Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 16962412
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 43 of 73
Found at i:10339010 original size:30 final size:30
Alignment explanation
Indices: 10338940--10339012 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
10338930 GGTTCTTCGG
* *
10338940 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
10338970 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
10339000 GACCTCTGGATAG
1 GACCTCTGGATAG
10339013 GTCCTTCGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:10342213 original size:64 final size:63
Alignment explanation
Indices: 10342128--10342288 Score: 191
Period size: 64 Copynumber: 2.5 Consensus size: 63
10342118 TTGTTTAAGG
* * * *
10342128 TGCATCGATGCACATGCAGTGCATCGATGCAT-CAATTTAAAAAGAAAATATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAGGATTTA
* * *
10342192 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAGGATTTA
*
10342256 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
10342289 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 21 0.25
66 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAGGATTTA
Found at i:10342784 original size:2 final size:2
Alignment explanation
Indices: 10342777--10342823 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
10342767 CATGAGTTAG
* *
10342777 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10342819 AT AT A
1 AT AT A
10342824 GGAATTGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:10343516 original size:31 final size:30
Alignment explanation
Indices: 10343478--10343576 Score: 108
Period size: 31 Copynumber: 3.2 Consensus size: 30
10343468 TCGAGGGTTT
**
10343478 TACCTATGTCTTTCGAGACATATGAACAGTA
1 TACCTATGTCTAACGA-ACATATGAACAGTA
* *
10343509 TACCTATGTTCTAAGGAACATATGGACAGTA
1 TACCTATG-TCTAACGAACATATGAACAGTA
* * *
10343540 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATG-TCTAACGAACATATGAACAGTA
10343571 TACCTA
1 TACCTA
10343577 GGTTCTTCGG
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
31 57 0.92
32 5 0.08
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (30 bp):
TACCTATGTCTAACGAACATATGAACAGTA
Found at i:10343582 original size:31 final size:31
Alignment explanation
Indices: 10343495--10343604 Score: 150
Period size: 31 Copynumber: 3.6 Consensus size: 31
10343485 GTCTTTCGAG
*
10343495 ACATATGAACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTATACCTATGTTCTAAGGA
10343526 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTATACCTATGTTCTAAGGA
* * ** *
10343557 ACATATGGACAGTTTACCTAGGTTCTTCGGG
1 ACATATGGACAGTATACCTATGTTCTAAGGA
*
10343588 ACCTATGGACAGT-TACC
1 ACATATGGACAGTATACC
10343605 GAGGATCTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
30 4 0.06
31 68 0.94
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (31 bp):
ACATATGGACAGTATACCTATGTTCTAAGGA
Found at i:10343621 original size:30 final size:30
Alignment explanation
Indices: 10343560--10343656 Score: 113
Period size: 30 Copynumber: 3.2 Consensus size: 30
10343550 CTAAGGAACA
* * ***
10343560 TATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAG-TTACCGAGGATCTTTATGACC
10343591 TATGGACAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
* *
10343621 TCTGGATAGTTACCGAGGATCTTTATGACC
1 TATGGACAGTTACCGAGGATCTTTATGACC
*
10343651 TCTGGA
1 TATGGA
10343657 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
30 50 0.85
31 9 0.15
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGATCTTTATGACC
Found at i:10343657 original size:30 final size:30
Alignment explanation
Indices: 10343587--10343659 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
10343577 GGTTCTTCGG
* *
10343587 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
10343617 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
10343647 GACCTCTGGATAG
1 GACCTCTGGATAG
10343660 GTCCTTCGGG
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:10346394 original size:13 final size:13
Alignment explanation
Indices: 10346378--10346413 Score: 58
Period size: 11 Copynumber: 2.9 Consensus size: 13
10346368 GAAGGAAAAA
10346378 GAAAAAAAGAAAT
1 GAAAAAAAGAAAT
10346391 GAAAAAAAG--AT
1 GAAAAAAAGAAAT
10346402 GAAAAAAAGAAA
1 GAAAAAAAGAAA
10346414 AATGAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
11 11 0.52
13 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.17, T:0.06
Consensus pattern (13 bp):
GAAAAAAAGAAAT
Found at i:10346416 original size:26 final size:25
Alignment explanation
Indices: 10346378--10346426 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 25
10346368 GAAGGAAAAA
10346378 GAAAAAAAGAAATGA-AAAAAAGAT
1 GAAAAAAAGAAATGAGAAAAAAGAT
10346402 GAAAAAAAGAAAAATGAGAAAAAAG
1 GAAAAAAAG--AAATGAGAAAAAAG
10346427 GAAAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 9 0.41
26 6 0.27
27 7 0.32
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.06
Consensus pattern (25 bp):
GAAAAAAAGAAATGAGAAAAAAGAT
Found at i:10346432 original size:16 final size:15
Alignment explanation
Indices: 10346372--10346432 Score: 55
Period size: 16 Copynumber: 4.5 Consensus size: 15
10346362 AAAGAAGAAG
10346372 GAAAAA-GAAAAAAA
1 GAAAAATGAAAAAAA
10346386 G--AAATGAAAAAAA
1 GAAAAATGAAAAAAA
10346399 G----ATGAAAAAAA
1 GAAAAATGAAAAAAA
10346410 GAAAAATGAGAAAAAA
1 GAAAAATGA-AAAAAA
*
10346426 GGAAAAT
1 GAAAAAT
10346433 TGAATCAAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
11 11 0.28
12 3 0.08
13 9 0.22
14 1 0.03
15 4 0.10
16 12 0.30
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.07
Consensus pattern (15 bp):
GAAAAATGAAAAAAA
Found at i:10348765 original size:114 final size:114
Alignment explanation
Indices: 10348565--10348784 Score: 350
Period size: 114 Copynumber: 1.9 Consensus size: 114
10348555 CACGTTCTCG
* * *
10348565 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTT
1 TAGTAAAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTC
* * * *
10348630 GGTATGAACCCCAAAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
* *
10348679 TAGTAAAAATAAGGAGACCTAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAAAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTC
*
10348744 GGTAGGAACCCCAGAACCAATCATTAGAATTAAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAA
10348785 CTGCATGATC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
114 96 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (114 bp):
TAGTAAAAATAAGGAGACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTAGAATTAAAAGATGAATTTGCTCA
Found at i:10350014 original size:76 final size:75
Alignment explanation
Indices: 10349925--10350098 Score: 249
Period size: 76 Copynumber: 2.3 Consensus size: 75
10349915 ATTAACAAGA
*
10349925 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAGGAATGTTGATGTATCCTGAA
1 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
*
10349990 TGTTTATATC
66 TGTTCATATC
* * * * **
10350000 AGCAAAATGCTGGGGCATGCTGAAAGCCTTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGA
1 AGC-AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGA
*
10350065 ATGTTCGTATC
65 ATGTTCATATC
*
10350076 AGCAATTGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
10350099 GGCCCACATC
Statistics
Matches: 87, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 21 0.24
76 66 0.76
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
TGTTCATATC
Found at i:10351467 original size:22 final size:22
Alignment explanation
Indices: 10351423--10351500 Score: 120
Period size: 22 Copynumber: 3.5 Consensus size: 22
10351413 ATCTGCACTC
* *
10351423 TTCAAAGATTGATAAATTTTCTT
1 TTCAAAGA-TGATAGATTCTCTT
10351446 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
10351468 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
10351490 TTCAAAGATGA
1 TTCAAAGATGA
10351501 AAGCTTTATT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 43 0.84
23 8 0.16
ACGTcount: A:0.35, C:0.10, G:0.13, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:10352324 original size:165 final size:167
Alignment explanation
Indices: 10352016--10352341 Score: 534
Period size: 170 Copynumber: 2.0 Consensus size: 167
10352006 AAAATTAGCA
10352016 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAACAGAATGAGAAAAC
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-AAAAAAACAGAAT-AGAAAAC
**
10352081 GATTTCCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
64 GATTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
*
10352146 TCTTAGTTTTTTTTTACTTAGTAAACTATTTCCAACAGCC
129 CCTTAG-TTTTTTTTACTTAGTAAACTATTTCCAACAGCC
** *
10352186 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAA-ATAAT-GAAAACGA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATAGAAAACGA
10352248 TTTCCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
66 TTTCCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
10352313 CTTAG-TTTTTTTACTTAGTAAACTATTTC
130 CTTAGTTTTTTTTACTTAGTAAACTATTTC
10352342 TCACATCTGT
Statistics
Matches: 149, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
164 24 0.16
165 35 0.23
166 39 0.26
167 4 0.03
168 4 0.03
170 43 0.29
ACGTcount: A:0.35, C:0.14, G:0.13, T:0.38
Consensus pattern (167 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAACAGAATAGAAAACGA
TTTCCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTTACTTAGTAAACTATTTCCAACAGCC
Found at i:10352443 original size:76 final size:76
Alignment explanation
Indices: 10352345--10352987 Score: 1099
Period size: 76 Copynumber: 8.5 Consensus size: 76
10352335 CTATTTCTCA
* * * *
10352345 CATCTGTAAGTCCTGCATTGCATGATGTTTCTAAAAAGCCTTCGGGAGTTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10352410 AGCCTTAGGGT
66 AGCCTTAGGGT
10352421 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
10352486 AGCCTTAGGAT
66 AGCCTTAGGGT
*
10352497 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10352562 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10352573 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGATTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10352638 AGCCTTAGGGT
66 AGCCTTAGGGT
10352649 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10352714 AGCCTTAGGGT
66 AGCCTTAGGGT
*
10352725 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTAGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
10352790 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
10352801 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGTAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
**
10352866 A-CCTTCTGGT
66 AGCCTTAGGGT
*
10352876 CATCTGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC-A
* *
10352941 AAACCTTCGGGT
65 AAGCCTTAGGGT
* * * *
10352953 CATCTATAAGCCCTTCAGTGCATGATGTTTTCAAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAA
10352988 CATTTTCATC
Statistics
Matches: 540, Mismatches: 25, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
75 67 0.12
76 435 0.81
77 38 0.07
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:10353149 original size:22 final size:23
Alignment explanation
Indices: 10353107--10353166 Score: 79
Period size: 22 Copynumber: 2.7 Consensus size: 23
10353097 AATTTTTTCA
*
10353107 TAAAAATAAT-TATAATTATTAT
1 TAAATATAATATATAATTATTAT
*
10353129 T-AATATAATATATTATTATTAT
1 TAAATATAATATATAATTATTAT
10353151 TAAATATATATATATA
1 TAAATATA-ATATATA
10353167 TATATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 7 0.22
22 13 0.41
23 6 0.19
24 6 0.19
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAAATATAATATATAATTATTAT
Found at i:10353159 original size:2 final size:2
Alignment explanation
Indices: 10353131--10353181 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
10353121 ATTATTATTA
*
10353131 AT AT A- AT AT AT -T AT -T AT -T AT -T AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10353168 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
10353182 TACAAATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
1 5 0.12
2 37 0.88
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:10360677 original size:22 final size:22
Alignment explanation
Indices: 10360652--10360705 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
10360642 TTGACCAAAT
10360652 TTGACTTTGATTTTAACTAGTG
1 TTGACTTTGATTTTAACTAGTG
*
10360674 TTGACTTTGATTTTGACTAGTG
1 TTGACTTTGATTTTAACTAGTG
*
10360696 TTAACTTTGA
1 TTGACTTTGA
10360706 CTTAAAAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.22, C:0.09, G:0.19, T:0.50
Consensus pattern (22 bp):
TTGACTTTGATTTTAACTAGTG
Found at i:10362362 original size:35 final size:35
Alignment explanation
Indices: 10362322--10362388 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
10362312 GAGTTTTTGC
* *
10362322 AGGTTCAGCTCGGTCAAACTGGTAATTCCTTATAT
1 AGGTTCAGATCGATCAAACTGGTAATTCCTTATAT
* *
10362357 AGGTTCAGATCGATCGAGCTGGTAATTCCTTA
1 AGGTTCAGATCGATCAAACTGGTAATTCCTTA
10362389 CAGATCTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (35 bp):
AGGTTCAGATCGATCAAACTGGTAATTCCTTATAT
Found at i:10367167 original size:16 final size:17
Alignment explanation
Indices: 10367133--10367165 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10367123 TTTCGGTTTG
10367133 AAAAAAACCGATTTTTT
1 AAAAAAACCGATTTTTT
*
10367150 AAAAATACCGATTTTT
1 AAAAAAACCGATTTTT
10367166 AATCCGCTAA
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:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
AAAAAAACCGATTTTTT
Found at i:10371474 original size:20 final size:20
Alignment explanation
Indices: 10371426--10371487 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
10371416 AACTTAAATC
*
10371426 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
10371446 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
10371464 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
10371483 AAAAT
1 AAAAT
10371488 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:10371521 original size:64 final size:58
Alignment explanation
Indices: 10371452--10371641 Score: 147
Period size: 63 Copynumber: 3.1 Consensus size: 58
10371442 ATATAAAATT
10371452 TTAATAA-TATATAAAATAATTTATATGATATAAAATTAAATATCTATAATATAATATTAAAAAA
1 TTAATAATTATATAAAA-AA-TTA-AT-AT-TAAAATT-AATATCTATAATATAATATT-AAAAA
* *
10371516 TTAATATTTAATTTATTTAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAATA
1 TT-A-A--TAA-TTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAA
* * *
10371579 TTAATATTTAATTTATTTAAAAAATTAATATTAAAATTAA-A-ATAAAATATAATA-T-AAAA
1 TT-A-A--TAA-TTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAA
10371638 TTAA
1 TTAA
10371642 ATAAAACCTC
Statistics
Matches: 115, Mismatches: 5, Indels: 19
0.83 0.04 0.14
Matches are distributed among these distances:
57 1 0.01
58 1 0.01
59 5 0.04
60 1 0.01
61 11 0.10
62 1 0.01
63 44 0.38
64 22 0.19
65 8 0.07
66 3 0.03
67 2 0.02
68 6 0.05
69 2 0.02
70 8 0.07
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (58 bp):
TTAATAATTATATAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAAAAA
Found at i:10371578 original size:21 final size:21
Alignment explanation
Indices: 10371479--10371579 Score: 59
Period size: 21 Copynumber: 4.8 Consensus size: 21
10371469 AATTTATATG
*
10371479 ATATAAAATTAAATATCTATA
1 ATATAATATTAAATATCTATA
*
10371500 ATATAATATTAAAAAAT-TA-A
1 ATATAATATT-AAATATCTATA
* **
10371520 TATTTAATTTATTTAAA-AAAT-TA
1 -ATATAA--TA-TTAAATATCTATA
*
10371543 ATATTAAAATT-AATATCTATA
1 ATA-TAATATTAAATATCTATA
10371564 ATATAATATTAAATAT
1 ATATAATATTAAATAT
10371580 TAATATTTAA
Statistics
Matches: 60, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
19 2 0.03
20 11 0.18
21 27 0.45
22 8 0.13
23 10 0.17
24 2 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATAATATTAAATATCTATA
Found at i:10371600 original size:63 final size:62
Alignment explanation
Indices: 10371482--10371641 Score: 245
Period size: 63 Copynumber: 2.6 Consensus size: 62
10371472 TTATATGATA
10371482 TAAAATTAAATATCTATAATATAATATTAAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATT-AATATCTATAATATAATATT--AAAATTAATATTTAATTTATTTAAAAAATTAATAT
10371547 TAAAATTAATATCTATAATATAATATTAAATATTAATATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAATATCTATAATATAATATTAAA-ATTAATATTTAATTTATTTAAAAAATTAATAT
* *
10371610 TAAAATTAA-A-ATAAAATATAATA-TAAAATTAA
1 TAAAATTAATATCTATAATATAATATTAAAATTAA
10371642 ATAAAACCTC
Statistics
Matches: 92, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
59 5 0.05
60 4 0.04
61 11 0.12
62 4 0.04
63 41 0.45
64 20 0.22
65 7 0.08
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (62 bp):
TAAAATTAATATCTATAATATAATATTAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:10371644 original size:12 final size:12
Alignment explanation
Indices: 10371599--10371644 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
10371589 ATTTATTTAA
10371599 AAAATT-AATATT
1 AAAATTAAATA-T
10371611 AAAATTAAA-AT
1 AAAATTAAATAT
10371622 AAAA-TATAATAT
1 AAAATTA-AATAT
10371634 AAAATTAAATA
1 AAAATTAAATA
10371645 AAACCTCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 2 0.07
11 7 0.23
12 17 0.57
13 4 0.13
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:10373325 original size:131 final size:130
Alignment explanation
Indices: 10373060--10373456 Score: 618
Period size: 131 Copynumber: 3.0 Consensus size: 130
10373050 CATATTACCA
*
10373060 TGTACATTGTTAATTTACCTATTACTTTAAAGTTATAGGTTTCGAAATTATAAGTATCGATAC-T
1 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTT
* * * *
10373124 TATATGA-CAGTATCGATACTTGTACATTTACGCTTATTTTCATTATACCGGTAGAAACGTTTAC
66 TATAT-ATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACATTTAC
10373188 T
130 T
* *
10373189 GTGTACATTGTTAATTTACCTATTACTTTAAAATAATAGGTTTCGAAATTATAAGTATTGATACT
1 -TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACT
* *
10373254 TTATATATGAGTATCGATACTTGGACATTTACGCCTATTTTTATTATACCGGTGGAAACATTTAC
65 TTATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACATTTA-
10373319 CT
129 CT
* *
10373321 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGATTTCGAAATTATAATTATCGATACTT
1 TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTT
* ** *
10373386 TGTATATGAGTATCGATACTTGGACATTTACATCTATTTTCATTATACCGGTAGAAACATTTATT
66 TATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACATTTACT
10373451 TGTACA
1 TGTACA
10373457 AAGTAATAGG
Statistics
Matches: 245, Mismatches: 19, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
130 68 0.28
131 175 0.71
132 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (130 bp):
TGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATACTT
TATATATGAGTATCGATACTTGGACATTTACGCCTATTTTCATTATACCGGTAGAAACATTTACT
Found at i:10373605 original size:26 final size:26
Alignment explanation
Indices: 10373569--10373626 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
10373559 CCTATATAAA
10373569 AGTATCGATACTTGGTATTTACGCCT
1 AGTATCGATACTTGGTATTTACGCCT
10373595 AGTATCGATACTTGGTATTTACGCCT
1 AGTATCGATACTTGGTATTTACGCCT
*
10373621 ATTATC
1 AGTATC
10373627 AATATACTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (26 bp):
AGTATCGATACTTGGTATTTACGCCT
Found at i:10375728 original size:11 final size:11
Alignment explanation
Indices: 10375703--10375741 Score: 57
Period size: 10 Copynumber: 3.8 Consensus size: 11
10375693 GAAAGCTGGA
10375703 AACCGG-TTT-
1 AACCGGTTTTG
10375712 AACCGGTTTTG
1 AACCGGTTTTG
10375723 AACCGGTTTTG
1 AACCGGTTTTG
10375734 -ACCGGTTT
1 AACCGGTTT
10375742 GACCCGTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 6 0.21
10 11 0.39
11 11 0.39
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (11 bp):
AACCGGTTTTG
Found at i:10375743 original size:20 final size:20
Alignment explanation
Indices: 10375703--10375741 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10375693 GAAAGCTGGA
10375703 AACCGGTTTAACCGGTTTTG
1 AACCGGTTTAACCGGTTTTG
*
10375723 AACCGGTTTTGACCGGTTT
1 AACCGG-TTTAACCGGTTT
10375742 GACCCGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.36
Consensus pattern (20 bp):
AACCGGTTTAACCGGTTTTG
Found at i:10375744 original size:9 final size:10
Alignment explanation
Indices: 10375704--10375745 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
10375694 AAAGCTGGAA
*
10375704 ACCGG-TTTA
1 ACCGGTTTTG
10375713 ACCGGTTTTG
1 ACCGGTTTTG
10375723 AACCGGTTTTG
1 -ACCGGTTTTG
10375734 ACCGG-TTTG
1 ACCGGTTTTG
10375743 ACC
1 ACC
10375746 CGTTGACCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
9 12 0.40
10 8 0.27
11 10 0.33
ACGTcount: A:0.17, C:0.24, G:0.26, T:0.33
Consensus pattern (10 bp):
ACCGGTTTTG
Found at i:10375765 original size:18 final size:18
Alignment explanation
Indices: 10375742--10375806 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
10375732 TGACCGGTTT
10375742 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
10375760 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
10375778 GACCCGTTGACCCGACCC
1 GACCCGTTGACCCGACCC
10375796 GA-CCGTTGACC
1 GACCCGTTGACC
10375807 GGTGCTATTC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
17 9 0.19
18 38 0.81
ACGTcount: A:0.17, C:0.48, G:0.23, T:0.12
Consensus pattern (18 bp):
GACCCGTTGACCCGACCC
Found at i:10385270 original size:20 final size:20
Alignment explanation
Indices: 10385242--10385284 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
10385232 GTAGCGCTTT
10385242 ACCGATTTTGTCAAATTGCA
1 ACCGATTTTGTCAAATTGCA
* *
10385262 ACCGGTTTTGTCAAATTTCA
1 ACCGATTTTGTCAAATTGCA
10385282 ACC
1 ACC
10385285 TGTTATATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (20 bp):
ACCGATTTTGTCAAATTGCA
Found at i:10385435 original size:191 final size:196
Alignment explanation
Indices: 10385182--10385638 Score: 583
Period size: 191 Copynumber: 2.4 Consensus size: 196
10385172 TAATGTATTG
* * * * *
10385182 ATACTATGGTACATATACTTATAAACATATCGATAC---TTTTAACAATTCC-AGTAGCGCTTTA
1 ATACTTTGGTACATATAC-TATAAATATATCGATACAAATTTCAACAATTCCGA-AAGCTCTTTA
* * * * * **
10385243 CCGATTTTGTCAAATTGCAACCGGTTTTGTCAAATTTCAACCTGTTATATTATTATGTATGGATA
64 CCGATTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTCTTATATTATCATGTATCAATA
* * * *
10385308 CATGTGTCTAAGTTATCGATACTTTATAGACTCTATTATTGCAATTATTTTAAATTCCTAAAGTA
129 CATGTGTCTAAGGTACCGATACTTTATAGACACTATTATTGCAATTATTTTAAATTCCTAAAATA
*
10385373 CCG
194 CCA
*
10385376 ATACTTTGGTAC-T-TA-TA-AAAT-TATCGATACAAATTTCAACAATTCCGAAATCTCTTTACC
1 ATACTTTGGTACATATACTATAAATATATCGATACAAATTTCAACAATTCCGAAAGCTCTTTACC
*
10385436 -AGTTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTCTTATATTGTCATGTATCAATAC
66 GA-TTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTCTTATATTATCATGTATCAATAC
* *
10385500 ATGTGTCTAAGGTACCGATACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAATAC
130 ATGTGTCTAAGGTACCGATACTTTATAGACACTATTATTGCAATTATTTTAAATTCCTAAAATAC
10385565 CA
195 CA
* * **
10385567 ATACTTTGGTACATATACTTATAAATATATCGATATAAATTTCAACAATTCTGGTAGCTCTTTAC
1 ATACTTTGGTACATATAC-TATAAATATATCGATACAAATTTCAACAATTCCGAAAGCTCTTTAC
10385632 CGATTTT
65 CGATTTT
10385639 TTTAAATTTC
Statistics
Matches: 225, Mismatches: 26, Indels: 21
0.83 0.10 0.08
Matches are distributed among these distances:
188 9 0.04
189 3 0.01
190 3 0.01
191 147 0.65
192 4 0.02
193 3 0.01
194 11 0.05
195 2 0.01
196 4 0.02
197 38 0.17
198 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (196 bp):
ATACTTTGGTACATATACTATAAATATATCGATACAAATTTCAACAATTCCGAAAGCTCTTTACC
GATTTTGTCAAATTGAAACCGATTTTGTCAAATTTAAACCTCTTATATTATCATGTATCAATACA
TGTGTCTAAGGTACCGATACTTTATAGACACTATTATTGCAATTATTTTAAATTCCTAAAATACC
A
Found at i:10385463 original size:20 final size:20
Alignment explanation
Indices: 10385438--10385475 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10385428 TCTTTACCAG
10385438 TTTTGTCAAATTGAAACCGA
1 TTTTGTCAAATTGAAACCGA
*
10385458 TTTTGTCAAATTTAAACC
1 TTTTGTCAAATTGAAACC
10385476 TCTTATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
TTTTGTCAAATTGAAACCGA
Found at i:10385748 original size:175 final size:176
Alignment explanation
Indices: 10385453--10385821 Score: 479
Period size: 175 Copynumber: 2.1 Consensus size: 176
10385443 TCAAATTGAA
*
10385453 ACCGATTTTGTCAAATTTAAACCTCTTATATTGTCATGTATCAATACATGTGTCTAAGGTACCGA
1 ACCGATTTTGTCAAATTTAAACCTCTTATATTGTCATGCATCAATACATGTG-CTAAGGTACCGA
*
10385518 TACTTTATAGCCACTATTATTGCAATTCTTTTAAATTCCTAAAATACCAATACTTTGGTACATAT
65 TACTTTATAGCCACTATTATTGCAATTATTTTAAATTCCTAAAATACCAATACTTTGGTACATAT
* * * * * *
10385583 ACTTATAAATATATCGATATAAATTTCAACAATTCTGGTAGCTCTTT
130 ACCTATAAACATATCAATACAAATTTCAACAATTCCGATAGCTCTTT
* * * * * * * *
10385630 ACCGATTTTTTTAAATTTCAACTTGTTATATTGTCATGCATCGATATATGTG-TAAGGTATCGAT
1 ACCGATTTTGTCAAATTTAAACCTCTTATATTGTCATGCATCAATACATGTGCTAAGGTACCGAT
** * * * ** *
10385694 ACTTTATAGCCGTTATTATTGTAATTATTTTAAATTCCTACAGTACTGATACTTTGGTACATGTA
66 ACTTTATAGCCACTATTATTGCAATTATTTTAAATTCCTAAAATACCAATACTTTGGTACATATA
*
10385759 CCTATAAACGTATCAATACAAATTTCAACAATTCCGATAGCTCTTT
131 CCTATAAACATATCAATACAAATTTCAACAATTCCGATAGCTCTTT
* *
10385805 ATCGATTTTGTAAAATT
1 ACCGATTTTGTCAAATT
10385822 AAAATCGGTT
Statistics
Matches: 164, Mismatches: 28, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
175 120 0.73
177 44 0.27
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (176 bp):
ACCGATTTTGTCAAATTTAAACCTCTTATATTGTCATGCATCAATACATGTGCTAAGGTACCGAT
ACTTTATAGCCACTATTATTGCAATTATTTTAAATTCCTAAAATACCAATACTTTGGTACATATA
CCTATAAACATATCAATACAAATTTCAACAATTCCGATAGCTCTTT
Found at i:10388428 original size:6 final size:6
Alignment explanation
Indices: 10388418--10388571 Score: 227
Period size: 6 Copynumber: 25.7 Consensus size: 6
10388408 TATGCAACTT
* * * * * * * *
10388418 TATGAT TATGAT TATGAT TATGAT TATGAT TATGAT TATGAT TATGAT
1 TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC
10388466 TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC
1 TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC
10388514 TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC
1 TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC TATGAC
*
10388562 TATGAT TATG
1 TATGAC TATG
10388572 TTCATACACT
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 146 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (6 bp):
TATGAC
Found at i:10391003 original size:196 final size:196
Alignment explanation
Indices: 10390669--10391061 Score: 786
Period size: 196 Copynumber: 2.0 Consensus size: 196
10390659 CAAATTAAAA
10390669 CACCTTAAAAGACTTTACCAAATAAAATAATGATAAGCAGTTAATCACGTAACATAGGAAACTAT
1 CACCTTAAAAGACTTTACCAAATAAAATAATGATAAGCAGTTAATCACGTAACATAGGAAACTAT
10390734 GGTAGCAGTCTCACATAGGGATGTAAAATCGAGTAATCGATCAGGTTTCAGTCGGATCTTGTCAG
66 GGTAGCAGTCTCACATAGGGATGTAAAATCGAGTAATCGATCAGGTTTCAGTCGGATCTTGTCAG
10390799 GTCGGGTGAAATCGGATGCAGGTCAAGCCAGGTAAATTTAATGCTTCGACTCGGATTAGGTCGGG
131 GTCGGGTGAAATCGGATGCAGGTCAAGCCAGGTAAATTTAATGCTTCGACTCGGATTAGGTCGGG
10390864 T
196 T
10390865 CACCTTAAAAGACTTTACCAAATAAAATAATGATAAGCAGTTAATCACGTAACATAGGAAACTAT
1 CACCTTAAAAGACTTTACCAAATAAAATAATGATAAGCAGTTAATCACGTAACATAGGAAACTAT
10390930 GGTAGCAGTCTCACATAGGGATGTAAAATCGAGTAATCGATCAGGTTTCAGTCGGATCTTGTCAG
66 GGTAGCAGTCTCACATAGGGATGTAAAATCGAGTAATCGATCAGGTTTCAGTCGGATCTTGTCAG
10390995 GTCGGGTGAAATCGGATGCAGGTCAAGCCAGGTAAATTTAATGCTTCGACTCGGATTAGGTCGGG
131 GTCGGGTGAAATCGGATGCAGGTCAAGCCAGGTAAATTTAATGCTTCGACTCGGATTAGGTCGGG
10391060 T
196 T
10391061 C
1 C
10391062 CAAGTCATAT
Statistics
Matches: 197, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
196 197 1.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (196 bp):
CACCTTAAAAGACTTTACCAAATAAAATAATGATAAGCAGTTAATCACGTAACATAGGAAACTAT
GGTAGCAGTCTCACATAGGGATGTAAAATCGAGTAATCGATCAGGTTTCAGTCGGATCTTGTCAG
GTCGGGTGAAATCGGATGCAGGTCAAGCCAGGTAAATTTAATGCTTCGACTCGGATTAGGTCGGG
T
Found at i:10391802 original size:2 final size:2
Alignment explanation
Indices: 10391791--10391987 Score: 90
Period size: 2 Copynumber: 98.0 Consensus size: 2
10391781 TTGAAACAAT
*
10391791 TA TA -A TA TA TA TA TA TA TA TA T- TA TA TA TA AA CTA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
* *
10391831 CT- TA TA TA GTT TA TA TA TA -A TA TA TA TA T- TA TA TA TA TA AA
1 -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
10391872 CTA GA TA GA GA AA CTA TA TA GTT TA T- TA -A TA TA AA CTA TA TA
1 -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * *
10391914 TA AA CTA TA TA GTG TA TA TA TA AA GTA TA TA TA T- TA TA TA TA
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
10391956 TA AA CTA TA TA TA TA CA TA TA -A AA TA TA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10391988 ATAATAATAA
Statistics
Matches: 148, Mismatches: 26, Indels: 42
0.69 0.12 0.19
Matches are distributed among these distances:
1 10 0.07
2 128 0.86
3 10 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:10391803 original size:9 final size:9
Alignment explanation
Indices: 10391791--10392001 Score: 79
Period size: 9 Copynumber: 23.0 Consensus size: 9
10391781 TTGAAACAAT
10391791 TATAATATA
1 TATAATATA
10391800 TAT-ATATA
1 TATAATATA
*
10391808 TATATTATA
1 TATAATATA
10391817 TATAA-ACTA
1 TATAATA-TA
10391826 TATAACT-TA
1 TATAA-TATA
*
10391835 TATAGTTTATA
1 TATA--ATATA
10391846 TATAATATA
1 TATAATATA
10391855 TATATTATATA
1 TATA--ATATA
*
10391866 TATAAACTAGA
1 TAT-AA-TATA
* *
10391877 TAGAGAAACTA
1 TATA-ATA-TA
* *
10391888 TATAGTTTA
1 TATAATATA
10391897 T-TAATATA
1 TATAATATA
*
10391905 -A-ACTATA
1 TATAATATA
10391912 TATAA-ACTA
1 TATAATA-TA
*
10391921 TATAGTGTATA
1 TATA--ATATA
10391932 TATAA-AGTA
1 TATAATA-TA
10391941 TAT-ATAT-
1 TATAATATA
10391948 TAT-ATATA
1 TATAATATA
10391956 TA-AACTATA
1 TATAA-TATA
*
10391965 TATATACATA
1 TATA-ATATA
*
10391975 TAAAATATA
1 TATAATATA
10391984 TATAATA-A
1 TATAATATA
10391992 TAATAATATA
1 T-ATAATATA
10392002 AAGTATAAGT
Statistics
Matches: 151, Mismatches: 22, Indels: 57
0.66 0.10 0.25
Matches are distributed among these distances:
7 12 0.08
8 24 0.16
9 70 0.46
10 12 0.08
11 31 0.21
12 2 0.01
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (9 bp):
TATAATATA
Found at i:10391816 original size:11 final size:11
Alignment explanation
Indices: 10391789--10391869 Score: 67
Period size: 11 Copynumber: 7.1 Consensus size: 11
10391779 AATTGAAACA
10391789 ATTATA-ATAT
1 ATTATATATAT
10391799 ATATATATATAT
1 AT-TATATATAT
*
10391811 ATTATATATAA
1 ATTATATATAT
*
10391822 ACTATATA-ACTT
1 ATTATATATA--T
*
10391834 ATATAGTTTATAT
1 AT-TA-TATATAT
*
10391847 ATAATATATAT
1 ATTATATATAT
10391858 ATTATATATAT
1 ATTATATATAT
10391869 A
1 A
10391870 AACTAGATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 13
0.73 0.10 0.17
Matches are distributed among these distances:
10 3 0.05
11 36 0.64
12 8 0.14
13 5 0.09
14 3 0.05
15 1 0.02
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.48
Consensus pattern (11 bp):
ATTATATATAT
Found at i:10391916 original size:11 final size:11
Alignment explanation
Indices: 10391802--10391988 Score: 80
Period size: 11 Copynumber: 17.8 Consensus size: 11
10391792 ATAATATATA
* *
10391802 TATATATATAT
1 TATATATAAAC
10391813 TATATATAAAC
1 TATATATAAAC
10391824 --TATAT-AAC
1 TATATATAAAC
***
10391832 T-TATATAGTT
1 TATATATAAAC
10391842 TATATAT-AA-
1 TATATATAAAC
*
10391851 TATATATATTA-
1 TATATATA-AAC
10391862 TATATATAAAC
1 TATATATAAAC
* *
10391873 TAGATAGAGAAAC
1 T--ATATATAAAC
** *
10391886 TATATAGTTTAT
1 TATATA-TAAAC
10391898 TA-ATATAAAC
1 TATATATAAAC
10391908 TATATATAAAC
1 TATATATAAAC
*
10391919 TATATAGT---G
1 TATATA-TAAAC
*
10391928 TATATATAAAG
1 TATATATAAAC
*
10391939 TATATATATTA-
1 TATATATA-AAC
10391950 TATATATAAAC
1 TATATATAAAC
*
10391961 TATATATATAC
1 TATATATAAAC
10391972 -ATATA-AAA-
1 TATATATAAAC
10391980 TATATATAA
1 TATATATAA
10391989 TAATAATAAT
Statistics
Matches: 134, Mismatches: 24, Indels: 37
0.69 0.12 0.19
Matches are distributed among these distances:
8 4 0.03
9 30 0.22
10 14 0.10
11 72 0.54
12 5 0.04
13 9 0.07
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (11 bp):
TATATATAAAC
Found at i:10391994 original size:17 final size:18
Alignment explanation
Indices: 10391962--10392001 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
10391952 TATATAAACT
10391962 ATATATATACATATAA-A
1 ATATATATACATATAATA
10391979 ATATATATA-ATAATAATA
1 ATATATATACAT-ATAATA
10391997 ATATA
1 ATATA
10392002 AAGTATAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.10
17 13 0.62
18 6 0.29
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATATACATATAATA
Found at i:10392002 original size:11 final size:11
Alignment explanation
Indices: 10391928--10392008 Score: 60
Period size: 11 Copynumber: 7.4 Consensus size: 11
10391918 CTATATAGTG
*
10391928 TATATATAAAG
1 TATATATAAAA
**
10391939 TATATATATTA
1 TATATATAAAA
*
10391950 TATATATAAAC
1 TATATATAAAA
10391961 TATATAT---A
1 TATATATAAAA
*
10391969 TACATATAAAA
1 TATATATAAAA
10391980 TATATATAATAA
1 TATATATAA-AA
*
10391992 TAATAATATAAAG
1 T-AT-ATATAAAA
10392005 TATA
1 TATA
10392009 AGTGTAACAT
Statistics
Matches: 54, Mismatches: 10, Indels: 12
0.71 0.13 0.16
Matches are distributed among these distances:
8 6 0.11
11 33 0.61
12 5 0.09
13 4 0.07
14 6 0.11
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TATATATAAAA
Found at i:10392814 original size:20 final size:19
Alignment explanation
Indices: 10392736--10392815 Score: 56
Period size: 20 Copynumber: 3.9 Consensus size: 19
10392726 ATAGGTTTTA
10392736 ATAGGGGTATCGATACCCT
1 ATAGGGGTATCGATACCCT
*
10392755 A-AGCAGGGTA-CTGATACCTT
1 ATAG--GGGTATC-GATACCCT
*
10392775 AATTAGGGTTGTACCGATACCCT
1 -A-TAGGG--GTATCGATACCCT
10392798 ATAGAGGGTATCGATACC
1 ATAG-GGGTATCGATACC
10392816 TACTTTAAGC
Statistics
Matches: 48, Mismatches: 3, Indels: 19
0.69 0.04 0.27
Matches are distributed among these distances:
18 2 0.04
19 2 0.04
20 22 0.46
21 6 0.12
22 3 0.06
23 12 0.25
24 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (19 bp):
ATAGGGGTATCGATACCCT
Found at i:10393384 original size:22 final size:22
Alignment explanation
Indices: 10393359--10393419 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
10393349 GGGTCTACAC
* *
10393359 GGTCATTCGGGACATATACAGA
1 GGTCCTTCGGGACAAATACAGA
* * * *
10393381 GGTCCTTAGTGAAAAATACATA
1 GGTCCTTCGGGACAAATACAGA
10393403 GGTCCTTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
10393420 TTCACAAGCC
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGA
Found at i:10393997 original size:21 final size:21
Alignment explanation
Indices: 10393950--10393998 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10393940 CGAAATTACA
*
10393950 GTAGCTAGGGTATCGGTACACT
1 GTAGC-AGGGTATCGATACACT
* *
10393972 ATAGCAGGGTATCGATACCCT
1 GTAGCAGGGTATCGATACACT
10393993 GTAGCA
1 GTAGCA
10393999 TTCTGGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (21 bp):
GTAGCAGGGTATCGATACACT
Found at i:10397788 original size:12 final size:12
Alignment explanation
Indices: 10397771--10397795 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10397761 AAGAGTTGAT
10397771 AAGTTAAATTTG
1 AAGTTAAATTTG
10397783 AAGTTAAATTTG
1 AAGTTAAATTTG
10397795 A
1 A
10397796 CTTGTCATCA
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:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (12 bp):
AAGTTAAATTTG
Found at i:10402265 original size:21 final size:21
Alignment explanation
Indices: 10402239--10402317 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
10402229 CAGAACCCCA
*
10402239 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
10402260 GGGGGGAATCGGTTCCCCT-T
1 GGGGGGAATCGATTCCCCTGT
* * **
10402280 CAAGGGGGAATCGGTT-CCCTCA
1 --GGGGGGAATCGATTCCCCTGT
10402302 GGGGGG-ATCGATTCCC
1 GGGGGGAATCGATTCCC
10402318 TCTGCACCAA
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
19 6 0.12
20 8 0.17
21 21 0.44
22 13 0.27
ACGTcount: A:0.14, C:0.25, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:10402306 original size:19 final size:20
Alignment explanation
Indices: 10402261--10402319 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
10402251 TTCCCCTGTG
10402261 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTT-CCC-TCAA
10402283 GGGGGAATCGGTTCCCTC-A
1 GGGGGAATCGGTTCCCTCAA
* *
10402302 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
10402320 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 17 0.49
20 2 0.06
21 3 0.09
22 13 0.37
ACGTcount: A:0.15, C:0.27, G:0.36, T:0.22
Consensus pattern (20 bp):
GGGGGAATCGGTTCCCTCAA
Found at i:10406113 original size:22 final size:21
Alignment explanation
Indices: 10406071--10406110 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10406061 GAGTTTGTTT
*
10406071 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
10406092 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
10406111 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:10408980 original size:22 final size:22
Alignment explanation
Indices: 10408949--10409497 Score: 162
Period size: 22 Copynumber: 24.5 Consensus size: 22
10408939 ATATATAAAG
*
10408949 TATAATTATA-AAGAATAAAGTA
1 TATAAGTATATAA-AATAAAGTA
*
10408971 TATAAGTATATAAAATATA-TA
1 TATAAGTATATAAAATAAAGTA
* *
10408992 TACATA-TATAATAATATAAAG--
1 TATA-AGTAT-ATAAAATAAAGTA
10409013 TATAAGTATATTATATATATAAA-TA
1 TATAAGTATA-TA-A-A-ATAAAGTA
*
10409038 GTATAATTATA-AATAATAAAGTA
1 -TATAAGTATATAA-AATAAAGTA
* *
10409061 TATAAGCATATAATATAAAGTA
1 TATAAGTATATAAAATAAAGTA
* *
10409083 TATAAGTATATAATATAAACTA
1 TATAAGTATATAAAATAAAGTA
* *
10409105 TATAAGTATAT-ATATATA-TA
1 TATAAGTATATAAAATAAAGTA
* ** *
10409125 TA-AAGT-TTTAGTATAAACTA
1 TATAAGTATATAAAATAAAGTA
*
10409145 TATACACATATATAATAATATAA--A
1 TATA-A-GTATATAA-AATA-AAGTA
** *
10409169 GTATAAGTATATATTATATA-TA
1 -TATAAGTATATAAAATAAAGTA
**
10409191 TATAGAGTATA-ATTATAAAG-A
1 TATA-AGTATATAAAATAAAGTA
*
10409212 CTA-AAGTATATAAGTATATAA-TA
1 -TATAAGTATATAA-AATA-AAGTA
10409235 TA-AAGTATATAAATATATAAAGTA
1 TATAAGTATAT-AA-A-ATAAAGTA
*
10409259 TA-AAGTATA-AAAGT--A-TA
1 TATAAGTATATAAAATAAAGTA
* *
10409276 TAT-A-CATATACAATATAAGTA
1 TATAAGTATATAAAATA-AAGTA
*
10409297 TAT-A-TATAT-ATATAAAGTTTTA
1 TATAAGTATATAAAATAAAG---TA
*
10409319 GTATAAAGTATATATTATATAAAGTA
1 -TAT-AAGTATATA--AAATAAAGTA
10409345 TATAAGTATATAAAATATATAGTA
1 TATAAGTATATAAAATA-A-AGTA
*
10409369 TAAAAGTATATATACATATAAAG--
1 TATAAGTATATA-A-A-ATAAAGTA
10409392 TATAAGTATATAAAATATATAGTA
1 TATAAGTATATAAAATA-A-AGTA
*
10409416 TAAAAGTATATATACATATAAAG--
1 TATAAGTATATA-A-A-ATAAAGTA
* *
10409439 TATAAGTGTATAAACTATATAGTA
1 TATAAGTATATAAA--ATAAAGTA
10409463 TA-ATAGTATATATACATATAAAG--
1 TATA-AGTATATA-A-A-ATAAAGTA
10409486 TATAAGTATATA
1 TATAAGTATATA
10409498 TAAACTATAA
Statistics
Matches: 413, Mismatches: 45, Indels: 137
0.69 0.08 0.23
Matches are distributed among these distances:
16 3 0.01
17 8 0.02
18 3 0.01
19 12 0.03
20 24 0.06
21 52 0.13
22 121 0.29
23 59 0.14
24 70 0.17
25 24 0.06
26 23 0.06
27 6 0.01
29 8 0.02
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (22 bp):
TATAAGTATATAAAATAAAGTA
Found at i:10409013 original size:44 final size:43
Alignment explanation
Indices: 10408926--10409596 Score: 263
Period size: 47 Copynumber: 15.2 Consensus size: 43
10408916 GGGTGTTACA
* * *
10408926 ATAAGTATATTATATATATAAAGTATA-ATTATAAAGAATAAAGTAT
1 ATAAGTATATAATATATATATA-TATATA-TAT-AA-TATAAAGTAT
* *
10408972 ATAAGTATATAAAATATATATACATATATAATAATATAAAG--T
1 ATAAGTATATAATATATATATATATATAT-ATAATATAAAGTAT
* *
10409014 ATAAGTATATTATATATATAAATAGTATAATTATAAATAATAAAGTAT
1 ATAAGTATATAATATATATATATA-TAT-A-TAT-AAT-ATAAAGTAT
* * *
10409062 ATAAGCATATAATATAAAGTATATA-AGTATATAATATAAACTAT
1 ATAAGTATATAATATATA-TATATATA-TATATAATATAAAGTAT
* * *
10409106 ATAAGTATAT-ATATATATATA-A-AGT-TTTAGTATAAACTAT
1 ATAAGTATATAATATATATATATATA-TATATAATATAAAGTAT
* *
10409146 ATACACATATATAATAATATAAAGTATAAGTATATATTATATATATATAG-AGT
1 ATA-A-GTATATAAT-ATAT--A-TAT-A-TATATA-TATA-ATATAAAGTA-T
* * *
10409199 ATAATTATA-AAGACTAAAGTATATA-AGTATATAATATAAAGTAT
1 ATAAGTATATAATA-TATA-TATATATA-TATATAATATAAAGTAT
* * * *
10409243 ATAAATATATAAAGTATAAAGTATAAAAGTATATATACATATACA--AT
1 ATAAGTATAT-AA-TATATA-TAT-ATA-TATATATA-ATATAAAGTAT
* *
10409290 ATAAGTATAT-ATATATATATA-A-AGT-TTTAGTATAAAGTAT
1 ATAAGTATATAATATATATATATATA-TATATAATATAAAGTAT
* *
10409330 AT-ATTATATAA-AGTATATA-AGTATATA-A-AATATATAGTAT
1 ATAAGTATATAATA-TATATATA-TATATATATAATATAAAGTAT
* * * * *
10409370 AAAAGTATATATACATATAAAGTATAAGTATATAAAATATATAGTAT
1 ATAAGTATATA-ATATATATA-TAT-A-TATATATAATATAAAGTAT
* * * * *
10409417 AAAAGTATAT-ATACATATAAAGTATAAGTGTATAAACTATATAGTAT
1 ATAAGTATATAATATATATATA-TAT-A-TATAT-AA-TATAAAGTAT
* * *
10409464 A-ATAGTATAT-ATACATATAAAGTATA-AGTAT-ATATAAACTAT
1 ATA-AGTATATAATATATATATA-TATATA-TATAATATAAAGTAT
*
10409506 A-AAGTATA-AGTATATATATATATATATATATATATAAAGT-T
1 ATAAGTATATAATATATATATATATATATATA-ATATAAAGTAT
* * * *
10409547 -TTAGTATATAGTATA-AAATATTAAAGTATATAATATAAAGTAT
1 ATAAGTATATAATATATATATA-TATA-TATATAATATAAAGTAT
10409590 ATAAGTA
1 ATAAGTA
10409597 CATATACATA
Statistics
Matches: 494, Mismatches: 60, Indels: 144
0.71 0.09 0.21
Matches are distributed among these distances:
38 5 0.01
39 12 0.02
40 46 0.09
41 41 0.08
42 74 0.15
43 25 0.05
44 61 0.12
45 37 0.07
46 51 0.10
47 75 0.15
48 29 0.06
49 13 0.03
50 6 0.01
51 5 0.01
52 5 0.01
53 9 0.02
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (43 bp):
ATAAGTATATAATATATATATATATATATATAATATAAAGTAT
Found at i:10409048 original size:26 final size:23
Alignment explanation
Indices: 10408926--10409531 Score: 275
Period size: 24 Copynumber: 25.8 Consensus size: 23
10408916 GGGTGTTACA
*
10408926 ATAAGTATATTATATATATAAAGT
1 ATAAGTATATAATA-ATATAAAGT
10408950 ATAA-T-TATAA-AGA-ATAAAGTAT
1 ATAAGTATATAATA-ATATAAAG--T
10408972 ATAAGTATATAA-AATAT--A-T
1 ATAAGTATATAATAATATAAAGT
10408991 ATACA-TATATAATAATATAAAGT
1 ATA-AGTATATAATAATATAAAGT
*
10409014 ATAAGTATATTATATATATAAATAGT
1 ATAAGTATATAATA-ATAT-AA-AGT
*
10409040 ATAATTATA-AAT-A-ATAAAGT
1 ATAAGTATATAATAATATAAAGT
*
10409060 AT-A-TA-AGCATATAATATAAAGTAT
1 ATAAGTATA-TA-ATAATATAAAG--T
10409084 ATAAGTATATAAT-ATA-AACTA-T
1 ATAAGTATATAATAATATAA--AGT
10409106 ATAAGTATATATATATATATAAAGT
1 ATAAGTATATA-ATA-ATATAAAGT
* * *
10409131 TTTAGTATA-AACT-ATAT--A-C
1 ATAAGTATATAA-TAATATAAAGT
*
10409150 A-CA-TATATAATAATATAAAGT
1 ATAAGTATATAATAATATAAAGT
* *
10409171 ATAAGTATAT-ATTATATATA-T
1 ATAAGTATATAATAATATAAAGT
* *
10409192 ATAGAGTATAATTATAAAGACTAAAGT
1 ATA-AGTAT-ATAAT-AATA-TAAAGT
10409219 AT-A-TA-AGTATATAATATAAAGTAT
1 ATAAGTATA-TA-ATAATATAAAG--T
* *
10409243 ATAAATATATAA-AGTATAAAGT
1 ATAAGTATATAATAATATAAAGT
10409265 ATAAAAGTATAT-ATACATATACAA-T
1 AT--AAGTATATAATA-ATATA-AAGT
10409290 ATAAGTATATATATATATATAAAGT
1 ATAAGTATATA-ATA-ATATAAAGT
* *
10409315 TTTAGTATAAAGTATATATTATATAAAGT
1 ATAAGTAT--A-TA-ATA--ATATAAAGT
*
10409344 ATATAAGTATATAA-AATATATAGT
1 A--TAAGTATATAATAATATAAAGT
10409368 ATAAAAGTATAT-ATACATATAAAGT
1 AT--AAGTATATAATA-ATATAAAGT
*
10409393 ATAAGTATATAA-AATATATAGT
1 ATAAGTATATAATAATATAAAGT
10409415 ATAAAAGTATAT-ATACATATAAAGT
1 AT--AAGTATATAATA-ATATAAAGT
* * *
10409440 ATAAGTGTATAA-ACTATATAGT
1 ATAAGTATATAATAATATAAAGT
10409462 ATAA-TAGTATATATACATATAAAGT
1 ATAAGTA-TATA-ATA-ATATAAAGT
10409487 ATAAGTATAT-ATAAACTATAAAGT
1 ATAAGTATATAAT-AA-TATAAAGT
10409511 ATAAGTATATATATATATATA
1 ATAAGTATATA-ATA-ATATA
10409532 TATATATATA
Statistics
Matches: 458, Mismatches: 38, Indels: 171
0.69 0.06 0.26
Matches are distributed among these distances:
17 6 0.01
18 9 0.02
19 13 0.03
20 21 0.05
21 11 0.02
22 85 0.19
23 64 0.14
24 101 0.22
25 85 0.19
26 31 0.07
27 7 0.02
28 8 0.02
29 11 0.02
31 6 0.01
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (23 bp):
ATAAGTATATAATAATATAAAGT
Found at i:10409060 original size:40 final size:39
Alignment explanation
Indices: 10408971--10409543 Score: 187
Period size: 40 Copynumber: 14.6 Consensus size: 39
10408961 GAATAAAGTA
* *
10408971 TATAAGTATATAAAATATATATACATATATAATAATATAAAG
1 TATAAGTATAT--TATATATATAAATATATAAT-ATATAAAG
10409013 TATAAGTATATTATATATATAAATAGTATAAT-TATAAA-
1 TATAAGTATATTATATATATAAATA-TATAATATATAAAG
*
10409051 TAATAAAGTATA-TA-AGCATAT-AATATA-AAGTATAT-AAG
1 T-AT-AAGTATATTATA-TATATAAATATATAA-TATATAAAG
*
10409089 TAT-A-TA-ATATAAACTATATAAGTATATATATATATATAAAG
1 TATAAGTATAT-TATA-TATATAA--ATATATA-ATATATAAAG
* * * * *
10409130 TTTTAGTATA-AACTATATACACATATATAATAATATAAAG
1 TATAAGTATATTA-TATATATAAATATATAAT-ATATAAAG
* *
10409170 TATAAGTATATATTATATATATATAGAGTATAAT-TATAAAG
1 TATAAG--TATATTATATATATAAATA-TATAATATATAAAG
10409211 -ACTAAAGTATATAAGTATATAATATAAAGTATATAAATATATAAAG
1 TA-T-AAGTATAT---TATAT-ATATAAA-TATAT-AATATATAAAG
** * *
10409257 TATAAAGTATAAAAGTATATATACATATA-CA-ATAT-AAG
1 TAT-AAGTATATTA-TATATATAAATATATAATATATAAAG
*
10409295 TAT-A-TATA-TATATATA-AAGT-T-T--TAGTATAAAG
1 TATAAGTATATTATATATATAAATATATAATA-TATAAAG
* * * * *
10409327 TATATATTATA-TAAAGTATATAAGTATATAAAATATATAG
1 TATA-AGTATATTATA-TATATAAATATATAATATATAAAG
* * *
10409367 TATAAAAGTATA-TATACATATAAAGTATA-AGTATATAAAA
1 TAT--AAGTATATTATATATATAAA-TATATAATATATAAAG
** * **
10409407 TATATAGTATAAAAGTATATATACATATA-AAGTATA-AGTG
1 TATA-AGTATATTA-TATATATAAATATATAA-TATATAAAG
* * *
10409447 TATAAACTATA-TAGTATA-AT-AGTATATATACATATAAAG
1 TAT-AAGTATATTA-TATATATAAATATATA-ATATATAAAG
* * *
10409486 TATAAGTATA-TATAAACTATAAAGTATA-AGTATATATA-
1 TATAAGTATATTATATA-TATAAA-TATATAATATATAAAG
10409524 TAT-A-TATA-TATATATATAAA
1 TATAAGTATATTATATATATAAA
10409544 GTTTTAGTAT
Statistics
Matches: 410, Mismatches: 57, Indels: 135
0.68 0.09 0.22
Matches are distributed among these distances:
30 1 0.00
31 4 0.01
32 8 0.02
33 7 0.02
34 4 0.01
35 20 0.05
36 21 0.05
37 20 0.05
38 35 0.09
39 52 0.13
40 93 0.23
41 50 0.12
42 39 0.10
43 22 0.05
44 13 0.03
45 4 0.01
46 16 0.04
47 1 0.00
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (39 bp):
TATAAGTATATTATATATATAAATATATAATATATAAAG
Found at i:10409297 original size:159 final size:155
Alignment explanation
Indices: 10408986--10409663 Score: 572
Period size: 159 Copynumber: 4.2 Consensus size: 155
10408976 GTATATAAAA
*
10408986 TATATATACATATATAATAATATAAAGTAT-AAG--TATATTATATATATAAATAGTATAATTAT
1 TATATATA-ATATATAA-AATATAAAGTATAAAGTATATATTATATATATATA-AGTATAATTAT
* * * *
10409048 AAATAATAAAGTATATAAG-CATATA-ATATAAAGTATATAAGTATATAATATAAACTATATAAG
63 AAAT-ATAAAGTATATAAGTTATATACATATAAAGTATATAAATATATAATATAAAGTATAAAAG
* * *
10409111 TATATATATATATATAAAGTTTTAGTATAAAC
127 --TATATATACATATAAAGTATAAGTAT-AAC
*
10409143 TATATACACATATATAATAATATAAAGTAT-AAGTATATATTATATATATATAGAGTATAATTAT
1 TATATATA-ATATATAA-AATATAAAGTATAAAGTATATATTATATATATATA-AGTATAATTAT
*
10409207 AAAGACTAAAGTATATAAG-TATATA-ATATAAAGTATATAAATATATAAAGTATAAAGTATAAA
63 AAATA-TAAAGTATATAAGTTATATACATATAAAGTATATAAATATAT-AA-TATAAAGTATAAA
10409270 AGTATATATACATATACAA-TATAAG--T-A-
125 AGTATATATACATATA-AAGTATAAGTATAAC
* **
10409297 TATATAT-ATATATAAAGT-TTTAGTATAAAGTATATATTATATAAAGTATATAAGTAT-A-TA-
1 TATATATAATATATAAAATATAAAGTATAAAGTATATATTATAT--A-TATATAAGTATAATTAT
* * * * *
10409357 AAATATATAGTATAAAAGTATATATACATATAAAGTATA-AGTATATAAAATATATAGTATAAAA
63 AAATATAAAGTATATAAGT-TATATACATATAAAGTATATA-AATATATAATATAAAGTATAAAA
10409421 GTATATATACATATAAAGTATAAGTGTATAAAC
126 GTATATATACATATAAAGTATAA--GTAT-AAC
* *
10409454 TATATAGTATAATAGTATATATACATATAAAGTAT-AAGTATATATAAACTATAAAGTATAAGTA
1 --TATA-TATAATA-TATA-A-A-ATATAAAGTATAAAGTATATAT-TA-TATATA-TATAAGTA
* * * *
10409518 TATATATATATATATATA-TATATAAAGTTTTAGTATATAGTATAAAATAT-TAAAGTATATAAT
56 TA-AT-TATAAATATAAAGTATAT-AAG--TTA-TATACA-TATAAAGTATATAAA-TATATAAT
* * *
10409581 ATAAAGTATATAAGTACATATACATATAAAGTATAAGTATAAG
113 ATAAAGTATAAAAGTATATATACATATAAAGTATAAGTATAAC
*
10409624 TATATATATATATATAAACTATAAAGTATTAAAGTATATA
1 TATATATA-ATATATAAAATATAAAGTA-TAAAGTATATA
10409664 AATATAGAGT
Statistics
Matches: 435, Mismatches: 37, Indels: 89
0.78 0.07 0.16
Matches are distributed among these distances:
149 13 0.03
150 43 0.10
151 28 0.06
152 27 0.06
153 6 0.01
154 13 0.03
155 1 0.00
156 1 0.00
157 33 0.08
158 1 0.00
159 89 0.20
160 7 0.02
161 16 0.04
162 4 0.01
163 1 0.00
164 11 0.03
165 23 0.05
166 17 0.04
167 12 0.03
168 7 0.02
169 6 0.01
170 13 0.03
171 6 0.01
172 7 0.02
173 50 0.11
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (155 bp):
TATATATAATATATAAAATATAAAGTATAAAGTATATATTATATATATATAAGTATAATTATAAA
TATAAAGTATATAAGTTATATACATATAAAGTATATAAATATATAATATAAAGTATAAAAGTATA
TATACATATAAAGTATAAGTATAAC
Found at i:10409332 original size:47 final size:47
Alignment explanation
Indices: 10409152--10409682 Score: 268
Period size: 47 Copynumber: 11.2 Consensus size: 47
10409142 CTATATACAC
* * * *
10409152 ATATATA-ATAATATAAAGTATA-AGTATATATTATATATATATAGAGT
1 ATATATATAT-ATATAAACTATATAGTATAAAGTATATAAATATA-AGT
*
10409199 ATA-AT-TATA-A-AGACTA-A-AGTATATAAGTATAT-AATATAAAGT
1 ATATATATATATATAAACTATATAGTATA-AAGTATATAAATAT-AAGT
* * *
10409241 ATATAAATATATAAAGTATAAAGTATAAAAGTATATATA-CATATACAATATAAGT
1 ATAT--ATATAT--A-TATAAACTAT-ATAGTATA-A-AGTATATA-AATATAAGT
* * *
10409296 ATATATATATATATAAAGT-TTTAGTATAAAGTATATATTATATAAAGT
1 ATATATATATATATAAACTATATAGTATAAAGTATATA-AATAT-AAGT
10409344 ATATA-AGTATATA-AAA-TATATAGTATAAAAGTATATATACATATAAAGT
1 ATATATA-TATATATAAACTATATAGTAT-AAAGTATATA-A-ATAT-AAGT
*
10409393 ATA-A-GTATATA-AAA-TATATAGTATAAAAGTATATATACATATAA--
1 ATATATATATATATAAACTATATAGTAT-AAAGTATATA-A-ATATAAGT
* *
10409437 AGTATA-A-GTGTATAAACTATATAGTATAATAGTATATATACATATAAAGT
1 A-TATATATATATATAAACTATATAGTATAA-AGTATATA-A-ATAT-AAGT
* *
10409487 ATA-A-GTATATATAAACTATAAAGTAT-AAGTATAT--ATAT-A-T
1 ATATATATATATATAAACTATATAGTATAAAGTATATAAATATAAGT
* * *
10409527 ATATATATATATATAAAGT-TTTAGTATATAGTATA-AAATATTAAAGT
1 ATATATATATATATAAACTATATAGTATAAAGTATATAAATA-T-AAGT
* *
10409574 ATATAATATAAAGTATATAAGTAC-ATATACATATAAAG--TATAAGTATAAGT
1 ATAT-ATAT--A-TATATAA--ACTATATA-GTATAAAGTATATAAATATAAGT
*
10409625 ATATATATATATATAAACTATAAAGTATTAAAGTATATAAATATAGAGT
1 ATATATATATATATAAACTATATAGTA-TAAAGTATATAAATATA-AGT
10409674 -TATATATAT
1 ATATATATAT
10409683 TAAATTATAA
Statistics
Matches: 392, Mismatches: 36, Indels: 111
0.73 0.07 0.21
Matches are distributed among these distances:
40 4 0.01
41 8 0.02
42 34 0.09
43 18 0.05
44 3 0.01
45 12 0.03
46 27 0.07
47 105 0.27
48 61 0.16
49 35 0.09
50 15 0.04
51 20 0.05
52 3 0.01
53 15 0.04
54 18 0.05
55 9 0.02
56 5 0.01
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.37
Consensus pattern (47 bp):
ATATATATATATATAAACTATATAGTATAAAGTATATAAATATAAGT
Found at i:10409412 original size:49 final size:47
Alignment explanation
Indices: 10409317--10409621 Score: 324
Period size: 47 Copynumber: 6.8 Consensus size: 47
10409307 TATAAAGTTT
*
10409317 TAGTAT-AAAGTATATAT-TATATAAAGTATATAAGTATATAAAATATA
1 TAGTATAAAAGTATATATACATATAAAG--TATAAGTATATAAAATATA
10409364 TAGTATAAAAGTATATATACATATAAAGTATAAGTATATAAAATATA
1 TAGTATAAAAGTATATATACATATAAAGTATAAGTATATAAAATATA
* *
10409411 TAGTATAAAAGTATATATACATATAAAGTATAAGTGTATAAACTATA
1 TAGTATAAAAGTATATATACATATAAAGTATAAGTATATAAAATATA
*
10409458 TAGTATAATAGTATATATACATATAAAGTATAAGTATATATAAACTATA
1 TAGTATAAAAGTATATATACATATAAAGTATAAGTATATA-AAA-TATA
* * * * *
10409507 AAGTAT--AAGTATATATATATATATA-TAT-A-TATATAAAGT-TT
1 TAGTATAAAAGTATATATACATATAAAGTATAAGTATATAAAATATA
*
10409548 TAGTAT-ATAGTATA-A-A-ATAT----TA-AAGTATAT--AATATA
1 TAGTATAAAAGTATATATACATATAAAGTATAAGTATATAAAATATA
* * *
10409584 AAGTATATAAGTACATATACATATAAAGTATAAGTATA
1 TAGTATAAAAGTATATATACATATAAAGTATAAGTATA
10409622 AGTATATATA
Statistics
Matches: 221, Mismatches: 20, Indels: 36
0.80 0.07 0.13
Matches are distributed among these distances:
35 2 0.01
36 9 0.04
37 10 0.05
38 1 0.00
39 5 0.02
40 5 0.02
41 7 0.03
42 7 0.03
43 2 0.01
44 8 0.04
45 8 0.04
46 3 0.01
47 124 0.56
48 13 0.06
49 17 0.08
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.37
Consensus pattern (47 bp):
TAGTATAAAAGTATATATACATATAAAGTATAAGTATATAAAATATA
Found at i:10409556 original size:2 final size:2
Alignment explanation
Indices: 10408985--10409541 Score: 79
Period size: 2 Copynumber: 274.5 Consensus size: 2
10408975 AGTATATAAA
* *
10408985 AT AT AT AT AC AT AT AT A- AT A- AT AT AA AGT AT A- AGT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
* * *
10409025 AT AT AT AT AA AT AGT AT A- AT -T AT AA AT A- AT AA AGT AT AT A-
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT
* * *
10409065 AGC AT AT A- AT AT AA AGT AT AT A- AGT AT AT A- AT AT AA ACT AT
1 A-T AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT A-T AT
* * *
10409106 AT A- AGT AT AT AT AT AT AT AT AA AGT -T TT AGT AT AA ACT AT AT
1 AT AT A-T AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT A-T AT AT
* * *
10409148 AC AC AT AT AT A- AT A- AT AT AA AGT AT A- AGT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT
* * * *
10409188 AT AT AT AG AGT AT A- AT -T AT AA AG ACT AA AGT AT AT A- AGT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT A-T AT AT AT A-T AT
* * * * *
10409229 AT A- AT AT AA AGT AT AT AA AT AT AT AA AGT AT AA AGT AT A- AA
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT A-T AT AT AT
* * *
10409270 AGT AT AT AT AC AT AT AC A- AT AT A- AGT AT AT AT AT AT AT AT AA
1 A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
* * *
10409312 AGT -T TT AGT AT AA AGT AT AT AT -T AT AT AA AGT AT AT A- AGT AT
1 A-T AT AT A-T AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT A-T AT
* * * *
10409354 AT A- AA AT AT AT AGT AT A- AA AGT AT AT AT AC AT AT AA AGT AT
1 AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT AT A-T AT
* * *
10409395 A- AGT AT AT A- AA AT AT AT AGT AT A- AA AGT AT AT AT AC AT AT
1 AT A-T AT AT AT AT AT AT AT A-T AT AT AT A-T AT AT AT AT AT AT
* * * *
10409435 AA AGT AT A- AGT GT AT AA ACT AT AT AGT AT A- AT AGT AT AT AT AC
1 AT A-T AT AT A-T AT AT AT A-T AT AT A-T AT AT AT A-T AT AT AT AT
* * *
10409478 AT AT AA AGT AT A- AGT AT AT AT AA ACT AT AA AGT AT A- AGT AT AT
1 AT AT AT A-T AT AT A-T AT AT AT AT A-T AT AT A-T AT AT A-T AT AT
10409521 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
10409542 AAGTTTTAGT
Statistics
Matches: 401, Mismatches: 74, Indels: 160
0.63 0.12 0.25
Matches are distributed among these distances:
1 36 0.09
2 317 0.79
3 48 0.12
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.37
Consensus pattern (2 bp):
AT
Found at i:10409583 original size:29 final size:31
Alignment explanation
Indices: 10409073--10409593 Score: 195
Period size: 32 Copynumber: 16.9 Consensus size: 31
10409063 TAAGCATATA
10409073 ATATAAAGTATATAAGTATATA--ATATAAACT
1 ATATAAAGTATATAA-TATATAGTATATAAA-T
*
10409104 ATAT-AAGTATAT-ATATATA-TATA-AAGT
1 ATATAAAGTATATAATATATAGTATATAAAT
* **
10409131 -T-T-TAGTATA-AACTATATACACATATATAAT
1 ATATAAAGTATATAA-TATATA-GTATATA-AAT
* *
10409161 AATATAAAGTATA-AGTATATA-T-TATATAT
1 -ATATAAAGTATATAATATATAGTATATAAAT
* * * *
10409190 ATATAGAGTATA-ATTATAAAG-ACTA-AAGT
1 ATATAAAGTATATAATATATAGTA-TATAAAT
*
10409219 ATAT-AAGTATATAATATAAAGTATATAAAT
1 ATATAAAGTATATAATATATAGTATATAAAT
* * *
10409249 ATATAAAGTATA-AAGTATAAAAGTATATATAC
1 ATATAAAGTATATAA-TAT-ATAGTATATAAAT
10409281 ATATACAA-TATAAGTATATATATA-TATATAAAGT
1 ATATA-AAGTAT-A-TA-ATATATAGTATATAAA-T
* *
10409315 -T-T-TAGTATA-AAGTATATATTATATAAAGT
1 ATATAAAGTATATAA-TATATAGTATATAAA-T
10409344 ATAT-AAGTATATAAAATATATAGTATA-AAAGT
1 ATATAAAGTATAT--AATATATAGTATATAAA-T
* *
10409376 ATATATA-CATATAA-AGTATAAGTATATAAA-
1 ATATAAAGTATATAATA-TAT-AGTATATAAAT
* *
10409406 ATATATAGTATAAAAGTATATA-TACATATAAA-
1 ATATAAAGTATATAA-TATATAGT--ATATAAAT
* * *
10409438 GTAT-AAGTGTATAAACTATATAGTATAATAGTAT
1 ATATAAAGTATAT-AA-TATATAGTAT-ATA-AAT
*
10409472 ATATACA-TATA-AAGTATA-AGTATATATAA-
1 ATATAAAGTATATAA-TATATAGTATATA-AAT
10409501 ACTATAAAGTATAAGTATATATATA-TATATATATAT
1 A-TATAAAGTAT-A-TA-ATATATAGTATATA-A-AT
* *
10409537 ATATAAAGT-TTTAGTATATAGTATA-AAAT
1 ATATAAAGTATATAATATATAGTATATAAAT
*
10409566 AT-TAAAGTATATAATATAAAGTATATAA
1 ATATAAAGTATATAATATATAGTATATAA
10409594 GTACATATAC
Statistics
Matches: 383, Mismatches: 46, Indels: 123
0.69 0.08 0.22
Matches are distributed among these distances:
25 8 0.02
26 7 0.02
27 2 0.01
28 47 0.12
29 52 0.14
30 54 0.14
31 58 0.15
32 74 0.19
33 32 0.08
34 31 0.08
35 16 0.04
36 2 0.01
ACGTcount: A:0.52, C:0.02, G:0.08, T:0.37
Consensus pattern (31 bp):
ATATAAAGTATATAATATATAGTATATAAAT
Found at i:10409616 original size:23 final size:23
Alignment explanation
Indices: 10409574--10409619 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10409564 ATATTAAAGT
10409574 ATATAATATAAAGTATATAAGTAC
1 ATATAATATAAAG-ATATAAGTAC
10409598 ATATACATATAAAG-TATAAGTA
1 ATATA-ATATAAAGATATAAGTA
10409620 TAAGTATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.54, C:0.04, G:0.09, T:0.33
Consensus pattern (23 bp):
ATATAATATAAAGATATAAGTAC
Found at i:10409827 original size:78 final size:80
Alignment explanation
Indices: 10409666--10409905 Score: 403
Period size: 78 Copynumber: 3.0 Consensus size: 80
10409656 AGTATATAAA
*
10409666 TATAGAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAATAAAATTTTAA
1 TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAA-AAAA-TTTAA
10409731 AGCCTAAATTAATACAT
64 AGCCTAAATTAATACAT
*
10409748 TATATAGTTATATATATTAAATTATAAAATTCGT-TGATCAAATTGAAATAAAAAAAA-TTAAAG
1 TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAAAAAATTTAAAG
10409811 CCTAAATTAATACAT
66 CCTAAATTAATACAT
*
10409826 TATATAATTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAATAAAAATTTAAA
1 TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAA-AAAAATTTAAA
*
10409891 GCATAAATTAATACA
65 GCCTAAATTAATACA
10409906 CTTGTCACCA
Statistics
Matches: 150, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
78 54 0.36
79 17 0.11
80 9 0.06
81 37 0.25
82 33 0.22
ACGTcount: A:0.52, C:0.06, G:0.07, T:0.35
Consensus pattern (80 bp):
TATATAGTTATATATATTAAATTATAAAATTCGTAGGATCAAATTGAAATAAAAAAAATTTAAAG
CCTAAATTAATACAT
Found at i:10410353 original size:16 final size:16
Alignment explanation
Indices: 10410313--10410345 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
10410303 ATGGTAATAT
*
10410313 AAGTTAGGTAAATGTC
1 AAGTCAGGTAAATGTC
10410329 AAGTCAGGTAAATGTC
1 AAGTCAGGTAAATGTC
10410345 A
1 A
10410346 GATCAGGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.27
Consensus pattern (16 bp):
AAGTCAGGTAAATGTC
Found at i:10411821 original size:27 final size:28
Alignment explanation
Indices: 10411786--10411845 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 28
10411776 TTGTGAAACC
10411786 TTAAGTAATATAGAGATTTAAGAAATAT
1 TTAAGTAATATAGAGATTTAAGAAATAT
10411814 TTAA-TAATATAGAGATTTAAGAAATAT
1 TTAAGTAATATAGAGATTTAAGAAATAT
10411841 TTAAG
1 TTAAG
10411846 GATGATTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (28 bp):
TTAAGTAATATAGAGATTTAAGAAATAT
Found at i:10412759 original size:54 final size:54
Alignment explanation
Indices: 10412691--10413187 Score: 670
Period size: 54 Copynumber: 9.2 Consensus size: 54
10412681 GTGAGTGTAC
* *
10412691 TATCGACACTAAGTGTGCAACCCACGTAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
** * * * *
10412745 TATTAGCACTAAGTGTGCAACCCACGAAATTAATAATAAGTTTATGAACGATCA
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* ** *
10412799 TATCGGCACTAAGTGTGTAACCCACAAAAGTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
10412853 TATCGACACTAAGTGTACAACCCACAGAATTCATAATAAATTTATGAACGACTG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
10412907 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
10412961 TATCGACACTAAGTGTGTAACTCACGTAATTCATAATAAGTATATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* ** * *
10413015 TATCGGCACTAAGTGTGCAACTCACGTCATTCATAATAAGTTTATGAATGACCA
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * *
10413069 TATCGGCACTAAGTGTGCAACCCAAGGGATTCATAATAAGTTTATGAACAACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
* * * * *
10413123 TATCGGTACTAAGTGTGCAACCCATGGAATTCATAATGAGCTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
*
10413177 TATCGACACTA
1 TATCGGCACTA
10413188 CATATACACC
Statistics
Matches: 389, Mismatches: 54, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 389 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACGGAATTCATAATAAGTTTATGAACGACCG
Found at i:10417864 original size:46 final size:45
Alignment explanation
Indices: 10417814--10417911 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 45
10417804 GCCATGCATT
* * * *
10417814 GATGCACTCTTGAATATTTTGAAACATCGAATGCATTTTGTGTACC
1 GATGCACTCCTGAAT-CTTTGAAACATCGAATGCAATTAGTGTACC
* *
10417860 GATGCACTCCTGACTCTTTGAAACATCGAATGTAATTAGTGTACC
1 GATGCACTCCTGAATCTTTGAAACATCGAATGCAATTAGTGTACC
10417905 GATGCAC
1 GATGCAC
10417912 CCCTAGTGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
45 33 0.72
46 13 0.28
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (45 bp):
GATGCACTCCTGAATCTTTGAAACATCGAATGCAATTAGTGTACC
Found at i:10419872 original size:54 final size:54
Alignment explanation
Indices: 10419784--10420252 Score: 618
Period size: 54 Copynumber: 8.7 Consensus size: 54
10419774 CTATGTGTAC
* *
10419784 TATCGACACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACAACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
10419838 TATTGGCACTAAGTGTGTAACCCACAGAATTCATAATAAGTTTATGAACGATCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* *
10419892 TATCGGAACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATAAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* ***
10419946 TATCGGTACTAAGTGTGCAACCCGTGGAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* *
10420000 TATCGACACTAAGTGTGCAACCCAC-GTAATTCATAATAAGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATAAGTTTATGAACGACCG
* * * * *
10420054 TATCAGCATTAAGTCTGCAACCTACATAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * *
10420108 TATCGGTAATAAGTGAGCAACCCACATAATTCATAATAAGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * * * * * *
10420162 TATCGACACTAAGTGTGCAACCCACATAATTCATAATGAGCTTATGAATGATCA
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
* * *
10420216 TATCGGCACTATGTGTGCACCCCAAAGAACTT-ATAAT
1 TATCGGCACTAAGTGTGCAACCCACAGAA-TTCATAAT
10420253 GTTATGAAAA
Statistics
Matches: 365, Mismatches: 47, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
53 1 0.00
54 362 0.99
55 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATAAGTTTATGAACGACCG
Found at i:10419877 original size:27 final size:27
Alignment explanation
Indices: 10419793--10419878 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
10419783 CTATCGACAC
*
10419793 TAAGTGTGCAACCCACAGAATTCATAA
1 TAAGTGTGTAACCCACAGAATTCATAA
* * * * * *** *
10419820 TAAGTTTATGAA-CAACCGTATTGGCAC
1 TAAGTGTGT-AACCCACAGAATTCATAA
10419847 TAAGTGTGTAACCCACAGAATTCATAA
1 TAAGTGTGTAACCCACAGAATTCATAA
10419874 TAAGT
1 TAAGT
10419879 TTATGAACGA
Statistics
Matches: 38, Mismatches: 19, Indels: 4
0.62 0.31 0.07
Matches are distributed among these distances:
26 2 0.05
27 34 0.89
28 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (27 bp):
TAAGTGTGTAACCCACAGAATTCATAA
Found at i:10422297 original size:21 final size:21
Alignment explanation
Indices: 10422259--10422321 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
10422249 TATCTCATCA
*
10422259 TTATTTTTCATATATTTACTTT
1 TTATTTTTCTTAT-TTTACTTT
10422281 TTATTTTTCTTATTTTA-TTGT
1 TTATTTTTCTTATTTTACTT-T
*
10422302 TTATTTTCCTT-TTTT-CTTT
1 TTATTTTTCTTATTTTACTTT
10422321 T
1 T
10422322 CTTATTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 2 0.05
20 8 0.22
21 15 0.41
22 12 0.32
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (21 bp):
TTATTTTTCTTATTTTACTTT
Found at i:10422369 original size:18 final size:17
Alignment explanation
Indices: 10422323--10422369 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 17
10422313 TTTTCTTTTC
*
10422323 TTATTTTATTTTTTATA
1 TTATTTTATTTTATATA
10422340 TTAGTTTTA-TTTATATA
1 TTA-TTTTATTTTATATA
10422357 TTTATTTTCATTT
1 -TTATTTT-ATTT
10422370 GTATTTTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 14 0.56
18 9 0.36
19 2 0.08
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTTTATTTTATATA
Found at i:10422442 original size:5 final size:5
Alignment explanation
Indices: 10422421--10422555 Score: 69
Period size: 5 Copynumber: 25.2 Consensus size: 5
10422411 CAATTATTAG
* * *
10422421 TATTT TCTTT TCTTT TATTT TATTCT TATTTT TATTT TATTT TGCTTGT
1 TATTT TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT T-ATT-T
* * *
10422470 TATCTT TATTT TA-TT TATTT T-TCTT CATTTT TATTTCT TTTTT TATGT
1 TAT-TT TATTT TATTT TATTT TAT-TT TA-TTT TA-TT-T TATTT TATTT
* *
10422518 T-CTT TATTT TATTT AGTTTTT TATCTT TATTT TATTT T
1 TATTT TATTT TATTT --TATTT TAT-TT TATTT TATTT T
10422556 TCATGTCTTT
Statistics
Matches: 102, Mismatches: 14, Indels: 28
0.71 0.10 0.19
Matches are distributed among these distances:
4 7 0.07
5 57 0.56
6 26 0.25
7 12 0.12
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (5 bp):
TATTT
Found at i:10422477 original size:23 final size:22
Alignment explanation
Indices: 10422433--10422556 Score: 101
Period size: 23 Copynumber: 5.5 Consensus size: 22
10422423 TTTTCTTTTC
* *
10422433 TTTTATTTTATTCTTATTTTTA
1 TTTTATTTTTTTCTTATCTTTA
* *
10422455 TTTTATTTTGCTTGTTATCTTTA
1 TTTTATTTT-TTTCTTATCTTTA
*
10422478 TTTTATTTATTTTTCTTCATTTTTA
1 TTTTA-TT-TTTTTCTT-ATCTTTA
* *
10422503 -TTTCTTTTTTTATGT-TCTTTA
1 TTTTATTTTTTTCT-TATCTTTA
10422524 TTTTATTTAGTTTT-TTATCTTTA
1 TTTTATTT--TTTTCTTATCTTTA
10422547 TTTTATTTTT
1 TTTTATTTTT
10422557 CATGTCTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
21 7 0.08
22 22 0.27
23 33 0.40
24 13 0.16
25 8 0.10
ACGTcount: A:0.15, C:0.06, G:0.03, T:0.76
Consensus pattern (22 bp):
TTTTATTTTTTTCTTATCTTTA
Found at i:10422487 original size:32 final size:31
Alignment explanation
Indices: 10422421--10422490 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
10422411 CAATTATTAG
*
10422421 TATTTTCTTTTCTTTTATTTTATTCTTATTTT
1 TATTTTATTTTCTTTTATTTTATTCTTA-TTT
10422453 TATTTTATTTTGCTTGTTATCTTTATT-TTA-TT
1 TATTTTATTTT-CTT-TTAT-TTTATTCTTATTT
10422485 TATTTT
1 TATTTT
10422491 TCTTCATTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
32 18 0.53
33 3 0.09
34 7 0.21
35 6 0.18
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (31 bp):
TATTTTATTTTCTTTTATTTTATTCTTATTT
Found at i:10422506 original size:14 final size:13
Alignment explanation
Indices: 10422438--10422531 Score: 53
Period size: 12 Copynumber: 7.6 Consensus size: 13
10422428 TTTTCTTTTA
10422438 TTTTA-TTCTTAT
1 TTTTATTTCTTAT
10422450 TTTTA-TT-TTA-
1 TTTTATTTCTTAT
** *
10422460 TTTTGCTTGTTAT
1 TTTTATTTCTTAT
*
10422473 CTTTA-TT-TTAT
1 TTTTATTTCTTAT
10422484 TTATT-TTTCTTCAT
1 TT-TTATTTCTT-AT
10422498 TTTTATTTCTT-T
1 TTTTATTTCTTAT
10422510 TTTTATGTTCTT-T
1 TTTTAT-TTCTTAT
10422523 ATTTTATTT
1 -TTTTATTT
10422532 AGTTTTTTAT
Statistics
Matches: 68, Mismatches: 4, Indels: 19
0.75 0.04 0.21
Matches are distributed among these distances:
10 4 0.06
11 10 0.15
12 23 0.34
13 15 0.22
14 16 0.24
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTATTTCTTAT
Found at i:10422520 original size:13 final size:12
Alignment explanation
Indices: 10422497--10422554 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
10422487 TTTTTCTTCA
10422497 TTTTTATTTCTT
1 TTTTTATTTCTT
10422509 TTTTTATGTTCTT
1 TTTTTAT-TTCTT
**
10422522 TATTTTATTTAGT
1 T-TTTTATTTCTT
10422535 TTTTTA--TCTT
1 TTTTTATTTCTT
10422545 TATTTTATTT
1 T-TTTTATTT
10422555 TTCATGTCTT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
10 3 0.08
11 5 0.14
12 12 0.32
13 11 0.30
14 6 0.16
ACGTcount: A:0.14, C:0.05, G:0.03, T:0.78
Consensus pattern (12 bp):
TTTTTATTTCTT
Found at i:10422546 original size:18 final size:19
Alignment explanation
Indices: 10422505--10422549 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
10422495 CATTTTTATT
*
10422505 TCTTTTTTTATGTTCTTTA
1 TCTTTATTTATGTTCTTTA
*
10422524 T-TTTATTTA-GTTTTTTA
1 TCTTTATTTATGTTCTTTA
10422541 TCTTTATTT
1 TCTTTATTT
10422550 TATTTTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.13, C:0.07, G:0.04, T:0.76
Consensus pattern (19 bp):
TCTTTATTTATGTTCTTTA
Found at i:10422570 original size:69 final size:70
Alignment explanation
Indices: 10422451--10422626 Score: 172
Period size: 69 Copynumber: 2.6 Consensus size: 70
10422441 TATTCTTATT
* * * * *
10422451 TTTATTTTATTTTGCTTGTTATCTTTATTTTATTTATT-TTTCTTCATTTTTAT-TTCTTTT-TT
1 TTTATTTTATTTAGTTTTTTATCTTTATTTTATTT-TTCTGTCTTCATTTTTATCTTATTTTCTT
10422513 TATGTTC-
65 T-T-TTCA
*
10422520 TTTATTTTATTTAGTTTTTTATCTTTATTTTATTTTTCATGTCTT-TTTTTTATCTTATTTTCCT
1 TTTATTTTATTTAGTTTTTTATCTTTATTTTATTTTTC-TGTCTTCATTTTTATCTTATTTT-CT
10422584 TTTTTCA
64 TTTTTCA
*
10422591 TTTA-TTT-TTCA-TTTATTT-TCTTTATTTTATTTTTCT
1 TTTATTTTATTTAGTTT-TTTATCTTTATTTTATTTTTCT
10422627 TTAGTTTATT
Statistics
Matches: 93, Mismatches: 7, Indels: 16
0.80 0.06 0.14
Matches are distributed among these distances:
67 1 0.01
68 22 0.24
69 45 0.48
70 17 0.18
71 5 0.05
72 3 0.03
ACGTcount: A:0.14, C:0.09, G:0.03, T:0.74
Consensus pattern (70 bp):
TTTATTTTATTTAGTTTTTTATCTTTATTTTATTTTTCTGTCTTCATTTTTATCTTATTTTCTTT
TTTCA
Found at i:10422571 original size:43 final size:42
Alignment explanation
Indices: 10422472--10422640 Score: 127
Period size: 43 Copynumber: 3.9 Consensus size: 42
10422462 TTGCTTGTTA
* *
10422472 TCTTTATTTTATTTATTTTTCTTCATTTTTATTTCT-TTTTTTATG
1 TCTTTATTTTATTTA-TTTTCTT--TCTTTATTT-TATTTTTCATG
10422517 TTCTTTATTTTATTTAGTTTT-TTATCTTTATTTTATTTTTCATG
1 -TCTTTATTTTATTTA-TTTTCTT-TCTTTATTTTATTTTTCATG
* *
10422561 TCTTTTTTTTATCTTATTTTCCTTT-TTTCA-TTTATTTTTCATT
1 TCTTTATTTTAT-TTATTTT-CTTTCTTT-ATTTTATTTTTCATG
* * *
10422604 TATTT-TCTTTATTT-TATT-TTTCTTTAGTTTATTTTTC
1 TCTTTAT-TTTATTTATTTTCTTTCTTTATTTTATTTTTC
10422641 TTCATTGCCT
Statistics
Matches: 108, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
39 4 0.04
40 13 0.12
41 3 0.03
42 3 0.03
43 40 0.37
44 22 0.20
45 4 0.04
46 19 0.18
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (42 bp):
TCTTTATTTTATTTATTTTCTTTCTTTATTTTATTTTTCATG
Found at i:10422598 original size:11 final size:11
Alignment explanation
Indices: 10422584--10422618 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
10422574 TTATTTTCCT
10422584 TTTTTCATTTA
1 TTTTTCATTTA
10422595 TTTTTCATTTA
1 TTTTTCATTTA
10422606 -TTTTC-TTTA
1 TTTTTCATTTA
10422615 TTTT
1 TTTT
10422619 ATTTTTCTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 4 0.17
10 8 0.35
11 11 0.48
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTTCATTTA
Found at i:10422599 original size:19 final size:20
Alignment explanation
Indices: 10422564--10422618 Score: 53
Period size: 19 Copynumber: 2.8 Consensus size: 20
10422554 TTTCATGTCT
*
10422564 TTTTTTTATCTTA-TTTTC-C
1 TTTTTTCAT-TTATTTTTCAC
*
10422583 TTTTTTCATTTATTTTTCAT
1 TTTTTTCATTTATTTTTCAC
10422603 TTATTTTC-TTTATTTT
1 TT-TTTTCATTTATTTT
10422619 ATTTTTCTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 3 0.10
19 13 0.42
20 10 0.32
21 5 0.16
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTTTTCATTTATTTTTCAC
Found at i:10422616 original size:20 final size:19
Alignment explanation
Indices: 10422472--10422638 Score: 65
Period size: 20 Copynumber: 9.1 Consensus size: 19
10422462 TTGCTTGTTA
10422472 TCTTTA-TTTTATTTATTTT
1 TCTTTATTTTTATTTA-TTT
* *
10422491 TCTTCATTTTTATTTCTTT
1 TCTTTATTTTTATTTATTT
* *
10422510 T-TTTA-TGTTCTTTATTT
1 TCTTTATTTTTATTTATTT
* *
10422527 TATTTA-GTTT-TTTA---
1 TCTTTATTTTTATTTATTT
10422541 TCTTTA-TTTTATTT-TTCAT
1 TCTTTATTTTTATTTATT--T
10422560 GTCTTT-TTTTTATCTTATTT
1 -TCTTTATTTTTAT-TTATTT
* *
10422580 TCCTT-TTTTCATTTATTTT
1 TCTTTATTTTTATTTA-TTT
*
10422599 TCATTTA-TTTTCTTTATTT
1 TC-TTTATTTTTATTTATTT
*
10422618 TATTT-TTCTTTAGTTTATTT
1 TCTTTATT-TTTA-TTTATTT
10422638 T
1 T
10422639 TCTTCATTGC
Statistics
Matches: 113, Mismatches: 17, Indels: 35
0.68 0.10 0.21
Matches are distributed among these distances:
14 8 0.07
15 3 0.03
17 14 0.12
18 16 0.14
19 31 0.27
20 37 0.33
21 2 0.02
22 2 0.02
ACGTcount: A:0.14, C:0.09, G:0.02, T:0.75
Consensus pattern (19 bp):
TCTTTATTTTTATTTATTT
Found at i:10423229 original size:17 final size:17
Alignment explanation
Indices: 10423207--10423255 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
10423197 GTTTCAGATT
*
10423207 CAGATTCAGATT-CTTGA
1 CAGATTCA-ATTCCTTCA
10423224 CAGATTCCAATTCCTTCA
1 CAGATT-CAATTCCTTCA
10423242 CAGATTCCAATTCC
1 CAGATT-CAATTCC
10423256 CTTATAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.33
Consensus pattern (17 bp):
CAGATTCAATTCCTTCA
Found at i:10424471 original size:22 final size:21
Alignment explanation
Indices: 10424440--10424490 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 21
10424430 GAATTATTAT
*
10424440 TATTTTTATTTTTTAAAATAA
1 TATTTTTATTTTTCAAAATAA
10424461 TATTTGTTATTTTTCAAAATAA
1 TATTT-TTATTTTTCAAAATAA
10424483 -ATCTTTTA
1 TAT-TTTTA
10424491 AATATATATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTTTATTTTTCAAAATAA
Found at i:10424473 original size:21 final size:22
Alignment explanation
Indices: 10424440--10424490 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
10424430 GAATTATTAT
10424440 TATTTTTATTTTTT-AAAATAA
1 TATTTTTATTTTTTCAAAATAA
10424461 TATTTGTTA-TTTTTCAAAATAA
1 TATTT-TTATTTTTTCAAAATAA
10424483 -ATCTTTTA
1 TAT-TTTTA
10424491 AATATATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
21 15 0.56
22 12 0.44
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTTATTTTTTCAAAATAA
Found at i:10434409 original size:24 final size:26
Alignment explanation
Indices: 10434356--10434424 Score: 72
Period size: 24 Copynumber: 2.7 Consensus size: 26
10434346 ACACAGTCCG
* *
10434356 AATCAGAA-AATACTAATCATATTCTA
1 AATCA-AACAATAATAATCATATCCTA
*
10434382 AATCAAACAATATTAATCAT-TCCT-
1 AATCAAACAATAATAATCATATCCTA
*
10434406 AATCAAACAGTAATAATCA
1 AATCAAACAATAATAATCA
10434425 AAAATTTGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.45
25 5 0.13
26 16 0.42
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (26 bp):
AATCAAACAATAATAATCATATCCTA
Found at i:10434732 original size:28 final size:30
Alignment explanation
Indices: 10434701--10434757 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
10434691 AACATATATC
10434701 CGAACAA-A-ACATATCCGAATAACACATT
1 CGAACAACATACATATCCGAATAACACATT
* * *
10434729 CGAATAACATATATATCTGAATAACACAT
1 CGAACAACATACATATCCGAATAACACAT
10434758 ATTCGAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 6 0.25
29 1 0.04
30 17 0.71
ACGTcount: A:0.49, C:0.21, G:0.07, T:0.23
Consensus pattern (30 bp):
CGAACAACATACATATCCGAATAACACATT
Found at i:10441111 original size:23 final size:23
Alignment explanation
Indices: 10441069--10441130 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
10441059 ATAGGGCAGA
* *
10441069 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
10441091 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
10441114 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
10441131 AGAGGAATCG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
22 14 0.38
23 23 0.62
ACGTcount: A:0.23, C:0.32, G:0.26, T:0.19
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:10443192 original size:11 final size:11
Alignment explanation
Indices: 10443176--10443233 Score: 66
Period size: 11 Copynumber: 5.3 Consensus size: 11
10443166 TTTTAAACTT
10443176 AAAATAATTTC
1 AAAATAATTTC
10443187 AAAATAATTTC
1 AAAATAATTTC
10443198 AAAATAATTTTAC
1 AAAATAA-TTT-C
10443211 AAAAT-ATTTC
1 AAAATAATTTC
* *
10443221 -GAACAATTTC
1 AAAATAATTTC
10443231 AAA
1 AAA
10443234 GCCAAAAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 2 0.05
10 6 0.15
11 22 0.55
12 4 0.10
13 6 0.15
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.34
Consensus pattern (11 bp):
AAAATAATTTC
Found at i:10444249 original size:18 final size:18
Alignment explanation
Indices: 10444225--10444268 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
10444215 ATTCAAATCG
10444225 CGGTCGCGACTGTGTTTT
1 CGGTCGCGACTGTGTTTT
* **
10444243 TGGTCGCGGTTGTGTTTT
1 CGGTCGCGACTGTGTTTT
10444261 CGGTCGCG
1 CGGTCGCG
10444269 TTACGTTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.02, C:0.20, G:0.39, T:0.39
Consensus pattern (18 bp):
CGGTCGCGACTGTGTTTT
Found at i:10444383 original size:6 final size:6
Alignment explanation
Indices: 10444361--10444403 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
10444351 AACTTATTAC
10444361 ATAA-T ATAA-T A-AATT ATAATT ATAATT ATAATT ATAATT ATAA
1 ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAATT ATAA
10444404 AAAATCAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 2 0.06
5 8 0.22
6 26 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
ATAATT
Found at i:10444395 original size:18 final size:16
Alignment explanation
Indices: 10444361--10444408 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 16
10444351 AACTTATTAC
10444361 ATAA-TATAATAAATT
1 ATAATTATAATAAATT
10444376 ATAATTATAATTATAATT
1 ATAATTATAA-TA-AATT
*
10444394 ATAATTATAAAAAAT
1 ATAATTATAATAAAT
10444409 CAATTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 4 0.14
16 8 0.28
17 3 0.10
18 14 0.48
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAATTATAATAAATT
Found at i:10447194 original size:26 final size:26
Alignment explanation
Indices: 10447165--10447237 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
10447155 TAGCATAGTA
*
10447165 TGAATCAAGCAATATTAATCATATTC
1 TGAATCAAACAATATTAATCATATTC
**
10447191 TGAATCAAACAATATTAATTGTATTC
1 TGAATCAAACAATATTAATCATATTC
* *
10447217 CGAATCAAACAATAATAATCA
1 TGAATCAAACAATATTAATCA
10447238 AATATTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.47, C:0.15, G:0.07, T:0.32
Consensus pattern (26 bp):
TGAATCAAACAATATTAATCATATTC
Found at i:10449982 original size:15 final size:15
Alignment explanation
Indices: 10449964--10450065 Score: 69
Period size: 15 Copynumber: 6.7 Consensus size: 15
10449954 CGAATAAAAC
*
10449964 ATATTTGAATAGCAT
1 ATATTTGAATAACAT
** * *
10449979 ATATCCGAACAACAC
1 ATATTTGAATAACAT
*
10449994 ATATTTGAATATCAT
1 ATATTTGAATAACAT
** * *
10450009 ATATCCGAACAACAA
1 ATATTTGAATAACAT
*
10450024 ATATTTGAATATCAT
1 ATATTTGAATAACAT
*
10450039 ATATATTCGAATAACAC
1 ATAT-TT-GAATAACAT
*
10450056 ATATCTGAAT
1 ATATTTGAAT
10450066 TCTGATCTGA
Statistics
Matches: 62, Mismatches: 23, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
15 48 0.77
16 3 0.05
17 11 0.18
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (15 bp):
ATATTTGAATAACAT
Found at i:10449997 original size:30 final size:30
Alignment explanation
Indices: 10449962--10450065 Score: 145
Period size: 30 Copynumber: 3.4 Consensus size: 30
10449952 TTCGAATAAA
*
10449962 ACATATTTGAATAGCATATATCCGAACAAC
1 ACATATTTGAATATCATATATCCGAACAAC
10449992 ACATATTTGAATATCATATATCCGAACAAC
1 ACATATTTGAATATCATATATCCGAACAAC
* * *
10450022 AAATATTTGAATATCATATATATTCGAATAAC
1 ACATATTTGAATATC--ATATATCCGAACAAC
*
10450054 ACATATCTGAAT
1 ACATATTTGAAT
10450066 TCTGATCTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
30 43 0.65
32 23 0.35
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (30 bp):
ACATATTTGAATATCATATATCCGAACAAC
Found at i:10452056 original size:31 final size:31
Alignment explanation
Indices: 10452018--10452142 Score: 116
Period size: 31 Copynumber: 4.0 Consensus size: 31
10452008 CCCGAAGGAC
* *
10452018 CAGTCCATAGATTCCGAAGAACCTAGGTAAT
1 CAGTCCATAGATTCCGAAGAACATAGGTAAA
*
10452049 CAGTCCAT--ATGTCCTGAAGAACATATGTAAA
1 CAGTCCATAGAT-TCC-GAAGAACATAGGTAAA
*
10452080 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
1 CAGTCCATA-GATTCCGAAGAACATAGGTAAA
* *
10452111 CAGTACAT--ATGTCTCGAAAAACATAGGTAAA
1 CAGTCCATAGAT-TC-CGAAGAACATAGGTAAA
10452142 C
1 C
10452143 CCTCGACCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
29 3 0.04
30 4 0.05
31 68 0.87
32 2 0.03
33 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (31 bp):
CAGTCCATAGATTCCGAAGAACATAGGTAAA
Found at i:10452120 original size:62 final size:62
Alignment explanation
Indices: 10452018--10452142 Score: 164
Period size: 62 Copynumber: 2.0 Consensus size: 62
10452008 CCCGAAGGAC
* * * * * *
10452018 CAGTCCATAGATTCCGAAGAACCTAGGTAATCAGTCCATATGTC-CTGAAGAACATATGTAAA
1 CAGTCCATAGATCCCGAAGAACATAGGTAAACAGTACATATGTCTC-GAAAAACATAGGTAAA
10452080 CAGTCCATATG-TCCCGAAGAACATAGGTAAACAGTACATATGTCTCGAAAAACATAGGTAAA
1 CAGTCCATA-GATCCCGAAGAACATAGGTAAACAGTACATATGTCTCGAAAAACATAGGTAAA
10452142 C
1 C
10452143 CCTCGACCTT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
62 53 0.96
63 2 0.04
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (62 bp):
CAGTCCATAGATCCCGAAGAACATAGGTAAACAGTACATATGTCTCGAAAAACATAGGTAAA
Found at i:10457404 original size:31 final size:31
Alignment explanation
Indices: 10457384--10457492 Score: 200
Period size: 31 Copynumber: 3.5 Consensus size: 31
10457374 ATAGATTCCA
* *
10457384 AAGAACCTAGGTAATCAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
10457415 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
10457446 AAGAACATAGGTAAACAGTCCATATGTCCCG
1 AAGAACATAGGTAAACAGTCCATATGTCCCG
10457477 AAGAACATAGGTAAAC
1 AAGAACATAGGTAAAC
10457493 CCTTGACACT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.19
Consensus pattern (31 bp):
AAGAACATAGGTAAACAGTCCATATGTCCCG
Found at i:10459057 original size:22 final size:22
Alignment explanation
Indices: 10459032--10459074 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10459022 AACCAATAAC
*
10459032 CTCATTC-ATTTCTGTCTTTTCT
1 CTCATTCGA-TTCTGTATTTTCT
10459054 CTCATTCGATTCTGTATTTTC
1 CTCATTCGATTCTGTATTTTC
10459075 CTTTGATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.12, C:0.26, G:0.07, T:0.56
Consensus pattern (22 bp):
CTCATTCGATTCTGTATTTTCT
Found at i:10464100 original size:16 final size:16
Alignment explanation
Indices: 10464079--10464111 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10464069 CCCATTTATC
10464079 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
10464095 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
10464111 A
1 A
10464112 AAACACACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAAACACACTT
Found at i:10465902 original size:2 final size:2
Alignment explanation
Indices: 10465895--10465957 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
10465885 TTGAGAAACA
10465895 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10465937 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
10465958 GTTTTCATAA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10466471 original size:21 final size:21
Alignment explanation
Indices: 10466416--10466479 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
10466406 GATTCCCCTG
10466416 TGGGGGGAATCGGTTCCTCTTCA
1 TGGGGGGAATCGGTTCC-C-TCA
**
10466439 AAGGGGGAATCGGTTCCCTCA
1 TGGGGGGAATCGGTTCCCTCA
* *
10466460 TGGGGGGGATCGATTCCCTC
1 TGGGGGGAATCGGTTCCCTC
10466480 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 19 0.54
22 1 0.03
23 15 0.43
ACGTcount: A:0.16, C:0.23, G:0.36, T:0.25
Consensus pattern (21 bp):
TGGGGGGAATCGGTTCCCTCA
Found at i:10479684 original size:20 final size:20
Alignment explanation
Indices: 10479659--10479698 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10479649 TTTTGGTGCA
10479659 GAGGGAATCGATCCCCCCTT
1 GAGGGAATCGATCCCCCCTT
*
10479679 GAGGGAATCGATTCCCCCTT
1 GAGGGAATCGATCCCCCCTT
10479699 TGAAGGGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.33, G:0.25, T:0.23
Consensus pattern (20 bp):
GAGGGAATCGATCCCCCCTT
Found at i:10479713 original size:23 final size:21
Alignment explanation
Indices: 10479659--10479717 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 21
10479649 TTTTGGTGCA
10479659 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAATCGATTCCCCCCTT
*
10479679 GAGGGAATCGATTCCCCCTTT
1 GAGGGAATCGATTCCCCCCTT
*
10479700 GAAGGGGAACCGATTCCC
1 G-A-GGGAATCGATTCCC
10479718 ACCACAGGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
20 11 0.32
21 9 0.26
22 1 0.03
23 13 0.38
ACGTcount: A:0.22, C:0.31, G:0.27, T:0.20
Consensus pattern (21 bp):
GAGGGAATCGATTCCCCCCTT
Found at i:10479728 original size:21 final size:21
Alignment explanation
Indices: 10479702--10479741 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10479692 CCCCCTTTGA
*
10479702 AGGGGAACCGATTCCCACCAC
1 AGGGGAACCGATACCCACCAC
*
10479723 AGGGGAATCGATACCCACC
1 AGGGGAACCGATACCCACC
10479742 TGGGGTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.35, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCACCAC
Found at i:10482381 original size:21 final size:21
Alignment explanation
Indices: 10482357--10482411 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
10482347 CTCAGAGGGA
10482357 ACCGATTCCCCCCCAGGGGGT
1 ACCGATTCCCCCCCAGGGGGT
10482378 ACCGATTCCCCCCCAGGGGGT
1 ACCGATTCCCCCCCAGGGGGT
10482399 ACCGATTCCCCCC
1 ACCGATTCCCCCC
10482412 TTGTATAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.15, C:0.47, G:0.24, T:0.15
Consensus pattern (21 bp):
ACCGATTCCCCCCCAGGGGGT
Found at i:10484939 original size:31 final size:31
Alignment explanation
Indices: 10484917--10485027 Score: 195
Period size: 31 Copynumber: 3.6 Consensus size: 31
10484907 CCATAGATTT
* *
10484917 CGAAGAACCTAGGTAATCAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
10484948 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
10484979 CGAAGAACATAGGTAAACAGTCCATATGTCC
1 CGAAGAACATAGGTAAACAGTCCATATGTCC
*
10485010 CGAAAAACATAGGTAAAC
1 CGAAGAACATAGGTAAAC
10485028 CCTCGACCTT
Statistics
Matches: 77, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 77 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.19
Consensus pattern (31 bp):
CGAAGAACATAGGTAAACAGTCCATATGTCC
Found at i:10490258 original size:31 final size:31
Alignment explanation
Indices: 10490243--10490313 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
10490233 CCAAAGAACC
*
10490243 TAGGTAATCAGTCCATATGTCCCGAAAAACA
1 TAGGTAAACAGTCCATATGTCCCGAAAAACA
*
10490274 TAGGTAAACAGTCCATATGTCCCGAAGAACA
1 TAGGTAAACAGTCCATATGTCCCGAAAAACA
10490305 TAGGTAAAC
1 TAGGTAAAC
10490314 CCTCGACCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (31 bp):
TAGGTAAACAGTCCATATGTCCCGAAAAACA
Found at i:10490895 original size:20 final size:20
Alignment explanation
Indices: 10490870--10490924 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
10490860 CGAAATATCC
10490870 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
10490890 ATGCATCGATGCACCCCTTA
1 ATGCATCGATGCACCCCTTA
10490910 ATGCATCGATGCACC
1 ATGCATCGATGCACC
10490925 TTCAAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.25, C:0.35, G:0.16, T:0.24
Consensus pattern (20 bp):
ATGCATCGATGCACCCCTTA
Found at i:10494186 original size:26 final size:26
Alignment explanation
Indices: 10494164--10494241 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 26
10494154 CATATCACAA
*
10494164 TCCGAATTAAACAATATTAATCAAAT
1 TCCGAATCAAACAATATTAATCAAAT
* *
10494190 TTCGAATCAAACAATATTAATCATAT
1 TCCGAATCAAACAATATTAATCAAAT
** ** *
10494216 TATGAATCAAACGGTAATAATCAAAT
1 TCCGAATCAAACAATATTAATCAAAT
10494242 ATTTGCATGA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.49, C:0.14, G:0.06, T:0.31
Consensus pattern (26 bp):
TCCGAATCAAACAATATTAATCAAAT
Found at i:10494508 original size:15 final size:15
Alignment explanation
Indices: 10494488--10494605 Score: 101
Period size: 15 Copynumber: 7.6 Consensus size: 15
10494478 TGTCTGATCT
*
10494488 TATCCGAAGAACACA
1 TATCCGAATAACACA
*
10494503 TATCCGAATAACATA
1 TATCCGAATAACACA
*
10494518 TATCTGAATAACACA
1 TATCCGAATAACACA
* *
10494533 TATCCAAATAACATATA
1 TATCCGAATAAC--ACA
*
10494550 TATCCAAATAACACA
1 TATCCGAATAACACA
* * *
10494565 TATCCGATTAATATATA
1 TATCCGAAT-A-ACACA
*
10494582 TATTCGAATAACACA
1 TATCCGAATAACACA
*
10494597 TATCTGAAT
1 TATCCGAAT
10494606 TTTAATCTAA
Statistics
Matches: 81, Mismatches: 18, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
15 55 0.68
16 2 0.02
17 24 0.30
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (15 bp):
TATCCGAATAACACA
Found at i:10494535 original size:17 final size:17
Alignment explanation
Indices: 10494513--10494567 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 17
10494503 TATCCGAATA
**
10494513 ACATATATCTGAATAAC
1 ACATATATCCAAATAAC
10494530 AC--ATATCCAAATAAC
1 ACATATATCCAAATAAC
*
10494545 ATATATATCCAAATAAC
1 ACATATATCCAAATAAC
10494562 ACATAT
1 ACATAT
10494568 CCGATTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 12 0.38
17 20 0.62
ACGTcount: A:0.51, C:0.20, G:0.02, T:0.27
Consensus pattern (17 bp):
ACATATATCCAAATAAC
Found at i:10494560 original size:32 final size:32
Alignment explanation
Indices: 10494488--10494605 Score: 150
Period size: 32 Copynumber: 3.8 Consensus size: 32
10494478 TGTCTGATCT
*
10494488 TATCCGAAGAACACATATCCGAATAAC--ATA
1 TATCCGAATAACACATATCCGAATAACATATA
* *
10494518 TATCTGAATAACACATATCCAAATAACATATA
1 TATCCGAATAACACATATCCGAATAACATATA
* * *
10494550 TATCCAAATAACACATATCCGATTAATATATA
1 TATCCGAATAACACATATCCGAATAACATATA
* *
10494582 TATTCGAATAACACATATCTGAAT
1 TATCCGAATAACACATATCCGAAT
10494606 TTTAATCTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
30 24 0.32
32 50 0.68
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (32 bp):
TATCCGAATAACACATATCCGAATAACATATA
Found at i:10494962 original size:18 final size:18
Alignment explanation
Indices: 10494939--10494976 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
10494929 GAACCAACCA
10494939 AAATAAATTA-CTCGAACT
1 AAATAAATTACCT-GAACT
10494957 AAATAAATTACCTGAACT
1 AAATAAATTACCTGAACT
10494975 AA
1 AA
10494977 CATATTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (18 bp):
AAATAAATTACCTGAACT
Found at i:10501546 original size:19 final size:20
Alignment explanation
Indices: 10501519--10501556 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10501509 TTATAAGGTA
10501519 AAAATAAT-ATTATTGTAAAC
1 AAAATAATAATTATT-TAAAC
10501539 AAAA-AATAATTATTTAAA
1 AAAATAATAATTATTTAAA
10501557 ATAATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATAATAATTATTTAAAC
Found at i:10502361 original size:240 final size:229
Alignment explanation
Indices: 10501893--10502362 Score: 841
Period size: 240 Copynumber: 2.0 Consensus size: 229
10501883 AAGTAATCTT
10501893 ATATTCGTCCAATCAAATACTGCAATCTTAAGTTCTTGATAAGCAAACCAAACAGGATAATACAA
1 ATATTCGTCCAATCAAATACTGCAATCTTAAGTTCTTGATAAGCAAACCAAACAGGATAATACAA
10501958 CATGCCCAAAGTAATGTTATATTCTCTCAAAGGTAATCTTACATCCCATGAATGAAACAATGAAC
66 CATGCCCAAAGTAATGTTATATTCTCTCAAAGGTAATCTTACATCCCATGAATGAAACAATGAAC
10502023 ACCATGCATAGAGGATAAGTTTGATCAGGCTAGGAGTCATAGGCAAGACAAAACACGAAACCCAA
131 ACCATGCATAGAGGATAAGTTTGATCAGGCTAGGAGTCATAGGCAAGACAAAACACGAAACCCAA
10502088 CACTATTGACTATTCCAACGAAATAAGGGCCTAC
196 CACTATTGACTATTCCAACGAAATAAGGGCCTAC
10502122 ATATTCGTCCAATCAAATACTGCAATCTTAAGTTCTTGATAAGCAAACCAAACAGGATAATACAA
1 ATATTCGTCCAATCAAATACTGCAATCTTAAGTTCTTGATAAGCAAACCAAACAGGATAATACAA
10502187 CATGCCCAAAGTAATGTTATATTCTCTCAAAGGTAATCTTACATCCCATGAATCAAACATGAATG
66 CATGCCCAAAGTAATGTTATATTCTCTCAAAGGTAATCTTACAT--C------C---CATGAATG
10502252 AAACAATGAACACCATGCATAGAGGATAAGTTTGATCAGGCTAGGAGTCATAGGCAAGACAAAAC
120 AAACAATGAACACCATGCATAGAGGATAAGTTTGATCAGGCTAGGAGTCATAGGCAAGACAAAAC
10502317 ACGAAACCCAACACTATTGACTATTCCAACGAAATAAGGGCCTAC
185 ACGAAACCCAACACTATTGACTATTCCAACGAAATAAGGGCCTAC
10502362 A
1 A
10502363 CGCAGTAGAA
Statistics
Matches: 230, Mismatches: 0, Indels: 11
0.95 0.00 0.05
Matches are distributed among these distances:
229 109 0.47
231 1 0.00
237 1 0.00
240 119 0.52
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.23
Consensus pattern (229 bp):
ATATTCGTCCAATCAAATACTGCAATCTTAAGTTCTTGATAAGCAAACCAAACAGGATAATACAA
CATGCCCAAAGTAATGTTATATTCTCTCAAAGGTAATCTTACATCCCATGAATGAAACAATGAAC
ACCATGCATAGAGGATAAGTTTGATCAGGCTAGGAGTCATAGGCAAGACAAAACACGAAACCCAA
CACTATTGACTATTCCAACGAAATAAGGGCCTAC
Found at i:10512430 original size:21 final size:21
Alignment explanation
Indices: 10512392--10512442 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
10512382 ATGAAGCAAG
* *
10512392 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGACAGACCAGCAGC
* *
10512413 GGAAGCAGCCAGACCAGCGGC
1 GGAAGCAGACAGACCAGCAGC
10512434 GGAAGCAGA
1 GGAAGCAGA
10512443 GAAAAAAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.41, T:0.00
Consensus pattern (21 bp):
GGAAGCAGACAGACCAGCAGC
Found at i:10512461 original size:21 final size:21
Alignment explanation
Indices: 10512437--10512476 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10512427 CAGCGGCGGA
*
10512437 AGCAGAGAAAAAAGTAGCAGC
1 AGCACAGAAAAAAGTAGCAGC
* *
10512458 AGCACAGAGAGAAGTAGCA
1 AGCACAGAAAAAAGTAGCA
10512477 TATTAACAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.30, T:0.05
Consensus pattern (21 bp):
AGCACAGAAAAAAGTAGCAGC
Found at i:10512838 original size:43 final size:44
Alignment explanation
Indices: 10512790--10512895 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
10512780 ATTCTGTGTT
10512790 ATTTAGCGGCGTTT-T-TAAAAAAACACGCCGCAATATACCATAC
1 ATTTAGCGGCGTTTGTATAAAAAAA-ACGCCGCAATATACCATAC
** * *
10512833 ATTTAGCGGCGTTTGTATACTAGAAACGTCGCAATATACCATAC
1 ATTTAGCGGCGTTTGTATAAAAAAAACGCCGCAATATACCATAC
*
10512877 ATTTAGCGGTGTTTGTATA
1 ATTTAGCGGCGTTTGTATA
10512896 CTATAAACAC
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
43 14 0.25
44 37 0.66
45 5 0.09
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (44 bp):
ATTTAGCGGCGTTTGTATAAAAAAAACGCCGCAATATACCATAC
Found at i:10512875 original size:44 final size:44
Alignment explanation
Indices: 10512818--10512903 Score: 154
Period size: 44 Copynumber: 2.0 Consensus size: 44
10512808 AAAAACACGC
10512818 CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAACGT
1 CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAACGT
* *
10512862 CGCAATATACCATACATTTAGCGGTGTTTGTATACTATAAAC
1 CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAAC
10512904 ACCATTAATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (44 bp):
CGCAATATACCATACATTTAGCGGCGTTTGTATACTAGAAACGT
Found at i:10513029 original size:42 final size:42
Alignment explanation
Indices: 10512983--10513140 Score: 142
Period size: 42 Copynumber: 3.8 Consensus size: 42
10512973 CGTTTGTGGG
*
10512983 AAAAACGCCGCTAAAAATCAACAACTACTGCGATGTTTGTAA
1 AAAAACGCCGCTAAAAATCAACACCTACTGCGATGTTTGTAA
***
10513025 AAAAA-GTTAC-AAAATATCAACACCTACTGCGATGTTTGTAA
1 AAAAACGCCGCTAAAA-ATCAACACCTACTGCGATGTTTGTAA
* * * * ** *
10513066 GTAAAATGCCGCTAAATATCAACACCTAATGCGGCGTTT-TATG
1 -AAAAACGCCGCTAAAAATCAACACCTACTGCGATGTTTGTA-A
* * *
10513109 AAAAACACCGCTAAACATCAACACCTATTGCG
1 AAAAACGCCGCTAAAAATCAACACCTACTGCG
10513141 GCGTTTTTCT
Statistics
Matches: 93, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
40 4 0.04
41 27 0.29
42 38 0.41
43 21 0.23
44 3 0.03
ACGTcount: A:0.41, C:0.22, G:0.14, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAAATCAACACCTACTGCGATGTTTGTAA
Found at i:10513141 original size:42 final size:43
Alignment explanation
Indices: 10513036--10513189 Score: 170
Period size: 43 Copynumber: 3.6 Consensus size: 43
10513026 AAAAGTTACA
* ** * * *
10513036 AAATATCAACACCTACTGCGATGTTTGTAAGTAAAATG-CCGCT
1 AAATATCAACACCTATTGCGGCGTTT-TATGAAAAACGACCGCT
*
10513079 AAATATCAACACCTAATGCGGCGTTTTATGAAAAAC-ACCGCT
1 AAATATCAACACCTATTGCGGCGTTTTATGAAAAACGACCGCT
* * *
10513121 AAACATCAACACCTATTGCGGCGTTTTTCTGACAAACGA-CGCT
1 AAATATCAACACCTATTGCGGCG-TTTTATGAAAAACGACCGCT
*
10513164 AAATAACAACACCTATTGCGGCGTTT
1 AAATATCAACACCTATTGCGGCGTTT
10513190 GTTGCCGCTA
Statistics
Matches: 96, Mismatches: 12, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
42 36 0.38
43 59 0.61
44 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
AAATATCAACACCTATTGCGGCGTTTTATGAAAAACGACCGCT
Done.