Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 72 of 182
Found at i:21763106 original size:16 final size:18
Alignment explanation
Indices: 21763087--21763120 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
21763077 TTAGAAACCT
21763087 ATTTTAA-TTTT-TTAAA
1 ATTTTAACTTTTATTAAA
21763103 ATTTTAACTTTTATTAAA
1 ATTTTAACTTTTATTAAA
21763121 CTATTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
ATTTTAACTTTTATTAAA
Found at i:21790482 original size:16 final size:18
Alignment explanation
Indices: 21790443--21790482 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
21790433 TTCAATTTTT
21790443 AAAAAA-TAAGAAATTAA
1 AAAAAATTAAGAAATTAA
21790460 AAAAAATTAA-AAA-TAA
1 AAAAAATTAAGAAATTAA
21790476 AAAAAAT
1 AAAAAAT
21790483 ATTTTCATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 10 0.45
17 9 0.41
18 3 0.14
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (18 bp):
AAAAAATTAAGAAATTAA
Found at i:21791658 original size:19 final size:19
Alignment explanation
Indices: 21791634--21791681 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
21791624 TGAGAGTTTC
* *
21791634 TTTTATATTTCTTCTTCTG
1 TTTTATATTTCCTCTTCAG
*
21791653 TTTTATTAGTTCCTCTTCAG
1 TTTTA-TATTTCCTCTTCAG
*
21791673 TTTAATATT
1 TTTTATATT
21791682 ATGAAGCTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.17, C:0.15, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTTATATTTCCTCTTCAG
Found at i:21793030 original size:13 final size:13
Alignment explanation
Indices: 21793009--21793046 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
21792999 ACACTCAAAT
21793009 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
21793022 TTCTGAAAAGCAC
1 TTCTCAAAAGCAC
21793035 TTCTCAAAAGCA
1 TTCTCAAAAGCA
21793047 ATAAAGAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:21797257 original size:38 final size:40
Alignment explanation
Indices: 21797186--21797273 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
21797176 TGAAAAATAT
*
21797186 TTATATTGAAAAACACAACTATAAACATAATAAATA-TTTA
1 TTATATTAAAAAACACAAC-ATAAACATAATAAATATTTTA
* *
21797226 TTATATTAAAAAACAGAA-ATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACAACATAAACATAATAAATATTTTA
*
21797265 TTGTATTAA
1 TTATATTAA
21797274 GTATAATTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
38 15 0.35
39 12 0.28
40 16 0.37
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (40 bp):
TTATATTAAAAAACACAACATAAACATAATAAATATTTTA
Found at i:21798572 original size:18 final size:16
Alignment explanation
Indices: 21798546--21798592 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 16
21798536 AAGGTCAAAG
21798546 GCATTGTTACATTCTC
1 GCATTGTTACATTCTC
*
21798562 GCAATTTGTTACTTTCTC
1 GC-A-TTGTTACATTCTC
*
21798580 TCATTGTTACATT
1 GCATTGTTACATT
21798593 TCACTGAGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 11 0.42
17 2 0.08
18 13 0.50
ACGTcount: A:0.19, C:0.21, G:0.11, T:0.49
Consensus pattern (16 bp):
GCATTGTTACATTCTC
Found at i:21800544 original size:28 final size:27
Alignment explanation
Indices: 21800513--21800567 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
21800503 ATTGAAATGT
*
21800513 TTATAAAAAATATATAAAAACAATTAAA
1 TTATAAAAAAT-TATAAAAAAAATTAAA
** *
21800541 TTATATGAAATTTTAAAAAAAATTAAA
1 TTATAAAAAATTATAAAAAAAATTAAA
21800568 ATAATAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (27 bp):
TTATAAAAAATTATAAAAAAAATTAAA
Found at i:21815122 original size:21 final size:21
Alignment explanation
Indices: 21815097--21815140 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
21815087 TGTTTCATGA
*
21815097 AATATAGTAGGTAAATAAAAT
1 AATATAGTAGATAAATAAAAT
* *
21815118 AATATAGTATATAAATTAAAT
1 AATATAGTAGATAAATAAAAT
21815139 AA
1 AA
21815141 AATTAATCGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (21 bp):
AATATAGTAGATAAATAAAAT
Found at i:21820481 original size:25 final size:25
Alignment explanation
Indices: 21820439--21820517 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
21820429 CAGATCGTAT
* * *
21820439 GAGCTTTCCAATTTTCAGCTCGTGA
1 GAGCTTACCGATTCTCAGCTCGTGA
*
21820464 GAGTTTACCGATTCTCAGCTCGT-A
1 GAGCTTACCGATTCTCAGCTCGTGA
* * *
21820488 TGAGCTTATCGATTCACAACTCGTGA
1 -GAGCTTACCGATTCTCAGCTCGTGA
21820514 GAGC
1 GAGC
21820518 ATATCGTTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 42 0.95
26 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.32
Consensus pattern (25 bp):
GAGCTTACCGATTCTCAGCTCGTGA
Found at i:21820522 original size:25 final size:25
Alignment explanation
Indices: 21820457--21820528 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
21820447 CAATTTTCAG
* * * *
21820457 CTCGTGAGAGTTTACCGATTCTCAG
1 CTCGTGAGAGCTTATCGATTCACAA
21820482 CTCGT-ATGAGCTTATCGATTCACAA
1 CTCGTGA-GAGCTTATCGATTCACAA
* *
21820507 CTCGTGAGAGCATATCGTTTCA
1 CTCGTGAGAGCTTATCGATTCA
21820529 TAGCTCGTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
24 1 0.03
25 37 0.95
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.32
Consensus pattern (25 bp):
CTCGTGAGAGCTTATCGATTCACAA
Found at i:21820535 original size:25 final size:25
Alignment explanation
Indices: 21820472--21820543 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
21820462 GAGAGTTTAC
* *
21820472 CGATTCTCAGCTCGTATGAGCTTAT
1 CGATTCACAGCTCGTATGAGCATAT
*
21820497 CGATTCACAACTCGTGA-GAGCATAT
1 CGATTCACAGCTCGT-ATGAGCATAT
* * *
21820522 CGTTTCATAGCTCGTATAAGCA
1 CGATTCACAGCTCGTATGAGCA
21820544 AATATGTACA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
24 1 0.03
25 36 0.95
26 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (25 bp):
CGATTCACAGCTCGTATGAGCATAT
Found at i:21821162 original size:2 final size:2
Alignment explanation
Indices: 21821157--21821962 Score: 1612
Period size: 2 Copynumber: 403.0 Consensus size: 2
21821147 TATATATATA
21821157 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821199 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821241 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821283 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821325 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821367 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821409 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821451 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821493 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821535 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821577 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821619 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821661 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821703 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821745 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821787 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821829 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821871 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821913 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
21821955 TG TG TG TG
1 TG TG TG TG
21821963 GTCTTATCAT
Statistics
Matches: 804, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 804 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:21824119 original size:16 final size:16
Alignment explanation
Indices: 21824098--21824129 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
21824088 TGCCAAGTAC
21824098 AAATAAGGCAAGTTTT
1 AAATAAGGCAAGTTTT
21824114 AAATAAGGCAAGTTTT
1 AAATAAGGCAAGTTTT
21824130 GTGACTTATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.31
Consensus pattern (16 bp):
AAATAAGGCAAGTTTT
Found at i:21827009 original size:19 final size:19
Alignment explanation
Indices: 21826985--21827022 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
21826975 TTTGCAACTT
21826985 CAGAAACCTTATTTCCTTC
1 CAGAAACCTTATTTCCTTC
21827004 CAGAAACCTTATTTCCTTC
1 CAGAAACCTTATTTCCTTC
21827023 TTCTTGTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.32, G:0.05, T:0.37
Consensus pattern (19 bp):
CAGAAACCTTATTTCCTTC
Found at i:21830425 original size:25 final size:25
Alignment explanation
Indices: 21830394--21830443 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
21830384 ATAAGATTAC
21830394 TTATTTTTACTCTCTTTTGCTCGAT
1 TTATTTTTACTCTCTTTTGCTCGAT
*
21830419 TTATTTTTACTCTTTTTTGCTCGAT
1 TTATTTTTACTCTCTTTTGCTCGAT
21830444 AATTTAGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.12, C:0.18, G:0.08, T:0.62
Consensus pattern (25 bp):
TTATTTTTACTCTCTTTTGCTCGAT
Found at i:21830726 original size:16 final size:16
Alignment explanation
Indices: 21830701--21830747 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
21830691 TACCTTCTTT
* *
21830701 TATATAATATATGAGA
1 TATATTATATATGACA
* *
21830717 TATATTATATGTCACA
1 TATATTATATATGACA
21830733 TATA-TATATATGACA
1 TATATTATATATGACA
21830748 GTTGTGTGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
15 9 0.36
16 16 0.64
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (16 bp):
TATATTATATATGACA
Found at i:21844612 original size:32 final size:32
Alignment explanation
Indices: 21844571--21844637 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
21844561 AAAGCCATGA
* *
21844571 GGAACTAATCCTTCTATGGGGGATTAGCGAGT
1 GGAACTAATCCTTCTATAGGGGATTAGCAAGT
21844603 GGAACTAATCCTTCTATAGGGGATTAGCAAGT
1 GGAACTAATCCTTCTATAGGGGATTAGCAAGT
21844635 GGA
1 GGA
21844638 GGCATGATCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.27
Consensus pattern (32 bp):
GGAACTAATCCTTCTATAGGGGATTAGCAAGT
Found at i:21846612 original size:31 final size:31
Alignment explanation
Indices: 21846547--21846634 Score: 81
Period size: 31 Copynumber: 2.8 Consensus size: 31
21846537 TCATCTTGGG
* **
21846547 TTGCCCGAAAATGATGAGTTACCACTTCAGA
1 TTGCCCGACAATGATGAGTTACCACCCCAGA
21846578 TTGCCCGACAATGATG-GTTTACCACCCC-GAA
1 TTGCCCGACAATGATGAG-TTACCACCCCAG-A
* * * *
21846609 TTGCCTGACAACGATAACTTACCACC
1 TTGCCCGACAATGATGAGTTACCACC
21846635 TCAAATGCAC
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
30 2 0.04
31 45 0.96
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (31 bp):
TTGCCCGACAATGATGAGTTACCACCCCAGA
Found at i:21848302 original size:27 final size:27
Alignment explanation
Indices: 21848270--21848324 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
21848260 CTCCTTACAT
21848270 ACCAATTCAATATTAACCATGAATCAA
1 ACCAATTCAATATTAACCATGAATCAA
21848297 ACCAATTCAATATTAACCATGAATCAA
1 ACCAATTCAATATTAACCATGAATCAA
21848324 A
1 A
21848325 TTCTTTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.25
Consensus pattern (27 bp):
ACCAATTCAATATTAACCATGAATCAA
Found at i:21848741 original size:19 final size:18
Alignment explanation
Indices: 21848713--21848809 Score: 86
Period size: 19 Copynumber: 5.1 Consensus size: 18
21848703 ATACTGGCGT
*
21848713 ACAAAATGCATCTTGGCAC
1 ACAAAGTGCATC-TGGCAC
**
21848732 AGGAAGTGCATGCTGGCAC
1 ACAAAGTGCAT-CTGGCAC
21848751 ACAAAGTGCATCTTGGCAC
1 ACAAAGTGCATC-TGGCAC
** *
21848770 ACGGAGCGCGTATCTGGCAC
1 ACAAAGTGC--ATCTGGCAC
21848790 ACAAAGTGCATCCTGGCAC
1 ACAAAGTGCAT-CTGGCAC
21848809 A
1 A
21848810 TAAGCTTGTA
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
18 3 0.05
19 43 0.69
20 13 0.21
21 3 0.05
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.18
Consensus pattern (18 bp):
ACAAAGTGCATCTGGCAC
Found at i:21848796 original size:39 final size:38
Alignment explanation
Indices: 21848713--21848809 Score: 126
Period size: 39 Copynumber: 2.5 Consensus size: 38
21848703 ATACTGGCGT
* *
21848713 ACAAAATGCATCTTGGCACAGGAAGTGCATGCTGGCAC
1 ACAAAGTGCATCTTGGCACAGGAAGCGCATGCTGGCAC
21848751 ACAAAGTGCATCTTGGCACACGG-AGCGCGTAT-CTGGCAC
1 ACAAAGTGCATCTTGGCACA-GGAAGCGC--ATGCTGGCAC
*
21848790 ACAAAGTGCATCCTGGCACA
1 ACAAAGTGCATCTTGGCACA
21848810 TAAGCTTGTA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
38 23 0.43
39 28 0.53
40 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.26, T:0.18
Consensus pattern (38 bp):
ACAAAGTGCATCTTGGCACAGGAAGCGCATGCTGGCAC
Found at i:21853353 original size:13 final size:13
Alignment explanation
Indices: 21853335--21853397 Score: 65
Period size: 13 Copynumber: 4.8 Consensus size: 13
21853325 TTGGGAATGT
21853335 TTTTGAAAAGTAC
1 TTTTGAAAAGTAC
*
21853348 TTTTGAAAAGT-G
1 TTTTGAAAAGTAC
* *
21853360 TTGTGAAAAAGTAT
1 TTTTG-AAAAGTAC
* *
21853374 TTTTGAGAAGTGC
1 TTTTGAAAAGTAC
21853387 TTTTGAAAAGT
1 TTTTGAAAAGT
21853398 TTGGTTTAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 4 0.10
13 32 0.80
14 4 0.10
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTAC
Found at i:21853361 original size:26 final size:25
Alignment explanation
Indices: 21853335--21853397 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 25
21853325 TTGGGAATGT
21853335 TTTTGAAAAGTACTTTTGAAAAGTG
1 TTTTGAAAAGTACTTTTGAAAAGTG
* * *
21853360 TTGTGAAAAAGTATTTTTGAGAAGTG
1 TTTTG-AAAAGTACTTTTGAAAAGTG
21853386 CTTTTGAAAAGT
1 -TTTTGAAAAGT
21853398 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 4 0.12
26 24 0.75
27 4 0.12
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (25 bp):
TTTTGAAAAGTACTTTTGAAAAGTG
Found at i:21855636 original size:16 final size:17
Alignment explanation
Indices: 21855615--21855650 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21855605 AATTGGGTTG
21855615 AAAAAATT-ATTTAATT
1 AAAAAATTAATTTAATT
*
21855631 AAAAAATTAATTTATTT
1 AAAAAATTAATTTAATT
21855648 AAA
1 AAA
21855651 TTAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAAATTAATTTAATT
Found at i:21855651 original size:14 final size:14
Alignment explanation
Indices: 21855634--21855677 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
21855624 TTTAATTAAA
21855634 AAATTAATTTATTT
1 AAATTAATTTATTT
*
21855648 AAATTAATTTA-AT
1 AAATTAATTTATTT
*
21855661 AAATAATATTTATTT
1 AAATTA-ATTTATTT
21855676 AA
1 AA
21855678 GGAAATAGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
13 6 0.24
14 16 0.64
15 3 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTAATTTATTT
Found at i:21867021 original size:64 final size:65
Alignment explanation
Indices: 21866910--21867038 Score: 197
Period size: 64 Copynumber: 2.0 Consensus size: 65
21866900 CATACAATAG
21866910 CACATCTAGTTAAGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
* * ** * *
21866975 CACATCTAGTTAGGAGTATTTGA-TTCATTTCGGTCATAGCATCCTAATTATTTGGCATAAGCAT
1 CACATCTAGTTAAGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
21867039 AGATATATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
64 37 0.64
65 21 0.36
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (65 bp):
CACATCTAGTTAAGAGCATTTGATTTCATTTCAATCATAGCACCCTAATTATTTGACATAAGCAT
Found at i:21867400 original size:45 final size:45
Alignment explanation
Indices: 21867349--21867446 Score: 108
Period size: 45 Copynumber: 2.2 Consensus size: 45
21867339 GAAGTTGCAG
* * * *
21867349 GAAGCAGACCGAAGAT-TTCAGATATTATCTCCATGTATCGGTTAT
1 GAAGCAGACCAAAAATGATCAG-TATTATCTCCATGTATCGGCTAT
* * *
21867394 GAAGCAGATCAAAAATGATGAGTCTTATCTCCATGTATCGGCTAT
1 GAAGCAGACCAAAAATGATCAGTATTATCTCCATGTATCGGCTAT
*
21867439 GGAGCAGA
1 GAAGCAGA
21867447 TTTTAGCCAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
45 41 0.93
46 3 0.07
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (45 bp):
GAAGCAGACCAAAAATGATCAGTATTATCTCCATGTATCGGCTAT
Found at i:21867410 original size:176 final size:176
Alignment explanation
Indices: 21867103--21867491 Score: 609
Period size: 176 Copynumber: 2.2 Consensus size: 176
21867093 CGGTGAAGAT
* * *
21867103 ACCAGCCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAATATACAGGTCTTATCTTTCTGAAAT
1 ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTCGAAGATACAGGTCTTATCTTTCTGAAAT
* * *
21867168 TGCAGGAAGTAGACCGAAGATTTCAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAAAA
66 TGCAGGAAGCAGACCGAAGATTTCAGATATTATCTCCATGTATCGGCTATGAAGAAGATAAAAAA
*
21867233 TGGCGAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCC
131 TGACGAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCC
* *
21867279 ACTAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTCGAAGATACAGGTCTTATCTTTCTGAAGT
1 ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTCGAAGATACAGGTCTTATCTTTCTGAAAT
* * *
21867344 TGCAGGAAGCAGACCGAAGATTTCAGATATTATCTCCATGTATCGGTTATGAAGCAGATCAAAAA
66 TGCAGGAAGCAGACCGAAGATTTCAGATATTATCTCCATGTATCGGCTATGAAGAAGATAAAAAA
* *
21867409 TGATGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCC
131 TGACGAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCC
* *
21867455 ACCAGTCTTATCTCTCTG-AGATAGCAAGAGAGCAGGT
1 ACCAGCCTTATCTCTCTGAAGTTA-C-AGAGAGCAGGT
21867492 TGTGTATCAA
Statistics
Matches: 194, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
175 4 0.02
176 179 0.92
177 11 0.06
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (176 bp):
ACCAGCCTTATCTCTCTGAAGTTACAGAGAGCAGGTCGAAGATACAGGTCTTATCTTTCTGAAAT
TGCAGGAAGCAGACCGAAGATTTCAGATATTATCTCCATGTATCGGCTATGAAGAAGATAAAAAA
TGACGAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCC
Found at i:21867688 original size:244 final size:245
Alignment explanation
Indices: 21867260--21868188 Score: 825
Period size: 244 Copynumber: 3.8 Consensus size: 245
21867250 ATATATCGGC
* * * * *
21867260 TATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTTA-C-AGAGAGCAGGTCGAAGATA
1 TATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTCAAGGTAGCAAGAGAGCAGATCGAAGATA
* * * *
21867323 CAGGTCTTATCTT-TCTGAAGTTGCAGGAAGCAGACCG-AAGATTTCAGATATTATCTCCATGTA
66 TAGGTCTTATCTTCT-TGAAGTTGCAGGAAGCAGACTGAAAG-TTACAGATCTTATCTCCATGTA
* * * * **
21867386 TCGGTTATGAAGCAGATCAAAAATGATGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
129 TCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTT
21867451 AGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGTGTATCAAA
194 AGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGTGTATCAAA
*
21867503 TATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT-AAGGTAGCAAGAGAGCAGATTGAAGATA
1 TATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTCAAGGTAGCAAGAGAGCAGATCGAAGATA
21867567 TAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATC
66 TAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATC
*
21867632 GGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
131 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
* * * *
21867697 CCACCAGTTTTATCTCTCTGAAGTTA-C-AGAGAGCAGGTTGAAG-ATACAAGTCT
196 CCACCAGTCTTATCTCTCTG-AGATAGCAAGAGAGCAGGTTG-TGTAT-CAA---A
**** * ** * * ** * * * *
21867750 TATCTTCCTGAAGTTACAGGAAGCATACTGAAAATTACAGATCTTATCTCCATGTATCGGCTATG
1 TATGGAGCAG-A-TT----TTAGC-CAC-CAACCTT----ATC-TCTCTCAAGGTA---GC-AAG
*** * * * * *** **
21867815 -GAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTA-TCGACTATGG-AGCAGA-TTTTAGCCA
49 AGAGCAGATCGAAGATATAG-GTCTTATCTTCTTGAAGTTG-C-A-GGAAGCAGACTGAAAGTTA
* * *
21867876 CCAG-CCTTATCTCTC-TG-A--GG---T--AGCA-A--G-AGA--GC-AG----GT-T--GTGT
110 -CAGATCTTATCTC-CATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGT
21867917 ATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGT
173 ATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGT
21867982 GTATCAAA
238 GTATCAAA
*
21867990 TATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT-AAGGTAGCAAGAGAGCAGATTGAAGATA
1 TATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTCAAGGTAGCAAGAGAGCAGATCGAAGATA
21868054 TAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATC
66 TAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATC
* **
21868119 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTGTCTCCATGTATCTACTATGGAGCAGATTTTAG
131 GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
21868184 CCACC
196 CCACC
21868189 GGCTTTGTCT
Statistics
Matches: 534, Mismatches: 87, Indels: 129
0.71 0.12 0.17
Matches are distributed among these distances:
220 2 0.00
221 11 0.02
222 30 0.06
223 20 0.04
225 2 0.00
226 4 0.01
227 4 0.01
228 4 0.01
230 4 0.01
231 1 0.00
232 4 0.01
233 3 0.01
234 6 0.01
236 2 0.00
237 2 0.00
238 2 0.00
239 1 0.00
240 5 0.01
241 2 0.00
242 10 0.02
243 100 0.19
244 198 0.37
245 9 0.02
246 1 0.00
247 5 0.01
248 1 0.00
249 2 0.00
250 2 0.00
251 2 0.00
253 6 0.01
254 3 0.01
255 4 0.01
256 1 0.00
257 4 0.01
259 4 0.01
260 4 0.01
261 4 0.01
262 2 0.00
264 20 0.04
265 30 0.06
266 11 0.02
267 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (245 bp):
TATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTCAAGGTAGCAAGAGAGCAGATCGAAGATA
TAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCTCCATGTATC
GGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAG
CCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGTTGTGTATCAAA
Found at i:21867798 original size:176 final size:178
Alignment explanation
Indices: 21867494--21867913 Score: 677
Period size: 176 Copynumber: 2.4 Consensus size: 178
21867484 GAGCAGGTTG
* * * *
21867494 TGTATCAAATATGGAGCAGATTTTAGCCACCAACCTTATCTCTCT-AAGGTAGCAAGAGAGCAGA
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGGTAGCAAGAGAGCAGG
* * * * *
21867558 TTGAAGATATAGGTCTTATCTTCTTGAAGTTGCAGGAAGCAGACTGAAAGTTACAGATCTTATCT
66 TTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAATTACAGATCTTATCT
21867623 CCATGTATCGGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCA
131 CCATGTATCGGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCA
* ** *
21867671 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGTTTTATCTCTCTGAAGTTA-C-AGAGAGCAGG
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGGTAGCAAGAGAGCAGG
*
21867734 TTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCATACTGAAAATTACAGATCTTATCT
66 TTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAATTACAGATCTTATCT
*
21867799 CCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTCCA
131 CCATGTATCGGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCA
21867847 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTG-AGGTAGCAAGAGAGCAGG
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGGTAGCAAGAGAGCAGG
21867911 TTG
66 TTG
21867914 TGTATCGGCT
Statistics
Matches: 221, Mismatches: 19, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
175 4 0.02
176 159 0.72
177 53 0.24
178 5 0.02
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (178 bp):
TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAAGGTAGCAAGAGAGCAGG
TTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACTGAAAATTACAGATCTTATCT
CCATGTATCGGCTATGGAGCAGATCGAAGATGGCAAGTCTTATCTCCA
Found at i:21867907 original size:420 final size:420
Alignment explanation
Indices: 21867103--21867976 Score: 1315
Period size: 420 Copynumber: 2.1 Consensus size: 420
21867093 CGGTGAAGAT
* * *
21867103 ACCAGCCTTATCTCTCTGAA-GTTGC-AGAGAGCAGGTTGAATATACAGGTCTTATCTTTCTGAA
1 ACCAGCCTTATCTCTCT-AAGGTAGCAAGAGAGCAGATTGAAGATACAGGTCTTATCTTTCTGAA
* *
21867166 ATTGCAGGAAGTAGACCGAAGATTTCAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAA
65 ATTGCAGGAAGCAGACCGAAGATTACAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAA
* *
21867231 AATGGCGAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCT
130 AATGGCAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCT
* * *
21867296 GAAGTTACAGAGAGCAGGTCGAAGATACAGGTCTTATCTTTCTGAAGTTGCAGGAAGCAGACCGA
195 GAAGTTACAGAGAGCAGGTCGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACCGA
* * * *
21867361 AGATTTCAGATATTATCTCCATGTATCGGTTATGAAGCAGATCAAAAATGATGAGTCTTATCTCC
260 AAATTACAGATATTATCTCCATGTATCGGCTATGAAGCAGATCAAAAATGACGAGTCTTATCTCC
* *
21867426 ATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGG
325 ATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGG
21867491 TTGTGTATCAAATATGGAGCAGATTTTAGCC
390 TTGTGTATCAAATATGGAGCAGATTTTAGCC
* *
21867522 ACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGATATAGGTCTTATC-TTCTTGAA
1 ACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGATACAGGTCTTATCTTTC-TGAA
* * * **
21867586 GTTGCAGGAAGCAGACTGAA-AGTTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGA
65 ATTGCAGGAAGCAGACCGAAGA-TTACAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAA
* * **
21867650 AGATGGCAAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGTTTTATCTCTC
129 AAATGGCAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTC
* * *
21867715 TGAAGTTACAGAGAGCAGGTTGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCATACTG
194 TGAAGTTACAGAGAGCAGGTCGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACCG
* * * * *
21867780 AAAATTACAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCGAAGATGGCGAGTCTTATCTC
259 AAAATTACAGATATTATCTCCATGTATCGGCTATGAAGCAGATCAAAAATGACGAGTCTTATCTC
*
21867845 CATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
324 CATGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAG
***
21867910 GTTGTGTATCGGCTATGGAGCAGATTTTAGCC
389 GTTGTGTATCAAATATGGAGCAGATTTTAGCC
* * *
21867942 ACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAG
1 ACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAG
21867977 GTTGTGTATC
Statistics
Matches: 408, Mismatches: 43, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
418 2 0.00
419 24 0.06
420 382 0.94
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (420 bp):
ACCAGCCTTATCTCTCTAAGGTAGCAAGAGAGCAGATTGAAGATACAGGTCTTATCTTTCTGAAA
TTGCAGGAAGCAGACCGAAGATTACAGATCTTATCTCCATGTATCGGCTATGGAGAAGATAAAAA
ATGGCAAGTCTTATCTCCATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTG
AAGTTACAGAGAGCAGGTCGAAGATACAAGTCTTATCTTCCTGAAGTTACAGGAAGCAGACCGAA
AATTACAGATATTATCTCCATGTATCGGCTATGAAGCAGATCAAAAATGACGAGTCTTATCTCCA
TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAGGT
TGTGTATCAAATATGGAGCAGATTTTAGCC
Found at i:21867955 original size:67 final size:67
Alignment explanation
Indices: 21867847--21868043 Score: 331
Period size: 67 Copynumber: 2.9 Consensus size: 67
21867837 CTTATCTCCA
21867847 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
21867912 TG
66 TG
* * *
21867914 TGTATCGGCTATGGAGCAGATTTTAGCCACCAGTCTTATCTCTCTGAGATAGCAAGAGAGCAGGT
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
21867979 TG
66 TG
* * * *
21867981 TGTATCAAATATGGAGCAGATTTTAGCCACCAACCTTATCTCTCTAAGGTAGCAAGAGAGCAG
1 TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAG
21868044 ATTGAAGATA
Statistics
Matches: 120, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
67 120 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (67 bp):
TGTATCGACTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGTAGCAAGAGAGCAGGT
TG
Found at i:21869697 original size:15 final size:14
Alignment explanation
Indices: 21869677--21869728 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
21869667 TTTTGAATTG
21869677 TTGTATATTATGTTT
1 TTGTATATTAT-TTT
21869692 TTGTATATATATATTTT
1 TTG--TATAT-TATTTT
*
21869709 TTATATATTATTTT
1 TTGTATATTATTTT
*
21869723 ATGTAT
1 TTGTAT
21869729 TTTCTTTTGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 10 0.32
15 8 0.26
17 10 0.32
18 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (14 bp):
TTGTATATTATTTT
Found at i:21869709 original size:17 final size:16
Alignment explanation
Indices: 21869680--21869728 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
21869670 TGAATTGTTG
21869680 TATATTATGTTTTTGTA
1 TATATTAT-TTTTTGTA
21869697 TATA-TATATTTTT-TA
1 TATATTAT-TTTTTGTA
*
21869712 TATATTATTTTATGTA
1 TATATTATTTTTTGTA
21869728 T
1 T
21869729 TTTCTTTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 10 0.36
16 14 0.50
17 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATATTATTTTTTGTA
Found at i:21869715 original size:13 final size:14
Alignment explanation
Indices: 21869689--21869722 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 14
21869679 GTATATTATG
21869689 TTTTTGTATATATATA
1 TTTTT-TATATAT-TA
21869705 TTTTTTATATATTA
1 TTTTTTATATATTA
21869719 TTTT
1 TTTT
21869723 ATGTATTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 7 0.39
16 5 0.28
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TTTTTTATATATTA
Found at i:21869907 original size:26 final size:25
Alignment explanation
Indices: 21869863--21869928 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
21869853 GTATTTTATT
* *
21869863 TGTATAGTTTCTTTAAAATCTTTAA
1 TGTATATTTTCTTTAAAATCTGTAA
* *
21869888 TGTATATTTTCTTTCCAAATCTGTCA
1 TGTATATTTTCTTT-AAAATCTGTAA
21869914 TGTAAATATTTTCTT
1 TGT--ATATTTTCTT
21869929 CTAATTTATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 13 0.38
26 11 0.32
28 10 0.29
ACGTcount: A:0.27, C:0.12, G:0.08, T:0.53
Consensus pattern (25 bp):
TGTATATTTTCTTTAAAATCTGTAA
Found at i:21870056 original size:13 final size:13
Alignment explanation
Indices: 21870038--21870062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21870028 TTTGTATATA
21870038 TATTATTTTCATT
1 TATTATTTTCATT
21870051 TATTATTTTCAT
1 TATTATTTTCAT
21870063 ATAAATACGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTTCATT
Found at i:21875693 original size:40 final size:40
Alignment explanation
Indices: 21875645--21875767 Score: 133
Period size: 40 Copynumber: 3.1 Consensus size: 40
21875635 TTTCTTGTTG
*
21875645 TTTGGTATTCTTCCATAATTTTTGGTACTTTCTCATT-TTT
1 TTTGGTATTCTTCCATAATTTTTGGTACTTCCTC-TTATTT
* * * *
21875685 TTTTGTATTC-CCTCATAATTTTTGATACTTCCTCATATTT
1 TTTGGTATTCTTC-CATAATTTTTGGTACTTCCTCTTATTT
* ** *
21875725 TATGGTATTCTTTTATAATTTTTGGCACTTCCTCTTATTT
1 TTTGGTATTCTTCCATAATTTTTGGTACTTCCTCTTATTT
21875765 TTT
1 TTT
21875768 TAATTTTCCC
Statistics
Matches: 66, Mismatches: 14, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.03
40 64 0.97
ACGTcount: A:0.17, C:0.16, G:0.08, T:0.59
Consensus pattern (40 bp):
TTTGGTATTCTTCCATAATTTTTGGTACTTCCTCTTATTT
Found at i:21875824 original size:81 final size:79
Alignment explanation
Indices: 21875653--21875829 Score: 189
Period size: 81 Copynumber: 2.2 Consensus size: 79
21875643 TGTTTGGTAT
* * *
21875653 TCTTCCATAATTTTTGGTACTTTCTCATTTTTTTTTGTATTCCCTCATAATTTTTGATACTTCCT
1 TCTT-CATAATTTTTGGCACTTCCTCATTTTTTTTTATATTCCCTCATAATTTTTGATACTTCCT
* *
21875718 CATATTTTATGGTAT
65 CATATTTTATGGAAA
* * *
21875733 TCTTTTATAATTTTTGGCACTTCCTC-TTATTTTTTTAATTTTCCCTCGTAATTTTTGATA-TTC
1 TC-TTCATAATTTTTGGCACTTCCTCATT-TTTTTTT-ATATTCCCTCATAATTTTTGATACTTC
*
21875796 TCTCATAGTTTT-TTGAACA
63 -CTCATA-TTTTATGGAA-A
21875815 TCTTCATAATTTTTG
1 TCTTCATAATTTTTG
21875830 ATACATCATC
Statistics
Matches: 81, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
79 2 0.02
80 30 0.37
81 43 0.53
82 6 0.07
ACGTcount: A:0.19, C:0.17, G:0.07, T:0.56
Consensus pattern (79 bp):
TCTTCATAATTTTTGGCACTTCCTCATTTTTTTTTATATTCCCTCATAATTTTTGATACTTCCTC
ATATTTTATGGAAA
Found at i:21875896 original size:20 final size:20
Alignment explanation
Indices: 21875649--21876225 Score: 112
Period size: 20 Copynumber: 29.0 Consensus size: 20
21875639 TTGTTGTTTG
*
21875649 GTATTCT-TCCATAATTTTTG
1 GTATTCTCT-CATAATTTTTT
**
21875669 GTACTT-TCTCATTTTTTTTT
1 GTA-TTCTCTCATAATTTTTT
*
21875689 GTATTCCCTCATAA-TTTTT
1 GTATTCTCTCATAATTTTTT
*
21875708 GATACTTC-CTCAT-ATTTTATG
1 G-TA-TTCTCTCATAATTTT-TT
* * *
21875729 GTATTCTTTTATAATTTTTG
1 GTATTCTCTCATAATTTTTT
* * *
21875749 GCACTTC-CTCTTATTTTTTT
1 GTA-TTCTCTCATAATTTTTT
* * * *
21875769 AATTTTCCCTCGTAA-TTTTT
1 -GTATTCTCTCATAATTTTTT
*
21875789 GATATTCTCTCATAGTTTTTT
1 G-TATTCTCTCATAATTTTTT
* *
21875810 GAACATCT-TCATAA-TTTTT
1 GTA-TTCTCTCATAATTTTTT
*
21875829 G-ATACATCATCAT-ATTTTTT
1 GTATTC-TC-TCATAATTTTTT
* **
21875849 GGTACTTTCTCTTCTTTTTTTTTCT
1 -GTA--TTCTC-TCATAATTTTT-T
21875874 GTATTCTCTCATAATTTTTT
1 GTATTCTCTCATAATTTTTT
*
21875894 GTACTTC-CTCGTACA--TTTT
1 GTA-TTCTCTCATA-ATTTTTT
* * *
21875913 G-ATACATCCTTATAATTTTTA
1 GTATTC-T-CTCATAATTTTTT
* * *
21875934 GTACATC-CTTCTTCATTTTTT
1 GTA-TTCTC-TCATAATTTTTT
* * *
21875955 ATACTT-TCTC-TGATTTTATA
1 GTA-TTCTCTCATAATTTT-TT
* *
21875975 ATATTCTCTCATAATTTTCT
1 GTATTCTCTCATAATTTTTT
* *
21875995 GTACT-TATCAT--TTTTTT
1 GTATTCTCTCATAATTTTTT
*
21876012 AGTATTCCCTCAT-ATTTTTT
1 -GTATTCTCTCATAATTTTTT
* *
21876032 GTATTATCTCATAA-GTTTT
1 GTATTCTCTCATAATTTTTT
*
21876051 GTACATCT-TCATAATTTTTT
1 GTA-TTCTCTCATAATTTTTT
*
21876071 GTGCA-TC-CTCGT-ATTTTTT
1 GT--ATTCTCTCATAATTTTTT
* *
21876090 GGTA-TCCCTCGTAATTTTTT
1 -GTATTCTCTCATAATTTTTT
21876110 GTACTTC-CTCAT-ATTTTTT
1 GTA-TTCTCTCATAATTTTTT
*
21876129 AGTATT-TCCTCATGA-TTTTT
1 -GTATTCT-CTCATAATTTTTT
* * * *
21876149 -TATAC-ATC-TAAGTTTTG
1 GTATTCTCTCATAATTTTTT
* *
21876166 GTACTCCCTCATAATTTTTT
1 GTATTCTCTCATAATTTTTT
* *
21876186 GTACTTC-CTCGTATTTTTTT
1 GTA-TTCTCTCATAATTTTTT
*
21876206 GTACTTC-CTCATGATTTTTT
1 GTA-TTCTCTCATAATTTTTT
21876226 ATACATCATC
Statistics
Matches: 409, Mismatches: 85, Indels: 126
0.66 0.14 0.20
Matches are distributed among these distances:
16 2 0.00
17 14 0.03
18 16 0.04
19 91 0.22
20 190 0.46
21 71 0.17
22 8 0.02
23 6 0.01
24 10 0.02
25 1 0.00
ACGTcount: A:0.19, C:0.18, G:0.07, T:0.55
Consensus pattern (20 bp):
GTATTCTCTCATAATTTTTT
Found at i:21875954 original size:84 final size:84
Alignment explanation
Indices: 21875791--21875946 Score: 192
Period size: 84 Copynumber: 1.9 Consensus size: 84
21875781 TAATTTTTGA
* * * * *
21875791 TATTCTCTCATAGTTTTTTGAACATCTTCATAATTTTTGATACATCATCATATTTTTTGGTACTT
1 TATTCTCTCATAATTTTTTGAACATCCTCATAATTTTTGATACATCATCATAATTTTTAGTACTA
21875856 TCTCTTCTTTTTTTTTCTG
66 TCTCTTCTTTTTTTTTCTG
* * * * *
21875875 TATTCTCTCATAATTTTTTGTACTTCCTCGTACA-TTTTGATACATCCTTATAATTTTTAGTAC-
1 TATTCTCTCATAATTTTTTGAACATCCTCATA-ATTTTTGATACATCATCATAATTTTTAGTACT
21875938 ATC-CTTCTT
65 ATCTCTTCTT
21875947 CATTTTTTAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
82 6 0.10
83 2 0.03
84 52 0.85
85 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.06, T:0.54
Consensus pattern (84 bp):
TATTCTCTCATAATTTTTTGAACATCCTCATAATTTTTGATACATCATCATAATTTTTAGTACTA
TCTCTTCTTTTTTTTTCTG
Found at i:21876042 original size:19 final size:19
Alignment explanation
Indices: 21875976--21876072 Score: 58
Period size: 19 Copynumber: 5.1 Consensus size: 19
21875966 GATTTTATAA
* *
21875976 TATTCTCTCATAATTTTCTG
1 TATTATCTCAT-ATTTTTTG
21875996 TACTTA--TCAT-TTTTTTAG
1 TA-TTATCTCATATTTTTT-G
**
21876014 TATTCCCTCATATTTTTTG
1 TATTATCTCATATTTTTTG
**
21876033 TATTATCTCATAAGTTTTG
1 TATTATCTCATATTTTTTG
*
21876052 TA-CATCTTCATAATTTTTTG
1 TATTATC-TCAT-ATTTTTTG
21876072 T
1 T
21876073 GCATCCTCGT
Statistics
Matches: 60, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
17 7 0.12
18 6 0.10
19 30 0.50
20 15 0.25
21 2 0.03
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (19 bp):
TATTATCTCATATTTTTTG
Found at i:21876086 original size:19 final size:19
Alignment explanation
Indices: 21876064--21876128 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
21876054 CATCTTCATA
21876064 ATTTTTTGTGCATCCTCGT
1 ATTTTTTGTGCATCCTCGT
*
21876083 ATTTTTTG-GTATCCCTCGT
1 ATTTTTTGTGCAT-CCTCGT
* * *
21876102 AATTTTTTGTACTTCCTCAT
1 -ATTTTTTGTGCATCCTCGT
21876122 ATTTTTT
1 ATTTTTT
21876129 AGTATTTCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
18 3 0.08
19 21 0.55
20 13 0.34
21 1 0.03
ACGTcount: A:0.14, C:0.18, G:0.11, T:0.57
Consensus pattern (19 bp):
ATTTTTTGTGCATCCTCGT
Found at i:21876147 original size:40 final size:39
Alignment explanation
Indices: 21875662--21876257 Score: 204
Period size: 40 Copynumber: 15.0 Consensus size: 39
21875652 TTCTTCCATA
* * * *
21875662 ATTTTTGGTACTTTCTCATTTTTTTTTGTA-TTCCCTCAT
1 ATTTTTTGTACTTCCTCATATTTTTTAGTACTT-CCTCAT
* * * * *
21875701 AATTTTTGATACTTCCTCATATTTTATGGTA-TTCTTTTAT
1 ATTTTTTG-TACTTCCTCATATTTTTTAGTACTTC-CTCAT
* * * * * *
21875741 AATTTTTGGCACTTCCTCTTATTTTTTTAAT-TTTCCCTCGT
1 -ATTTTTTGTACTTCCTCATA-TTTTTTAGTACTT-CCTCAT
* * * *
21875782 AATTTTTGATA-TTCTCTCATAGTTTTTT-GAACATCTTCAT
1 ATTTTTTG-TACTTC-CTCATA-TTTTTTAGTACTTCCTCAT
* * * * *
21875822 AATTTTTGATACATCATCATATTTTTTGGTACTTTCTCTTCTTT
1 ATTTTTTG-TACTTCCTCATATTTTTTAGTAC-TTC-C-TC-AT
* *
21875866 TTTTTTCTGTA-TTCTCTCATAATTTTTT-GTACTTCCTCGT
1 ATTTTT-TGTACTTC-CTCAT-ATTTTTTAGTACTTCCTCAT
** * * * * *
21875906 ACATTTTGATACATCCTTATAATTTTTAGTACATCCTTCTT
1 ATTTTTTG-TACTTCCTCATATTTTTTAGTACTTCC-TCAT
* * * *
21875947 CATTTTTTATACTTTCTC-TGATTTTATAATA-TTCTCTCAT
1 -ATTTTTTGTACTTCCTCAT-ATTTTTTAGTACTTC-CTCAT
* *
21875987 AATTTTCTGTACTT-ATCAT-TTTTTTAGTA-TTCCCTCAT
1 -ATTTTTTGTACTTCCTCATATTTTTTAGTACTT-CCTCAT
* ** * *
21876025 ATTTTTTGTA-TTATCTCATAAGTTTT-GTACATCTTCAT
1 ATTTTTTGTACTT-CCTCATATTTTTTAGTACTTCCTCAT
* * * * * *
21876063 AATTTTTTGTGCATCCTCGTATTTTTTGGTA-TCCCTCGT
1 -ATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCAT
*
21876102 AATTTTTTGTACTTCCTCATATTTTTTAGTATTTCCTCAT
1 -ATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCAT
* * * * *
21876142 GATTTTTTATACAT-CT-A-A-GTTTTGGTACTCCCTCAT
1 -ATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCAT
* *
21876178 AATTTTTTGTACTTCCTCGTATTTTTTTGTACTTCCTCAT
1 -ATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCAT
* * * ** * *
21876218 GATTTTTTATACATCATCATAAATTTTGGTACTTTCTCAT
1 -ATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCAT
21876258 TACTCTTGGT
Statistics
Matches: 408, Mismatches: 110, Indels: 77
0.69 0.18 0.13
Matches are distributed among these distances:
36 27 0.07
37 12 0.03
38 28 0.07
39 81 0.20
40 167 0.41
41 55 0.13
42 7 0.02
43 7 0.02
44 15 0.04
45 9 0.02
ACGTcount: A:0.20, C:0.18, G:0.07, T:0.55
Consensus pattern (39 bp):
ATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCAT
Found at i:21876190 original size:76 final size:75
Alignment explanation
Indices: 21876086--21876232 Score: 249
Period size: 76 Copynumber: 1.9 Consensus size: 75
21876076 TCCTCGTATT
* *
21876086 TTTTGGTATCCCTCGTAATTTTTTGTACTTCCTCATATTTTTTAGTATTTCCTCATGATTTTTTA
1 TTTTGGTATCCCTCATAATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCATGATTTTTTA
21876151 TACATCTAAG
66 TACATCTAAG
* *
21876161 TTTTGGTACTCCCTCATAATTTTTTGTACTTCCTCGTATTTTTTTGTACTTCCTCATGATTTTTT
1 TTTTGGTA-TCCCTCATAATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCATGATTTTTT
21876226 ATACATC
65 ATACATC
21876233 ATCATAAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
75 8 0.12
76 59 0.88
ACGTcount: A:0.18, C:0.19, G:0.09, T:0.54
Consensus pattern (75 bp):
TTTTGGTATCCCTCATAATTTTTTGTACTTCCTCATATTTTTTAGTACTTCCTCATGATTTTTTA
TACATCTAAG
Found at i:21876443 original size:20 final size:21
Alignment explanation
Indices: 21876414--21876458 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
21876404 AAAGTTATGA
21876414 TTTTTGGTATTCCCTCA-ATT
1 TTTTTGGTATTCCCTCATATT
* *
21876434 TTTTTTGTATTTCCTCATATT
1 TTTTTGGTATTCCCTCATATT
21876455 TTTT
1 TTTT
21876459 AATATACTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.13, C:0.16, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTTTGGTATTCCCTCATATT
Found at i:21889744 original size:30 final size:30
Alignment explanation
Indices: 21889708--21889770 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
21889698 ACTTATTTTA
21889708 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
21889738 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
21889768 TTG
1 TTG
21889771 CTTGTTAAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:21899448 original size:18 final size:18
Alignment explanation
Indices: 21899427--21899482 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
21899417 GCAATTGCAT
21899427 ATAATTTTTATTTGTATA
1 ATAATTTTTATTTGTATA
** *
21899445 ATAA--TAAATTTTTAT-
1 ATAATTTTTATTTGTATA
21899460 ATAATTTTTATTTGTATA
1 ATAATTTTTATTTGTATA
21899478 ATAAT
1 ATAAT
21899483 AAATTTTTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
15 4 0.14
16 8 0.28
17 8 0.28
18 9 0.31
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
ATAATTTTTATTTGTATA
Found at i:21899467 original size:33 final size:33
Alignment explanation
Indices: 21899425--21899490 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
21899415 TTGCAATTGC
21899425 ATATAATTTTTATTTGTATAATAATAAATTTTT
1 ATATAATTTTTATTTGTATAATAATAAATTTTT
21899458 ATATAATTTTTATTTGTATAATAATAAATTTTT
1 ATATAATTTTTATTTGTATAATAATAAATTTTT
21899491 CTCTCAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
ATATAATTTTTATTTGTATAATAATAAATTTTT
Found at i:21909854 original size:46 final size:46
Alignment explanation
Indices: 21909338--21909834 Score: 845
Period size: 46 Copynumber: 10.8 Consensus size: 46
21909328 TGTAACCCGC
21909338 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909384 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909430 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909476 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909522 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909568 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909614 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
21909660 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
21909706 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
* *** * * * *
21909752 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
21909799 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
21909835 ATGCTCAACC
Statistics
Matches: 430, Mismatches: 16, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
45 1 0.00
46 393 0.91
47 34 0.08
48 2 0.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:21919225 original size:3 final size:3
Alignment explanation
Indices: 21919217--21919345 Score: 95
Period size: 3 Copynumber: 42.3 Consensus size: 3
21919207 ATAAATAAAT
* * * *
21919217 ATA ATA ATA ATA ATA GAAA ATA ATA ATA GTA CTA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
21919263 ATG ATA ATA ATA ATA ATA TATA A-A AAA ATA ATG ATA TTG ATA CATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA -ATA
21919309 A-A TATAA ATA GA-A AT- ATA ATA ATA ATA ATA ATA ATA A
1 ATA -AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21919346 AAGTTTTAAA
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
2 6 0.06
3 82 0.82
4 11 0.11
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:21919483 original size:29 final size:30
Alignment explanation
Indices: 21919451--21919526 Score: 79
Period size: 29 Copynumber: 2.6 Consensus size: 30
21919441 ATATAAAAAA
* *
21919451 AAATA-ATAATGAAAATAATATTA-ATATAT
1 AAATAGATAAT-AAAATAATAGTAGAAATAT
*
21919480 AAATAGA-AATATAATAATAGTAGAAATAT
1 AAATAGATAATAAAATAATAGTAGAAATAT
*
21919509 AAATAGATAA-ATAATAAT
1 AAATAGATAATAAAATAAT
21919527 TAGATAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 10 0.24
29 28 0.68
30 3 0.07
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (30 bp):
AAATAGATAATAAAATAATAGTAGAAATAT
Found at i:21919490 original size:14 final size:16
Alignment explanation
Indices: 21919473--21919526 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 16
21919463 AAATAATATT
21919473 AATATATAA-A-TAGA
1 AATATATAATAGTAGA
21919487 AATATAATAATAGTAGA
1 AATAT-ATAATAGTAGA
*
21919504 AATATA-AATAG-ATA
1 AATATATAATAGTAGA
21919518 AATA-ATAAT
1 AATATATAAT
21919527 TAGATAAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
13 1 0.03
14 14 0.40
15 9 0.26
16 2 0.06
17 9 0.26
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
AATATATAATAGTAGA
Found at i:21919490 original size:23 final size:24
Alignment explanation
Indices: 21919463--21919524 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
21919453 ATAATAATGA
* *
21919463 AAATAATATTAATA-TATAAATAG
1 AAATAATAATAATAGTAGAAATAG
*
21919486 AAAT-ATAATAATAGTAGAAATAT
1 AAATAATAATAATAGTAGAAATAG
21919509 AAATAGATAAATAATA
1 AAATA-AT-AATAATA
21919525 ATTAGATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
22 8 0.25
23 15 0.47
25 2 0.06
26 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (24 bp):
AAATAATAATAATAGTAGAAATAG
Found at i:21919525 original size:15 final size:15
Alignment explanation
Indices: 21919473--21919542 Score: 67
Period size: 15 Copynumber: 4.7 Consensus size: 15
21919463 AAATAATATT
21919473 AATATATAAATAGA-A
1 AATA-ATAAATAGATA
*
21919488 ATATAAT-AATAGTAGA
1 A-ATAATAAATAG-ATA
21919504 AAT-ATAAATAGATA
1 AATAATAAATAGATA
*
21919518 AATAATAATTAGATA
1 AATAATAAATAGATA
21919533 AATAA-AAATA
1 AATAATAAATA
21919543 ACATTGGAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
14 16 0.34
15 26 0.55
16 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (15 bp):
AATAATAAATAGATA
Found at i:21919594 original size:29 final size:29
Alignment explanation
Indices: 21919476--21919594 Score: 88
Period size: 29 Copynumber: 4.1 Consensus size: 29
21919466 TAATATTAAT
* *
21919476 ATATAAATAGAAATATAATAATAGTAGAA
1 ATATAAATAGAAACATAATAATAATAGAA
21919505 ATATAAATAGATAA-ATAATAAT--TAGATA
1 ATATAAATAGA-AACATAATAATAATAGA-A
* * *
21919533 A-ATAAA-A-ATAACATTGGAATAACAAAATAA
1 ATATAAATAGA-AACA-T--AATAATAATAGAA
*
21919563 ATATAAATAGAAACATAATAATAATAGCA
1 ATATAAATAGAAACATAATAATAATAGAA
21919592 ATA
1 ATA
21919595 ATATATTAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 22
0.71 0.07 0.22
Matches are distributed among these distances:
25 4 0.06
26 2 0.03
27 10 0.14
28 2 0.03
29 36 0.50
30 4 0.06
31 8 0.11
32 5 0.07
33 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.08, T:0.26
Consensus pattern (29 bp):
ATATAAATAGAAACATAATAATAATAGAA
Found at i:21923908 original size:104 final size:104
Alignment explanation
Indices: 21923728--21923951 Score: 378
Period size: 104 Copynumber: 2.2 Consensus size: 104
21923718 TGTATATAAA
** * *
21923728 AGGGGTTGCTGTGTGCTGATTCCCCGATTTATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
21923793 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
* *
21923832 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
21923896 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
21923936 AGGGGTTGCTAAGTGC
1 AGGGGTTGCTAAGTGC
21923952 GATATCCATT
Statistics
Matches: 113, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
104 112 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.19, G:0.32, T:0.31
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:21924003 original size:71 final size:72
Alignment explanation
Indices: 21923870--21924021 Score: 252
Period size: 71 Copynumber: 2.1 Consensus size: 72
21923860 TCATTGGTGG
* *
21923870 TGCTAAGTGCGATATCCACCATATCTTTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
21923935 GAGGGGT
66 GAGGGGT
***
21923942 TGCTAAGTGCGATATCCATTGTATATTTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTCCCCC
1 TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
21924006 GAGGGGT
66 GAGGGGT
21924013 TGCTAAGTG
1 TGCTAAGTG
21924022 ATGATTCCCC
Statistics
Matches: 75, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
71 45 0.60
72 30 0.40
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (72 bp):
TGCTAAGTGCGATATCCACCATATATTTGAAATGTAAAAGGGGGTTGCTATGTGCTGATTCCCCC
GAGGGGT
Found at i:21929420 original size:37 final size:37
Alignment explanation
Indices: 21929370--21929482 Score: 208
Period size: 37 Copynumber: 3.1 Consensus size: 37
21929360 TTGTCACTTT
*
21929370 GCCACCTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
21929407 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
21929444 GCCACTTATCACTTTGTCTCTTGATCAGATAAGTGTA
1 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
21929481 GC
1 GC
21929483 TAAAGCTATC
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.38
Consensus pattern (37 bp):
GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:21929499 original size:46 final size:46
Alignment explanation
Indices: 21929446--21929714 Score: 340
Period size: 46 Copynumber: 5.6 Consensus size: 46
21929436 TAAGTGTAGC
* **
21929446 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
21929492 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
21929538 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
21929590 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
21929636 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
21929688 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
21929715 AGTACTCAAA
Statistics
Matches: 199, Mismatches: 12, Indels: 24
0.85 0.05 0.10
Matches are distributed among these distances:
46 112 0.56
48 1 0.01
49 2 0.01
50 1 0.01
52 83 0.42
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:21929565 original size:52 final size:52
Alignment explanation
Indices: 21929489--21929708 Score: 299
Period size: 52 Copynumber: 4.3 Consensus size: 52
21929479 TAGCTAAAGC
* *
21929489 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
21929542 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
21929594 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
21929640 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
21929692 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
21929709 ATCAGAAGTA
Statistics
Matches: 148, Mismatches: 12, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
46 43 0.29
49 1 0.01
52 86 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:21929611 original size:98 final size:98
Alignment explanation
Indices: 21929446--21929714 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
21929436 TAAGTGTAGC
* * *
21929446 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
21929511 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
21929545 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
*
21929610 GATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
21929643 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
21929708 GATCAGA
66 GATCAGA
21929715 AGTACTCAAA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 151 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:21932892 original size:49 final size:49
Alignment explanation
Indices: 21932837--21932982 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
21932827 TTCGTTTTCT
* *
21932837 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
21932886 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
21932935 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
21932983 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:21934297 original size:37 final size:37
Alignment explanation
Indices: 21934253--21934344 Score: 175
Period size: 37 Copynumber: 2.5 Consensus size: 37
21934243 CACTTGTCCC
21934253 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
*
21934290 TGATCAGATAAGTGTAGCCACTTATCACTTTGTTTCT
1 TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
21934327 TGATCAGATAAGTGTAGC
1 TGATCAGATAAGTGTAGC
21934345 TAAAGCTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.37
Consensus pattern (37 bp):
TGATCAGATAAGTGTAGCCACCTATCACTTTGTTTCT
Found at i:21934387 original size:52 final size:52
Alignment explanation
Indices: 21934325--21934789 Score: 394
Period size: 52 Copynumber: 8.9 Consensus size: 52
21934315 CACTTTGTTT
21934325 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
*
21934377 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
* ** * *
21934423 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
** * *
21934475 CTTGATCAGATCTGTCTCTTGATCAGATAAGTGTAGCTA-AAGC-TATCACTTATCACTTTTCAC
1 CTTGATCAGATAAG-----TG-T-AGCTAA----AGCTATCA-CTTAT-------CACTTTTCAC
21934538 TTGTCA
47 TTGTCA
**
21934544 CTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
* ** * *
21934590 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
*
21934642 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
* ** * *
21934688 CTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCA
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
*
21934740 CTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTG
1 CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTT-TCACTTG
21934790 ATCAGAAGTA
Statistics
Matches: 331, Mismatches: 42, Indels: 79
0.73 0.09 0.17
Matches are distributed among these distances:
46 123 0.37
49 2 0.01
52 142 0.43
53 6 0.02
57 1 0.00
58 7 0.02
59 7 0.02
62 7 0.02
63 7 0.02
64 2 0.01
69 27 0.08
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.35
Consensus pattern (52 bp):
CTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCA
Found at i:21934398 original size:46 final size:48
Alignment explanation
Indices: 21934347--21934485 Score: 142
Period size: 46 Copynumber: 2.9 Consensus size: 48
21934337 AGTGTAGCTA
*
21934347 AAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAG-T-G
1 AAGCTATAACTTATCACTTTTCACTTGTCACTTGATCAGATAAGATCG
* * *
21934393 TAGCTA-AAGC-TACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCG
1 AAGCTATAA-CTTATCACTTTTCAC-TTGTCACTTGATCAGATAAG-AT---CG
* *
21934445 AAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGAT
1 AAGCTATAACTTATCACTTTTCACTTGTCACTTGATCAGAT
21934486 CTGTCTCTTG
Statistics
Matches: 74, Mismatches: 9, Indels: 14
0.76 0.09 0.14
Matches are distributed among these distances:
45 12 0.16
46 26 0.35
48 1 0.01
52 24 0.32
53 11 0.15
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (48 bp):
AAGCTATAACTTATCACTTTTCACTTGTCACTTGATCAGATAAGATCG
Found at i:21934476 original size:98 final size:98
Alignment explanation
Indices: 21934307--21934485 Score: 295
Period size: 98 Copynumber: 1.8 Consensus size: 98
21934297 ATAAGTGTAG
** * * *
21934307 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
21934372 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
66 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
* *
21934405 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACT
1 CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
21934470 TGTCACTTGATCAGAT
66 TGTCACTTGATCAGAT
21934486 CTGTCTCTTG
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
98 74 1.00
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.36
Consensus pattern (98 bp):
CCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACT
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTA
Found at i:21934495 original size:17 final size:17
Alignment explanation
Indices: 21934470--21934502 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21934460 ACTTTCCACT
21934470 TGTCACTTGATCAGATC
1 TGTCACTTGATCAGATC
*
21934487 TGTCTCTTGATCAGAT
1 TGTCACTTGATCAGAT
21934503 AAGTGTAGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.39
Consensus pattern (17 bp):
TGTCACTTGATCAGATC
Found at i:21934503 original size:167 final size:167
Alignment explanation
Indices: 21934324--21934652 Score: 631
Period size: 167 Copynumber: 2.0 Consensus size: 167
21934314 TCACTTTGTT
21934324 TCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATA
1 TCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATA
*
21934389 AGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTA
66 AGTGTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTA
21934454 CTTATCACTTTCCACTTGTCACTTGATCAGATCTGTC
131 CTTATCACTTTCCACTTGTCACTTGATCAGATCTGTC
21934491 TCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATA
1 TCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATA
* *
21934556 AGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTA
66 AGTGTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTA
21934621 CTTATCACTTTCCACTTGTCACTTGATCAGAT
131 CTTATCACTTTCCACTTGTCACTTGATCAGAT
21934653 AAGTGTAGCT
Statistics
Matches: 159, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 159 1.00
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (167 bp):
TCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATA
AGTGTAGCCAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATTA
CTTATCACTTTCCACTTGTCACTTGATCAGATCTGTC
Found at i:21934539 original size:69 final size:69
Alignment explanation
Indices: 21934418--21934554 Score: 220
Period size: 69 Copynumber: 2.0 Consensus size: 69
21934408 CTTATCACTT
* *
21934418 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCA
21934483 GATC
66 GATC
* * * *
21934487 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCA
21934552 GAT
66 GAT
21934555 AAGTGTAGCC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (69 bp):
TGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCA
GATC
Found at i:21934585 original size:121 final size:115
Alignment explanation
Indices: 21934372--21934585 Score: 338
Period size: 121 Copynumber: 1.8 Consensus size: 115
21934362 ACTTTTCACT
21934372 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG
*
21934437 TATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATC
66 TATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATC
* *
21934487 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTTGATCA
*
21934552 GATAAGTGTAGCCGAAGCTATCACTTATCACTTT
60 GATAAGTATAGCCGAAGCTATCACTTATCACTTT
21934586 GTCACTTGAT
Statistics
Matches: 89, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
115 42 0.47
118 1 0.01
121 46 0.52
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (115 bp):
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG
TATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATC
Found at i:21934588 original size:115 final size:111
Alignment explanation
Indices: 21934372--21934600 Score: 318
Period size: 115 Copynumber: 2.0 Consensus size: 111
21934362 ACTTTTCACT
21934372 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG
1 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG
*
21934437 TATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATC
66 TATAGCCGAAGCTATCACTTATCAC-TT---CTTGTCACTTGATCAGATC
* *
21934487 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC---T---TTGTCACTTGATCA
*
21934552 GATAAGTGTAGCCGAAGCTATCACTTATCAC-T-TTGTCACTTGATCAGAT
60 GATAAGTATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGAT
21934601 AAGTATAGCC
Statistics
Matches: 104, Mismatches: 4, Indels: 12
0.87 0.03 0.10
Matches are distributed among these distances:
115 59 0.57
118 1 0.01
119 1 0.01
121 43 0.41
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (111 bp):
TGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAAG
TATAGCCGAAGCTATCACTTATCACTTCTTGTCACTTGATCAGATC
Found at i:21934597 original size:46 final size:46
Alignment explanation
Indices: 21934525--21934795 Score: 328
Period size: 46 Copynumber: 5.7 Consensus size: 46
21934515 AGCTATCACT
*
21934525 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
21934570 TATCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
21934616 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* *
21934668 TACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGC
1 TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
* **
21934714 TATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGC
1 TATCACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGC
*
21934766 TACCACTTATCACTTTGTCACTTGATCAGA
1 TATCACTTATCACTTTGTCACTTGATCAGA
21934796 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 18, Indels: 25
0.82 0.08 0.11
Matches are distributed among these distances:
45 12 0.06
46 99 0.51
48 2 0.01
50 2 0.01
52 80 0.41
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (46 bp):
TATCACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGC
Found at i:21934618 original size:98 final size:98
Alignment explanation
Indices: 21934487--21934795 Score: 537
Period size: 98 Copynumber: 3.2 Consensus size: 98
21934477 TGATCAGATC
* * ** * *
21934487 TGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
** *
21934552 GATAAGTGTAGCCGAAGCTATCACTTATCACTT
66 GATAAGTGTAGCTAAAGCTACCACTTATCACTT
21934585 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
21934650 GATAAGTGTAGCTAAAGCTACCACTTATCACTT
66 GATAAGTGTAGCTAAAGCTACCACTTATCACTT
21934683 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
1 TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
21934748 GATAAGTGTAGCTAAAGCTACCACTTATCACTT
66 GATAAGTGTAGCTAAAGCTACCACTTATCACTT
21934781 TGTCACTTGATCAGA
1 TGTCACTTGATCAGA
21934796 AGTACTCAAA
Statistics
Matches: 202, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 202 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (98 bp):
TGTCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCA
GATAAGTGTAGCTAAAGCTACCACTTATCACTT
Found at i:21938073 original size:47 final size:49
Alignment explanation
Indices: 21937920--21938110 Score: 278
Period size: 49 Copynumber: 3.9 Consensus size: 49
21937910 TTCGTTTTCT
* * * *
21937920 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
21937969 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
* *
21938018 CGATGCCATAGCCCAGCTATGGTCTTACACG-CA-CACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
* * *
21938065 CGATGCCATAGCCCAGCTATGATCTTACACGGAATCACATAATCAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAT-ATCAC
21938111 ATGTTCACAT
Statistics
Matches: 131, Mismatches: 8, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
47 44 0.34
48 2 0.02
49 80 0.61
50 5 0.04
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
Found at i:21938091 original size:96 final size:99
Alignment explanation
Indices: 21937920--21938110 Score: 289
Period size: 96 Copynumber: 2.0 Consensus size: 99
21937910 TTCGTTTTCT
*
21937920 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATACCGATGCCATAGCCCAA
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACAAATCACATACCGATGCCATAGCCCAA
*
21937985 CTATGGTCTTACACGAAATCACAT-ATCACTTAC
66 CTATGATCTTACACGAAATCACATAATCACTTAC
* * * * *
21938018 CGATGCCATAGCCCAGCTATGGTCTTACACG-CA-CACATATCACTTACCGATGCCATAGCCCAG
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACAAATCACATACCGATGCCATAGCCCAA
*
21938081 CTATGATCTTACACGGAATCACATAATCAC
66 CTATGATCTTACACGAAATCACATAATCAC
21938111 ATGTTCACAT
Statistics
Matches: 84, Mismatches: 8, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
96 49 0.58
97 6 0.07
98 29 0.35
ACGTcount: A:0.32, C:0.31, G:0.14, T:0.24
Consensus pattern (99 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACAAATCACATACCGATGCCATAGCCCAA
CTATGATCTTACACGAAATCACATAATCACTTAC
Found at i:21940390 original size:22 final size:22
Alignment explanation
Indices: 21940362--21940403 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
21940352 CAAAATGGTA
21940362 ATAAAACAACGACATAACAGTG
1 ATAAAACAACGACATAACAGTG
21940384 ATAAAACAACGACATAACAG
1 ATAAAACAACGACATAACAG
21940404 CAGTAAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.57, C:0.19, G:0.12, T:0.12
Consensus pattern (22 bp):
ATAAAACAACGACATAACAGTG
Found at i:21940410 original size:22 final size:22
Alignment explanation
Indices: 21940363--21940429 Score: 77
Period size: 22 Copynumber: 3.1 Consensus size: 22
21940353 AAAATGGTAA
*
21940363 TAAAACAACGACATAACAG-TG
1 TAAAACAACGACATAACAGCAG
21940384 ATAAAACAACGACATAACAGCAG
1 -TAAAACAACGACATAACAGCAG
* *
21940407 T-AAACAACAACA-AACAACAG
1 TAAAACAACGACATAACAGCAG
21940427 TAA
1 TAA
21940430 TTTTTTTGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
20 8 0.20
21 11 0.28
22 20 0.50
23 1 0.03
ACGTcount: A:0.58, C:0.21, G:0.10, T:0.10
Consensus pattern (22 bp):
TAAAACAACGACATAACAGCAG
Found at i:21940427 original size:20 final size:21
Alignment explanation
Indices: 21940387--21940429 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
21940377 AACAGTGATA
* *
21940387 AAACAACGACATAACAGCAGT
1 AAACAACAACATAACAACAGT
21940408 AAACAACAACA-AACAACAGT
1 AAACAACAACATAACAACAGT
21940428 AA
1 AA
21940430 TTTTTTTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.60, C:0.23, G:0.09, T:0.07
Consensus pattern (21 bp):
AAACAACAACATAACAACAGT
Found at i:21941764 original size:41 final size:41
Alignment explanation
Indices: 21941718--21941799 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
21941708 ACCAAATATA
21941718 TTTAAATAATAATCGAACTGAAATTGAATGAAAACTTAACC
1 TTTAAATAATAATCGAACTGAAATTGAATGAAAACTTAACC
21941759 TTTAAATAATAATCGAACTGAAATTGAATGAAAACTTAACC
1 TTTAAATAATAATCGAACTGAAATTGAATGAAAACTTAACC
21941800 GAACACTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (41 bp):
TTTAAATAATAATCGAACTGAAATTGAATGAAAACTTAACC
Found at i:21948099 original size:19 final size:18
Alignment explanation
Indices: 21948075--21948114 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
21948065 TATAAATAAA
* *
21948075 ATAATAAATATGTAGTTAT
1 ATAATAAAAATATA-TTAT
21948094 ATAATAAAAATATATTAT
1 ATAATAAAAATATATTAT
21948112 ATA
1 ATA
21948115 TATCATTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (18 bp):
ATAATAAAAATATATTAT
Found at i:21948198 original size:91 final size:97
Alignment explanation
Indices: 21948039--21948232 Score: 240
Period size: 95 Copynumber: 2.0 Consensus size: 97
21948029 TTAATTCATC
*
21948039 TTTTTAATTAATAACTCTTTTATTTATATAAATAAAATAATAAATATGTAGTTATATAAT-AAAA
1 TTTTTAATTAATAACTCCTTTATTTATATAAATAAAATAATAAATA--TAGTTATATAATAAAAA
21948103 -ATATA-TT-ATATATATCATTATGTTAAAAATA
64 TATATATTTGATATATATCATTATGTTAAAAATA
* * * *
21948134 TTTTTAATTAATAATTCCTTTATTTATTTATAT-AAATAAATTAATA-A-TTATATAATAAAAAT
1 TTTTTAATTAATAACTCCTTTATTTATATAAATAAAAT-AATAAATATAGTTATATAATAAAAAT
* * *
21948196 ATATATTTGATATTTATCATTATGTTTAATATA
65 ATATATTTGATATATATCATTATGTTAAAAATA
21948229 TTTT
1 TTTT
21948233 ACTTTATATA
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
91 9 0.10
92 5 0.06
93 5 0.06
94 6 0.07
95 61 0.71
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (97 bp):
TTTTTAATTAATAACTCCTTTATTTATATAAATAAAATAATAAATATAGTTATATAATAAAAATA
TATATTTGATATATATCATTATGTTAAAAATA
Found at i:21950589 original size:4 final size:4
Alignment explanation
Indices: 21950580--21950618 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
21950570 CAGATAAGAC
21950580 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
21950619 GAAGAACTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:21952408 original size:4 final size:4
Alignment explanation
Indices: 21952399--21952437 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
21952389 CAACGTGACT
21952399 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
21952438 TTTTGTATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:21953102 original size:14 final size:16
Alignment explanation
Indices: 21953078--21953109 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21953068 ATTAAGTTAT
21953078 AATATAATA-TTAAAA
1 AATATAATATTTAAAA
21953093 AATA-AATATTTAAAA
1 AATATAATATTTAAAA
21953108 AA
1 AA
21953110 AGGGACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (16 bp):
AATATAATATTTAAAA
Found at i:21954187 original size:6 final size:6
Alignment explanation
Indices: 21954177--21954211 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
21954167 GCTCATATAT
*
21954177 ATACAC GTACAC ATACAC ATACAC ATACAC ATACA
1 ATACAC ATACAC ATACAC ATACAC ATACAC ATACA
21954212 TATTATATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.17
Consensus pattern (6 bp):
ATACAC
Found at i:21958226 original size:17 final size:17
Alignment explanation
Indices: 21958206--21958239 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21958196 TATATTTATT
*
21958206 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
21958223 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
21958240 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:21958249 original size:41 final size:41
Alignment explanation
Indices: 21958204--21958334 Score: 185
Period size: 41 Copynumber: 3.2 Consensus size: 41
21958194 AATATATTTA
21958204 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
21958245 TTTTTT-TATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
***
21958286 -TTTTTAAAAAAATTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
21958326 GTTTTTTAA
1 -TTTTTTAA
21958335 TTTTTAAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
40 35 0.44
41 37 0.47
42 7 0.09
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (41 bp):
TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:21958291 original size:12 final size:11
Alignment explanation
Indices: 21958223--21958324 Score: 69
Period size: 11 Copynumber: 9.9 Consensus size: 11
21958213 ATTTTTTTAA
21958223 TTTTAAAATAT
1 TTTTAAAATAT
21958234 TTTTAAAATACT
1 TTTTAAAATA-T
** *
21958246 TTTTTTATTAT
1 TTTTAAAATAT
*
21958257 TTTT----TAA
1 TTTTAAAATAT
21958264 TTTTAAAATAT
1 TTTTAAAATAT
21958275 TTTTAAAATACT
1 TTTTAAAATA-T
* *
21958287 TTTTAAAAAAA
1 TTTTAAAATAT
21958298 TTTT---A-A-
1 TTTTAAAATAT
21958304 TTTTAAAATAT
1 TTTTAAAATAT
21958315 TTTTAAAATA
1 TTTTAAAATA
21958325 CGTTTTTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
6 4 0.05
7 7 0.10
8 1 0.01
9 1 0.01
10 1 0.01
11 41 0.56
12 18 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21958352 original size:22 final size:22
Alignment explanation
Indices: 21958311--21958370 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
21958301 TAATTTTAAA
**
21958311 ATATTTTTAAAATACGTTTTTT
1 ATATTTTTAAAATAAATTTTTT
21958333 A-ATTTTTAAAATAAATTTTTT
1 ATATTTTTAAAATAAATTTTTT
21958354 ATATTTATTAAAA-AAAT
1 ATATTT-TTAAAATAAAT
21958371 GGGCAGGGCT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 19 0.56
22 9 0.26
23 6 0.18
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTTTTAAAATAAATTTTTT
Found at i:21960485 original size:34 final size:33
Alignment explanation
Indices: 21960439--21960503 Score: 87
Period size: 34 Copynumber: 1.9 Consensus size: 33
21960429 AAATGAATAT
* *
21960439 TATTTTATCTATTTGA-TGTTGATTAGGATAAAA
1 TATTTTATCTATTCGACT-TTGATTAGAATAAAA
21960472 TATTTTAATCTATTCGACTTTGATTAGAATAA
1 TATTTT-ATCTATTCGACTTTGATTAGAATAA
21960504 GGGTTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 6 0.21
34 21 0.75
35 1 0.04
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (33 bp):
TATTTTATCTATTCGACTTTGATTAGAATAAAA
Found at i:21961382 original size:17 final size:17
Alignment explanation
Indices: 21961362--21961395 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21961352 TATATTTATT
*
21961362 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
21961379 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
21961396 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:21961405 original size:41 final size:41
Alignment explanation
Indices: 21961360--21961486 Score: 161
Period size: 41 Copynumber: 3.1 Consensus size: 41
21961350 AATATATTTA
21961360 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
* *
21961401 TTTTTT-TATTATTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAAAT-TTTTTTAATTTTAAAATATTTTTAAAATAC
*** *
21961442 -TTTTTAAAAAAATTTTAATTTTAAAAATATTTTAAAAATA-
1 TTTTTTAAAATTTTTTTAATTTT-AAAATATTTTTAAAATAC
21961482 TTTTT
1 TTTTT
21961487 AAATTTAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
40 17 0.23
41 57 0.77
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (41 bp):
TTTTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:21961447 original size:12 final size:11
Alignment explanation
Indices: 21961379--21961538 Score: 85
Period size: 11 Copynumber: 15.4 Consensus size: 11
21961369 ATTTTTTTAA
21961379 TTTTAAAATAT
1 TTTTAAAATAT
21961390 TTTTAAAATACT
1 TTTTAAAATA-T
** *
21961402 TTTTTTATTAT
1 TTTTAAAATAT
*
21961413 TTTT----TAA
1 TTTTAAAATAT
21961420 TTTTAAAATAT
1 TTTTAAAATAT
21961431 TTTTAAAATACT
1 TTTTAAAATA-T
* *
21961443 TTTTAAAAAAA
1 TTTTAAAATAT
21961454 TTTT---A-AT
1 TTTTAAAATAT
*
21961461 TTTAAAAATAT
1 TTTTAAAATAT
*
21961472 TTTAAAAATAT
1 TTTTAAAATAT
21961483 TTTT--AA-A-
1 TTTTAAAATAT
*
21961490 TTTAAAAATAT
1 TTTTAAAATAT
21961501 TTTTAAAATACT
1 TTTTAAAATA-T
***
21961513 TTTTTTTA-AT
1 TTTTAAAATAT
21961523 TTTTAAAATAAT
1 TTTTAAAAT-AT
21961535 TTTT
1 TTTT
21961539 TGGTTTTTAT
Statistics
Matches: 114, Mismatches: 18, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
7 13 0.11
8 2 0.02
9 4 0.04
10 8 0.07
11 57 0.50
12 30 0.26
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21961463 original size:30 final size:30
Alignment explanation
Indices: 21961429--21961508 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
21961419 ATTTTAAAAT
*
21961429 ATTTTTAAAATACTTTTTAAAAA-AATTTTA
1 ATTTTAAAAATA-TTTTTAAAAATAATTTTA
*
21961459 ATTTTAAAAATA-TTTTAAAAATATTTTTA
1 ATTTTAAAAATATTTTTAAAAATAATTTTA
*
21961488 AATTTAAAAATATTTTTAAAA
1 ATTTTAAAAATATTTTTAAAA
21961509 TACTTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
28 9 0.20
29 17 0.38
30 19 0.42
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
ATTTTAAAAATATTTTTAAAAATAATTTTA
Found at i:21961465 original size:17 final size:17
Alignment explanation
Indices: 21961443--21961476 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21961433 TTAAAATACT
21961443 TTTTAAAAAAATTTTAA
1 TTTTAAAAAAATTTTAA
*
21961460 TTTTAAAAATATTTTAA
1 TTTTAAAAAAATTTTAA
21961477 AAATATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTAAAAAAATTTTAA
Found at i:21961495 original size:18 final size:18
Alignment explanation
Indices: 21961472--21961507 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21961462 TTAAAAATAT
21961472 TTTAAAAATATTTTTAAA
1 TTTAAAAATATTTTTAAA
21961490 TTTAAAAATATTTTTAAA
1 TTTAAAAATATTTTTAAA
21961508 ATACTTTTTT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAAAATATTTTTAAA
Found at i:21961503 original size:17 final size:17
Alignment explanation
Indices: 21961444--21961503 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
21961434 TAAAATACTT
* *
21961444 TTTAAAAAAATTTTAAT
1 TTTAAAAATATTTTAAA
21961461 TTTAAAAATATTTT-AA
1 TTTAAAAATATTTTAAA
*
21961477 ---AAATAT-TTTTAAA
1 TTTAAAAATATTTTAAA
21961490 TTTAAAAATATTTT
1 TTTAAAAATATTTT
21961504 TAAAATACTT
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
12 4 0.12
13 7 0.21
16 6 0.18
17 17 0.50
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTAAAAATATTTTAAA
Found at i:21962991 original size:12 final size:11
Alignment explanation
Indices: 21962964--21962997 Score: 52
Period size: 12 Copynumber: 3.1 Consensus size: 11
21962954 TTTTAATTTA
21962964 AAAATATTTTT
1 AAAATATTTTT
21962975 AAAATACTTTTT
1 AAAATA-TTTTT
21962987 AAAAT-TTTTT
1 AAAATATTTTT
21962997 A
1 A
21962998 TTTTTAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 6 0.27
11 6 0.27
12 10 0.45
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:21964047 original size:36 final size:36
Alignment explanation
Indices: 21964007--21964095 Score: 92
Period size: 36 Copynumber: 2.5 Consensus size: 36
21963997 CTAAATTAAT
** *
21964007 AATAAAATAAAAATTATATAATATCCAAATAACAAC
1 AATAAAATAAAAACAATATAATAACCAAATAACAAC
** * *
21964043 AATAAAATAGTAACAATATAATAACGAAATAATAAC
1 AATAAAATAAAAACAATATAATAACCAAATAACAAC
21964079 AA-AATAATAAAAA-AATA
1 AATAA-AATAAAAACAATA
21964096 GTGACAAAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 3
0.78 0.16 0.05
Matches are distributed among these distances:
35 6 0.14
36 37 0.86
ACGTcount: A:0.67, C:0.08, G:0.02, T:0.22
Consensus pattern (36 bp):
AATAAAATAAAAACAATATAATAACCAAATAACAAC
Found at i:21964072 original size:22 final size:22
Alignment explanation
Indices: 21964046--21964115 Score: 86
Period size: 22 Copynumber: 3.2 Consensus size: 22
21964036 TAACAACAAT
* *
21964046 AAAATAGTAACAATATAATAAC
1 AAAATAGTAACAAAATAATAAA
* *
21964068 GAAATAATAACAAAATAATAAA
1 AAAATAGTAACAAAATAATAAA
* *
21964090 AAAATAGTGACAAAATAGTAAA
1 AAAATAGTAACAAAATAATAAA
21964112 AAAA
1 AAAA
21964116 ATAACAGTAG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.69, C:0.06, G:0.07, T:0.19
Consensus pattern (22 bp):
AAAATAGTAACAAAATAATAAA
Found at i:21964093 original size:11 final size:11
Alignment explanation
Indices: 21964046--21964121 Score: 75
Period size: 11 Copynumber: 7.1 Consensus size: 11
21964036 TAACAACAAT
*
21964046 AAAATAGTAAC
1 AAAATAATAAC
*
21964057 AATATAATAAC
1 AAAATAATAAC
*
21964068 GAAATAATAAC
1 AAAATAATAAC
*
21964079 AAAATAATAAA
1 AAAATAATAAC
* *
21964090 AAAATAGTGAC
1 AAAATAATAAC
*
21964101 AAAATAGTAA-
1 AAAATAATAAC
21964111 AAAA-AATAAC
1 AAAATAATAAC
21964121 A
1 A
21964122 GTAGTTTTCT
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
9 4 0.08
10 5 0.09
11 44 0.83
ACGTcount: A:0.68, C:0.07, G:0.07, T:0.18
Consensus pattern (11 bp):
AAAATAATAAC
Found at i:21970362 original size:14 final size:14
Alignment explanation
Indices: 21970343--21970372 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
21970333 ATTTCTATAT
21970343 ATATTAACGTTAGA
1 ATATTAACGTTAGA
*
21970357 ATATTAATGTTAGA
1 ATATTAACGTTAGA
21970371 AT
1 AT
21970373 TGCGTGAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.40
Consensus pattern (14 bp):
ATATTAACGTTAGA
Found at i:21972036 original size:21 final size:21
Alignment explanation
Indices: 21972010--21972051 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21972000 TTTTTTCGAA
*
21972010 TCGAGTCAAGTAAAATGAAAT
1 TCGAGTCAAGTAAAATCAAAT
* *
21972031 TCGAGTCGAGTTAAATCAAAT
1 TCGAGTCAAGTAAAATCAAAT
21972052 AGAATTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.12, G:0.19, T:0.26
Consensus pattern (21 bp):
TCGAGTCAAGTAAAATCAAAT
Found at i:21972916 original size:31 final size:32
Alignment explanation
Indices: 21972880--21972944 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
21972870 CTTAGATAAT
21972880 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
21972911 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
21972943 TT
1 TT
21972945 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:21973546 original size:31 final size:31
Alignment explanation
Indices: 21973504--21973571 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
21973494 CTTAACAACC
* **
21973504 TAGTGAGTTAAATAAAAACTTTTGAATAATT
1 TAGTGACTTAAATAAAAACTTTCAAATAATT
* * *
21973535 TAGTGACTTAAATGAAAGCTTTCAAATAGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAATT
21973566 TAGTGA
1 TAGTGA
21973572 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCAAATAATT
Found at i:21973808 original size:22 final size:24
Alignment explanation
Indices: 21973782--21973826 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
21973772 CCAGTTTAAT
21973782 TAAATA-AAT-TATTAAAAAATTA
1 TAAATACAATGTATTAAAAAATTA
21973804 TAAATACTAATGTATTAAAAAAT
1 TAAATAC-AATGTATTAAAAAAT
21973827 AAATAAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (24 bp):
TAAATACAATGTATTAAAAAATTA
Found at i:21985315 original size:21 final size:21
Alignment explanation
Indices: 21985289--21985330 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
21985279 TTTTTTCGAA
*
21985289 TCGAGTCAAGTAAAATGAAAT
1 TCGAGTCAAGTAAAATCAAAT
*
21985310 TCGAGTCAAGTTAAATCAAAT
1 TCGAGTCAAGTAAAATCAAAT
21985331 AGAATTGTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (21 bp):
TCGAGTCAAGTAAAATCAAAT
Found at i:21985825 original size:9 final size:9
Alignment explanation
Indices: 21985811--21985858 Score: 60
Period size: 9 Copynumber: 5.3 Consensus size: 9
21985801 ACACCAATCT
21985811 ATTATTTGA
1 ATTATTTGA
21985820 ATTATTTGA
1 ATTATTTGA
*
21985829 AGTATTTGA
1 ATTATTTGA
* *
21985838 GTTATTCGA
1 ATTATTTGA
*
21985847 ATTATTTAA
1 ATTATTTGA
21985856 ATT
1 ATT
21985859 GTAAAATTTA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (9 bp):
ATTATTTGA
Found at i:21987109 original size:31 final size:31
Alignment explanation
Indices: 21987067--21987134 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
21987057 CTTAACAACC
* **
21987067 TAGTGAGTTAAATAAAAACTTTTGAATAATT
1 TAGTGACTTAAATAAAAACTTTCAAATAATT
* * *
21987098 TAGTGACTTAAATGAAAGCTTTCAAATAGTT
1 TAGTGACTTAAATAAAAACTTTCAAATAATT
21987129 TAGTGA
1 TAGTGA
21987135 TCATTTTGTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (31 bp):
TAGTGACTTAAATAAAAACTTTCAAATAATT
Found at i:21992985 original size:6 final size:6
Alignment explanation
Indices: 21992976--21993000 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
21992966 TGTATTATTT
21992976 TTATAA TTATAA TTATAA TTATAA T
1 TTATAA TTATAA TTATAA TTATAA T
21993001 AATTTTGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTATAA
Found at i:22000752 original size:25 final size:26
Alignment explanation
Indices: 22000718--22000777 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
22000708 GGCCCGGCCC
* * *
22000718 ATTTTTAAAAT-AAACATTAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAATT
22000743 ATTTTAAAAATAAAAAATAAAAAATT
1 ATTTTAAAAATAAAAAATAAAAAATT
22000769 ATTTTAAAA
1 ATTTTAAAA
22000778 GTATTTTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 10 0.32
26 21 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTTAAAAATAAAAAATAAAAAATT
Found at i:22001736 original size:3 final size:3
Alignment explanation
Indices: 22001728--22001759 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
22001718 GATTGTTTAC
*
22001728 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22001760 ACATACTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22007824 original size:3 final size:3
Alignment explanation
Indices: 22007801--22007844 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
22007791 CCACCATAGT
* * * *
22007801 TGA TGA TGG TTA TGA TTA TGA TGA GGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TG
22007845 GAGGTGTAAC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.30, C:0.00, G:0.34, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:22008426 original size:12 final size:12
Alignment explanation
Indices: 22008411--22008435 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22008401 TAAATATCAT
22008411 TTTGCATATATA
1 TTTGCATATATA
22008423 TTTGCATATATA
1 TTTGCATATATA
22008435 T
1 T
22008436 ATGTATGCAT
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:0.32, C:0.08, G:0.08, T:0.52
Consensus pattern (12 bp):
TTTGCATATATA
Found at i:22008633 original size:183 final size:183
Alignment explanation
Indices: 22008423--22008811 Score: 688
Period size: 183 Copynumber: 2.1 Consensus size: 183
22008413 TGCATATATA
*
22008423 TTTGCATATATATATGTATGCATTTGCAGGTATGGCCTTAATATGTGCCTCACATTGCATGACAG
1 TTTGCATATATATATGTATGTATTTGCAGGTATGGCCTTAATATGTGCCTCACATTGCATGACAG
22008488 CCATTGATAACCCTTTTTACTTTGATATTCCTTTCTGCCATCTTAATTATTAAGTGATATTTGTG
66 CCATTGATAACCCTTTTTACTTTGATATTCCTTTCTGCCATCTTAATTATTAAGTGATATTTGTG
* *
22008553 ATCTGTCTTAAGGTTTACATTAACCAGCGCTTTGGGTTTTCCTTAAATATCAT
131 ATCTGTCTTAAAGTTTACATTAACCACCGCTTTGGGTTTTCCTTAAATATCAT
*
22008606 TTTGCATATATATATGTATGTATTTGCAGGTATGTCCTTAATATGTGCCTCACATTGCATGACAG
1 TTTGCATATATATATGTATGTATTTGCAGGTATGGCCTTAATATGTGCCTCACATTGCATGACAG
* *
22008671 CCATTGATGACCCTTTTTACTTTGATATTCCTTTCTGCCATCTTAGTTATTAAGTGATATTTGTG
66 CCATTGATAACCCTTTTTACTTTGATATTCCTTTCTGCCATCTTAATTATTAAGTGATATTTGTG
* * * *
22008736 ATCTGTCTTAAATTTTACATTAATCACCTCTTTGGGTTTTTCTTAAATATCAT
131 ATCTGTCTTAAAGTTTACATTAACCACCGCTTTGGGTTTTCCTTAAATATCAT
22008789 TTTGCATATATATATGTATGTAT
1 TTTGCATATATATATGTATGTAT
22008812 ATGTCTTTGA
Statistics
Matches: 196, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 196 1.00
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (183 bp):
TTTGCATATATATATGTATGTATTTGCAGGTATGGCCTTAATATGTGCCTCACATTGCATGACAG
CCATTGATAACCCTTTTTACTTTGATATTCCTTTCTGCCATCTTAATTATTAAGTGATATTTGTG
ATCTGTCTTAAAGTTTACATTAACCACCGCTTTGGGTTTTCCTTAAATATCAT
Found at i:22009889 original size:4 final size:4
Alignment explanation
Indices: 22009880--22009918 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
22009870 TTTACTTCAT
*
22009880 CATA CATA CATA CATA CATA CATA CATA CACA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
22009919 GTTATGGACC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:22016907 original size:12 final size:12
Alignment explanation
Indices: 22016886--22016924 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
22016876 TTTAAAAATT
* *
22016886 TTAATGAATTTC
1 TTAATTAATTAC
*
22016898 TTAATTAATTAA
1 TTAATTAATTAC
22016910 TTAATTAATTAC
1 TTAATTAATTAC
22016922 TTA
1 TTA
22016925 GGTTAAAACG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (12 bp):
TTAATTAATTAC
Found at i:22026116 original size:19 final size:19
Alignment explanation
Indices: 22026092--22026130 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
22026082 CCGAGTTTTA
22026092 ATAACTGATACAGATGCCT
1 ATAACTGATACAGATGCCT
22026111 ATAACTGATACAGATGCCT
1 ATAACTGATACAGATGCCT
22026130 A
1 A
22026131 CATAGACGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (19 bp):
ATAACTGATACAGATGCCT
Found at i:22036028 original size:20 final size:20
Alignment explanation
Indices: 22036005--22036048 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
22035995 CATCAGTAAT
* * *
22036005 AACAGAAATTTATCCGTATC
1 AACAGAAACTTATACATATC
*
22036025 AACAGTAACTTATACATATC
1 AACAGAAACTTATACATATC
22036045 AACA
1 AACA
22036049 ATAATTCATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (20 bp):
AACAGAAACTTATACATATC
Done.