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 49 of 126
Found at i:14493642 original size:3 final size:3
Alignment explanation
Indices: 14493634--14493694 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
14493624 ATCTAGAGAT
*
14493634 AAG AAG AAG AAAG AAG AAG AAG AAG AAG AAA AAG AAG AAG AAG -AG
1 AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
* *
14493679 GAG AA- AAG GAG AAG AA
1 AAG AAG AAG AAG AAG AA
14493695 AGGGAAAGAC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.86
4 3 0.06
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:14493672 original size:31 final size:31
Alignment explanation
Indices: 14493634--14493695 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
14493624 ATCTAGAGAT
14493634 AAGAAGAAGAA-AGAAGAAGAAGAAGAAGAAA
1 AAGAAGAAGAAGAGAAGAA-AAGAAGAAGAAA
* *
14493665 AAGAAGAAGAAGAGGAGAAAAGGAGAAGAAA
1 AAGAAGAAGAAGAGAAGAAAAGAAGAAGAAA
14493696 GGGAAAGACA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (31 bp):
AAGAAGAAGAAGAGAAGAAAAGAAGAAGAAA
Found at i:14493938 original size:141 final size:141
Alignment explanation
Indices: 14493741--14494064 Score: 503
Period size: 141 Copynumber: 2.3 Consensus size: 141
14493731 ATTTTTAAAA
* * *
14493741 AAAATTAATTTATTTTTAATTATTATAAAGTTTAATTTAATGTTTATGATTTGTTATAAATTTTT
1 AAAATT-ATTTTTTTTTAATTATTATAAAGTTTAGTTTAATGTTTATAATTTGTTAT-AATTTTT
14493806 TTGTTTAGTAGAATAGATTAAAGGAAAAAAAAAGCTAAAAGAGAGGT-AA-TTT-TTGTTG-TTG
64 TTGTTTAGTAG-ATAGATTAAAGG-AAAAAAAAGCTAAAAGAGAGGTAAATTTTGTTGTTGTTTG
14493867 TTTTTAATTTATTTT
127 TTTTTAATTTATTTT
14493882 AAAATTATTTTGTTTTTAATTATTATAAAGTTTAGTTTAATGTTTATAATTTGTTATAATTTTTT
1 AAAATTATTTT-TTTTTAATTATTATAAAGTTTAGTTTAATGTTTATAATTTGTTATAATTTTTT
** *
14493947 TGTTTAGTAGATAGATTAAAGGGGAAAAAAGCTAAAAGATAGGTAAATTTTGTTGTTGTTTGTTT
65 TGTTTAGTAGATAGATTAAAGGAAAAAAAAGCTAAAAGAGAGGTAAATTTTGTTGTTGTTTGTTT
14494012 TTAATTTATTTT
130 TTAATTTATTTT
* *
14494024 AAAATTATTATTATTTAATTATTATAAAGTTTAGTTTAATG
1 AAAATTATTTTTTTTTAATTATTATAAAGTTTAGTTTAATG
14494065 GATTTTTACC
Statistics
Matches: 170, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
138 19 0.11
139 14 0.08
140 25 0.15
141 84 0.49
142 28 0.16
ACGTcount: A:0.36, C:0.01, G:0.13, T:0.50
Consensus pattern (141 bp):
AAAATTATTTTTTTTTAATTATTATAAAGTTTAGTTTAATGTTTATAATTTGTTATAATTTTTTT
GTTTAGTAGATAGATTAAAGGAAAAAAAAGCTAAAAGAGAGGTAAATTTTGTTGTTGTTTGTTTT
TAATTTATTTT
Found at i:14497422 original size:16 final size:16
Alignment explanation
Indices: 14497401--14497435 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14497391 ACAAACATAA
14497401 ACATAATTAATGAAAT
1 ACATAATTAATGAAAT
*
14497417 ACATAATTAATTAAAT
1 ACATAATTAATGAAAT
14497433 ACA
1 ACA
14497436 AACATAAACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (16 bp):
ACATAATTAATGAAAT
Found at i:14497918 original size:26 final size:27
Alignment explanation
Indices: 14497848--14497919 Score: 92
Period size: 27 Copynumber: 2.7 Consensus size: 27
14497838 TATATATGGT
* *
14497848 CTGACCAACCCGTATAATATTCATAGC
1 CTGACCAACCCGTATGATATCCATAGC
*
14497875 CTGACCAACCCGTATGATATCCATGGC
1 CTGACCAACCCGTATGATATCCATAGC
* *
14497902 TTGACC-ACCCGGATGATA
1 CTGACCAACCCGTATGATA
14497920 AGACTCGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 11 0.28
27 29 0.73
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (27 bp):
CTGACCAACCCGTATGATATCCATAGC
Found at i:14499878 original size:17 final size:17
Alignment explanation
Indices: 14499856--14499888 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
14499846 TATTTTAAAA
14499856 TATTTT-AATAAAATTAT
1 TATTTTCAA-AAAATTAT
14499873 TATTTTCAAAAAATTA
1 TATTTTCAAAAAATTA
14499889 AAAAATCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (17 bp):
TATTTTCAAAAAATTAT
Found at i:14499899 original size:25 final size:27
Alignment explanation
Indices: 14499860--14499910 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
14499850 TTAAAATATT
*
14499860 TTAATAAAATTATTATT-TTCAAAAAA
1 TTAATAAAATCATTATTATTCAAAAAA
*
14499886 TTAA-AAAATCATTATTATTTAAAAA
1 TTAATAAAATCATTATTATTCAAAAA
14499911 TACAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (27 bp):
TTAATAAAATCATTATTATTCAAAAAA
Found at i:14500052 original size:18 final size:17
Alignment explanation
Indices: 14500029--14500064 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14500019 GAGAATTAAT
14500029 AAATAAAAATAACAAAAA
1 AAAT-AAAATAACAAAAA
*
14500047 AAATAAATTAACAAAAA
1 AAATAAAATAACAAAAA
14500064 A
1 A
14500065 GTAAATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.81, C:0.06, G:0.00, T:0.14
Consensus pattern (17 bp):
AAATAAAATAACAAAAA
Found at i:14500632 original size:9 final size:9
Alignment explanation
Indices: 14500618--14500754 Score: 59
Period size: 9 Copynumber: 14.6 Consensus size: 9
14500608 ATTTTTAATA
14500618 AAAAATTAT
1 AAAAATTAT
*
14500627 AAAAATATTTT
1 -AAAA-ATTAT
**
14500638 AAATTTTATT
1 AAAAATTA-T
*
14500648 AAAAATATAA
1 AAAAAT-TAT
14500658 AAAAATTAT
1 AAAAATTAT
*
14500667 AAAAATTGT
1 AAAAATTAT
14500676 AAAAA-TAT
1 AAAAATTAT
*
14500684 AAATA-TAT
1 AAAAATTAT
* *
14500692 AGAAATATAGA
1 AAAAAT-TA-T
14500703 AAAAATTAT
1 AAAAATTAT
*
14500712 AAAATTTA-
1 AAAAATTAT
14500720 ATAAAATCGTA-
1 A-AAAAT--TAT
14500731 AGAAAATTAT
1 A-AAAATTAT
14500741 AGAAAA-TAT
1 A-AAAATTAT
14500750 AAAAA
1 AAAAA
14500755 AATATAAAAT
Statistics
Matches: 98, Mismatches: 19, Indels: 22
0.71 0.14 0.16
Matches are distributed among these distances:
8 17 0.17
9 34 0.35
10 28 0.29
11 19 0.19
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:14500640 original size:11 final size:10
Alignment explanation
Indices: 14500615--14500763 Score: 61
Period size: 10 Copynumber: 15.6 Consensus size: 10
14500605 TTAATTTTTA
14500615 ATAAAAAATT
1 ATAAAAAATT
14500625 ATAAAAATATT
1 ATAAAAA-ATT
* **
14500636 -TTAAATTTT
1 ATAAAAAATT
*
14500645 ATTAAAAA-T
1 ATAAAAAATT
14500654 ATAAAAAAATT
1 AT-AAAAAATT
14500665 AT-AAAAATT
1 ATAAAAAATT
*
14500674 GT-AAAAA-T
1 ATAAAAAATT
*
14500682 AT-AAATA-T
1 ATAAAAAATT
*
14500690 AT-AGAAATAT
1 ATAAAAAAT-T
*
14500700 AGAAAAAATT
1 ATAAAAAATT
14500710 AT--AAAATT
1 ATAAAAAATT
*
14500718 -TAATAAAATC
1 ATAA-AAAATT
*
14500728 GTAAGAAAATT
1 ATAA-AAAATT
*
14500739 ATAGAAAA-T
1 ATAAAAAATT
*
14500748 ATAAAAAAAT
1 ATAAAAAATT
14500758 ATAAAA
1 ATAAAA
14500764 TTCGTAAAAA
Statistics
Matches: 107, Mismatches: 20, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
7 1 0.01
8 18 0.17
9 26 0.24
10 41 0.38
11 21 0.20
ACGTcount: A:0.64, C:0.01, G:0.04, T:0.31
Consensus pattern (10 bp):
ATAAAAAATT
Found at i:14500651 original size:31 final size:30
Alignment explanation
Indices: 14500586--14500669 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 30
14500576 AATAAAAAAC
*
14500586 AATAAAAATTATAAAAATA--TTAATTTTT
1 AATAAAAATTATAAAAATATTTTAAATTTT
14500614 AATAAAAAATTATAAAAATATTTTAAATTTT
1 AAT-AAAAATTATAAAAATATTTTAAATTTT
* * *
14500645 ATTAAAAA-TATAAAAAAATTATAAA
1 AATAAAAATTATAAAAATATTTTAAA
14500670 AATTGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
28 3 0.06
29 31 0.63
30 5 0.10
31 10 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (30 bp):
AATAAAAATTATAAAAATATTTTAAATTTT
Found at i:14500669 original size:29 final size:29
Alignment explanation
Indices: 14500588--14500686 Score: 78
Period size: 29 Copynumber: 3.4 Consensus size: 29
14500578 TAAAAAACAA
* *
14500588 TAAAAAT-TATAAAAA-TATTAATTTTTAAT
1 TAAAAATATAAAAAAATTA-TAAATTTT-AT
* * *
14500617 AAAAAATTATAAAAATATTTTAAATTTTAT
1 TAAAAA-TATAAAAAAATTATAAATTTTAT
** *
14500647 TAAAAATATAAAAAAATTATAAAAATT-G
1 TAAAAATATAAAAAAATTATAAATTTTAT
14500675 TAAAAATATAAA
1 TAAAAATATAAA
14500687 TATATAGAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
28 12 0.21
29 22 0.39
30 8 0.14
31 13 0.23
32 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (29 bp):
TAAAAATATAAAAAAATTATAAATTTTAT
Found at i:14502471 original size:8 final size:8
Alignment explanation
Indices: 14502458--14502483 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
14502448 ACTTAAATTC
14502458 TTTAAGTG
1 TTTAAGTG
14502466 TTTAAGTG
1 TTTAAGTG
14502474 TTTAAGTG
1 TTTAAGTG
14502482 TT
1 TT
14502484 GAGTTGATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (8 bp):
TTTAAGTG
Found at i:14508969 original size:14 final size:14
Alignment explanation
Indices: 14508945--14508982 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14508935 ATATTTAATA
14508945 TAAAA-TTATAAAT
1 TAAAATTTATAAAT
*
14508958 TAAAATTTATAATT
1 TAAAATTTATAAAT
*
14508972 TATAATTTATA
1 TAAAATTTATA
14508983 TTAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TAAAATTTATAAAT
Found at i:14510577 original size:18 final size:18
Alignment explanation
Indices: 14510554--14510594 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14510544 AGCTAAAAAT
* *
14510554 GAAGAAGAAGATCCTGAG
1 GAAGAAAAAAATCCTGAG
14510572 GAAGAAAAAAATCCTGAG
1 GAAGAAAAAAATCCTGAG
14510590 GAAGA
1 GAAGA
14510595 TCCTGTGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.51, C:0.10, G:0.29, T:0.10
Consensus pattern (18 bp):
GAAGAAAAAAATCCTGAG
Found at i:14532009 original size:19 final size:20
Alignment explanation
Indices: 14531976--14532014 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14531966 CCTATAAAAA
* *
14531976 TTAAAAATTATTAAATTTAT
1 TTAAAAAGTATTAAAATTAT
14531996 TTAAAAAGTA-TAAAATTAT
1 TTAAAAAGTATTAAAATTAT
14532015 AAAAAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
TTAAAAAGTATTAAAATTAT
Found at i:14534261 original size:18 final size:19
Alignment explanation
Indices: 14534224--14534261 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
14534214 TTTATGGTTT
*
14534224 TAAATAATTTTGGGTAAAA
1 TAAATAATTTTAGGTAAAA
*
14534243 TAAAT-ATTTTAGGTTAAA
1 TAAATAATTTTAGGTAAAA
14534261 T
1 T
14534262 TGGAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (19 bp):
TAAATAATTTTAGGTAAAA
Found at i:14538026 original size:22 final size:22
Alignment explanation
Indices: 14537999--14538044 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
14537989 ATTGTTTATA
14537999 TATATATTTATTTATTTTACTTTC
1 TATATA-TTA-TTATTTTACTTTC
*
14538023 TATATATTATTATTTTTCTTTC
1 TATATATTATTATTTTACTTTC
14538045 GAAACCAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.57
23 3 0.14
24 6 0.29
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (22 bp):
TATATATTATTATTTTACTTTC
Found at i:14547125 original size:50 final size:50
Alignment explanation
Indices: 14547050--14547150 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
14547040 TGCATTGACG
14547050 TGTGTCCGCTTGCATAACTGCTATGACGTTACAGGCCGATCAATCCACAA
1 TGTGTCCGCTTGCATAACTGCTATGACGTTACAGGCCGATCAATCCACAA
14547100 TGTGTCCGCTTGCATAACTGCTATGACGTTACAGGCCGATCAATCCACAA
1 TGTGTCCGCTTGCATAACTGCTATGACGTTACAGGCCGATCAATCCACAA
14547150 T
1 T
14547151 CATGGACATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (50 bp):
TGTGTCCGCTTGCATAACTGCTATGACGTTACAGGCCGATCAATCCACAA
Found at i:14551613 original size:55 final size:55
Alignment explanation
Indices: 14551467--14551615 Score: 154
Period size: 55 Copynumber: 2.7 Consensus size: 55
14551457 AAAAATATTT
* * * * * *
14551467 GAAATAGGGGCACACGATCGTGTGCCAGCCTGTGTACTTGCCCGTGTGTGATTGC
1 GAAATAGGGTCACACGATCGTGTGTCAGCCCGTGTGCTCGCCCGTGTGTGAGTGC
** * * * * * *
14551522 GAAATAAAGTCACACAATCATGTGTCAACTCATGTGCTCGCTCGTGTGTGAGTGC
1 GAAATAGGGTCACACGATCGTGTGTCAGCCCGTGTGCTCGCCCGTGTGTGAGTGC
* *
14551577 GAAATAGGGTCACACGATTGTGTATCAGCCCGTGTGCTC
1 GAAATAGGGTCACACGATCGTGTGTCAGCCCGTGTGCTC
14551616 CTAAAATTTA
Statistics
Matches: 71, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
55 71 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (55 bp):
GAAATAGGGTCACACGATCGTGTGTCAGCCCGTGTGCTCGCCCGTGTGTGAGTGC
Found at i:14561529 original size:34 final size:36
Alignment explanation
Indices: 14561475--14561612 Score: 156
Period size: 36 Copynumber: 3.9 Consensus size: 36
14561465 CGATCGATAT
* * * *
14561475 TCGTTTTACTCCTTGTTGACCCAAAGGTCATTATTC
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATGATGC
* * * * * *
14561511 TCGTTTTAC-ACC-AATGACCTAGAGGTCATGACGA
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATGATGC
14561545 TCGTTTTACTCCCTATTGA-CCAAGAGGTCATGATGC
1 TCGTTTTACTCCCTATTGACCCAA-AGGTCATGATGC
14561581 TCGTTTTACTCCCTATTGACCCAAAGGTCATG
1 TCGTTTTACTCCCTATTGACCCAAAGGTCATG
14561613 CCTGTTACCA
Statistics
Matches: 82, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
34 23 0.28
35 5 0.06
36 50 0.61
37 4 0.05
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (36 bp):
TCGTTTTACTCCCTATTGACCCAAAGGTCATGATGC
Found at i:14572592 original size:146 final size:142
Alignment explanation
Indices: 14572446--14572972 Score: 624
Period size: 146 Copynumber: 3.7 Consensus size: 142
14572436 TTTTTATTAA
* * * * * *
14572446 AAAAATCAAAAGTTTTCTTTTGATTAAAACAAAATCACTATTTTACTTCAAAATCAAAATTTTTA
1 AAAAATCAAAACTTTTCTTTT-TTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTA
*
14572511 TTTCGAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTCTTTAAAATCACCA
65 TTTCGAAATAGTT-AAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTCTTTAAAATCAACA
*
14572576 GATTTTTATTTTTT
129 TATTTTTATTTTTT
* * * *
14572590 AAAAATCTAAACTTTCTTTCTTTTTTTTAATGAAAATCACCCA-TTTACTTAAAAATCTAAACTT
1 AAAAATCAAAAC--T-TTTCTTTTTTTTAAAGAAAATCA-CTATTTTACTTAAAAATCAAAACTT
*
14572654 TTATTTCGAAATAGTTAAAAAAATCAAAACTTTATTTAAAAATTTAAACATTTTCTTTAAAATAA
62 TTATTTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAAAC-TTTTCTTTAAAAT--
*
14572719 CTAAAAATTTTATTTTTATTTTTT
124 C--AACA---TATTTTTATTTTTT
* *
14572743 AAAAAT-ATAAACTTTCTCTTTTTTTTAAAGAAAATCACTATTTTAC-TCAAAATCCAAACTTTT
1 AAAAATCA-AAACTTT-TCTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTT
* *
14572806 ATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTATTC--TAAAA--AAC
64 ATTTCGAAATAGTT-AAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTCTTTAAAATCAAC
14572867 ATATTTTTA-TTTTT
128 ATATTTTTATTTTTT
* *
14572881 AAAAATCTAAACTTTTC--TTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAGCTTTTAT
1 AAAAATCAAAACTTTTCTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTAT
* * *
14572944 TTTGAAATTGTTTAAAAAATCAAAACTTT
66 TTCGAAATAGTTAAAAAAATCAAAACTTT
14572973 TCCCAAAATC
Statistics
Matches: 334, Mismatches: 31, Indels: 45
0.81 0.08 0.11
Matches are distributed among these distances:
135 42 0.13
136 25 0.07
137 2 0.01
138 18 0.05
139 8 0.02
142 3 0.01
144 10 0.03
145 32 0.10
146 59 0.18
147 10 0.03
148 6 0.02
150 38 0.11
151 58 0.17
153 23 0.07
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (142 bp):
AAAAATCAAAACTTTTCTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAAACTTTTAT
TTCGAAATAGTTAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTTTTCTTTAAAATCAACATA
TTTTTATTTTTT
Found at i:14572843 original size:151 final size:139
Alignment explanation
Indices: 14572476--14572972 Score: 585
Period size: 151 Copynumber: 3.5 Consensus size: 139
14572466 TGATTAAAAC
* * *
14572476 AAAATCACTATTTTACTTCAAAATCAAAATTTTTATTTCGAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
* * * *
14572541 TGTTTAAAAATTTAAACTTTTCTTTAAAATCACCAGATTTTTATTTTTTAAAAATCTAAACTTTC
65 TATTTAAAAATTTAAACTATTC--TAAAA--AACATATTTTTATTTTTTAAAAATCTAAACTTTC
*
14572606 TTTCTTTTTTTTAATG
126 --TCTTTTTTTTAAAG
* *
14572622 AAAATCACCCA-TTTACTTAAAAATCTAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTT
1 AAAATCA-CTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTT
* *
14572686 TATTTAAAAATTTAAACATTTTCTTTAAAATAACTAAAAATTTTATTTTTATTTTTTAAAAATAT
65 TATTTAAAAATTTAAAC-TATTC--TAAAA-AAC-----A---TATTTTTATTTTTTAAAAATCT
14572751 AAACTTTCTCTTTTTTTTAAAG
118 AAACTTTCTCTTTTTTTTAAAG
* *
14572773 AAAATCACTATTTTAC-TCAAAATCCAAACTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTT
1 AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTT-AAAAAAATCAAAACTT
*
14572837 TGTTTAAAAATTTAAACTATTCTAAAAAACATATTTTTA-TTTTTAAAAATCTAAACTTT-TC--
65 TATTTAAAAATTTAAACTATTCTAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTCTCTT
14572898 TTTTTTAAAG
130 TTTTTTAAAG
* * *
14572908 AAAATCACTATTTTACTTAAAAAT-CAAAGCTTTTATTTTGAAATTGTTTAAAAAATCAAAACTT
1 AAAATCACTATTTTACTTAAAAATCCAAA-CTTTTATTTCGAAATAGTTAAAAAAATCAAAACTT
14572972 T
65 T
14572973 TCCCAAAATC
Statistics
Matches: 315, Mismatches: 22, Indels: 39
0.84 0.06 0.10
Matches are distributed among these distances:
135 46 0.15
136 22 0.07
137 2 0.01
138 19 0.06
139 8 0.03
142 1 0.00
145 34 0.11
146 53 0.17
147 5 0.02
148 5 0.02
150 35 0.11
151 57 0.18
153 28 0.09
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (139 bp):
AAAATCACTATTTTACTTAAAAATCCAAACTTTTATTTCGAAATAGTTAAAAAAATCAAAACTTT
ATTTAAAAATTTAAACTATTCTAAAAAACATATTTTTATTTTTTAAAAATCTAAACTTTCTCTTT
TTTTTAAAG
Found at i:14573017 original size:135 final size:137
Alignment explanation
Indices: 14572732--14572990 Score: 332
Period size: 135 Copynumber: 1.9 Consensus size: 137
14572722 AAAATTTTAT
*
14572732 TTTTATTTTTTAAAAATATAAACTTTCTCTTTTTTTTAAAGAAAATCACTATTTTACTCAAAATC
1 TTTTA-TTTTTAAAAATATAAACTTTCTC-TTTTTTTAAAGAAAATCACTATTTTACTAAAAATC
** *
14572797 CAAACTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTTTAAAAATTTAAACTATTCTAA
64 CAAACTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTCCAAAAATTCAAACTATTCTAA
*
14572862 AAAACATAT
129 AAAACATAC
*
14572871 TTTTATTTTTAAAAATCTAAACTTT-TC-TTTTTTAAAGAAAATCACTATTTTACTTAAAAAT-C
1 TTTTATTTTTAAAAATATAAACTTTCTCTTTTTTTAAAGAAAATCACTATTTTAC-TAAAAATCC
** * * * *
14572933 AAAGCTTTTATTTTGAAATTGTT-TAAAAAATCAAAACTTT-TCCCAAAA-TCAAGCTATT
65 AAA-CTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTCCAAAAATTCAAACTATT
14572991 TTCCTTTTAA
Statistics
Matches: 107, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
133 8 0.07
134 5 0.05
135 46 0.43
136 22 0.21
137 2 0.02
138 19 0.18
139 5 0.05
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (137 bp):
TTTTATTTTTAAAAATATAAACTTTCTCTTTTTTTAAAGAAAATCACTATTTTACTAAAAATCCA
AACTTTTATTTCAAAATAGTTAAAAAAAATCAAAACTTTGTCCAAAAATTCAAACTATTCTAAAA
AACATAC
Found at i:14576756 original size:15 final size:15
Alignment explanation
Indices: 14576738--14576780 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
14576728 AACTTCCTCT
*
14576738 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTCC
14576753 TTTTCTTCTTCTTCC
1 TTTTCTTCTTCTTCC
*
14576768 TTCTCTTCCTTCT
1 TTTTCTT-CTTCT
14576781 CTTCCTTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 20 0.80
16 5 0.20
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (15 bp):
TTTTCTTCTTCTTCC
Found at i:14576763 original size:18 final size:19
Alignment explanation
Indices: 14576740--14576787 Score: 64
Period size: 18 Copynumber: 2.6 Consensus size: 19
14576730 CTTCCTCTTT
* *
14576740 TTCTTCTTCTTTCT-TTTC
1 TTCTTCTTCCTTCTCTTCC
14576758 TTCTTCTTCCTTCTCTTCC
1 TTCTTCTTCCTTCTCTTCC
14576777 TTC-TCTTCCTT
1 TTCTTCTTCCTT
14576788 AATACCCCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 21 0.78
19 6 0.22
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
TTCTTCTTCCTTCTCTTCC
Found at i:14576774 original size:9 final size:9
Alignment explanation
Indices: 14576744--14576787 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
14576734 CTCTTTTTCT
*
14576744 TCTTCTTTC
1 TCTTCCTTC
*
14576753 T-TTTCTTC
1 TCTTCCTTC
14576761 TTCTTCCTTC
1 -TCTTCCTTC
14576771 TCTTCCTTC
1 TCTTCCTTC
14576780 TCTTCCTT
1 TCTTCCTT
14576788 AATACCCCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
8 5 0.17
9 19 0.63
10 6 0.20
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (9 bp):
TCTTCCTTC
Found at i:14579866 original size:22 final size:22
Alignment explanation
Indices: 14579838--14579881 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14579828 CTTTCAGTGA
14579838 CCAATTATACTAAATGGTGGTT
1 CCAATTATACTAAATGGTGGTT
14579860 CCAATTATACTAAATGGTGGTT
1 CCAATTATACTAAATGGTGGTT
14579882 TTTCACAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (22 bp):
CCAATTATACTAAATGGTGGTT
Found at i:14595194 original size:12 final size:12
Alignment explanation
Indices: 14595160--14595266 Score: 59
Period size: 12 Copynumber: 9.2 Consensus size: 12
14595150 ATTTCAAAAA
*
14595160 TAATA-TTATTT
1 TAATATTTAATT
14595171 TAATAGTTTAATGT
1 TAATA-TTTAAT-T
14595185 TAA-ATTTAATT
1 TAATATTTAATT
*
14595196 TAATATTTATTT
1 TAATATTTAATT
*
14595208 TAATA-GT-ATT
1 TAATATTTAATT
14595218 T--TA-TTAATT
1 TAATATTTAATT
* *
14595227 TAATATTAAAGT
1 TAATATTTAATT
* *
14595239 GATTATCTTAATAT
1 TAATAT-TTAAT-T
14595253 TAA-ATTTAATT
1 TAATATTTAATT
14595264 TAA
1 TAA
14595267 CGTTTATCTA
Statistics
Matches: 73, Mismatches: 13, Indels: 20
0.69 0.12 0.19
Matches are distributed among these distances:
8 3 0.04
9 4 0.05
10 3 0.04
11 16 0.22
12 31 0.42
13 10 0.14
14 6 0.08
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.54
Consensus pattern (12 bp):
TAATATTTAATT
Found at i:14599650 original size:68 final size:69
Alignment explanation
Indices: 14599444--14599861 Score: 356
Period size: 68 Copynumber: 6.1 Consensus size: 69
14599434 CACATCGAAG
* * * * * * *
14599444 CCTCCAACACAGTTAGTGAGAGCAAAGCTCTCAACTGTCATATT-AGGTTGGTAAGCAAAGAGTC
1 CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
14599508 GCAA
66 GCAA
* * * * ** * * * **
14599512 CCTCTAACATAGTTAACGAAAGCAAAGCTCCCCGCTGTTATATTAAGATCCGCAAACGAAGAGCC
1 CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
*
14599577 ACAA
66 GCAA
* * * * *
14599581 CCTCCAACACAATTAGTGAGAGCAAAGCT-TCAACTATCATATTAAGGTTCGCAGGCGAAGACCC
1 CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
14599645 GCAA
66 GCAA
* ** * * * *
14599649 CCTACAACGTAGTTAGCGAGAGCAAAGCTCCCAATTGTCATTTTAAGATTCGCAGGCGAAGAGCT
1 CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
14599714 GCAA
66 GCAA
* * **** * *
14599718 CCTCCAACACAGTTAGTGAAAGCAAAGCTCTTGGCTGTCAT-TTAAGGTTCGCAGGCAAAGAGCT
1 CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
*
14599782 ACAA
66 GCAA
* * * * * * * * * *
14599786 CCTCTAACACAGTTAGCAAGAGAAAAGCTCCCAATTCTCATTTTAAGGTTCGTATGCAAAGAGTC
1 CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
*
14599851 GCAG
66 GCAA
14599855 CCTCCAA
1 CCTCCAA
14599862 AACAACTCAC
Statistics
Matches: 270, Mismatches: 77, Indels: 5
0.77 0.22 0.01
Matches are distributed among these distances:
68 141 0.52
69 129 0.48
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.21
Consensus pattern (69 bp):
CCTCCAACACAGTTAGCGAGAGCAAAGCTCCCAACTGTCATATTAAGGTTCGCAGGCGAAGAGCC
GCAA
Found at i:14599820 original size:137 final size:138
Alignment explanation
Indices: 14599444--14599837 Score: 449
Period size: 137 Copynumber: 2.9 Consensus size: 138
14599434 CACATCGAAG
* * *
14599444 CCTCCAACACAGTTAGTGAGAGCAAAGCTCTCAACTGTCATATT-AGGTTGGTAAGCAAAGAG-T
1 CCTCCAACACAGTTAGTGAGAGCAAAGCTCTCAACTGTCATATTAAGGTTCGCAGGCAAAGAGCT
* *** * * *
14599507 CGCAACCTCTAACATAGTTAACGAA-AGCAAAGCTCCCCGCTGTTATATTAAGATCCGCAAACGA
66 -GCAACCTCTAACATAGTTAGC-AAGAGCAAAGCTCCCAATTGTCATTTTAAGATTCGCAAACGA
14599571 AGAGCCACAA
129 AGAGCCACAA
* * * * *
14599581 CCTCCAACACAATTAGTGAGAGCAAAGCT-TCAACTATCATATTAAGGTTCGCAGGCGAAGACCC
1 CCTCCAACACAGTTAGTGAGAGCAAAGCTCTCAACTGTCATATTAAGGTTCGCAGGCAAAGAGCT
* * **
14599645 GCAACCTAC-AACGTAGTTAGCGAGAGCAAAGCTCCCAATTGTCATTTTAAGATTCGCAGGCGAA
66 GCAACCT-CTAACATAGTTAGCAAGAGCAAAGCTCCCAATTGTCATTTTAAGATTCGCAAACGAA
**
14599709 GAGCTGCAA
130 GAGCCACAA
* ***
14599718 CCTCCAACACAGTTAGTGAAAGCAAAGCTCTTGGCTGTCAT-TTAAGGTTCGCAGGCAAAGAGCT
1 CCTCCAACACAGTTAGTGAGAGCAAAGCTCTCAACTGTCATATTAAGGTTCGCAGGCAAAGAGCT
* * * * *
14599782 ACAACCTCTAACACAGTTAGCAAGAGAAAAGCTCCCAATTCTCATTTTAAGGTTCG
66 GCAACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCAATTGTCATTTTAAGATTCG
14599838 TATGCAAAGA
Statistics
Matches: 214, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
136 15 0.07
137 191 0.89
138 8 0.04
ACGTcount: A:0.34, C:0.25, G:0.20, T:0.22
Consensus pattern (138 bp):
CCTCCAACACAGTTAGTGAGAGCAAAGCTCTCAACTGTCATATTAAGGTTCGCAGGCAAAGAGCT
GCAACCTCTAACATAGTTAGCAAGAGCAAAGCTCCCAATTGTCATTTTAAGATTCGCAAACGAAG
AGCCACAA
Found at i:14599908 original size:23 final size:23
Alignment explanation
Indices: 14599882--14599926 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
14599872 GAATTCACAC
14599882 CCCAACTGATTATTTTAAAATTT
1 CCCAACTGATTATTTTAAAATTT
**
14599905 CCCAGTTGATTATTTTAAAATT
1 CCCAACTGATTATTTTAAAATT
14599927 CACAAATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (23 bp):
CCCAACTGATTATTTTAAAATTT
Found at i:14603237 original size:34 final size:34
Alignment explanation
Indices: 14603188--14603253 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
14603178 TGATTTTCCG
*
14603188 ATCCAAAAACTACCTCGATAGTGTTGATCATACT
1 ATCCAAAAACCACCTCGATAGTGTTGATCATACT
*
14603222 ATCCAAACACCACCTCGATAGTGTTGATCATA
1 ATCCAAAAACCACCTCGATAGTGTTGATCATA
14603254 GTCTATGCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (34 bp):
ATCCAAAAACCACCTCGATAGTGTTGATCATACT
Found at i:14619217 original size:16 final size:17
Alignment explanation
Indices: 14619182--14619219 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
14619172 CTTTTCTACG
* *
14619182 TTTGGATGTTTTTGTGT
1 TTTGGATGGTTTTGTAT
14619199 TTTGGATGGTTTTG-AT
1 TTTGGATGGTTTTGTAT
14619215 TTTGG
1 TTTGG
14619220 TTATGGAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 6 0.32
17 13 0.68
ACGTcount: A:0.08, C:0.00, G:0.32, T:0.61
Consensus pattern (17 bp):
TTTGGATGGTTTTGTAT
Found at i:14620357 original size:21 final size:21
Alignment explanation
Indices: 14620315--14620357 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14620305 AATTCTATCC
* *
14620315 TCATATTCAATATCATACATT
1 TCATACTCAATATCATAAATT
14620336 TCATACTCAATCAT-ATAAATT
1 TCATACTCAAT-ATCATAAATT
14620357 T
1 T
14620358 TAGTACTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (21 bp):
TCATACTCAATATCATAAATT
Found at i:14628871 original size:507 final size:507
Alignment explanation
Indices: 14627918--14628931 Score: 1956
Period size: 507 Copynumber: 2.0 Consensus size: 507
14627908 ATGGGTGAAT
14627918 TTTAATTATTGAATTAAAAGTTTGTATGAGTGGTTTGGTTCAAAAGTCAAGTGGTGTTAGAAAAT
1 TTTAATTATTGAATTAAAAGTTTGTATGAGTGGTTTGGTTCAAAAGTCAAGTGGTGTTAGAAAAT
* *
14627983 GAGATATCGGGACCTCATTTCTGAAATTAAGGATCGTAAATATTTTATTAAATATTTATAGAGTC
66 GAGATATCGGGACCTCATTTCTAAAATTAAGGATCGTAAATATTTTATTAAATATTTATAGAATC
14628048 TTATTATATGTGAATTGAAGTTTGGTTGGGTAATTTTGATTATTAATTGCTTAATTAAGGAAAAA
131 TTATTATATGTGAATTGAAGTTTGGTTGGGTAATTTTGATTATTAATTGCTTAATTAAGGAAAAA
14628113 TGAGTAAATTGTAAATGAGGTAAAAGTTAATTACTATTAATTAAAAATAGTAAAGGGACCAAAAT
196 TGAGTAAATTGTAAATGAGGTAAAAGTTAATTACTATTAATTAAAAATAGTAAAGGGACCAAAAT
*
14628178 GATAATTAAACTAGGATAAATGTAACCCCTTTTACCCGGCCCAAGAGATATGATCGGATCCAGAA
261 GATAATTAAACCAGGATAAATGTAACCCCTTTTACCCGGCCCAAGAGATATGATCGGATCCAGAA
*
14628243 GATTATTTATGTAATTATACCCTCACGCAATTCGATAATCCAAAATCGTTAACATACATTCATAT
326 GATTATTTATGTAATTATACCCTCACGCAATCCGATAATCCAAAATCGTTAACATACATTCATAT
14628308 ATAAGGATAGTCTATAATTTAAATAAAATAATTGAACTTCCAAAATAAATACCAAAATCTCCAAA
391 ATAAGGATAGTCTATAATTTAAATAAAATAATTGAACTTCCAAAATAAATACCAAAATCTCCAAA
*
14628373 ATTAAAATCAACTTACAATCCCAGTAAAATAATAATCAACGAAGTATGATGA
456 ATTAAAATCAACTTACAATCCCAGTAAAATAATAATCAACAAAGTATGATGA
14628425 TTTAATTATTGAATTAAAAGTTTGTATGAGTGGTTTGGTTCAAAAGTCAAGTGGTGTTAGAAAAT
1 TTTAATTATTGAATTAAAAGTTTGTATGAGTGGTTTGGTTCAAAAGTCAAGTGGTGTTAGAAAAT
14628490 GAGATATCGGGACCTCATTTCTAAAATTAAGGATCGTAAATATTTTATTAAATATTTATAGAATC
66 GAGATATCGGGACCTCATTTCTAAAATTAAGGATCGTAAATATTTTATTAAATATTTATAGAATC
14628555 TTATTATATGTGAATTGAAGTTTGGTTGGGTAATTTTGATTATTAATTGCTTAATTAAGGAAAAA
131 TTATTATATGTGAATTGAAGTTTGGTTGGGTAATTTTGATTATTAATTGCTTAATTAAGGAAAAA
14628620 TGAGTAAATTGTAAATGAGGTAAAAGTTAATTACTATTAATTAAAAATAGTAAAGGGACCAAAAT
196 TGAGTAAATTGTAAATGAGGTAAAAGTTAATTACTATTAATTAAAAATAGTAAAGGGACCAAAAT
* *
14628685 GGTAATTAAACCAGGCTAAATGTAACCCCTTTTACCCGGCCCAAGAGATATGATCGGATCCAGAA
261 GATAATTAAACCAGGATAAATGTAACCCCTTTTACCCGGCCCAAGAGATATGATCGGATCCAGAA
*
14628750 GATTATTTATGTAATTATACCCTCACGCAATCCGATAATCCAAAATCGTTGACATACATTCATAT
326 GATTATTTATGTAATTATACCCTCACGCAATCCGATAATCCAAAATCGTTAACATACATTCATAT
14628815 ATAAGGATAGTCTATAATTTAAATAAAATAATTGAACTTCCAAAATAAATACCAAAATCTCCAAA
391 ATAAGGATAGTCTATAATTTAAATAAAATAATTGAACTTCCAAAATAAATACCAAAATCTCCAAA
14628880 ATTAAAATCAACTTACAATCCCAGTAAAATAATAATCAACAAAGTATGATGA
456 ATTAAAATCAACTTACAATCCCAGTAAAATAATAATCAACAAAGTATGATGA
14628932 AAACCCAAAA
Statistics
Matches: 499, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
507 499 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.33
Consensus pattern (507 bp):
TTTAATTATTGAATTAAAAGTTTGTATGAGTGGTTTGGTTCAAAAGTCAAGTGGTGTTAGAAAAT
GAGATATCGGGACCTCATTTCTAAAATTAAGGATCGTAAATATTTTATTAAATATTTATAGAATC
TTATTATATGTGAATTGAAGTTTGGTTGGGTAATTTTGATTATTAATTGCTTAATTAAGGAAAAA
TGAGTAAATTGTAAATGAGGTAAAAGTTAATTACTATTAATTAAAAATAGTAAAGGGACCAAAAT
GATAATTAAACCAGGATAAATGTAACCCCTTTTACCCGGCCCAAGAGATATGATCGGATCCAGAA
GATTATTTATGTAATTATACCCTCACGCAATCCGATAATCCAAAATCGTTAACATACATTCATAT
ATAAGGATAGTCTATAATTTAAATAAAATAATTGAACTTCCAAAATAAATACCAAAATCTCCAAA
ATTAAAATCAACTTACAATCCCAGTAAAATAATAATCAACAAAGTATGATGA
Found at i:14632842 original size:12 final size:12
Alignment explanation
Indices: 14632813--14632846 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
14632803 ATTTATATTC
*
14632813 ATAAAATAACAA
1 ATAAAATAAAAA
14632825 AT-AAATAAAAA
1 ATAAAATAAAAA
14632836 ATAAAATAAAA
1 ATAAAATAAAA
14632847 TAAATATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
ATAAAATAAAAA
Found at i:14632888 original size:67 final size:65
Alignment explanation
Indices: 14632761--14632888 Score: 150
Period size: 67 Copynumber: 1.9 Consensus size: 65
14632751 TATTTATAAT
* * * *
14632761 AATAAATAATAAAACAAAATTAATGTTATTTTAGATTTATTTATTTATATTCATAAAATAACAAA
1 AATAAAAAATAAAACAAAATAAATATTATTTTAGATTTATTTATTTATA-T-AAAAAATAACAAA
14632826 TA
64 TA
* *
14632828 AATAAAAAATAAAATAAAATAAATATTATTTTATATTTATTTATGTTCATA-AAAATAATAA
1 AATAAAAAATAAAACAAAATAAATATTATTTTAGATTTATTTAT-TT-ATATAAAA-AATAA
14632889 GAAAAATGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
66 3 0.06
67 44 0.85
68 2 0.04
69 3 0.06
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (65 bp):
AATAAAAAATAAAACAAAATAAATATTATTTTAGATTTATTTATTTATATAAAAAATAACAAATA
Found at i:14633599 original size:80 final size:80
Alignment explanation
Indices: 14633410--14633925 Score: 795
Period size: 80 Copynumber: 6.4 Consensus size: 80
14633400 CTCTATAACT
* *
14633410 TTAGGTGTAAAAGATTAGATTGT-TTCAATCTGCCCCATGATCGGGGTAAGAGATCTGATGGTCT
1 TTAGG-GTAAAAGATTAGATT-TCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCT
14633474 TCAATC-TGCCCTCTGG
64 TCAATCTTGCCCTCTGG
* * *
14633490 CTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGATCTTT
1 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
14633555 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
* * *
14633570 TTAGGGTAAAATATTAGATTTCTTTAATCTGCCCCATGATCGGGGTAAAAGATCGGGTGGTCTTC
1 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
14633635 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
* ** *
14633650 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGTGTAAAAGATTAGATGGTCTTT
1 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
14633715 AATCTTGCCCTCTGG
66 AATCTTGCCCTCTGG
14633730 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
1 TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
* *
14633795 AATCTTGCCCTTTAG
66 AATCTTGCCCTCTGG
* *
14633810 TTAGGGTAAAAGATTAGATTTCTTCAAGT-TGCCCCATGATCGGGGTAAAATATCGGATGGCCTT
1 TTAGGGTAAAAGATTAGATTTCTTCAA-TCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTT
*
14633874 CAATCTTGCCCTCTAG
65 CAATCTTGCCCTCTGG
* *
14633890 TTAGGGTAAAAGATTGGATGGTCTTCAATCTTGCCC
1 TTAGGGTAAAAGATTAGAT-TTCTTCAATC-TGCCC
14633926 TCTGGTTAGG
Statistics
Matches: 401, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
78 1 0.00
79 58 0.14
80 329 0.82
81 8 0.02
82 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (80 bp):
TTAGGGTAAAAGATTAGATTTCTTCAATCTGCCCCATGATCGGGGTAAAAGATCGGATGGTCTTC
AATCTTGCCCTCTGG
Found at i:14634168 original size:50 final size:50
Alignment explanation
Indices: 14634034--14634179 Score: 161
Period size: 50 Copynumber: 2.9 Consensus size: 50
14634024 TTTAAATGAT
* * * ** *
14634034 TGAGATTTGCCATTACAGCTTCATTCTGCCCCTCTACAGCTTTAGGTGTA
1 TGAGATTTGCCATTGCAGTTTCAATCTTACCCTCCACAGCTTTAGGTGTA
* * * *
14634084 TGAGATTTGTCATTGCGGTTTTAAT-TTGCACCTCCACAGCTTTAGGTGTA
1 TGAGATTTGCCATTGCAGTTTCAATCTTAC-CCTCCACAGCTTTAGGTGTA
*
14634134 TGAGATTTACCATTGCAGTTTCAATCTTACCCTCCATC-GCTTTAGG
1 TGAGATTTGCCATTGCAGTTTCAATCTTACCCTCCA-CAGCTTTAGG
14634180 GGTAAAAGAT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
49 2 0.03
50 73 0.92
51 4 0.05
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (50 bp):
TGAGATTTGCCATTGCAGTTTCAATCTTACCCTCCACAGCTTTAGGTGTA
Found at i:14635112 original size:6 final size:6
Alignment explanation
Indices: 14635103--14635174 Score: 96
Period size: 6 Copynumber: 12.0 Consensus size: 6
14635093 TCGACCTTCC
14635103 CTTTTT CTTTTT CTTTTCTT CTTTTT CTTTTT CTTTTT C-TTTT CTTTTT
1 CTTTTT CTTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
14635152 -TTTTT -TTTTT CTTTTTT CTTTTT
1 CTTTTT CTTTTT C-TTTTT CTTTTT
14635175 TAAATTTTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 10
0.86 0.00 0.14
Matches are distributed among these distances:
5 15 0.25
6 31 0.51
7 12 0.20
8 3 0.05
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
CTTTTT
Found at i:14635126 original size:20 final size:20
Alignment explanation
Indices: 14635103--14635174 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
14635093 TCGACCTTCC
14635103 CTTTTTCTTTTTCTTTTCTT
1 CTTTTTCTTTTTCTTTTCTT
14635123 CTTTTTCTTTTTCTTTTTCTT
1 CTTTTTCTTTTTC-TTTTCTT
*
14635144 -TTCTTT-TTTTT-TTTTTTT
1 CTT-TTTCTTTTTCTTTTCTT
14635162 CTTTTTTCTTTTT
1 C-TTTTTCTTTTT
14635175 TAAATTTTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 10
0.81 0.02 0.18
Matches are distributed among these distances:
18 6 0.13
19 3 0.07
20 27 0.59
21 10 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (20 bp):
CTTTTTCTTTTTCTTTTCTT
Found at i:14635132 original size:26 final size:27
Alignment explanation
Indices: 14635103--14635173 Score: 108
Period size: 26 Copynumber: 2.6 Consensus size: 27
14635093 TCGACCTTCC
14635103 CTTTTTCTTTTTCTTTTC-TTCTTTTT
1 CTTTTTCTTTTTCTTTTCTTTCTTTTT
*
14635129 CTTTTTCTTTTTCTTTTCTTTTTTTTT
1 CTTTTTCTTTTTCTTTTCTTTCTTTTT
*
14635156 TTTTTTCTTTTTTCTTTT
1 CTTTTTC-TTTTTCTTTT
14635174 TTAAATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 18 0.44
27 13 0.32
28 10 0.24
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (27 bp):
CTTTTTCTTTTTCTTTTCTTTCTTTTT
Found at i:14635184 original size:26 final size:24
Alignment explanation
Indices: 14635104--14635175 Score: 105
Period size: 23 Copynumber: 3.0 Consensus size: 24
14635094 CGACCTTCCC
14635104 TTTTTCTTTTTCTTTTCTTCTTTTT
1 TTTTTCTTTTTCTTTT-TTCTTTTT
14635129 CTTTTTCTTTTTC--TTTTCTTTTT
1 -TTTTTCTTTTTCTTTTTTCTTTTT
14635152 TTTTT-TTTTTCTTTTTTCTTTTT
1 TTTTTCTTTTTCTTTTTTCTTTTT
14635175 T
1 T
14635176 AAATTTTTTG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
21 6 0.14
22 5 0.11
23 19 0.43
24 2 0.05
26 12 0.27
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (24 bp):
TTTTTCTTTTTCTTTTTTCTTTTT
Found at i:14635195 original size:1 final size:1
Alignment explanation
Indices: 14635104--14635175 Score: 54
Period size: 1 Copynumber: 72.0 Consensus size: 1
14635094 CGACCTTCCC
* * * * * * * * *
14635104 TTTTTCTTTTTCTTTTCTTCTTTTTCTTTTTCTTTTTCTTTTCTTTTTTTTTTTTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
14635169 CTTTTTT
1 TTTTTTT
14635176 AAATTTTTTG
Statistics
Matches: 51, Mismatches: 20, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:14640392 original size:63 final size:65
Alignment explanation
Indices: 14640235--14640385 Score: 200
Period size: 67 Copynumber: 2.3 Consensus size: 65
14640225 TTTTTTTATA
* *
14640235 ATAATAAATAAATTATAAAACAAAATTAATATTATTTTACATTTATTTATTTATATTCATAAAAT
1 ATAATAAATAAATAATAAAACAAAATAAATATTATTTTA-A-TTATTTATTTATATTCATAAAAT
14640300 AG
64 AG
* * *
14640302 AAAATAAATAAATAATAAAATAAAATAAATATTATTTT-A-TATTTATTTATGTTCATAAAAATA
1 ATAATAAATAAATAATAAAACAAAATAAATATTATTTTAATTATTTATTTATATTCAT-AAAATA
14640365 G
65 G
14640366 -TAATAAATAAATAAATAAAA
1 ATAATAAATAAAT-AATAAAA
14640386 ATAATAAGAA
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
63 27 0.36
64 14 0.18
65 1 0.01
67 34 0.45
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (65 bp):
ATAATAAATAAATAATAAAACAAAATAAATATTATTTTAATTATTTATTTATATTCATAAAATAG
Found at i:14645863 original size:21 final size:21
Alignment explanation
Indices: 14645837--14645891 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
14645827 CTCACAAAAA
14645837 GTCAATGGTCAACTACCAACG
1 GTCAATGGTCAACTACCAACG
*
14645858 GTCAATGGTCAACTGCCAACG
1 GTCAATGGTCAACTACCAACG
14645879 GTCAATGGTCAAC
1 GTCAATGGTCAAC
14645892 GGGTCGCGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (21 bp):
GTCAATGGTCAACTACCAACG
Found at i:14648699 original size:19 final size:19
Alignment explanation
Indices: 14648677--14648728 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
14648667 AGAGTGATAC
* **
14648677 TGGCTCGTAAGATCGGTAT
1 TGGCTCGTAAGAGCAATAT
*
14648696 TGGCTTGTAAGAGCAATAT
1 TGGCTCGTAAGAGCAATAT
*
14648715 TGGCTCATAAGAGC
1 TGGCTCGTAAGAGC
14648729 GAATTACTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (19 bp):
TGGCTCGTAAGAGCAATAT
Found at i:14652565 original size:26 final size:26
Alignment explanation
Indices: 14652429--14652559 Score: 181
Period size: 26 Copynumber: 5.0 Consensus size: 26
14652419 AATAAAGCGT
* * *
14652429 AATTTTGTCTGGGCTCATATGAGCTA
1 AATTCTGTCTGGGCTCGTAAGAGCTA
* * *
14652455 AATTCTGTCTAGGCTCATATGAGCTA
1 AATTCTGTCTGGGCTCGTAAGAGCTA
*
14652481 AATTTTGTCTGGGCTCGTAAGAGCTA
1 AATTCTGTCTGGGCTCGTAAGAGCTA
*
14652507 AATTCTGTTTGGGCTCGTAAGAGCTA
1 AATTCTGTCTGGGCTCGTAAGAGCTA
*
14652533 ATTTCTGTCTGGGCTCGTAAGAGCTA
1 AATTCTGTCTGGGCTCGTAAGAGCTA
14652559 A
1 A
14652560 CCTCTGAAAC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 95 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (26 bp):
AATTCTGTCTGGGCTCGTAAGAGCTA
Found at i:14659413 original size:27 final size:27
Alignment explanation
Indices: 14659383--14659438 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
14659373 TAAAAATATA
*
14659383 AATTTTGAAATTT-TTATAAATATTTTG
1 AATTTTAAAATTTATTATAAAT-TTTTG
*
14659410 AATTTTAAAATTTATTTTAAATTTTTG
1 AATTTTAAAATTTATTATAAATTTTTG
14659437 AA
1 AA
14659439 AATTATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (27 bp):
AATTTTAAAATTTATTATAAATTTTTG
Found at i:14659444 original size:20 final size:19
Alignment explanation
Indices: 14659384--14659444 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 19
14659374 AAAAATATAA
14659384 ATTTTGAAATTTTTATAAA-T
1 ATTTT-AAATTTTTA-AAATT
*
14659404 ATTTTGAA-TTTTAAAATTT
1 ATTTTAAATTTTTAAAA-TT
14659423 ATTTTAAATTTTTGAAAATT
1 ATTTTAAATTTTT-AAAATT
14659443 AT
1 AT
14659445 ATTTTAATCT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
17 3 0.09
18 5 0.14
19 10 0.29
20 13 0.37
21 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (19 bp):
ATTTTAAATTTTTAAAATT
Found at i:14659457 original size:21 final size:21
Alignment explanation
Indices: 14659402--14659451 Score: 68
Period size: 19 Copynumber: 2.4 Consensus size: 21
14659392 ATTTTTATAA
*
14659402 ATATTTTGAATTTT-AAAATT
1 ATATTTTAAATTTTGAAAATT
14659422 -TATTTTAAATTTTTGAAAATT
1 ATATTTTAAA-TTTTGAAAATT
14659443 ATATTTTAA
1 ATATTTTAA
14659452 TCTTTGTTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 8 0.31
20 4 0.15
21 6 0.23
22 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATATTTTAAATTTTGAAAATT
Found at i:14660711 original size:19 final size:20
Alignment explanation
Indices: 14660687--14660744 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
14660677 ATAAATTCTG
*
14660687 AAATTTTTATAAA-TATTTT
1 AAATTTTTAAAAATTATTTT
14660706 AAA-TTTTAAAAATTATTTT
1 AAATTTTTAAAAATTATTTT
*
14660725 AAATTTTTGAAAATTATTTT
1 AAATTTTTAAAAATTATTTT
14660745 TTAATCTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 8 0.23
19 12 0.34
20 15 0.43
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTTTTAAAAATTATTTT
Found at i:14660737 original size:20 final size:19
Alignment explanation
Indices: 14660687--14660744 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
14660677 ATAAATTCTG
14660687 AAATTTTTATAAA-TATTTT
1 AAATTTTTA-AAATTATTTT
*
14660706 AAATTTTAAAAATTATTTT
1 AAATTTTTAAAATTATTTT
14660725 AAATTTTTGAAAATTATTTT
1 AAATTTTT-AAAATTATTTT
14660745 TTAATCTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 3 0.09
19 21 0.60
20 11 0.31
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (19 bp):
AAATTTTTAAAATTATTTT
Found at i:14675866 original size:14 final size:14
Alignment explanation
Indices: 14675847--14675873 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14675837 AAACTATACA
14675847 CAAATAAGGAAAGT
1 CAAATAAGGAAAGT
14675861 CAAATAAGGAAAG
1 CAAATAAGGAAAG
14675874 ATATGATATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.22, T:0.11
Consensus pattern (14 bp):
CAAATAAGGAAAGT
Found at i:14681597 original size:13 final size:13
Alignment explanation
Indices: 14681579--14681605 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14681569 CTGAAATTAC
14681579 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
14681592 AAAAAAAAGAAAA
1 AAAAAAAAGAAAA
14681605 A
1 A
14681606 GAAATTGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:14700260 original size:27 final size:26
Alignment explanation
Indices: 14700230--14700288 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
14700220 AGCGAAACCT
*
14700230 AAGGAGAAGAAGGAAAATGAAGAAGAG
1 AAGGAGAAGAA-GAAAAGGAAGAAGAG
* *
14700257 AAGGAAGAATAAGAGAAGGAAGAAGAG
1 AAGG-AGAAGAAGAAAAGGAAGAAGAG
14700284 AAGGA
1 AAGGA
14700289 AGATGCCCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.04
27 21 0.75
28 6 0.21
ACGTcount: A:0.59, C:0.00, G:0.37, T:0.03
Consensus pattern (26 bp):
AAGGAGAAGAAGAAAAGGAAGAAGAG
Found at i:14700265 original size:12 final size:12
Alignment explanation
Indices: 14700248--14700291 Score: 61
Period size: 12 Copynumber: 3.4 Consensus size: 12
14700238 GAAGGAAAAT
14700248 GAAGAAGAGAAG
1 GAAGAAGAGAAG
14700260 GAAGAATAAGAGAAG
1 GAAG---AAGAGAAG
14700275 GAAGAAGAGAAG
1 GAAGAAGAGAAG
14700287 GAAGA
1 GAAGA
14700292 TGCCCCGACA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 17 0.59
15 12 0.41
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (12 bp):
GAAGAAGAGAAG
Found at i:14702120 original size:106 final size:106
Alignment explanation
Indices: 14701989--14702200 Score: 370
Period size: 106 Copynumber: 2.0 Consensus size: 106
14701979 CAGGGGAATG
* *
14701989 CTAAGTTGTTGTCGCAAGTAAAAATCAAAGATTGCGCCCAGAGATGCAGCGACAACTTGCAGATG
1 CTAAGTTGTTGTCACAAGTAAAAATCAAAGATTGCACCCAGAGATGCAGCGACAACTTGCAGATG
* *
14702054 CCTGAAGAACACACCAGATCTACGTGAGTGCACAGCTGGAA
66 CCTAAAGAACACACCAGATCTACGTGAGTGCACAGCGGGAA
*
14702095 CTAAGTTGTTGTCACAAGTAAAAATCAAAGATTTCACCCAGAGATGCAGCGACAACTTGCAGATG
1 CTAAGTTGTTGTCACAAGTAAAAATCAAAGATTGCACCCAGAGATGCAGCGACAACTTGCAGATG
*
14702160 CCTAAAGAACACACCAGATCTGCGTGAGTGCACAGCGGGAA
66 CCTAAAGAACACACCAGATCTACGTGAGTGCACAGCGGGAA
14702201 TTAACTAAGT
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
106 100 1.00
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.19
Consensus pattern (106 bp):
CTAAGTTGTTGTCACAAGTAAAAATCAAAGATTGCACCCAGAGATGCAGCGACAACTTGCAGATG
CCTAAAGAACACACCAGATCTACGTGAGTGCACAGCGGGAA
Found at i:14707091 original size:20 final size:21
Alignment explanation
Indices: 14707066--14707112 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
14707056 GTCATTACAA
*
14707066 TTTTTACTTTT-ATTT-TTTGC
1 TTTTTA-TTTTCATTTATTTCC
14707086 TTTTTATTTTCATTTATTTCC
1 TTTTTATTTTCATTTATTTCC
14707107 TTTTTA
1 TTTTTA
14707113 GTTTATGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 10 0.42
21 10 0.42
ACGTcount: A:0.13, C:0.11, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTATTTTCATTTATTTCC
Found at i:14714589 original size:26 final size:26
Alignment explanation
Indices: 14714541--14714591 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
14714531 CATGAGACAA
* *
14714541 AAGAAATTAATATCAGAATATAAAAT
1 AAGAAATTAACATCAGAAAATAAAAT
* *
14714567 AAGAAATTAACATTATAAAATAAAA
1 AAGAAATTAACATCAGAAAATAAAA
14714592 CAAATCACTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (26 bp):
AAGAAATTAACATCAGAAAATAAAAT
Found at i:14721474 original size:24 final size:24
Alignment explanation
Indices: 14721439--14721604 Score: 237
Period size: 24 Copynumber: 6.9 Consensus size: 24
14721429 CCTGACAAAA
* *
14721439 TTAGCTCATACGAGCCTAG-ATAGG
1 TTAGCTCTTACGAGCCCAGAAT-GG
*
14721463 TTAGCTCTTACGAGCCCA-AATAAG
1 TTAGCTCTTACGAGCCCAGAAT-GG
*
14721487 TTAGCTCTCACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
14721511 TTAGCTCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
14721535 TTAGCTCTTACGAGCCCAAAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
*
14721559 TTAGCTCTCACGAGCCCAGAATGG
1 TTAGCTCTTACGAGCCCAGAATGG
14721583 TTAGCTCTTACGAGCCCAGAAT
1 TTAGCTCTTACGAGCCCAGAAT
14721605 CAGAATAATA
Statistics
Matches: 130, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
24 127 0.98
25 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (24 bp):
TTAGCTCTTACGAGCCCAGAATGG
Found at i:14721651 original size:54 final size:54
Alignment explanation
Indices: 14721586--14721693 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 54
14721576 AGAATGGTTA
* * **
14721586 GCTCTTACGAGCCCAGAATCAGAATAATACTCTTTCGAGCCA-AATCAGAATAAC
1 GCTCTTACGAG-CCAGAATCAAAATAACACTCTTTAAAGCCAGAATCAGAATAAC
* *
14721640 GCTCTTTCGAGCCAGAATCAAAATAACGCTCTTTAAAGCCAGAATCAGAATAAC
1 GCTCTTACGAGCCAGAATCAAAATAACACTCTTTAAAGCCAGAATCAGAATAAC
14721694 TCCTCAAGCC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 25 0.53
54 22 0.47
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (54 bp):
GCTCTTACGAGCCAGAATCAAAATAACACTCTTTAAAGCCAGAATCAGAATAAC
Found at i:14721666 original size:27 final size:27
Alignment explanation
Indices: 14721586--14721693 Score: 146
Period size: 27 Copynumber: 4.0 Consensus size: 27
14721576 AGAATGGTTA
* *
14721586 GCTCTTACGAGCCCAGAATCAGAATAAT
1 GCTCTTTCGAG-CCAGAATCAGAATAAC
*
14721614 ACTCTTTCGAGCCA-AATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
*
14721640 GCTCTTTCGAGCCAGAATCAAAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
**
14721667 GCTCTTTAAAGCCAGAATCAGAATAAC
1 GCTCTTTCGAGCCAGAATCAGAATAAC
14721694 TCCTCAAGCC
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
26 24 0.34
27 38 0.54
28 9 0.13
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (27 bp):
GCTCTTTCGAGCCAGAATCAGAATAAC
Found at i:14729989 original size:20 final size:20
Alignment explanation
Indices: 14729964--14730002 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
14729954 TGTCCTTCCT
14729964 AAGGATTACTAGTCAGAGGG
1 AAGGATTACTAGTCAGAGGG
14729984 AAGGATTACTAGTCAGAGG
1 AAGGATTACTAGTCAGAGG
14730003 ACCAAATTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.33, T:0.21
Consensus pattern (20 bp):
AAGGATTACTAGTCAGAGGG
Found at i:14731049 original size:29 final size:29
Alignment explanation
Indices: 14731005--14731069 Score: 87
Period size: 29 Copynumber: 2.2 Consensus size: 29
14730995 GCCGAATACA
*
14731005 TTTGTTGTTTTGCTTTTGTC-TTGTTATTC
1 TTTGTTGTTTTCCTTTTGTCTTTGTT-TTC
*
14731034 TTTGTTTTTTTCCTTTTGTCTTTGTTTTC
1 TTTGTTGTTTTCCTTTTGTCTTTGTTTTC
14731063 TTCTGTT
1 TT-TGTT
14731070 CTTTGCAGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.02, C:0.12, G:0.14, T:0.72
Consensus pattern (29 bp):
TTTGTTGTTTTCCTTTTGTCTTTGTTTTC
Found at i:14731863 original size:20 final size:20
Alignment explanation
Indices: 14731838--14731891 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
14731828 TTGGCTTGGG
* *
14731838 ACTTCTACCGGTAGAACTTC
1 ACTTCTACCGATACAACTTC
*
14731858 ACTTCTATCGATACAACTTC
1 ACTTCTACCGATACAACTTC
* *
14731878 AGTTCTACCAATAC
1 ACTTCTACCGATAC
14731892 CTTGAAGACT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (20 bp):
ACTTCTACCGATACAACTTC
Found at i:14735031 original size:238 final size:238
Alignment explanation
Indices: 14734605--14735079 Score: 842
Period size: 238 Copynumber: 2.0 Consensus size: 238
14734595 AAATAAGGAG
* * *
14734605 AAGAGAAAGGTAAAGTTTATGGTTGATTGATTGCTTATATTAAGGATCAATTTTTCAAAGAAAAA
1 AAGAGAAAGGTAAAGTTTATGGTTGATTAATTGCTTATATTAAGGACCAAGTTTTCAAAGAAAAA
14734670 TGAATGTCAAATTTGAACTTATTGAAAATTTATGCTCCAAACCTTTATGTCTTAAATAGAAAATG
66 TGAATGTCAAATTTGAACTTATTGAAAATTTATGCTCCAAACCTTTATGTCTTAAATAGAAAATG
*
14734735 ATTTTTATATAGGGGGAGCTTGAATTGAAAATGACTTTTATTAAGGAGGAGAAATCTATTCAAAA
131 ATTTTTATATAGGGGAAGCTTGAATTGAAAATGACTTTTATTAAGGAGGAGAAATCTATTCAAAA
* *
14734800 ACAAATTTACAAAATGTTTTGTTATATCAAAAAGGGGGAGATA
196 ACAAATTTACAAAATGTTTTGTTATATAAAAAAAGGGGAGATA
* * **
14734843 AAGAGAAAGGTAAATTTTATGGTTGATTAATTGCTTTTATTATTGACCAAGTTTTCAAAGAAAAA
1 AAGAGAAAGGTAAAGTTTATGGTTGATTAATTGCTTATATTAAGGACCAAGTTTTCAAAGAAAAA
14734908 TGAATGTCAAATTTGAACTTATTGAAAATTTATGCTCCAAACCTTTATGTCTTAAATAGAAAATG
66 TGAATGTCAAATTTGAACTTATTGAAAATTTATGCTCCAAACCTTTATGTCTTAAATAGAAAATG
* *
14734973 ATTTTTATATAGGGGAAGCTTGAATTGAAAATGACTTTTATTAAGGGGGAGCAATCTATTCAAAA
131 ATTTTTATATAGGGGAAGCTTGAATTGAAAATGACTTTTATTAAGGAGGAGAAATCTATTCAAAA
14735038 ACAAATTTACAAAATGTTTTGTTATATAAAAAAAGGGGAGAT
196 ACAAATTTACAAAATGTTTTGTTATATAAAAAAAGGGGAGAT
14735080 TGTTAAACTA
Statistics
Matches: 225, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
238 225 1.00
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (238 bp):
AAGAGAAAGGTAAAGTTTATGGTTGATTAATTGCTTATATTAAGGACCAAGTTTTCAAAGAAAAA
TGAATGTCAAATTTGAACTTATTGAAAATTTATGCTCCAAACCTTTATGTCTTAAATAGAAAATG
ATTTTTATATAGGGGAAGCTTGAATTGAAAATGACTTTTATTAAGGAGGAGAAATCTATTCAAAA
ACAAATTTACAAAATGTTTTGTTATATAAAAAAAGGGGAGATA
Found at i:14745492 original size:17 final size:17
Alignment explanation
Indices: 14745467--14745509 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
14745457 ATGTAGATGC
* *
14745467 AGTGGCAATAGAAATGT
1 AGTGACAATAAAAATGT
14745484 AGTGACAATAAAAATGT
1 AGTGACAATAAAAATGT
*
14745501 AGGGACAAT
1 AGTGACAAT
14745510 CATACTACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.47, C:0.07, G:0.26, T:0.21
Consensus pattern (17 bp):
AGTGACAATAAAAATGT
Found at i:14773620 original size:166 final size:167
Alignment explanation
Indices: 14773330--14773660 Score: 610
Period size: 166 Copynumber: 2.0 Consensus size: 167
14773320 AAAATAGGGT
*
14773330 CAAAAAATTTTTACGTTCTCCAGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTC
1 CAAAAAATTTTTACGATCTCCAGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTC
14773395 TCATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTAC
66 TCATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTAC
14773460 TCTATTTCTTAGAATCTGGAATGGAAACAGCGGTTCA
131 TCTATTTCTTAGAATCTGGAATGGAAACAGCGGTTCA
*
14773497 CAAAAAA-TTTTATGATCTCCAGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTC
1 CAAAAAATTTTTACGATCTCCAGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTC
* *
14773561 TCATCACTTGGATTGAGGCGTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTAC
66 TCATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTAC
*
14773626 TCTATTTCTTAGAATCTGGGATGGAAACAGCGGTT
131 TCTATTTCTTAGAATCTGGAATGGAAACAGCGGTT
14773661 GGCATATAGG
Statistics
Matches: 159, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
166 152 0.96
167 7 0.04
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (167 bp):
CAAAAAATTTTTACGATCTCCAGACAAACACAATTACCTGGATATAGTGGACTAAGGCAGAATTC
TCATCACTTGGATTAAGGCCTTCCTTACTGTAGCAGTAATTCATGCCTTTTCCAAGTTTAACTAC
TCTATTTCTTAGAATCTGGAATGGAAACAGCGGTTCA
Found at i:14776428 original size:18 final size:20
Alignment explanation
Indices: 14776391--14776429 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
14776381 CATATAGAGA
14776391 AAAAGAGAAATATTTACCAC
1 AAAAGAGAAATATTTACCAC
*
14776411 AAAAGA-AAAT-TTTTCCAC
1 AAAAGAGAAATATTTACCAC
14776429 A
1 A
14776430 GGATCATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 8 0.44
19 4 0.22
20 6 0.33
ACGTcount: A:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAAGAGAAATATTTACCAC
Found at i:14783199 original size:10 final size:10
Alignment explanation
Indices: 14783148--14783192 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
14783138 GAGCCAATTA
*
14783148 CATCAACCAG
1 CATCAAGCAG
*
14783158 CATCAAGCAA
1 CATCAAGCAG
*
14783168 CATCAGGCAG
1 CATCAAGCAG
14783178 CATCAAGCAG
1 CATCAAGCAG
14783188 CATCA
1 CATCA
14783193 GCAAGCAGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.40, C:0.33, G:0.16, T:0.11
Consensus pattern (10 bp):
CATCAAGCAG
Found at i:14788572 original size:94 final size:92
Alignment explanation
Indices: 14788405--14788584 Score: 247
Period size: 94 Copynumber: 1.9 Consensus size: 92
14788395 TAAGGCAAAA
* * * *
14788405 TTTTTGGGCCAATTTCTTAATCTGTTTTTACCCGAAAAAGATGACACATCGCATTGAATTTTCAT
1 TTTTTGAGCCAATTTATTAATCTGTTTTTACCAGAAAAAGATGACACATCACATTGAATTTTCAT
14788470 AAGATGAATTCTTT-AAGTTTTGTGGAG
66 AAGATGAATT-TTTCAAGTTTTGTGGAG
**
14788497 TTTTTGAGCCAATTTATT-ATCTGTTTTTACCAGAAAAAGATGACTAAACATCATTTTGAATTTT
1 TTTTTGAGCCAATTTATTAATCTGTTTTTACCAGAAAAAGATGAC---ACATCACATTGAATTTT
*
14788561 CATAAGCTGAATTTTTCAAGTTTT
63 CATAAGATGAATTTTTCAAGTTTT
14788585 AGGGTATATT
Statistics
Matches: 77, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
91 25 0.32
92 16 0.21
93 3 0.04
94 33 0.43
ACGTcount: A:0.30, C:0.13, G:0.14, T:0.42
Consensus pattern (92 bp):
TTTTTGAGCCAATTTATTAATCTGTTTTTACCAGAAAAAGATGACACATCACATTGAATTTTCAT
AAGATGAATTTTTCAAGTTTTGTGGAG
Found at i:14788975 original size:26 final size:26
Alignment explanation
Indices: 14788927--14788991 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
14788917 GACCCTTGGC
14788927 CTTTCACCTACT-AAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
*
14788952 CTTTCATCTACTAAAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
14788978 CTTTCACCTACTAA
1 CTTTCACCTACTAA
14788992 CTACTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 11 0.30
26 26 0.70
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (26 bp):
CTTTCACCTACTAAAAAACTCTTGAT
Found at i:14793343 original size:26 final size:26
Alignment explanation
Indices: 14793295--14793359 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
14793285 GACCCTTGGC
14793295 CTTTCACCTACT-AAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
*
14793320 CTTTCATCTACTAAAAAACTCTTGAT
1 CTTTCACCTACTAAAAAACTCTTGAT
14793346 CTTTCACCTACTAA
1 CTTTCACCTACTAA
14793360 CTACTAAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 11 0.30
26 26 0.70
ACGTcount: A:0.32, C:0.28, G:0.03, T:0.37
Consensus pattern (26 bp):
CTTTCACCTACTAAAAAACTCTTGAT
Found at i:14808270 original size:21 final size:22
Alignment explanation
Indices: 14808237--14808277 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
14808227 CCTGTACTAG
*
14808237 TTCTACCTATACAA-TTATGAT
1 TTCTACCGATACAAGTTATGAT
*
14808258 TTCTACCGCTACAAGTTATG
1 TTCTACCGATACAAGTTATG
14808278 CAACTACCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.39
Consensus pattern (22 bp):
TTCTACCGATACAAGTTATGAT
Found at i:14809520 original size:18 final size:17
Alignment explanation
Indices: 14809490--14809524 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14809480 TCTCACATTA
*
14809490 AATTAAAATAATTTAGT
1 AATTAAAACAATTTAGT
14809507 AATTCAAAACAATTTAGT
1 AATT-AAAACAATTTAGT
14809525 CCTTTTGGGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (17 bp):
AATTAAAACAATTTAGT
Found at i:14840310 original size:24 final size:24
Alignment explanation
Indices: 14840246--14840310 Score: 58
Period size: 26 Copynumber: 2.5 Consensus size: 24
14840236 TTTCACTATT
* *
14840246 TTAAATATAAAATATTTATTTTTATA
1 TTAAATA-AAAA-ATTTAATTATATA
* *
14840272 TCATATAAAATAAATTTAATTATATA
1 TTAAAT-AAA-AAATTTAATTATATA
14840298 TTAAATAAAAAAT
1 TTAAATAAAAAAT
14840311 AAAATTTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
24 4 0.13
25 3 0.10
26 21 0.68
27 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAAATAAAAAATTTAATTATATA
Found at i:14841501 original size:202 final size:203
Alignment explanation
Indices: 14841155--14841561 Score: 753
Period size: 202 Copynumber: 2.0 Consensus size: 203
14841145 ATATAATACT
*
14841155 ATTCTAGTAGAAATATTAAAATAATGATAAGATGACTATATAAAAGGTTTCAATAAATAAAAAAT
1 ATTCTAGTAGAAATATTAAAATAATGATAAGATGACTATATAAAAAGTTTCAATAAATAAAAAAT
14841220 GCATAAAAGTATTAAATATTAAAATAATATAATATAAATATAATTTTTTAAAAATTTAAAAATAA
66 GCATAAAAGTATTAAATATTAAAATAATATAATATAAATATAATTTTTTAAAAATTTAAAAATAA
* * *
14841285 TATGGTCGAGCCTAAAATGAGCTTGGGTTAGTCTTTTGCAGATATGAGCGAGTTT-GGTTAAATT
131 TATGGCCGAGCCTAAAATGAGCTTAGGTTAGTCTTTTGCAGATATGAGCGAGTTTGGGTAAAATT
14841349 TTAAGCTC
196 TTAAGCTC
* *
14841357 ATTCTAGTATAAATATTAAAATAATGATAAGATGACTATATAAAAAGTTTTAATAAATAAAAAAT
1 ATTCTAGTAGAAATATTAAAATAATGATAAGATGACTATATAAAAAGTTTCAATAAATAAAAAAT
14841422 GCATAAAAGTATTAAATATTAAAATAATATAATATAAATATAATTTTTTAAAAATTTAAAAATAA
66 GCATAAAAGTATTAAATATTAAAATAATATAATATAAATATAATTTTTTAAAAATTTAAAAATAA
14841487 TATGGCCGAGCCTAAAATGAGCTTAGGTTAGTCTTTTGCAGATATGAGCGAGTTTGGGTAAAATT
131 TATGGCCGAGCCTAAAATGAGCTTAGGTTAGTCTTTTGCAGATATGAGCGAGTTTGGGTAAAATT
14841552 TTAAGCTC
196 TTAAGCTC
14841560 AT
1 AT
14841562 ATTTCGGGTC
Statistics
Matches: 198, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
202 180 0.91
203 18 0.09
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (203 bp):
ATTCTAGTAGAAATATTAAAATAATGATAAGATGACTATATAAAAAGTTTCAATAAATAAAAAAT
GCATAAAAGTATTAAATATTAAAATAATATAATATAAATATAATTTTTTAAAAATTTAAAAATAA
TATGGCCGAGCCTAAAATGAGCTTAGGTTAGTCTTTTGCAGATATGAGCGAGTTTGGGTAAAATT
TTAAGCTC
Found at i:14841724 original size:29 final size:30
Alignment explanation
Indices: 14841691--14841757 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
14841681 TATAAATTTT
* *
14841691 AAATTTAGTCCTTATACTTTT-AG-TTCTGA
1 AAATTTAGTCATTATACTTTTCAGCTT-TCA
*
14841720 AAATTTAGTCATTCTACTTTTCAGCTTTCA
1 AAATTTAGTCATTATACTTTTCAGCTTTCA
14841750 AAATTTAG
1 AAATTTAG
14841758 GTCCAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 19 0.58
30 12 0.36
31 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (30 bp):
AAATTTAGTCATTATACTTTTCAGCTTTCA
Found at i:14843759 original size:456 final size:456
Alignment explanation
Indices: 14842928--14843809 Score: 1072
Period size: 456 Copynumber: 1.9 Consensus size: 456
14842918 CCTCACTGGC
* * *
14842928 AAGACCATCACCCTCGAGGTGGAGAGTTCAGACACCATTGATAATGTGAAGGCTAAGATCCAAGA
1 AAGACCATCACCCTCGAGGTGGAAAGTTCAGACACCATTGACAATGTGAAGGCAAAGATCCAAGA
* * * * * * *
14842993 TAAGGAAGGGATCCCACCGGATCAGCAGAGGCTTATCTTTGCTGGCAAGCAACTTGAGGATGGCC
66 CAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTATATTTGCTGGCAAGCAACTTGAAGATGGCA
* * *
14843058 GCACGCTAGCCGACTACAACATCCAGAAAGAATCCACCCTTCACTTGGTTCTTCGACTCCGAGGT
131 GCACACTAGCCGACTACAACATCCAGAAAGAATCAACCCTTCACTTGGTTCTGCGACTCCGAGGT
* * * *
14843123 GGAATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTACCTTGGAGGTCGAGAGTTCGGA
196 GGAATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTAGAGGTCGAAAGTTCAGA
* * * * * *
14843188 TACCATTGATAATGTGAAAGCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAAGAT
261 CACCATTGACAATGTGAAAGCAAAAATTCAAGACAAAGAAGGAATCCCACCAGACCAACAAAGAC
* * * *
14843253 TGATTTTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTTGCCGATTATAATATCCAGAAGGAG
326 TCATATTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTGGCCGATTATAATATCCAAAAGGAG
*
14843318 TCTACTCTCCAT-TTGGTTCTCCGCCTTCGCGGTGGTATGCAGATCTTTGTGAAGACTCTTACCG
391 TCTACTCTCCATCTT-GTCCTCCGCCTTCGCGGTGGTATGCAGATCTTTGTGAAGACTCTTACCG
14843382 GA
455 GA
** * * * *
14843384 AAGACCATCACTTTGGAGGTTGAAAGTTCCGATACCATTGACAATGTGAAGGCAAAGATCCAAGA
1 AAGACCATCACCCTCGAGGTGGAAAGTTCAGACACCATTGACAATGTGAAGGCAAAGATCCAAGA
* * * *
14843449 CAAGGAAGGTATCCCCCCAGACCAGCAAAGGCTTATATTTGCTGGCAAGCAGCTTGAAGATGGTA
66 CAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTATATTTGCTGGCAAGCAACTTGAAGATGGCA
* * * * * * * *
14843514 GGACATTGGCCGACTACAATATCCA-AAAGGAGTCAACCCTTCACTTGGTGT-TGCGGCTGCGTG
131 GCACACTAGCCGACTACAACATCCAGAAA-GAATCAACCCTTCACTTGGT-TCTGCGACTCCGAG
* * * * * * *
14843577 GTGGGATGCAGATTTTTGTTAAGACTCTTACTGGAAAGACTATCA-CTCTAGAGGTTGAAAGTTC
194 GTGGAATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCT-TAGAGGTCGAAAGTTC
* * * * *
14843641 AGACACCATTGACAATGTTAAGGCAAAAATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAA
258 AGACACCATTGACAATGTGAAAGCAAAAATTCAAGACAAAGAAGGAATCCCACCAGACCAACAAA
* * * * * * *
14843706 GGCTCATATTTGCTGGCAAGCAGCTTGAAGATGGCAGGACAT-TGGCTGATTATAATATCCAAAA
323 GACTCATATTTGCTGGAAAACAACTTGAAGATGGAAGAAC-TCTGGCCGATTATAATATCCAAAA
* * *
14843770 GGAGTCTACTCTGCATCTTGTCCTTCGCCTTCGTGGTGGT
387 GGAGTCTACTCTCCATCTTGTCCTCCGCCTTCGCGGTGGT
14843810 TTCTAAGTAA
Statistics
Matches: 353, Mismatches: 68, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
455 5 0.01
456 344 0.97
457 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (456 bp):
AAGACCATCACCCTCGAGGTGGAAAGTTCAGACACCATTGACAATGTGAAGGCAAAGATCCAAGA
CAAGGAAGGGATCCCACCAGACCAGCAAAGGCTTATATTTGCTGGCAAGCAACTTGAAGATGGCA
GCACACTAGCCGACTACAACATCCAGAAAGAATCAACCCTTCACTTGGTTCTGCGACTCCGAGGT
GGAATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATCACCTTAGAGGTCGAAAGTTCAGA
CACCATTGACAATGTGAAAGCAAAAATTCAAGACAAAGAAGGAATCCCACCAGACCAACAAAGAC
TCATATTTGCTGGAAAACAACTTGAAGATGGAAGAACTCTGGCCGATTATAATATCCAAAAGGAG
TCTACTCTCCATCTTGTCCTCCGCCTTCGCGGTGGTATGCAGATCTTTGTGAAGACTCTTACCGG
A
Found at i:14843807 original size:228 final size:228
Alignment explanation
Indices: 14842897--14843808 Score: 927
Period size: 228 Copynumber: 4.0 Consensus size: 228
14842887 TGATTCAATA
* * * * * * *
14842897 GATGCAAATCTTTGTTAAAACCCTCACTGGCAAGACCATCACCCTCGAGGTGGAGAGTTCAGACA
1 GATGCAAATCTTTGTTAAGACTCTCACTGGAAAGACCATCACTCTGGAGGTTGAAAGTTCAGACA
* * * * * *
14842962 CCATTGATAATGTGAAGGCTAAGATCCAAGATAAGGAAGGGATCCCACCGGATCAGCAGAGGCTT
66 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * * ** * * *
14843027 ATCTTTGCTGGCAAGCAACTTGAGGATGGCCGCACGCTAGCCGACTACAACATCCAGAAA-GAAT
131 ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACATTGGCCGACTACAATATCCA-AAAGGAGT
* * * *
14843091 CCACCCTTCACTTGGTTCTTCGACTCCGAGGTGG
195 CTACCCTTCACTTGGTTCTTCGCCTTCGTGGTGG
* * * * * * * *
14843125 AATGCAAATCTTTGTCAAGACTCTCACTGGAAAGACAATTAC-CTTGGAGGTCGAGAGTTCGGAT
1 GATGCAAATCTTTGTTAAGACTCTCACTGGAAAGACCATCACTC-TGGAGGTTGAAAGTTCAGAC
* * * * * * * * *
14843189 ACCATTGATAATGTGAAAGCCAAGATTCAGGACAAAGAAGGAATCCCACCAGACCAACAAA-GAT
65 ACCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCT
* * * * * * * * *
14843253 TGATTTTTGCTGGAAAACAACTTGAAGATGGAAGAAC-TCTTGCCGATTATAATATCCAGAAGGA
130 T-ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACAT-TGGCCGACTACAATATCCAAAAGGA
* * * * *
14843317 GTCTACTCTCCATTTGGTTCTCCGCCTTCGCGGTGG
193 GTCTACCCTTCACTTGGTTCTTCGCCTTCGTGGTGG
* * * * * * * *
14843353 TATGCAGATCTTTGTGAAGACTCTTACCGGAAAGACCATCACTTTGGAGGTTGAAAGTTCCGATA
1 GATGCAAATCTTTGTTAAGACTCTCACTGGAAAGACCATCACTCTGGAGGTTGAAAGTTCAGACA
* *
14843418 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGTATCCCCCCAGACCAGCAAAGGCTT
66 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* *
14843483 ATATTTGCTGGCAAGCAGCTTGAAGATGGTAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
131 ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
* * * *
14843548 AACCCTTCACTTGGTGT-TGCGGCTGCGTGGTGG
196 TACCCTTCACTTGGT-TCTTCGCCTTCGTGGTGG
* * * * *
14843581 GATGCAGATTTTTGTTAAGACTCTTACTGGAAAGACTATCACTCTAGAGGTTGAAAGTTCAGACA
1 GATGCAAATCTTTGTTAAGACTCTCACTGGAAAGACCATCACTCTGGAGGTTGAAAGTTCAGACA
* * * *
14843646 CCATTGACAATGTTAAGGCAAAAATTCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTC
66 CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
* * * *
14843711 ATATTTGCTGGCAAGCAGCTTGAAGATGGCAGGACATTGGCTGATTATAATATCCAAAAGGAGTC
131 ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
* * *
14843776 TACTCTGCATCTT-GTCCTTCGCCTTCGTGGTGG
196 TACCCTTCA-CTTGGTTCTTCGCCTTCGTGGTGG
14843809 TTTCTAAGTA
Statistics
Matches: 564, Mismatches: 110, Indels: 20
0.81 0.16 0.03
Matches are distributed among these distances:
227 6 0.01
228 550 0.98
229 8 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (228 bp):
GATGCAAATCTTTGTTAAGACTCTCACTGGAAAGACCATCACTCTGGAGGTTGAAAGTTCAGACA
CCATTGACAATGTGAAGGCAAAGATCCAAGACAAGGAAGGGATCCCACCAGACCAGCAAAGGCTT
ATATTTGCTGGCAAGCAACTTGAAGATGGCAGGACATTGGCCGACTACAATATCCAAAAGGAGTC
TACCCTTCACTTGGTTCTTCGCCTTCGTGGTGG
Found at i:14855604 original size:12 final size:10
Alignment explanation
Indices: 14855586--14855619 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
14855576 CTTTGTTGTA
14855586 TACATATATG
1 TACATATATG
14855596 TACATATATG
1 TACATATATG
*
14855606 TACATATATA
1 TACATATATG
14855616 TACA
1 TACA
14855620 CACACATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (10 bp):
TACATATATG
Found at i:14855640 original size:12 final size:12
Alignment explanation
Indices: 14855625--14855649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14855615 ATACACACAC
14855625 ATATATATGTAT
1 ATATATATGTAT
14855637 ATATATATGTAT
1 ATATATATGTAT
14855649 A
1 A
14855650 CATGTATATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:14855833 original size:28 final size:27
Alignment explanation
Indices: 14855793--14855920 Score: 95
Period size: 28 Copynumber: 4.7 Consensus size: 27
14855783 AAATATGTGC
* *
14855793 AAGCTGGCGAGCGTAAATGCATAAT-TAT
1 AAGCT-GCGAGCGTAAACGCAT-ATGAAT
14855821 AAGCTAGCGAGCGTAAACGCATATGAAT
1 AAGCT-GCGAGCGTAAACGCATATGAAT
* *
14855849 AAGCTGACGAGCGTAAACG--TGTG--C
1 AAGCTG-CGAGCGTAAACGCATATGAAT
* * *
14855873 AAGCTAGCGAGCATAAACGCATAAGTAT
1 AAGCT-GCGAGCGTAAACGCATATGAAT
*
14855901 AAGTTGGCGAGCGTAAACGC
1 AAGCT-GCGAGCGTAAACGC
14855921 GGATGAAAAG
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
24 16 0.20
25 1 0.01
26 5 0.06
27 3 0.04
28 56 0.69
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.19
Consensus pattern (27 bp):
AAGCTGCGAGCGTAAACGCATATGAAT
Found at i:14855894 original size:52 final size:52
Alignment explanation
Indices: 14855821--14855919 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
14855811 GCATAATTAT
* *
14855821 AAGCTAGCGAGCGTAAACGCATATGAATAAGCTGACGAGCGTAAACGTGTGC
1 AAGCTAGCGAGCATAAACGCATAAGAATAAGCTGACGAGCGTAAACGTGTGC
* * *
14855873 AAGCTAGCGAGCATAAACGCATAAGTATAAGTTGGCGAGCGTAAACG
1 AAGCTAGCGAGCATAAACGCATAAGAATAAGCTGACGAGCGTAAACG
14855920 CGGATGAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.17
Consensus pattern (52 bp):
AAGCTAGCGAGCATAAACGCATAAGAATAAGCTGACGAGCGTAAACGTGTGC
Found at i:14855911 original size:80 final size:80
Alignment explanation
Indices: 14855712--14855973 Score: 310
Period size: 80 Copynumber: 3.3 Consensus size: 80
14855702 GAATAAGTAT
* * * * * **
14855712 AAGCTGGCAAGCGTAAACGCATATGAAAAAGTTGGCGAGTGTAAAAACATATGAATAAGCTGACG
1 AAGCTGGCGAGCGTAAACGCATAAGTATAAGTTGGCGAGCGTAAACGCATATGAATAAGCTGACG
*
14855777 AAGCATAAATATGTGC
66 -AGCATAAACATGTGC
* * * *
14855793 AAGCTGGCGAGCGTAAATGCATAATTATAAGCTAGCGAGCGTAAACGCATATGAATAAGCTGACG
1 AAGCTGGCGAGCGTAAACGCATAAGTATAAGTTGGCGAGCGTAAACGCATATGAATAAGCTGACG
* *
14855858 AGCGTAAACGTGTGC
66 AGCATAAACATGTGC
* * ** * *
14855873 AAGCTAGCGAGCATAAACGCATAAGTATAAGTTGGCGAGCGTAAACGCGGATGAA-AAGCTAACA
1 AAGCTGGCGAGCGTAAACGCATAAGTATAAGTTGGCGAGCGTAAACGCATATGAATAAGCTGACG
*
14855937 AGCATAAACTTGTGC
66 AGCATAAACATGTGC
*
14855952 AAGTTGGCGAGCGTAAACGCAT
1 AAGCTGGCGAGCGTAAACGCAT
14855974 GTTATTTATA
Statistics
Matches: 152, Mismatches: 29, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
79 39 0.26
80 59 0.39
81 54 0.36
ACGTcount: A:0.38, C:0.16, G:0.26, T:0.19
Consensus pattern (80 bp):
AAGCTGGCGAGCGTAAACGCATAAGTATAAGTTGGCGAGCGTAAACGCATATGAATAAGCTGACG
AGCATAAACATGTGC
Found at i:14858838 original size:43 final size:43
Alignment explanation
Indices: 14858774--14858938 Score: 181
Period size: 43 Copynumber: 3.8 Consensus size: 43
14858764 TGGTAATTAT
*
14858774 TAAATGGAAGACTTATGTCTCGGGTAGAGCATAAGATTGTTTA
1 TAAATGGAAGACTTATATCTCGGGTAGAGCATAAGATTGTTTA
* * *
14858817 CAAATGGAAGACTTATATCTCGGGAAGAGCATAAGATTATTTA
1 TAAATGGAAGACTTATATCTCGGGTAGAGCATAAGATTGTTTA
* * * * *
14858860 TAATTGGAAGACCTATGTCTCGGCG-AGAGCATAGGATTGTTTG
1 TAAATGGAAGACTTATATCTCGG-GTAGAGCATAAGATTGTTTA
* * *
14858903 TAAATGAAAGAACTTATGA-CTTGGTTAGAGCATAAG
1 TAAATGGAAG-ACTTAT-ATCTCGGGTAGAGCATAAG
14858939 GTTTATTCAG
Statistics
Matches: 100, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
43 81 0.81
44 19 0.19
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.30
Consensus pattern (43 bp):
TAAATGGAAGACTTATATCTCGGGTAGAGCATAAGATTGTTTA
Found at i:14864170 original size:19 final size:19
Alignment explanation
Indices: 14864146--14864183 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14864136 TTTTTGACAA
* *
14864146 ATAGGTATCGATACTAATT
1 ATAGGTAACGATACCAATT
14864165 ATAGGTAACGATACCAATT
1 ATAGGTAACGATACCAATT
14864184 TTACATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (19 bp):
ATAGGTAACGATACCAATT
Found at i:14874894 original size:30 final size:30
Alignment explanation
Indices: 14874860--14874921 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
14874850 CAACATAACA
*
14874860 AACAAATGCCTCTAAAATAGTAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
14874890 AACAAATGTCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
14874920 AA
1 AA
14874922 TAATAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:14880447 original size:15 final size:15
Alignment explanation
Indices: 14880427--14880459 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
14880417 GCTCAAAGTT
14880427 TAGAAAGTAAAACCC
1 TAGAAAGTAAAACCC
14880442 TAGAAAGTAAAACCC
1 TAGAAAGTAAAACCC
14880457 TAG
1 TAG
14880460 CTTCCTCCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.52, C:0.18, G:0.15, T:0.15
Consensus pattern (15 bp):
TAGAAAGTAAAACCC
Found at i:14898236 original size:70 final size:72
Alignment explanation
Indices: 14898160--14898323 Score: 242
Period size: 70 Copynumber: 2.3 Consensus size: 72
14898150 CTATTGTGAA
* * *
14898160 AGTAAATATATGAGTATGTTGTTCATGCCATGAGATAGTAAATATGTGGGTAT-AT-TTCATGCC
1 AGTAAATATATGAGTATGTTATTCATGCCATGAGACAGTAAATATATGGGTATGATATTCATGCC
14898223 ATGAGAC
66 ATGAGAC
* * *
14898230 AGTAAATATATGTGTATGTTATTCATGCCATGTGACAGTAAATATATGGGTATGTTATTCATGCC
1 AGTAAATATATGAGTATGTTATTCATGCCATGAGACAGTAAATATATGGGTATGATATTCATGCC
14898295 ATGAGAC
66 ATGAGAC
* *
14898302 AGAAAATATATGGGTATGTTAT
1 AGTAAATATATGAGTATGTTAT
14898324 AACAGTCCAG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
70 48 0.57
71 1 0.01
72 35 0.42
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (72 bp):
AGTAAATATATGAGTATGTTATTCATGCCATGAGACAGTAAATATATGGGTATGATATTCATGCC
ATGAGAC
Found at i:14898255 original size:36 final size:36
Alignment explanation
Indices: 14898160--14898323 Score: 242
Period size: 36 Copynumber: 4.6 Consensus size: 36
14898150 CTATTGTGAA
* * *
14898160 AGTAAATATATGAGTATGTTGTTCATGCCATGAGAT
1 AGTAAATATATGGGTATGTTATTCATGCCATGAGAC
* *
14898196 AGTAAATATGTGGGTAT-AT-TTCATGCCATGAGAC
1 AGTAAATATATGGGTATGTTATTCATGCCATGAGAC
* *
14898230 AGTAAATATATGTGTATGTTATTCATGCCATGTGAC
1 AGTAAATATATGGGTATGTTATTCATGCCATGAGAC
14898266 AGTAAATATATGGGTATGTTATTCATGCCATGAGAC
1 AGTAAATATATGGGTATGTTATTCATGCCATGAGAC
*
14898302 AGAAAATATATGGGTATGTTAT
1 AGTAAATATATGGGTATGTTAT
14898324 AACAGTCCAG
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
34 29 0.25
35 2 0.02
36 84 0.73
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (36 bp):
AGTAAATATATGGGTATGTTATTCATGCCATGAGAC
Found at i:14899269 original size:22 final size:22
Alignment explanation
Indices: 14899241--14899284 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14899231 TTGATTTATT
14899241 GTGTTAGATCGAGATCGAGCCA
1 GTGTTAGATCGAGATCGAGCCA
*
14899263 GTGTTAGATTGAGATCGAGCCA
1 GTGTTAGATCGAGATCGAGCCA
14899285 TCGATCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (22 bp):
GTGTTAGATCGAGATCGAGCCA
Found at i:14900387 original size:21 final size:23
Alignment explanation
Indices: 14900361--14900419 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
14900351 GATTTGAGTT
*
14900361 GTATCGGTAGTC-G-TCTAATAA
1 GTATCGGTAGTCTGTTCTAAGAA
*
14900382 GTATCGGTAGTTCTGTTCTTAGAA
1 GTATCGGTAG-TCTGTTCTAAGAA
14900406 GTATCGGTAGTCTG
1 GTATCGGTAGTCTG
14900420 AGTACTTGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.30
22 2 0.06
23 5 0.15
24 16 0.48
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (23 bp):
GTATCGGTAGTCTGTTCTAAGAA
Found at i:14900923 original size:36 final size:36
Alignment explanation
Indices: 14900824--14900923 Score: 128
Period size: 36 Copynumber: 2.8 Consensus size: 36
14900814 TGTTACATAA
*
14900824 GTTATTCATGCCATGTGATAGTAAATATGTGGGTAT
1 GTTATTCATGCCATGTGATAGTAAATATGTAGGTAT
* * * *
14900860 GTTATTCATTCCACGGGATAGAAAATATGTAGGTAT
1 GTTATTCATGCCATGTGATAGTAAATATGTAGGTAT
* * *
14900896 GTTTTTCATGGCATGTGATAGTGAATAT
1 GTTATTCATGCCATGTGATAGTAAATAT
14900924 ATTATGCTAA
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (36 bp):
GTTATTCATGCCATGTGATAGTAAATATGTAGGTAT
Found at i:14901753 original size:12 final size:12
Alignment explanation
Indices: 14901736--14901831 Score: 53
Period size: 12 Copynumber: 8.3 Consensus size: 12
14901726 ATTTTAAAAG
14901736 TTTAATATTAA-A
1 TTTAAT-TTAATA
14901748 TTTAATTTAATA
1 TTTAATTTAATA
*
14901760 TTTATTTTAATA
1 TTTAATTTAATA
*
14901772 -GT-ATTT--TA
1 TTTAATTTAATA
14901780 -TTAATTTAATA
1 TTTAATTTAATA
* * * *
14901791 TTAAAATGATTA
1 TTTAATTTAATA
14901803 TCTTAATATTAA-A
1 T-TTAAT-TTAATA
*
14901816 TTTAATTTAATG
1 TTTAATTTAATA
14901828 TTTA
1 TTTA
14901832 TCTTGTAGAT
Statistics
Matches: 63, Mismatches: 13, Indels: 16
0.68 0.14 0.17
Matches are distributed among these distances:
8 3 0.05
9 4 0.06
10 3 0.05
11 11 0.17
12 35 0.56
13 5 0.08
14 2 0.03
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (12 bp):
TTTAATTTAATA
Found at i:14901768 original size:37 final size:36
Alignment explanation
Indices: 14901719--14901794 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
14901709 ATTCCAAAAA
14901719 TAATATTATTTTAAAAGT-TTAATATTAAATTTAAT-T
1 TAATATTATTTTAAAAGTATT-ATATT-AATTTAATAT
* *
14901755 TAATATTTATTTTAATAGTATTTTATTAATTTAATAT
1 TAATA-TTATTTTAAAAGTATTATATTAATTTAATAT
14901792 TAA
1 TAA
14901795 AATGATTATC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 13 0.37
37 20 0.57
38 2 0.06
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATTTTAAAAGTATTATATTAATTTAATAT
Found at i:14901802 original size:20 final size:18
Alignment explanation
Indices: 14901736--14901826 Score: 63
Period size: 17 Copynumber: 5.3 Consensus size: 18
14901726 ATTTTAAAAG
14901736 TTTAATATTAAAT-TTAA
1 TTTAATATTAAATATTAA
* *
14901753 TTTAATATT-TATTTTAA
1 TTTAATATTAAATATTAA
* *
14901770 --TAGTATT--TTATTAA
1 TTTAATATTAAATATTAA
14901784 TTTAATATTAAAATGATT-A
1 TTTAATATT-AAAT-ATTAA
14901803 TCTTAATATTAAAT-TTAA
1 T-TTAATATTAAATATTAA
14901821 TTTAAT
1 TTTAAT
14901827 GTTTATCTTG
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
14 5 0.08
15 6 0.10
16 8 0.14
17 20 0.34
18 2 0.03
19 7 0.12
20 11 0.19
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (18 bp):
TTTAATATTAAATATTAA
Found at i:14904088 original size:22 final size:22
Alignment explanation
Indices: 14904040--14904092 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
14904030 TACACCATAC
* *
14904040 TAGTAGGCACCAAAATGCTGAG
1 TAGTATGCACCAAAATGCTGAA
*
14904062 TAGTATGCACCAAAGTGC-GAA
1 TAGTATGCACCAAAATGCTGAA
14904083 TCAGTATGCA
1 T-AGTATGCA
14904093 TCGTAGTGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 3 0.11
22 24 0.89
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TAGTATGCACCAAAATGCTGAA
Found at i:14904803 original size:17 final size:17
Alignment explanation
Indices: 14904781--14904818 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
14904771 TTGAGAACAT
14904781 AAAATA-AAAGATAAAAG
1 AAAATAGAAA-ATAAAAG
14904798 AAAATAGAAAATAAAAG
1 AAAATAGAAAATAAAAG
14904815 AAAA
1 AAAA
14904819 AGTTTAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAATAGAAAATAAAAG
Found at i:14911010 original size:50 final size:50
Alignment explanation
Indices: 14910946--14911080 Score: 216
Period size: 50 Copynumber: 2.7 Consensus size: 50
14910936 TAAATATAAA
* *
14910946 ATATTTATGTAAAACACAAGATCTGAACAAAATAATATAAATAAATATTT
1 ATATTTATGTAAAACACAAGATCTGAACAAAACAATATAAAGAAATATTT
* * *
14910996 ATATTTATATAAAACACAATATTTGAACAAAACAATATAAAGAAATATTT
1 ATATTTATGTAAAACACAAGATCTGAACAAAACAATATAAAGAAATATTT
*
14911046 ATATTTATGTAAAACATAAGATCTGAACAAAACAA
1 ATATTTATGTAAAACACAAGATCTGAACAAAACAA
14911081 AAATCGAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 76 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (50 bp):
ATATTTATGTAAAACACAAGATCTGAACAAAACAATATAAAGAAATATTT
Found at i:14917578 original size:18 final size:19
Alignment explanation
Indices: 14917557--14917609 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 19
14917547 AGTAGCAAAC
* *
14917557 TAAATTAAAAC-ATTTAAG
1 TAAATCAAAACAATTTAAA
14917575 TAAA-CAAAACAATTTAAA
1 TAAATCAAAACAATTTAAA
14917593 TAAAT--AAACAATTTAAA
1 TAAATCAAAACAATTTAAA
14917610 AGGTTTGAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 17 0.55
18 14 0.45
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.28
Consensus pattern (19 bp):
TAAATCAAAACAATTTAAA
Found at i:14917585 original size:17 final size:18
Alignment explanation
Indices: 14917563--14917609 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
14917553 AAACTAAATT
*
14917563 AAAAC-ATTTAAGTAAAC
1 AAAACAATTTAAATAAAC
14917580 AAAACAATTTAAATAAA-
1 AAAACAATTTAAATAAAC
*
14917597 TAAACAATTTAAA
1 AAAACAATTTAAA
14917610 AGGTTTGAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 17 0.63
18 10 0.37
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (18 bp):
AAAACAATTTAAATAAAC
Found at i:14919820 original size:123 final size:123
Alignment explanation
Indices: 14919634--14919993 Score: 494
Period size: 122 Copynumber: 2.9 Consensus size: 123
14919624 ATTGCTTTTG
* * * * *
14919634 TTGTTTCACCCACTTCTCTGTATCTCACC-AGAAAGAT-GAGTTTAAAGTTTCACTCACATTTTA
1 TTGTTTGACCTACTTCTCTGTATCTCACCAAG-AAGATGGGGTCTGAAGTTTCACTCACA-TTTA
* *
14919697 AGATTCACCTCATTATTTTGGTACACTTCTCTGTACCTCACCAGGAAGATAACCACTTCA
64 AGCTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCA
*
14919757 TTGTTTGACCTACTTCTCTGAATCTCACCAAGAAGATGGGGTCTGAAGTTTCACTCACATTTAAG
1 TTGTTTGACCTACTTCTCTGTATCTCACCAAGAAGATGGGGTCTGAAGTTTCACTCACATTTAAG
* * * *
14919822 CTTCACCTCACTATTTTGGTACACTTCTCTGTATCTCACCAAGAAGATGATCACTTCA
66 CTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCA
* * * * *
14919880 TT-TTTGACCTACTTCTCTGTACCTCACCAGGAAGATGGGATCTGAAGTTTCACTCACAATTGAG
1 TTGTTTGACCTACTTCTCTGTATCTCACCAAGAAGATGGGGTCTGAAGTTTCACTCACATTTAAG
* *
14919944 CCTT-ACCTCATTATTTTGGTGCACTTCTCTATATCTCACCAGGAAGATAA
66 -CTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAA
14919994 AATTTGAAGT
Statistics
Matches: 211, Mismatches: 23, Indels: 7
0.88 0.10 0.03
Matches are distributed among these distances:
122 97 0.46
123 94 0.45
124 20 0.09
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (123 bp):
TTGTTTGACCTACTTCTCTGTATCTCACCAAGAAGATGGGGTCTGAAGTTTCACTCACATTTAAG
CTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCA
Found at i:14919952 original size:122 final size:122
Alignment explanation
Indices: 14919634--14919993 Score: 499
Period size: 123 Copynumber: 2.9 Consensus size: 122
14919624 ATTGCTTTTG
* * * * * *
14919634 TTGTTTCACCCACTTCTCTGTATCTCACCAGAAAGATGAGTTTAAAGTTTCACTCACATTTTAAG
1 TTGTTTGACCTACTTCTCTGTATCTCACCAGGAAGATGGGTCTGAAGTTTCACTCACA-TTTAAG
* *
14919699 ATTCACCTCATTATTTTGGTACACTTCTCTGTACCTCACCAGGAAGATAACCACTTCA
65 CTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCA
* *
14919757 TTGTTTGACCTACTTCTCTGAATCTCACCAAGAAGATGGGGTCTGAAGTTTCACTCACATTTAAG
1 TTGTTTGACCTACTTCTCTGTATCTCACCAGGAAGAT-GGGTCTGAAGTTTCACTCACATTTAAG
* * * *
14919822 CTTCACCTCACTATTTTGGTACACTTCTCTGTATCTCACCAAGAAGATGATCACTTCA
65 CTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCA
* * *
14919880 TT-TTTGACCTACTTCTCTGTACCTCACCAGGAAGATGGGATCTGAAGTTTCACTCACAATTGAG
1 TTGTTTGACCTACTTCTCTGTATCTCACCAGGAAGATGGG-TCTGAAGTTTCACTCACATTTAAG
* *
14919944 CCTT-ACCTCATTATTTTGGTGCACTTCTCTATATCTCACCAGGAAGATAA
65 -CTTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAA
14919994 AATTTGAAGT
Statistics
Matches: 210, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
121 3 0.01
122 94 0.45
123 95 0.45
124 18 0.09
ACGTcount: A:0.26, C:0.25, G:0.14, T:0.34
Consensus pattern (122 bp):
TTGTTTGACCTACTTCTCTGTATCTCACCAGGAAGATGGGTCTGAAGTTTCACTCACATTTAAGC
TTCACCTCATTATTTTGGTACACTTCTCTGTATCTCACCAGGAAGATAACCACTTCA
Found at i:14920104 original size:48 final size:48
Alignment explanation
Indices: 14920024--14920160 Score: 202
Period size: 48 Copynumber: 2.8 Consensus size: 48
14920014 TTGAACTTTG
** *
14920024 CTTCATTTGATTTGGTCTACTTCTCTGTATCTCATCAGGAAGATGACCA
1 CTTCA-TTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGACCA
* * *
14920073 CTTCATTGATTTAATCCACTTCTTTGCATCTCATCAAGAAGATGACCA
1 CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGACCA
*
14920121 CTTCATTGATTTAATCCACTTCTCCGTATCTCATCAGGAA
1 CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAA
14920161 AACAGATTTG
Statistics
Matches: 78, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
48 73 0.94
49 5 0.06
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (48 bp):
CTTCATTGATTTAATCCACTTCTCTGTATCTCATCAGGAAGATGACCA
Found at i:14920432 original size:208 final size:208
Alignment explanation
Indices: 14920074--14920757 Score: 926
Period size: 208 Copynumber: 3.3 Consensus size: 208
14920064 AGATGACCAC
** * * * * *
14920074 TTCATTGATTTAATCCACTTCTTTGCATCTCATCAAGAAGATGACCACTTCATTGATTTAATCCA
1 TTCATTGATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATCACTTCATTGATTTAATCCA
* * * * * *
14920139 CTTCTCCGTATCTCATCAGGAAAACAGATTTGGTCTACTTCTCAGTATTTCATC-AGAAAGATGA
66 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAG-AAGATGA
* *
14920203 CCTCTTTATTGCTTTGACCCACTTCTCTGTATCTTATCAGGAAGATGGGGTTTGAAGTCTCATTC
130 CCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTC
14920268 GTATTGAGCTTCGT
195 GTATTGAGCTTCGT
* * *
14920282 TTCATTGATTTGGTATACTTCTTTGTATCTCATTAGGAAGATGATCACTTCATTGATTTAATCCA
1 TTCATTGATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATCACTTCATTGATTTAATCCA
* *
14920347 CTTCTCTGTATCTCATCAGGAAGGCGGATTTGGTCCACTTTTCTGTATCTCATCAAGAAGATGAC
66 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC
* * *
14920412 CACTTTATTGCTTTGACCCACTTCTCTATATCTCATCAGAAAGATGGGGCTTGAAGTCTCATTCG
131 CACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCG
14920477 TATTTTGAGCTTCGT
196 TA--TTGAGCTTCGT
* **
14920492 TTCATTGATTTGATCTACTTCTCTGTATCTCATTAAGAAGATGATCGTTTCATTGATTTAATCCA
1 TTCATTGATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATCACTTCATTGATTTAATCCA
* * * * * *
14920557 CTTCTCTGTATCTTATCAAGAAGATGAATTTGG-CTCACTTCTCTGCATCTCGTCAAGAAGATGA
66 CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTC-CACTTCTCTGTATCTCATCAAGAAGATGA
* * **
14920621 CCAC-TTATTGGTTTAACCCACTTCTCTGTATCTCATCAGGAAGATAAGGTTTGAAGTCTCATTC
130 CCACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTC
* * *
14920685 GTATTGAGGTTTGC
195 GTATTGAGCTTCGT
* *
14920699 TTCATTGATTTGGTCTACTTCTCTGTATCTCATTAGGAAGATGA-CTGCTTCATTGATTT
1 TTCATTGATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATC-ACTTCATTGATTT
14920758 TGACGTTTCA
Statistics
Matches: 423, Mismatches: 48, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
206 1 0.00
207 62 0.15
208 173 0.41
209 59 0.14
210 128 0.30
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.39
Consensus pattern (208 bp):
TTCATTGATTTGGTCTACTTCTCTGTATCTCATTAAGAAGATGATCACTTCATTGATTTAATCCA
CTTCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAAGAAGATGAC
CACTTTATTGCTTTGACCCACTTCTCTGTATCTCATCAGGAAGATGGGGTTTGAAGTCTCATTCG
TATTGAGCTTCGT
Found at i:14920433 original size:85 final size:85
Alignment explanation
Indices: 14920288--14920450 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 85
14920278 TCGTTTCATT
* * * * *
14920288 GATTTGGTATACTTCTTTGTATCTCATTAGGAAGATGATCACTTCATTGATTTAATCCACTTCTC
1 GATTTGGTACACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGATTTAACCCACTTCTC
*
14920353 TGTATCTCATCAGGAAGGCG
66 TATATCTCATCAGGAAGGCG
* * * *
14920373 GATTTGGTCCACTT-TTCTGTATCTCATCAAGAAGATGACCACTTTATTGCTTTGACCCACTTCT
1 GATTTGGTACACTTCTT-TGTATCTCATCAAGAAGATGACCACTTCATTGATTTAACCCACTTCT
14920437 CTATATCTCATCAG
65 CTATATCTCATCAG
14920451 AAAGATGGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
84 2 0.03
85 65 0.97
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (85 bp):
GATTTGGTACACTTCTTTGTATCTCATCAAGAAGATGACCACTTCATTGATTTAACCCACTTCTC
TATATCTCATCAGGAAGGCG
Found at i:14920542 original size:48 final size:48
Alignment explanation
Indices: 14920488--14920583 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
14920478 ATTTTGAGCT
* * *
14920488 TCGTTTCATTGATTTGATCTACTTCTCTGTATCTCATTAAGAAGATGA
1 TCGTTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGATGA
*
14920536 TCGTTTCATTGATTTAATCCACTTCTCTGTATCTTATCAAGAAGATGA
1 TCGTTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGATGA
14920584 ATTTGGCTCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.43
Consensus pattern (48 bp):
TCGTTTCATTGATTTAATCCACTTCTCTGTATCTCATCAAGAAGATGA
Found at i:14920967 original size:41 final size:40
Alignment explanation
Indices: 14920815--14921084 Score: 344
Period size: 41 Copynumber: 6.6 Consensus size: 40
14920805 TGCAATCTAC
14920815 CCCTCTTGATTAGGGGTAAAAGACTGGAATGACTTCAATCTG
1 CCCTCTTGATTAGGGGTAAAAGACTGGAAT--CTTCAATCTG
* *
14920857 CCTCCCTTGATTAGGGGTAAAAGACTGGAATCTTCAATTTG
1 CC-CTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
* *
14920898 CCCT-TTGGATTAAGGGTAAAAGATTGGAATCTTCAATCTG
1 CCCTCTT-GATTAGGGGTAAAAGACTGGAATCTTCAATCTG
* *
14920938 CCACTCTTGATTAGGGGTAAAAAACTGGAATATTCAATCTG
1 CC-CTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
* *
14920979 CCCCTCTAGATTAAGGGTAAAAGACTGGAATCTTCAATCTG
1 -CCCTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
* * * *
14921020 CCTATCTAGATTATGGGTAAAAGACTGGAATCTTCAATCTAA
1 CC-CTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCT-G
*
14921062 CCCTCTTGATTAGAGGTAAAAGA
1 CCCTCTTGATTAGGGGTAAAAGA
14921085 TTTCACCTTG
Statistics
Matches: 200, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 35 0.17
41 128 0.64
42 8 0.04
43 27 0.14
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (40 bp):
CCCTCTTGATTAGGGGTAAAAGACTGGAATCTTCAATCTG
Found at i:14921073 original size:123 final size:124
Alignment explanation
Indices: 14920807--14921082 Score: 391
Period size: 123 Copynumber: 2.2 Consensus size: 124
14920797 ATGATGGCTG
* * * *
14920807 CAATCTACCCCTCTTGATTAGGGGTAAAAGACTGGAATGACTTCAATCTGCCTCCCTTGATTAGG
1 CAATCTAACCCTCTTGATTAGGGGTAAAAAACTGGAATGACTTCAATCTGCCTCCCTAGATTAAG
* * *
14920872 GGTAAAAGACTGGAATCTTCAATTTGCCCTTTGGATTAAGGGTAAAAGATTGGAATCTT
66 GGTAAAAGACTGGAATCTTCAATCTGCCCTTTAGATTAAGGGTAAAAGACTGGAATCTT
*
14920931 CAATCT-GCCACTCTTGATTAGGGGTAAAAAACTGGAAT-A-TTCAATCTGCC-CCTCTAGATTA
1 CAATCTAACC-CTCTTGATTAGGGGTAAAAAACTGGAATGACTTCAATCTGCCTCC-CTAGATTA
*
14920992 AGGGTAAAAGACTGGAATCTTCAATCTG-CCTATCTAGATTATGGGTAAAAGACTGGAATCTT
64 AGGGTAAAAGACTGGAATCTTCAATCTGCCCT-T-TAGATTAAGGGTAAAAGACTGGAATCTT
*
14921054 CAATCTAACCCTCTTGATTAGAGGTAAAA
1 CAATCTAACCCTCTTGATTAGGGGTAAAA
14921083 GATTTCACCT
Statistics
Matches: 137, Mismatches: 10, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
121 5 0.04
122 45 0.33
123 52 0.38
124 35 0.26
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (124 bp):
CAATCTAACCCTCTTGATTAGGGGTAAAAAACTGGAATGACTTCAATCTGCCTCCCTAGATTAAG
GGTAAAAGACTGGAATCTTCAATCTGCCCTTTAGATTAAGGGTAAAAGACTGGAATCTT
Found at i:14922260 original size:24 final size:24
Alignment explanation
Indices: 14922242--14922470 Score: 224
Period size: 24 Copynumber: 9.5 Consensus size: 24
14922232 CTTAGCCCAC
14922242 ATGAGCCTAGAATGGTTAGCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
* *
14922266 ATGAGCCTAGAACGGTTGGCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
** *
14922290 ATGAGTTTAGAATGATTAGCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
* *
14922314 ACGAGCCTAGAATGATTAGCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
**
14922338 ACAAGCCTAGAATGGTTAGCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
* * *
14922362 AAGAGCCCAGAATGATTAGCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
* * *
14922386 ACGAGCCCAGAATGGTTAGCTCAT
1 ATGAGCCTAGAATGGTTAGCTCTT
* * * * *
14922410 ACGATCCCAGAATGATTACCTCTT
1 ATGAGCCTAGAATGGTTAGCTCTT
** * * *
14922434 ACAAGCCCAGAATGATTAGCTCAT
1 ATGAGCCTAGAATGGTTAGCTCTT
*
14922458 ATGAGCCAAGAAT
1 ATGAGCCTAGAAT
14922471 CAGAATAACG
Statistics
Matches: 175, Mismatches: 30, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 175 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (24 bp):
ATGAGCCTAGAATGGTTAGCTCTT
Found at i:14922301 original size:48 final size:48
Alignment explanation
Indices: 14922244--14922470 Score: 247
Period size: 48 Copynumber: 4.7 Consensus size: 48
14922234 TAGCCCACAT
* * * * *
14922244 GAGCCTAGAATGGTTAGCTCTTATGAGCCTAGAACGGTTGGCTCTTAT
1 GAGCCTAGAATGGTTAGCTCTTAAGAGCCTAGAATGATTAGCTCTTAC
** * *
14922292 GAGTTTAGAATGATTAGCTCTTACGAGCCTAGAATGATTAGCTCTTAC
1 GAGCCTAGAATGGTTAGCTCTTAAGAGCCTAGAATGATTAGCTCTTAC
* *
14922340 AAGCCTAGAATGGTTAGCTCTTAAGAGCCCAGAATGATTAGCTCTTAC
1 GAGCCTAGAATGGTTAGCTCTTAAGAGCCTAGAATGATTAGCTCTTAC
* * * * * *
14922388 GAGCCCAGAATGGTTAGCTCATACGATCCCAGAATGATTACCTCTTAC
1 GAGCCTAGAATGGTTAGCTCTTAAGAGCCTAGAATGATTAGCTCTTAC
* * * * * *
14922436 AAGCCCAGAATGATTAGCTCATATGAGCCAAGAAT
1 GAGCCTAGAATGGTTAGCTCTTAAGAGCCTAGAAT
14922471 CAGAATAACG
Statistics
Matches: 154, Mismatches: 25, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 154 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (48 bp):
GAGCCTAGAATGGTTAGCTCTTAAGAGCCTAGAATGATTAGCTCTTAC
Found at i:14922325 original size:72 final size:72
Alignment explanation
Indices: 14922244--14922470 Score: 258
Period size: 72 Copynumber: 3.2 Consensus size: 72
14922234 TAGCCCACAT
** * * ***
14922244 GAGCCTAGAATGGTTAGCTCTTATGAGCCTAGAACGGTTGGCTCTTATGAGTTTAGAATGATTAG
1 GAGCCTAGAATGGTTAGCTCTTACAAGCCTAGAACGGTTAGCTCTTAAGAGCCCAGAATGATTAG
14922309 CTCTTAC
66 CTCTTAC
* *
14922316 GAGCCTAGAATGATTAGCTCTTACAAGCCTAGAATGGTTAGCTCTTAAGAGCCCAGAATGATTAG
1 GAGCCTAGAATGGTTAGCTCTTACAAGCCTAGAACGGTTAGCTCTTAAGAGCCCAGAATGATTAG
14922381 CTCTTAC
66 CTCTTAC
* * * * * * * *
14922388 GAGCCCAGAATGGTTAGCTCATACGATCCCAGAATGATTACCTCTTACA-AGCCCAGAATGATTA
1 GAGCCTAGAATGGTTAGCTCTTACAAGCCTAGAACGGTTAGCTCTTA-AGAGCCCAGAATGATTA
* *
14922452 GCTCATAT
65 GCTCTTAC
*
14922460 GAGCCAAGAAT
1 GAGCCTAGAAT
14922471 CAGAATAACG
Statistics
Matches: 134, Mismatches: 20, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
72 133 0.99
73 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (72 bp):
GAGCCTAGAATGGTTAGCTCTTACAAGCCTAGAACGGTTAGCTCTTAAGAGCCCAGAATGATTAG
CTCTTAC
Found at i:14922501 original size:27 final size:27
Alignment explanation
Indices: 14922461--14922528 Score: 109
Period size: 27 Copynumber: 2.5 Consensus size: 27
14922451 AGCTCATATG
14922461 AGCCAAGAATCAGAATAACGCTCTTTCA
1 AGCC-AGAATCAGAATAACGCTCTTTCA
* *
14922489 AGCCAGAATCAGAATAATGCTCTTTCG
1 AGCCAGAATCAGAATAACGCTCTTTCA
14922516 AGCCAGAATCAGA
1 AGCCAGAATCAGA
14922529 TTACTCCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 34 0.89
28 4 0.11
ACGTcount: A:0.38, C:0.24, G:0.18, T:0.21
Consensus pattern (27 bp):
AGCCAGAATCAGAATAACGCTCTTTCA
Found at i:14926193 original size:19 final size:18
Alignment explanation
Indices: 14926164--14926208 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
14926154 CTTTTTGCGA
*
14926164 GTTCTTATCTTGACTTTTT
1 GTTCTTTTCTT-ACTTTTT
* *
14926183 TTTCTTTTCTTTCTTTTT
1 GTTCTTTTCTTACTTTTT
14926201 GTTCTTTT
1 GTTCTTTT
14926209 TTATGTATTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.04, C:0.16, G:0.07, T:0.73
Consensus pattern (18 bp):
GTTCTTTTCTTACTTTTT
Found at i:14932375 original size:24 final size:24
Alignment explanation
Indices: 14932348--14932524 Score: 183
Period size: 24 Copynumber: 7.1 Consensus size: 24
14932338 AATGTTTCAA
* * *
14932348 GTATTCATGTTGACAAGCATAAAC
1 GTATTCATGCTGACGAGCGTAAAC
14932372 GTATTCATGCTGACGAGCGTAAACGTATAC
1 GTATTCATGCTGACGAGCGT--A---A-AC
* *
14932402 GTATTCTTGCTGACGAGCGTAAAT
1 GTATTCATGCTGACGAGCGTAAAC
*
14932426 GTATTCATGCTGGCGAGCGTAAAC
1 GTATTCATGCTGACGAGCGTAAAC
* *
14932450 GTATTCATGCTGGCGAGCGTAAAT
1 GTATTCATGCTGACGAGCGTAAAC
* *
14932474 GTATTCTTGTTGACGAGCGTAAAC
1 GTATTCATGCTGACGAGCGTAAAC
* * *
14932498 GTATTCATGCTGGCAAGCATAAAC
1 GTATTCATGCTGACGAGCGTAAAC
14932522 GTA
1 GTA
14932525 ATGAACTTGC
Statistics
Matches: 129, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
24 104 0.81
25 1 0.01
26 1 0.01
28 1 0.01
29 1 0.01
30 21 0.16
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (24 bp):
GTATTCATGCTGACGAGCGTAAAC
Found at i:14932406 original size:30 final size:30
Alignment explanation
Indices: 14932370--14932453 Score: 108
Period size: 30 Copynumber: 3.0 Consensus size: 30
14932360 ACAAGCATAA
14932370 ACGTATTCATGCTGACGAGCGTAAACGTAT
1 ACGTATTCATGCTGACGAGCGTAAACGTAT
*
14932400 ACGTATTCTTGCTGACGAGCGT-AA---AT
1 ACGTATTCATGCTGACGAGCGTAAACGTAT
*
14932426 --GTATTCATGCTGGCGAGCGTAAACGTAT
1 ACGTATTCATGCTGACGAGCGTAAACGTAT
14932454 TCATGCTGGC
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
24 18 0.38
25 2 0.04
26 2 0.04
28 2 0.04
29 2 0.04
30 21 0.45
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (30 bp):
ACGTATTCATGCTGACGAGCGTAAACGTAT
Found at i:14932511 original size:72 final size:75
Alignment explanation
Indices: 14932348--14932524 Score: 243
Period size: 72 Copynumber: 2.4 Consensus size: 75
14932338 AATGTTTCAA
* *
14932348 GTATTCATGTTGACAAGCATAAACGTATTCATGCTGACGAGCGTAAACGTATACGTATTCTTGCT
1 GTATTCATGCTGGCAAGCATAAACGTATTCATGCTGACGAGCGTAAAC--ATA-GTATTCTTGCT
*
14932413 GACGAGCGTAAAT
63 GACGAGCGTAAAC
* * * *
14932426 GTATTCATGCTGGCGAGCGTAAACGTATTCATGCTGGCGAGCGT-AA-AT-GTATTCTTGTTGAC
1 GTATTCATGCTGGCAAGCATAAACGTATTCATGCTGACGAGCGTAAACATAGTATTCTTGCTGAC
14932488 GAGCGTAAAC
66 GAGCGTAAAC
14932498 GTATTCATGCTGGCAAGCATAAACGTA
1 GTATTCATGCTGGCAAGCATAAACGTA
14932525 ATGAACTTGC
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
72 47 0.52
74 2 0.02
77 2 0.02
78 39 0.43
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (75 bp):
GTATTCATGCTGGCAAGCATAAACGTATTCATGCTGACGAGCGTAAACATAGTATTCTTGCTGAC
GAGCGTAAAC
Done.