACGAGTCACTCAAAATTAATTATGATTAAG-TC
6221989 TCTCAT-TAGAG
128 TCTCATAT-GAG
* * * * *
6222000 TCACTCTAA-TCTTTCAGGGCTTCTGTATGTGTCACTCATA-AA-TAGTTATGATTAGGTTCTCT
1 TCACTCTAATTCTTT--GGGCTTCCGTACGAGTCAC-C-TAGAATTAATTATGATTAGGTGCTCT
* * *
6222062 CGTACGAGTAACTCTAATCCTTTGGGGGA-TCCCATACGAGTCACAT-AGAATTAATTATGATTA
62 CGTACGAGTCACTCTAATCC-TT-CGGGACTCCCATACGAGTCAC-TCAAAATTAATTATGATTA
* *
6222125 AGTGCAC-CTGTATGAG
124 AGT-CTCTC-ATATGAG
* *
6222141 TCATTCTAATCCTTTAGGGATCTT--GTACGAGTCACCTAGAATTAATTATGATTAGGTGCTCTC
1 TCACTCTAATTCTTT-GGG--CTTCCGTACGAGTCACCTAGAATTAATTATGATTAGGTGCTCTC
* * * * *
6222204 GAACGAGTCATTCTAATCCTTCGGGACTCCCGTACGAGTCACCCATAAA-TAATTATGATTAATT
63 GTACGAGTCACTCTAATCCTTCGGGACTCCCATACGAGTCACTCA-AAATTAATTATGATTAAGT
6222268 GCTCTCATATGAG
127 -CTCTCATATGAG
*
6222281 TCACTCTAATTCTTTGTGGCTTCCGTACGTGTCACCT-GAAATTAA
1 TCACTCTAATTCTTTG-GGCTTCCGTACGAGTCACCTAG-AATTAA
6222326 AATGATTTTA
Statistics
Matches: 368, Mismatches: 65, Indels: 63
0.74 0.13 0.13
Matches are distributed among these distances:
136 2 0.01
138 89 0.24
139 37 0.10
140 129 0.35
141 99 0.27
142 6 0.02
143 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (138 bp):
TCACTCTAATTCTTTGGGCTTCCGTACGAGTCACCTAGAATTAATTATGATTAGGTGCTCTCGTA
CGAGTCACTCTAATCCTTCGGGACTCCCATACGAGTCACTCAAAATTAATTATGATTAAGTCTCT
CATATGAG
Found at i:6222315 original size:281 final size:277
Alignment explanation
Indices: 6221722--6222324 Score: 647
Period size: 281 Copynumber: 2.2 Consensus size: 277
6221712 ATTTTCAAGT
*
6221722 TCACTC-AATTACTTTGGGGC-TCACGTACGAGTCACCTGAAATTAGTTATGATTAGGTGTTCTC
1 TCACTCTAATT-CTTT-GGGCTTC-CGTACGTGTCACCTGAAATTAGTTATGATTAGGTGTTCTC
* * * * * *
6221785 GTACCAGTCACTTTAATCTTTCGTGGCTCCCATATGAGTCACTCAAAATTAATTATGATTAGGTA
63 GTACCAGTAACTCTAATCTTTCGGGGATCCCATACGAGTCACTCAAAATTAATTATGATTAGGCA
* *
6221850 TCCCGTACGAGTCACTCAAATCCTTCAGGCTCCCGTATGAGTCATCCGAAAATAATTATGATTAG
128 TCCCGTACGAGTCACTCAAATCCTTCAGGATCCCGTACGAGTCATCCGAAAATAATTATGATTAG
* * *
6221915 GTGCTCCCGTACAAATCACTCTAACCCTTTGGAGCTCCCGTACGAGTCACTCAAAACTAATTATG
193 GTGCTCCCGAACAAATCACTCTAACCCTTGGGAGCTCCCGTACGAGTCACCCAAAACTAATTATG
* *
6221980 ATTAGGTTTTCTCATTAGAG
258 ATTAGATTCTCTCATTAGAG
* *
6222000 TCACTCTAA-TCTTTCAGGGCTTCTGTATGTGTCACTCAT-AAA-TAGTTATGATTAGGT-TCTC
1 TCACTCTAATTCTTT--GGGCTTCCGTACGTGTCAC-C-TGAAATTAGTTATGATTAGGTGT-TC
* * *
6222061 TCGTACGAGTAACTCTAATCCTTTGGGGGATCCCATACGAGTCACAT-AGAATTAATTATGATTA
61 TCGTACCAGTAACTCTAAT-CTTTCGGGGATCCCATACGAGTCAC-TCAAAATTAATTATGATT-
* * * * * ** * *
6222125 AGTGCA-CCTGTATGAGTCATTCTAATCCTTTAGGGATCTTGTACGAGTCA-CCTAGAATTAATT
123 AG-GCATCCCGTACGAGTCACTCAAATCCTTCA-GGATCCCGTACGAGTCATCCGA-AAATAATT
* * * * *
6222188 ATGATTAGGTGCTCTCGAACGAGTCATTCTAATCCTTCGGGA-CTCCCGTACGAGTCACCCATAA
185 ATGATTAGGTGCTCCCGAACAAATCACTCTAACCCTT-GGGAGCTCCCGTACGAGTCACCCA-AA
6222252 A-TAATTATGATTA-ATTGCTCTCA-TATGAG
248 ACTAATTATGATTAGATT-CTCTCATTA-GAG
6222281 TCACTCTAATTCTTTGTGGCTTCCGTACGTGTCACCTGAAATTA
1 TCACTCTAATTCTTTG-GGCTTCCGTACGTGTCACCTGAAATTA
6222325 AAATGATTTT
Statistics
Matches: 269, Mismatches: 36, Indels: 37
0.79 0.11 0.11
Matches are distributed among these distances:
277 5 0.02
278 53 0.20
279 45 0.17
280 37 0.14
281 118 0.44
282 11 0.04
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (277 bp):
TCACTCTAATTCTTTGGGCTTCCGTACGTGTCACCTGAAATTAGTTATGATTAGGTGTTCTCGTA
CCAGTAACTCTAATCTTTCGGGGATCCCATACGAGTCACTCAAAATTAATTATGATTAGGCATCC
CGTACGAGTCACTCAAATCCTTCAGGATCCCGTACGAGTCATCCGAAAATAATTATGATTAGGTG
CTCCCGAACAAATCACTCTAACCCTTGGGAGCTCCCGTACGAGTCACCCAAAACTAATTATGATT
AGATTCTCTCATTAGAG
Found at i:6222632 original size:25 final size:24
Alignment explanation
Indices: 6222602--6222683 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 24
6222592 GTTATAAAAC
*
6222602 TTAACATAGACTTGCACCGGTGAAA
1 TTAACATA-ACTTACACCGGTGAAA
* *
6222627 TTAACACTTAA-TTCCAACC-GTAAAA
1 TTAACA--TAACTTAC-ACCGGTGAAA
*
6222652 CTTATCATAAACTTACACCGGTGAAA
1 -TTAACAT-AACTTACACCGGTGAAA
6222678 TTAACA
1 TTAACA
6222684 CTTAATTCCA
Statistics
Matches: 44, Mismatches: 6, Indels: 14
0.69 0.09 0.22
Matches are distributed among these distances:
24 1 0.02
25 24 0.55
26 17 0.39
27 2 0.05
ACGTcount: A:0.40, C:0.22, G:0.11, T:0.27
Consensus pattern (24 bp):
TTAACATAACTTACACCGGTGAAA
Found at i:6222692 original size:51 final size:51
Alignment explanation
Indices: 6222522--6222693 Score: 240
Period size: 51 Copynumber: 3.4 Consensus size: 51
6222512 TACATTGGTA
* * *
6222522 AAATTAACACTTAATTCCAACAGTGAGACTTAACATAGACTTACACAGGTG
1 AAATTAACACTTAATTCCAACAGTAAAACTTAACATAGACTTACACCGGTG
* *
6222573 AAATTAACACTTAATT-CAAGTTA-TAAAACTTAACATAGACTTGCACCGGTG
1 AAATTAACACTTAATTCCAA--CAGTAAAACTTAACATAGACTTACACCGGTG
* * *
6222624 AAATTAACACTTAATTCCAACCGTAAAACTTATCATAAACTTACACCGGTG
1 AAATTAACACTTAATTCCAACAGTAAAACTTAACATAGACTTACACCGGTG
6222675 AAATTAACACTTAATTCCA
1 AAATTAACACTTAATTCCA
6222694 GCATACTATA
Statistics
Matches: 107, Mismatches: 10, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
50 3 0.03
51 100 0.93
52 4 0.04
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (51 bp):
AAATTAACACTTAATTCCAACAGTAAAACTTAACATAGACTTACACCGGTG
Found at i:6226413 original size:35 final size:35
Alignment explanation
Indices: 6226367--6226435 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
6226357 CCTTAGGTCC
6226367 ATAAGGAATTACCAGTTCGATCG-GTCTGAACCTAT
1 ATAAGGAATTACCAGTTCGATCGAG-CTGAACCTAT
* *
6226402 ATAAGGAATTACTAGTTTGATCGAGCTGAACCTA
1 ATAAGGAATTACCAGTTCGATCGAGCTGAACCTA
6226436 CAGAGACTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 30 0.97
36 1 0.03
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTCGATCGAGCTGAACCTAT
Found at i:6228175 original size:25 final size:23
Alignment explanation
Indices: 6228114--6228169 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
6228104 TAGCATGTTT
* *
6228114 AAAAACAAAACTTAAAATAAAAG
1 AAAAAGAAAACTTAAAAGAAAAG
6228137 AAAAATGAAAACTTGAAAAGAAAAG
1 AAAAA-GAAAACTT-AAAAGAAAAG
6228162 -AAAAGAAA
1 AAAAAGAAA
6228170 TAACTTTATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 9 0.31
24 11 0.38
25 9 0.31
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAAAGAAAACTTAAAAGAAAAG
Found at i:6232271 original size:35 final size:35
Alignment explanation
Indices: 6232214--6232281 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
6232204 CCTTAATTCC
*
6232214 ATAAGGAATTACCAGTTCGATCGATCTGAACCTAT
1 ATAAGGAATTACCAGTTCGATCGAGCTGAACCTAT
* * *
6232249 ATAATGAATTACTAGTTTGATCGAGCTGAACCT
1 ATAAGGAATTACCAGTTCGATCGAGCTGAACCT
6232282 GCAGAGACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.31
Consensus pattern (35 bp):
ATAAGGAATTACCAGTTCGATCGAGCTGAACCTAT
Found at i:6234173 original size:41 final size:41
Alignment explanation
Indices: 6234124--6234249 Score: 146
Period size: 41 Copynumber: 3.1 Consensus size: 41
6234114 TGTAACCCAG
** *
6234124 TTTCCAAATTCGCAACGCGATTATGTAAATCGCATTGCGAT
1 TTTCCAAATTCGCAACGCGATTATGTAAATCGCAACGCGAA
* * *
6234165 TTTCCAAATTCACAACGCGAATATGTAAATCACAACGCGAA
1 TTTCCAAATTCGCAACGCGATTATGTAAATCGCAACGCGAA
** * *
6234206 TTTGGAAAATAGCAACGCGAATT-TGTAAATCGCAACGCGAA
1 TTTCCAAATTCGCAACGCG-ATTATGTAAATCGCAACGCGAA
6234247 TTT
1 TTT
6234250 GTAAATCGCA
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
41 69 0.97
42 2 0.03
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.27
Consensus pattern (41 bp):
TTTCCAAATTCGCAACGCGATTATGTAAATCGCAACGCGAA
Found at i:6234199 original size:20 final size:20
Alignment explanation
Indices: 6234174--6234261 Score: 115
Period size: 20 Copynumber: 4.3 Consensus size: 20
6234164 TTTTCCAAAT
*
6234174 TCACAACGCGAATATGTAAA
1 TCACAACGCGAATTTGTAAA
*
6234194 TCACAACGCGAATTTGGAAAA
1 TCACAACGCGAATTT-GTAAA
6234215 T-AGCAACGCGAATTTGTAAA
1 TCA-CAACGCGAATTTGTAAA
*
6234235 TCGCAACGCGAATTTGTAAA
1 TCACAACGCGAATTTGTAAA
*
6234255 TCGCAAC
1 TCACAAC
6234262 ACATAAGTCA
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
20 44 0.72
21 17 0.28
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
TCACAACGCGAATTTGTAAA
Found at i:6234278 original size:20 final size:20
Alignment explanation
Indices: 6234255--6234337 Score: 130
Period size: 20 Copynumber: 4.2 Consensus size: 20
6234245 AATTTGTAAA
*
6234255 TCGCAACACATAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
*
6234275 TCGCAACACAGAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
* *
6234295 TTGCAACATAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
6234315 TCGCAACACAAAAGTCAAAT
1 TCGCAACACAAAAGTCAAAT
6234335 TCG
1 TCG
6234338 TAACTGAATT
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 57 1.00
ACGTcount: A:0.46, C:0.23, G:0.12, T:0.19
Consensus pattern (20 bp):
TCGCAACACAAAAGTCAAAT
Found at i:6234367 original size:19 final size:20
Alignment explanation
Indices: 6234309--6234399 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 20
6234299 AACATAAAAG
* * **
6234309 TCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACTCGAATT
*
6234329 TCAAATTCGTAACT-GAATT
1 TCAAATTCGCAACTCGAATT
*
6234348 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACTCGAATT
** *
6234368 TTGAATTCGCAACACGAATT
1 TCAAATTCGCAACTCGAATT
*
6234388 T-AATTTCGCAAC
1 TCAAATTCGCAAC
6234400 AGGTTTTAGT
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
19 24 0.42
20 33 0.58
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (20 bp):
TCAAATTCGCAACTCGAATT
Found at i:6234400 original size:19 final size:19
Alignment explanation
Indices: 6234373--6234419 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
6234363 GATTTTTGAA
6234373 TTCGCAACACGAATTTAAT
1 TTCGCAACACGAATTTAAT
** *
6234392 TTCGCAACA-GGTTTTAGT
1 TTCGCAACACGAATTTAAT
6234410 TTCGCAACAC
1 TTCGCAACAC
6234420 AAATGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (19 bp):
TTCGCAACACGAATTTAAT
Found at i:6235576 original size:12 final size:12
Alignment explanation
Indices: 6235559--6235583 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6235549 ATATAACTCT
6235559 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6235571 GAAGAAGAAAAA
1 GAAGAAGAAAAA
6235583 G
1 G
6235584 TCCCTAAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:6237653 original size:6 final size:6
Alignment explanation
Indices: 6237642--6237676 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
6237632 AAGCAAAAGG
* *
6237642 AAATCA AAATCA AAATCG CAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
6237677 CTAATCACAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.60, C:0.20, G:0.03, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:6237970 original size:20 final size:20
Alignment explanation
Indices: 6237937--6237982 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
6237927 TTTTGTTGCA
* *
6237937 AAAATTAAATTCGC-AACGCG
1 AAAATCAAAATCGCAAAC-CG
6237957 AAAATCAAAATCGCAAACCG
1 AAAATCAAAATCGCAAACCG
6237977 AAAATC
1 AAAATC
6237983 GCAACGAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 20 0.87
21 3 0.13
ACGTcount: A:0.52, C:0.22, G:0.11, T:0.15
Consensus pattern (20 bp):
AAAATCAAAATCGCAAACCG
Found at i:6238013 original size:20 final size:20
Alignment explanation
Indices: 6237990--6238044 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
6237980 ATCGCAACGA
6237990 GAATTTGACTTTCGCGTTGC
1 GAATTTGACTTTCGCGTTGC
* **
6238010 GAATTTAACTTTAACGTTGC
1 GAATTTGACTTTCGCGTTGC
*
6238030 GAATTTGACTATCGC
1 GAATTTGACTTTCGC
6238045 AACGTGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (20 bp):
GAATTTGACTTTCGCGTTGC
Found at i:6238070 original size:34 final size:34
Alignment explanation
Indices: 6238027--6238111 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
6238017 ACTTTAACGT
* *
6238027 TGCGAATTTGACTATCGCAACGTGAAAATTGCAA
1 TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
6238061 TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
1 TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
* *
6238095 CGCGAA-TTGACTTTCGC
1 TGCGAATTTGACTATCGC
6238112 GTTGCGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 10 0.21
34 37 0.79
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (34 bp):
TGCGAATTTGACTATCGCAACGAGAAAATCGCAA
Found at i:6239977 original size:21 final size:21
Alignment explanation
Indices: 6239933--6240031 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
6239923 GCGGGCGAGA
* * * *
6239933 CCTCTTGAACGATGATATGAG
1 CCTCTTGAATGATGAGAGGGG
* *
6239954 CCTCTTGAATGGTGGGAGGGG
1 CCTCTTGAATGATGAGAGGGG
6239975 CCTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGAGAGGGG
* * **
6239996 TCTCTTGAACGAT-AGGAGGCA
1 CCTCTTGAATGATGA-GAGGGG
*
6240017 CCTCTTGAACGATGA
1 CCTCTTGAATGATGA
6240032 TAGTTTCATT
Statistics
Matches: 61, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
20 2 0.03
21 57 0.93
22 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Found at i:6239979 original size:42 final size:42
Alignment explanation
Indices: 6239932--6240034 Score: 100
Period size: 42 Copynumber: 2.5 Consensus size: 42
6239922 GGCGGGCGAG
* * * * *
6239932 ACCTCTTGAACGATGATATGAGCCTCTTGAATGGTGGGAGGG
1 ACCTCTTGAACGATGATAGGAGCCTCTTGAACGATAGGAGGC
* * * * *
6239974 GCCTCTTCG-ATGATGAGAGGGGTCTCTTGAACGATAGGAGGC
1 ACCTCTT-GAACGATGATAGGAGCCTCTTGAACGATAGGAGGC
6240016 ACCTCTTGAACGATGATAG
1 ACCTCTTGAACGATGATAG
6240035 TTTCATTGGG
Statistics
Matches: 46, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
41 1 0.02
42 44 0.96
43 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (42 bp):
ACCTCTTGAACGATGATAGGAGCCTCTTGAACGATAGGAGGC
Found at i:6240467 original size:21 final size:21
Alignment explanation
Indices: 6240441--6240480 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
6240431 ATCTTCACGT
6240441 AAAGTACCGACCTCATGACAC
1 AAAGTACCGACCTCATGACAC
6240462 AAAGTACCGACCTCATGAC
1 AAAGTACCGACCTCATGAC
6240481 GTAACTCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.33, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAGTACCGACCTCATGACAC
Found at i:6242180 original size:20 final size:20
Alignment explanation
Indices: 6242152--6242250 Score: 84
Period size: 20 Copynumber: 5.2 Consensus size: 20
6242142 AGTAGTTTCT
* * *
6242152 GAAACTTAAATTCGCAATGC
1 GAAAATTAAAATCGCAACGC
6242172 GAAAATTAAAATCGCAACGC
1 GAAAATTAAAATCGCAACGC
* *
6242192 GAAACTAGAAAATCGCAACGC
1 GAAAAT-TAAAATCGCAACGC
6242213 --AAA-T---ATCGCAACGC
1 GAAAATTAAAATCGCAACGC
* *
6242227 GAACATGAAAATCGCAACGC
1 GAAAATTAAAATCGCAACGC
6242247 GAAA
1 GAAA
6242251 CTAAAATAGC
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
14 10 0.16
16 2 0.03
19 2 0.03
20 35 0.56
21 13 0.21
ACGTcount: A:0.46, C:0.22, G:0.17, T:0.14
Consensus pattern (20 bp):
GAAAATTAAAATCGCAACGC
Found at i:6242318 original size:20 final size:20
Alignment explanation
Indices: 6242259--6242307 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
6242249 AACTAAAATA
6242259 GCGTTGCGATTTTCATTTTC
1 GCGTTGCGATTTTCATTTTC
6242279 GCGTTGCGATTTTCATTTTC
1 GCGTTGCGATTTTCATTTTC
*
6242299 GTGTTGCGA
1 GCGTTGCGA
6242308 ATTTAAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.47
Consensus pattern (20 bp):
GCGTTGCGATTTTCATTTTC
Found at i:6242659 original size:22 final size:22
Alignment explanation
Indices: 6242632--6242674 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
6242622 GAGATAGATG
6242632 GATTTCGCAGGAGATGGGGACA
1 GATTTCGCAGGAGATGGGGACA
**
6242654 GATTTCGTTGGAGATGGGGAC
1 GATTTCGCAGGAGATGGGGAC
6242675 GAATGTCACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.12, G:0.42, T:0.23
Consensus pattern (22 bp):
GATTTCGCAGGAGATGGGGACA
Found at i:6242861 original size:20 final size:20
Alignment explanation
Indices: 6242833--6242918 Score: 145
Period size: 20 Copynumber: 4.3 Consensus size: 20
6242823 TAAACGCGCT
*
6242833 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTATGTG
*
6242853 TTGCAAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
*
6242873 TTGCGAATTTGACTTTTGTG
1 TTGCGAATTTGACTTATGTG
6242893 TTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTATGTG
6242913 TTGCGA
1 TTGCGA
6242919 TTTACAAATT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.47
Consensus pattern (20 bp):
TTGCGAATTTGACTTATGTG
Found at i:6242877 original size:40 final size:40
Alignment explanation
Indices: 6242833--6242918 Score: 163
Period size: 40 Copynumber: 2.1 Consensus size: 40
6242823 TAAACGCGCT
6242833 TTGCGAATTTGACTTTTGTGTTGCAAATTTGACTTATGTG
1 TTGCGAATTTGACTTTTGTGTTGCAAATTTGACTTATGTG
*
6242873 TTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACTTTTGTGTTGCAAATTTGACTTATGTG
6242913 TTGCGA
1 TTGCGA
6242919 TTTACAAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.19, C:0.10, G:0.24, T:0.47
Consensus pattern (40 bp):
TTGCGAATTTGACTTTTGTGTTGCAAATTTGACTTATGTG
Found at i:6242935 original size:20 final size:20
Alignment explanation
Indices: 6242912--6242954 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
6242902 TGACTTATGT
6242912 GTTGCGATTTACAAATTCAC
1 GTTGCGATTTACAAATTCAC
* *
6242932 GTTGCGATTTACATATTGAC
1 GTTGCGATTTACAAATTCAC
6242952 GTT
1 GTT
6242955 ACGAATTTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.40
Consensus pattern (20 bp):
GTTGCGATTTACAAATTCAC
Found at i:6242936 original size:40 final size:40
Alignment explanation
Indices: 6242833--6242938 Score: 99
Period size: 40 Copynumber: 2.6 Consensus size: 40
6242823 TAAACGCGCT
* *** *
6242833 TTGCGAATTTGACTTTTGTGTTGCAAATTTGACTTATGTG
1 TTGCGAATTTGACATTCACGTTGCGAATTTGACTTATGTG
* ***
6242873 TTGCGAATTTGACTTTTGTGTTGCGAATTTGACTTATGTG
1 TTGCGAATTTGACATTCACGTTGCGAATTTGACTTATGTG
6242913 TTGCG-ATTT-ACAAATTCACGTTGCGA
1 TTGCGAATTTGAC--ATTCACGTTGCGA
6242939 TTTACATATT
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 4 0.07
40 53 0.90
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.44
Consensus pattern (40 bp):
TTGCGAATTTGACATTCACGTTGCGAATTTGACTTATGTG
Found at i:6242998 original size:20 final size:20
Alignment explanation
Indices: 6242912--6242999 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
6242902 TGACTTATGT
*
6242912 GTTGCGATTTACA-AATTCAC
1 GTTGCGATTTACATAA-TCGC
*
6242932 GTTGCGATTTACAT-ATTGAC
1 GTTGCGATTTACATAATCG-C
* ** * *
6242952 GTTACGAATTTGGAAAATCGT
1 GTTGCG-ATTTACATAATCGC
**
6242973 AATGCGATTTACATAATCGC
1 GTTGCGATTTACATAATCGC
6242993 GTTGCGA
1 GTTGCGA
6243000 ATTTGGAAAC
Statistics
Matches: 47, Mismatches: 17, Indels: 8
0.65 0.24 0.11
Matches are distributed among these distances:
19 1 0.02
20 35 0.74
21 8 0.17
22 3 0.06
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACATAATCGC
Found at i:6243623 original size:22 final size:22
Alignment explanation
Indices: 6243585--6243641 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
6243575 TATGTTTTTC
* **
6243585 TTTTTTAAAAATATATACTTTA-
1 TTTTTTAAAATTATATA-TAAAT
*
6243607 TTTTTTAAAATTTTATATAAAT
1 TTTTTTAAAATTATATATAAAT
6243629 TTTTTTAAAATTA
1 TTTTTTAAAATTA
6243642 CTATGTGTTG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 2 0.07
22 27 0.93
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTTTTAAAATTATATATAAAT
Found at i:6244171 original size:22 final size:22
Alignment explanation
Indices: 6244119--6244171 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
6244109 TATTTTTTTT
6244119 ATTGAAATATTAAACTAATTAAA
1 ATTG-AATATTAAACTAATTAAA
** ** *
6244142 ATAAAATATTAATTTATTTAAA
1 ATTGAATATTAAACTAATTAAA
6244164 ATTGAATA
1 ATTGAATA
6244172 ACATAAAAAT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.40
Consensus pattern (22 bp):
ATTGAATATTAAACTAATTAAA
Found at i:6248105 original size:510 final size:510
Alignment explanation
Indices: 6247141--6248166 Score: 1820
Period size: 510 Copynumber: 2.0 Consensus size: 510
6247131 GATGATGCAA
* *
6247141 CCATACCACCAAGTACCTGGCTAATGACATTTCGAGAAATAACCCCCAGAGTCGCTATACACTAG
1 CCATGCCACCAAGTACCTGGCTAATGACATTTCGAGAAATAACCCCCAGAGTCGCTATACACCAG
* * *
6247206 TAGACTCAAAAACACCATACCAATTGATCTTCACATACCCTTGAGGGGAATGTTGCCACTTTGCC
66 TAGACTCAAAAACACCATACAAATTGATCTTCACATACCCTGGAGGGGAAGGTTGCCACTTTGCC
* *
6247271 TTATCAATACATGAAGCTACTCCTAAAGAAGATCGTACAACTCTAGCTCTCCTCGGCGCCTACTC
131 TCATCAATACATGAAGCTACTCCTAAAGAAGATCGAACAACTCTAGCTCTCCTCGGCGCCTACTC
* *
6247336 CCTGACCAATATGTAGTTGTGCTGAAGTGAGGTAGCGTTAAAAGCCAGTACCATGGGGGTTGAAC
196 CCTGACCAATAGGTAGTTGTGCTGAAGTGAGGCAGCGTTAAAAGCCAGTACCATGGGGGTTGAAC
* *
6247401 CTTGTTATCATGCACTTTGGAATTCCTCCCATTCCAAAGGTTCCAAAGCAAGACAAGAAAACCTG
261 CTTGTTATCATGCACTTTGGAATTCCTCCCATTCCAAAGGTTCCAAAGAAAAACAAGAAAACCTG
6247466 CAAGGCCAACTAGATACAAATAAGTAATTACCAAATCTAGCCAATCTAATAGAGAAACAAGCTGG
326 CAAGGCCAACTAGATACAAATAAGTAATTACCAAATCTAGCCAATCTAATAGAGAAACAAGCTGG
*
6247531 TTAGACAAGAACATACCCTGTATACCTGCACAATGATTATTTTGTTAATTTATAAATTTCATTAA
391 CTAGACAAGAACATACCCTGTATACCTGCACAATGATTATTTTGTTAATTTATAAATTTCATTAA
6247596 TTTTTCTATATAATTAAACTCTGTATGCAAATAAAGTTATATAAATAATATTAAT
456 TTTTTCTATATAATTAAACTCTGTATGCAAATAAAGTTATATAAATAATATTAAT
6247651 CCATGCCACCAAGTACCTGGCTAATGACATTTCGAGAAATAACCCCCAGAGTCGCTATACACCAG
1 CCATGCCACCAAGTACCTGGCTAATGACATTTCGAGAAATAACCCCCAGAGTCGCTATACACCAG
*
6247716 TAGACTCAAAAGCACCATACAAATTGATCTTCACATACCCTGGAGGGGAAGGTTGCCACTTTGCC
66 TAGACTCAAAAACACCATACAAATTGATCTTCACATACCCTGGAGGGGAAGGTTGCCACTTTGCC
** *
6247781 TCATCAATACATGAAGCTACTCCTGGAGAAGATCGAACAACTCTAGGTCTCCTCGGCGCCTACTC
131 TCATCAATACATGAAGCTACTCCTAAAGAAGATCGAACAACTCTAGCTCTCCTCGGCGCCTACTC
* *
6247846 CCTGGCCAATAGGTAGTTGTGCTGAAGTGAGGCAGTGTTAAAAGCCAGTACCATGGGGGTTGAAC
196 CCTGACCAATAGGTAGTTGTGCTGAAGTGAGGCAGCGTTAAAAGCCAGTACCATGGGGGTTGAAC
* *
6247911 CTTGTTATCATGCACTTTGGAATTCCTCCCATTCCAAAGGTTCCAAATAAAAATAAGAAAACAC-
261 CTTGTTATCATGCACTTTGGAATTCCTCCCATTCCAAAGGTTCCAAAGAAAAACAAGAAAAC-CT
*
6247975 GCAAGGCCAAGTAGATACAAATAAGTAATTACCAAATCTAGCCAATCTAATAGAGAAACAAGCTG
325 GCAAGGCCAACTAGATACAAATAAGTAATTACCAAATCTAGCCAATCTAATAGAGAAACAAGCTG
*
6248040 GCTAGACAAGAACGTACCCTGTATACCTGCACAATGATTATTTTGTTAATTTATAAATTTCATTA
390 GCTAGACAAGAACATACCCTGTATACCTGCACAATGATTATTTTGTTAATTTATAAATTTCATTA
* *
6248105 ATTTTTCTATATAATTAAACTCTGTATGCAAATAAATTTTTATAAATAATATTAAT
455 ATTTTTCTATATAATTAAACTCTGTATGCAAATAAAGTTATATAAATAATATTAAT
6248161 CCATGC
1 CCATGC
6248167 ATTGCATAGG
Statistics
Matches: 491, Mismatches: 24, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
510 490 1.00
511 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (510 bp):
CCATGCCACCAAGTACCTGGCTAATGACATTTCGAGAAATAACCCCCAGAGTCGCTATACACCAG
TAGACTCAAAAACACCATACAAATTGATCTTCACATACCCTGGAGGGGAAGGTTGCCACTTTGCC
TCATCAATACATGAAGCTACTCCTAAAGAAGATCGAACAACTCTAGCTCTCCTCGGCGCCTACTC
CCTGACCAATAGGTAGTTGTGCTGAAGTGAGGCAGCGTTAAAAGCCAGTACCATGGGGGTTGAAC
CTTGTTATCATGCACTTTGGAATTCCTCCCATTCCAAAGGTTCCAAAGAAAAACAAGAAAACCTG
CAAGGCCAACTAGATACAAATAAGTAATTACCAAATCTAGCCAATCTAATAGAGAAACAAGCTGG
CTAGACAAGAACATACCCTGTATACCTGCACAATGATTATTTTGTTAATTTATAAATTTCATTAA
TTTTTCTATATAATTAAACTCTGTATGCAAATAAAGTTATATAAATAATATTAAT
Found at i:6249414 original size:20 final size:21
Alignment explanation
Indices: 6249377--6249416 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
6249367 AAATTAAGTT
6249377 AAATGAATTTTAAGATTTTAC
1 AAATGAATTTTAAGATTTTAC
6249398 AAATG-ATTTTACA-ATTTTA
1 AAATGAATTTTA-AGATTTTA
6249417 TATTCGATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (21 bp):
AAATGAATTTTAAGATTTTAC
Found at i:6249702 original size:65 final size:64
Alignment explanation
Indices: 6249586--6249792 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 64
6249576 ATTTGAGGTG
* * * *
6249586 ATGCACCGATGC-TTCAACCATGCATCGATGCATTAGTGAAT-TAATTGAAACATCGAATGCATT
1 ATGCACCGATGCATTC-ACCATGCATCGATGCACT-CTGAATAT-TTTCAAACATCGAATGCATT
*
6249649 CC
63 TC
* *
6249651 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCACCGATGCATTCACCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCATTTC
* * **
6249716 ATGCATCGATGCA--CAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATT
1 ATGCACCGATGCATTC-A-CCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATT
6249778 TC
63 TC
*
6249780 ATGCATCGATGCA
1 ATGCACCGATGCA
6249793 CACTTGGTGC
Statistics
Matches: 123, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 41 0.33
65 78 0.63
66 3 0.02
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
ATGCACCGATGCATTCACCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTTC
Found at i:6249811 original size:64 final size:65
Alignment explanation
Indices: 6249633--6249796 Score: 215
Period size: 65 Copynumber: 2.5 Consensus size: 65
6249623 GAATTAATTG
* * ** *
6249633 AAACATCGAATGCATTCCATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCA
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
* ** **
6249698 AAACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC
1 AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTC
6249762 -
65 A
6249762 AAACATCGAATGCATTTCATGCATCGATGCACACT
1 AAACATCGAATGCATTTCATGCATCGATGCACACT
6249797 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.27
Consensus pattern (65 bp):
AAACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCA
Found at i:6257093 original size:65 final size:62
Alignment explanation
Indices: 6256977--6257181 Score: 193
Period size: 65 Copynumber: 3.2 Consensus size: 62
6256967 ATTTGAGGTG
* * * *
6256977 ATGCACCGATGCATCAACCATGCATCGATGCATTAGTGAAT-TAATTGAAACATCGAATGCATTC
1 ATGCACCGATGCATC-ACCATGCATCGATGCACT-CTGAATAT-TTTCAAACATCGAATGCATT-
6257041 C
62 C
* *
6257042 ATGCACCGATGCATTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATTTG
1 ATGCACCGATGCA-TCACCATGCATCGATGCACTCTGAATATTTTC-AAACATCGAATGCA-TTC
* * **
6257107 ATGCATCGATGCA-CAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCG-ATGCATTC
1 ATGCACCGATGCATC-A-CCATGCATCGATGCACTCTGAATA-TTTTCAAACATCGAATGCATTC
*
6257169 ATGCATCGATGCA
1 ATGCACCGATGCA
6257182 CACTTGGTGC
Statistics
Matches: 121, Mismatches: 12, Indels: 17
0.81 0.08 0.11
Matches are distributed among these distances:
62 15 0.12
63 6 0.05
64 19 0.16
65 77 0.64
66 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (62 bp):
ATGCACCGATGCATCACCATGCATCGATGCACTCTGAATATTTTCAAACATCGAATGCATTC
Found at i:6260300 original size:11 final size:11
Alignment explanation
Indices: 6260286--6260321 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
6260276 CTTTTTCATA
6260286 TTTTTTTTCTC
1 TTTTTTTTCTC
*
6260297 TTTTTTTTTTC
1 TTTTTTTTCTC
6260308 TTTTTTTTCT-
1 TTTTTTTTCTC
6260318 TTTT
1 TTTT
6260322 CAAACAACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (11 bp):
TTTTTTTTCTC
Found at i:6260300 original size:20 final size:21
Alignment explanation
Indices: 6260275--6260323 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
6260265 CGTTCTCCAT
6260275 TCTTTTTCATATT-TTTTTTC
1 TCTTTTTCATATTCTTTTTTC
* * *
6260295 TCTTTTT-TTTTTCTTTTTTT
1 TCTTTTTCATATTCTTTTTTC
6260315 TCTTTTTCA
1 TCTTTTTCA
6260324 AACAACATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (21 bp):
TCTTTTTCATATTCTTTTTTC
Found at i:6260302 original size:13 final size:12
Alignment explanation
Indices: 6260286--6260315 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
6260276 CTTTTTCATA
6260286 TTTTTTTTCTCTT
1 TTTTTTTTCT-TT
6260299 TTTTTTTTCTTT
1 TTTTTTTTCTTT
6260311 TTTTT
1 TTTTT
6260316 CTTTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.41
13 10 0.59
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTCTTT
Found at i:6260338 original size:27 final size:25
Alignment explanation
Indices: 6260308--6260374 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
6260298 TTTTTTTTTC
6260308 TTTTTTTTCTTTTTCAAACAACATAT
1 TTTTTTTTCTTTTTCAAAC-ACATAT
* ***
6260334 TTTTTTCTTTTTTTTCAAACTGTTAT
1 TTTTTT-TTCTTTTTCAAACACATAT
6260360 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
6260375 TCTCTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
25 8 0.23
26 15 0.43
27 12 0.34
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.69
Consensus pattern (25 bp):
TTTTTTTTCTTTTTCAAACACATAT
Found at i:6263106 original size:21 final size:21
Alignment explanation
Indices: 6263060--6263108 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
6263050 ACTTTTCGGA
* *
6263060 TAACCTCAATGAGAGGTATGT
1 TAACTTCAAGGAGAGGTATGT
6263081 TAACTTCAAGGAGAGGTATGT
1 TAACTTCAAGGAGAGGTATGT
6263102 TAACTTC
1 TAACTTC
6263109 CACCTTCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (21 bp):
TAACTTCAAGGAGAGGTATGT
Found at i:6271269 original size:2 final size:2
Alignment explanation
Indices: 6271264--6271346 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
6271254 CACAAGAATG
6271264 TA TA TA 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 TA TA TA
6271306 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6271347 TATCAAAATA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6274129 original size:33 final size:33
Alignment explanation
Indices: 6274088--6274154 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
6274078 TACCTCGGGC
*
6274088 ATAAATACGAGGACCAAATCAGATATTCAACTA
1 ATAAATACGAGGACCAAATAAGATATTCAACTA
6274121 ATAAATACGAGGACCAAATAAGATATTCAACTA
1 ATAAATACGAGGACCAAATAAGATATTCAACTA
6274154 A
1 A
6274155 GTTCAAAAGT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (33 bp):
ATAAATACGAGGACCAAATAAGATATTCAACTA
Found at i:6274681 original size:22 final size:20
Alignment explanation
Indices: 6274656--6274706 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
6274646 CGAGTAATAT
* *
6274656 TTAAAAGTTAGTAATTCATAAA
1 TTAAAA-TTAATAATT-AAAAA
6274678 TTAATAATTAATAATTAAAAA
1 TTAA-AATTAATAATTAAAAA
6274699 TTAAAATT
1 TTAAAATT
6274707 TTACCAGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 4 0.15
21 8 0.31
22 12 0.46
23 2 0.08
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
TTAAAATTAATAATTAAAAA
Found at i:6275370 original size:14 final size:14
Alignment explanation
Indices: 6275351--6275397 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
6275341 TTTTATTAAC
6275351 ATATTATTAAAATA
1 ATATTATTAAAATA
*
6275365 ATATTAATTAAATTA
1 ATATT-ATTAAAATA
* *
6275380 AAATT-TTAAAATT
1 ATATTATTAAAATA
6275393 ATATT
1 ATATT
6275398 GAAACAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
13 10 0.37
14 5 0.19
15 12 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATTATTAAAATA
Found at i:6279006 original size:18 final size:18
Alignment explanation
Indices: 6278985--6279020 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6278975 TAGTTCGAAC
6278985 ATGAAATCAACCTCGATT
1 ATGAAATCAACCTCGATT
6279003 ATGAAATCAACCTCGATT
1 ATGAAATCAACCTCGATT
6279021 CAACATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (18 bp):
ATGAAATCAACCTCGATT
Found at i:6280810 original size:156 final size:156
Alignment explanation
Indices: 6280526--6280858 Score: 510
Period size: 156 Copynumber: 2.1 Consensus size: 156
6280516 AAGCTACAAC
* * * *
6280526 TTCTTCTCATTATGAACTCTTCGCTTCTTATTGGATAAAATTATTCTAATTATGAACCATTCCTT
1 TTCTTCTCATTATGAACTCTTCGATCCTTATTAGACAAAATTATTCTAATTATGAACCATTCCTT
* * * * *
6280591 TAGAAATGTTTATCCATCTCCTTTTGTGATGGACGAACAACGATTGAACAAGTTATTCTCATTAT
66 TAGAAATATTGATCCACCTCATTTTGTGATGGACAAACAACGATTGAACAAGTTATTCTCATTAT
6280656 GAACTTCTTCTCTCTCATC-AGATGAG
131 GAACTTCTTCTCTCTCATCGA-ATGAG
*
6280682 TTCTTCTCATTATGAACTTTTCGATCCTTATTAGACAAAATTATTCTAATTATGAACCATTCCTT
1 TTCTTCTCATTATGAACTCTTCGATCCTTATTAGACAAAATTATTCTAATTATGAACCATTCCTT
* *
6280747 TAGAAATATTGGTCCACCTCATTTTGTGATGGACAAATCAATG-TTGAACAAGTTATTCTCATTA
66 TAGAAATATTGATCCACCTCATTTTGTGATGGACAAA-CAACGATTGAACAAGTTATTCTCATTA
*
6280811 TGAACTTTTTCTCTCTCATCGAATGAG
130 TGAACTTCTTCTCTCTCATCGAATGAG
6280838 TTCTTCTCATTATGAAC-CTTC
1 TTCTTCTCATTATGAACTCTTC
6280859 ATTTGGAAAT
Statistics
Matches: 161, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
155 3 0.02
156 153 0.95
157 5 0.03
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (156 bp):
TTCTTCTCATTATGAACTCTTCGATCCTTATTAGACAAAATTATTCTAATTATGAACCATTCCTT
TAGAAATATTGATCCACCTCATTTTGTGATGGACAAACAACGATTGAACAAGTTATTCTCATTAT
GAACTTCTTCTCTCTCATCGAATGAG
Found at i:6280890 original size:115 final size:115
Alignment explanation
Indices: 6280680--6281053 Score: 382
Period size: 116 Copynumber: 3.2 Consensus size: 115
6280670 TCATCAGATG
* * * * * *
6280680 AGTTCTTCTCATTATGAAC-TTTTCGAT-CCTTATTAGACAAAATTATTCTAATTATGAACCATT
1 AGTTCTTCTCATTATGAACTTTTTC--TCCCTTAATCGA-ATAGTTCTTCTCATTATGAACC-TT
* * * * *
6280743 CCTTTAGAAATATTGGTCCACCTCATTT-TGTGATGGACAAATCAATGTTGAACA
62 CATTTGGAAATATTGATCCACCTC-TTTCTGTGATGGACAAACCAAGGTTGAACA
* * *
6280797 AGTTATTCTCATTATGAACTTTTTCTCTC-TCATCGAATGAGTTCTTCTCATTATGAACCTTCAT
1 AGTTCTTCTCATTATGAACTTTTTCTCCCTTAATCGAAT-AGTTCTTCTCATTATGAACCTTCAT
** * *
6280861 TTGGAAATATTGATCCACCTCTTTCTGTGATAAATAAGCCAAGGTTGAACA
65 TTGGAAATATTGATCCACCTCTTTCTGTGATGGACAAACCAAGGTTGAACA
* * ** *
6280912 AGTTCTTCTCATTATGAACTTCTTCTCCCTTAATGGGCTAGTTCTTCTCATTATGAACTTCTCCA
1 AGTTCTTCTCATTATGAACTTTTTCTCCCTTAATCGAATAGTTCTTCTCATTATGAAC--CTTCA
* * *
6280977 -TTGGAAATGTTGATCCACCTCCTTCTGTGATGGACGAACCAAGGTTGAACA
64 TTTGGAAATATTGATCCACCTCTTTCTGTGATGGACAAACCAAGGTTGAACA
*
6281028 AGTTCTTCTCATTGTGAA-TTTCTTCT
1 AGTTCTTCTCATTATGAACTTT-TTCT
6281054 TACTTTTTGG
Statistics
Matches: 214, Mismatches: 35, Indels: 17
0.80 0.13 0.06
Matches are distributed among these distances:
114 3 0.01
115 91 0.43
116 92 0.43
117 23 0.11
118 5 0.02
ACGTcount: A:0.27, C:0.21, G:0.14, T:0.39
Consensus pattern (115 bp):
AGTTCTTCTCATTATGAACTTTTTCTCCCTTAATCGAATAGTTCTTCTCATTATGAACCTTCATT
TGGAAATATTGATCCACCTCTTTCTGTGATGGACAAACCAAGGTTGAACA
Found at i:6281030 original size:116 final size:115
Alignment explanation
Indices: 6280725--6281053 Score: 376
Period size: 115 Copynumber: 2.8 Consensus size: 115
6280715 GACAAAATTA
* * * * * *
6280725 TTCTAATTATGAACCATTCC-TTTAGAAATATTGGTCCACCTCATTTTGTGATGGACAAATCAAT
1 TTCTCATTATGAACC--TCCATTTGGAAATATTGATCCACCTCATTCTGTGATGGACAAACCAAG
* * * *
6280789 GTTGAACAAGTTATTCTCATTATGAACTTTTTCTCTCTCATCGAATGAGTTC
64 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTAATCGAATGAGTTC
* * ** * *
6280841 TTCTCATTATGAACCTTCATTTGGAAATATTGATCCACCTCTTTCTGTGATAAATAAGCCAAGGT
1 TTCTCATTATGAACCTCCATTTGGAAATATTGATCCACCTCATTCTGTGATGGACAAACCAAGGT
* **
6280906 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTAATGGGCT-AGTTC
66 TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCC-TAATCGAATGAGTTC
* * *
6280956 TTCTCATTATGAACTTCTCCA-TTGGAAATGTTGATCCACCTCCTTCTGTGATGGACGAACCAAG
1 TTCTCATTATGAAC--CTCCATTTGGAAATATTGATCCACCTCATTCTGTGATGGACAAACCAAG
* *
6281020 GTTGAACAAGTTCTTCTCATTGTGAATTTCTTCT
64 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCT
6281054 TACTTTTTGG
Statistics
Matches: 180, Mismatches: 29, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
114 2 0.01
115 87 0.48
116 87 0.48
117 4 0.02
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (115 bp):
TTCTCATTATGAACCTCCATTTGGAAATATTGATCCACCTCATTCTGTGATGGACAAACCAAGGT
TGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTAATCGAATGAGTTC
Found at i:6281095 original size:116 final size:116
Alignment explanation
Indices: 6280789--6281116 Score: 319
Period size: 116 Copynumber: 2.8 Consensus size: 116
6280779 ACAAATCAAT
* * * * * * * *
6280789 GTTGAACAAGTTATTCTCATTATGAACTTTTTCTCTC-TCAT-CGAATGAGTTCTTCTCATTATG
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCACTTAATGGGCA--AGTTCTTCCCAATATG
* * *
6280852 AA--CCTTCATTTGGAAATATTGATCCACCTCTTTCTGTGATAAATAAGCCAAG
64 AACTCCTTCA-TTGGAAATGTTGATCCACCTCCTTCTGTGATAAAGAAGCCAAG
* * * *
6280904 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTAATGGGCTAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCACTTAATGGGCAAGTTCTTCCCAATATGAA
* * * *
6280969 CTTCTCCATTGGAAATGTTGATCCACCTCCTTCTGTGATGGACGAA-CCAAG
66 CTCCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGAT-AAAGAAGCCAAG
* * * ** *
6281020 GTTGAACAAGTTCTTCTCATTGTGAATTTCTTCTTACTTTTTGGAG-AAGTTTTTCCCAATATTG
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCACTTAATGG-GCAAGTTCTTCCCAATA-TG
*
6281084 -ACTCCTTCATTGGAAATGTTAATCCACCTCCTT
64 AACTCCTTCATTGGAAATGTTGATCCACCTCCTT
6281117 TTGAGATGAA
Statistics
Matches: 179, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
115 52 0.29
116 116 0.65
117 11 0.06
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (116 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCACTTAATGGGCAAGTTCTTCCCAATATGAA
CTCCTTCATTGGAAATGTTGATCCACCTCCTTCTGTGATAAAGAAGCCAAG
Found at i:6281594 original size:7 final size:7
Alignment explanation
Indices: 6281583--6281750 Score: 191
Period size: 7 Copynumber: 23.7 Consensus size: 7
6281573 TCACTTTGAT
*
6281583 TTTTTCT
1 TTTTTCA
*
6281590 TTTTTCTT
1 TTTTTC-A
*
6281598 TTTTTTA
1 TTTTTCA
*
6281605 TTTCTCA
1 TTTTTCA
6281612 TTTTTTC-
1 -TTTTTCA
6281619 TTTTTC-
1 TTTTTCA
6281625 TTTTTC-
1 TTTTTCA
*
6281631 TTTCTCA
1 TTTTTCA
*
6281638 TTTTTTCTT
1 -TTTTTC-A
6281647 TTTTTCA
1 TTTTTCA
6281654 TTTTTCA
1 TTTTTCA
6281661 TTTTTCA
1 TTTTTCA
6281668 TTTTTCA
1 TTTTTCA
6281675 TTTTTCA
1 TTTTTCA
6281682 TTTTTCA
1 TTTTTCA
6281689 TTTTTCA
1 TTTTTCA
6281696 TTTTTCA
1 TTTTTCA
6281703 TTTTTCA
1 TTTTTCA
6281710 TTTTTCA
1 TTTTTCA
6281717 TTTTTCA
1 TTTTTCA
6281724 TTTATTTC-
1 -TT-TTTCA
*
6281732 TTTTTCT
1 TTTTTCA
6281739 TTTTTCA
1 TTTTTCA
6281746 TTTTT
1 TTTTT
6281751 TACAACAAAT
Statistics
Matches: 143, Mismatches: 10, Indels: 16
0.85 0.06 0.09
Matches are distributed among these distances:
6 21 0.15
7 94 0.66
8 24 0.17
9 4 0.03
ACGTcount: A:0.10, C:0.14, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCA
Found at i:6282438 original size:20 final size:19
Alignment explanation
Indices: 6282404--6282451 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
6282394 ATCTTGAATC
*
6282404 CCTTATTTTTAATTTTCTCTT
1 CCTTTTTTTTAATTTT-T-TT
*
6282425 -CTTTTTTTTTATTTTTTT
1 CCTTTTTTTTAATTTTTTT
6282443 CCTTTTTTT
1 CCTTTTTTT
6282452 ATTCATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 2 0.08
19 9 0.38
20 13 0.54
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
CCTTTTTTTTAATTTTTTT
Found at i:6284387 original size:20 final size:20
Alignment explanation
Indices: 6284364--6284402 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
6284354 TGTTCTCAAA
6284364 TGATGTATTGTTACATAATT
1 TGATGTATTGTTACATAATT
6284384 TGATGTATTGTTACATAAT
1 TGATGTATTGTTACATAAT
6284403 ATTATGCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TGATGTATTGTTACATAATT
Found at i:6285889 original size:40 final size:42
Alignment explanation
Indices: 6285834--6285912 Score: 126
Period size: 40 Copynumber: 1.9 Consensus size: 42
6285824 AAACTGCCAA
6285834 AAAAATTATTTTTCCA-AAAAAGT-TCTCTATTTATTGACAT
1 AAAAATTATTTTTCCATAAAAAGTATCTCTATTTATTGACAT
* *
6285874 AAAAATTCTTTTTCCATAAAAATTATCTCTATTTATTGA
1 AAAAATTATTTTTCCATAAAAAGTATCTCTATTTATTGA
6285913 ATCAAATACT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 15 0.43
41 6 0.17
42 14 0.40
ACGTcount: A:0.39, C:0.13, G:0.04, T:0.44
Consensus pattern (42 bp):
AAAAATTATTTTTCCATAAAAAGTATCTCTATTTATTGACAT
Found at i:6286533 original size:20 final size:20
Alignment explanation
Indices: 6286508--6286552 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
6286498 CCACTCAACT
6286508 TTCCACCATTCCATGTTTTA
1 TTCCACCATTCCATGTTTTA
*
6286528 TTCCACCATTCCATGTTTTC
1 TTCCACCATTCCATGTTTTA
6286548 TTCCA
1 TTCCA
6286553 TGTTTTATTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.04, T:0.44
Consensus pattern (20 bp):
TTCCACCATTCCATGTTTTA
Found at i:6286598 original size:2 final size:2
Alignment explanation
Indices: 6286591--6286624 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6286581 TTTTCTTATG
6286591 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
6286625 GTAATATGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6286877 original size:22 final size:22
Alignment explanation
Indices: 6286829--6286877 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
6286819 AAAATCAGGA
*
6286829 CGATCGGACGGTAGACGGAGGC
1 CGATCGGACGGTAGACGGAAGC
6286851 CGATCGGACGGTAGACGGAAGC
1 CGATCGGACGGTAGACGGAAGC
*
6286873 GGATC
1 CGATC
6286878 AAAGAAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.43, T:0.10
Consensus pattern (22 bp):
CGATCGGACGGTAGACGGAAGC
Found at i:6287364 original size:13 final size:13
Alignment explanation
Indices: 6287346--6287378 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6287336 GCTCGATTAA
*
6287346 AGCTCGAGACTTG
1 AGCTCGAGACTCG
6287359 AGCTCGAGACTCG
1 AGCTCGAGACTCG
6287372 AGCTCGA
1 AGCTCGA
6287379 TTCAAGCTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.27, G:0.30, T:0.18
Consensus pattern (13 bp):
AGCTCGAGACTCG
Found at i:6292322 original size:17 final size:17
Alignment explanation
Indices: 6292300--6292342 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
6292290 TAAATCACTG
6292300 TGGGTAGAAAACATGTT
1 TGGGTAGAAAACATGTT
*
6292317 TGGGTAGAAAGCATGTT
1 TGGGTAGAAAACATGTT
*
6292334 TGGCTAGAA
1 TGGGTAGAA
6292343 TTACTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (17 bp):
TGGGTAGAAAACATGTT
Found at i:6293303 original size:27 final size:26
Alignment explanation
Indices: 6293258--6293308 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
6293248 ACATTTCATG
*
6293258 CATTTTTGCATTTTGCATATACATTT
1 CATTTTTGCATTTTGCATAAACATTT
6293284 CATTTTTAAGCATTTT-CATAAACAT
1 CATTTTT--GCATTTTGCATAAACAT
6293309 GAAATCTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 7 0.32
27 8 0.36
28 7 0.32
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (26 bp):
CATTTTTGCATTTTGCATAAACATTT
Found at i:6296943 original size:83 final size:83
Alignment explanation
Indices: 6296714--6297787 Score: 1136
Period size: 84 Copynumber: 12.9 Consensus size: 83
6296704 AACGAATCCA
* * * * *
6296714 ATTTACAGCATAACCCTAGGCGAGAAGGGTTATCTATCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* * *
6296779 TTATCTCAAAGGCGCATC
66 TCAGCTCAAAGGCACATC
** * * * * * * *
6296797 ATTGGCTA-CATAGCTTAAGGCGAGAAGGGATT-TTTGCCAACCAAAGACCTTCAAGTTCTATTA
1 ATTTAC-AGCATAACTCAAGGCTAGAAGGG-TTATCTGTCAA-CAAAGACCTTCGAGTTCGATTA
* ** *
6296860 CACTCAGCTTAAAGATACGTC
63 CACTCAGCTCAAAGGCACATC
*
6296881 ATTTACAGCATAACTCAAGGCTAGAATGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
6296946 TCAGCTCAAAGGCACATC
66 TCAGCTCAAAGGCACATC
* * * * * * *
6296964 ATTTGCAGCTTAGCTCAAGG-TAATAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTAC
1 ATTTACAGCATAACTCAAGGCT-AGAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGATTAC
* *
6297028 ACTCAGCTCAAATGCACTTC
64 ACTCAGCTCAAAGGCACATC
* * *
6297048 ATTTACAGTATAACTCAAGGCTAGAAAGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* *
6297113 TCAACTCAGAGGCACATC
66 TCAGCTCAAAGGCACATC
* *
6297131 ATTTACAACATAACTCAAGGCTAGAAGGGTTATTTGTCAACAAAGACCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* *
6297196 TCAACTCAAAGGAACATC
66 TCAGCTCAAAGGCACATC
* ** * *
6297214 ATTTAAAATATAACTCAAGGCCAGAAGGGTTATCTGTCAACAAAGACCTTCGTGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
***
6297279 TCAGCTCAAAGGTGTATC
66 TCAGCTCAAAGGCACATC
* * * * ** * *
6297297 ATTTTCAGCATAGCTTAAGGCAAGAAGAATTATCTGCCAACCAAAGACCTTTGAGTTCGATTACA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACA
6297362 CTCAGCTCAAAGGCACATC
65 CTCAGCTCAAAGGCACATC
* * * * * * *
6297381 ATTTGCAGCTTAGCTCAAGGCAAGAAGGGATATCTGCCGAAAAAAGACCTTTC-AGTTCGATTAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC-AACAAAGACC-TTCGAGTTCGATTAC
6297445 ACTCAGCTCAAAGGCACATC
64 ACTCAGCTCAAAGGCACATC
* * *
6297465 ACTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* *
6297530 TCAGCTCAAAGACATATC
66 TCAGCTCAAAGGCACATC
** * * * * * * *
6297548 ATTTGTAGCTTAGCTCAAGGCAAAAAGGGCTATCT-TCCAACAAAATACCTTCGCGTTCGATTAC
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGT-CAAC-AAAGACCTTCGAGTTCGATTAC
6297612 ACTCAGCTCAAAGGCACATC
64 ACTCAGCTCAAAGGCACATC
** * * * * * * * * *
6297632 ATTTGTAGCTTATCTCAAGGCAAGAAGGGCTATCTGCCAATAAAAAACCTTCGAGTTCAATTGCA
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTTCGATTACA
6297697 CTCAGCTCAAAGGCACATC
65 CTCAGCTCAAAGGCACATC
* * * * * * * *
6297716 ATTTACAACATAGCTTAAGGCGAGAAGGATTATCTGTTAAC-AA-ACCCTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
6297779 TCAGCTCAA
66 TCAGCTCAA
6297788 GGGAATATCA
Statistics
Matches: 832, Mismatches: 143, Indels: 34
0.82 0.14 0.03
Matches are distributed among these distances:
81 25 0.03
82 7 0.01
83 383 0.46
84 412 0.50
85 5 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (83 bp):
ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
TCAGCTCAAAGGCACATC
Found at i:6297004 original size:167 final size:167
Alignment explanation
Indices: 6296714--6297787 Score: 1169
Period size: 167 Copynumber: 6.4 Consensus size: 167
6296704 AACGAATCCA
* * * * *
6296714 ATTTACAGCATAACCCTAGGCGAGAAGGGTTATCTATCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* * * * * * *
6296779 TTATCTCAAAGGCGCATCATTGGCTA-CATAGCTTAAGGCGAGAAGGGATT-TTTGCCAACCAAA
66 TCAGCTCAAAGGCACATCATTTGC-AGCATAGCTCAAGGCAAGAAGGG-TTATCTGCCAACCAAA
* * * * *
6296842 GACCTTCAAGTTCTATTACACTCAGCTTAAAGATACGTC
129 GACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
* *
6296881 ATTTACAGCATAACTCAAGGCTAGAATGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* * * * *
6296946 TCAGCTCAAAGGCACATCATTTGCAGCTTAGCTCAAGGTAATAAGGGCTATCTGCCAACAAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGA
* *
6297011 CCTTCGAGTTTGATTACACTCAGCTCAAATG-CACTTC
131 CCTTCGAGTTCGATTACACTCAGCTCAAA-GACACATC
* * * *
6297048 ATTTACAGTATAACTCAAGGCTAGAAAGGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
* * * * * * * *
6297113 TCAACTCAGAGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATTTGTCAA-CAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGA
*
6297177 CCTTCGAGTTCGATTACACTCAACTCAAAGGA-ACATC
131 CCTTCGAGTTCGATTACACTCAGCTCAAA-GACACATC
* ** * *
6297214 ATTTAAAATATAACTCAAGGCCAGAAGGGTTATCTGTCAACAAAGACCTTCGTGTTCGATTACAC
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
*** * * **
6297279 TCAGCTCAAAGGTGTATCATTTTCAGCATAGCTTAAGGCAAGAAGAATTATCTGCCAACCAAAGA
66 TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGA
* *
6297344 CCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATC
131 CCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
* * * * * *
6297381 ATTTGCAGCTTAGCTCAAGGCAAGAAGGGATATCTGCCGAAAAAAGACCTTTC-AGTTCGATTAC
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTC-AACAAAGACC-TTCGAGTTCGATTAC
* ** * * *
6297445 ACTCAGCTCAAAGGCACATCACTTATAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAA
64 ACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACCAAA
* *
6297509 CACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATC
129 GACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
** * * * * * *
6297548 ATTTGTAGCTTAGCTCAAGGCAAAAAGGGCTATCT-TCCAACAAAATACCTTCGCGTTCGATTAC
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGT-CAAC-AAAGACCTTCGAGTTCGATTAC
* * * * **
6297612 ACTCAGCTCAAAGGCACATCATTTGTAGCTTATCTCAAGGCAAGAAGGGCTATCTGCCAATAAAA
64 ACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACCAAA
* * * *
6297677 AACCTTCGAGTTCAATTGCACTCAGCTCAAAGGCACATC
129 GACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
* * * * * * * *
6297716 ATTTACAACATAGCTTAAGGCGAGAAGGATTATCTGTTAAC-AA-ACCCTCGAGTTCGATTACAT
1 ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
6297779 TCAGCTCAA
66 TCAGCTCAA
6297788 GGGAATATCA
Statistics
Matches: 767, Mismatches: 127, Indels: 28
0.83 0.14 0.03
Matches are distributed among these distances:
165 26 0.03
166 150 0.20
167 453 0.59
168 134 0.17
169 4 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (167 bp):
ATTTACAGCATAACTCAAGGCAAGAAGGGTTATCTGTCAACAAAGACCTTCGAGTTCGATTACAC
TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGA
CCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
Found at i:6297859 original size:251 final size:245
Alignment explanation
Indices: 6296850--6297871 Score: 956
Period size: 251 Copynumber: 4.1 Consensus size: 245
6296840 AAGACCTTCA
* * ** * * * * * *
6296850 AGTTCTATTACACTCAGCTTAAAGATACGTCATTTACAGCATAACTCAAGGCTAGAATGGTTATC
1 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAGGCAAGAAGGGATATC
* * ** * * *
6296915 TGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAGCTC
66 TGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAAAACATAACTC
** * * * * * * *
6296980 AAGGTAATAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAATGCAC
131 AAGGCCAGAAGGGTTATCTGTCAAC--AA-ACCCTCGAGTTCGATTACACTCAGCTC-AA-GGAA
* * * * * * *
6297045 T-TCATTTACAGTATAACTCAAGGCTAGAAAGGTTATCTGTCAACAAAGACCTTTG
191 TATCATTTACAGCATAGCTCAAGGCAAGAAAGGCTATTTG-CAACAAAAAACTTTG
* * * * * * * *
6297100 AGTTCGATTACACTCAACTCAGAGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATT
1 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAGGCAAGAAGGGATATC
* * * * *
6297165 TGTCAACAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGAACATCATTTAAAATATAACTC
66 TGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAAAACATAACTC
* * **
6297230 AAGGCCAGAAGGGTTATCTGTCAACAAAGACCTTCGTGTTCGATTACACTCAGCTCAAAGGTGTA
131 AAGGCCAGAAGGGTTATCTGTCAAC-AA-ACCCTCGAGTTCGATTACACTCAGCTC-AAGGAATA
* * ** * * *
6297295 TCATTTTCAGCATAGCTTAAGGCAAG-AAGAATTATCTGCCAACCAAAGACCTTTG
193 TCATTTACAGCATAGCTCAAGGCAAGAAAG-GCTATTTG-CAA-CAAAAAACTTTG
*
6297350 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAGCTCAAGGCAAGAAGGGATATC
1 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAGGCAAGAAGGGATATC
* * *
6297415 TGCCGAAAAAAGACCTTTC-AGTTCGATTACACTCAGCTCAAAGGCACATCACTTATAGCATAAC
66 TGCC-AAAAAAGACC-TTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAAAACATAAC
* *
6297479 TCAAGGCTAGAAGGGTTATCTGTCAACAAACACCTTCGAGTTCGATTACACTCAGCTCAAAGACA
129 TCAAGGCCAGAAGGGTTATCTGTCAACAAAC-CC-TCGAGTTCGATTACACTCAGCTCAAGGA-A
** * * * *
6297544 TATCATTTGTAGCTTAGCTCAAGGCAA-AAAGGGCTATCTTCCAACAAAATACCTTCG
191 TATCATTTACAGCATAGCTCAAGGCAAGAAA-GGCTAT-TTGCAACAAAA-AACTTTG
* * * *
6297601 CGTTCGATTACACTCAGCTCAAAGGCACATCATTTGTAGCTTATCTCAAGGCAAGAAGGGCTATC
1 AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAGGCAAGAAGGGATATC
* * * * *
6297666 TGCCAATAAAAAACCTTCGAGTTCAATTGCACTCAGCTCAAAGGCACATCATTTACAACATAGCT
66 TGCCAA-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAAAACATAACT
* * * * *
6297731 TAAGGCGAGAAGGATTATCTGTTAACAAACCCTCGAGTTCGATTACATTCAGCTCAAGGGAATAT
130 CAAGGCCAGAAGGGTTATCTGTCAACAAACCCTCGAGTTCGATTACACTCAGCTCAA-GGAATAT
* * * * *
6297796 CAAATTTACAACATAGCTCAAGG-AGAGAAAGGCGATTTGTAAAAAAAAAATTGTGG
194 C--ATTTACAGCATAGCTCAAGGCA-AGAAAGGCTATTTGCAACAAAAAACTT-T-G
* *
6297852 AGTTCGATTCCATTCAGCTC
1 AGTTCGATTACACTCAGCTC
6297872 GATAACAAAT
Statistics
Matches: 652, Mismatches: 99, Indels: 41
0.82 0.12 0.05
Matches are distributed among these distances:
248 5 0.01
249 97 0.15
250 231 0.35
251 311 0.48
252 8 0.01
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.26
Consensus pattern (245 bp):
AGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCTTAACTCAAGGCAAGAAGGGATATC
TGCCAAAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTAAAACATAACTC
AAGGCCAGAAGGGTTATCTGTCAACAAACCCTCGAGTTCGATTACACTCAGCTCAAGGAATATCA
TTTACAGCATAGCTCAAGGCAAGAAAGGCTATTTGCAACAAAAAACTTTG
Found at i:6298302 original size:20 final size:20
Alignment explanation
Indices: 6298277--6298319 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
6298267 CCACTCAACT
6298277 TTCCACCATTCCATGTTTTA
1 TTCCACCATTCCATGTTTTA
6298297 TTCCACCATTCCATGTTTTA
1 TTCCACCATTCCATGTTTTA
6298317 TTC
1 TTC
6298320 TTCCACGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.19, C:0.30, G:0.05, T:0.47
Consensus pattern (20 bp):
TTCCACCATTCCATGTTTTA
Found at i:6299007 original size:28 final size:28
Alignment explanation
Indices: 6298976--6299042 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
6298966 CCTAAATCTC
**
6298976 TATGTTTTCTGATTTT-GACACTTTAGTT
1 TATGTTTT-TGATTTTAGACACTAAAGTT
* *
6299004 TATGTTATTTTATTTTAGTCACTAAAGTT
1 TATGTT-TTTGATTTTAGACACTAAAGTT
6299033 TATGTTTTTG
1 TATGTTTTTG
6299043 CTATTTATGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
28 15 0.47
29 17 0.53
ACGTcount: A:0.21, C:0.07, G:0.13, T:0.58
Consensus pattern (28 bp):
TATGTTTTTGATTTTAGACACTAAAGTT
Found at i:6305066 original size:12 final size:11
Alignment explanation
Indices: 6305049--6305087 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
6305039 ATTCCATTAC
6305049 ATTTTTATTTTT
1 ATTTTT-TTTTT
6305061 ATTTTTTGTTTT
1 ATTTTTT-TTTT
6305073 A-TTTTTTTTT
1 ATTTTTTTTTT
6305083 ATTTT
1 ATTTT
6305088 GATCGAGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.20
11 9 0.36
12 11 0.44
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.85
Consensus pattern (11 bp):
ATTTTTTTTTT
Found at i:6306075 original size:16 final size:16
Alignment explanation
Indices: 6306056--6306086 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6306046 TATGATATTC
6306056 GAAAAAGAAAAAAAAA
1 GAAAAAGAAAAAAAAA
6306072 GAAAAAGAAAAAAAA
1 GAAAAAGAAAAAAAA
6306087 GAGAGAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
GAAAAAGAAAAAAAAA
Found at i:6307778 original size:17 final size:19
Alignment explanation
Indices: 6307746--6307790 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
6307736 ATCTTTACCC
*
6307746 TCTTATTTTTACTTTAATTG
1 TCTT-TTTTTACTTTAATCG
6307766 -CTTTTTTTA-TTTAATCG
1 TCTTTTTTTACTTTAATCG
6307783 TCTTTTTT
1 TCTTTTTT
6307791 ACTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 7 0.30
18 13 0.57
19 3 0.13
ACGTcount: A:0.16, C:0.11, G:0.04, T:0.69
Consensus pattern (19 bp):
TCTTTTTTTACTTTAATCG
Found at i:6311021 original size:52 final size:52
Alignment explanation
Indices: 6310863--6311175 Score: 160
Period size: 52 Copynumber: 6.1 Consensus size: 52
6310853 TGGAATTAAG
* * * *
6310863 TGTTAA-TTTCACCGGTGCAAATACATGTTAAGTTTCACTAATGAAATTATG
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCACTGATGTAATTATA
* ** * * ** *
6310914 TTTTAAG--T-A-CGGTGCTAGAATTATGTGTTCA-TTTAACCAATGTAAGTATA
1 TGTTAAGTTTCACCGGTG-TA-AA-TACATGTTAAGTTTCACTGATGTAATTATA
* * *
6310964 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCATTGATGGAATTATG
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCACTGATGTAATTATA
** * * * * * * *
6311016 TGTTAAG-TTCAATGTTG-AAATTACGTGTTTA-TTTTA-TCGGTGTAAGTACA
1 TGTTAAGTTTCACCGGTGTAAA-TACATGTTAAGTTTCACT-GATGTAATTATA
* ** * * * * * *
6311066 TGTTAAGTATCACTTGTGTAAGTACATGTTAAGTATCATTGGTGTAAGTACA
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCACTGATGTAATTATA
* * * * * *
6311118 TGTTAAGTATCACTGGTGTAAGTACATGTTAAGTATCACAGATGAAATTATA
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCACTGATGTAATTATA
6311170 TGTTAA
1 TGTTAA
6311176 ATTTAGTACT
Statistics
Matches: 199, Mismatches: 48, Indels: 29
0.72 0.17 0.11
Matches are distributed among these distances:
48 5 0.03
49 3 0.02
50 44 0.22
51 48 0.24
52 90 0.45
53 4 0.02
54 5 0.03
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (52 bp):
TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCACTGATGTAATTATA
Found at i:6311037 original size:25 final size:26
Alignment explanation
Indices: 6310964--6311044 Score: 67
Period size: 26 Copynumber: 3.2 Consensus size: 26
6310954 TGTAAGTATA
** * *
6310964 TGTTAAGTTTCACCGGTGTAAA-TACA
1 TGTTAAGTTTCAATGATG-AAATTACG
* * *
6310990 TGTTAAGTTTCATTGATGGAATTATG
1 TGTTAAGTTTCAATGATGAAATTACG
*
6311016 TGTTAAG-TTCAATGTTGAAATTACG
1 TGTTAAGTTTCAATGATGAAATTACG
6311041 TGTT
1 TGTT
6311045 TATTTTATCG
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
25 20 0.45
26 24 0.55
ACGTcount: A:0.28, C:0.09, G:0.21, T:0.42
Consensus pattern (26 bp):
TGTTAAGTTTCAATGATGAAATTACG
Found at i:6311060 original size:102 final size:102
Alignment explanation
Indices: 6310863--6311106 Score: 276
Period size: 102 Copynumber: 2.4 Consensus size: 102
6310853 TGGAATTAAG
* * * * **
6310863 TGTTAA-TTTCACCGGTGCAAATACATGTTAAGTTTCACTAATGAAATTATGTTTTAAGTACGGT
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCATTGATGAAATTATGTGTTAAGTACAAT
* *
6310927 GCTAGAATTATGTGTTCATTTAACCAATGTAAGTATA
66 GCTAGAATTACGTGTTCATTTAACCAATGTAAGTACA
* *
6310964 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCATTGATGGAATTATGTGTTAAGTTCAAT
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCATTGATGAAATTATGTGTTAAGTACAAT
* * * * **
6311029 G-TTGAAATTACGTGTTTATTTTATCGGTGTAAGTACA
66 GCTAG-AATTACGTGTTCATTTAACCAATGTAAGTACA
* ** * *
6311066 TGTTAAGTATCACTTGTGTAAGTACATGTTAAGTATCATTG
1 TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCATTG
6311107 GTGTAAGTAC
Statistics
Matches: 120, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
101 8 0.07
102 112 0.93
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (102 bp):
TGTTAAGTTTCACCGGTGTAAATACATGTTAAGTTTCATTGATGAAATTATGTGTTAAGTACAAT
GCTAGAATTACGTGTTCATTTAACCAATGTAAGTACA
Found at i:6311084 original size:26 final size:26
Alignment explanation
Indices: 6311055--6311156 Score: 179
Period size: 26 Copynumber: 3.9 Consensus size: 26
6311045 TATTTTATCG
6311055 GTGTAAGTACATGTTAAGTATCACTT
1 GTGTAAGTACATGTTAAGTATCACTT
6311081 GTGTAAGTACATGTTAAGTATCA-TT
1 GTGTAAGTACATGTTAAGTATCACTT
*
6311106 GGTGTAAGTACATGTTAAGTATCACTG
1 -GTGTAAGTACATGTTAAGTATCACTT
6311133 GTGTAAGTACATGTTAAGTATCAC
1 GTGTAAGTACATGTTAAGTATCAC
6311157 AGATGAAATT
Statistics
Matches: 73, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
25 2 0.03
26 70 0.96
27 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (26 bp):
GTGTAAGTACATGTTAAGTATCACTT
Found at i:6311089 original size:15 final size:12
Alignment explanation
Indices: 6311058--6311155 Score: 87
Period size: 11 Copynumber: 7.8 Consensus size: 12
6311048 TTTATCGGTG
6311058 TAAGTA-CATGT
1 TAAGTATCATGT
6311069 TAAGTATCACTTGT
1 TAAGTATCA--TGT
6311083 GTAAGTA-CATGT
1 -TAAGTATCATGT
6311095 TAAGTATCATTGGT
1 TAAGTATCA-T-GT
6311109 GTAAGTA-CATGT
1 -TAAGTATCATGT
6311121 TAAGTATCACTGGT
1 TAAGTATCA-T-GT
6311135 GTAAGTA-CATGT
1 -TAAGTATCATGT
6311147 TAAGTATCA
1 TAAGTATCA
6311156 CAGATGAAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 25
0.75 0.00 0.25
Matches are distributed among these distances:
11 24 0.32
12 15 0.20
13 4 0.05
14 13 0.18
15 18 0.24
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (12 bp):
TAAGTATCATGT
Found at i:6311172 original size:26 final size:26
Alignment explanation
Indices: 6311059--6311175 Score: 119
Period size: 26 Copynumber: 4.5 Consensus size: 26
6311049 TTATCGGTGT
* *
6311059 AAGTACATGTTAAGTATCACTTG-TGT
1 AAGTACATGTTAAGTATCAC-AGATGA
** * *
6311085 AAGTACATGTTAAGTATCATTGGTGT
1 AAGTACATGTTAAGTATCACAGATGA
* * *
6311111 AAGTACATGTTAAGTATCACTGGTGT
1 AAGTACATGTTAAGTATCACAGATGA
6311137 AAGTACATGTTAAGTATCACAGATGA
1 AAGTACATGTTAAGTATCACAGATGA
* *
6311163 AATTATATGTTAA
1 AAGTACATGTTAA
6311176 ATTTAGTACT
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
25 2 0.02
26 81 0.98
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (26 bp):
AAGTACATGTTAAGTATCACAGATGA
Found at i:6311485 original size:69 final size:68
Alignment explanation
Indices: 6311383--6311671 Score: 245
Period size: 69 Copynumber: 4.2 Consensus size: 68
6311373 AAAGACATGA
* * * * * * * *
6311383 AATCATATTGATTTTTGGGTGACTCATATGGGAGCCCTAAAGAATTTGAGTAACTTGTACAACAA
1 AATCATATT-AATTTCGGGTGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGA-AA
6311448 TACCT
64 TACCT
* * * * * * **
6311453 AATCATATTAATTTCGGGCGACTCGTAAGGGAGCCCCGAAGGATTAGAGTGACTCATATGAGAGC
1 AATCATATTAATTTCGGGTGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGA-AAT
6311518 ACCT
65 ACCT
* * *
6311522 AATCATATTAATTTCAGTTGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGAGATC
1 AATCATATTAATTTCGGGTGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGAAAT-
*
6311587 GCCT
65 ACCT
* * * ** * * * * *
6311591 AATCATATTAATTTCCGGATGACTCATGTCAGAGCTCCAAAGGATTAGAGTGAGTCATACGAGAG
1 AATCATATTAATTT-CGGGTGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGA-AA
6311656 TACCT
64 TACCT
*
6311661 AATCGTATTAA
1 AATCATATTAA
6311672 ATTTTGAGTA
Statistics
Matches: 173, Mismatches: 43, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
69 113 0.65
70 59 0.34
71 1 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.28
Consensus pattern (68 bp):
AATCATATTAATTTCGGGTGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGAAATA
CCT
Found at i:6311661 original size:139 final size:137
Alignment explanation
Indices: 6311402--6311671 Score: 328
Period size: 138 Copynumber: 1.9 Consensus size: 137
6311392 GATTTTTGGG
* * *
6311402 TGACTCATATGGGAGCCCTAAAGAATTTGAGTAACTTGTACAACAATACCTAATCATATTAATTT
1 TGACTCATATGGGAGCCCCAAAGAATTAGAGTAACTCGTACAACAATACCTAATCATATTAATTT
* * *
6311467 CGGGCGACTCGTAAGGGAGCCCCGAAGGATTAGAGTGACTCATATGAGAGCACCTAATCATATTA
66 CGGACGACTCGTAA-GGAGCCCCAAAGGATTAGAGTGACTCATACGAGAGCACCTAATCATATTA
6311532 ATTTCAGT
130 ATTTCAGT
* * * * *
6311540 TGACTCGTATGGGAGCCCCAAAGAATTAGAGTGACTCGTACGA-GATCGCCTAATCATATTAATT
1 TGACTCATATGGGAGCCCCAAAGAATTAGAGTAACTCGTACAACAAT-ACCTAATCATATTAATT
* * * * * *
6311604 TCCGGATGACTCATGTCA-GAGCTCCAAAGGATTAGAGTGAGTCATACGAGAGTACCTAATCGTA
65 T-CGGACGACTC--GTAAGGAGCCCCAAAGGATTAGAGTGACTCATACGAGAGCACCTAATCATA
6311668 TTAA
127 TTAA
6311672 ATTTTGAGTA
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
137 2 0.02
138 54 0.49
139 52 0.47
141 3 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (137 bp):
TGACTCATATGGGAGCCCCAAAGAATTAGAGTAACTCGTACAACAATACCTAATCATATTAATTT
CGGACGACTCGTAAGGAGCCCCAAAGGATTAGAGTGACTCATACGAGAGCACCTAATCATATTAA
TTTCAGT
Found at i:6315551 original size:41 final size:41
Alignment explanation
Indices: 6315455--6315602 Score: 135
Period size: 41 Copynumber: 3.7 Consensus size: 41
6315445 ACTAATGTCG
* * *
6315455 CTATAGACTCGTACTTTAGTGGCG--TTT--ACAAACGCCG
1 CTATAGACTCATACTTTAGTGGTGTTTTTAAACAAACGCCA
* * *
6315492 CTACAAACT-AGTACTTTAGTGGTGTTTTTATACAAACGCCA
1 CTATAGACTCA-TACTTTAGTGGTGTTTTTAAACAAACGCCA
* * ** * *
6315533 CTATAGACTTATATTTTAGTGACGGTTTTAAACAAACGCCG
1 CTATAGACTCATACTTTAGTGGTGTTTTTAAACAAACGCCA
*
6315574 CTATAGACTCGTACTTTAGTGGTGTTTTT
1 CTATAGACTCATACTTTAGTGGTGTTTTT
6315603 GTTTACAAAT
Statistics
Matches: 86, Mismatches: 19, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
37 19 0.22
39 3 0.03
41 63 0.73
42 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (41 bp):
CTATAGACTCATACTTTAGTGGTGTTTTTAAACAAACGCCA
Found at i:6316962 original size:2 final size:2
Alignment explanation
Indices: 6316955--6317063 Score: 218
Period size: 2 Copynumber: 54.5 Consensus size: 2
6316945 CAAGTAATCA
6316955 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
6316997 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
6317039 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
6317064 GGTATGTTTG
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 107 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.