Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008270.1 Hibiscus syriacus cultivar Beakdansim tig00110927_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: 726180
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 5
Found at i:339870 original size:130 final size:130
Alignment explanation
Indices: 339666--339913 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
339656 AATTTTCTTC
* * * *
339666 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACATATGTCAGAT
1 TAATTAGGTGGTGACATGCGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
339731 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
339796 TAATTAGGTGGTGACATGCGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGCGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
339861 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
339914 TATATAAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGCGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:340360 original size:35 final size:35
Alignment explanation
Indices: 340310--340385 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
340300 AATTGAATTT
* *
340310 AATTGAATTATTTTGGAATTTAGGGTTGAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTGAGAATGA
* *
340345 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTGAGAATGA
340380 AATTGA
1 AATTGA
340386 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTGAGAATGA
Found at i:342843 original size:21 final size:21
Alignment explanation
Indices: 342819--342892 Score: 66
Period size: 21 Copynumber: 3.5 Consensus size: 21
342809 GATGAAAATG
342819 ATCGATCCCTTCCCTTAAAGA
1 ATCGATCCCTTCCCTTAAAGA
*
342840 ATCGAT-CC--CCATATGAAA-A
1 ATCGATCCCTTCCCT-T-AAAGA
*
342859 TGATCGATCTCTTCCCTTAAAGA
1 --ATCGATCCCTTCCCTTAAAGA
342882 ATCGATCCCTT
1 ATCGATCCCTT
342893 TGTTACAACG
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
18 3 0.07
19 2 0.05
20 5 0.12
21 22 0.54
22 4 0.10
23 2 0.05
24 3 0.07
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (21 bp):
ATCGATCCCTTCCCTTAAAGA
Found at i:342844 original size:42 final size:42
Alignment explanation
Indices: 342776--342890 Score: 178
Period size: 42 Copynumber: 2.7 Consensus size: 42
342766 GTGAGTTTGG
* *
342776 GATCGATCCCTTCACC-AAAAGGATCGATCCCCAGATGAAAAT
1 GATCGATCCCTTC-CCTTAAAGAATCGATCCCCAGATGAAAAT
*
342818 GATCGATCCCTTCCCTTAAAGAATCGATCCCCATATGAAAAT
1 GATCGATCCCTTCCCTTAAAGAATCGATCCCCAGATGAAAAT
*
342860 GATCGATCTCTTCCCTTAAAGAATCGATCCC
1 GATCGATCCCTTCCCTTAAAGAATCGATCCC
342891 TTTGTTACAA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 2 0.03
42 66 0.97
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (42 bp):
GATCGATCCCTTCCCTTAAAGAATCGATCCCCAGATGAAAAT
Found at i:346143 original size:2 final size:2
Alignment explanation
Indices: 346136--346161 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
346126 TCCTTACATA
346136 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
346162 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:347808 original size:12 final size:10
Alignment explanation
Indices: 347787--347849 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 10
347777 TAACCTATTA
347787 ATTTTTTTTT
1 ATTTTTTTTT
347797 ATTTTCTGTTTT
1 ATTTT-T-TTTT
347809 ATTTATTTTTT
1 ATTT-TTTTTT
347820 ATTTTTATTTTT
1 A-TTTT-TTTTT
***
347832 ATTTCACTTT
1 ATTTTTTTTT
347842 ATTTTTTT
1 ATTTTTTT
347850 ACTTTATCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
10 13 0.31
11 10 0.24
12 18 0.43
13 1 0.02
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (10 bp):
ATTTTTTTTT
Found at i:347825 original size:17 final size:17
Alignment explanation
Indices: 347787--347829 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
347777 TAACCTATTA
*
347787 ATTTTTTTTTATTTTCT
1 ATTTTTATTTATTTTCT
* *
347804 -GTTTTATTTATTTTTT
1 ATTTTTATTTATTTTCT
347820 ATTTTTATTT
1 ATTTTTATTT
347830 TTATTTCACT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (17 bp):
ATTTTTATTTATTTTCT
Found at i:347842 original size:29 final size:28
Alignment explanation
Indices: 347788--347849 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
347778 AACCTATTAA
* *
347788 TTTTTTTTTATTTTCTGTTTTATTTATT
1 TTTTTTTTTATTTTCTATTTCATTTATT
347816 TTTTATTTTTATTTT-TATTTCACTTTATT
1 TTTT-TTTTTATTTTCTATTTCA-TTTATT
347845 TTTTT
1 TTTTT
347850 ACTTTATCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 10 0.33
29 20 0.67
ACGTcount: A:0.13, C:0.05, G:0.02, T:0.81
Consensus pattern (28 bp):
TTTTTTTTTATTTTCTATTTCATTTATT
Found at i:348539 original size:27 final size:28
Alignment explanation
Indices: 348509--348576 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
348499 AAATAATTTT
348509 AAAAAAAATAAAAACAATAA-ATAAAT-A
1 AAAAAAAATAAAAACAATAATA-AAATAA
** * *
348536 AAAACTAACAAAAACAATCATAAAATAA
1 AAAAAAAATAAAAACAATAATAAAATAA
348564 AAAATAAAATAAA
1 AAAA-AAAATAAA
348577 CCTAAAATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
27 20 0.65
28 6 0.19
29 5 0.16
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (28 bp):
AAAAAAAATAAAAACAATAATAAAATAA
Found at i:349579 original size:19 final size:19
Alignment explanation
Indices: 349552--349588 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
349542 ATGACCAACA
* *
349552 AAATTGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
349571 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
349589 CATTATCGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.24
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:349637 original size:20 final size:20
Alignment explanation
Indices: 349614--349706 Score: 82
Period size: 20 Copynumber: 4.5 Consensus size: 20
349604 GTTTCCAGAT
*
349614 TCGCAATGCGATTTT-GACCA
1 TCGCAATGCGATTTTAGA-AA
* *
349634 TCGCATTGCGATTTTCGAAA
1 TCGCAATGCGATTTTAGAAA
*
349654 TCCGCATTGCGATTTTAGATAA
1 T-CGCAATGCGATTTTAGA-AA
* *
349676 TCGCAATGCGAATAT-GTAAA
1 TCGCAATGCGATTTTAG-AAA
349696 TCGCAATGCGA
1 TCGCAATGCGA
349707 ATATGTAAAT
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
20 30 0.48
21 30 0.48
22 3 0.05
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (20 bp):
TCGCAATGCGATTTTAGAAA
Found at i:349661 original size:21 final size:21
Alignment explanation
Indices: 349614--349686 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
349604 GTTTCCAGAT
* **
349614 TCGCAATGCGATTTT-GACCA
1 TCGCATTGCGATTTTAGATAA
*
349634 TCGCATTGCGATTTTCGA-AA
1 TCGCATTGCGATTTTAGATAA
349654 TCCGCATTGCGATTTTAGATAA
1 T-CGCATTGCGATTTTAGATAA
*
349676 TCGCAATGCGA
1 TCGCATTGCGA
349687 ATATGTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 16 0.35
21 27 0.59
22 3 0.07
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (21 bp):
TCGCATTGCGATTTTAGATAA
Found at i:349707 original size:20 final size:20
Alignment explanation
Indices: 349674--349726 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
349664 GATTTTAGAT
349674 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
349694 AATCGCAATGCGAATATGTA
1 AATCGCAATGCGAATATGTA
*
349714 AATCACAATGCGA
1 AATCGCAATGCGA
349727 TAACACGTGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.23
Consensus pattern (20 bp):
AATCGCAATGCGAATATGTA
Found at i:349782 original size:21 final size:21
Alignment explanation
Indices: 349723--349784 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
349713 AAATCACAAT
*
349723 GCGATAACACGTGATCGCAAC
1 GCGATAATACGTGATCGCAAC
* **
349744 ACGATTCTGAC-T-ATCGCAAC
1 GCGATAAT-ACGTGATCGCAAC
349764 GCGATAATACGTGATCGCAAC
1 GCGATAATACGTGATCGCAAC
349785 AGGTTTTAGT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
19 2 0.06
20 14 0.45
21 13 0.42
22 2 0.06
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.19
Consensus pattern (21 bp):
GCGATAATACGTGATCGCAAC
Found at i:349801 original size:18 final size:18
Alignment explanation
Indices: 349778--349842 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
349768 TAATACGTGA
349778 TCGCAACAGGTTTTAGTT
1 TCGCAACAGGTTTTAGTT
* * **
349796 TCGCAACACTGAATTTCAAAT
1 TCGCAACA--G-GTTTTAGTT
349817 TCGCAACAGGTTTTAGTT
1 TCGCAACAGGTTTTAGTT
*
349835 TCACAACA
1 TCGCAACA
349843 CAAATGGGTA
Statistics
Matches: 35, Mismatches: 9, Indels: 6
0.70 0.18 0.12
Matches are distributed among these distances:
18 20 0.57
19 1 0.03
20 1 0.03
21 13 0.37
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (18 bp):
TCGCAACAGGTTTTAGTT
Found at i:350651 original size:24 final size:24
Alignment explanation
Indices: 350624--350677 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
350614 GTATTCGAAA
350624 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
350648 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
350672 TTTGAT
1 TTTGAT
350678 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:352949 original size:18 final size:18
Alignment explanation
Indices: 352926--352960 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
352916 AGCAAAAGGC
*
352926 AATCAAAATCGCAATCAA
1 AATCAAAATCACAATCAA
352944 AATCAAAATCACAATCA
1 AATCAAAATCACAATCA
352961 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.23, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCACAATCAA
Found at i:353163 original size:20 final size:20
Alignment explanation
Indices: 353138--353418 Score: 248
Period size: 20 Copynumber: 14.7 Consensus size: 20
353128 CACATTCATC
*
353138 TGACTATCGCAAGGCGAATA
1 TGACTATCGCAACGCGAATA
353158 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
* *
353178 TGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATA
* *
353198 TGAATATCGCAA--CG-AGA
1 TGACTATCGCAACGCGAATA
* *
353215 T-A--ATCGCAATGCGAAAA
1 TGACTATCGCAACGCGAATA
* *
353232 TGACTATAGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
*
353252 TGACTATCGCAACG-G--GA
1 TGACTATCGCAACGCGAATA
* * *
353269 T-A--ATCGCAATGCAAAAA
1 TGACTATCGCAACGCGAATA
*
353286 TGACTATCACAACGCGGAA-A
1 TGACTATCGCAACGC-GAATA
353306 TGACTATCGCAACGCGAATA
1 TGACTATCGCAACGCGAATA
** *
353326 TGACTATCGCAAATCGAATT
1 TGACTATCGCAACGCGAATA
* *
353346 TAACTATCGCAACGTGAA-A
1 TGACTATCGCAACGCGAATA
*
353365 TGACTATCGCAACGCGAATT
1 TGACTATCGCAACGCGAATA
* * *
353385 TGATTATCGCAACGGGAATT
1 TGACTATCGCAACGCGAATA
353405 TGACTATCGCAACG
1 TGACTATCGCAACG
353419 AGAAAATCGC
Statistics
Matches: 210, Mismatches: 36, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
14 15 0.07
16 4 0.02
17 8 0.04
18 3 0.01
19 20 0.10
20 158 0.75
21 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.22
Consensus pattern (20 bp):
TGACTATCGCAACGCGAATA
Found at i:353245 original size:54 final size:54
Alignment explanation
Indices: 353163--353319 Score: 201
Period size: 54 Copynumber: 2.9 Consensus size: 54
353153 GAATATGACT
* * * *
353163 ATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGCAACGAGATA
1 ATCGCAATGCGAAAATGACTATAGCAACGCGAATTTGAATATCGCAACGAGATA
* *
353217 ATCGCAATGCGAAAATGACTATAGCAACGCGAATTTGACTATCGCAACGGGATA
1 ATCGCAATGCGAAAATGACTATAGCAACGCGAATTTGAATATCGCAACGAGATA
* * *
353271 ATCGCAATGCAAAAATGACTATCA-CAACGCGGAA-ATGACTATCGCAACG
1 ATCGCAATGCGAAAATGACTAT-AGCAACGC-GAATTTGAATATCGCAACG
353320 CGAATATGAC
Statistics
Matches: 93, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
54 89 0.96
55 4 0.04
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (54 bp):
ATCGCAATGCGAAAATGACTATAGCAACGCGAATTTGAATATCGCAACGAGATA
Found at i:353264 original size:74 final size:74
Alignment explanation
Indices: 353143--353418 Score: 247
Period size: 74 Copynumber: 3.7 Consensus size: 74
353133 TCATCTGACT
* *
353143 ATCGCAAGGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGC
353208 AACGAGATA
66 AACGAGATA
* * * * * * *
353217 ATCGCAATGCGAAAATGACTATAGCAACGCGAATTTGACTATCGCAACGGGATAATCGCA-AT-G
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGTGA-ATTTGAATATCG
**
353280 CAAAAATGACT-
65 CAACGA-GA-TA
* * *
353291 ATCACAACGCGGAAATGACTATCGCAACGCGAATATGACTATCGCAA-ATCGAATTT-AACTATC
1 ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGT-GAATTTGAA-TATC
*
353354 GCAACGTGAAATGA
64 GCAAC--GAGAT-A
** * * *
353368 CTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCAACG
1 --ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACG
353419 AGAAAATCGC
Statistics
Matches: 157, Mismatches: 31, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
72 1 0.01
73 7 0.04
74 97 0.62
75 10 0.06
76 1 0.01
77 1 0.01
79 40 0.25
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (74 bp):
ATCGCAACGCGAAAATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATTTGAATATCGC
AACGAGATA
Found at i:353378 original size:59 final size:59
Alignment explanation
Indices: 353138--353423 Score: 191
Period size: 54 Copynumber: 5.0 Consensus size: 59
353128 CACATTCATC
* * * * * *
353138 TGACTATCGCAAGGCGAATATGACTATCGCAACGCGAATATGACTATCGCAACGTGAATT
1 TGACTATCGCAACGCGAATATGACTATCGCAAAGCGAATTTAACTATCGCAACGAGAA-A
* * * ** * * * *
353198 TGAATATCGCAA--CG-AGAT-A--ATCGCAATGCGAAAATGACTATAGCAACGCGAATT
1 TGACTATCGCAACGCGAATATGACTATCGCAAAGCGAATTTAACTATCGCAACGAGAA-A
* * * ** * * *
353252 TGACTATCGCAACG-G--GAT-A--ATCGCAATGCAAAAATGACTATCACAACGCGGAAA
1 TGACTATCGCAACGCGAATATGACTATCGCAAAGCGAATTTAACTATCGCAACG-AGAAA
* *
353306 TGACTATCGCAACGCGAATATGACTATCGCAAATCGAATTTAACTATCGCAACGTGAAA
1 TGACTATCGCAACGCGAATATGACTATCGCAAAGCGAATTTAACTATCGCAACGAGAAA
* * * * *
353365 TGACTATCGCAACGCGAATTTGATTATCGCAACGGGAATTTGACTATCGCAACGAGAAA
1 TGACTATCGCAACGCGAATATGACTATCGCAAAGCGAATTTAACTATCGCAACGAGAAA
353424 ATCGCAAAGT
Statistics
Matches: 189, Mismatches: 28, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
54 86 0.46
55 5 0.03
56 1 0.01
57 5 0.03
58 3 0.02
59 56 0.30
60 33 0.17
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.22
Consensus pattern (59 bp):
TGACTATCGCAACGCGAATATGACTATCGCAAAGCGAATTTAACTATCGCAACGAGAAA
Found at i:353593 original size:36 final size:34
Alignment explanation
Indices: 353553--353632 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 34
353543 TCAACTTTTA
353553 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAA--ACAAATAAGAATTATTTACAC
353589 ATCAATT----AAACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAACAAATAAGAATTATTTACAC
*
353619 ATAAATTAAACAAA
1 ATCAATTAAACAAA
353633 TCAACTCTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
30 27 0.69
32 2 0.05
34 3 0.08
36 7 0.18
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (34 bp):
ATCAATTAAACAAACAAATAAGAATTATTTACAC
Found at i:353602 original size:30 final size:30
Alignment explanation
Indices: 353568--353633 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
353558 TTAAACAAGC
*
353568 ACAAATAAGAATTATTTACACATCAATTAA
1 ACAAATAAGAATTATTTACACATAAATTAA
353598 ACAAATAAGAATTATTTACACATAAATTAA
1 ACAAATAAGAATTATTTACACATAAATTAA
353628 ACAAAT
1 ACAAAT
353634 CAACTCTTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.56, C:0.12, G:0.03, T:0.29
Consensus pattern (30 bp):
ACAAATAAGAATTATTTACACATAAATTAA
Found at i:355049 original size:21 final size:21
Alignment explanation
Indices: 355013--355119 Score: 90
Period size: 21 Copynumber: 5.1 Consensus size: 21
355003 GAATGTTGGG
* *
355013 AGGGACCTCTTCAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
* * **
355034 AGGGGCCTATTGAACGGTGGG
1 AGGGGCCTCTTGAACGATGAC
* ** *
355055 AGGGGACTCTTGAGGGATGAT
1 AGGGGCCTCTTGAACGATGAC
*
355076 AGGGGCCTCTTGAACGAT-AGG
1 AGGGGCCTCTTGAACGATGA-C
*
355097 AGAGGCCTCTTGAACGATGAC
1 AGGGGCCTCTTGAACGATGAC
355118 AG
1 AG
355120 ATGAGTCGTG
Statistics
Matches: 65, Mismatches: 19, Indels: 4
0.74 0.22 0.05
Matches are distributed among these distances:
20 1 0.02
21 63 0.97
22 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.36, T:0.20
Consensus pattern (21 bp):
AGGGGCCTCTTGAACGATGAC
Found at i:355074 original size:42 final size:42
Alignment explanation
Indices: 355011--355119 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
355001 TAGAATGTTG
* * *
355011 GGAG-GGACCTCTTCAACGATGACAGGGGCCTATTGAACGGTG
1 GGAGAGGA-CTCTTGAACGATGACAGGGGCCTATTGAACGATA
* ** * *
355053 GGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGATA
1 GGAGAGGACTCTTGAACGATGACAGGGGCCTATTGAACGATA
*
355095 GGAGAGGCCTCTTGAACGATGACAG
1 GGAGAGGACTCTTGAACGATGACAG
355120 ATGAGTCGTG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
42 51 0.94
43 3 0.06
ACGTcount: A:0.25, C:0.18, G:0.38, T:0.19
Consensus pattern (42 bp):
GGAGAGGACTCTTGAACGATGACAGGGGCCTATTGAACGATA
Found at i:355622 original size:20 final size:20
Alignment explanation
Indices: 355597--355636 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
355587 AATAGTTTCT
355597 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
355617 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
355637 AAAAATGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.50, C:0.25, G:0.10, T:0.15
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:355650 original size:20 final size:20
Alignment explanation
Indices: 355627--355712 Score: 66
Period size: 20 Copynumber: 4.3 Consensus size: 20
355617 GAAACTTAAA
*
355627 ATCGCAACACAAAAATGATT
1 ATCGCAACACAAAAATGACT
* **
355647 ATCGCAACGCAAATTTGACT
1 ATCGCAACACAAAAATGACT
* * ***
355667 ATCGCAACGCGACTTTGACT
1 ATCGCAACACAAAAATGACT
* *
355687 ATCGCAACGC-GAAATGACT
1 ATCGCAACACAAAAATGACT
355706 ATCGCAA
1 ATCGCAA
355713 TGAGAAAATC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 12 0.21
20 44 0.79
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (20 bp):
ATCGCAACACAAAAATGACT
Found at i:355770 original size:20 final size:20
Alignment explanation
Indices: 355745--355845 Score: 106
Period size: 20 Copynumber: 5.3 Consensus size: 20
355735 TAAATTCACG
355745 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
355765 TTGCGAT--T-A---TCCCG
1 TTGCGATAGTCATTTTCGCA
**
355779 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
* *
355799 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTTCGCA
355819 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
355839 TTGCGAT
1 TTGCGAT
355846 TATCCCGTTG
Statistics
Matches: 65, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.15
16 1 0.02
17 2 0.03
18 1 0.02
20 51 0.78
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:355832 original size:74 final size:74
Alignment explanation
Indices: 355743--355887 Score: 254
Period size: 74 Copynumber: 2.0 Consensus size: 74
355733 ACTAAATTCA
*
355743 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAG
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAA
355808 TCATTTCCG
66 TCATTTCCG
* **
355817 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTTGTGTTGCGATAA
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAA
355882 TCATTT
66 TCATTT
355888 TCGTGTTGTG
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
74 67 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (74 bp):
CGTTGCGATAGTCATTTTCGCATTGCGATTATCCCGTTGCGATAGTCAAATTCGCATTGCGATAA
TCATTTCCG
Found at i:355837 original size:40 final size:34
Alignment explanation
Indices: 355743--355864 Score: 172
Period size: 34 Copynumber: 3.4 Consensus size: 34
355733 ACTAAATTCA
355743 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
**
355777 CGTTGCGATAGTCAAATTCGCATTGCGATAGTCATTTCC
1 CGTTGCGATAGTCATTTTCGCATTGCGAT--T-A--TCC
355816 GCGTTGCGATAGTCATTTTCGCATTGCGATTATCC
1 -CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
355851 CGTTGCGATAGTCA
1 CGTTGCGATAGTCA
355865 AATTTGTGTT
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
34 41 0.53
35 3 0.04
36 1 0.01
37 2 0.03
38 1 0.01
39 3 0.04
40 27 0.35
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (34 bp):
CGTTGCGATAGTCATTTTCGCATTGCGATTATCC
Found at i:356076 original size:32 final size:31
Alignment explanation
Indices: 356017--356078 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
356007 CTACTACCGA
356017 ATGAATTTACTAAGCAATCCAAAAGACAAAT
1 ATGAATTTACTAAGCAATCCAAAAGACAAAT
*
356048 ATGAATTTACTAACTTCAA-CCAAAAGACAAA
1 ATGAATTTACTAA--GCAATCCAAAAGACAAA
356079 ACAAAGACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 13 0.46
32 12 0.43
33 3 0.11
ACGTcount: A:0.52, C:0.18, G:0.08, T:0.23
Consensus pattern (31 bp):
ATGAATTTACTAAGCAATCCAAAAGACAAAT
Found at i:356305 original size:21 final size:21
Alignment explanation
Indices: 356267--356306 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
356257 TGCTACCATC
* * *
356267 CCACGTAGAGTCGCTACCTCA
1 CCACGTAAAGTAGATACCTCA
356288 CCACGTAAAGTAGATACCT
1 CCACGTAAAGTAGATACCT
356307 TCTCACGACA
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:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (21 bp):
CCACGTAAAGTAGATACCTCA
Found at i:357953 original size:22 final size:21
Alignment explanation
Indices: 357926--358000 Score: 105
Period size: 22 Copynumber: 3.4 Consensus size: 21
357916 GGAGATAGAT
357926 GGATTTCGCAGGAGATGGGGAC
1 GGATTTCGC-GGAGATGGGGAC
*
357948 GGATTTCGCCGGAAATGGGGAC
1 GGATTTCG-CGGAGATGGGGAC
357970 GGATTTCGTCGGAGATGGGGAC
1 GGATTTCG-CGGAGATGGGGAC
*
357992 GGATGTCGC
1 GGATTTCGC
358001 CGTAGAGAGT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
21 1 0.02
22 46 0.96
23 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.44, T:0.20
Consensus pattern (21 bp):
GGATTTCGCGGAGATGGGGAC
Found at i:358190 original size:20 final size:20
Alignment explanation
Indices: 358165--358205 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
358155 TTATCACAAC
*
358165 GCGATAGTCAGAATCTCGTT
1 GCGATAGTCAGAATCGCGTT
358185 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAGAATCGCGTT
358205 G
1 G
358206 TGTTCACGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (20 bp):
GCGATAGTCAGAATCGCGTT
Found at i:358361 original size:19 final size:19
Alignment explanation
Indices: 358337--358373 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
358327 TGCGATAATG
*
358337 GAGATCACGTTGCGATTTA
1 GAGATCACATTGCGATTTA
*
358356 GAGATCGCATTGCGATTT
1 GAGATCACATTGCGATTT
358374 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCACATTGCGATTTA
Found at i:360462 original size:20 final size:21
Alignment explanation
Indices: 360437--360529 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
360427 TTTTCCCAAT
*
360437 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
360457 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
360478 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
360498 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
360519 TCGCAATGCGA
1 TCGCAATGCGA
360530 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:360482 original size:41 final size:41
Alignment explanation
Indices: 360437--360529 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
360427 TTTTCCCAAT
360437 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
360478 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
360519 TCGCAATGCGA
1 TCGCAATGCGA
360530 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:360542 original size:41 final size:41
Alignment explanation
Indices: 360456--360590 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
360446 GAATAAGTAA
* *
360456 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
360497 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
360538 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
360579 TTCGCAACGCGA
1 ATCGCAACGCGA
360591 TTCTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:360543 original size:20 final size:20
Alignment explanation
Indices: 360518--360612 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
360508 AATTGGGAAA
*
360518 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
360538 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
360559 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
* *
360579 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
360599 TTCGCAACGCGATA
1 ATCGCAACGCGATA
360613 ATATATAATC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 44 0.72
21 13 0.21
22 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:361136 original size:20 final size:20
Alignment explanation
Indices: 361097--361155 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 20
361087 GCGATTCTCT
**
361097 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
361117 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* * **
361137 TGTTACGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
361156 AGAAACTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.19, G:0.20, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:362496 original size:18 final size:18
Alignment explanation
Indices: 362475--362519 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
362465 TCCACTTCGG
*
362475 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
362493 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
362511 GAGCCATCA
1 GAGCCATCA
362520 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:363055 original size:19 final size:20
Alignment explanation
Indices: 363001--363056 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
362991 TAGTTTACTT
* *
363001 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
363021 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
363041 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
363057 AAATCGCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:363082 original size:33 final size:33
Alignment explanation
Indices: 363040--363132 Score: 161
Period size: 32 Copynumber: 2.8 Consensus size: 33
363030 GGAAATGGCT
363040 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
363073 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAATGACAAA
*
363105 ATCGCAACGCGAAATGAAAATCGCAATG
1 ATCGCAATGCGAAATGAAAATCGCAATG
363133 CGATTTGTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.54
33 26 0.46
ACGTcount: A:0.46, C:0.20, G:0.19, T:0.14
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAATGACAAA
Found at i:363112 original size:14 final size:14
Alignment explanation
Indices: 363056--363113 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
363046 ATGCGAAATG
*
363056 AAAATCGCAATGAC
1 AAAATCGCAACGAC
*
363070 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
363086 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
363102 AAAATCGCAACG
1 AAAATCGCAACG
363114 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
14 21 0.57
16 7 0.19
18 9 0.24
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:363166 original size:14 final size:14
Alignment explanation
Indices: 363147--363204 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
363137 TTGTGTTTCG
363147 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
363161 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
*
363177 CGCGTTGTGATTTTGT
1 --CGTTGCGATTTTGT
363193 CGTTGCGATTTT
1 CGTTGCGATTTT
363205 CATTTCGCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.61
16 4 0.11
18 10 0.28
ACGTcount: A:0.09, C:0.16, G:0.26, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:363181 original size:32 final size:33
Alignment explanation
Indices: 363142--363220 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
363132 GCGATTTGTG
363142 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
363174 TTTCGCGTTGTGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
363207 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
363221 AGCCATTTCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 26 0.60
33 17 0.40
ACGTcount: A:0.10, C:0.18, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:363239 original size:20 final size:20
Alignment explanation
Indices: 363205--363260 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
363195 TTGCGATTTT
*
363205 CATTTCGCATTGCGATAG-C
1 CATTTCGCGTTGCGATAGTC
363224 CATTTCCGCGTTGCGATAGTC
1 CATTT-CGCGTTGCGATAGTC
*
363245 AATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
363261 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 23 0.70
21 5 0.15
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (20 bp):
CATTTCGCGTTGCGATAGTC
Found at i:365087 original size:14 final size:14
Alignment explanation
Indices: 365068--365103 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
365058 ATTGTTTAAT
365068 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
365082 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
365096 TGATTTGT
1 TGATTTGT
365104 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:365245 original size:19 final size:19
Alignment explanation
Indices: 365221--365288 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
365211 ATCGCAACGA
365221 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
365240 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
365259 GAAAATCACAA--CG--A-
1 GAAAATCGCAATGCGAAAT
365273 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
365289 TTTTCATTTC
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
19 29 0.66
ACGTcount: A:0.49, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:365332 original size:20 final size:20
Alignment explanation
Indices: 365307--365364 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
365297 TCGCATTGCG
*
365307 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
365327 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
365347 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
365365 TCAAATGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:366440 original size:24 final size:24
Alignment explanation
Indices: 366413--366466 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
366403 GTATTCGAAA
* *
366413 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
366437 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
366461 TTTGAT
1 TTTGAT
366467 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:366658 original size:12 final size:12
Alignment explanation
Indices: 366641--366665 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
366631 ATATAATCCT
366641 GAAGAAGAAAAA
1 GAAGAAGAAAAA
366653 GAAGAAGAAAAA
1 GAAGAAGAAAAA
366665 G
1 G
366666 TCCCCAAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:368978 original size:19 final size:19
Alignment explanation
Indices: 368956--369086 Score: 76
Period size: 19 Copynumber: 7.7 Consensus size: 19
368946 GGAAATTACT
368956 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
368975 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
368989 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* * *
369008 ATTGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
* *
369022 TTCGCAATGCGAAATTAAA
1 ATCGCAATGCGAAATGAAA
**
369041 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
369055 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
369074 ATCGCAACGCGAA
1 ATCGCAATGCGAA
369087 TTTAATTTCG
Statistics
Matches: 81, Mismatches: 16, Indels: 30
0.64 0.13 0.24
Matches are distributed among these distances:
14 25 0.31
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 38 0.47
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:368998 original size:33 final size:33
Alignment explanation
Indices: 368956--369082 Score: 184
Period size: 33 Copynumber: 3.8 Consensus size: 33
368946 GGAAATTACT
368956 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
368989 ATCGCAATGCGAAATGAAAATTGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
369021 TTTCGCAATGCGAAATTAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
369055 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
369083 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
32 1 0.01
33 79 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.22, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:369063 original size:66 final size:66
Alignment explanation
Indices: 368957--369089 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
368947 GAAATTACTA
* *
368957 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
369022 T
66 T
* *
369023 TCGCAATGCGAAATTAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
369088 T
66 T
369089 T
1 T
369090 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.18
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:369114 original size:14 final size:14
Alignment explanation
Indices: 369097--369153 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
369087 TTTAATTTCG
369097 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
369111 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
369130 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
369144 CGTTGCGATT
1 CGTTGCGATT
369154 TTTATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:369133 original size:33 final size:33
Alignment explanation
Indices: 369082--369171 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
369072 AAATCGCAAC
*
369082 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTAATTTCGCGTTGCGATTCTCTCGTT
*
369115 GCGATTTTCATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTAATTTCGCGTTGCGATTCTCTCGTT
* *
369148 GCGATTTTTATTTCGCATTGCGAT
1 GCGATTTTAATTTCGCGTTGCGAT
369172 AGTACTTTTT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.13, C:0.21, G:0.21, T:0.44
Consensus pattern (33 bp):
GCGATTTTAATTTCGCGTTGCGATTCTCTCGTT
Found at i:369135 original size:19 final size:19
Alignment explanation
Indices: 369111--369171 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
369101 GCGATTCTCT
369111 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
369130 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
*
369144 CGTTGCGATTTTTATTTCG
1 CGTTGCGATTTTCATTTCG
*
369163 CATTGCGAT
1 CGTTGCGAT
369172 AGTACTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
14 10 0.30
16 2 0.06
17 3 0.09
19 18 0.55
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:369297 original size:14 final size:14
Alignment explanation
Indices: 369278--369314 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
369268 CATCAATTAA
369278 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
369292 ACAAATCACCTTTT
1 ACAAATCAACTTTT
369306 ACAAATCAA
1 ACAAATCAA
369315 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:370736 original size:21 final size:21
Alignment explanation
Indices: 370670--370739 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
370660 GTGAATCGGG
*
370670 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
370690 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
370712 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
370733 CTCTTGA
1 CTCTTGA
370740 GGAATGATAG
Statistics
Matches: 35, Mismatches: 13, Indels: 2
0.70 0.26 0.04
Matches are distributed among these distances:
21 33 0.94
22 2 0.06
ACGTcount: A:0.20, C:0.20, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:370755 original size:42 final size:41
Alignment explanation
Indices: 370670--370792 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 41
370660 GTGAATCGGG
* * * *
370670 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTCTT-GAGGATGACAGGGGC
*
370712 CTCTTGAACGGTGGGAGGGGACTCTTGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTTGAGG-ATGACAGGGGC
* * * *
370754 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTTGA-GGATGACAGG
370793 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.03
42 60 0.88
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTTGAGGATGACAGGGGC
Found at i:372872 original size:33 final size:33
Alignment explanation
Indices: 372815--372913 Score: 162
Period size: 33 Copynumber: 3.0 Consensus size: 33
372805 ACGAGATAAT
372815 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
372849 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
372882 GAGAATCGCAACGCGAAATGAAAATCGCAACG
1 GAGAATCGCAACGCGAAATGACTATCGCAACG
372914 CGAAATGAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
33 47 0.77
34 14 0.23
ACGTcount: A:0.39, C:0.23, G:0.26, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:372907 original size:19 final size:19
Alignment explanation
Indices: 372790--372935 Score: 114
Period size: 19 Copynumber: 8.1 Consensus size: 19
372780 TCTTTTGGTT
*
372790 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
372809 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
372829 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
372847 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
372863 GAAATGACTATCGCGA--C
1 GAAATGAAAATCGCAACGC
*
372880 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
372896 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
372915 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
372934 GA
1 GA
372936 TTTTTGTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 17 0.17
15 2 0.02
16 4 0.04
17 3 0.03
18 3 0.03
19 43 0.43
20 27 0.27
21 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.25, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:372967 original size:19 final size:19
Alignment explanation
Indices: 372931--372997 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
372921 AAAATCGCAA
*
372931 TGCGATTTTTGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
*
372950 TGCGTTTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
372969 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
372989 TGCGATTTT
1 TGCGATTTT
372998 CATTCTCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 28 0.70
20 12 0.30
ACGTcount: A:0.09, C:0.16, G:0.24, T:0.51
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:373540 original size:20 final size:20
Alignment explanation
Indices: 373515--373567 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
373505 GCGCTATGTA
373515 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
373535 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
373555 TATCTCGTTGCGA
1 AATCGCGTTGCGA
373568 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:373605 original size:20 final size:20
Alignment explanation
Indices: 373576--373629 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
373566 GATTTTGTAT
373576 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
* *
373596 TATTGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
373616 TATCGCATTGCGAT
1 TATCGCATTGCGAT
373630 TTTTCCAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:373648 original size:61 final size:61
Alignment explanation
Indices: 373511--373650 Score: 151
Period size: 61 Copynumber: 2.3 Consensus size: 61
373501 AATGGCGCTA
* * * * *
373511 TGTAA-ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTT
1 TGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTT
* * * * *
373571 TGTATTATCGCATTGCGATAGTAAGTATTGCATTGCGATAGTCAGTATCGCATTGCGATTT
1 TGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTT
373632 T-TCCAAT-TCGCGTTGCGAT
1 TGT--AATATCGCGTTGCGAT
373651 TTACTTATTC
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
60 5 0.08
61 58 0.89
62 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (61 bp):
TGTAATATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTT
Found at i:374409 original size:18 final size:18
Alignment explanation
Indices: 374368--374411 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
374358 TTTAAGGGAG
*
374368 CTAGTTT-AATTAATGAA
1 CTAGTTTAAATGAATGAA
* *
374385 TTGGTTTAAATGAATGAA
1 CTAGTTTAAATGAATGAA
374403 CTAGTTTAA
1 CTAGTTTAA
374412 TTAATAGACT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
CTAGTTTAAATGAATGAA
Found at i:374953 original size:27 final size:28
Alignment explanation
Indices: 374890--374951 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 28
374880 TAAAAAAAAT
*
374890 TAAATTAAATAAATATTATAAAGTCTTA
1 TAAATTAAATAAATATTATAAAATCTTA
374918 TAAA-TAAATAAA-ATT-TAAAAT-TTA
1 TAAATTAAATAAATATTATAAAATCTTA
374942 TGAAATTAAA
1 T-AAATTAAA
374952 ATTTATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 4 0.13
25 8 0.26
26 7 0.23
27 8 0.26
28 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (28 bp):
TAAATTAAATAAATATTATAAAATCTTA
Found at i:375240 original size:18 final size:18
Alignment explanation
Indices: 375164--375246 Score: 59
Period size: 18 Copynumber: 4.8 Consensus size: 18
375154 GTGAAAATAT
*
375164 CTATTTTTA-ATTTTTTA
1 CTATTTTTATTTTTTTTA
* *
375181 CTAATTTAATTTTTTTTA
1 CTATTTTTATTTTTTTTA
*
375199 CT-TTTAGTATTTTTTTT-
1 CTATTT-TTATTTTTTTTA
*
375216 GTA--TTTATTTTTTTTA
1 CTATTTTTATTTTTTTTA
*
375232 ATATTTTTATATTTT
1 CTATTTTTAT-TTTT
375247 AAAATTTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
15 10 0.20
16 3 0.06
17 10 0.20
18 23 0.46
19 4 0.08
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (18 bp):
CTATTTTTATTTTTTTTA
Found at i:377942 original size:16 final size:17
Alignment explanation
Indices: 377919--377957 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
377909 CTTTTTATCT
* *
377919 ATATTAAATTATTAAAA
1 ATATTAAACTACTAAAA
377936 A-ATTAAACTACTAAAA
1 ATATTAAACTACTAAAA
377952 ATATTA
1 ATATTA
377958 TTACAATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATTAAACTACTAAAA
Found at i:380464 original size:17 final size:18
Alignment explanation
Indices: 380422--380464 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
380412 AAACACATGC
380422 ATGTTTTTTGTCTTAAAA
1 ATGTTTTTTGTCTTAAAA
380440 ATGATTTTTT-TCTTAAAA
1 ATG-TTTTTTGTCTTAAAA
*
380458 TTGTTTT
1 ATGTTTT
380465 AAAAGAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 4 0.17
18 13 0.57
19 6 0.26
ACGTcount: A:0.26, C:0.05, G:0.09, T:0.60
Consensus pattern (18 bp):
ATGTTTTTTGTCTTAAAA
Found at i:384857 original size:42 final size:42
Alignment explanation
Indices: 384798--384894 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
384788 TTTGTTAAAA
*
384798 GTAGTATTGATATCGTTTGAAGAAAGTACCGATACTGAGAAG
1 GTAGTATTGATACCGTTTGAAGAAAGTACCGATACTGAGAAG
* * * **
384840 GTAGTATAT-ATACCGTTTGAAGAATGTATCGATATTGAGCTG
1 GTAGTAT-TGATACCGTTTGAAGAAAGTACCGATACTGAGAAG
*
384882 GTAGTATCGATAC
1 GTAGTATTGATAC
384895 AATGGGTATG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
42 45 0.98
43 1 0.02
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.32
Consensus pattern (42 bp):
GTAGTATTGATACCGTTTGAAGAAAGTACCGATACTGAGAAG
Found at i:385773 original size:21 final size:21
Alignment explanation
Indices: 385749--385790 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
385739 GTCAAGGGTT
*
385749 TTATGTGGTCCTCCGGGATAA
1 TTATGTGGTCATCCGGGATAA
*
385770 TTATGTGGTCATTCGGGATAA
1 TTATGTGGTCATCCGGGATAA
385791 ATATATGGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.14, G:0.29, T:0.36
Consensus pattern (21 bp):
TTATGTGGTCATCCGGGATAA
Found at i:385805 original size:21 final size:21
Alignment explanation
Indices: 385762--385829 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
385752 TGTGGTCCTC
* *
385762 CGGGATAATTATGTGGTCA-TT
1 CGGGATAAATATATGG-CACTT
385783 CGGGATAAATATATGGCACTT
1 CGGGATAAATATATGGCACTT
*
385804 CGGTGCA-AACCTATATGGCACTT
1 CGG-G-ATAA-ATATATGGCACTT
385827 CGG
1 CGG
385830 TGCAAAACTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 2 0.05
21 19 0.47
22 3 0.08
23 16 0.40
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.29
Consensus pattern (21 bp):
CGGGATAAATATATGGCACTT
Found at i:385818 original size:23 final size:23
Alignment explanation
Indices: 385792--385879 Score: 92
Period size: 23 Copynumber: 3.9 Consensus size: 23
385782 TCGGGATAAA
*
385792 TATATGGCACTTCGGTGCAAACC
1 TATATGGCACTTCGGTGCAAAAC
385815 TATATGGCACTTCGGTGCAAAAC
1 TATATGGCACTTCGGTGCAAAAC
* * * *
385838 TATGTGGTCA-TTCAG-G-ACAAT
1 TATATGG-CACTTCGGTGCAAAAC
*
385859 TATGTGGCACTTCGGTGCAAA
1 TATATGGCACTTCGGTGCAAA
385880 TTACGAGCTA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
20 2 0.04
21 14 0.26
22 2 0.04
23 34 0.63
24 2 0.04
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.28
Consensus pattern (23 bp):
TATATGGCACTTCGGTGCAAAAC
Found at i:387958 original size:36 final size:36
Alignment explanation
Indices: 387910--388100 Score: 112
Period size: 36 Copynumber: 5.7 Consensus size: 36
387900 AATCCAATCT
*
387910 TTGAG-TCTGTTTCTCTTGAAACAAATTTTGTCTCCC
1 TTGAGATCAGTTTCTCTTGAAACAAATTTTGTCT-CC
*
387946 TTGAGATC-GTTTCTCATGAAACACCAA-----TCT--
1 TTGAGATCAGTTTCTCTTGAAACA--AATTTTGTCTCC
* * *
387976 TTGATATC-GTTTCGCTTGAAACAAATTTTGTCACTC
1 TTGAGATCAGTTTCTCTTGAAACAAATTTTGTCTC-C
****
388012 TTGAGA-CAGTTTCTCTTGAAAC--A-CCCATCT--
1 TTGAGATCAGTTTCTCTTGAAACAAATTTTGTCTCC
* *
388042 TTGAGATC-GTTTCCCTTGAAACGAATTTTGTCTCTC
1 TTGAGATCAGTTTCTCTTGAAACAAATTTTGTCTC-C
388078 TTGAGA-CAGTTTCTCTTGAAACA
1 TTGAGATCAGTTTCTCTTGAAACA
388101 CGCCATCTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 40
0.66 0.11 0.23
Matches are distributed among these distances:
28 2 0.02
30 39 0.34
31 1 0.01
32 1 0.01
33 10 0.09
34 1 0.01
35 2 0.02
36 56 0.48
37 2 0.02
38 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.15, T:0.39
Consensus pattern (36 bp):
TTGAGATCAGTTTCTCTTGAAACAAATTTTGTCTCC
Found at i:387988 original size:66 final size:66
Alignment explanation
Indices: 387903--388165 Score: 347
Period size: 66 Copynumber: 4.0 Consensus size: 66
387893 GAAACAAAAT
* * * *
387903 CCAATCTTTGAGTCTGTTTCTCTTGAAACAAATTTTGTCTCCCTTGAGATC-GTTTCTCATGAAA
1 CCAATCTTTGAATCTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGA-CAGTTTCTCTTGAAA
387967 CA
65 CA
* *
387969 CCAATCTTTGATATC-GTTTCGCTTGAAACAAATTTTGTCACTCTTGAGACAGTTTCTCTTGAAA
1 CCAATCTTTGA-ATCTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
388033 CA
65 CA
* *
388035 CCCATCTTTGAGATC-GTTTCCCTTGAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
1 CCAATCTTTGA-ATCTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAA
388099 CA
65 CA
* * *
388101 CGCCATCTTTGAGTCTGTTTCCCTTGAAAC-AAGTTTGTCTCTCTTGAGAC-GATTTCTCTTGAA
1 C-CAATCTTTGAATCTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAA
388164 AC
64 AC
388166 CAAAATCCCT
Statistics
Matches: 180, Mismatches: 12, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
65 2 0.01
66 152 0.84
67 26 0.14
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (66 bp):
CCAATCTTTGAATCTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC
A
Found at i:388588 original size:3 final size:3
Alignment explanation
Indices: 388580--388626 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
388570 GGGTCTAAGA
388580 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
388627 ATACTTACAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:389323 original size:21 final size:21
Alignment explanation
Indices: 389294--389333 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
389284 ACAAAGAGTC
389294 AACAAAAGAAAAAAAGAAAGA
1 AACAAAAGAAAAAAAGAAAGA
* *
389315 AACACAAGAGAAAAAGAAA
1 AACAAAAGAAAAAAAGAAA
389334 AGAGAGAATT
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:0.78, C:0.07, G:0.15, T:0.00
Consensus pattern (21 bp):
AACAAAAGAAAAAAAGAAAGA
Found at i:389949 original size:16 final size:16
Alignment explanation
Indices: 389928--389966 Score: 78
Period size: 16 Copynumber: 2.4 Consensus size: 16
389918 ATTGCTTTAC
389928 ATTTGGCTTACTTATT
1 ATTTGGCTTACTTATT
389944 ATTTGGCTTACTTATT
1 ATTTGGCTTACTTATT
389960 ATTTGGC
1 ATTTGGC
389967 ATGTTATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.18, C:0.13, G:0.15, T:0.54
Consensus pattern (16 bp):
ATTTGGCTTACTTATT
Found at i:403551 original size:31 final size:28
Alignment explanation
Indices: 403476--403552 Score: 86
Period size: 29 Copynumber: 2.6 Consensus size: 28
403466 AAGTTCAACA
403476 CCTTTATTTTTT-ATCTTTGTAATTAGG
1 CCTTTATTTTTTAATCTTTGTAATTAGG
*
403503 -GTTCTGATTTTTTAATCTTTGTAATTAGAG
1 CCTT-T-ATTTTTTAATCTTTGTAATTAG-G
403533 CCTTTAATTTTTTAAATCTT
1 CCTTT-ATTTTTT-AATCTT
403553 ATTTTTTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 2 0.05
27 1 0.02
28 7 0.17
29 14 0.34
30 9 0.22
31 8 0.20
ACGTcount: A:0.22, C:0.10, G:0.10, T:0.57
Consensus pattern (28 bp):
CCTTTATTTTTTAATCTTTGTAATTAGG
Found at i:403558 original size:43 final size:43
Alignment explanation
Indices: 403511--403656 Score: 111
Period size: 43 Copynumber: 3.4 Consensus size: 43
403501 GGGTTCTGAT
*
403511 TTTTTAATCTTTG-TAATTAGAGCCTTTAATTTTTTAAATCTTA
1 TTTTT-ATCTTTGATAATTAAAGCCTTTAATTTTTTAAATCTTA
* ** * *
403554 TTTTTTATC-ATGATAATTAAAGTTTTTAATTTTTTCAGTCTTA
1 -TTTTTATCTTTGATAATTAAAGCCTTTAATTTTTTAAATCTTA
* * * * * * *
403597 TTTTTATCTTT-ATAGTTGAGGTCGTTAATTATTTCAATCTTA
1 TTTTTATCTTTGATAATTAAAGCCTTTAATTTTTTAAATCTTA
*
403639 CTTTTTA-CTTTTATAATT
1 -TTTTTATCTTTGATAATT
403657 GACTCCTAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 38 0.46
43 40 0.48
44 5 0.06
ACGTcount: A:0.26, C:0.09, G:0.08, T:0.58
Consensus pattern (43 bp):
TTTTTATCTTTGATAATTAAAGCCTTTAATTTTTTAAATCTTA
Found at i:403688 original size:41 final size:42
Alignment explanation
Indices: 403638--403804 Score: 130
Period size: 44 Copynumber: 3.9 Consensus size: 42
403628 TTTCAATCTT
403638 ACTTTTTACTTTTATAATTGA-CTCCTAATATTTTTAATACG
1 ACTTTTTACTTTTATAATTGAGCTCCTAATATTTTTAATACG
* * *
403679 ACTTTTTACTTTTATAATTGAGGTTCCTAATTTTTTTAAT-CTA
1 ACTTTTTACTTTTATAATTGA-GCTCCTAATATTTTTAATAC-G
* * * *
403722 ACTTTTCAACATTTATAATTGAGGCACCTAAGT-TTTTTCAAT-CTC
1 ACTTTT-TACTTTTATAATTGA-GCTCCTAA-TATTTTT-AATAC-G
** *
403767 ACTTTTTACCATTATAATTCAGACT-CTAAT-TTTTTAAT
1 ACTTTTTACTTTTATAATTGAG-CTCCTAATATTTTTAAT
403805 TTCATAAAAT
Statistics
Matches: 106, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
41 24 0.23
42 7 0.07
43 26 0.25
44 37 0.35
45 12 0.11
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.50
Consensus pattern (42 bp):
ACTTTTTACTTTTATAATTGAGCTCCTAATATTTTTAATACG
Found at i:403696 original size:21 final size:20
Alignment explanation
Indices: 403638--403696 Score: 50
Period size: 21 Copynumber: 2.9 Consensus size: 20
403628 TTTCAATCTT
*
403638 ACTTTTTACTTTTATAATTG
1 ACTTTTTACTTTTATAATCG
**
403658 ACTCCTAATA-TTTT-TAATACG
1 ACT--TTTTACTTTTATAAT-CG
403679 ACTTTTTACTTTTATAAT
1 ACTTTTTACTTTTATAAT
403697 TGAGGTTCCT
Statistics
Matches: 29, Mismatches: 5, Indels: 9
0.67 0.12 0.21
Matches are distributed among these distances:
19 3 0.10
20 11 0.38
21 12 0.41
22 3 0.10
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (20 bp):
ACTTTTTACTTTTATAATCG
Found at i:405068 original size:58 final size:58
Alignment explanation
Indices: 405000--405109 Score: 202
Period size: 58 Copynumber: 1.9 Consensus size: 58
404990 AATAGTCGGC
*
405000 ATGACCATTTTATAACTTTTAATAGTCGAGGGACTTAACAAAGTAATGACCTCTATAT
1 ATGACAATTTTATAACTTTTAATAGTCGAGGGACTTAACAAAGTAATGACCTCTATAT
*
405058 ATGACAATTTTATAACTTTTAATAGTCGAGGGACTTAATAAAGTAATGACCT
1 ATGACAATTTTATAACTTTTAATAGTCGAGGGACTTAACAAAGTAATGACCT
405110 ATAGACGAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (58 bp):
ATGACAATTTTATAACTTTTAATAGTCGAGGGACTTAACAAAGTAATGACCTCTATAT
Found at i:405153 original size:60 final size:57
Alignment explanation
Indices: 405000--405171 Score: 188
Period size: 58 Copynumber: 2.9 Consensus size: 57
404990 AATAGTCGGC
* * * *
405000 ATGACCATTTTATAACTTTTAATAGTCGAGGGACTTAACAAAGTAATGACCTCTATAT
1 ATGACAATTTTATAACTTTTAATAG-CGAGGGACTTAACAAAGTAATGACCTATAGAG
*
405058 ATGACAATTTTATAACTTTTAATAGTCGAGGGACTTAATAAAGTAATGACCTATAGACG
1 ATGACAATTTTATAACTTTTAATAG-CGAGGGACTTAACAAAGTAATGACCTATAGA-G
* * *
405117 A-GAGATTATTTTATAACTTTTAATA-AGAGGAAGACTTAACAAAGTAGT-ACCTATA
1 ATGACA--ATTTTATAACTTTTAATAGCGAGG--GACTTAACAAAGTAATGACCTATA
405172 ATCAGATGAT
Statistics
Matches: 100, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
58 60 0.60
59 8 0.08
60 32 0.32
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (57 bp):
ATGACAATTTTATAACTTTTAATAGCGAGGGACTTAACAAAGTAATGACCTATAGAG
Found at i:413071 original size:20 final size:20
Alignment explanation
Indices: 413046--413163 Score: 137
Period size: 20 Copynumber: 5.8 Consensus size: 20
413036 GTAATTTTCC
*
413046 TAAATCGTAATGCGAATACG
1 TAAATCGCAATGCGAATACG
*
413066 TAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGAATACG
*
413086 TAAATCGCAATGCGAATTAGG
1 TAAATCGCAATGCGAA-TACG
* * *
413107 AAAATCGCAATGCGATTACA
1 TAAATCGCAATGCGAATACG
* * * *
413127 AAAATTGTAATGCGATTACG
1 TAAATCGCAATGCGAATACG
413147 TAAATCGCAATGCGAAT
1 TAAATCGCAATGCGAAT
413164 CTGACTATCG
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 65 0.79
21 17 0.21
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (20 bp):
TAAATCGCAATGCGAATACG
Found at i:413101 original size:40 final size:40
Alignment explanation
Indices: 413046--413161 Score: 160
Period size: 41 Copynumber: 2.9 Consensus size: 40
413036 GTAATTTTCC
*
413046 TAAATCGTAATGCGAATACGTAAATCGCAATGCGATTACG
1 TAAATCGTAATGCGAATACGTAAATCGCAATGCGATTACA
* * *
413086 TAAATCGCAATGCGAATTAGGAAAATCGCAATGCGATTACA
1 TAAATCGTAATGCGAA-TACGTAAATCGCAATGCGATTACA
* * *
413127 AAAATTGTAATGCGATTACGTAAATCGCAATGCGA
1 TAAATCGTAATGCGAATACGTAAATCGCAATGCGA
413162 ATCTGACTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
40 32 0.49
41 33 0.51
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (40 bp):
TAAATCGTAATGCGAATACGTAAATCGCAATGCGATTACA
Found at i:413142 original size:61 final size:61
Alignment explanation
Indices: 413047--413163 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
413037 TAATTTTCCT
* **
413047 AAATCGTAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGAATACAAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
* * *
413108 AAATCGCAATGCGATTACAAAAATTGTAATGCGATTACGTAAATCGCAATGCGAAT
1 AAATCGCAATGCGAATACAAAAATCGCAATGCGATTACGTAAATCGCAATGCGAAT
413164 CTGACTATCG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (61 bp):
AAATCGCAATGCGAATACAAAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGA
Found at i:413775 original size:21 final size:21
Alignment explanation
Indices: 413714--413792 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
413704 TTCTAAACTT
413714 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
413734 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
413754 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
413775 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
413793 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:413882 original size:20 final size:21
Alignment explanation
Indices: 413842--413905 Score: 80
Period size: 20 Copynumber: 3.1 Consensus size: 21
413832 CGCGTTGCGA
**
413842 TTCTCTCGTTGCGATAGTCAT
1 TTCTCTCGTTGCGATTTTCAT
413863 TTC-CGT-GTTGCGATTTTCA-
1 TTCTC-TCGTTGCGATTTTCAT
413882 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
413903 TTC
1 TTC
413906 AACCAAAAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 4 0.11
20 26 0.70
21 7 0.19
ACGTcount: A:0.11, C:0.23, G:0.17, T:0.48
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:415812 original size:94 final size:93
Alignment explanation
Indices: 415598--415971 Score: 578
Period size: 94 Copynumber: 4.1 Consensus size: 93
415588 TAGATTGCTT
* *
415598 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* *
415659 ATTTTTCTTT-TGTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
415686 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
415751 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * *
415780 AGTAAATTTGTTCAGTTGCTACCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
415845 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * * *
415874 AGTAAATTTGTTCGTTTGCTGCCAATTATGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
415939 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
415967 AGTAA
1 AGTAA
415972 TGCAATCCAT
Statistics
Matches: 266, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
88 35 0.13
90 3 0.01
91 2 0.01
92 28 0.11
93 21 0.08
94 177 0.67
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.47
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:416089 original size:20 final size:20
Alignment explanation
Indices: 416064--416125 Score: 81
Period size: 20 Copynumber: 3.1 Consensus size: 20
416054 TTTTGGTTGA
416064 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
416084 AATGAAAATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
* * *
416103 AACGAAAATCACAACTAGAG
1 AATGAAAATCGCAACGAGAG
416123 AAT
1 AAT
416126 CGCAACGCGA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 15 0.43
20 20 0.57
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:416110 original size:39 final size:35
Alignment explanation
Indices: 416062--416185 Score: 121
Period size: 33 Copynumber: 3.5 Consensus size: 35
416052 TCTTTTGGTT
416062 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAG-A-G--AATCGCAACGC
* * *
416101 GAAACGAAAATCACAAC--TAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
*
416134 GAAATGAAAATCGCAACGACA-A-AATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
**
416167 GAAACCATAAATCGCAACG
1 GAAATGA-AAATCGCAACG
416186 CGAAACTATA
Statistics
Matches: 74, Mismatches: 8, Indels: 11
0.80 0.09 0.12
Matches are distributed among these distances:
33 42 0.57
34 12 0.16
35 2 0.03
36 1 0.01
37 2 0.03
39 15 0.20
ACGTcount: A:0.48, C:0.23, G:0.19, T:0.10
Consensus pattern (35 bp):
GAAATGAAAATCGCAACGAGAGAGAATCGCAACGC
Found at i:416132 original size:33 final size:33
Alignment explanation
Indices: 416088--416185 Score: 124
Period size: 33 Copynumber: 2.9 Consensus size: 33
416078 CGAGAGAATG
* *
416088 AAAATCGCAACGCGAAACGAAAATCACAACTAG
1 AAAATCGCAACGCGAAACGAAAATCACAACGAC
* * *
416121 AGAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACGAAAATCACAACGAC
* *
416154 AAAATCGCAACGCGAAACCATAAATCGCAACG
1 AAAATCGCAACGCGAAACGA-AAATCACAACG
416186 CGAAACTATA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
33 45 0.80
34 11 0.20
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACGAAAATCACAACGAC
Found at i:416180 original size:20 final size:20
Alignment explanation
Indices: 416155--416200 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
416145 CGCAACGACA
416155 AAATCGCAACGCGAAACCAT
1 AAATCGCAACGCGAAACCAT
*
416175 AAATCGCAACGCGAAACTAT
1 AAATCGCAACGCGAAACCAT
416195 -AATCGC
1 AAATCGC
416201 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 6 0.24
20 19 0.76
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.13
Consensus pattern (20 bp):
AAATCGCAACGCGAAACCAT
Found at i:416242 original size:33 final size:33
Alignment explanation
Indices: 416200--416293 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
416190 ACTATAATCG
* *
416200 CGTTGCGATTTTCATTTTGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
416233 CGTTGCGATTTTCATTTCGCGTTGTGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
416266 CATTGCGATTTTCGTTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
416294 AGTAATTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:416255 original size:19 final size:18
Alignment explanation
Indices: 416197--416293 Score: 57
Period size: 19 Copynumber: 5.7 Consensus size: 18
416187 GAAACTATAA
416197 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
* *
416216 TTGCATTGCGA--TTC--
1 TCGCGTTGCGATTTTCTT
*
416230 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
416249 TCGCGTTGTGA--TTC--
1 TCGCGTTGCGATTTTCTT
* *
416263 TCTCATTGCGATTTTCGTT
1 TCGCGTTGCGATTTTC-TT
416282 TCGCGTTGCGAT
1 TCGCGTTGCGAT
416294 AGTAATTTTT
Statistics
Matches: 56, Mismatches: 12, Indels: 20
0.64 0.14 0.23
Matches are distributed among these distances:
14 16 0.29
16 6 0.11
17 6 0.11
19 28 0.50
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.46
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:418122 original size:14 final size:14
Alignment explanation
Indices: 418103--418138 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
418093 ATTGTTTAAT
418103 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
418117 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
418131 TGATTTGT
1 TGATTTGT
418139 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:418267 original size:19 final size:18
Alignment explanation
Indices: 418245--418303 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
418235 AAAAATGACT
418245 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
418264 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
418278 ATCGCAACGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
418297 ATAGCAA
1 ATCGCAA
418304 CGACAAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.50
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:418290 original size:33 final size:33
Alignment explanation
Indices: 418245--418324 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
418235 AAAAATGACT
* * * *
418245 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATAGCAACGACAAA
418278 ATCGCAACGCGAAATGAAAATAGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATAGCAACGACAAA
418311 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
418325 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.47, C:0.21, G:0.21, T:0.10
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATAGCAACGACAAA
Found at i:418376 original size:33 final size:33
Alignment explanation
Indices: 418334--418423 Score: 144
Period size: 33 Copynumber: 2.7 Consensus size: 33
418324 ACTAAATTCG
*
418334 CGTTGCGATTTTCATTACGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTACGCATTGCGATTCCCT
* *
418367 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTACGCATTGCGATTCCCT
*
418400 CGTTGCGATTTTCATTTCGCATTG
1 CGTTGCGATTTTCATTACGCATTG
418424 TGATAGTCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.12, C:0.24, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTACGCATTGCGATTCCCT
Found at i:418393 original size:19 final size:19
Alignment explanation
Indices: 418369--418423 Score: 66
Period size: 19 Copynumber: 3.2 Consensus size: 19
418359 GATTCCCTCG
418369 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
418388 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
418402 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
418421 TTG
1 TTG
418424 TGATAGTCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 6 0.21
16 7 0.24
17 7 0.24
19 9 0.31
ACGTcount: A:0.13, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:421029 original size:24 final size:24
Alignment explanation
Indices: 420978--421029 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
420968 ATCTGAGTAT
** *
420978 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
421002 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
421026 TGAC
1 TGAC
421030 AAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:421892 original size:20 final size:20
Alignment explanation
Indices: 421877--422146 Score: 192
Period size: 20 Copynumber: 13.3 Consensus size: 20
421867 AGAATCTCAT
421877 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
421897 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
421917 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
*
421938 TGCGAATACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
421958 TACGATTACGTAAATTGCAA
1 TGCGATTACGTAAATCGCAA
* * *
421978 TGCGAATTAGGAAAATTGCAA
1 TGCG-ATTACGTAAATCGCAA
421999 TGCGCATATA--TAAATCGCAA
1 TGCG-AT-TACGTAAATCGCAA
* *
422019 TGCGAATACGT-AATCGCAT
1 TGCGATTACGTAAATCGCAA
*
422038 TGCGATTTACGT-AATCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * * *
422058 TGCGATTTTCCTAATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* * *
422079 TGCGATTTACGT-ATTTGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
422099 TGCGATTTAGGAAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
* ** *
422120 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
422141 TGCGAT
1 TGCGAT
422147 AGTCAGAATC
Statistics
Matches: 208, Mismatches: 32, Indels: 20
0.80 0.12 0.08
Matches are distributed among these distances:
18 2 0.01
19 17 0.08
20 107 0.51
21 79 0.38
22 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:421933 original size:41 final size:40
Alignment explanation
Indices: 421877--422146 Score: 186
Period size: 41 Copynumber: 6.7 Consensus size: 40
421867 AGAATCTCAT
* *
421877 TGCGATTTACTAAATCGCAATGCGATTACGTAAATCGCAA
1 TGCGAATTACGAAATCGCAATGCGATTACGTAAATCGCAA
* *
421917 TGCGAATTAGGAAAATCGCAATGCGAATACGTAAATCGCAA
1 TGCGAATTACG-AAATCGCAATGCGATTACGTAAATCGCAA
* * * * *
421958 TACG-ATTACGTAAATTGCAATGCGAATTAGGAAAATTGCAA
1 TGCGAATTACG-AAATCGCAATGCG-ATTACGTAAATCGCAA
* * * *
421999 TGCGCATATA-TAAATCGCAATGCGAATACGT-AATCGCAT
1 TGCGAAT-TACGAAATCGCAATGCGATTACGTAAATCGCAA
* * * * * * *
422038 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGAATTACGAAATCGCAATGCGA-TTACGTAAATCGCAA
* * * * * * *
422079 TGCGATTTACGTATTTGCATTGCGATTTAGGAAAATCGCAA
1 TGCGAATTACGAAATCGCAATGCGA-TTACGTAAATCGCAA
* **
422120 CGCGAATTTGGGAAATCGCAATGCGAT
1 TGCGAA-TTACGAAATCGCAATGCGAT
422147 AGTCAGAATC
Statistics
Matches: 177, Mismatches: 45, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
38 2 0.01
39 23 0.13
40 32 0.18
41 103 0.58
42 15 0.08
43 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (40 bp):
TGCGAATTACGAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:421952 original size:61 final size:60
Alignment explanation
Indices: 421887--422146 Score: 243
Period size: 61 Copynumber: 4.3 Consensus size: 60
421877 TGCGATTTAC
421887 TAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGATTACGT-AATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
* * * * **
421948 TAAATCGCAATACGATTACGTAAATTGCAATGCGAATTAGGAAAATTGCAATGCGCATATA
1 TAAATCGCAATGCGATTACGT-AATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
* * * * * * * * *
422009 TAAATCGCAATGCGAATACGTAATCGCATTGCGATTTACG-TAATCGCATTGCGATTTTCC
1 TAAATCGCAATGCGATTACGTAATCGCAATGCGAATTAGGAAAATCGCAATGCGA-ATACG
* * * * * * * **
422069 TAATTCGCATTGCGATTTACGTATTTGCATTGCGATTTAGGAAAATCGCAACGCGAATTTGG
1 TAAATCGCAATGCGA-TTACGTAATCGCAATGCGAATTAGGAAAATCGCAATGCGAA-TACG
*
422131 GAAATCGCAATGCGAT
1 TAAATCGCAATGCGAT
422147 AGTCAGAATC
Statistics
Matches: 160, Mismatches: 35, Indels: 8
0.79 0.17 0.04
Matches are distributed among these distances:
59 10 0.06
60 29 0.18
61 96 0.60
62 25 0.16
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (60 bp):
TAAATCGCAATGCGATTACGTAATCGCAATGCGAATTAGGAAAATCGCAATGCGAATACG
Found at i:422128 original size:22 final size:21
Alignment explanation
Indices: 422103--422145 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
422093 TTGCATTGCG
422103 ATTTAGGAAAATCGCAACGCGA
1 ATTT-GGAAAATCGCAACGCGA
* *
422125 ATTTGGGAAATCGCAATGCGA
1 ATTTGGAAAATCGCAACGCGA
422146 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (21 bp):
ATTTGGAAAATCGCAACGCGA
Found at i:423676 original size:22 final size:20
Alignment explanation
Indices: 423626--423683 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
423616 TTTGTGCACC
*
423626 AGGTATCGATACCCCTTGCT
1 AGGTATCGATACCCCTTGAT
423646 AGGTATCGATACCCCCTTGA-
1 AGGTATCGATA-CCCCTTGAT
423666 ATGTGTATCGATAACCCC
1 A-G-GTATCGAT-ACCCC
423684 ATATAAGGGT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 12 0.36
21 8 0.24
22 12 0.36
23 1 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (20 bp):
AGGTATCGATACCCCTTGAT
Found at i:428734 original size:3 final size:3
Alignment explanation
Indices: 428716--428783 Score: 59
Period size: 3 Copynumber: 22.3 Consensus size: 3
428706 ATATACATCA
* ** *
428716 AAT AAT AAAT AA- AAT AAT AAT AAT AGT ACAT TGT ATT AAT AACT AA-
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AA-T AAT
428762 AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
428784 TTTCATTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
2 4 0.08
3 42 0.79
4 7 0.13
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:430222 original size:18 final size:18
Alignment explanation
Indices: 430196--430231 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
430186 ACCCAGATTA
* *
430196 CTCTTTCCTTCATTTTCC
1 CTCTCTCCTTCATCTTCC
430214 CTCTCTCCTTCATCTTCC
1 CTCTCTCCTTCATCTTCC
430232 TAGCTCACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.06, C:0.44, G:0.00, T:0.50
Consensus pattern (18 bp):
CTCTCTCCTTCATCTTCC
Found at i:434864 original size:3 final size:3
Alignment explanation
Indices: 434790--434853 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
434780 ATTTTTGTTT
** * *
434790 TTA TTA TTA TTA TTA AAA TTA TTA TTA TTA TTA ATA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
434838 -TA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
434854 AATAATTATT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 4 0.08
3 47 0.92
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:436340 original size:3 final size:3
Alignment explanation
Indices: 436332--436376 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
436322 TTTACTTTTA
436332 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
436377 TAGCCATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:437217 original size:24 final size:24
Alignment explanation
Indices: 437160--437217 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
437150 ATTTTTTATA
* *
437160 TATACTTATTATTTTCATAGTATT
1 TATATTTATTATTTTCATAATATT
*
437184 TATATATATTATTTT-ATTAATATT
1 TATATTTATTATTTTCA-TAATATT
437208 TCAT-TTTATT
1 T-ATATTTATT
437218 TGCAAGCGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTTATTATTTTCATAATATT
Found at i:439470 original size:15 final size:14
Alignment explanation
Indices: 439429--439469 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
439419 ATTTTAAATA
439429 ATTTACATTTTTGC
1 ATTTACATTTTTGC
439443 ATTTATGCA-TTTTGC
1 ATTTA--CATTTTTGC
439458 ATTTACATTTTT
1 ATTTACATTTTT
439470 TATTTGTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 11 0.46
16 2 0.08
ACGTcount: A:0.22, C:0.12, G:0.07, T:0.59
Consensus pattern (14 bp):
ATTTACATTTTTGC
Found at i:442250 original size:11 final size:9
Alignment explanation
Indices: 442227--442267 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
442217 TATTATACTT
442227 GAAAAAAAG
1 GAAAAAAAG
*
442236 GAAAAAAAT
1 GAAAAAAAG
*
442245 GAGAAAAA-
1 GAAAAAAAG
442253 G-AAAAAAG
1 GAAAAAAAG
442261 GAAAAAA
1 GAAAAAA
442268 TTGAACCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
7 5 0.19
8 2 0.07
9 20 0.74
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (9 bp):
GAAAAAAAG
Found at i:447043 original size:22 final size:22
Alignment explanation
Indices: 447017--447093 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
447007 ATCTACACTC
447017 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
447039 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
447061 TTTAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCTCTT
447083 TTCAAAGATGA
1 TTCAAAGATGA
447094 AAGCTTTATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:447897 original size:76 final size:76
Alignment explanation
Indices: 447771--448256 Score: 918
Period size: 76 Copynumber: 6.4 Consensus size: 76
447761 CTATTTCCCA
447771 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
447836 AGCCTTAGGGT
66 AGCCTTAGGGT
*
447847 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAACCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
447912 AGCCTTAGGGT
66 AGCCTTAGGGT
447923 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
447988 AGCCTTAGGGT
66 AGCCTTAGGGT
447999 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
448064 AGCCTTAGGGT
66 AGCCTTAGGGT
*
448075 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
448140 AGCCTTAGGGT
66 AGCCTTAGGGT
**
448151 CATCTGTAAGTCCTGTAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
448216 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
448227 CATCTGTAAGCCCTTCAGTGCATGATGTTT
1 CATCTGTAAGTCCTACAGTGCATGATGTTT
448257 TTAGGACCTC
Statistics
Matches: 401, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
76 401 1.00
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:448432 original size:15 final size:14
Alignment explanation
Indices: 448414--448479 Score: 73
Period size: 15 Copynumber: 4.7 Consensus size: 14
448404 TTTTGTTTTT
448414 ATTATTATTATTAAA
1 ATTATTATTATT-AA
448429 ATTATTATTATT--
1 ATTATTATTATTAA
* *
448441 ATTATTAATATTAT
1 ATTATTATTATTAA
448455 ATATATTATTATTAA
1 AT-TATTATTATTAA
*
448470 ATAATTATTA
1 ATTATTATTA
448480 CAATCCCAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 11 0.25
14 9 0.20
15 24 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTATTATTATTAA
Done.