Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032244.1 Gossypioides kirkii chromosome KI_01
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: 38174113
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1000 characters in sequence are not A, C, G, or T
File 55 of 126
Found at i:16241889 original size:21 final size:23
Alignment explanation
Indices: 16241828--16241874 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
16241818 CTCTCCTACC
16241828 TTACACTTCTACCGAAACATGCA
1 TTACACTTCTACCGAAACATGCA
16241851 TTACACTTCTACCGAAACATGCA
1 TTACACTTCTACCGAAACATGCA
16241874 T
1 T
16241875 AGGTTCTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.30, G:0.09, T:0.28
Consensus pattern (23 bp):
TTACACTTCTACCGAAACATGCA
Found at i:16242448 original size:27 final size:27
Alignment explanation
Indices: 16242405--16242501 Score: 140
Period size: 27 Copynumber: 3.6 Consensus size: 27
16242395 TTAGCCCACA
* *
16242405 CGAGCCCAGAATTAGAATAATGCACTTT
1 CGAG-CCAGAATCAGAATAATGCTCTTT
*
16242433 CAAGCCAGAATCAGAATAATGCTCTTT
1 CGAGCCAGAATCAGAATAATGCTCTTT
* *
16242460 CGAGCCAAAATCAGAATAACGCTCTTT
1 CGAGCCAGAATCAGAATAATGCTCTTT
16242487 CGAGCCAGAATCAGA
1 CGAGCCAGAATCAGA
16242502 TACTCCTCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
27 59 0.95
28 3 0.05
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.22
Consensus pattern (27 bp):
CGAGCCAGAATCAGAATAATGCTCTTT
Found at i:16247040 original size:27 final size:27
Alignment explanation
Indices: 16246968--16247110 Score: 146
Period size: 27 Copynumber: 5.3 Consensus size: 27
16246958 TCTTACGAGC
* *
16246968 CCAGAATCAAACTAATGCTCTTTCAAG
1 CCAGAATCAAAATAACGCTCTTTCAAG
* * *
16246995 CCAGAA-CTAGATAACGCTCTCTT-GAG
1 CCAGAATCAAAATAACGCTCT-TTCAAG
*
16247021 CCAGAATCAAAATAATGCTCTTTCAAG
1 CCAGAATCAAAATAACGCTCTTTCAAG
* * *
16247048 CCAGAATCAGAATAACGCTCTCTCGAG
1 CCAGAATCAAAATAACGCTCTTTCAAG
* ** *
16247075 CCAAAATCAAAATAACAATCTTTCGAG
1 CCAGAATCAAAATAACGCTCTTTCAAG
16247102 CCAGAATCA
1 CCAGAATCA
16247111 GATACTCCTC
Statistics
Matches: 94, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
26 20 0.21
27 74 0.79
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (27 bp):
CCAGAATCAAAATAACGCTCTTTCAAG
Found at i:16247064 original size:54 final size:54
Alignment explanation
Indices: 16246963--16247112 Score: 205
Period size: 54 Copynumber: 2.8 Consensus size: 54
16246953 TTAGCTCTTA
*
16246963 CGAGCCCAGAATCAAACTAATGCTCTTTCAAGCCAGAA-CTAG-ATAACGCTCTCT
1 CGAG-CCAGAATCAAAATAATGCTCTTTCAAGCCAGAATC-AGAATAACGCTCTCT
*
16247017 TGAGCCAGAATCAAAATAATGCTCTTTCAAGCCAGAATCAGAATAACGCTCTCT
1 CGAGCCAGAATCAAAATAATGCTCTTTCAAGCCAGAATCAGAATAACGCTCTCT
* *** *
16247071 CGAGCCAAAATCAAAATAACAATCTTTCGAGCCAGAATCAGA
1 CGAGCCAGAATCAAAATAATGCTCTTTCAAGCCAGAATCAGA
16247113 TACTCCTCAA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 34 0.40
54 52 0.60
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (54 bp):
CGAGCCAGAATCAAAATAATGCTCTTTCAAGCCAGAATCAGAATAACGCTCTCT
Found at i:16251030 original size:17 final size:16
Alignment explanation
Indices: 16250996--16251026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16250986 AATTAATTTA
*
16250996 AATTAATTAATTTTTC
1 AATTAAATAATTTTTC
16251012 AATTAAATAATTTTT
1 AATTAAATAATTTTT
16251027 TCAACCTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTAAATAATTTTTC
Found at i:16256993 original size:24 final size:24
Alignment explanation
Indices: 16256948--16256993 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
16256938 TAAATTATGA
* * *
16256948 AGTTTTCAATTTTAGGTTTTTACT
1 AGTTTTCAATATTAGATATTTACT
16256972 AGTTTTCAATATTAGATATTTA
1 AGTTTTCAATATTAGATATTTA
16256994 AATTAGATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (24 bp):
AGTTTTCAATATTAGATATTTACT
Found at i:16257367 original size:10 final size:10
Alignment explanation
Indices: 16257343--16257372 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
16257333 AGCTCTTGAT
16257343 TAGATTTTTA
1 TAGATTTTTA
16257353 T-GATTTTTA
1 TAGATTTTTA
16257362 TAGATTTTTA
1 TAGATTTTTA
16257372 T
1 T
16257373 TTGAGAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.47
10 10 0.53
ACGTcount: A:0.27, C:0.00, G:0.10, T:0.63
Consensus pattern (10 bp):
TAGATTTTTA
Found at i:16257413 original size:13 final size:13
Alignment explanation
Indices: 16257362--16257415 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
16257352 ATGATTTTTA
16257362 TAGATTTTTATTT
1 TAGATTTTTATTT
* * **
16257375 GAGAGTTTTAGAT
1 TAGATTTTTATTT
* *
16257388 TAAATTTTAATTT
1 TAGATTTTTATTT
16257401 TAGATTTTTATTT
1 TAGATTTTTATTT
16257414 TA
1 TA
16257416 TTTTATTTAA
Statistics
Matches: 29, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (13 bp):
TAGATTTTTATTT
Found at i:16259747 original size:16 final size:18
Alignment explanation
Indices: 16259702--16259750 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 18
16259692 TTATAATTTA
16259702 TTAAATAAAA-ATTGATC
1 TTAAATAAAATATTGATC
16259719 TTATAATTAAAATATT-AT-
1 TTA-AA-TAAAATATTGATC
16259737 TTAAATAAAATATT
1 TTAAATAAAATATT
16259751 TAAATTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 5 0.17
19 7 0.24
20 3 0.10
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAATAAAATATTGATC
Found at i:16259945 original size:32 final size:32
Alignment explanation
Indices: 16259893--16259957 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
16259883 TCATAAACTT
* *
16259893 ATAAATTGATTACTTAAATTTAATAACTCATA
1 ATAAATTAATTAATTAAATTTAATAACTCATA
* *
16259925 ATAAATTAATTAATTTAATTTGATAACTCATA
1 ATAAATTAATTAATTAAATTTAATAACTCATA
16259957 A
1 A
16259958 AAGATGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.42
Consensus pattern (32 bp):
ATAAATTAATTAATTAAATTTAATAACTCATA
Found at i:16260559 original size:27 final size:27
Alignment explanation
Indices: 16260522--16260575 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
16260512 ATTTTATCCA
16260522 ACAATTTTCAAAATAATTCAATTGATT
1 ACAATTTTCAAAATAATTCAATTGATT
* *
16260549 ACAATTTTCAAATTACTTCAATTGATT
1 ACAATTTTCAAAATAATTCAATTGATT
16260576 TTTTTTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.13, G:0.04, T:0.43
Consensus pattern (27 bp):
ACAATTTTCAAAATAATTCAATTGATT
Found at i:16275068 original size:23 final size:24
Alignment explanation
Indices: 16275015--16275094 Score: 72
Period size: 24 Copynumber: 3.4 Consensus size: 24
16275005 AACATTCAAA
* ** *
16275015 CAACCAAAATAACAATAAAAATAG
1 CAACAAAAATAACAGCAAAAAAAG
* * * *
16275039 TAGCAAAAATAATAGCAAAACAA-
1 CAACAAAAATAACAGCAAAAAAAG
*
16275062 CAACAAAAATAACAGTAAAAAAAG
1 CAACAAAAATAACAGCAAAAAAAG
16275086 CAACAAAAA
1 CAACAAAAA
16275095 ACAGCATCAA
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
23 18 0.43
24 24 0.57
ACGTcount: A:0.69, C:0.15, G:0.06, T:0.10
Consensus pattern (24 bp):
CAACAAAAATAACAGCAAAAAAAG
Found at i:16275114 original size:33 final size:34
Alignment explanation
Indices: 16275072--16275208 Score: 101
Period size: 34 Copynumber: 4.1 Consensus size: 34
16275062 CAACAAAAAT
16275072 AACAGTAAAAAA-AGCAACAAAAAACAGCATCAA
1 AACAGTAAAAAACAGCAACAAAAAACAGCATCAA
* * *
16275105 AACAGTAAAAAAATAGCACCAAAATAC--CAATCAA
1 AACAGT-AAAAAACAGCAACAAAAAACAGC-ATCAA
* *
16275139 AACAGTAAAAAA-A-CAATACCAAAACAGCAT-AA
1 AACAGTAAAAAACAGCAACA-AAAAACAGCATCAA
* * *
16275171 AAAAGTAACCAAAACAG-TA-AAAAAACAGCACCAA
1 AACAGTAA--AAAACAGCAACAAAAAACAGCATCAA
16275205 AACA
1 AACA
16275209 ATAATATATT
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
31 3 0.04
32 14 0.17
33 24 0.29
34 28 0.34
35 13 0.16
ACGTcount: A:0.65, C:0.20, G:0.07, T:0.08
Consensus pattern (34 bp):
AACAGTAAAAAACAGCAACAAAAAACAGCATCAA
Found at i:16275153 original size:11 final size:11
Alignment explanation
Indices: 16275137--16275198 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
16275127 AATACCAATC
16275137 AAAACAGTAAA
1 AAAACAGTAAA
* **
16275148 AAAACAATACC
1 AAAACAGTAAA
* *
16275159 AAAACAGCATA
1 AAAACAGTAAA
*
16275170 AAAA-AGTAACC
1 AAAACAGTAA-A
16275181 AAAACAGTAAA
1 AAAACAGTAAA
16275192 AAAACAG
1 AAAACAG
16275199 CACCAAAACA
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
10 3 0.08
11 30 0.79
12 5 0.13
ACGTcount: A:0.68, C:0.16, G:0.08, T:0.08
Consensus pattern (11 bp):
AAAACAGTAAA
Found at i:16275203 original size:22 final size:22
Alignment explanation
Indices: 16275136--16275208 Score: 87
Period size: 22 Copynumber: 3.3 Consensus size: 22
16275126 AAATACCAAT
16275136 CAAAACAGTAAAAAAACA-ATAC
1 CAAAACAGTAAAAAAACAGA-AC
* *
16275158 CAAAACAGCATAAAAA-AGTAAC
1 CAAAACAGTAAAAAAACAG-AAC
*
16275180 CAAAACAGTAAAAAAACAGCAC
1 CAAAACAGTAAAAAAACAGAAC
16275202 CAAAACA
1 CAAAACA
16275209 ATAATATATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
21 1 0.02
22 39 0.91
23 3 0.07
ACGTcount: A:0.66, C:0.21, G:0.07, T:0.07
Consensus pattern (22 bp):
CAAAACAGTAAAAAAACAGAAC
Found at i:16276933 original size:22 final size:24
Alignment explanation
Indices: 16276908--16276959 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
16276898 AATTTTTAAT
*
16276908 AATTTATAA-AGT-ATATAATCCC
1 AATTTATAATAGTAATATAACCCC
16276930 AATTT-TAATTAGTAATATAACCCC
1 AATTTATAA-TAGTAATATAACCCC
16276954 AATTTA
1 AATTTA
16276960 AATCCATCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 3 0.12
22 5 0.20
23 3 0.12
24 14 0.56
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (24 bp):
AATTTATAATAGTAATATAACCCC
Found at i:16280963 original size:11 final size:11
Alignment explanation
Indices: 16280944--16280981 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
16280934 CTATTTCTCT
*
16280944 TTTTGTTTTTA
1 TTTTATTTTTA
16280955 TTTTATTTTTA
1 TTTTATTTTTA
*
16280966 TTTT-TATTTA
1 TTTTATTTTTA
16280976 TTTTAT
1 TTTTAT
16280982 GAAGACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.16, C:0.00, G:0.03, T:0.82
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:16280969 original size:17 final size:16
Alignment explanation
Indices: 16280943--16280979 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
16280933 ACTATTTCTC
*
16280943 TTTTTGTTTTTATTTTA
1 TTTTTATTTTTA-TTTA
16280960 TTTTTATTTTTATTTA
1 TTTTTATTTTTATTTA
16280976 TTTT
1 TTTT
16280980 ATGAAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTTATTTA
Found at i:16282114 original size:29 final size:29
Alignment explanation
Indices: 16282044--16282178 Score: 132
Period size: 29 Copynumber: 4.6 Consensus size: 29
16282034 TGAACTTTTT
** * *
16282044 AAAAATTTGAATTTGACCCTTAAATTTTCC
1 AAAAATTCAAATTTGACCC-TCAACTTTCC
* *
16282074 AAAAAATT-AAATCTAACTCC-CAACTTTCC
1 -AAAAATTCAAATTTGAC-CCTCAACTTTCC
16282103 AAAAATTCAAATTTGACCCTCGAA-TCTTCC
1 AAAAATTCAAATTTGACCCTC-AACT-TTCC
* *
16282133 AAAAATTCCAATTTGACCCTAAACTTTCC
1 AAAAATTCAAATTTGACCCTCAACTTTCC
16282162 AAAAATTCAAATTTGAC
1 AAAAATTCAAATTTGAC
16282179 TCGATTTTAA
Statistics
Matches: 88, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
28 9 0.10
29 38 0.43
30 32 0.36
31 9 0.10
ACGTcount: A:0.41, C:0.23, G:0.04, T:0.32
Consensus pattern (29 bp):
AAAAATTCAAATTTGACCCTCAACTTTCC
Found at i:16282342 original size:12 final size:12
Alignment explanation
Indices: 16282325--16282372 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
16282315 CGTTTGTTTC
16282325 TTTATTTATTCA
1 TTTATTTATTCA
16282337 TTTATTTAGTT-A
1 TTTATTTA-TTCA
*
16282349 TTTATTTACTCAA
1 TTTATTTATTC-A
16282362 TTTATTATATT
1 TTTATT-TATT
16282373 TTTTGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
11 1 0.03
12 17 0.57
13 9 0.30
14 3 0.10
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTATTTATTCA
Found at i:16283618 original size:22 final size:20
Alignment explanation
Indices: 16283589--16283628 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
16283579 TTTTATATGG
16283589 AATTTTGAATTAAAGAATTTT
1 AATTTTGAATTAAA-AATTTT
16283610 AATTATTGAATTAAAAATT
1 AATT-TTGAATTAAAAATT
16283629 AGTATAAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
AATTTTGAATTAAAAATTTT
Found at i:16286582 original size:18 final size:17
Alignment explanation
Indices: 16286551--16286612 Score: 79
Period size: 17 Copynumber: 3.6 Consensus size: 17
16286541 CCCATTTTGT
*
16286551 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAG
* *
16286568 TTTAAATTTGTTTTTAAA
1 TTTAAATTT-ATTTTAAG
16286586 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAG
*
16286603 TTTAAGTTTA
1 TTTAAATTTA
16286613 AATTTATTCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 23 0.61
18 15 0.39
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (17 bp):
TTTAAATTTATTTTAAG
Found at i:16286618 original size:18 final size:18
Alignment explanation
Indices: 16286562--16286636 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
16286552 TTAGATTTAT
***
16286562 TTTAAGTTTAAATTTGTT
1 TTTAAGTTTAAATTTAAA
* *
16286580 TTTAAATTTAAATTT-AT
1 TTTAAGTTTAAATTTAAA
*
16286597 TTTAAGTTTAAGTTTAAA
1 TTTAAGTTTAAATTTAAA
*
16286615 TTT-ATTCTTAAATTTAAA
1 TTTAAGT-TTAAATTTAAA
16286633 TTTA
1 TTTA
16286637 TCCTAAATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
17 16 0.34
18 31 0.66
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTAAGTTTAAATTTAAA
Found at i:16286630 original size:35 final size:35
Alignment explanation
Indices: 16286551--16286618 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
16286541 CCCATTTTGT
* ***
16286551 TTTAGATTTATTTTAAGTTTAAATTTGTTTTTAAA
1 TTTAAATTTATTTTAAGTTTAAATTTAAATTTAAA
*
16286586 TTTAAATTTATTTTAAGTTTAAGTTTAAATTTA
1 TTTAAATTTATTTTAAGTTTAAATTTAAATTTA
16286619 TTCTTAAATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (35 bp):
TTTAAATTTATTTTAAGTTTAAATTTAAATTTAAA
Found at i:16286645 original size:17 final size:18
Alignment explanation
Indices: 16286609--16286651 Score: 70
Period size: 17 Copynumber: 2.4 Consensus size: 18
16286599 TAAGTTTAAG
*
16286609 TTTAAATTTATTCTTAAA
1 TTTAAATTTATTCCTAAA
16286627 TTTAAATTTA-TCCTAAA
1 TTTAAATTTATTCCTAAA
16286644 TTTAAATT
1 TTTAAATT
16286652 AATAATGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTAAATTTATTCCTAAA
Found at i:16286648 original size:41 final size:41
Alignment explanation
Indices: 16286562--16286648 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 41
16286552 TTAGATTTAT
* * ** *
16286562 TTTAAGTTTAAATTTGTTTTTAAATTTAAATTTATTTTAAG
1 TTTAAGTTTAAATTTATTCTTAAATTTAAATTTATCCTAAA
16286603 TTTAAGTTTAAATTTATTCTTAAATTTAAATTTATCCTAAA
1 TTTAAGTTTAAATTTATTCTTAAATTTAAATTTATCCTAAA
16286644 TTTAA
1 TTTAA
16286649 ATTAATAATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.03, G:0.05, T:0.55
Consensus pattern (41 bp):
TTTAAGTTTAAATTTATTCTTAAATTTAAATTTATCCTAAA
Found at i:16286651 original size:6 final size:6
Alignment explanation
Indices: 16286580--16286636 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
16286570 TAAATTTGTT
* * * *
16286580 TTTAAA TTTAAA TTT-AT TTTAAG TTTAAG TTTAAA TTT-AT TCTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA
16286627 TTTAAA TTTA
1 TTTAAA TTTA
16286637 TCCTAAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 6 0.14
6 35 0.81
7 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:16288483 original size:29 final size:29
Alignment explanation
Indices: 16288423--16288630 Score: 176
Period size: 29 Copynumber: 7.1 Consensus size: 29
16288413 CCTGGAAGGT
* * *
16288423 CCCTGAACTATCTAAAAATTACATTTTAAC
1 CCCTAAACT-TCTCAAAATTACATTTTGAC
*
16288453 CCCTAAACTTCTCAAAATTATATTTTGAC
1 CCCTAAACTTCTCAAAATTACATTTTGAC
*
16288482 CCCTAAACTTCTTAAAAATTACATTTTGA-
1 CCCTAAACTTC-TCAAAATTACATTTTGAC
* *
16288511 CCTTAAACTT-TCCAAAAATTACATTTTAAC
1 CCCTAAACTTCT-C-AAAATTACATTTTGAC
*
16288541 CCC-AAACTTCTCCAAAATTATATTTTGA-
1 CCCTAAACTTCT-CAAAATTACATTTTGAC
* *
16288569 CCCTCGAACTTCTCAAAAATCACATTTT-AC
1 CCCT-AAACTTCTC-AAAATTACATTTTGAC
* * * *
16288599 CCCCAAACCTC-CAAAAATTACAGTTTCAC
1 CCCTAAACTTCTC-AAAATTACATTTTGAC
16288628 CCC
1 CCC
16288631 CGTACTTCCA
Statistics
Matches: 148, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.01
28 16 0.11
29 82 0.55
30 49 0.33
ACGTcount: A:0.37, C:0.28, G:0.03, T:0.33
Consensus pattern (29 bp):
CCCTAAACTTCTCAAAATTACATTTTGAC
Found at i:16288587 original size:88 final size:87
Alignment explanation
Indices: 16288436--16288630 Score: 261
Period size: 88 Copynumber: 2.2 Consensus size: 87
16288426 TGAACTATCT
*
16288436 AAAAATTACATTTTAACCCCTAAACTTCTCAAAATTATATTTTGACCCCTAAACTTCTTAAAAAT
1 AAAAATTACATTTTAACCCCTAAACTTCTCAAAATTATATTTTGACCCCTAAACTTCTCAAAAAT
* ** *
16288501 TACATTTTGA-CCTTAAACTTTCC
66 CACATTTT-ACCCCCAAAC-CTCC
*
16288524 AAAAATTACATTTTAACCCC-AAACTTCTCCAAAATTATATTTTGA-CCCTCGAACTTCTCAAAA
1 AAAAATTACATTTTAACCCCTAAACTTCT-CAAAATTATATTTTGACCCCT-AAACTTCTCAAAA
16288587 ATCACATTTTACCCCCAAACCTCC
64 ATCACATTTTACCCCCAAACCTCC
* *
16288611 AAAAATTACAGTTTCACCCC
1 AAAAATTACATTTTAACCCC
16288631 CGTACTTCCA
Statistics
Matches: 96, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
87 34 0.35
88 62 0.65
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.33
Consensus pattern (87 bp):
AAAAATTACATTTTAACCCCTAAACTTCTCAAAATTATATTTTGACCCCTAAACTTCTCAAAAAT
CACATTTTACCCCCAAACCTCC
Found at i:16288631 original size:29 final size:28
Alignment explanation
Indices: 16288436--16288660 Score: 141
Period size: 29 Copynumber: 7.7 Consensus size: 28
16288426 TGAACTATCT
* *
16288436 AAAAATTACATTTTAACCCCTAAACTTCTC
1 AAAAATTACATTTT-ACCCCCAAACCTC-C
* * * *
16288466 -AAAATTATATTTTGACCCCTAAACTTCTT
1 AAAAATTACATTTT-ACCCCCAAACCTC-C
** *
16288495 AAAAATTACATTTTGA-CCTTAAACTTTCC
1 AAAAATTACATTTT-ACCCCCAAAC-CTCC
*
16288524 AAAAATTACATTTTAACCCCAAACTTCTCC
1 AAAAATTACATTTTACCCCCAAAC--CTCC
* * * *
16288554 -AAAATTATATTTTGACCCTCGAACTTCTC
1 AAAAATTACATTTT-ACCCCCAAACCTC-C
*
16288583 AAAAATCACATTTTACCCCCAAACCTCC
1 AAAAATTACATTTTACCCCCAAACCTCC
* ** *
16288611 AAAAATTACAGTTTCACCCCCGTACTTCC
1 AAAAATTACA-TTTTACCCCCAAACCTCC
*
16288640 AAAAATCACATTTTTACCCCC
1 AAAAATTACA-TTTTACCCCC
16288661 GTACTCTTAA
Statistics
Matches: 160, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
28 13 0.08
29 108 0.68
30 39 0.24
ACGTcount: A:0.36, C:0.28, G:0.03, T:0.32
Consensus pattern (28 bp):
AAAAATTACATTTTACCCCCAAACCTCC
Found at i:16288655 original size:58 final size:57
Alignment explanation
Indices: 16288520--16288660 Score: 176
Period size: 58 Copynumber: 2.4 Consensus size: 57
16288510 ACCTTAAACT
* * * * * *
16288520 TTCCAAAAATTACATTTTAACCCCAAACTTCTCCAAAATTATATTTTGACCCTCGAAC
1 TTCCAAAAATCACATTTTACCCCCAAAC-TCTCCAAAATTACAGTTTCACCCCCGAAC
*
16288578 TTCTCAAAAATCACATTTTACCCCCAAAC-CTCCAAAAATTACAGTTTCACCCCCGTAC
1 TTC-CAAAAATCACATTTTACCCCCAAACTCTCC-AAAATTACAGTTTCACCCCCGAAC
16288636 TTCCAAAAATCACATTTTTACCCCC
1 TTCCAAAAATCACA-TTTTACCCCC
16288661 GTACTCTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
57 15 0.21
58 35 0.48
59 23 0.32
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.30
Consensus pattern (57 bp):
TTCCAAAAATCACATTTTACCCCCAAACTCTCCAAAATTACAGTTTCACCCCCGAAC
Found at i:16288661 original size:29 final size:29
Alignment explanation
Indices: 16288520--16288740 Score: 146
Period size: 29 Copynumber: 7.7 Consensus size: 29
16288510 ACCTTAAACT
* * *
16288520 TTCCAAAAATTACA-TTTTAACCCCAAAC
1 TTCCAAAAATCACATTTTTACCCCCGAAC
* * * * *
16288548 TTCTCCAAAATTATATTTTGACCCTCGAAC
1 TTC-CAAAAATCACATTTTTACCCCCGAAC
*
16288578 TTCTCAAAAATCACA-TTTTACCCCCAAAC
1 TTC-CAAAAATCACATTTTTACCCCCGAAC
* * * * *
16288607 CTCCAAAAATTACAGTTTCACCCCCGTAC
1 TTCCAAAAATCACATTTTTACCCCCGAAC
*
16288636 TTCCAAAAATCACATTTTTACCCCCGTAC
1 TTCCAAAAATCACATTTTTACCCCCGAAC
** * *
16288665 -TCTTAAAATCACA-TTTTA-TCCCAAAC
1 TTCCAAAAATCACATTTTTACCCCCGAAC
** * * *
16288691 TTTTTAAAAATTACATTTTTGCCTCCGAAC
1 -TTCCAAAAATCACATTTTTACCCCCGAAC
*
16288721 TTCCAAAAATCGCCATTTTT
1 TTCCAAAAATC-ACATTTTT
16288741 CCCTCGAGCA
Statistics
Matches: 148, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
26 5 0.03
27 5 0.03
28 34 0.23
29 70 0.47
30 34 0.23
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (29 bp):
TTCCAAAAATCACATTTTTACCCCCGAAC
Found at i:16288758 original size:85 final size:85
Alignment explanation
Indices: 16288521--16288740 Score: 201
Period size: 85 Copynumber: 2.6 Consensus size: 85
16288511 CCTTAAACTT
* * * * * * * * *
16288521 TCCAAAAATTACA-TTTTAACCCCAAACTTCTCCAAAATTATATTTTGACCCTCGAACTTCTCAA
1 TCCAAAAATTACAGTTTCACCCCCGAACTTC-CAAAAATCACATTTTTACCCCCGTAC-TCT-AA
16288585 AAATCACATTTTACCCCCAAACC
63 AAATCACATTTTACCCCCAAACC
* *
16288608 TCCAAAAATTACAGTTTCACCCCCGTACTTCCAAAAATCACATTTTTACCCCCGTACTCTTAAAA
1 TCCAAAAATTACAGTTTCACCCCCGAACTTCCAAAAATCACATTTTTACCCCCGTACTCTAAAAA
* *
16288673 TCACATTTTA-TCCCAAACTT
66 TCACATTTTACCCCCAAAC-C
** * ** * *
16288693 TTTAAAAATTACATTTTTGCCTCCGAACTTCCAAAAATCGCCATTTTT
1 TCCAAAAATTACAGTTTCACCCCCGAACTTCCAAAAATC-ACATTTTT
16288741 CCCTCGAGCA
Statistics
Matches: 109, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
84 7 0.06
85 46 0.42
86 10 0.09
87 33 0.30
88 13 0.12
ACGTcount: A:0.34, C:0.30, G:0.04, T:0.33
Consensus pattern (85 bp):
TCCAAAAATTACAGTTTCACCCCCGAACTTCCAAAAATCACATTTTTACCCCCGTACTCTAAAAA
TCACATTTTACCCCCAAACC
Found at i:16288764 original size:28 final size:27
Alignment explanation
Indices: 16288694--16288775 Score: 67
Period size: 28 Copynumber: 2.9 Consensus size: 27
16288684 CCCAAACTTT
*
16288694 TTAAAAATTA-CATTTTTGCCTCCGAAC
1 TTAAAAATTACCATTTTTCCCT-CGAAC
** *
16288721 TTCCAAAAATCGCCATTTTTCCCTCGAGC
1 TT--AAAAATTACCATTTTTCCCTCGAAC
* *
16288750 ATTAAAAATTACCATTCTACCCTCGA
1 -TTAAAAATTACCATTTTTCCCTCGA
16288776 TGTTCCAAAA
Statistics
Matches: 43, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
27 2 0.05
28 19 0.44
29 10 0.23
30 12 0.28
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (27 bp):
TTAAAAATTACCATTTTTCCCTCGAAC
Found at i:16294016 original size:9 final size:9
Alignment explanation
Indices: 16294004--16294059 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
16293994 AAAAATAAAT
*
16294004 AAAAGATAG
1 AAAAGAAAG
16294013 AAAAGAAAG
1 AAAAGAAAG
16294022 -AAA-AAAG
1 AAAAGAAAG
16294029 AAAA-AAA-
1 AAAAGAAAG
16294036 AAAAGAAA-
1 AAAAGAAAG
*
16294044 AAGAAAAAAG
1 AA-AAGAAAG
16294054 AAAAGA
1 AAAAGA
16294060 GGAAAAAGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
7 8 0.20
8 14 0.35
9 16 0.40
10 2 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:16294025 original size:18 final size:16
Alignment explanation
Indices: 16293991--16294066 Score: 59
Period size: 16 Copynumber: 4.7 Consensus size: 16
16293981 GGATTCAATG
* *
16293991 AAGAA-AAATAAATAA
1 AAGAAGAAAAAAAGAA
16294006 AAGATAGAAAAGAAAGAA
1 AAGA-AGAAAA-AAAGAA
16294024 AA-AAGAAAAAAA-AA
1 AAGAAGAAAAAAAGAA
*
16294038 AAGAAAAAGAAAAAAGAA
1 AAG-AAGA-AAAAAAGAA
*
16294056 AAGAGGAAAAA
1 AAGAAGAAAAA
16294067 GAAAATATAA
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
14 4 0.08
15 7 0.14
16 14 0.29
17 12 0.24
18 12 0.24
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (16 bp):
AAGAAGAAAAAAAGAA
Found at i:16294030 original size:7 final size:7
Alignment explanation
Indices: 16294018--16294071 Score: 69
Period size: 7 Copynumber: 8.1 Consensus size: 7
16294008 GATAGAAAAG
16294018 AAAGAAA
1 AAAGAAA
16294025 AAAG-AA
1 AAAGAAA
16294031 AAA-AAA
1 AAAGAAA
16294037 AAAG-AA
1 AAAGAAA
16294043 AAAGAAA
1 AAAGAAA
16294050 AAAGAAA
1 AAAGAAA
* *
16294057 AGAGGAA
1 AAAGAAA
16294064 AAAGAAA
1 AAAGAAA
16294071 A
1 A
16294072 TATAAAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
6 16 0.40
7 24 0.60
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:16294050 original size:14 final size:13
Alignment explanation
Indices: 16294013--16294071 Score: 63
Period size: 12 Copynumber: 4.7 Consensus size: 13
16294003 TAAAAGATAG
16294013 AAAAG-AAAG-AA
1 AAAAGAAAAGAAA
16294024 AAAAGAAAA-AAA
1 AAAAGAAAAGAAA
16294036 AAAAGAAAA-AGAA
1 AAAAGAAAAGA-AA
*
16294049 AAAAGAAAAGAGGA
1 AAAAGAAAAGA-AA
16294063 AAAAGAAAA
1 AAAAGAAAA
16294072 TATAAAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
11 5 0.12
12 15 0.35
13 11 0.26
14 12 0.28
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAGAAA
Found at i:16294080 original size:14 final size:13
Alignment explanation
Indices: 16294018--16294071 Score: 83
Period size: 13 Copynumber: 4.2 Consensus size: 13
16294008 GATAGAAAAG
16294018 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
16294031 AAA-AAAAAAGAA
1 AAAGAAAAAAGAA
16294043 AAAGAAAAAAGAA
1 AAAGAAAAAAGAA
*
16294056 AAGAGGAAAAAGAA
1 AA-AGAAAAAAGAA
16294070 AA
1 AA
16294072 TATAAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
12 12 0.32
13 14 0.37
14 12 0.32
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAAGAA
Found at i:16295277 original size:52 final size:53
Alignment explanation
Indices: 16295153--16295294 Score: 150
Period size: 53 Copynumber: 2.7 Consensus size: 53
16295143 GGTACCTTAG
* * * *
16295153 AAGATGTGATGGGGAAAGGTTGAGGCCGCAATGGCG---AACCCGATACCTAAG
1 AAGATGTGA-AGGGAAAGGTTGAGGCCGCAACGGTGAACAACCCGATACCTAAC
* *
16295204 AAGATGTGAAGGGAAAAGTTGAGGCCGCAACGGTGAACAACCCGGTACC-ACAC
1 AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACAACCCGATACCTA-AC
* *
16295257 AA-ATTTGAAGGGAAAGGTTGAGGGCCGCAACGATGAAC
1 AAGATGTGAAGGGAAAGGTTGA-GGCCGCAACGGTGAAC
16295295 CTGGTACCTT
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
50 22 0.29
51 9 0.12
52 18 0.23
53 28 0.36
ACGTcount: A:0.35, C:0.18, G:0.33, T:0.14
Consensus pattern (53 bp):
AAGATGTGAAGGGAAAGGTTGAGGCCGCAACGGTGAACAACCCGATACCTAAC
Found at i:16295437 original size:49 final size:49
Alignment explanation
Indices: 16295001--16295488 Score: 319
Period size: 49 Copynumber: 9.8 Consensus size: 49
16294991 CTGAGAAAAA
* *
16295001 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAATGGTGAACCCGGTAC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
16295050 CTAAGAGGATGTGATGGG-AAGGTTAAGGCCGCAATGGCGAACCAGGTAC
1 C-ATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * *
16295099 CATGAAGATTAGAAGGG-AAGGATTGAGGCCGCGATGGCAAATCTGGTAC
1 CATGAAGATTTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
16295148 CTTAGAAGATGTGATGGGGAAAGGTTGAGGCCGCAATGGCGAACCCGATAC
1 CAT-GAAGATTTGA-AGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
16295199 CTAAGAAGATGTGAAGGGAAAAGTTGAGGCCGCAACGGTGAACAACCCGGTAC
1 C-ATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCG---AACCCGGTAC
* * ** *
16295252 CA-CACAAATTTGAAGGGAAAGGTTGAGGGCCGCAACGATGAACCTGGTAC
1 CATGA-AGATTTGAAGGGAAAGGTTGA-GGCCGCAACGGCGAACCCGGTAC
* * * * ** *
16295302 CTTAAAAGATATT-ATGGG-AAGGATTGAGGTCGCAACGGCGAATTCGGTTC
1 CAT-GAAGAT-TTGAAGGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
* * *
16295352 CAT-AGAGA--TGCAATGGGAAAGGTTGAGGCCGTAACGGCAAACCCGATAC
1 CATGA-AGATTTG-AA-GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * **
16295401 CATGAAGATTTGAAAGGAAAGGTTGAGGCCGCAACGGCAAACTCAATAC
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* ** * * *
16295450 CTTGAA-AAATGATGGGAAAGATTGAGGCTGCAACGGCGA
1 CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGA
16295489 GTCTCATACC
Statistics
Matches: 345, Mismatches: 71, Indels: 47
0.75 0.15 0.10
Matches are distributed among these distances:
46 1 0.00
48 43 0.12
49 122 0.35
50 81 0.23
51 50 0.14
52 26 0.08
53 22 0.06
ACGTcount: A:0.33, C:0.17, G:0.32, T:0.17
Consensus pattern (49 bp):
CATGAAGATTTGAAGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:16295778 original size:40 final size:39
Alignment explanation
Indices: 16295721--16295904 Score: 181
Period size: 39 Copynumber: 4.7 Consensus size: 39
16295711 GAAGATTTCG
* *
16295721 ATCTCTTAACCCGAGCCTAGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
** * * **
16295760 ATCTCTTTACCCCGAGCCTGGGGCAGATTGCGACCATTCA
1 ATCTC-TTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* *
16295800 ATCTTTTACCTCGAGCCTGGGGCAGATCACCATCAGCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
* * * * * *
16295839 ATCTCTTACCCCGATCATGGGGTAGAT-AGCAGCCATCCA
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCA-TCAGCCA
* *
16295878 ATCTCTTACCCCGATCATGGGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
16295905 TGTAGTCATT
Statistics
Matches: 118, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
38 3 0.03
39 85 0.72
40 30 0.25
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (39 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCA
Found at i:16295899 original size:78 final size:79
Alignment explanation
Indices: 16295721--16295904 Score: 246
Period size: 78 Copynumber: 2.3 Consensus size: 79
16295711 GAAGATTTCG
* * *
16295721 ATCTCTTAACCCGAGCCTAGGGCAGATCACCATCAGCCAATCTCTTTACCCCGAGCCTGGGGCAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTTACCCCGAGCATGGGGCAG
* *
16295786 ATTGCGACCATTCA
66 ATAGCGACCATCCA
* * * *
16295800 ATCTTTTACCTCGAGCCTGGGGCAGATCACCATCAGCCAATCTC-TTACCCCGATCATGGGGTAG
1 ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTTACCCCGAGCATGGGGCAG
16295864 ATAGC-AGCCATCCA
66 ATAGCGA-CCATCCA
* *
16295878 ATCTCTTACCCCGATCATGGGGCAGAT
1 ATCTCTTACCCCGAGCCTGGGGCAGAT
16295905 TGTAGTCATT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
77 1 0.01
78 50 0.55
79 40 0.44
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (79 bp):
ATCTCTTACCCCGAGCCTGGGGCAGATCACCATCAGCCAATCTCTTTACCCCGAGCATGGGGCAG
ATAGCGACCATCCA
Found at i:16296266 original size:175 final size:174
Alignment explanation
Indices: 16295971--16296352 Score: 570
Period size: 175 Copynumber: 2.2 Consensus size: 174
16295961 ACCAGATCCG
*
16295971 TCTTTCTGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGATCATCTTCCTAATGAGATAC
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGATCATCTTCCTAATGAGATAC
* *
16296036 TGAAAAGTAGACCAAATCAATGAAACCAGGCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCT
66 TGAAAAGTAGACCAAATCAATGAAACAAAGCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCT
*
16296101 GATGAGATACTCAGAAGCATGTCGAAG-AAGTAATAAAATGGTCA
131 GATGAGATACTCAGAAGCAGGTCGAAGCAA-TAATAAAATGGTCA
** * * * * *
16296145 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGCGGTCATCTTTCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAA-CGAGGCGATCATCTTCCTAATGAGATA
* *
16296210 CTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAA-CTTTGAACCCCAGCTTC
65 CTGAAAAGTAGACCAAATCAATGAAACAAAGCTCAAAGTGAGC-AAATCTTTGAACCCCAGCTTC
* *
16296274 CTGATGAGATACTGAGAAGCAGGTCGAAGCAATAATAAAATGGTCG
129 CTGATGAGATACTCAGAAGCAGGTCGAAGCAATAATAAAATGGTCA
* *
16296320 TCTTCTTGATGAGATACAGAGAAGTGGACCAAA
1 TCTTCCTGATGAGATACAGAGAAGTGGATCAAA
16296353 TCCGTCTTCC
Statistics
Matches: 186, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
174 34 0.18
175 147 0.79
176 5 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.23
Consensus pattern (174 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATCAAAACAACGAGGCGATCATCTTCCTAATGAGATAC
TGAAAAGTAGACCAAATCAATGAAACAAAGCTCAAAGTGAGCAAATCTTTGAACCCCAGCTTCCT
GATGAGATACTCAGAAGCAGGTCGAAGCAATAATAAAATGGTCA
Found at i:16296512 original size:212 final size:209
Alignment explanation
Indices: 16296145--16296582 Score: 707
Period size: 212 Copynumber: 2.1 Consensus size: 209
16296135 AAAATGGTCA
16296145 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGCGGTCATCTTTCTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGCGGTCATCTTTCTGATGAGATA
* * * *
16296210 CTGAGAAGTAGACCAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTTGAACCCCAGCTTCC
66 CAGAGAAGTAGAACAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAACTTCC
* *
16296275 TGATGAGATACTGAGAAGCAGGTCGAAGCAATAATAAAATGG-TCGTCTTCTTGATGAGATACAG
131 TGATGAGATACTGAGAAGCAGGTCGAAGC---AATAAAATGGCTAG-CTTCCTGATGAGATACAG
*
16296339 AGAAGTGGACCAAATCCG
192 AGAAGTGAACCAAATCCG
* *
16296357 TCTTCCTGATGAGGTACAGAGAAGTGGATTGAAACAAGTGATGCGGTCATCTTTTTGATGAGATA
1 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGCGGTCATCTTTCTGATGAGATA
* *
16296422 CAGTGAAGTATAACAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAACTTCC
66 CAGAGAAGTAGAACAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAACTTCC
* *
16296487 TGATGAGATATTGAGAAGTAGGTCGAAGCAATAAAATGGCTAGCTTCCTGATGAGATACAGAGAA
131 TGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGCTAGCTTCCTGATGAGATACAGAGAA
*
16296552 GTGAACCAAATTCG
196 GTGAACCAAATCCG
16296566 TCTTCCTGATGAGATAC
1 TCTTCCTGATGAGATAC
16296583 TAAGAAACAG
Statistics
Matches: 210, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
209 59 0.28
210 2 0.01
212 149 0.71
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (209 bp):
TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAAGTGATGCGGTCATCTTTCTGATGAGATA
CAGAGAAGTAGAACAAATCAATGAAACAAAGCTCAATGTGAGCGAAACTTCGAACCCCAACTTCC
TGATGAGATACTGAGAAGCAGGTCGAAGCAATAAAATGGCTAGCTTCCTGATGAGATACAGAGAA
GTGAACCAAATCCG
Found at i:16296637 original size:85 final size:85
Alignment explanation
Indices: 16296482--16296647 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 85
16296472 CGAACCCCAA
* * ** * * *
16296482 CTTCCTGATGAGATATTGAGAAGTAGGTCGAAGCAATAAAATGGCTAGCTTCCTGATGAGATACA
1 CTTCCTGATGAGATACTAAGAAACAGGTCGAAGCAATAAAATGGCTACCTTCCTGACGAGACACA
*
16296547 GAGAAGTGAACCAAATTCGT
66 AAGAAGTGAACCAAATTCGT
* *
16296567 CTTCCTGATGAGATACTAAGAAACAGGTCGAAGCAATAAAGTGG-TCACCTTCCTGACGAGACGC
1 CTTCCTGATGAGATACTAAGAAACAGGTCGAAGCAATAAAATGGCT-ACCTTCCTGACGAGACAC
16296631 AAAGAAGTGAACCAAAT
65 AAAGAAGTGAACCAAAT
16296648 CCATCTTTCT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
84 1 0.01
85 69 0.99
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (85 bp):
CTTCCTGATGAGATACTAAGAAACAGGTCGAAGCAATAAAATGGCTACCTTCCTGACGAGACACA
AAGAAGTGAACCAAATTCGT
Found at i:16296673 original size:85 final size:85
Alignment explanation
Indices: 16296506--16296674 Score: 198
Period size: 85 Copynumber: 2.0 Consensus size: 85
16296496 ATTGAGAAGT
* * * * * *
16296506 AGGTCGAAGCAATAAAATGGCTAGCTTCCTGATGAGATACAGAGAAGTGAACCAAATTCGTCTTC
1 AGGTCGAAGCAATAAAATGGCTACCTTCCTGACGAGACACAAAGAAGTGAACCAAATCCATCTTC
* * *
16296571 CTGATGAGATACTAAGAAAC
66 CTGATAAAATACGAAGAAAC
* *
16296591 AGGTCGAAGCAATAAAGTGG-TCACCTTCCTGACGAGACGCAAAGAAGTGAACCAAATCCATCTT
1 AGGTCGAAGCAATAAAATGGCT-ACCTTCCTGACGAGACACAAAGAAGTGAACCAAATCCATCTT
*
16296655 TCT-AGTAAAATACGAAGAAA
65 CCTGA-TAAAATACGAAGAAA
16296675 GAAATCAAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 2 0.03
85 68 0.97
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (85 bp):
AGGTCGAAGCAATAAAATGGCTACCTTCCTGACGAGACACAAAGAAGTGAACCAAATCCATCTTC
CTGATAAAATACGAAGAAAC
Found at i:16297075 original size:17 final size:17
Alignment explanation
Indices: 16297050--16297142 Score: 91
Period size: 17 Copynumber: 5.5 Consensus size: 17
16297040 CCTATTTTGT
* *
16297050 TTTAGATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
16297067 TTTAAATTTGTTTTTAAA
1 TTTAAATTT-ATTTTAAA
* *
16297085 -TTAAATTTA-ATTAAG
1 TTTAAATTTATTTTAAA
16297100 TTTAAATTTATTCTTAAA
1 TTTAAATTTATT-TTAAA
**
16297118 TTTAAATTTATCCTAAA
1 TTTAAATTTATTTTAAA
16297135 TTTAAATT
1 TTTAAATT
16297143 AATAATGTCC
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
15 4 0.06
16 9 0.15
17 28 0.45
18 21 0.34
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:16297104 original size:33 final size:34
Alignment explanation
Indices: 16297062--16297127 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 34
16297052 TAGATTTATT
* *
16297062 TTAAGTTTAAATTTGTTTTTAAA-TTAAATTTAA
1 TTAAGTTTAAATTTATTCTTAAATTTAAATTTAA
16297095 TTAAGTTTAAATTTATTCTTAAATTTAAATTTA
1 TTAAGTTTAAATTTATTCTTAAATTTAAATTTA
16297128 TCCTAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 21 0.70
34 9 0.30
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (34 bp):
TTAAGTTTAAATTTATTCTTAAATTTAAATTTAA
Found at i:16298977 original size:30 final size:29
Alignment explanation
Indices: 16298941--16299155 Score: 206
Period size: 30 Copynumber: 7.3 Consensus size: 29
16298931 CTGTCCAAAG
16298941 TTACATTTTGACCATCAAACTTCTCAAAAA
1 TTACATTTTGACC-TCAAACTTCTCAAAAA
16298971 TTACATTTTGACTCTCAAACTTCTCAAAAA
1 TTACATTTTGAC-CTCAAACTTCTCAAAAA
* *
16299001 TTATATTTTGACCCCTAAACTT-TCAAAATA
1 TTACATTTTGACCTC-AAACTTCTCAAAA-A
*
16299031 TTACATTTTGACAC-CAAACTTCTCCAAAA
1 TTACATTTTGAC-CTCAAACTTCTCAAAAA
* * *
16299060 TTATATTTTAACCCTCGAACTTCTCAAAAA
1 TTACATTTTGA-CCTCAAACTTCTCAAAAA
* *
16299090 TTACATTTT-ACCCCTAAACCTC-CAAAAA
1 TTACATTTTGACCTC-AAACTTCTCAAAAA
* * *
16299118 TCACATTTTCACCTCCCATACTTC-CAAAAA
1 TTACATTTTGACCT--CAAACTTCTCAAAAA
*
16299148 TCACATTT
1 TTACATTT
16299156 AACCCTCGTA
Statistics
Matches: 158, Mismatches: 16, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
28 17 0.11
29 34 0.22
30 104 0.66
31 3 0.02
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (29 bp):
TTACATTTTGACCTCAAACTTCTCAAAAA
Found at i:16299060 original size:59 final size:60
Alignment explanation
Indices: 16298934--16299212 Score: 240
Period size: 59 Copynumber: 4.8 Consensus size: 60
16298924 CCCTGAACTG
* * * *
16298934 TCCAAAGTTACATTTTGACCATCAAACTTCTCAAAAATTACATTTTGACTCTCAAACTTC
1 TCCAAAATTATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTGACACTCAAACTTC
*
16298994 TCAAAAATTATATTTTGACCC-CTAAACTT-TCAAAATATTACATTTTGACAC-CAAACTTC
1 TCCAAAATTATATTTTGACCCTC-AAACTTCTCAAAA-ATTACATTTTGACACTCAAACTTC
* * *
16299053 TCCAAAATTATATTTTAACCCTCGAACTTCTCAAAAATTACATTTT-AC-CCCTAAAC--C
1 TCCAAAATTATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTGACACTC-AAACTTC
* * * * * * * * **
16299110 TCCAAAAATCACATTTTCACCTCCCATACTTC-CAAAAATCACA-TTTAACCCTCGTAC-TC
1 TCC-AAAATTATATTTTGACC-CTCAAACTTCTCAAAAATTACATTTTGACACTCAAACTTC
* * *
16299169 -CCAAAATCATATTTTTACCCT-AAACTTTTCAAAAATTACATTTT
1 TCCAAAATTATATTTTGACCCTCAAACTTCTCAAAAATTACATTTT
16299213 TTTACCCCCA
Statistics
Matches: 182, Mismatches: 24, Indels: 29
0.77 0.10 0.12
Matches are distributed among these distances:
55 5 0.03
56 11 0.06
57 26 0.14
58 33 0.18
59 63 0.35
60 44 0.24
ACGTcount: A:0.37, C:0.27, G:0.03, T:0.34
Consensus pattern (60 bp):
TCCAAAATTATATTTTGACCCTCAAACTTCTCAAAAATTACATTTTGACACTCAAACTTC
Found at i:16299232 original size:87 final size:88
Alignment explanation
Indices: 16298941--16299235 Score: 287
Period size: 89 Copynumber: 3.3 Consensus size: 88
16298931 CTGTCCAAAG
* ** * * * *
16298941 TTACATTTTGACCATCAAACTTCTCAAAAATTACATTTTGACTCTCAAACTTCTCAAAAATTATA
1 TTACATTTTCACCCCCAAACTTC-CAAAAATCACATTTTAACCCTCGAACTTCTCAAAAATTATA
*
16299006 TTTTGACCCCTAAACTTTCAAAATA
65 TTTTTACCCCTAAACTTTCAAAA-A
* * * * * *
16299031 TTACATTTTGA-CACCAAACTTCTCCAAAATTATATTTTAACCCTCGAACTTCTCAAAAATTACA
1 TTACATTTTCACCCCCAAACTTC-CAAAAATCACATTTTAACCCTCGAACTTCTCAAAAATTATA
* *
16299095 -TTTTACCCCTAAACCTCCAAAAA
65 TTTTTACCCCTAAACTTTCAAAAA
* * * * *
16299118 TCACATTTTCACCTCCCATACTTCCAAAAATCACA-TTTAACCCTCGTAC-TC-CCAAAATCATA
1 TTACATTTTCACC-CCCAAACTTCCAAAAATCACATTTTAACCCTCGAACTTCTCAAAAATTATA
16299180 TTTTTA-CCCTAAACTTTTCAAAAA
65 TTTTTACCCCTAAAC-TTTCAAAAA
*
16299204 TTACATTTTTTTACCCCCAAACTTCCAAAAAT
1 TTACA--TTTTCACCCCCAAACTTCCAAAAAT
16299236 AACCATTACA
Statistics
Matches: 173, Mismatches: 26, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
85 16 0.09
86 18 0.10
87 39 0.23
88 35 0.20
89 54 0.31
90 11 0.06
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (88 bp):
TTACATTTTCACCCCCAAACTTCCAAAAATCACATTTTAACCCTCGAACTTCTCAAAAATTATAT
TTTTACCCCTAAACTTTCAAAAA
Found at i:16311127 original size:50 final size:50
Alignment explanation
Indices: 16311051--16311202 Score: 146
Period size: 50 Copynumber: 3.0 Consensus size: 50
16311041 ATGGCGTTAG
* * * * * *
16311051 AATGACGAATCCTATACCCCTAAAGCTGTATAGGATCGGATTGAAGCTGC
1 AATGACAAATCCTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGC
16311101 AATGACAAATCAC-ATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGC
1 AATGACAAATC-CTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGC
*** * * * * *
16311151 AATGGTGAAT-CTCATTCACCTAAAACTGTAGAGGGGCATATTGAAGCTGC
1 AATGACAAATCCT-ATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGC
16311201 AA
1 AA
16311203 AAGCGAATCT
Statistics
Matches: 85, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
48 1 0.01
50 83 0.98
51 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (50 bp):
AATGACAAATCCTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGC
Found at i:16311247 original size:49 final size:49
Alignment explanation
Indices: 16311184--16311277 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
16311174 AACTGTAGAG
* * * * *
16311184 GGGCATATTGAAGCTGCAAAAGC-GAATCTTATACTCCTGAAGCTGAAAA
1 GGGCAAATTAAAGCTACAAAAGCAG-ATCTTATACCCCTAAAGCTGAAAA
*
16311233 GGGCAAATTAAAGCTACAAGAGCAGATCTTATACCCCTAAAGCTG
1 GGGCAAATTAAAGCTACAAAAGCAGATCTTATACCCCTAAAGCTG
16311278 TGGCGGGACA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 37 0.97
50 1 0.03
ACGTcount: A:0.37, C:0.20, G:0.21, T:0.21
Consensus pattern (49 bp):
GGGCAAATTAAAGCTACAAAAGCAGATCTTATACCCCTAAAGCTGAAAA
Found at i:16311504 original size:40 final size:40
Alignment explanation
Indices: 16311397--16311768 Score: 263
Period size: 40 Copynumber: 9.4 Consensus size: 40
16311387 AAGTCACTAC
* * *
16311397 ATCCAATATTTTACCCTGACCATGGGGCAGATTGA--AGCA
1 ATCCAATCTTTTACCCT-AACATGGGGCAGATTGAGGACCA
** *
16311436 ATCCGGTCTTTTACCTCGAACATGGGGCAGATTGAGGACCA
1 ATCCAATCTTTTACC-CTAACATGGGGCAGATTGAGGACCA
*
16311477 AT-CAATCTTTTACCCTAATCA-GAGGGCAGATTGAGAACC-
1 ATCCAATCTTTTACCCTAA-CATG-GGGCAGATTGAGGACCA
* * *
16311516 ATCCAATCTTTTACCTTGACTATGGGGCAGATTGA--AGCA
1 ATCCAATCTTTTACCCTAAC-ATGGGGCAGATTGAGGACCA
* * *
16311555 ATCCAGTCTTTTACCCCGAACATGGGGCAAATTGAGGACCA
1 ATCCAATCTTTTA-CCCTAACATGGGGCAGATTGAGGACCA
* **
16311596 GT-CAATCTTTTACCCTAATCA-GAGGGCAGATTGAAAACC-
1 ATCCAATCTTTTACCCTAA-CATG-GGGCAGATTGAGGACCA
* * * **
16311635 ATCCAATCTTTTACCTTGACCATGGGGCAAATTGA--AGTA
1 ATCCAATCTTTTACCCT-AACATGGGGCAGATTGAGGACCA
*
16311674 ATCCAATCTTTTACCCTAACCA-GAGGGCAGATTGAAGACC-
1 ATCCAATCTTTTACCCTAA-CATG-GGGCAGATTGAGGACCA
* * * * * * *
16311714 ATCCGATATCTCACCTCGACCATGGGGCAGATTGA--AGCA
1 ATCCAATCTTTTACC-CTAACATGGGGCAGATTGAGGACCA
16311753 ATCCAATCTTTTACCC
1 ATCCAATCTTTTACCC
16311769 CTAAAGCTAT
Statistics
Matches: 261, Mismatches: 47, Indels: 51
0.73 0.13 0.14
Matches are distributed among these distances:
38 8 0.03
39 106 0.41
40 131 0.50
41 16 0.06
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
ATCCAATCTTTTACCCTAACATGGGGCAGATTGAGGACCA
Found at i:16311607 original size:119 final size:119
Alignment explanation
Indices: 16311396--16311689 Score: 489
Period size: 119 Copynumber: 2.5 Consensus size: 119
16311386 GAAGTCACTA
* * * *
16311396 CATCCAATATTTTACCCTGACCATGGGGCAGATTGAAGCAATCCGGTCTTTTACCTCGAACATGG
1 CATCCAATCTTTTACCTTGACCATGGGGCAGATTGAAGCAATCCAGTCTTTTACCCCGAACATGG
* *
16311461 GGCAGATTGAGGACCAATCAATCTTTTACCCTAATCAGAGGGCAGATTGAGAAC
66 GGCAAATTGAGGACCAATCAATCTTTTACCCTAATCAGAGGGCAGATTGAAAAC
*
16311515 CATCCAATCTTTTACCTTGACTATGGGGCAGATTGAAGCAATCCAGTCTTTTACCCCGAACATGG
1 CATCCAATCTTTTACCTTGACCATGGGGCAGATTGAAGCAATCCAGTCTTTTACCCCGAACATGG
*
16311580 GGCAAATTGAGGACCAGTCAATCTTTTACCCTAATCAGAGGGCAGATTGAAAAC
66 GGCAAATTGAGGACCAATCAATCTTTTACCCTAATCAGAGGGCAGATTGAAAAC
* * *
16311634 CATCCAATCTTTTACCTTGACCATGGGGCAAATTGAAGTAATCCAATCTTTTACCC
1 CATCCAATCTTTTACCTTGACCATGGGGCAGATTGAAGCAATCCAGTCTTTTACCC
16311690 TAACCAGAGG
Statistics
Matches: 163, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
119 163 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (119 bp):
CATCCAATCTTTTACCTTGACCATGGGGCAGATTGAAGCAATCCAGTCTTTTACCCCGAACATGG
GGCAAATTGAGGACCAATCAATCTTTTACCCTAATCAGAGGGCAGATTGAAAAC
Found at i:16311681 original size:79 final size:78
Alignment explanation
Indices: 16311396--16311768 Score: 337
Period size: 79 Copynumber: 4.7 Consensus size: 78
16311386 GAAGTCACTA
* ** *
16311396 CATCCAATATTTTACCCTGACCATGGGGCAGATTGAAGCAATCCGGTCTTTTACCTCGAACATGG
1 CATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACC-CTAACATGG
**
16311461 GGCAGATTGAGGAC
65 GGCAGATTGAAAAC
* * * * * *
16311475 CAAT-CAATCTTTTACCCTAATCA-GAGGGCAGATTGAGAACCATCCAATCTTTTACCTTGACTA
1 C-ATCCAATCTTTTACCCTGACCATG-GGGCAGATTGA-AGCAATCCAATCTTTTACCCTAAC-A
*
16311538 TGGGGCAGATTG-AAGC
62 TGGGGCAGATTGAAAAC
* * * * * * *
16311554 AATCCAGTCTTTTACCCCGAACATGGGGCAAATTGAGGACCAGT-CAATCTTTTACCCTAATCA-
1 CATCCAATCTTTTACCCTGACCATGGGGCAGATTGA--AGCAATCCAATCTTTTACCCTAA-CAT
16311617 GAGGGCAGATTGAAAAC
63 G-GGGCAGATTGAAAAC
* * *
16311634 CATCCAATCTTTTACCTTGACCATGGGGCAAATTGAAGTAATCCAATCTTTTACCCTAACCA-GA
1 CATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAA-CATG-
*
16311698 GGGCAGATTGAAGAC
64 GGGCAGATTGAAAAC
* * * *
16311713 CATCCGATATCTCA-CCTCGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCC
1 CATCCAATCTTTTACCCT-GACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCC
16311769 CTAAAGCTAT
Statistics
Matches: 240, Mismatches: 42, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
78 9 0.04
79 161 0.67
80 70 0.29
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (78 bp):
CATCCAATCTTTTACCCTGACCATGGGGCAGATTGAAGCAATCCAATCTTTTACCCTAACATGGG
GCAGATTGAAAAC
Found at i:16313626 original size:30 final size:30
Alignment explanation
Indices: 16313484--16313629 Score: 184
Period size: 30 Copynumber: 4.9 Consensus size: 30
16313474 TTAACCCTTG
* * *
16313484 AACTTTCCAAAAATTCAAATTTAACCCTCG
1 AACTTTCCAAAAATTCAAATTTGACCCCCA
** *
16313514 AACTTTCCAAAAATTTGAATTTGATCCCCA
1 AACTTTCCAAAAATTCAAATTTGACCCCCA
* * *
16313544 AACTTTCTAAAAATTTAAATTTGACCCCCG
1 AACTTTCCAAAAATTCAAATTTGACCCCCA
* * *
16313574 AACCTTCCAAAAGTTCCAATTTGACCCCCA
1 AACTTTCCAAAAATTCAAATTTGACCCCCA
16313604 AACTTTCCAAAAATTCAAATTTGACC
1 AACTTTCCAAAAATTCAAATTTGACC
16313630 TGATTTTAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 97 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (30 bp):
AACTTTCCAAAAATTCAAATTTGACCCCCA
Found at i:16313626 original size:60 final size:60
Alignment explanation
Indices: 16313484--16313629 Score: 211
Period size: 60 Copynumber: 2.4 Consensus size: 60
16313474 TTAACCCTTG
* * * ** *
16313484 AACTTTCCAAAAATTCAAATTTAACCCTCGAACTTTCCAAAAATTTGAATTTGATCCCCA
1 AACTTTCCAAAAATTCAAATTTGACCCCCGAACCTTCCAAAAATTCCAATTTGACCCCCA
* * *
16313544 AACTTTCTAAAAATTTAAATTTGACCCCCGAACCTTCCAAAAGTTCCAATTTGACCCCCA
1 AACTTTCCAAAAATTCAAATTTGACCCCCGAACCTTCCAAAAATTCCAATTTGACCCCCA
16313604 AACTTTCCAAAAATTCAAATTTGACC
1 AACTTTCCAAAAATTCAAATTTGACC
16313630 TGATTTTAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 75 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (60 bp):
AACTTTCCAAAAATTCAAATTTGACCCCCGAACCTTCCAAAAATTCCAATTTGACCCCCA
Found at i:16313820 original size:16 final size:16
Alignment explanation
Indices: 16313779--16313818 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
16313769 TTGTTTCTTT
*
16313779 ATTTATTTATTTATTC
1 ATTTATTTATTTACTC
*
16313795 AGTTATTTATTTACTC
1 ATTTATTTATTTACTC
16313811 AATTTATT
1 -ATTTATT
16313819 ATCTTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (16 bp):
ATTTATTTATTTACTC
Found at i:16317087 original size:80 final size:80
Alignment explanation
Indices: 16316861--16317087 Score: 339
Period size: 80 Copynumber: 2.8 Consensus size: 80
16316851 GCGTAAAACC
* * * * *
16316861 GTTGGTTAATCCAATTAGAGCTGGGCTCACTTTTGCGGTTTATCTGCTAAGCATTGAGTGCCAGG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGG
*
16316926 ATTTGACGGACCATT
66 ATTTGACAGACCATT
* * *
16316941 GTTGGTTAATCCAACTAGAGTTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTAGGCGCCAGG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGG
16317006 ATTTGACAGA-CATTT
66 ATTTGACAGACCA-TT
* *
16317021 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCAGTTTATCCGCTAGGCACTGGGTGCTAGG
1 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGG
16317086 AT
66 AT
16317088 AGTCGGTTTA
Statistics
Matches: 132, Mismatches: 14, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
79 2 0.02
80 130 0.98
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (80 bp):
GTTGGTTAATCCAACTAGAGCTGGGCTCACTTTTGCGGTTTATCCGCTAGGCACTGGGTGCCAGG
ATTTGACAGACCATT
Found at i:16317266 original size:82 final size:82
Alignment explanation
Indices: 16317123--16317276 Score: 191
Period size: 82 Copynumber: 1.9 Consensus size: 82
16317113 GCGCAAAATT
* * * * * *
16317123 ATTGGTTAATCCAACTAGAGTTAGGCTCACTTATTGTGGTTTATCCGCTAGGCACTAGGTGCCAG
1 ATTGGTTAATCCAACAAAAGCTAGGCTCACTTATTGCGATTTATCCGCTAGGCACCAGGTGCCAG
16317188 GAATTGATGGAATCATC
66 GAATTGATGGAATCATC
* * * ** * *
16317205 ATTGGTTAATCCAACAAAAGCTGGGCTTATTTATTGCGATTTATTTGCTAGGCACCGGGTGCCAT
1 ATTGGTTAATCCAACAAAAGCTAGGCTCACTTATTGCGATTTATCCGCTAGGCACCAGGTGCCAG
16317270 GAATTGA
66 GAATTGA
16317277 CGGATTTATA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
82 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (82 bp):
ATTGGTTAATCCAACAAAAGCTAGGCTCACTTATTGCGATTTATCCGCTAGGCACCAGGTGCCAG
GAATTGATGGAATCATC
Found at i:16321022 original size:51 final size:51
Alignment explanation
Indices: 16320959--16321067 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
16320949 GAATCAATAA
* *
16320959 ACTCACGATGACACTTAGTCATCAAACCTTTAATCCATAAAGGATTCATTT
1 ACTCATGATGACACTTAGTCATCAAACCATTAATCCATAAAGGATTCATTT
** *
16321010 ACTCATGATGACACTTAGTCATCGGACCATTAATCCATAAATGATTCATTT
1 ACTCATGATGACACTTAGTCATCAAACCATTAATCCATAAAGGATTCATTT
16321061 ACTCATG
1 ACTCATG
16321068 TGTCAATACA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (51 bp):
ACTCATGATGACACTTAGTCATCAAACCATTAATCCATAAAGGATTCATTT
Found at i:16325003 original size:51 final size:52
Alignment explanation
Indices: 16324887--16325116 Score: 297
Period size: 51 Copynumber: 4.5 Consensus size: 52
16324877 TTCATTTAAT
* * * * * * **
16324887 ACTCACGATGATA-TATAATCATCGGACCTCTTATTCCATATAGGAATCCATAA
1 ACTCACGATGACACT-TAGTCATCGGACCTATTAATCCATAAAGG-ATTCATTC
*
16324940 ACTCACGATGACACTTAGTCATCAGACCT-TTAATCCATAAAGGATTCATTC
1 ACTCACGATGACACTTAGTCATCGGACCTATTAATCCATAAAGGATTCATTC
*
16324991 ACTCACGATGACACTTAGTCATCGGA-CTATTAATCCATAAAGGATTCGTTC
1 ACTCACGATGACACTTAGTCATCGGACCTATTAATCCATAAAGGATTCATTC
* *
16325042 ACTCACGATGACACTTTGTCATCGGACCT-TTAATCCATAAAGGATTCATTT
1 ACTCACGATGACACTTAGTCATCGGACCTATTAATCCATAAAGGATTCATTC
*
16325093 ACTCACTATGACACTTAGTCATCG
1 ACTCACGATGACACTTAGTCATCG
16325117 AACCCTTTCG
Statistics
Matches: 159, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
50 2 0.01
51 118 0.74
52 14 0.09
53 24 0.15
54 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.13, T:0.30
Consensus pattern (52 bp):
ACTCACGATGACACTTAGTCATCGGACCTATTAATCCATAAAGGATTCATTC
Found at i:16332020 original size:27 final size:27
Alignment explanation
Indices: 16331984--16332069 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
16331974 CGAGTCAAGT
*
16331984 ACAGAATAATGCTCTTTCGAGCCAAAC
1 ACAGAGTAATGCTCTTTCGAGCCAAAC
* * **
16332011 ACCGAGTAATGCTCGTTCGAGCCAAGT
1 ACAGAGTAATGCTCTTTCGAGCCAAAC
* *
16332038 TCAGAGTATTGCTCATTT-GAGCCAAAC
1 ACAGAGTAATGCTC-TTTCGAGCCAAAC
16332065 ACAGA
1 ACAGA
16332070 TAAATTCTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
27 44 0.96
28 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (27 bp):
ACAGAGTAATGCTCTTTCGAGCCAAAC
Found at i:16339927 original size:112 final size:112
Alignment explanation
Indices: 16339730--16339953 Score: 394
Period size: 112 Copynumber: 2.0 Consensus size: 112
16339720 TGTATCTCCG
* *
16339730 ATAGGTTTTACGATAGTCTACTATGGGCCAAAGATATGATTTAAATATGAGAGTGCCACATCATC
1 ATAGGTTTTACGATAGTCTACTATAGGCCAAAGATATGATTTAAATATAAGAGTGCCACATCATC
*
16339795 ACAGTATTAGGGTGAGTATAACAACTATTGAAGGTAAGTGTATTTGT
66 ACAGTATTAGGGTGAGTATAACAACTATTAAAGGTAAGTGTATTTGT
* *
16339842 ATAGGTTTTATGATAGTCTACTATAGGCCAAAGATATGATTTAAATATAAGAGTGGCACATCATC
1 ATAGGTTTTACGATAGTCTACTATAGGCCAAAGATATGATTTAAATATAAGAGTGCCACATCATC
*
16339907 ATAGTATTAGGGTGAGTATAACAACTATTAAAGGTAAGTGTATTTGT
66 ACAGTATTAGGGTGAGTATAACAACTATTAAAGGTAAGTGTATTTGT
16339954 TTAAGGTGTA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 106 1.00
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.33
Consensus pattern (112 bp):
ATAGGTTTTACGATAGTCTACTATAGGCCAAAGATATGATTTAAATATAAGAGTGCCACATCATC
ACAGTATTAGGGTGAGTATAACAACTATTAAAGGTAAGTGTATTTGT
Found at i:16341811 original size:27 final size:26
Alignment explanation
Indices: 16341728--16341883 Score: 102
Period size: 27 Copynumber: 5.8 Consensus size: 26
16341718 TACAACCATG
* * *
16341728 ACAGAAT-ATGTTTATTCGCAGACAAT
1 ACAGAATAATGCTCATTCG-AGCCAAT
* * * *
16341754 AAAGAAT-ATAGCTCATTTGATCCAAGA
1 ACAGAATAAT-GCTCATTCGAGCCAA-T
* * *
16341781 ACAGATTATTGCTCATTCAAGCCAGAT
1 ACAGAATAATGCTCATTCGAGCCA-AT
*
16341808 ACAGAA-AATGGCTTATTCGAGCCAAGT
1 ACAGAATAAT-GCTCATTCGAGCCAA-T
* *
16341835 ACAGAATAATGCTCTTTCGAGCCAAAC
1 ACAGAATAATGCTCATTCGAGCC-AAT
*
16341862 ACAGAGTAATGCTCATTCGAGC
1 ACAGAATAATGCTCATTCGAGC
16341884 AAAGTTTAGA
Statistics
Matches: 99, Mismatches: 23, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
26 15 0.15
27 77 0.78
28 7 0.07
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (26 bp):
ACAGAATAATGCTCATTCGAGCCAAT
Found at i:16341866 original size:54 final size:54
Alignment explanation
Indices: 16341764--16341918 Score: 143
Period size: 54 Copynumber: 2.9 Consensus size: 54
16341754 AAAGAATATA
* * * * * * * *
16341764 GCTCATTTGATCCAAGAACAGATTATTGCTCATTCAAGCCAGATACAGA-AAAT
1 GCTCATTCGAGCCAAGTACAGAATATTGCTCTTTCGAGCCAAACACAGAGAAAT
* * *
16341817 GGCTTATTCGAGCCAAGTACAGAATAATGCTCTTTCGAGCCAAACACAGAGTAAT
1 -GCTCATTCGAGCCAAGTACAGAATATTGCTCTTTCGAGCCAAACACAGAGAAAT
* ** *
16341872 GCTCATTCGAGCAAAGTTTAGAGTATTGCTCATTT-GAGCCAAACACA
1 GCTCATTCGAGCCAAGTACAGAATATTGCTC-TTTCGAGCCAAACACA
16341919 AATAAATTCT
Statistics
Matches: 82, Mismatches: 17, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
54 76 0.93
55 6 0.07
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (54 bp):
GCTCATTCGAGCCAAGTACAGAATATTGCTCTTTCGAGCCAAACACAGAGAAAT
Found at i:16344902 original size:14 final size:14
Alignment explanation
Indices: 16344885--16344924 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
16344875 AGGTCAATAA
16344885 GTCAAAGTCAACGG
1 GTCAAAGTCAACGG
* *
16344899 GTCAAGGTCAATGG
1 GTCAAAGTCAACGG
16344913 GTCAAAGTCAAC
1 GTCAAAGTCAAC
16344925 TCGGGTCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.20, G:0.28, T:0.17
Consensus pattern (14 bp):
GTCAAAGTCAACGG
Found at i:16344909 original size:28 final size:29
Alignment explanation
Indices: 16344875--16344933 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 29
16344865 TAAGGTTAAC
16344875 AGGTCAATAAGTCAAAGTCAA-CGGGTCA
1 AGGTCAATAAGTCAAAGTCAACCGGGTCA
**
16344903 AGGTCAATGGGTCAAAGTCAACTCGGGTCA
1 AGGTCAATAAGTCAAAGTCAAC-CGGGTCA
16344933 A
1 A
16344934 CGGGTTGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 19 0.70
30 8 0.30
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (29 bp):
AGGTCAATAAGTCAAAGTCAACCGGGTCA
Found at i:16345782 original size:30 final size:29
Alignment explanation
Indices: 16345743--16345817 Score: 78
Period size: 30 Copynumber: 2.5 Consensus size: 29
16345733 ATCAAAGCTC
**
16345743 AATTAAGTCCTTAAACTTCACTGAATTTCCA
1 AATT-AGTCCTTAAA-TTCACAAAATTTCCA
*
16345774 AATTAGTCCCTAAGATTCACAAAATTTCCA
1 AATTAGTCCTTAA-ATTCACAAAATTTCCA
* *
16345804 ATTTAGTCTTTAAA
1 AATTAGTCCTTAAA
16345818 AACACTAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
29 1 0.03
30 31 0.84
31 5 0.14
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (29 bp):
AATTAGTCCTTAAATTCACAAAATTTCCA
Found at i:16362283 original size:11 final size:11
Alignment explanation
Indices: 16362267--16362291 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16362257 TTTCTAGTGA
16362267 TATATGCATTG
1 TATATGCATTG
16362278 TATATGCATTG
1 TATATGCATTG
16362289 TAT
1 TAT
16362292 GAAATTATGA
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:0.28, C:0.08, G:0.16, T:0.48
Consensus pattern (11 bp):
TATATGCATTG
Found at i:16364317 original size:21 final size:20
Alignment explanation
Indices: 16364291--16364340 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
16364281 TTTTGGGTTT
*
16364291 GGTAGATGCATGACTTGTACC
1 GGTAGATCCAT-ACTTGTACC
* *
16364312 GGTAGAAACCATACTTGTATC
1 GGTAG-ATCCATACTTGTACC
16364333 GGTAGATC
1 GGTAGATC
16364341 TAACACAAGT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.08
21 18 0.75
22 4 0.17
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (20 bp):
GGTAGATCCATACTTGTACC
Found at i:16367723 original size:21 final size:21
Alignment explanation
Indices: 16367699--16367746 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
16367689 GGATTTTGGC
16367699 ATTTATTTTAGAAGTT-TA-ATT
1 ATTTATTTTA-AA-TTATAGATT
*
16367720 ATTTAATTTAAATTATAGATT
1 ATTTATTTTAAATTATAGATT
16367741 ATTTAT
1 ATTTAT
16367747 AGTTATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 2 0.09
20 4 0.17
21 17 0.74
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (21 bp):
ATTTATTTTAAATTATAGATT
Found at i:16368419 original size:3 final size:3
Alignment explanation
Indices: 16368411--16368436 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
16368401 ACCCACAAGT
16368411 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
16368437 TCATGACTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:16369957 original size:6 final size:6
Alignment explanation
Indices: 16369946--16370078 Score: 74
Period size: 6 Copynumber: 24.0 Consensus size: 6
16369936 TGAGATTTAT
* * * *
16369946 TTTAAA TTTAAA TTT-AT TTTAAA TTTAAA TTT-AA GTCAAG TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * *
16369992 TTT-AT TTTAAA TTCAAAA GTT-AT TTTAAA TTTAAA -TT-AA TTTGAA
1 TTTAAA TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
16370037 TTT--A TTTGAA TTT--A TTTGAA TTTAAA TTT--A TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
16370079 ATAAAAAATG
Statistics
Matches: 97, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
4 14 0.14
5 18 0.19
6 61 0.63
7 4 0.04
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:16369962 original size:17 final size:17
Alignment explanation
Indices: 16369940--16370078 Score: 138
Period size: 17 Copynumber: 8.1 Consensus size: 17
16369930 CCATTTTGAG
16369940 ATTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
16369957 ATTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
** * *
16369974 ATTTAAGTCAAGTTTAA
1 ATTTATTTTAAATTTAA
*
16369991 ATTTATTTTAAATTCAAA
1 ATTTATTTTAAATT-TAA
*
16370009 AGTTATTTTAAATTTAA
1 ATTTATTTTAAATTTAA
* * *
16370026 ATTAATTTGAATTTATTTGA
1 ATTTATTTTAA---ATTTAA
*
16370046 ATTTA-TTTGAATTTAA
1 ATTTATTTTAAATTTAA
16370062 ATTTA-TTTAAATTTAA
1 ATTTATTTTAAATTTAA
16370078 A
1 A
16370079 ATAAAAAATG
Statistics
Matches: 98, Mismatches: 20, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
16 21 0.21
17 50 0.51
18 15 0.15
19 3 0.03
20 9 0.09
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.53
Consensus pattern (17 bp):
ATTTATTTTAAATTTAA
Found at i:16369966 original size:11 final size:11
Alignment explanation
Indices: 16369952--16370004 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
16369942 TTATTTTAAA
16369952 TTTAAATTTAT
1 TTTAAATTTAT
*
16369963 TTTAAATTTAAA
1 TTTAAATTT-AT
* ** *
16369975 TTTAAGTCAAG
1 TTTAAATTTAT
16369986 TTTAAATTTAT
1 TTTAAATTTAT
16369997 TTTAAATT
1 TTTAAATT
16370005 CAAAAGTTAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 25 0.78
12 7 0.22
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.55
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:16370059 original size:10 final size:10
Alignment explanation
Indices: 16370020--16370060 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
16370010 GTTATTTTAA
* *
16370020 ATTTAAATTA
1 ATTTGAATTT
16370030 ATTTGAATTT
1 ATTTGAATTT
16370040 ATTTGAATTT
1 ATTTGAATTT
16370050 ATTTGAATTT
1 ATTTGAATTT
16370060 A
1 A
16370061 AATTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (10 bp):
ATTTGAATTT
Found at i:16370069 original size:10 final size:10
Alignment explanation
Indices: 16370020--16370076 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
16370010 GTTATTTTAA
*
16370020 ATTTAAATTA
1 ATTTAAATTT
*
16370030 ATTTGAATTT
1 ATTTAAATTT
*
16370040 ATTTGAATTT
1 ATTTAAATTT
*
16370050 ATTT-GA---
1 ATTTAAATTT
16370056 ATTTAAATTT
1 ATTTAAATTT
16370066 ATTTAAATTT
1 ATTTAAATTT
16370076 A
1 A
16370077 AAATAAAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 4 0.10
7 1 0.03
9 1 0.03
10 33 0.85
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (10 bp):
ATTTAAATTT
Found at i:16370785 original size:11 final size:11
Alignment explanation
Indices: 16370751--16370826 Score: 50
Period size: 11 Copynumber: 6.8 Consensus size: 11
16370741 ACGTTTTAAA
16370751 TATATATGTATAT
1 TATATAT-T-TAT
16370764 TAATATATTTACT
1 T-ATATATTTA-T
16370777 TAT-TATTTAT
1 TATATATTTAT
*
16370787 TATATA-TTAA
1 TATATATTTAT
* *
16370797 TATTTATTAAT
1 TATATATTTAT
* *
16370808 TGTTTATTTAT
1 TATATATTTAT
16370819 TAT-TATTT
1 TATATATTT
16370827 TATATGAAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
10 17 0.33
11 21 0.40
12 4 0.08
13 4 0.08
14 6 0.12
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.62
Consensus pattern (11 bp):
TATATATTTAT
Found at i:16370791 original size:28 final size:28
Alignment explanation
Indices: 16370759--16370829 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
16370749 AATATATATG
*
16370759 TATATTAATATATTTACTT-ATTATTTAT
1 TATATTATTATATTTA-TTAATTATTTAT
*
16370787 TATA-TATTAATATTTATTAATTGTTTAT
1 TATATTATT-ATATTTATTAATTATTTAT
16370815 T-TATTATTAT-TTTAT
1 TATATTATTATATTTAT
16370830 ATGAAATTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 5 0.13
27 9 0.24
28 24 0.63
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (28 bp):
TATATTATTATATTTATTAATTATTTAT
Found at i:16372057 original size:30 final size:30
Alignment explanation
Indices: 16372017--16372333 Score: 291
Period size: 29 Copynumber: 10.8 Consensus size: 30
16372007 ACACTTTTCT
* * *
16372017 AAAATCACATTTTGACCCTCGAACTTCTCA
1 AAAATTACATTTTTACCCTCAAACTTCTCA
* * *
16372047 AAAAATACATTTTTGCCACT-AAACTTATCA
1 AAAATTACATTTTTACC-CTCAAACTTCTCA
*
16372077 AAAATTACATTTTTACCCCCAAACTTCTCA
1 AAAATTACATTTTTACCCTCAAACTTCTCA
* *
16372107 AAAATTACATTTTT-GCCTCTAAACTTCT-T
1 AAAATTACATTTTTACCCTC-AAACTTCTCA
*
16372136 AAAATTACATTTTTATCCTCAAACTTC-CA
1 AAAATTACATTTTTACCCTCAAACTTCTCA
16372165 AAAATTAC-TTTTTACCC-CTAAACTTC-CA
1 AAAATTACATTTTTACCCTC-AAACTTCTCA
* * *
16372193 AAAATTTCATTTTTACCCTTAAATTTCTCA
1 AAAATTACATTTTTACCCTCAAACTTCTCA
* **
16372223 AAAATTATATTTTTACCCTTGAACTTC-CA
1 AAAATTACATTTTTACCCTCAAACTTCTCA
** *
16372252 AAAATTATGTTTTTACCCT-AAA-TTTTCCA
1 AAAATTACATTTTTACCCTCAAACTTCT-CA
** *
16372281 AAAATTATGTTTTTACCC-CGAAACTT-TCT
1 AAAATTACATTTTTACCCTC-AAACTTCTCA
*
16372310 AAAATTACATTTTAACCCT-AAACT
1 AAAATTACATTTTTACCCTCAAACT
16372334 CTTCGAAACT
Statistics
Matches: 242, Mismatches: 30, Indels: 32
0.80 0.10 0.11
Matches are distributed among these distances:
27 3 0.01
28 31 0.13
29 104 0.43
30 100 0.41
31 4 0.02
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (30 bp):
AAAATTACATTTTTACCCTCAAACTTCTCA
Found at i:16372089 original size:29 final size:30
Alignment explanation
Indices: 16371973--16372333 Score: 305
Period size: 30 Copynumber: 12.3 Consensus size: 30
16371963 CCCAAAAGGT
* * * *
16371973 CCCTAAACTGTCT-AGAAATCATATTTTGAC
1 CCCTAAACT-TCTCAAAAATTACATTTTTAC
* * * * *
16372003 CCCTACACTTTTCTAAAATCACATTTTGA-
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
* * *
16372032 CCCTCGAACTTCTCAAAAAATACATTTTTGC
1 CCCT-AAACTTCTCAAAAATTACATTTTTAC
* *
16372063 CACTAAACTTATCAAAAATTACATTTTTAC
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
* *
16372093 CCCCAAACTTCTCAAAAATTACATTTTTGC
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
* *
16372123 CTCTAAACTTCT-TAAAATTACATTTTTA-
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
*
16372151 TCCTCAAACTTC-CAAAAATTAC-TTTTTAC
1 CCCT-AAACTTCTCAAAAATTACATTTTTAC
*
16372180 CCCTAAACTTC-CAAAAATTTCATTTTTAC
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
* * *
16372209 CCTTAAATTTCTCAAAAATTATATTTTTAC
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
* * **
16372239 CCTTGAACTTC-CAAAAATTATGTTTTTA-
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
* **
16372267 CCCTAAA-TTTTCCAAAAATTATGTTTTTAC
1 CCCTAAACTTCT-CAAAAATTACATTTTTAC
* * *
16372297 CCCGAAACTT-TCTAAAATTACA-TTTTAA
1 CCCTAAACTTCTCAAAAATTACATTTTTAC
16372325 CCCTAAACT
1 CCCTAAACT
16372334 CTTCGAAACT
Statistics
Matches: 272, Mismatches: 47, Indels: 26
0.79 0.14 0.08
Matches are distributed among these distances:
27 2 0.01
28 42 0.15
29 95 0.35
30 128 0.47
31 5 0.02
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (30 bp):
CCCTAAACTTCTCAAAAATTACATTTTTAC
Found at i:16372148 original size:59 final size:59
Alignment explanation
Indices: 16371995--16372333 Score: 323
Period size: 58 Copynumber: 5.8 Consensus size: 59
16371985 TAGAAATCAT
* * * * * *
16371995 ATTTTGACCCCTACACTTTTCT-AAAATCACATTTTGACCCTCGAACTTCTCAAAAAATAC
1 ATTTTTACCCCTAAAC--TTCTAAAAATTACATTTTTACCCTCAAACTTCTCAAAAATTAC
* * * *
16372055 ATTTTTGCCACTAAACTTATCAAAAATTACATTTTTACCCCCAAACTTCTCAAAAATTAC
1 ATTTTTACCCCTAAACTTCT-AAAAATTACATTTTTACCCTCAAACTTCTCAAAAATTAC
* * * *
16372115 ATTTTTGCCTCTAAACTTCTTAAAATTACATTTTTATCCTCAAACTTC-CAAAAATTAC
1 ATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCTCAAACTTCTCAAAAATTAC
* * * * *
16372173 -TTTTTACCCCTAAACTTCCAAAAATTTCATTTTTACCCTTAAATTTCTCAAAAATTAT
1 ATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCTCAAACTTCTCAAAAATTAC
* * * ** * *
16372231 ATTTTTACCCTTGAACTTCCAAAAATTATGTTTTTACCCT-AAA-TTTTCCAAAAATTAT
1 ATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCTCAAACTTCT-CAAAAATTAC
* * *
16372289 GTTTTTACCCCGAAACTTTCT-AAAATTACATTTTAACCCT-AAACT
1 ATTTTTACCCCTAAAC-TTCTAAAAATTACATTTTTACCCTCAAACT
16372334 CTTCGAAACT
Statistics
Matches: 234, Mismatches: 38, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
57 42 0.18
58 66 0.28
59 63 0.27
60 63 0.27
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.39
Consensus pattern (59 bp):
ATTTTTACCCCTAAACTTCTAAAAATTACATTTTTACCCTCAAACTTCTCAAAAATTAC
Found at i:16372537 original size:19 final size:19
Alignment explanation
Indices: 16372513--16372553 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
16372503 AACTTTATCA
16372513 TTAA-TTGCATAACTCATAT
1 TTAATTTGCAT-ACTCATAT
*
16372532 TTAATTTGCATACTCATTT
1 TTAATTTGCATACTCATAT
16372551 TTA
1 TTA
16372554 CCTCTATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.32, C:0.15, G:0.05, T:0.49
Consensus pattern (19 bp):
TTAATTTGCATACTCATAT
Found at i:16372713 original size:97 final size:97
Alignment explanation
Indices: 16372606--16372799 Score: 282
Period size: 97 Copynumber: 2.0 Consensus size: 97
16372596 AAAATATTTA
* * * *
16372606 AAATCGAGGTAATATTCTTTTATTTCGGGTTTTGAAAAT-TCATGCCTTAACTTACTAGGCGTGA
1 AAATCGAGGTAATATTCCTTTATTTCGGGTTTTGAAAATGT-ATGCATTAACTTACTAAGCGCGA
* *
16372670 TTTTTCTTCAAACAGGGATAATAGAATACCCTT
65 CTTTCCTTCAAACAGGGATAATAGAATACCCTT
*
16372703 AAATCGAGGTAATATTCCTTTATTTCGGGTTTTGAAAATGTGTGCATTAACTTACTAAGCGCGAC
1 AAATCGAGGTAATATTCCTTTATTTCGGGTTTTGAAAATGTATGCATTAACTTACTAAGCGCGAC
* * *
16372768 TTTCCTTTAAACCGGGATAATCGAATACCCTT
66 TTTCCTTCAAACAGGGATAATAGAATACCCTT
16372800 TTTCAAGGTT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 85 0.99
98 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (97 bp):
AAATCGAGGTAATATTCCTTTATTTCGGGTTTTGAAAATGTATGCATTAACTTACTAAGCGCGAC
TTTCCTTCAAACAGGGATAATAGAATACCCTT
Found at i:16382514 original size:18 final size:18
Alignment explanation
Indices: 16382467--16382516 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
16382457 CCTAAATAAT
* *
16382467 AAAATAAATA-AATTTAA
1 AAAATAAACATAATTAAA
* *
16382484 AAAA-AACCTTAATTAAA
1 AAAATAAACATAATTAAA
16382501 AAAATAAACATAATTA
1 AAAATAAACATAATTA
16382517 TCTAAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
16 2 0.08
17 14 0.56
18 9 0.36
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AAAATAAACATAATTAAA
Found at i:16382586 original size:13 final size:13
Alignment explanation
Indices: 16382568--16382592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16382558 ATATTAAAAT
16382568 ATTAAATTTATTC
1 ATTAAATTTATTC
16382581 ATTAAATTTATT
1 ATTAAATTTATT
16382593 AGAAAAAACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTAAATTTATTC
Found at i:16386148 original size:29 final size:28
Alignment explanation
Indices: 16386101--16386163 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
16386091 CCCAGCCTAA
16386101 TATATTATGTTATAAAATAATTATATTACT
1 TATA-TATGTTATAAAATAATTATA-TACT
*
16386131 TATATATGTTA-AATAATAATTATATATT
1 TATATATGTTATAA-AATAATTATATACT
16386159 TATAT
1 TATAT
16386164 TTATATTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 10 0.32
29 17 0.55
30 4 0.13
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (28 bp):
TATATATGTTATAAAATAATTATATACT
Found at i:16386371 original size:38 final size:38
Alignment explanation
Indices: 16386272--16386359 Score: 106
Period size: 39 Copynumber: 2.3 Consensus size: 38
16386262 AAAAATTATA
* * * * *
16386272 TTTAATACAATATAATATCTATTATATTTACTTGTGTTT
1 TTTAATATAATAAAAAATTTATTATATTTAC-TGTATTT
16386311 TTTAATATAATAAAAAATTTATTATATTTA-TGATATTT
1 TTTAATATAATAAAAAATTTATTATATTTACTG-TATTT
16386349 TTTAATATAAT
1 TTTAATATAAT
16386360 TTTTAATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
37 2 0.05
38 15 0.35
39 26 0.60
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (38 bp):
TTTAATATAATAAAAAATTTATTATATTTACTGTATTT
Found at i:16387947 original size:30 final size:31
Alignment explanation
Indices: 16387889--16387954 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
16387879 TGACTGAAAA
16387889 GGACTGTTTTGTCATATTTTCAAAAGTTGAG
1 GGACTGTTTTGTCATATTTTCAAAAGTTGAG
*
16387920 GGACTGTTTTGTCATATTTT-TAAAGTTGAG
1 GGACTGTTTTGTCATATTTTCAAAAGTTGAG
16387950 GGACT
1 GGACT
16387955 AAAATGTAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 14 0.41
31 20 0.59
ACGTcount: A:0.24, C:0.09, G:0.24, T:0.42
Consensus pattern (31 bp):
GGACTGTTTTGTCATATTTTCAAAAGTTGAG
Found at i:16390918 original size:15 final size:15
Alignment explanation
Indices: 16390878--16390971 Score: 104
Period size: 15 Copynumber: 6.3 Consensus size: 15
16390868 ATCATCGACG
16390878 TATTTATATGCGAA-
1 TATTTATATGCGAAC
*
16390892 T-TGTTGTATGCGAAC
1 TAT-TTATATGCGAAC
16390907 TATTTATATGCGAAC
1 TATTTATATGCGAAC
*
16390922 TACTTATATGCGAAC
1 TATTTATATGCGAAC
*
16390937 TGA-TTATATGTGAAC
1 T-ATTTATATGCGAAC
* *
16390952 TATTTATGTGCGAGC
1 TATTTATATGCGAAC
16390967 TATTT
1 TATTT
16390972 GGTAGGTGAA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.01
14 12 0.18
15 53 0.78
16 2 0.03
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (15 bp):
TATTTATATGCGAAC
Found at i:16394038 original size:23 final size:23
Alignment explanation
Indices: 16394007--16394051 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
16393997 ATATGTATAT
* * *
16394007 GAAATAAAAGAATAAAGAAGAAA
1 GAAACAAAAGAAAAAAAAAGAAA
16394030 GAAACAAAAGAAAAAAAAAGAA
1 GAAACAAAAGAAAAAAAAAGAA
16394052 GGAAGAACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.78, C:0.02, G:0.16, T:0.04
Consensus pattern (23 bp):
GAAACAAAAGAAAAAAAAAGAAA
Found at i:16394895 original size:41 final size:40
Alignment explanation
Indices: 16394847--16394947 Score: 100
Period size: 38 Copynumber: 2.6 Consensus size: 40
16394837 TCGACCTCGA
** *
16394847 GTCGATGAGACACTGGGTGTCATTATTTTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
* ** *
16394887 ATTCGATGAGGTACT-GG-GT-ACCACTTTACTTCGGCTAG
1 -GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
*
16394925 GCCGATGAGACACTGGGTGTCAC
1 GTCGATGAGACACTGGGTGTCAC
16394948 TTTATTGCTT
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
37 10 0.22
38 17 0.37
39 4 0.09
40 4 0.09
41 11 0.24
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (40 bp):
GTCGATGAGACACTGGGTGTCACCACTTTACTTCGGATAG
Found at i:16396691 original size:12 final size:12
Alignment explanation
Indices: 16396674--16396735 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
16396664 GGTTCGTTTA
*
16396674 TTATTAGCTCGT
1 TTATAAGCTCGT
* *
16396686 TTATTAGCTTGT
1 TTATAAGCTCGT
*
16396698 ATA-AAGCTCGT
1 TTATAAGCTCGT
*
16396709 TTA-AAGCCCGT
1 TTATAAGCTCGT
16396720 TTATAAGCTCGT
1 TTATAAGCTCGT
16396732 TTAT
1 TTAT
16396736 TAGACCCATC
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
11 18 0.43
12 24 0.57
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (12 bp):
TTATAAGCTCGT
Found at i:16396709 original size:23 final size:24
Alignment explanation
Indices: 16396679--16396738 Score: 70
Period size: 23 Copynumber: 2.6 Consensus size: 24
16396669 GTTTATTATT
**
16396679 AGCTCGTTTATTAGCTTGTATA-A
1 AGCTCGTTTATTAGCCCGTATATA
* *
16396702 AGCTCGTTTA-AAGCCCGTTTATA
1 AGCTCGTTTATTAGCCCGTATATA
16396725 AGCTCGTTTATTAG
1 AGCTCGTTTATTAG
16396739 ACCCATCAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 7 0.23
23 21 0.70
24 2 0.07
ACGTcount: A:0.25, C:0.17, G:0.18, T:0.40
Consensus pattern (24 bp):
AGCTCGTTTATTAGCCCGTATATA
Found at i:16396713 original size:11 final size:12
Alignment explanation
Indices: 16396652--16396735 Score: 66
Period size: 11 Copynumber: 7.0 Consensus size: 12
16396642 ATTCACGAAC
16396652 AAGCTCGTTTAT
1 AAGCTCGTTTAT
* *
16396664 -GGTTCGTTTATT
1 AAGCTCGTTTA-T
16396676 ATTAGCTCGTTTAT
1 A--AGCTCGTTTAT
* * *
16396690 TAGCTTGTATA-
1 AAGCTCGTTTAT
16396701 AAGCTCGTTTA-
1 AAGCTCGTTTAT
*
16396712 AAGCCCGTTTAT
1 AAGCTCGTTTAT
16396724 AAGCTCGTTTAT
1 AAGCTCGTTTAT
16396736 TAGACCCATC
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
11 26 0.47
12 20 0.36
14 1 0.02
15 8 0.15
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:16399007 original size:231 final size:232
Alignment explanation
Indices: 16398604--16399062 Score: 884
Period size: 231 Copynumber: 2.0 Consensus size: 232
16398594 TAGTGAATAG
16398604 GATTAGCATTGCAACTGATATGTGGAAGTCGAGTCAAAAAATTCAATACATGGTCTTGACAGCTC
1 GATTAGCATTGCAACTGATATGTGGAAGTCGAGTCAAAAAATTCAATACATGGTCTTGACAGCTC
16398669 ATTTTTTGGACTCGGATTGGAATTTGCAAAAAAGAATTTTGAACTTTGTTGATGTGCCTCCTCCG
66 ATTTTTTGGACTCGGATTGGAATTTGCAAAAAAGAATTTTGAACTTTGTTGATGTGCCTCCTCCG
16398734 CATAGTGGAGTTGTTGTATATGACGCATTGTACAAATGCTTACAAGACGGGGATATTGAA-GAAA
131 CATAGTGGAGTTGTTGTATATGACGCATTGTACAAATGCTTACAAGACGGGGATATTGAAGGAAA
16398798 AGTGTGCTCGATTTCCGTGGACAATGCTTCTTATAAT
196 AGTGTGCTCGATTTCCGTGGACAATGCTTCTTATAAT
*
16398835 GATTAGCATTGTAACTGATATGTGGAAGTCGAGTCAAAAAATTCAATACATGGTCTTGACAGCTC
1 GATTAGCATTGCAACTGATATGTGGAAGTCGAGTCAAAAAATTCAATACATGGTCTTGACAGCTC
**
16398900 ATTTTTTGGACTCGGATTGGAATTTGCAAAAAAGAATTTTGAACTTTGTTGATGTGCCTCCTTTG
66 ATTTTTTGGACTCGGATTGGAATTTGCAAAAAAGAATTTTGAACTTTGTTGATGTGCCTCCTCCG
16398965 CATAGTGGAGTTGTTGTATATGACGCATTGTACAAATGCTTACAAGACGGGGATATTGAAGGAAA
131 CATAGTGGAGTTGTTGTATATGACGCATTGTACAAATGCTTACAAGACGGGGATATTGAAGGAAA
16399030 AGTGTGCTCGATTTCCGTGGACAATGCTTCTTA
196 AGTGTGCTCGATTTCCGTGGACAATGCTTCTTA
16399063 CAATTATGCA
Statistics
Matches: 224, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
231 187 0.83
232 37 0.17
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (232 bp):
GATTAGCATTGCAACTGATATGTGGAAGTCGAGTCAAAAAATTCAATACATGGTCTTGACAGCTC
ATTTTTTGGACTCGGATTGGAATTTGCAAAAAAGAATTTTGAACTTTGTTGATGTGCCTCCTCCG
CATAGTGGAGTTGTTGTATATGACGCATTGTACAAATGCTTACAAGACGGGGATATTGAAGGAAA
AGTGTGCTCGATTTCCGTGGACAATGCTTCTTATAAT
Found at i:16400733 original size:36 final size:36
Alignment explanation
Indices: 16400686--16400757 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
16400676 TATTAGCACA
16400686 AACCGAAATTTTAATCGCTTTACTTCTTCTCTTCGT
1 AACCGAAATTTTAATCGCTTTACTTCTTCTCTTCGT
16400722 AACCGAAATTTTAATCGCTTTACTTCTTCTCTTCGT
1 AACCGAAATTTTAATCGCTTTACTTCTTCTCTTCGT
16400758 CTTTCTCCTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.22, C:0.25, G:0.08, T:0.44
Consensus pattern (36 bp):
AACCGAAATTTTAATCGCTTTACTTCTTCTCTTCGT
Found at i:16401481 original size:18 final size:18
Alignment explanation
Indices: 16401441--16401475 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16401431 TAAATAATAA
*
16401441 AATATTATTATTTATTAT
1 AATATTATTATTAATTAT
16401459 AATATTATTATTAATTA
1 AATATTATTATTAATTA
16401476 ATATATCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATATTATTATTAATTAT
Found at i:16407565 original size:15 final size:14
Alignment explanation
Indices: 16407545--16407575 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
16407535 AAATAATAAA
16407545 ATATTATTATTTATT
1 ATATTATTA-TTATT
16407560 ATATTATTATTATT
1 ATATTATTATTATT
16407574 AT
1 AT
16407576 TAACTAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
ATATTATTATTATT
Found at i:16408143 original size:20 final size:17
Alignment explanation
Indices: 16408107--16408145 Score: 51
Period size: 20 Copynumber: 2.1 Consensus size: 17
16408097 TCTAGTTTTA
16408107 TTTCATTATTTTTTAAT
1 TTTCATTATTTTTTAAT
16408124 TTTCATTTATGTTATTTAAT
1 TTTCA-TTAT-TT-TTTAAT
16408144 TT
1 TT
16408146 AATACATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 4 0.21
19 2 0.11
20 8 0.42
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTCATTATTTTTTAAT
Found at i:16409420 original size:24 final size:23
Alignment explanation
Indices: 16409393--16409564 Score: 170
Period size: 24 Copynumber: 7.4 Consensus size: 23
16409383 TTGGTTAGTT
16409393 ATAAACGAACATGTTCACGAACG
1 ATAAACGAACATGTTCACGAACG
16409416 CATAAACGAACATGTTCACGAACG
1 -ATAAACGAACATGTTCACGAACG
* *
16409440 CATAAACGAACATGTTCGCGAATG
1 -ATAAACGAACATGTTCACGAACG
* * ** *
16409464 TTAAACG-A-ATATAAATGAAC-
1 ATAAACGAACATGTTCACGAACG
* *
16409484 ATTAAACGAACATGTTCACAAACAT
1 A-TAAACGAACATGTTCACGAAC-G
*
16409509 ATAAACGAACATGTTCATGAACG
1 ATAAACGAACATGTTCACGAACG
* **
16409532 TTAAACGAACATGTTCGTGAACG
1 ATAAACGAACATGTTCACGAACG
16409555 ATAAACGAAC
1 ATAAACGAAC
16409565 GAGCACGAAC
Statistics
Matches: 122, Mismatches: 21, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
21 12 0.10
22 2 0.02
23 43 0.35
24 64 0.52
25 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (23 bp):
ATAAACGAACATGTTCACGAACG
Found at i:16413187 original size:16 final size:17
Alignment explanation
Indices: 16413156--16413187 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
16413146 ATACATTGCA
16413156 TGCGAACATATGTTATG
1 TGCGAACATATGTTATG
16413173 TGCGAACAT-TGTTAT
1 TGCGAACATATGTTAT
16413188 TGCATGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (17 bp):
TGCGAACATATGTTATG
Found at i:16413766 original size:13 final size:15
Alignment explanation
Indices: 16413703--16413771 Score: 52
Period size: 15 Copynumber: 4.7 Consensus size: 15
16413693 ATCGAACTGT
*
16413703 TTATATGTGAACTAA
1 TTATATGCGAACTAA
* * **
16413718 CTATATGCGAAATGT
1 TTATATGCGAACTAA
16413733 TGTATAT--GAACTAA
1 T-TATATGCGAACTAA
*
16413747 TTATATGCGAACTAT
1 TTATATGCGAACTAA
*
16413762 TTATGTGCGA
1 TTATATGCGA
16413772 GCTGTTTGGT
Statistics
Matches: 40, Mismatches: 11, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
13 5 0.12
14 5 0.12
15 25 0.62
16 5 0.12
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.38
Consensus pattern (15 bp):
TTATATGCGAACTAA
Found at i:16416795 original size:81 final size:81
Alignment explanation
Indices: 16416688--16416836 Score: 219
Period size: 81 Copynumber: 1.8 Consensus size: 81
16416678 TTACTGGTTC
* * * *
16416688 AACTTCTTGTGATGGTGGCTTTGCTTCA-GAATCTTTGATTTCAGTTTTGCAAGCTTCTTCACTA
1 AACTTCTTGTGAAGCTGGCTTGGCTTCAGGAA-CTTTGACTTCAGTTTTGCAAGCTTCTTCACTA
16416752 TCTTTCTTCGATGGTGG
65 TCTTTCTTCGATGGTGG
* * *
16416769 AACTTCTTGTGAAGCTGGGTTGGCTTCAGGAACTTTGACTTCATTTTTGGAAGCTTCTTCACTAT
1 AACTTCTTGTGAAGCTGGCTTGGCTTCAGGAACTTTGACTTCAGTTTTGCAAGCTTCTTCACTAT
16416834 CTT
66 CTT
16416837 CCTTTAAAGG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
81 57 0.95
82 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.21, T:0.43
Consensus pattern (81 bp):
AACTTCTTGTGAAGCTGGCTTGGCTTCAGGAACTTTGACTTCAGTTTTGCAAGCTTCTTCACTAT
CTTTCTTCGATGGTGG
Found at i:16416858 original size:81 final size:81
Alignment explanation
Indices: 16416664--16416861 Score: 193
Period size: 81 Copynumber: 2.4 Consensus size: 81
16416654 CCGAAGCCTG
* ** ** * * * * *
16416664 TTCACTATCTTCCTTTACTGGTTCAACTTCTTGTGATGGTGGCTTTGCTTCAGAATCTTTGATTT
1 TTCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGAAGCTGGCTTGGCTTCAGAATCTTTGACTT
16416729 CAGTTTTGCAAGCTTC
66 CAGTTTTGCAAGCTTC
* * * * *
16416745 TTCACTATCTTTCTTCGATGGTGGAACTTCTTGTGAAGCTGGGTTGGCTTCAGGAA-CTTTGACT
1 TTCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGAAGCTGGCTTGGCTTCA-GAATCTTTGACT
* *
16416809 TCATTTTTGGAAGCTTC
65 TCAGTTTTGCAAGCTTC
* *
16416826 TTCACTATCTTCCTTTAAAGGTCGG-GCCTCTTGTGA
1 TTCACTATCTTCCTTCAAAGGT-GGAACCTCTTGTGA
16416862 CGGCAGCTTT
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
81 91 0.95
82 5 0.05
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (81 bp):
TTCACTATCTTCCTTCAAAGGTGGAACCTCTTGTGAAGCTGGCTTGGCTTCAGAATCTTTGACTT
CAGTTTTGCAAGCTTC
Found at i:16418717 original size:18 final size:18
Alignment explanation
Indices: 16418664--16418720 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
16418654 CTGTACTTGT
* *
16418664 AGGCGGAT-CAGTTGTTGT
1 AGGCGGATCCA-TAGTTGC
* *
16418682 AGGTGGATCCTTAGTTGC
1 AGGCGGATCCATAGTTGC
16418700 AGGCGGATCCATAGTTGC
1 AGGCGGATCCATAGTTGC
16418718 AGG
1 AGG
16418721 TGCATCTGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
18 31 0.97
19 1 0.03
ACGTcount: A:0.19, C:0.16, G:0.37, T:0.28
Consensus pattern (18 bp):
AGGCGGATCCATAGTTGC
Found at i:16418736 original size:36 final size:36
Alignment explanation
Indices: 16418643--16418738 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
16418633 CTACATCACC
* *
16418643 TGCAGGTGGC-TCTGTACTTGTAGGCGGATCAGTTGT
1 TGCAGGT-GCATCTGTACTTGCAGGCGGATCAGTAGT
* * *
16418679 TGTAGGTGGATCCT-TAGTTGCAGGCGGATCCA-TAGT
1 TGCAGGTGCAT-CTGTACTTGCAGGCGGAT-CAGTAGT
16418715 TGCAGGTGCATCTGTACTTGCAGG
1 TGCAGGTGCATCTGTACTTGCAGG
16418739 AGGACCCGTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
35 3 0.06
36 41 0.85
37 4 0.08
ACGTcount: A:0.17, C:0.18, G:0.34, T:0.31
Consensus pattern (36 bp):
TGCAGGTGCATCTGTACTTGCAGGCGGATCAGTAGT
Found at i:16424484 original size:29 final size:29
Alignment explanation
Indices: 16424443--16424594 Score: 198
Period size: 29 Copynumber: 5.2 Consensus size: 29
16424433 TCGGAGAGAA
16424443 TTTG-GGGTCAAAATGTGATTTTGGAAAG
1 TTTGAGGGTCAAAATGTGATTTTGGAAAG
* *
16424471 TTTGAGGATCAAAATGTGGTTTTGGAAAG
1 TTTGAGGGTCAAAATGTGATTTTGGAAAG
* * *
16424500 TTTAAGGGTCAAAATATGATTTTTGGGAAG
1 TTTGAGGGTCAAAATGTGA-TTTTGGAAAG
*
16424530 TTTGAGGGTCAAAATGTGATTTTTGAAAG
1 TTTGAGGGTCAAAATGTGATTTTGGAAAG
* * *
16424559 TTTGGGGGTCAAAATATGATTTTGGATAG
1 TTTGAGGGTCAAAATGTGATTTTGGAAAG
*
16424588 TTCGAGG
1 TTTGAGG
16424595 ACCTACTGGG
Statistics
Matches: 105, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
28 4 0.04
29 75 0.71
30 26 0.25
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.36
Consensus pattern (29 bp):
TTTGAGGGTCAAAATGTGATTTTGGAAAG
Found at i:16424531 original size:59 final size:59
Alignment explanation
Indices: 16424447--16424595 Score: 203
Period size: 59 Copynumber: 2.6 Consensus size: 59
16424437 AGAGAATTTG
* *
16424447 GGGTCAAAATGTGA-TTTTGGAAAGTTTGAGGATCAAAATGTGGTTTTGGAAAGTTTAA
1 GGGTCAAAATATGATTTTTGGAAAGTTTGAGGATCAAAATGTGATTTTGGAAAGTTTAA
* * * **
16424505 GGGTCAAAATATGATTTTTGGGAAGTTTGAGGGTCAAAATGTGATTTTTGAAAGTTTGG
1 GGGTCAAAATATGATTTTTGGAAAGTTTGAGGATCAAAATGTGATTTTGGAAAGTTTAA
* *
16424564 GGGTCAAAATATGA-TTTTGGATAGTTCGAGGA
1 GGGTCAAAATATGATTTTTGGAAAGTTTGAGGA
16424596 CCTACTGGGC
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
58 27 0.34
59 52 0.66
ACGTcount: A:0.31, C:0.04, G:0.30, T:0.35
Consensus pattern (59 bp):
GGGTCAAAATATGATTTTTGGAAAGTTTGAGGATCAAAATGTGATTTTGGAAAGTTTAA
Found at i:16431630 original size:18 final size:20
Alignment explanation
Indices: 16431604--16431642 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
16431594 TTGTTTGTGG
*
16431604 ATTTTTAAAA-TA-TATTTT
1 ATTTATAAAATTATTATTTT
16431622 ATTTATAAAATTATTATTTT
1 ATTTATAAAATTATTATTTT
16431642 A
1 A
16431643 ATAAATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 2 0.11
20 7 0.39
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATAAAATTATTATTTT
Found at i:16431760 original size:22 final size:22
Alignment explanation
Indices: 16431730--16431771 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
16431720 GAAAACGATT
* *
16431730 TTTTTATTTTTAATTTTTAAAA
1 TTTTAATTTTGAATTTTTAAAA
*
16431752 TTTTAATTTTGATTTTTTAA
1 TTTTAATTTTGAATTTTTAA
16431772 GGAGTAAAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (22 bp):
TTTTAATTTTGAATTTTTAAAA
Found at i:16432138 original size:18 final size:18
Alignment explanation
Indices: 16432106--16432140 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
16432096 AATTTTATAC
*
16432106 GTCATAAAGACAAGACAA
1 GTCATAAAAACAAGACAA
*
16432124 GTCATAAAAATAAGACA
1 GTCATAAAAACAAGACA
16432141 TAATAAGTCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.14
Consensus pattern (18 bp):
GTCATAAAAACAAGACAA
Found at i:16433682 original size:20 final size:20
Alignment explanation
Indices: 16433657--16433694 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
16433647 ATTCTTTTAC
16433657 ATTTTTCCTCTTTTTCCTAT
1 ATTTTTCCTCTTTTTCCTAT
16433677 ATTTTTCCTCTTTTTCCT
1 ATTTTTCCTCTTTTTCCT
16433695 TTCTTGTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTCCTCTTTTTCCTAT
Found at i:16434974 original size:18 final size:18
Alignment explanation
Indices: 16434929--16434974 Score: 57
Period size: 13 Copynumber: 2.8 Consensus size: 18
16434919 AAAGACGTGT
16434929 TATGTGAATTGGTTATGA
1 TATGTGAATTGGTTATGA
16434947 TA--TGAA---GTTATGA
1 TATGTGAATTGGTTATGA
16434960 TATGTGAATTGGTTA
1 TATGTGAATTGGTTA
16434975 AAAAATGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
13 9 0.39
15 4 0.17
16 4 0.17
18 6 0.26
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (18 bp):
TATGTGAATTGGTTATGA
Found at i:16438294 original size:26 final size:26
Alignment explanation
Indices: 16438265--16438316 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
16438255 TTTTTCTTTG
* *
16438265 AAATTAATGTTTCTTGTATTATTTTT
1 AAATTAATATTGCTTGTATTATTTTT
*
16438291 AAATTAATATTGCTTGTATTTTTTTT
1 AAATTAATATTGCTTGTATTATTTTT
16438317 TGGTGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.04, G:0.08, T:0.62
Consensus pattern (26 bp):
AAATTAATATTGCTTGTATTATTTTT
Found at i:16439441 original size:20 final size:20
Alignment explanation
Indices: 16439416--16439479 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
16439406 AAAATAAAGG
16439416 ATTTATTATAATTTTTAATA
1 ATTTATTATAATTTTTAATA
* *
16439436 ATTTATTATATATCTTAAATA
1 ATTTATTATA-ATTTTTAATA
* *
16439457 ATTT-TTACAATTTTTAGTA
1 ATTTATTATAATTTTTAATA
16439476 ATTT
1 ATTT
16439480 GACAACATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 11 0.30
20 14 0.38
21 12 0.32
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (20 bp):
ATTTATTATAATTTTTAATA
Found at i:16439458 original size:21 final size:20
Alignment explanation
Indices: 16439416--16439460 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
16439406 AAAATAAAGG
* *
16439416 ATTTATTATAATTTTTAATA
1 ATTTATTATAATCTTAAATA
16439436 ATTTATTATATATCTTAAATA
1 ATTTATTATA-ATCTTAAATA
16439457 ATTT
1 ATTT
16439461 TTACAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
ATTTATTATAATCTTAAATA
Done.