Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 73 of 135
Found at i:24190848 original size:15 final size:16
Alignment explanation
Indices: 24190823--24190853 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
24190813 CTTCTTTTCC
24190823 TTCCTTTCTTCTTCTT
1 TTCCTTTCTTCTTCTT
24190839 TTCC-TTCTTCTTCTT
1 TTCCTTTCTTCTTCTT
24190854 CTTCTTCCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (16 bp):
TTCCTTTCTTCTTCTT
Found at i:24190869 original size:3 final size:3
Alignment explanation
Indices: 24190828--24190860 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
24190818 TTTCCTTCCT
24190828 TTC TTC TTC TT- TTCC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TT-C TTC TTC TTC TTC TTC TTC
24190861 CACTTCTTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:24206052 original size:9 final size:9
Alignment explanation
Indices: 24206012--24206055 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
24206002 ACATATATAT
24206012 TTTTTCTTC
1 TTTTTCTTC
* *
24206021 TTTTCCCT-
1 TTTTTCTTC
24206029 TTTTTCTTTC
1 TTTTTC-TTC
24206039 TTTTTCTTC
1 TTTTTCTTC
24206048 TTTTTCTT
1 TTTTTCTT
24206056 ATGTGACTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.17
9 18 0.62
10 6 0.21
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:24208787 original size:20 final size:20
Alignment explanation
Indices: 24208764--24208801 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
24208754 ATTCCTGCAA
24208764 AAAAAACTAAA-AAAATAACT
1 AAAAAA-TAAACAAAATAACT
*
24208784 AAAACATAAACAAAATAA
1 AAAAAATAAACAAAATAA
24208802 AGTAAACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.76, C:0.11, G:0.00, T:0.13
Consensus pattern (20 bp):
AAAAAATAAACAAAATAACT
Found at i:24218900 original size:5 final size:6
Alignment explanation
Indices: 24218888--24218912 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
24218878 GAAGGAAGAG
24218888 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
24218913 TGAAGAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:24224728 original size:32 final size:34
Alignment explanation
Indices: 24224686--24224753 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
24224676 TGTGGCTACA
* *
24224686 TTGGTCTTCTTGTTCTTG-CACTTTC-GTTCCTCT
1 TTGGTCTTCTTCTTCTTGTC-CTTGCGGTTCCTCT
24224719 TTGGT-TTCTTCTTCTTGTCCTTGCGGTTCCTCT
1 TTGGTCTTCTTCTTCTTGTCCTTGCGGTTCCTCT
24224752 TT
1 TT
24224754 TTGTCCTTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.01, C:0.26, G:0.16, T:0.56
Consensus pattern (34 bp):
TTGGTCTTCTTCTTCTTGTCCTTGCGGTTCCTCT
Found at i:24230475 original size:26 final size:26
Alignment explanation
Indices: 24230445--24230496 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
24230435 CCCAGGAATG
*
24230445 TCGCTGCATGAACATGTAC-AGAATTA
1 TCGCTACATGAACATGT-CTAGAATTA
*
24230471 TCGCTACATGAACGTGTCTAGAATTA
1 TCGCTACATGAACATGTCTAGAATTA
24230497 CGCCCAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 22 0.96
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (26 bp):
TCGCTACATGAACATGTCTAGAATTA
Found at i:24240466 original size:15 final size:16
Alignment explanation
Indices: 24240438--24240473 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
24240428 TTTGTGTTTA
*
24240438 GGTTTTGAGGTTTTTG
1 GGTTTTGAGGTTTTGG
24240454 GGTTTTG-GGTTTTGG
1 GGTTTTGAGGTTTTGG
24240469 GGTTT
1 GGTTT
24240474 AGCTTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.63
16 7 0.37
ACGTcount: A:0.03, C:0.00, G:0.42, T:0.56
Consensus pattern (16 bp):
GGTTTTGAGGTTTTGG
Found at i:24246439 original size:3 final size:3
Alignment explanation
Indices: 24246431--24246530 Score: 94
Period size: 3 Copynumber: 32.7 Consensus size: 3
24246421 ACCTTTTCTT
* * *
24246431 TTA TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA CTA TTA TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
24246479 TTT TTA ATA TTTA TTTA TTA TT- TATC TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA -TTA -TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
*
24246526 CTA TT
1 TTA TT
24246531 TCACATTATT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
2 1 0.01
3 71 0.90
4 7 0.09
ACGTcount: A:0.28, C:0.03, G:0.01, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24250572 original size:19 final size:19
Alignment explanation
Indices: 24250548--24250587 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
24250538 CTATTTAAGG
24250548 GTAGATTTACCATAATTGA
1 GTAGATTTACCATAATTGA
24250567 GTAGATTTACCATAATTGA
1 GTAGATTTACCATAATTGA
24250586 GT
1 GT
24250588 GGAGTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
GTAGATTTACCATAATTGA
Found at i:24254304 original size:15 final size:16
Alignment explanation
Indices: 24254281--24254313 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24254271 AGCATCCTTT
24254281 CAATAAAAA-ACAGAG
1 CAATAAAAACACAGAG
*
24254296 CAATCAAAACACAGAG
1 CAATAAAAACACAGAG
24254312 CA
1 CA
24254314 GAACATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.61, C:0.21, G:0.12, T:0.06
Consensus pattern (16 bp):
CAATAAAAACACAGAG
Found at i:24255994 original size:22 final size:22
Alignment explanation
Indices: 24255956--24256000 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
24255946 ACCAAATAGA
* *
24255956 TTGTATGGGTGTCAAAT-ATTT
1 TTGTATGGGAGTAAAATCATTT
24255977 TTGTGATGGGAGTAAAATCATTT
1 TTGT-ATGGGAGTAAAATCATTT
24256000 T
1 T
24256001 AACATCTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.20
22 11 0.55
23 5 0.25
ACGTcount: A:0.27, C:0.04, G:0.24, T:0.44
Consensus pattern (22 bp):
TTGTATGGGAGTAAAATCATTT
Found at i:24258859 original size:2 final size:2
Alignment explanation
Indices: 24258842--24258878 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
24258832 AATCATTATG
* *
24258842 TA TA TC TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24258879 GTACATACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:24260063 original size:39 final size:39
Alignment explanation
Indices: 24260011--24260102 Score: 130
Period size: 39 Copynumber: 2.4 Consensus size: 39
24260001 CAATCTACCT
* *
24260011 CATGATAGAGGTAAAAAATTGGACGGTTGCGATCTGCCC
1 CATGATCGGGGTAAAAAATTGGACGGTTGCGATCTGCCC
* * * *
24260050 CATGATCGGGGTAAGAGATTGGATGGTTGTGATCTGCCC
1 CATGATCGGGGTAAAAAATTGGACGGTTGCGATCTGCCC
24260089 CATGATCGGGGTAA
1 CATGATCGGGGTAA
24260103 GAGATTGGTG
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (39 bp):
CATGATCGGGGTAAAAAATTGGACGGTTGCGATCTGCCC
Found at i:24260186 original size:38 final size:38
Alignment explanation
Indices: 24259999--24260349 Score: 206
Period size: 40 Copynumber: 9.0 Consensus size: 38
24259989 GGATGATGGT
* * * * * * *
24259999 TTCAATCTACCTCATGATAGAGGTAAAAAATTGGACGG
1 TTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGC
* * *
24260037 TTGCGATCTGCCCCATGATCGGGGTAAGAGATTGGATGG
1 TT-CAATCTGCCTCATGATCGGGGTAAGAGATTGGATGC
** * *
24260076 TTGTGATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTC
1 TT-CAATCTGCCTCATGATCGGGGTAAGAGATTGG-ATG-C
* * ** *
24260117 TTTAACCTGCCCTC-TGATTAGGGTAAAAGATTGGATGC
1 TTCAATCTG-CCTCATGATCGGGGTAAGAGATTGGATGC
* * *
24260155 TTCAATTTGCCTCATGATCGGGGTATGAGATTGGCGTGTC
1 TTCAATCTGCCTCATGATCGGGGTAAGAGATTGG-ATG-C
* ** * * *
24260195 TTCAATCTGCCCTC-TAATTAGGGTAAAAGATTAGATGT
1 TTCAATCTG-CCTCATGATCGGGGTAAGAGATTGGATGC
* * *
24260233 TTCAATCTACCTCATGATCGGGGTATGAGATTGGGTAAT-T
1 TTCAATCTGCCTCATGATCGGGGTAAGAGATT-GG--ATGC
* * *
24260273 TTTAATCTGCCCCATGATCGGGGTAAGAGATTTGG-TAGTT
1 TTCAATCTGCCTCATGATCGGGGTAAGAGA-TTGGAT-G-C
* * * *
24260313 TTCAATCTACCCCATGATCAGGGTAAGAGATTAGATG
1 TTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATG
24260350 GTGATGTAGC
Statistics
Matches: 246, Mismatches: 50, Indels: 33
0.75 0.15 0.10
Matches are distributed among these distances:
37 9 0.04
38 46 0.19
39 73 0.30
40 105 0.43
41 13 0.05
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (38 bp):
TTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATGC
Found at i:24260280 original size:78 final size:78
Alignment explanation
Indices: 24260089--24260344 Score: 291
Period size: 78 Copynumber: 3.3 Consensus size: 78
24260079 TGATCTGCCC
* * *
24260089 CATGATCGGGGTAAGAGATTGGTGTGTCTTTAACCTGCCCTCTGATTAGGGTAAAAGATTGGATG
1 CATGATCGGGGTAAGAGATTGGCGTGTCTTTAATCTGCCCTCTGATTAGGGTAAAAGATTAGATG
* * *
24260154 CTTCAATTTGCCT
66 TTTCAATCTACCT
* * *
24260167 CATGATCGGGGTATGAGATTGGCGTGTCTTCAATCTGCCCTCTAATTAGGGTAAAAGATTAGATG
1 CATGATCGGGGTAAGAGATTGGCGTGTCTTTAATCTGCCCTCTGATTAGGGTAAAAGATTAGATG
24260232 TTTCAATCTACCT
66 TTTCAATCTACCT
* * * ** * * *
24260245 CATGATCGGGGTATGAGATTGG-GTAATTTTTAATCTGCCC-CATGATCGGGGTAAGAGATTTGG
1 CATGATCGGGGTAAGAGATTGGCGT-GTCTTTAATCTGCCCTC-TGATTAGGGTAAAAGATTAGA
*
24260308 TAGTTTTCAATCTACCC
64 T-G-TTTCAATCTACCT
*
24260325 CATGATCAGGGTAAGAGATT
1 CATGATCGGGGTAAGAGATT
24260345 AGATGGTGAT
Statistics
Matches: 153, Mismatches: 21, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
77 3 0.02
78 119 0.78
79 1 0.01
80 30 0.20
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (78 bp):
CATGATCGGGGTAAGAGATTGGCGTGTCTTTAATCTGCCCTCTGATTAGGGTAAAAGATTAGATG
TTTCAATCTACCT
Found at i:24260289 original size:40 final size:39
Alignment explanation
Indices: 24260042--24260344 Score: 249
Period size: 40 Copynumber: 7.7 Consensus size: 39
24260032 GACGGTTGCG
* * *
24260042 ATCTGCCCCATGATCGGGGTAAGAGATTGGATGGTTGT-G
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGGT-GTTTTCA
24260081 ATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTT-A
1 ATCTGCCCCATGATCGGGGTAAGAGATTGG-GTGT-TTTCA
* ** * * *
24260121 ACCTGCCCTC-TGATTAGGGTAAAAGATTGGATG-CTTCA
1 ATCTGCCC-CATGATCGGGGTAAGAGATTGGGTGTTTTCA
* * * *
24260159 ATTTGCCTCATGATCGGGGTATGAGATTGGCGTGTCTTCA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGG-GTGTTTTCA
* ** * * *
24260199 ATCTGCCCTC-TAATTAGGGTAAAAGATTAGATG-TTTCA
1 ATCTGCCC-CATGATCGGGGTAAGAGATTGGGTGTTTTCA
* * * * *
24260237 ATCTACCTCATGATCGGGGTATGAGATTGGGTAATTTTTA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGGT-GTTTTCA
*
24260277 ATCTGCCCCATGATCGGGGTAAGAGATTTGGTAGTTTTCA
1 ATCTGCCCCATGATCGGGGTAAGAGATTGGGT-GTTTTCA
* *
24260317 ATCTACCCCATGATCAGGGTAAGAGATT
1 ATCTGCCCCATGATCGGGGTAAGAGATT
24260345 AGATGGTGAT
Statistics
Matches: 207, Mismatches: 46, Indels: 21
0.76 0.17 0.08
Matches are distributed among these distances:
37 4 0.02
38 47 0.23
39 38 0.18
40 116 0.56
41 2 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (39 bp):
ATCTGCCCCATGATCGGGGTAAGAGATTGGGTGTTTTCA
Found at i:24261013 original size:49 final size:48
Alignment explanation
Indices: 24260576--24261013 Score: 275
Period size: 49 Copynumber: 8.9 Consensus size: 48
24260566 AATCTATTCC
* * ** **
24260576 TCATGTTTTTCAGGTACAAGGTTTGATGTTGTAACTTAAACCTTTCCCT
1 TCATG-TTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* * * * * * * * **
24260625 CCATATCTTTGTGGTACCAGATTCGTCGTTGCGGCTTCAATATTTCCCT
1 TCATGT-TTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* * * *
24260674 TCATGTTTCTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCTCG
1 TCATGTTT-TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* * * * * * * * **
24260723 CCATATCTTTGTGGTACCAGATTCGCCGTTGTGGCTTCAATATTTCCCT
1 TCATGT-TTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* *
24260772 TCATGTTTTTGAGGTACAAGGTTTGTCGTTGCGACTTAAACCTTT-CCT
1 TCATG-TTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* * * * * * * * *
24260820 TCCATATCTTTGTGGTACCAGGTCCGCCATTGCGGCTTCAATCTTTCTCT
1 T-CATGT-TTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* *
24260870 TCATGTTTTTGAGGTACAAGATTCGTCGTTGCGACTTAAACCTTTCCCT
1 TCATG-TTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* * * * * ** * * *
24260919 CCATATATTTGTGGTACCAGATTCATCGTTGCGGCTTCAATCTTTCCCT
1 TCATGT-TTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
* **
24260968 TCATGTTTCTAAGGTACAAGGTTCGCCGTTATGACTTAAACCTTTC
1 TCATGTTT-TGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTC
24261014 TCTCCATATC
Statistics
Matches: 283, Mismatches: 96, Indels: 20
0.71 0.24 0.05
Matches are distributed among these distances:
48 11 0.04
49 265 0.94
50 7 0.02
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (48 bp):
TCATGTTTTGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTCCCT
Found at i:24261064 original size:98 final size:98
Alignment explanation
Indices: 24260562--24261032 Score: 640
Period size: 98 Copynumber: 4.8 Consensus size: 98
24260552 ACTGTTACGA
* * ** *
24260562 CTTCAATCTATT-CC-TCATGTTTTTCAGGTACAAGGTTTGATGTTGTAACTTAAACCTTTCCCT
1 CTTCAATCT-TTCCCTTCATGTTTTTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCT
24260625 CCATATCTTTGTGGTACCAGATTCGTCGTTGCGG
65 CCATATCTTTGTGGTACCAGATTCGTCGTTGCGG
* * * *
24260659 CTTCAATATTTCCCTTCATGTTTCTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCTCGC
1 CTTCAATCTTTCCCTTCATGTTTTTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTC
* *
24260724 CATATCTTTGTGGTACCAGATTCGCCGTTGTGG
66 CATATCTTTGTGGTACCAGATTCGTCGTTGCGG
* * * * * *
24260757 CTTCAATATTTCCCTTCATGTTTTTGAGGTACAAGGTTTGTCGTTGCGACTTAAACCTTTCCTTC
1 CTTCAATCTTTCCCTTCATGTTTTTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTC
* * * *
24260822 CATATCTTTGTGGTACCAGGTCCGCCATTGCGG
66 CATATCTTTGTGGTACCAGATTCGTCGTTGCGG
* * * * *
24260855 CTTCAATCTTTCTCTTCATGTTTTTGAGGTACAAGATTCGTCGTTGCGACTTAAACCTTTCCCTC
1 CTTCAATCTTTCCCTTCATGTTTTTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTC
* *
24260920 CATATATTTGTGGTACCAGATTCATCGTTGCGG
66 CATATCTTTGTGGTACCAGATTCGTCGTTGCGG
* * *
24260953 CTTCAATCTTTCCCTTCATGTTTCTAAGGTACAAGGTTCGCCGTTATGACTTAAACCTTTCTCTC
1 CTTCAATCTTTCCCTTCATGTTTTTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTC
24261018 CATATCTTTGTGGTA
66 CATATCTTTGTGGTA
24261033 TTGGGTTCAT
Statistics
Matches: 329, Mismatches: 43, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
96 2 0.01
97 10 0.03
98 317 0.96
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (98 bp):
CTTCAATCTTTCCCTTCATGTTTTTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCCCTC
CATATCTTTGTGGTACCAGATTCGTCGTTGCGG
Found at i:24261098 original size:196 final size:195
Alignment explanation
Indices: 24260609--24261098 Score: 471
Period size: 196 Copynumber: 2.5 Consensus size: 195
24260599 TGATGTTGTA
* * * ** * * * **
24260609 ACTTAAACCTTTCCCTCCATATCTTTGTGGTACCAGATTCGTCGTTGCGGCTTCAATATTTCCCT
1 ACTTAAACCTTTCCTTCCATATCTTTGTGGTACCAGGTCCACCATTGCGACCTCAACCTTTCCCT
* ** * * * * * *
24260674 TCATGTTTCTAAGGTACAAGGTTCGCCGTTGTGACTTAAACCTTTCTCGCCATATCTTTGTGGTA
66 TCATCTTAAT-AGGAACAAGATTCACCGTTGCGACTTAAACCTTTCCCGCCATATATTTGTGGTA
* * * * * * *
24260739 CCAGATTCGCCGTTGTGGCTTCAATATTTCCCTTCATGTTTTTGAGGTACAAGGTTTGTCGTTGC
130 CCAGATTCACCGTTGCGGCTTCAATATTTCCCTTCATGTTTCTAAGGTACAAGGTTCGCCGTTAC
24260804 G
195 G
* * * * *
24260805 ACTTAAACCTTTCCTTCCATATCTTTGTGGTACCAGGTCCGCCATTGCGGCTTCAATCTTTCTCT
1 ACTTAAACCTTTCCTTCCATATCTTTGTGGTACCAGGTCCACCATTGCGACCTCAACCTTTCCCT
* ** * ** *
24260870 TCATGTTTTTGAGGTACAAGATTCGTCGTTGCGACTTAAACCTTTCCCTCCATATATTTGTGGTA
66 TCATCTTAAT-AGGAACAAGATTCACCGTTGCGACTTAAACCTTTCCCGCCATATATTTGTGGTA
* * *
24260935 CCAGATTCATCGTTGCGGCTTCAATCTTTCCCTTCATGTTTCTAAGGTACAAGGTTCGCCGTTAT
130 CCAGATTCACCGTTGCGGCTTCAATATTTCCCTTCATGTTTCTAAGGTACAAGGTTCGCCGTTAC
24261000 G
195 G
*** * ***
24261001 ACTTAAACCTTT-CTCTCCATATCTTTGTGGTATTGGGTTCATTGTTGCGACCTCAACCTTTCCC
1 ACTTAAACCTTTCCT-TCCATATCTTTGTGGTACCAGGTCCACCATTGCGACCTCAACCTTTCCC
**
24261065 ATTTCATCTTAAT-GGAACCGGATTCACCGTTGCG
65 --TTCATCTTAATAGGAACAAGATTCACCGTTGCG
24261099 GCCTCAATCC
Statistics
Matches: 246, Mismatches: 45, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
195 2 0.01
196 236 0.96
198 8 0.03
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (195 bp):
ACTTAAACCTTTCCTTCCATATCTTTGTGGTACCAGGTCCACCATTGCGACCTCAACCTTTCCCT
TCATCTTAATAGGAACAAGATTCACCGTTGCGACTTAAACCTTTCCCGCCATATATTTGTGGTAC
CAGATTCACCGTTGCGGCTTCAATATTTCCCTTCATGTTTCTAAGGTACAAGGTTCGCCGTTACG
Found at i:24261143 original size:50 final size:50
Alignment explanation
Indices: 24261086--24261212 Score: 229
Period size: 50 Copynumber: 2.6 Consensus size: 50
24261076 ATGGAACCGG
24261086 ATTCACCGTTGCGGCCTCAATCCTTTCCATAATATCTTCTAAGGTATCGA
1 ATTCACCGTTGCGGCCTCAATCCTTTCCATAATATCTTCTAAGGTATCGA
*
24261136 ATTCACCGTTGCGGCCTCAATCCTTTCCATAATATCTTCTAAGGTATCGG
1 ATTCACCGTTGCGGCCTCAATCCTTTCCATAATATCTTCTAAGGTATCGA
*
24261186 ATTCACCGTTGCAGCCTCAA-CCTTTCC
1 ATTCACCGTTGCGGCCTCAATCCTTTCC
24261213 CTTCAAATCA
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 7 0.09
50 68 0.91
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.33
Consensus pattern (50 bp):
ATTCACCGTTGCGGCCTCAATCCTTTCCATAATATCTTCTAAGGTATCGA
Found at i:24266961 original size:13 final size:13
Alignment explanation
Indices: 24266943--24266971 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
24266933 TCAAAGTAAC
24266943 TTTATTATTATTA
1 TTTATTATTATTA
24266956 TTTATTATTATTA
1 TTTATTATTATTA
24266969 TTT
1 TTT
24266972 TTGAAAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTATTATTATTA
Found at i:24267776 original size:32 final size:32
Alignment explanation
Indices: 24267718--24267778 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
24267708 AAATCTTTCT
* * *
24267718 AAAAAATCATTTTTTTTCTATTTTTTTTTTTA
1 AAAAAAGCATTTTTTTCCTATGTTTTTTTTTA
24267750 AAAAAAGCATTTTTGTTCCT-TGTTTTTTT
1 AAAAAAGCATTTTT-TTCCTATGTTTTTTT
24267779 CTCTGAAACG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
32 21 0.84
33 4 0.16
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (32 bp):
AAAAAAGCATTTTTTTCCTATGTTTTTTTTTA
Found at i:24277955 original size:18 final size:17
Alignment explanation
Indices: 24277928--24277975 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 17
24277918 TGTTTATTTG
24277928 ATTT-TTATTAATTTACA
1 ATTTATTATTAATTTA-A
24277945 ATTTATTATTAAATTTAA
1 ATTTATTATT-AATTTAA
24277963 ATTGTATTTATTA
1 ATT-TA-TTATTA
24277976 TATATTTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 4 0.15
18 9 0.33
19 9 0.33
20 5 0.19
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
ATTTATTATTAATTTAA
Found at i:24281841 original size:365 final size:368
Alignment explanation
Indices: 24281140--24281864 Score: 1032
Period size: 365 Copynumber: 2.0 Consensus size: 368
24281130 AAATTGATCG
24281140 GAGTTAAATAAAGACCAGAATGTGAGACTTGTTGTTAATTCTACGAGAGATAGATGACCAGGAAA
1 GAGTTAAATAAAGACCAGAATGTGAGACTTGTTGTTAATTCTACGAGAGATAGATGACCAGGAAA
* * *
24281205 TTGAAGTACGACTAAAGCCAGTAGAACTTGAATGAAAGACATAGTCGTTTGCTCTAAAGTTGGAA
66 TTGAAGTACGACTAAAGCCAGTAGAACTGGAATAAAAGACATAGTCGTTTGCTCTAAAGTTGAAA
** * * *
24281270 CTCTCACTGAAGATTATATGATCTGAGTATGAAGGAAGTTTCACTCTTTGATGATATTGCTTGGA
131 CTCTCACCAAAGACTATATGA-CT-AGTATGAAGGAAGTTTCACTCCTTGATGATATTGCTGGGA
* * * *
24281335 GTTGCCATCAGAGATTAATTGATTTGAAACGTCAGAGTCGTGAATTGATTTATATTAAGAAAGGG
194 GTTACCATCAGAGATTAATTGACTTGAAACATCAGAGTCGTGAACTGATTTATATTAAGAAAGGG
* *
24281400 CCGTGATAATTCCTGGATTTGAAAGTATTTGAAATGGAAGTTAGTCAATTATCGACAATTTGCAA
259 CCGTGATAATTCCTGGATTTGAAAGTATTTGAAATGGAAGTTAATCAATTATCAACAATTTGCAA
* *
24281465 GTTATATATGTTTTTCTTGCAGAATTGTTGGGTTTATTTCCAGAAT
324 GTTAAATATG-TTTTCTTGCAGAATGGTTGGGTTTATTTCCAGAAT
* * * * *
24281511 GAGTTAAATAAAGGCTAGAATGTGAGACTTGTTGTTAATTCTACGAGAGATAGATGACTAGTAAT
1 GAGTTAAATAAAGACCAGAATGTGAGACTTGTTGTTAATTCTACGAGAGATAGATGACCAGGAAA
* * * *
24281576 TTGAAGTACGACTAGAGCTAGTAGAAGTGGAATAAAAGACATAGTCGTTT-CATCTGAAGTTGAA
66 TTGAAGTACGACTAAAGCCAGTAGAACTGGAATAAAAGACATAGTCGTTTGC-TCTAAAGTTGAA
24281640 ACTCTCACCAAAG-CT-TAT-A-T-GTATGCAAGGAAGTTTC-CGTCCTTGATGATATTGCTGGG
130 ACTCTCACCAAAGACTATATGACTAGTATG-AAGGAAGTTTCAC-TCCTTGATGATATTGCTGGG
* * *
24281699 AGTTACCATCAGAGATTGATTGACTTGAAATATCAGAGTCGTGAACTGATTTATATTAAGATAGG
193 AGTTACCATCAGAGATTAATTGACTTGAAACATCAGAGTCGTGAACTGATTTATATTAAGAAAGG
** * * * * *
24281764 GTTGTGATAATTCTTGTATTTGAGAGTATTTGAAATGGAAGTTAATCAGTTATCAACAGTTTGCA
258 GCCGTGATAATTCCTGGATTTGAAAGTATTTGAAATGGAAGTTAATCAATTATCAACAATTTGCA
24281829 AGTTAAATATGTTTTCTTGCAGAATGGTTGGGTTTA
323 AGTTAAATATGTTTTCTTGCAGAATGGTTGGGTTTA
24281865 CTGCTAGAAT
Statistics
Matches: 316, Mismatches: 35, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
364 30 0.09
365 153 0.48
366 1 0.00
368 1 0.00
369 3 0.01
370 2 0.01
371 126 0.40
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.33
Consensus pattern (368 bp):
GAGTTAAATAAAGACCAGAATGTGAGACTTGTTGTTAATTCTACGAGAGATAGATGACCAGGAAA
TTGAAGTACGACTAAAGCCAGTAGAACTGGAATAAAAGACATAGTCGTTTGCTCTAAAGTTGAAA
CTCTCACCAAAGACTATATGACTAGTATGAAGGAAGTTTCACTCCTTGATGATATTGCTGGGAGT
TACCATCAGAGATTAATTGACTTGAAACATCAGAGTCGTGAACTGATTTATATTAAGAAAGGGCC
GTGATAATTCCTGGATTTGAAAGTATTTGAAATGGAAGTTAATCAATTATCAACAATTTGCAAGT
TAAATATGTTTTCTTGCAGAATGGTTGGGTTTATTTCCAGAAT
Found at i:24289689 original size:40 final size:40
Alignment explanation
Indices: 24289634--24289750 Score: 144
Period size: 40 Copynumber: 2.9 Consensus size: 40
24289624 GTTACAATGG
* * * *
24289634 CACGAAGCCTGCTAGGCATTAAGCCCGATAAGTATACCGA
1 CACGAAGCTTGCTAGGCATTAAGCCCGATAAATACACCAA
* *
24289674 CACGAAGCTTGCTAGGCATTAAGCCTGGTAAATACACCAA
1 CACGAAGCTTGCTAGGCATTAAGCCCGATAAATACACCAA
* * * *
24289714 CAAGAAGCTTCCTAGGCATTAAGCTCAATAAATACAC
1 CACGAAGCTTGCTAGGCATTAAGCCCGATAAATACAC
24289751 TGGCACGAAG
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 65 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
CACGAAGCTTGCTAGGCATTAAGCCCGATAAATACACCAA
Found at i:24292394 original size:20 final size:20
Alignment explanation
Indices: 24292365--24292475 Score: 125
Period size: 20 Copynumber: 5.5 Consensus size: 20
24292355 ATGGGATTTT
*
24292365 CACTTCGGTGCCTCTGTTTG
1 CACTTCGGTGCCCCTGTTTG
* * *
24292385 CACTTTGGTGCCCCTGTATA
1 CACTTCGGTGCCCCTGTTTG
*
24292405 CACTTCGGTGTCCCTGTTTG
1 CACTTCGGTGCCCCTGTTTG
* *
24292425 CACTTCGCTGCCCCTGCTTG
1 CACTTCGGTGCCCCTGTTTG
* *
24292445 CACATT-TGTGCCCCTGTGTG
1 CAC-TTCGGTGCCCCTGTTTG
24292465 CACTTCGGTGC
1 CACTTCGGTGC
24292476 TTTTATTAAG
Statistics
Matches: 73, Mismatches: 16, Indels: 4
0.78 0.17 0.04
Matches are distributed among these distances:
19 2 0.03
20 69 0.95
21 2 0.03
ACGTcount: A:0.08, C:0.33, G:0.23, T:0.35
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTTTG
Found at i:24298547 original size:26 final size:25
Alignment explanation
Indices: 24298496--24298547 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
24298486 ATGATGCTTG
* **
24298496 AAAAAGAAATAGAAAAAAAGGGAGA
1 AAAAAGAAAAAGAAAAAAAGAAAGA
*
24298521 AAAAATGAAAAAGAAAAAGAGAAAGA
1 AAAAA-GAAAAAGAAAAAAAGAAAGA
24298547 A
1 A
24298548 TAGAGCATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAAAGAAAAAGAAAAAAAGAAAGA
Found at i:24314024 original size:22 final size:22
Alignment explanation
Indices: 24313999--24314042 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
24313989 TAGGACACAT
24313999 CTCCATTGAAAGAATTAAAAGA
1 CTCCATTGAAAGAATTAAAAGA
24314021 CTCCATTGAAAGAATTAAAAGA
1 CTCCATTGAAAGAATTAAAAGA
24314043 TTAGTAAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (22 bp):
CTCCATTGAAAGAATTAAAAGA
Found at i:24330349 original size:44 final size:44
Alignment explanation
Indices: 24330266--24330349 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
24330256 TATATACCCA
* *
24330266 CAAAATCATCAATTTGCTACATCCTCAGGCTGATTTAACTTGTT
1 CAAAATCATCAATTTGCTACATCCTCAGGCTCATATAACTTGTT
*
24330310 CAAAATCATCAATTTGCTACATCCTCAGGTTCATATAACT
1 CAAAATCATCAATTTGCTACATCCTCAGGCTCATATAACT
24330350 ATCACATATT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.32, C:0.24, G:0.10, T:0.35
Consensus pattern (44 bp):
CAAAATCATCAATTTGCTACATCCTCAGGCTCATATAACTTGTT
Found at i:24334451 original size:18 final size:19
Alignment explanation
Indices: 24334428--24334468 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 19
24334418 TGGGTGTGAA
24334428 AAACCAG-AAAGATAAAAT
1 AAACCAGAAAAGATAAAAT
24334446 AAACCAGTAAAAGATAAAAT
1 AAACCAG-AAAAGATAAAAT
24334466 AAA
1 AAA
24334469 AAAATACCAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 7 0.33
20 14 0.67
ACGTcount: A:0.68, C:0.10, G:0.10, T:0.12
Consensus pattern (19 bp):
AAACCAGAAAAGATAAAAT
Found at i:24334752 original size:11 final size:11
Alignment explanation
Indices: 24334736--24334767 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
24334726 TTTTAATATT
24334736 AAAATATTAAA
1 AAAATATTAAA
24334747 AAAATATT-AA
1 AAAATATTAAA
24334757 AAAATATTAAA
1 AAAATATTAAA
24334768 TTTATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAATATTAAA
Found at i:24335196 original size:19 final size:20
Alignment explanation
Indices: 24335156--24335196 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24335146 ATGTTATGTA
*
24335156 AATTTGAATTTTATCTATTT
1 AATTTGAATTTTATCTAGTT
24335176 AATTTG-ATTTTAGT-TAGTT
1 AATTTGAATTTTA-TCTAGTT
24335195 AA
1 AA
24335197 ACCTTTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.32, C:0.02, G:0.10, T:0.56
Consensus pattern (20 bp):
AATTTGAATTTTATCTAGTT
Found at i:24335753 original size:24 final size:21
Alignment explanation
Indices: 24335710--24335753 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
24335700 AATAATATAA
*
24335710 AATAATATAAAATAATATATT
1 AATAATATAAAATAAAATATT
24335731 AATAATATTAAAAATTAAAATAT
1 AATAATA-T-AAAA-TAAAATAT
24335754 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 7 0.37
22 1 0.05
23 4 0.21
24 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAATATAAAATAAAATATT
Found at i:24335785 original size:24 final size:21
Alignment explanation
Indices: 24335700--24335802 Score: 81
Period size: 20 Copynumber: 4.8 Consensus size: 21
24335690 AAATGTCTCG
24335700 AATAATATAAAATAATA-TAA
1 AATAATATAAAATAATATTAA
*
24335720 AATAATATATTAATAATATTAA
1 AATAATATA-AAATAATATTAA
* *
24335742 AA-ATTA-AAATATAATTTTAA
1 AATAATATAAA-ATAATATTAA
24335762 AAGTAATATAAAATATTATATT--
1 AA-TAATATAAAATA--ATATTAA
24335784 AATAATATTAAAAGTAATA
1 AATAATA-TAAAA-TAATA
24335803 AATAAATATT
Statistics
Matches: 67, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
19 1 0.01
20 21 0.31
21 18 0.27
22 18 0.27
23 5 0.07
24 4 0.06
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
AATAATATAAAATAATATTAA
Found at i:24335801 original size:12 final size:11
Alignment explanation
Indices: 24335700--24335802 Score: 62
Period size: 10 Copynumber: 9.6 Consensus size: 11
24335690 AAATGTCTCG
24335700 AATAATA-TAA
1 AATAATATTAA
24335710 AATAATA-TAA
1 AATAATATTAA
*
24335720 AATAATA-TATT
1 AATAATATTA-A
24335731 AATAATATT-A
1 AATAATATTAA
*
24335741 AA-AAT-TAAA
1 AATAATATTAA
*
24335750 ATATAATTTTAA
1 A-ATAATATTAA
24335762 AAGTAATA-TAA
1 AA-TAATATTAA
24335773 AATATTATATT--
1 AATA--ATATTAA
24335784 AATAATATTAA
1 AATAATATTAA
24335795 AAGTAATA
1 AA-TAATA
24335803 AATAAATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 24
0.72 0.05 0.23
Matches are distributed among these distances:
8 1 0.01
9 10 0.13
10 24 0.32
11 22 0.29
12 17 0.23
13 1 0.01
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (11 bp):
AATAATATTAA
Found at i:24335835 original size:15 final size:15
Alignment explanation
Indices: 24335817--24335865 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
24335807 AATATTTAAA
*
24335817 AATTAATATTTTACT
1 AATTTATATTTTACT
*
24335832 AATTTATATTTGA-T
1 AATTTATATTTTACT
*
24335846 -ATTTATATTTTACG
1 AATTTATATTTTACT
24335860 AATTTA
1 AATTTA
24335866 CGAAATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 11 0.39
14 1 0.04
15 16 0.57
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (15 bp):
AATTTATATTTTACT
Found at i:24341420 original size:26 final size:26
Alignment explanation
Indices: 24341370--24341423 Score: 92
Period size: 25 Copynumber: 2.1 Consensus size: 26
24341360 CTCTGAACTC
*
24341370 TTTTGTTTTCTTTTCTTCTTCAAAAA
1 TTTTGTTTTCTTTCCTTCTTCAAAAA
24341396 TTTTG-TTTCTTTCCTTCTTCAAAAA
1 TTTTGTTTTCTTTCCTTCTTCAAAAA
24341421 TTT
1 TTT
24341424 GCTATTAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.19, C:0.17, G:0.04, T:0.61
Consensus pattern (26 bp):
TTTTGTTTTCTTTCCTTCTTCAAAAA
Found at i:24343164 original size:20 final size:20
Alignment explanation
Indices: 24343119--24343166 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
24343109 TGGAGACTTG
24343119 ACGGTCAACCATTAAATCCA
1 ACGGTCAACCATTAAATCCA
* * *
24343139 ATGGTCGACCATTAAATCTA
1 ACGGTCAACCATTAAATCCA
24343159 ACGGTCAA
1 ACGGTCAA
24343167 AGGGCTTATC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (20 bp):
ACGGTCAACCATTAAATCCA
Found at i:24343348 original size:21 final size:22
Alignment explanation
Indices: 24343317--24343363 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
24343307 TAAAGCAATG
24343317 AAAAGCGTCACAAAAAGT-TCTC
1 AAAAGCGTCACAAAAAGTAT-TC
24343339 AAAA-CGTCACAAAAAGTATTC
1 AAAAGCGTCACAAAAAGTATTC
24343360 AAAA
1 AAAA
24343364 AACGACACAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (22 bp):
AAAAGCGTCACAAAAAGTATTC
Found at i:24362298 original size:18 final size:18
Alignment explanation
Indices: 24362270--24362318 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
24362260 TAGGCTGACT
*
24362270 AGATGCGATCACAGAATC
1 AGATGCAATCACAGAATC
* * *
24362288 GGATGCAATCATATAATC
1 AGATGCAATCACAGAATC
*
24362306 AGATGCAACCACA
1 AGATGCAATCACA
24362319 AGCTCGAATG
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.18
Consensus pattern (18 bp):
AGATGCAATCACAGAATC
Found at i:24363942 original size:532 final size:532
Alignment explanation
Indices: 24362938--24364532 Score: 3075
Period size: 532 Copynumber: 3.0 Consensus size: 532
24362928 TATACCTCTA
*
24362938 GTTGATGCTTTTATGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
1 GTTGATGCTTTTGTGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
*
24363003 GAAGTTATCCGATATTGAGACAACTGCGCTCATAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
66 GAAGTTATCCGATATTGAGACAACTGCGCTCACAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
*
24363068 TGCCACCAAAAATGGAAGATCCTAGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
131 TGCCACCAAAAATGGAAGATCCTGGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
24363133 GGTAAAGCTTTATGTGATTTAGGAGCTAGTATTAACCTTATGCCATTGTCAACTTTCAGGAAATT
196 GGTAAAGCTTTATGTGATTTAGGAGCTAGTATTAACCTTATGCCATTGTCAACTTTCAGGAAATT
24363198 AAGAATTGGTCATATGAAGCCCACTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
261 AAGAATTGGTCATATGAAGCCCACTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
24363263 TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCGATAAGTTTGTATTCTTAGCCGACTTCATC
326 TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCGATAAGTTTGTATTCTTAGCCGACTTCATC
*
24363328 ATACTTGATTGTGAAACTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
391 ATACTTGATTGTGAAGCTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
24363393 ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCCATAATTATGAACATGTAACCT
456 ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCCATAATTATGAACATGTAACCT
24363458 TCAGTGTTTTCG
521 TCAGTGTTTTCG
24363470 GTTGATGCTTTTGTGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
1 GTTGATGCTTTTGTGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
24363535 GAAGTTATCCGATATTGAGACAACTGCGCTCACAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
66 GAAGTTATCCGATATTGAGACAACTGCGCTCACAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
*
24363600 TGCCACCAAAAATGAAAGATCCTGGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
131 TGCCACCAAAAATGGAAGATCCTGGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
24363665 GGTAAAGCTTTATGTGATTTAGGAGCTAGTATTAACCTTATGCCATTGTCAACTTTCAGGAAATT
196 GGTAAAGCTTTATGTGATTTAGGAGCTAGTATTAACCTTATGCCATTGTCAACTTTCAGGAAATT
*
24363730 AAGAATTGGTCATATGAAGCCCATTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
261 AAGAATTGGTCATATGAAGCCCACTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
24363795 TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCGATAAGTTTGTATTCTTAGCCGACTTCATC
326 TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCGATAAGTTTGTATTCTTAGCCGACTTCATC
24363860 ATACTTGATTGTGAAGCTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
391 ATACTTGATTGTGAAGCTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
*
24363925 ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCAATAATTATGAACATGTAACCT
456 ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCCATAATTATGAACATGTAACCT
24363990 TCAGTGTTTTCG
521 TCAGTGTTTTCG
*
24364002 GTTAATGCTTTTGTGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
1 GTTGATGCTTTTGTGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
24364067 GAAGTTATCCGATATTGAGACAACTGCGCTCACAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
66 GAAGTTATCCGATATTGAGACAACTGCGCTCACAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
*
24364132 TACCACCAAAAATGGAAGATCCTGGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
131 TGCCACCAAAAATGGAAGATCCTGGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
* *
24364197 GGTAAAGCTTTGTGTGATTTAGGAGCTAGTATTACCCTTATGCCATTGTCAACTTTCAGGAAATT
196 GGTAAAGCTTTATGTGATTTAGGAGCTAGTATTAACCTTATGCCATTGTCAACTTTCAGGAAATT
24364262 AAGAATTGGTCATATGAAGCCCACTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
261 AAGAATTGGTCATATGAAGCCCACTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
24364327 TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCG-TAAGTTTGTATTCTTAGCCGACTTCATC
326 TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCGATAAGTTTGTATTCTTAGCCGACTTCATC
24364391 ATACTTGATTGTGAAGCTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
391 ATACTTGATTGTGAAGCTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
24364456 ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCCATAATTATGAACATGTAACCT
456 ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCCATAATTATGAACATGTAACCT
*
24364521 TCAGTTTTTTCG
521 TCAGTGTTTTCG
24364533 AAGCATCTCC
Statistics
Matches: 1048, Mismatches: 15, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
531 168 0.16
532 880 0.84
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (532 bp):
GTTGATGCTTTTGTGCAGATTCCCAGCTATGAAAAATTTATGAAGGAGCTACTATCAAAGAAGAA
GAAGTTATCCGATATTGAGACAACTGCGCTCACAGAAGGGTGTAGCGCTGTACTGACAAATAAAC
TGCCACCAAAAATGGAAGATCCTGGCAGTTTCACAATTCCATGCTTCATTGGAAACCATTACTTA
GGTAAAGCTTTATGTGATTTAGGAGCTAGTATTAACCTTATGCCATTGTCAACTTTCAGGAAATT
AAGAATTGGTCATATGAAGCCCACTGTGGAGACATTACAACTTGCGGATAGATCTTTGGCACAAC
TTAAAGGATAGATTAAAGATGTTCTCGTCCATGTCGATAAGTTTGTATTCTTAGCCGACTTCATC
ATACTTGATTGTGAAGCTGATAAGAAAGTGCCCATTATTTTGGGACGACCATTTCTCGCAATGGG
ACGCACACTAATAGATGTTTTCAAGGGTGAGTTGATGATGCGCCATAATTATGAACATGTAACCT
TCAGTGTTTTCG
Found at i:24367730 original size:24 final size:24
Alignment explanation
Indices: 24367701--24367748 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
24367691 TGTCATTGTA
*
24367701 ATTTTTCTGTTAATTT-TTGTCTTTT
1 ATTTTACT-TTAATTTGTT-TCTTTT
24367726 ATTTTACTTTAATTTGTTTCTTT
1 ATTTTACTTTAATTTGTTTCTTT
24367749 AGTTTTTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.15, C:0.08, G:0.06, T:0.71
Consensus pattern (24 bp):
ATTTTACTTTAATTTGTTTCTTTT
Found at i:24369533 original size:3 final size:3
Alignment explanation
Indices: 24369516--24369574 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
24369506 ATTGAAGCAA
* *
24369516 AAG AAG -AG AAA AAG AAG AAG AAG AA- AAGG AA- TAG AAGG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA-G AAG AAG AA-G AAG AAG
24369560 AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG
24369575 TTGTCCCGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
2 5 0.11
3 37 0.79
4 5 0.11
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:24375739 original size:55 final size:55
Alignment explanation
Indices: 24375674--24375784 Score: 134
Period size: 55 Copynumber: 2.0 Consensus size: 55
24375664 GTTTAGTTGC
* * *
24375674 AGTATGCACACG-GTCGGGCACACAAGCCAACACACGATCGTGTGACCCTATTTCG
1 AGTATACACACGAGT-GGGCACACAAGCCAACACACGACCGTGTGACCCAATTTCG
*** **
24375729 AGTATACACACGAGTGGGCACATGTGCTGACACACGACCGTGTGACCCAATTTCG
1 AGTATACACACGAGTGGGCACACAAGCCAACACACGACCGTGTGACCCAATTTCG
24375784 A
1 A
24375785 AACCACACAC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 45 0.96
56 2 0.04
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.19
Consensus pattern (55 bp):
AGTATACACACGAGTGGGCACACAAGCCAACACACGACCGTGTGACCCAATTTCG
Found at i:24375793 original size:55 final size:55
Alignment explanation
Indices: 24375703--24375837 Score: 155
Period size: 55 Copynumber: 2.5 Consensus size: 55
24375693 ACACAAGCCA
* * * ** * *
24375703 ACACACGATCGTGTGACCCTATTTCGAGTATACACACGAGTGGGCACATGTGCTG
1 ACACACGACCGTGTGACCCTATTTCGAGAACACACACGAGCAGGCACACGGGCTG
* *
24375758 ACACACGACCGTGTGACCCAATTTCGA-AACCACACACGGGCAGGCACACGGGCTG
1 ACACACGACCGTGTGACCCTATTTCGAGAA-CACACACGAGCAGGCACACGGGCTG
* *
24375813 GCACACGACCGTGTGCCCCTATTTC
1 ACACACGACCGTGTGACCCTATTTC
24375838 ACAAATTTTC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 1 0.01
55 66 0.99
ACGTcount: A:0.25, C:0.32, G:0.24, T:0.19
Consensus pattern (55 bp):
ACACACGACCGTGTGACCCTATTTCGAGAACACACACGAGCAGGCACACGGGCTG
Found at i:24375807 original size:12 final size:12
Alignment explanation
Indices: 24375790--24375819 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
24375780 TTCGAAACCA
24375790 CACACGGGCAGG
1 CACACGGGCAGG
*
24375802 CACACGGGCTGG
1 CACACGGGCAGG
24375814 CACACG
1 CACACG
24375820 ACCGTGTGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.37, G:0.37, T:0.03
Consensus pattern (12 bp):
CACACGGGCAGG
Found at i:24376501 original size:26 final size:25
Alignment explanation
Indices: 24376466--24376516 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
24376456 AACCCATAGA
*
24376466 ATATATTTTTACATTTTTCATTTTTT
1 ATATATTTTTA-ATTTTTCACTTTTT
*
24376492 ATATATTTTTATTTTTTCACTTTTT
1 ATATATTTTTAATTTTTCACTTTTT
24376517 CTATCATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.52
26 11 0.48
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.71
Consensus pattern (25 bp):
ATATATTTTTAATTTTTCACTTTTT
Found at i:24380861 original size:3 final size:3
Alignment explanation
Indices: 24380855--24380881 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
24380845 ATAACATCAT
24380855 CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA
24380882 TATTCTCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:24387428 original size:18 final size:18
Alignment explanation
Indices: 24387402--24387455 Score: 56
Period size: 18 Copynumber: 3.1 Consensus size: 18
24387392 ATGCATAGCA
* *
24387402 TTTAGTTGTCATTACATT
1 TTTATTTGTCACTACATT
*
24387420 TTTATTTGTCACTGCA-T
1 TTTATTTGTCACTACATT
* *
24387437 TTTATTTGTTAGTACATT
1 TTTATTTGTCACTACATT
24387455 T
1 T
24387456 GCATTGTAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 14 0.48
18 15 0.52
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (18 bp):
TTTATTTGTCACTACATT
Found at i:24387454 original size:17 final size:17
Alignment explanation
Indices: 24387402--24387455 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
24387392 ATGCATAGCA
* *
24387402 TTTAGTTGTCATTACATT
1 TTTATTTGTCACTACA-T
*
24387420 TTTATTTGTCACTGCAT
1 TTTATTTGTCACTACAT
* *
24387437 TTTATTTGTTAGTACAT
1 TTTATTTGTCACTACAT
24387454 TT
1 TT
24387456 GCATTGTAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (17 bp):
TTTATTTGTCACTACAT
Found at i:24397279 original size:24 final size:25
Alignment explanation
Indices: 24397235--24397292 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
24397225 AAAAATCAAA
24397235 TTTTA-TTTATTTCTTTGATATTT-
1 TTTTATTTTATTTCTTTGATATTTC
*
24397258 TTTTATTTTATTT-TGTTTATATTTC
1 TTTTATTTTATTTCT-TTGATATTTC
24397283 TTTTATTTTA
1 TTTTATTTTA
24397293 GAAAGTGGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 6 0.19
24 15 0.48
25 10 0.32
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTATTTTATTTCTTTGATATTTC
Found at i:24400525 original size:16 final size:16
Alignment explanation
Indices: 24400504--24400536 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
24400494 TTCAAAATAA
24400504 AAAATAAAAAATAAAT
1 AAAATAAAAAATAAAT
*
24400520 AAAATATAAAATAAAT
1 AAAATAAAAAATAAAT
24400536 A
1 A
24400537 TATTGTTACA
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:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (16 bp):
AAAATAAAAAATAAAT
Found at i:24400977 original size:23 final size:23
Alignment explanation
Indices: 24400912--24400977 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
24400902 CTTGTAAGAA
* * *
24400912 AAAAAAAAGAAAATTGAGATTGT
1 AAAAAAAAGAAAATTGGGCTAGT
*
24400935 AAAAAAAAGAAAATTAGGCTAGT
1 AAAAAAAAGAAAATTGGGCTAGT
*
24400958 AGAAAAAAGAAAATTGGGCT
1 AAAAAAAAGAAAATTGGGCT
24400978 TGGGTATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.59, C:0.03, G:0.20, T:0.18
Consensus pattern (23 bp):
AAAAAAAAGAAAATTGGGCTAGT
Found at i:24401730 original size:101 final size:101
Alignment explanation
Indices: 24401502--24401749 Score: 245
Period size: 101 Copynumber: 2.5 Consensus size: 101
24401492 ACTTGCAAAT
* ** * * *
24401502 GTAGCCTCAATCCAATCCACTGCAATTTCAGGGATATAGGATTTGATGTTGTAGCTTCATCTTAC
1 GTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCCTAC
* *
24401567 TCCACTACAACTTCAAGGAGACAAAGATTTACTTTC
66 TCCACTACAACTTCAAGGAGACAAAGATTCACCTTC
* * * *
24401603 --ACGACTTTAA-CTCGA-CCTACTACAACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCATC
1 GTA-G-CTTCAATCT-GATCC-ACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATC
* * * *
24401664 CTACTCTACTACAACTTC-AGAGAGATAAGGATTCGCCTTC
62 CTACTCCACTACAACTTCAAG-GAGACAAAGATTCACCTTC
* * *
24401704 GTAGCTTCAATCTGATCCACTGCAACTTTAAGGATATAGGGTTTGG
1 GTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGG
24401750 CTTTAGTCCA
Statistics
Matches: 116, Mismatches: 22, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
99 1 0.01
100 6 0.05
101 103 0.89
102 5 0.04
103 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (101 bp):
GTAGCTTCAATCTGATCCACTGCAACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCCTAC
TCCACTACAACTTCAAGGAGACAAAGATTCACCTTC
Found at i:24401940 original size:50 final size:50
Alignment explanation
Indices: 24401886--24402029 Score: 139
Period size: 50 Copynumber: 2.9 Consensus size: 50
24401876 CAAGAGTACA
* *
24401886 AGATTCGTCC-TTGTAGCTGCAATTTGCCCCTCTACAGCTTTAGGTATATG
1 AGATTCG-CCATTGTAGCTGCAATCTACCCCTCTACAGCTTTAGGTATATG
* * * *
24401936 AGATTCGCCATTGTAGCTTCAATCTACCCGTCTACAGCTTTAGGTGTATA
1 AGATTCGCCATTGTAGCTGCAATCTACCCCTCTACAGCTTTAGGTATATG
* * ** * **
24401986 AAATTCGCTATTGCGGCTTCAAT-TCATTCCTCTACAGCTTTAGG
1 AGATTCGCCATTGTAGCTGCAATCT-ACCCCTCTACAGCTTTAGG
24402030 GGTATAGGAT
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.04
50 76 0.96
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.35
Consensus pattern (50 bp):
AGATTCGCCATTGTAGCTGCAATCTACCCCTCTACAGCTTTAGGTATATG
Found at i:24402035 original size:50 final size:49
Alignment explanation
Indices: 24401913--24402035 Score: 140
Period size: 50 Copynumber: 2.5 Consensus size: 49
24401903 TGCAATTTGC
* * * *
24401913 CCCTCTACAGCTTTAGGTATATGAGATTCGCCATTGTAGCTTCAATCTA
1 CCCTCTACAGCTTTAGGTGTATAAAATTCGCCATTGCAGCTTCAATCTA
* *
24401962 CCCGTCTACAGCTTTAGGTGTATAAAATTCGCTATTGCGGCTTCAAT-TCA
1 CCC-TCTACAGCTTTAGGTGTATAAAATTCGCCATTGCAGCTTCAATCT-A
* *
24402012 TTCCTCTACAGCTTTAGGGGTATA
1 -CCCTCTACAGCTTTAGGTGTATA
24402036 GGATTTGATT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
49 4 0.06
50 57 0.90
51 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (49 bp):
CCCTCTACAGCTTTAGGTGTATAAAATTCGCCATTGCAGCTTCAATCTA
Found at i:24403022 original size:238 final size:238
Alignment explanation
Indices: 24402588--24403063 Score: 765
Period size: 238 Copynumber: 2.0 Consensus size: 238
24402578 TAAACAATGC
* * *
24402588 CTCCAATTTACTTGTAACTTGATTAAGACGTGTTGACCAAACTTATCTAGTTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
* *
24402653 AGAGATTTTTACTCCTAATAAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAA
66 AGAGATTTTTACTCCTAACAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTCAA
*
24402718 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAAATTAAAAAAATACTAATGAATTAAGAGA
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAAACTAAAAAAATACTAATGAATTAAGAGA
*
24402783 AATATTAAAATTTATCTACAACTTATTCGATCTTTTATCATTA
196 AATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATTA
* *
24402826 CTCCGATTTACTTGTAACTTGACTAAGATGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
* * * * *
24402891 AGAGATTTTTACTTCTAACGAGAACCCTAAAAGATACTTAAATAATTCTAGTAAAATACTTTCTA
66 AGAGATTTTTACTCCTAACAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTCAA
** * *
24402956 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAAACCT-AAAAGTTACTAATTAATTCAGAG
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAAA-CTAAAAAAATACTAATGAATTAAGAG
*
24403020 AAATATTAAAATTCATCTACAACTTATTCGATCTTTTATTATTA
195 AAATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATTA
24403064 TTATTATTTT
Statistics
Matches: 218, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
238 217 1.00
239 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (238 bp):
CTCCAATTTACTTGTAACTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
AGAGATTTTTACTCCTAACAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTCAA
TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAAACTAAAAAAATACTAATGAATTAAGAGA
AATATTAAAATTCATCTACAACTTATTCGATCTTTTATCATTA
Found at i:24409877 original size:24 final size:23
Alignment explanation
Indices: 24409837--24409882 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
24409827 TTCTTTTTCT
*
24409837 TTTTCTTTTTTTAAAAATCAAAAG
1 TTTTCTTTTATTAAAAA-CAAAAG
24409861 TTTTCTTTTGATT-AAAACAAAA
1 TTTTCTTTT-ATTAAAAACAAAA
24409883 TCACTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 13 0.65
25 2 0.10
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (23 bp):
TTTTCTTTTATTAAAAACAAAAG
Found at i:24410174 original size:111 final size:112
Alignment explanation
Indices: 24410030--24410257 Score: 343
Period size: 111 Copynumber: 2.0 Consensus size: 112
24410020 GCCTTTCTTT
* *
24410030 TTTTTAATGAAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTTGAAATAGTT-AAAAAAT
1 TTTTTAAAGAAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAT
24410094 CAAAACTTTATTTAAAAATCAAAACTTTTC-AAAAAACTAGATTTTTA
66 CAAAACTTTATTTAAAAATCAAAACTTTTCTAAAAAAC-AGATTTTTA
* *
24410141 TTTTTAAAGAAAATCATTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAA
1 TTTTTAAAGAAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAA
* * ** *
24410206 TCAAAATTTTGTTTAAAAATTTAAACTTTTCTTAAAAACAGATTTTTA
65 TCAAAACTTTATTTAAAAATCAAAACTTTTCTAAAAAACAGATTTTTA
24410254 TTTT
1 TTTT
24410258 AAAAAATGTA
Statistics
Matches: 105, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
111 53 0.50
113 46 0.44
114 6 0.06
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (112 bp):
TTTTTAAAGAAAATCACTACTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAT
CAAAACTTTATTTAAAAATCAAAACTTTTCTAAAAAACAGATTTTTA
Found at i:24410222 original size:133 final size:134
Alignment explanation
Indices: 24410088--24410339 Score: 311
Period size: 133 Copynumber: 1.9 Consensus size: 134
24410078 GAAATAGTTA
**
24410088 AAAAATCAAAACTTTAT-TTAAAAATCA-A-AACT-TTTCAAAAAA-CTAGATTTTTATTTTTAA
1 AAAAATCAAAACTTT-TCTTAAAAA-CAGATAACTATTTCAAAAAATCTA-AACTTT-TTTTTAA
*
24410148 AGAAAATCATTATTTTACTTAAAAATCCAAA-CTTTTATTTCGAAATAG-TTAAAAAAAATCAAA
62 AGAAAATCACTATTTTACTTAAAAAT-CAAAGCTTTTATTTCGAAATAGTTTAAAAAAAATCAAA
24410211 ATTTTGTTT
126 ATTTTGTTT
** *** * *
24410220 AAAAATTTAAACTTTTCTTAAAAACAGATTTTTATTTTAAAAAATGTAAACTTTTTTTTAAAGAA
1 AAAAATCAAAACTTTTCTTAAAAACAGATAACTATTTCAAAAAATCTAAACTTTTTTTTAAAGAA
*
24410285 AATCACTATTTTACTTAAAAATCAAAGCTTTTATTTCGAAATTGTTTAAAAAAAA
66 AATCACTATTTTACTTAAAAATCAAAGCTTTTATTTCGAAATAGTTTAAAAAAAA
24410340 ACCAAAACAT
Statistics
Matches: 102, Mismatches: 11, Indels: 12
0.82 0.09 0.10
Matches are distributed among these distances:
131 3 0.03
132 25 0.25
133 49 0.48
134 23 0.23
135 2 0.02
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (134 bp):
AAAAATCAAAACTTTTCTTAAAAACAGATAACTATTTCAAAAAATCTAAACTTTTTTTTAAAGAA
AATCACTATTTTACTTAAAAATCAAAGCTTTTATTTCGAAATAGTTTAAAAAAAATCAAAATTTT
GTTT
Found at i:24410281 original size:111 final size:110
Alignment explanation
Indices: 24410050--24410263 Score: 297
Period size: 113 Copynumber: 1.9 Consensus size: 110
24410040 AAATCACTAC
*
24410050 TTTACTTAAAAATCCAAACTTTTATTTTGAAATAGTTAAAAAATCAAAACTTTATTTAAAAATCA
1 TTTA-TTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAATCAAAACTTTATTTAAAAATCA
* *
24410115 AAACTTTTCAAAAAACTAGATTTTTATTTTTAAAGAAAATCATTAT
65 AAACTTTTCAAAAAACTAGATTTTTATTTTTAAAAAAAAACATTAT
* *
24410161 TTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAATTTTGTTTAAAAAT
1 TTTA-TTAAAAATCCAAACTTTTATTTCGAAATAGTT--AAAAAATCAAAACTTTATTTAAAAAT
** *
24410226 TTAAACTTTTCTTAAAAAC-AGATTTTTA-TTTTAAAAAA
63 CAAAACTTTTC-AAAAAACTAGATTTTTATTTTTAAAAAA
24410264 TGTAAACTTT
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
111 36 0.39
112 9 0.10
113 42 0.45
114 6 0.06
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (110 bp):
TTTATTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAATCAAAACTTTATTTAAAAATCAA
AACTTTTCAAAAAACTAGATTTTTATTTTTAAAAAAAAACATTAT
Found at i:24411204 original size:42 final size:41
Alignment explanation
Indices: 24411177--24411741 Score: 671
Period size: 42 Copynumber: 13.4 Consensus size: 41
24411167 TTTATGCTTA
* ** *
24411177 GGCCTCTAAGTGCAATGAAAAGTAAATGGACCTTTACACCTA
1 GGCCTCTAA-TGCAATGAAAAGTAAATGGGCCTCCACACCTG
* ****
24411219 GGCCTCTGAATGTAATGAAAAGTAAACAAACCTCCACACCTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * * **
24411261 GGACTCTAAATGCCACGAAAAGTAAATGGGCCTTTACACCTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * *
24411303 GGCCTCTAAATGTAAGGAAAAGTAAATGGGCCTCCACACTTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * *
24411345 GGCCTCTAAATGTAATGAAAGGTAAATGGGCCTCCACACTTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
*
24411387 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTA
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
*
24411429 GGCCTCTGAATGCAATGAAAAGTAAATGGGCCTTCACACCTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* *
24411471 GGCCTCTGAATGCGATGAAAAGTAAATGGGCCTTCACACCTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* *
24411513 GGCCTCTGAATGCGATGAAAAGTAAATGGGCCTCCACACTTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* *
24411555 GGCCTCTGAATGCGATGAAAAGTAAATGGGCCACCACACCTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * *
24411597 GGCCTCTGAATGCAATGAAAAGTAAATGGACCTCCACACTTA
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* *
24411639 GGCCTCTAAATTCAATGAAAAGTAAATGGACCTCCACACCTG
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * *
24411681 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAGCTT
1 GGCCTCT-AATGCAATGAAAAGTAAATGGGCCTCCACACCTG
*
24411723 GGCCTCAAAATGCAATGAA
1 GGCCTC-TAATGCAATGAA
24411742 TGCTTTCCTT
Statistics
Matches: 469, Mismatches: 52, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
42 467 1.00
43 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
GGCCTCTAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
Found at i:24411382 original size:126 final size:126
Alignment explanation
Indices: 24411177--24411741 Score: 743
Period size: 126 Copynumber: 4.5 Consensus size: 126
24411167 TTTATGCTTA
* * ** * *
24411177 GGCCTCTAAGTGCAATGAAAAGTAAATGGACCTTTACACCTAGGCCTCTGAATGTAATGAAAAGT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAGT
*** * * * **
24411242 AAACAAACCTCCACACCTGGGACTCTAAATGCCACGAAAAGTAAATGGGCCTTTACACCTG
66 AAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * * * * *
24411303 GGCCTCTAAATGTAAGGAAAAGTAAATGGGCCTCCACACTTGGGCCTCTAAATGTAATGAAAGGT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAGT
* * *
24411368 AAATGGGCCTCCACACTTGGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTA
66 AAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * *
24411429 GGCCTCTGAATGCAATGAAAAGTAAATGGGCCTTCACACCTGGGCCTCTGAATGCGATGAAAAGT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAGT
* * * * *
24411494 AAATGGGCCTTCACACCTGGGCCTCTGAATGCGATGAAAAGTAAATGGGCCTCCACACTTG
66 AAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * *
24411555 GGCCTCTGAATGCGATGAAAAGTAAATGGGCCACCACACCTGGGCCTCTGAATGCAATGAAAAGT
1 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAGT
* * * *
24411620 AAATGGACCTCCACACTTAGGCCTCTAAATTCAATGAAAAGTAAATGGACCTCCACACCTG
66 AAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
* * * **
24411681 GGCCTCTAAATGCAATGAAAAGTAAATGGACCTCCACAGCTTGGCCTCAAAATGCAATGAA
1 GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAA
24411742 TGCTTTCCTT
Statistics
Matches: 382, Mismatches: 57, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
126 382 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (126 bp):
GGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTGGGCCTCTGAATGCAATGAAAAGT
AAATGGACCTCCACACCTGGGCCTCTAAATGCAATGAAAAGTAAATGGGCCTCCACACCTG
Found at i:24412156 original size:10 final size:9
Alignment explanation
Indices: 24412143--24412194 Score: 54
Period size: 10 Copynumber: 5.7 Consensus size: 9
24412133 TTGCTCTTTC
24412143 TTTCTATTTT
1 TTTCT-TTTT
24412153 TTTC-TTTT
1 TTTCTTTTT
24412161 TTTC-TTTT
1 TTTCTTTTT
24412169 TTTCTTCTTT
1 TTTCTT-TTT
*
24412179 TTTGTATTTT
1 TTTCT-TTTT
24412189 TTTCTT
1 TTTCTT
24412195 GATTTAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
8 16 0.43
9 2 0.05
10 18 0.49
11 1 0.03
ACGTcount: A:0.04, C:0.12, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:24412162 original size:8 final size:8
Alignment explanation
Indices: 24412149--24412180 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
24412139 TTTCTTTCTA
24412149 TTTTTTTC
1 TTTTTTTC
24412157 TTTTTTTC
1 TTTTTTTC
24412165 TTTTTTTC
1 TTTTTTTC
24412173 TTCTTTTT
1 TT-TTTTT
24412181 TGTATTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:24412166 original size:26 final size:28
Alignment explanation
Indices: 24412137--24412194 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
24412127 TTTCTCTTGC
*
24412137 TCTTTCTTTC-TATTTTTT-TCTTTTTT
1 TCTTTCTTTCTTATTTTTTGTATTTTTT
* *
24412163 TCTTTTTTTCTTCTTTTTTGTATTTTTT
1 TCTTTCTTTCTTATTTTTTGTATTTTTT
24412191 TCTT
1 TCTT
24412195 GATTTAAACA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
26 9 0.33
27 7 0.26
28 11 0.41
ACGTcount: A:0.03, C:0.14, G:0.02, T:0.81
Consensus pattern (28 bp):
TCTTTCTTTCTTATTTTTTGTATTTTTT
Found at i:24415307 original size:17 final size:17
Alignment explanation
Indices: 24415285--24415322 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
24415275 ACGAGCAACT
24415285 CTTTCTGACAATGATGG
1 CTTTCTGACAATGATGG
24415302 CTTTCTGACAATGATGG
1 CTTTCTGACAATGATGG
24415319 CTTT
1 CTTT
24415323 TTGAATTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
CTTTCTGACAATGATGG
Found at i:24420288 original size:8 final size:8
Alignment explanation
Indices: 24420277--24420326 Score: 64
Period size: 8 Copynumber: 6.2 Consensus size: 8
24420267 TAAATAAACA
*
24420277 AATGAGCG
1 AATGAGTG
24420285 AATGAGTG
1 AATGAGTG
*
24420293 AATGACTG
1 AATGAGTG
*
24420301 AATGAATG
1 AATGAGTG
24420309 AATGAGTG
1 AATGAGTG
*
24420317 AATGAATG
1 AATGAGTG
24420325 AA
1 AA
24420327 ATTGGGGCAC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.44, C:0.04, G:0.30, T:0.22
Consensus pattern (8 bp):
AATGAGTG
Found at i:24420308 original size:4 final size:4
Alignment explanation
Indices: 24420284--24420326 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
24420274 ACAAATGAGC
* * *
24420284 GAAT GAGT GAAT GACT GAAT GAAT GAAT GAGT GAAT GAAT GAA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
24420327 ATTGGGGCAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.23
Consensus pattern (4 bp):
GAAT
Found at i:24424066 original size:237 final size:233
Alignment explanation
Indices: 24423621--24424090 Score: 742
Period size: 237 Copynumber: 2.0 Consensus size: 233
24423611 TAAACAATGC
* *
24423621 CTCCAATTTACTTGTAACTTGACTAAGACGCACCAAACTTATCTAATTTAAAACTTAAATTAGAT
1 CTCCAATTTACTTGTAACTTGACTAAGACGCACCAAACTTATCTAATTTAAAACTTAAATTAAAG
* **
24423686 ATTTTTACTCCTAATAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATATTTTAAATTCT
66 ATTTTTACTCCTAACAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTAAATTCT
* *
24423751 TAAAATTAATTCTATTTTAAAATCCTAAAAAATCTAAAAAAATACTAATGAATTAAGAGAAATAT
131 TAAAATTAATTCTATTTTAAAATCCTAAAAAAACCAAAAAAATACTAATGAATTAAGAGAAATAT
*
24423816 TAAAATTCATCTACAACTTATTCTATCTTTTATCATTA
196 TAAAATTCATCTACAACTTATTCAATCTTTTATCATTA
* *
24423854 CTCCGATTTACTTGTAATTTGACTAAGACGTGTTCACCAAACTTATCTAATTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGAC--G--CACCAAACTTATCTAATTTAAAACTTAAATT
* * * *
24423919 AAAGATTTTTACTTCTAACGAGAACCCTAAAAGATACTTAAATAATTCTAGTAAAATACCTTCAA
62 AAAGATTTTTACTCCTAACAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTAAA
* * **
24423984 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCCAAAAGTTACTAATGAATTAAGAGAA
127 TTCTTAAAATTAATTCTATTTTAAAATCCTAAAAAAACCAAAAAAATACTAATGAATTAAGAGAA
24424049 ATATTAAAATTCATCTACAACTTATTCAATCTTTTATCATTA
192 ATATTAAAATTCATCTACAACTTATTCAATCTTTTATCATTA
24424091 TTATTATTTT
Statistics
Matches: 215, Mismatches: 18, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
233 27 0.13
235 1 0.00
237 187 0.87
ACGTcount: A:0.43, C:0.16, G:0.06, T:0.36
Consensus pattern (233 bp):
CTCCAATTTACTTGTAACTTGACTAAGACGCACCAAACTTATCTAATTTAAAACTTAAATTAAAG
ATTTTTACTCCTAACAAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTAAATTCT
TAAAATTAATTCTATTTTAAAATCCTAAAAAAACCAAAAAAATACTAATGAATTAAGAGAAATAT
TAAAATTCATCTACAACTTATTCAATCTTTTATCATTA
Found at i:24425786 original size:137 final size:137
Alignment explanation
Indices: 24425374--24425763 Score: 608
Period size: 137 Copynumber: 2.9 Consensus size: 137
24425364 TTTAAAATAA
* * * *
24425374 CTAAAAAATACATTTTTATTTTTAAAAATATAAACTCTCT-TTTTTTAAAGAAAATCACTATTTT
1 CTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTAAAGAAAATCACTATTTT
24425438 ACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTTA
66 ACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTTA
24425503 AACTTTT
131 AACTTTT
* * * *
24425510 CTAAAAAACAGATTTTT-GTTTTAAAAATTCTAAACTTTCTCATTTTTAAAGAAAATTATTATTT
1 CTAAAAAACAGATTTTTATTTTTAAAAA-TCTAAACTTTCTCTTTTTTAAAGAAAATCACTATTT
*
24425574 TACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAAATCAAAACTTTGTTTAAAAATT
65 TACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAAATCAAAACTTTATTTAAAAATT
24425639 TAAACTTTT
129 TAAACTTTT
24425648 CT-AAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTAAAGAAAATCACTATTTT
1 CTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTAAAGAAAATCACTATTTT
* * * *
24425712 ACTTAAAAAT-CAAAGTTTTTATTTCGAAATTGTTTAAAAAAACCAAAACTTT
66 ACTTAAAAATCCAAA-CTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTT
24425764 TTCCAAAATC
Statistics
Matches: 232, Mismatches: 17, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
135 9 0.04
136 45 0.19
137 130 0.56
138 48 0.21
ACGTcount: A:0.44, C:0.11, G:0.04, T:0.41
Consensus pattern (137 bp):
CTAAAAAACAGATTTTTATTTTTAAAAATCTAAACTTTCTCTTTTTTAAAGAAAATCACTATTTT
ACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTTTATTTAAAAATTTA
AACTTTT
Found at i:24426084 original size:13 final size:14
Alignment explanation
Indices: 24426061--24426098 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
24426051 TTCATTAATC
24426061 TTGTTTATTTGTCA
1 TTGTTTATTTGTCA
24426075 TTGTTT-TTTGTCA
1 TTGTTTATTTGTCA
24426088 -TGTTTCATTTG
1 TTGTTT-ATTTG
24426099 ATCTTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 10 0.45
ACGTcount: A:0.11, C:0.08, G:0.16, T:0.66
Consensus pattern (14 bp):
TTGTTTATTTGTCA
Found at i:24426252 original size:11 final size:11
Alignment explanation
Indices: 24426238--24426262 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
24426228 GCCCAAAAAG
24426238 AAAGAAAAATA
1 AAAGAAAAATA
24426249 AAAGAAAAATA
1 AAAGAAAAATA
24426260 AAA
1 AAA
24426263 ATCTCTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAGAAAAATA
Found at i:24440145 original size:16 final size:15
Alignment explanation
Indices: 24440117--24440156 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
24440107 TCGAAATAAA
24440117 AAAATAAAT-AATAT
1 AAAATAAATAAATAT
24440131 AAAATAAATAAAATAT
1 AAAATAAAT-AAATAT
24440147 AAAATAAATA
1 AAAATAAATA
24440157 TATTGTAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 9 0.38
15 1 0.04
16 14 0.58
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AAAATAAATAAATAT
Found at i:24440556 original size:24 final size:23
Alignment explanation
Indices: 24440519--24440570 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
24440509 TTAAAATTTG
*
24440519 GGCTTGTAAAAAAAAGGAAAATTA
1 GGCTTCTAAAAAAAA-GAAAATTA
* * *
24440543 GGCTTCTAAGAAAAATAAAATTG
1 GGCTTCTAAAAAAAAGAAAATTA
24440566 GGCTT
1 GGCTT
24440571 GGGTATTCTG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (23 bp):
GGCTTCTAAAAAAAAGAAAATTA
Found at i:24442395 original size:17 final size:18
Alignment explanation
Indices: 24442354--24442392 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
24442344 ATTGCTTCTC
24442354 AAAAGCACTTTAGAGACA
1 AAAAGCACTTTAGAGACA
* *
24442372 AAAAGCACTTTTGAGATA
1 AAAAGCACTTTAGAGACA
24442390 AAA
1 AAA
24442393 GCATCACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.15, T:0.21
Consensus pattern (18 bp):
AAAAGCACTTTAGAGACA
Found at i:24442989 original size:24 final size:24
Alignment explanation
Indices: 24442962--24443015 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
24442952 ATGCACTTCT
*
24442962 ACTTATACACGTTGATGCT-TATCA
1 ACTTATACAAGTTGATGCTAT-TCA
* *
24442986 ACTTATATAAGTTTATGCTATTCA
1 ACTTATACAAGTTGATGCTATTCA
24443010 ACTTAT
1 ACTTAT
24443016 TTATGTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.31, C:0.17, G:0.09, T:0.43
Consensus pattern (24 bp):
ACTTATACAAGTTGATGCTATTCA
Found at i:24443038 original size:24 final size:24
Alignment explanation
Indices: 24442987--24443336 Score: 274
Period size: 24 Copynumber: 14.6 Consensus size: 24
24442977 TGCTTATCAA
* * ** *
24442987 CTTATATAAGTTTATGCTATTCAA
1 CTTATATACGTTTACGCTCGTCAG
* * *
24443011 CTTATTTATGTTTACACTCGTCAG
1 CTTATATACGTTTACGCTCGTCAG
*
24443035 CTTATATACTTTTACGCTCGTCAG
1 CTTATATACGTTTACGCTCGTCAG
* * *
24443059 CTTATATACATTTACACTCATCAG
1 CTTATATACGTTTACGCTCGTCAG
** * *
24443083 CTTGCACACATTTACGCTCGTCAAG
1 CTTATATACGTTTACGCTCGTC-AG
* *
24443108 -TTATATACGTTTATGCTTGTCAG
1 CTTATATACGTTTACGCTCGTCAG
** * * *
24443131 CTTGCACACGTTTACACTCGTCAA
1 CTTATATACGTTTACGCTCGTCAG
*
24443155 CTTATATATGTTTACGCTCGTCAG
1 CTTATATACGTTTACGCTCGTCAG
* * * * *
24443179 CTTGTACACATTTACACTTGTC-G
1 CTTATATACGTTTACGCTCGTCAG
*
24443202 ACTTATATACGTTTACGCTCGTTAG
1 -CTTATATACGTTTACGCTCGTCAG
* * *
24443227 CTTATATACGTTTGCGTTCGTTAG
1 CTTATATACGTTTACGCTCGTCAG
*
24443251 CTTATGTACGTTTACGCTCGTCAG
1 CTTATATACGTTTACGCTCGTCAG
* * *
24443275 CTTGA-ACACGTTTATGCTCTTCAG
1 CTT-ATATACGTTTACGCTCGTCAG
** * *
24443299 CTTGCACACGTTTACGCTCGTCAA
1 CTTATATACGTTTACGCTCGTCAG
*
24443323 CTTATATACATTTA
1 CTTATATACGTTTA
24443337 TGTAATTCAA
Statistics
Matches: 252, Mismatches: 68, Indels: 12
0.76 0.20 0.04
Matches are distributed among these distances:
23 3 0.01
24 245 0.97
25 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.14, T:0.39
Consensus pattern (24 bp):
CTTATATACGTTTACGCTCGTCAG
Found at i:24443151 original size:96 final size:96
Alignment explanation
Indices: 24443007--24443326 Score: 316
Period size: 96 Copynumber: 3.3 Consensus size: 96
24442997 TTTATGCTAT
* * * * * * *
24443007 TCAACTTATTTATGTTTACACTCGTCAGCTTATATACTTTTACGCTCGTCAGCTTATATACATTT
1 TCAACTTATATACGTTTACGCTCGTCAGCTTACACACGTTTACGCTCGTCAGCTTATATACGTTT
* * *
24443072 ACACTCATCAGCTTGCACACATTTACGCTCG
66 ACGCTCGTCAGCTTGAACACATTTACGCTCG
* * * * * * *
24443103 TCAAGTTATATACGTTTATGCTTGTCAGCTTGCACACGTTTACACTCGTCAACTTATATATGTTT
1 TCAACTTATATACGTTTACGCTCGTCAGCTTACACACGTTTACGCTCGTCAGCTTATATACGTTT
* * *
24443168 ACGCTCGTCAGCTTGTACACATTTACACTTG
66 ACGCTCGTCAGCTTGAACACATTTACGCTCG
* * * * * * * *
24443199 TCGACTTATATACGTTTACGCTCGTTAGCTTATATACGTTTGCGTTCGTTAGCTTATGTACGTTT
1 TCAACTTATATACGTTTACGCTCGTCAGCTTACACACGTTTACGCTCGTCAGCTTATATACGTTT
* * *
24443264 ACGCTCGTCAGCTTGAACACGTTTATGCTCT
66 ACGCTCGTCAGCTTGAACACATTTACGCTCG
* ** * *
24443295 TCAGCTTGCACACGTTTACGCTCGTCAACTTA
1 TCAACTTATATACGTTTACGCTCGTCAGCTTA
24443327 TATACATTTA
Statistics
Matches: 177, Mismatches: 47, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
96 177 1.00
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (96 bp):
TCAACTTATATACGTTTACGCTCGTCAGCTTACACACGTTTACGCTCGTCAGCTTATATACGTTT
ACGCTCGTCAGCTTGAACACATTTACGCTCG
Found at i:24445492 original size:16 final size:15
Alignment explanation
Indices: 24445461--24445501 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 15
24445451 AGGCAACTCA
24445461 AATTT-ATTTTAATT
1 AATTTAATTTTAATT
24445475 AATTTAATTTTGAATT
1 AATTTAATTTT-AATT
24445491 AAGTTTAATTT
1 AA-TTTAATTT
24445502 ATGTTGAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.21
15 5 0.21
16 6 0.25
17 8 0.33
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (15 bp):
AATTTAATTTTAATT
Found at i:24457302 original size:18 final size:18
Alignment explanation
Indices: 24457279--24457329 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 18
24457269 TCACTTGAAA
24457279 AAAGAAAATGAGAAAAG-G
1 AAAGAAAAT-AGAAAAGAG
24457297 AAAGAAAA-AGAAAAGAG
1 AAAGAAAATAGAAAAGAG
*
24457314 AAAAAAAATAAGAAAA
1 AAAGAAAAT-AGAAAA
24457330 AAATGTTTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.24
17 8 0.28
18 8 0.28
19 6 0.21
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (18 bp):
AAAGAAAATAGAAAAGAG
Found at i:24457326 original size:25 final size:24
Alignment explanation
Indices: 24457277--24457330 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
24457267 AGTCACTTGA
**
24457277 AAAAAGAAAATGAGAAAAGGAAAG
1 AAAAAGAAAATGAGAAAAAAAAAG
24457301 AAAAAGAAAA-GAGAAAAAAAATAAG
1 AAAAAGAAAATGAG-AAAAAAA-AAG
24457326 AAAAA
1 AAAAA
24457331 AATGTTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 3 0.12
24 15 0.58
25 8 0.31
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.04
Consensus pattern (24 bp):
AAAAAGAAAATGAGAAAAAAAAAG
Found at i:24458856 original size:22 final size:22
Alignment explanation
Indices: 24458831--24458876 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
24458821 ACAATTTGAT
*
24458831 TTACT-TTCAGTTGCACTGACAA
1 TTACTCTTCA-TTACACTGACAA
*
24458853 TTACTCTTCATTACATTGACAA
1 TTACTCTTCATTACACTGACAA
24458875 TT
1 TT
24458877 TTGACTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (22 bp):
TTACTCTTCATTACACTGACAA
Found at i:24462190 original size:24 final size:25
Alignment explanation
Indices: 24462148--24462200 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
24462138 TAACTATTTT
* * *
24462148 ATATATATTTTAGATTTTTTTTTAA
1 ATATAAATTTAAGATTTTTTTATAA
24462173 ATATAAATTTAAGA-TTTTTTATAA
1 ATATAAATTTAAGATTTTTTTATAA
24462197 ATAT
1 ATAT
24462201 TTTGAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (25 bp):
ATATAAATTTAAGATTTTTTTATAA
Found at i:24462220 original size:19 final size:20
Alignment explanation
Indices: 24462188--24462244 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
24462178 AATTTAAGAT
*
24462188 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
24462207 -TTTTAAAAATTATTTTCAA
1 TTTTTAAAAATTATTTTGAA
24462226 TTTTTAAAAATTATTTTGA
1 TTTTTAAAAATTATTTTGA
24462245 TTGTTTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
20 17 0.52
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:24462496 original size:19 final size:20
Alignment explanation
Indices: 24462464--24462520 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
24462454 AATTTAAGAT
*
24462464 TTTTTATAAA-TATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
24462483 -TTTTAAAAATTATTTTCAA
1 TTTTTAAAAATTATTTTGAA
24462502 TTTTTAAAAATTATTTTGA
1 TTTTTAAAAATTATTTTGA
24462521 TTGTTTTGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.24
19 8 0.24
20 17 0.52
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:24462548 original size:276 final size:276
Alignment explanation
Indices: 24462055--24462596 Score: 1048
Period size: 276 Copynumber: 2.0 Consensus size: 276
24462045 ATAATAAAAA
24462055 TATGATAATTTAGTACGATAAACTTGAATCATCAATAAATTATTTAAATTCCAAAATTATTATTT
1 TATGATAATTTAGTACGATAAACTTGAATCATCAATAAATTATTTAAATTCCAAAATTATTATTT
** *
24462120 TATAAAATTTTAAATTTTTAACTATTTTATATATATTTTAGATTTTTTTTTAAATATAAATTTAA
66 TATAAAATTTTAAATTTTTAACTATTTTATATATATTTTAGATTTTTTTAAAAATACAAATTTAA
24462185 GATTTTTTATAAATATTTTGAATTTTAAAAATTATTTTCAATTTTTAAAAATTATTTTGATTGTT
131 GATTTTTTATAAATATTTTGAATTTTAAAAATTATTTTCAATTTTTAAAAATTATTTTGATTGTT
*
24462250 TTGTAATTTTTTGTAAGAGAAAAATCAATTTGATCATTTTCAAAATTGACAGGGACCAAAAGGTA
196 TTGTAATTTTTTGTAAGAGAAAAACCAATTTGATCATTTTCAAAATTGACAGGGACCAAAAGGTA
24462315 TTTATACTTTTATGTT
261 TTTATACTTTTATGTT
24462331 TATGATAATTTAGTACGATAAACTTGAATCATCAATAAATTATTTAAATTCCAAAATTATTATTT
1 TATGATAATTTAGTACGATAAACTTGAATCATCAATAAATTATTTAAATTCCAAAATTATTATTT
24462396 TATAAAATTTTAAATTTTTAACTATTTTATATATATTTTAGATTTTTTTAAAAATACAAATTTAA
66 TATAAAATTTTAAATTTTTAACTATTTTATATATATTTTAGATTTTTTTAAAAATACAAATTTAA
24462461 GATTTTTTATAAATATTTTGAATTTTAAAAATTATTTTCAATTTTTAAAAATTATTTTGATTGTT
131 GATTTTTTATAAATATTTTGAATTTTAAAAATTATTTTCAATTTTTAAAAATTATTTTGATTGTT
24462526 TTGTAATTTTTTGTAAGAGAAAAACCAATTTGATCATTTTCAAAATTGACAGGGACCAAAAGGTA
196 TTGTAATTTTTTGTAAGAGAAAAACCAATTTGATCATTTTCAAAATTGACAGGGACCAAAAGGTA
24462591 TTTATA
261 TTTATA
24462597 TTACTATGTT
Statistics
Matches: 262, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
276 262 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (276 bp):
TATGATAATTTAGTACGATAAACTTGAATCATCAATAAATTATTTAAATTCCAAAATTATTATTT
TATAAAATTTTAAATTTTTAACTATTTTATATATATTTTAGATTTTTTTAAAAATACAAATTTAA
GATTTTTTATAAATATTTTGAATTTTAAAAATTATTTTCAATTTTTAAAAATTATTTTGATTGTT
TTGTAATTTTTTGTAAGAGAAAAACCAATTTGATCATTTTCAAAATTGACAGGGACCAAAAGGTA
TTTATACTTTTATGTT
Found at i:24463982 original size:21 final size:22
Alignment explanation
Indices: 24463946--24463986 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24463936 CAGGAAATGA
*
24463946 TTTTTAAATTATTAAAATTATT
1 TTTTTAAAATATTAAAATTATT
24463968 TTTTTAAAATA-TAAAATTA
1 TTTTTAAAATATTAAAATTA
24463987 CTAAAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTTAAAATATTAAAATTATT
Found at i:24464000 original size:29 final size:30
Alignment explanation
Indices: 24463951--24464021 Score: 126
Period size: 29 Copynumber: 2.4 Consensus size: 30
24463941 AATGATTTTT
24463951 AAATTATTAAAATTATTTTTTTAAAATATA
1 AAATTATTAAAATTATTTTTTTAAAATATA
*
24463981 AAATTACTAAAATTA-TTTTTTAAAATATA
1 AAATTATTAAAATTATTTTTTTAAAATATA
24464010 AAATTATTAAAA
1 AAATTATTAAAA
24464022 CAATCATCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 25 0.64
30 14 0.36
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (30 bp):
AAATTATTAAAATTATTTTTTTAAAATATA
Found at i:24464021 original size:16 final size:16
Alignment explanation
Indices: 24463971--24464021 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 16
24463961 AATTATTTTT
24463971 TTAAAATATAAAATTA
1 TTAAAATATAAAATTA
* * *
24463987 CTAAAAT-T--ATTTT
1 TTAAAATATAAAATTA
24464000 TTAAAATATAAAATTA
1 TTAAAATATAAAATTA
24464016 TTAAAA
1 TTAAAA
24464022 CAATCATCAT
Statistics
Matches: 26, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 9 0.35
14 1 0.04
15 1 0.04
16 15 0.58
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATATAAAATTA
Found at i:24465698 original size:18 final size:18
Alignment explanation
Indices: 24465669--24465713 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
24465659 CTCTTGCGAT
*
24465669 CCAGTAATGCTCTAACAAG
1 CCAGT-ATGCTCAAACAAG
*
24465688 CCAGTATGCTCAAACGAG
1 CCAGTATGCTCAAACAAG
*
24465706 TCAGTATG
1 CCAGTATG
24465714 TTAATCCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 18 0.78
19 5 0.22
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (18 bp):
CCAGTATGCTCAAACAAG
Found at i:24471817 original size:24 final size:25
Alignment explanation
Indices: 24471790--24471843 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
24471780 CTAATAACAG
*
24471790 AATAATCTTAAAACAT-A-TATCTTT
1 AATAAT-TTAAAACATAATTATCTAT
*
24471814 AAT-ATTTAAAAGATAATTATCTAT
1 AATAATTTAAAACATAATTATCTAT
24471838 AATAAT
1 AATAAT
24471844 GCAAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
22 8 0.32
23 3 0.12
24 12 0.48
25 2 0.08
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (25 bp):
AATAATTTAAAACATAATTATCTAT
Found at i:24473547 original size:19 final size:21
Alignment explanation
Indices: 24473523--24473579 Score: 73
Period size: 19 Copynumber: 2.7 Consensus size: 21
24473513 ATGCATTGAG
24473523 TTTAATTTCATAATATT-TA-
1 TTTAATTTCATAATATTATAT
*
24473542 TTTAATTTAATAATATTATAT
1 TTTAATTTCATAATATTATAT
24473563 TTTAATTATACATAATA
1 TTTAATT-T-CATAATA
24473580 AGGGCTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 16 0.50
20 2 0.06
21 7 0.22
22 1 0.03
23 6 0.19
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
TTTAATTTCATAATATTATAT
Found at i:24496337 original size:23 final size:22
Alignment explanation
Indices: 24496306--24496349 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
24496296 AAAGAAATAA
*
24496306 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
24496328 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
24496350 GAAATATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:24528578 original size:29 final size:29
Alignment explanation
Indices: 24528532--24528649 Score: 137
Period size: 29 Copynumber: 4.1 Consensus size: 29
24528522 CATTTACCTC
* * *
24528532 TGTGGTTGAATCTATTATATGTGAGCCTT
1 TGTGGCTGAATCTGTTATATGAGAGCCTT
*
24528561 TGTGGCGGAATCTGTTATATGAGAGCCTT
1 TGTGGCTGAATCTGTTATATGAGAGCCTT
* *
24528590 TGTGGCTGAATCTGTTAAATGAGAACCTT
1 TGTGGCTGAATCTGTTATATGAGAGCCTT
** * * *
24528619 TGTAACTAAATCTGTTATATGTGGGCCTT
1 TGTGGCTGAATCTGTTATATGAGAGCCTT
24528648 TG
1 TG
24528650 CGATTGATTT
Statistics
Matches: 75, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 75 1.00
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (29 bp):
TGTGGCTGAATCTGTTATATGAGAGCCTT
Found at i:24530452 original size:56 final size:57
Alignment explanation
Indices: 24530315--24530452 Score: 181
Period size: 56 Copynumber: 2.5 Consensus size: 57
24530305 TTGTGGCATA
* ** *
24530315 ATTAAAGGAAACCTTTGTGGTTGA-TACTGTTCAAAGAAGCCTTTTTGGATGATTCT
1 ATTAAAGGAAACCTTTGTGGTTGATTACTGTTAAAAGAAGCCTTAGTAGATGATTCT
* * *
24530371 GTTAAAGGAAACCTTTGTGATTGATTA-TGTTAAAAGAAGCCTTAGTAGATGGTTCT
1 ATTAAAGGAAACCTTTGTGGTTGATTACTGTTAAAAGAAGCCTTAGTAGATGATTCT
* *
24530427 ATTAAAGGAAGCCTTTGTGGCTGATT
1 ATTAAAGGAAACCTTTGTGGTTGATT
24530453 CTATAAAGGG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
56 68 0.97
57 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.23, T:0.36
Consensus pattern (57 bp):
ATTAAAGGAAACCTTTGTGGTTGATTACTGTTAAAAGAAGCCTTAGTAGATGATTCT
Found at i:24530454 original size:28 final size:28
Alignment explanation
Indices: 24530315--24530473 Score: 135
Period size: 28 Copynumber: 5.7 Consensus size: 28
24530305 TTGTGGCATA
* * *
24530315 ATTAAAGGAAACCTTTGTGGTTGATACT
1 ATTAAAGGAAGCCTTTGTGGATGATTCT
* *
24530343 GTTCAAA-GAAGCCTTTTTGGATGATTCT
1 ATT-AAAGGAAGCCTTTGTGGATGATTCT
* * *
24530371 GTTAAAGGAAACCTTTGT-GATTGATTAT
1 ATTAAAGGAAGCCTTTGTGGA-TGATTCT
* * * * *
24530399 GTTAAAAGAAGCCTTAGTAGATGGTTCT
1 ATTAAAGGAAGCCTTTGTGGATGATTCT
*
24530427 ATTAAAGGAAGCCTTTGTGGCTGATTCT
1 ATTAAAGGAAGCCTTTGTGGATGATTCT
**
24530455 A-TAAAGGGTGCCTTTGTGG
1 ATTAAAGGAAGCCTTTGTGG
24530474 CGTAAATTAT
Statistics
Matches: 106, Mismatches: 21, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
27 21 0.20
28 80 0.75
29 5 0.05
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (28 bp):
ATTAAAGGAAGCCTTTGTGGATGATTCT
Found at i:24533170 original size:21 final size:21
Alignment explanation
Indices: 24533146--24533185 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
24533136 CAAGTCATCG
24533146 AAAAT-AAAGCAGAAACAAATC
1 AAAATGAAAG-AGAAACAAATC
*
24533167 AAAATGAAAGAGCAACAAA
1 AAAATGAAAGAGAAACAAA
24533186 AGAACAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.68, C:0.12, G:0.12, T:0.07
Consensus pattern (21 bp):
AAAATGAAAGAGAAACAAATC
Found at i:24533237 original size:12 final size:12
Alignment explanation
Indices: 24533220--24533246 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
24533210 CAAAGCATGC
24533220 CAAGTGTTTGAG
1 CAAGTGTTTGAG
24533232 CAAGTGTTTGAG
1 CAAGTGTTTGAG
24533244 CAA
1 CAA
24533247 ATCTTACTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.30
Consensus pattern (12 bp):
CAAGTGTTTGAG
Found at i:24537553 original size:17 final size:17
Alignment explanation
Indices: 24537531--24537566 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24537521 GTATATGTCG
24537531 ATTCTAGAAAATAATTA
1 ATTCTAGAAAATAATTA
24537548 ATTCTAGAAAATAATTA
1 ATTCTAGAAAATAATTA
24537565 AT
1 AT
24537567 GTTTTAGGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (17 bp):
ATTCTAGAAAATAATTA
Found at i:24540202 original size:11 final size:11
Alignment explanation
Indices: 24540186--24540226 Score: 64
Period size: 11 Copynumber: 3.5 Consensus size: 11
24540176 GCTCTCTAGT
24540186 TTTCCCTTCCA
1 TTTCCCTTCCA
24540197 TTTCCCTTCCA
1 TTTCCCTTCCA
24540208 TTTCCCTTGCCAA
1 TTTCCCTT-CC-A
24540221 TTTCCC
1 TTTCCC
24540227 CTCTTGGGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 19 0.68
12 2 0.07
13 7 0.25
ACGTcount: A:0.10, C:0.44, G:0.02, T:0.44
Consensus pattern (11 bp):
TTTCCCTTCCA
Found at i:24543260 original size:34 final size:34
Alignment explanation
Indices: 24543202--24543268 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
24543192 AACTGGAAGG
* *
24543202 ACTTTGATTGATGTGCAGTAAGGCGAGCTAACTC
1 ACTTTGATTAATGTACAGTAAGGCGAGCTAACTC
* *
24543236 ACTTTGATTAATGTATAGTTAGGCGAGCTAACT
1 ACTTTGATTAATGTACAGTAAGGCGAGCTAACT
24543269 ATGAGTTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 29 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.33
Consensus pattern (34 bp):
ACTTTGATTAATGTACAGTAAGGCGAGCTAACTC
Found at i:24568207 original size:12 final size:12
Alignment explanation
Indices: 24568192--24568217 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24568182 TGTTATTATG
24568192 ATGAATGCTATT
1 ATGAATGCTATT
24568204 ATGAATGCTATT
1 ATGAATGCTATT
24568216 AT
1 AT
24568218 TTATTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:24569235 original size:19 final size:19
Alignment explanation
Indices: 24569194--24569240 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
24569184 TTCATTTTAT
* *
24569194 TTTATTTACTTATCTATTT
1 TTTATTTACTTAACTATTC
24569213 TTTATTTAC-TAACTAATTC
1 TTTATTTACTTAACT-ATTC
24569232 TTTAATTTA
1 TTT-ATTTA
24569241 ATTTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTATTTACTTAACTATTC
Found at i:24575189 original size:30 final size:30
Alignment explanation
Indices: 24575145--24575209 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
24575135 AAACACTCAT
*
24575145 AAAAATTT--AAAAATAAAAACTATATGCC
1 AAAAATTTAAAAAAATAAAAACTACATGCC
*
24575173 AAGAATTTAAAAAAATAAAAACTACATGCC
1 AAAAATTTAAAAAAATAAAAACTACATGCC
24575203 AAAAATT
1 AAAAATT
24575210 CTTATGTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 7 0.22
30 25 0.78
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.23
Consensus pattern (30 bp):
AAAAATTTAAAAAAATAAAAACTACATGCC
Found at i:24575489 original size:16 final size:18
Alignment explanation
Indices: 24575462--24575494 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
24575452 GTCTTAAGAA
24575462 TAAAACAT-AAAATTATT
1 TAAAACATAAAAATTATT
24575479 TAAAA-ATAAAAATTAT
1 TAAAACATAAAAATTAT
24575495 CTCAAATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAACATAAAAATTATT
Found at i:24580993 original size:6 final size:6
Alignment explanation
Indices: 24580982--24581013 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
24580972 GCTACCTTTG
24580982 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TT
24581014 GGGCGCTCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:24581414 original size:19 final size:18
Alignment explanation
Indices: 24581374--24581414 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
24581364 CTTCATTTCA
**
24581374 TTCTTTTCTTCTTCTTTT
1 TTCTTTTCTTCTTCTTCC
24581392 TTCTTTCTCTTCTTCTTCC
1 TTCTTT-TCTTCTTCTTCC
24581411 TTCT
1 TTCT
24581415 CCTTCTATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (18 bp):
TTCTTTTCTTCTTCTTCC
Found at i:24586113 original size:31 final size:31
Alignment explanation
Indices: 24586075--24586136 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
24586065 CAATGTAGAA
24586075 ACAAACTTTTGATACTCTTTATCATGGACTT
1 ACAAACTTTTGATACTCTTTATCATGGACTT
24586106 ACAAACTTTTGATACTCTTTATCATGGACTT
1 ACAAACTTTTGATACTCTTTATCATGGACTT
24586137 TCTCTTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.42
Consensus pattern (31 bp):
ACAAACTTTTGATACTCTTTATCATGGACTT
Found at i:24604494 original size:16 final size:16
Alignment explanation
Indices: 24604474--24604515 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
24604464 TAATTTTTTA
24604474 AAAATTATAAATATAAT
1 AAAATTATAAA-ATAAT
24604491 -AAATTATTAAAATAAT
1 AAAATTA-TAAAATAAT
24604507 AAAATTATA
1 AAAATTATA
24604516 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
AAAATTATAAAATAAT
Found at i:24605161 original size:19 final size:19
Alignment explanation
Indices: 24605137--24605174 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
24605127 TCAATTAAAA
*
24605137 CTTTTCATATTTCATTTTC
1 CTTTTCAAATTTCATTTTC
*
24605156 CTTTTCAAATTTTATTTTC
1 CTTTTCAAATTTCATTTTC
24605175 ATATTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.00, T:0.63
Consensus pattern (19 bp):
CTTTTCAAATTTCATTTTC
Found at i:24611136 original size:15 final size:15
Alignment explanation
Indices: 24611116--24611146 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24611106 TGTGAAGGGT
24611116 ATTAATCTAAATTAA
1 ATTAATCTAAATTAA
*
24611131 ATTAATCTAAGTTAA
1 ATTAATCTAAATTAA
24611146 A
1 A
24611147 AAAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
ATTAATCTAAATTAA
Found at i:24614617 original size:18 final size:18
Alignment explanation
Indices: 24614591--24614630 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
24614581 CTTCCTTATG
*
24614591 TTCTTCAGGATCTTCCTC
1 TTCTACAGGATCTTCCTC
*
24614609 TTCTACAGGATCTTCTTC
1 TTCTACAGGATCTTCCTC
24614627 TTCT
1 TTCT
24614631 TCTTCTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.12, C:0.30, G:0.10, T:0.47
Consensus pattern (18 bp):
TTCTACAGGATCTTCCTC
Found at i:24615569 original size:25 final size:26
Alignment explanation
Indices: 24615517--24615576 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
24615507 TTAATTAGTA
*
24615517 TAAAATATTAACAATTTAAAATAAAT
1 TAAAATATTAACAAATTAAAATAAAT
* *
24615543 TAAAATTTTAATAAATT-AAATAAAT
1 TAAAATATTAACAAATTAAAATAAAT
24615568 TAAAA-ATTA
1 TAAAATATTA
24615577 GTAAAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.10
25 13 0.43
26 14 0.47
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
TAAAATATTAACAAATTAAAATAAAT
Found at i:24615587 original size:25 final size:25
Alignment explanation
Indices: 24615535--24615588 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
24615525 TAACAATTTA
*
24615535 AAATAAATTAAAATTTTAATAAATT
1 AAATAAATTAAAATTGTAATAAATT
24615560 AAATAAATTAAAAATTAGTAA-AAA-T
1 AAATAAATT-AAAATT-GTAATAAATT
24615585 AAAT
1 AAAT
24615589 TTCTTACCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 14 0.54
26 9 0.35
27 3 0.12
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATAAATTAAAATTGTAATAAATT
Found at i:24638429 original size:37 final size:37
Alignment explanation
Indices: 24638379--24638462 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
24638369 TTACTACTAA
*
24638379 TGTCGCTGCATGAACAC-TTCTAGATTGCACCCAAAAC
1 TGTCGCTGCATGAACACTTTC-AGATTGCACACAAAAC
24638416 TGTCGCTGCATGAACACTTTCAGATTGCACACAAAAC
1 TGTCGCTGCATGAACACTTTCAGATTGCACACAAAAC
24638453 TGTCGCTGCA
1 TGTCGCTGCA
24638463 GCAGTATTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
37 42 0.93
38 3 0.07
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.25
Consensus pattern (37 bp):
TGTCGCTGCATGAACACTTTCAGATTGCACACAAAAC
Found at i:24639994 original size:21 final size:22
Alignment explanation
Indices: 24639950--24639994 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
24639940 CTTAAACCTT
*
24639950 AATTACCTCTTTAATTAATAGA
1 AATTACCTCTTCAATTAATAGA
* *
24639972 AATTTCCTCTTCAA-TAGTAGA
1 AATTACCTCTTCAATTAATAGA
24639993 AA
1 AA
24639995 AATAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.38
Consensus pattern (22 bp):
AATTACCTCTTCAATTAATAGA
Found at i:24645032 original size:43 final size:44
Alignment explanation
Indices: 24644984--24645071 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 44
24644974 TTTGAAAGTT
*
24644984 GGAACATTGTTT-CCTATTACTGAAAGTATGTGATTGATTGAGA
1 GGAACATTATTTCCCTATTACTGAAAGTATGTGATTGATTGAGA
* *
24645027 GGAACATTATTTCCCTATTATTGAAAGTATGTGATTGGTTGAGA
1 GGAACATTATTTCCCTATTACTGAAAGTATGTGATTGATTGAGA
24645071 G
1 G
24645072 CATGTTGAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 11 0.27
44 30 0.73
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.38
Consensus pattern (44 bp):
GGAACATTATTTCCCTATTACTGAAAGTATGTGATTGATTGAGA
Found at i:24646416 original size:33 final size:33
Alignment explanation
Indices: 24646379--24646445 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
24646369 ATTTTTATGC
*
24646379 CTTAAAATGAAAATGATTTTTA-TATAGGGGGAG
1 CTTAAAATGAAAATGACTTTTATTA-AGGGGGAG
*
24646412 CTTAAATTGAAAATGACTTTTATTAAGGGGGAG
1 CTTAAAATGAAAATGACTTTTATTAAGGGGGAG
24646445 C
1 C
24646446 AATCTATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.94
34 2 0.06
ACGTcount: A:0.37, C:0.06, G:0.24, T:0.33
Consensus pattern (33 bp):
CTTAAAATGAAAATGACTTTTATTAAGGGGGAG
Done.