Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006890.1 Hibiscus syriacus cultivar Beakdansim tig00017583_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 227650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:1681 original size:17 final size:17
Alignment explanation
Indices: 1659--1697 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1649 GAAAAAAGCG
*
1659 ATCTCCCCTTAACAGCA
1 ATCTCCCCTTAACAGAA
*
1676 ATCTCCTCTTAACAGAA
1 ATCTCCCCTTAACAGAA
1693 ATCTC
1 ATCTC
1698 ATTCGGCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.36, G:0.05, T:0.28
Consensus pattern (17 bp):
ATCTCCCCTTAACAGAA
Found at i:3881 original size:23 final size:23
Alignment explanation
Indices: 3839--3882 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
3829 GTTTTTTTTT
**
3839 TATTTTAGACTAATTGTATGTTA
1 TATTTTAGACTAATAATATGTTA
*
3862 TATTTTAGATTAATAATATGT
1 TATTTTAGACTAATAATATGT
3883 GGTGATTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.34, C:0.02, G:0.11, T:0.52
Consensus pattern (23 bp):
TATTTTAGACTAATAATATGTTA
Found at i:7410 original size:23 final size:23
Alignment explanation
Indices: 7380--7425 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7370 AGTCACAGAT
7380 GAAATGCAACATCTTGCAGGGTA
1 GAAATGCAACATCTTGCAGGGTA
7403 GAAATGCAACATCTTGCAGGGTA
1 GAAATGCAACATCTTGCAGGGTA
7426 ATGATTGTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (23 bp):
GAAATGCAACATCTTGCAGGGTA
Found at i:8087 original size:16 final size:15
Alignment explanation
Indices: 8067--8113 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
8057 TTTTTATAAA
8067 ATATATATTTTAATT
1 ATATATATTTTAATT
*
8082 ACTATAT-TTATATATT
1 A-TATATATTTTA-ATT
8098 AT-TATATTTTAATT
1 ATATATATTTTAATT
8112 AT
1 AT
8114 TTATTACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 8 0.30
15 10 0.37
16 9 0.33
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
ATATATATTTTAATT
Found at i:8153 original size:25 final size:25
Alignment explanation
Indices: 8072--8154 Score: 73
Period size: 25 Copynumber: 3.4 Consensus size: 25
8062 ATAAAATATA
* *
8072 TATTTTAATTACTA-TATTTATATAT
1 TATTATAATTAATATTATTTAT-TAT
* *
8097 TATTATATTTTA-ATTATTTATTA-
1 TATTATAATTAATATTATTTATTAT
* *
8120 CATTAATAATTAATATTAATTATTAT
1 TATT-ATAATTAATATTATTTATTAT
8146 TATTATAAT
1 TATTATAAT
8155 ATTTATTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
23 3 0.07
24 9 0.20
25 30 0.67
26 3 0.07
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (25 bp):
TATTATAATTAATATTATTTATTAT
Found at i:8711 original size:29 final size:29
Alignment explanation
Indices: 8666--8723 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
8656 GTGTTGGCCG
*
8666 TAGGTCGCCATGCCTTCCGGGCGACCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
* *
8695 TAGGTCGCCATGTCTTCCCGGCGAGCTAC
1 TAGGTCGCCATGCCTTCCCGGCGACCTAC
8724 AAGAGATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.14, C:0.36, G:0.28, T:0.22
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCCGGCGACCTAC
Found at i:8785 original size:14 final size:14
Alignment explanation
Indices: 8766--8836 Score: 80
Period size: 14 Copynumber: 5.4 Consensus size: 14
8756 CGCTGGGCAT
8766 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
8780 CCGAGGCCATCC-A
1 CCGAGGCCATCCGA
8793 TCCGAGGCCATCCGA
1 -CCGAGGCCATCCGA
*
8808 --GA--ACATCCGA
1 CCGAGGCCATCCGA
8818 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
8832 ACGAG
1 CCGAG
8837 CTATGCGAGG
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
10 7 0.15
12 4 0.08
13 1 0.02
14 35 0.73
15 1 0.02
ACGTcount: A:0.25, C:0.39, G:0.27, T:0.08
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:8928 original size:29 final size:29
Alignment explanation
Indices: 8896--9009 Score: 113
Period size: 29 Copynumber: 3.9 Consensus size: 29
8886 GAGCGAGGGT
*
8896 AGGTCGCCGGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* ***
8925 AGGTCACCCGGAGTGCATGGCGACCTTGT
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* *
8954 AGGTCGCCAGGAG-GTTATGGCGACCTACA
1 AGGTCGCCCGGAGTG-CATGGCGACCTACA
* * * *
8983 AAGTTGCCCGGAGGGAATGGCGACCTA
1 AGGTCGCCCGGAGTGCATGGCGACCTA
9010 TGTGTTGGGA
Statistics
Matches: 68, Mismatches: 15, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 1 0.01
29 66 0.97
30 1 0.01
ACGTcount: A:0.22, C:0.25, G:0.36, T:0.17
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:8993 original size:58 final size:58
Alignment explanation
Indices: 8894--9008 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
8884 CCGAGCGAGG
* * * *
8894 GTAGGTCGCCGGGAGTGCATGGCGACCTACAAGGTCACCCGGAGTGCATGGCGACCTT
1 GTAGGTCGCCAGGAGTGCATGGCGACCTACAAAGTCACCCGGAGGGAATGGCGACCTT
* **
8952 GTAGGTCGCCAGGAG-GTTATGGCGACCTACAAAGTTGCCCGGAGGGAATGGCGACCT
1 GTAGGTCGCCAGGAGTG-CATGGCGACCTACAAAGTCACCCGGAGGGAATGGCGACCT
9009 ATGTGTTGGG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
57 1 0.02
58 48 0.98
ACGTcount: A:0.21, C:0.25, G:0.37, T:0.17
Consensus pattern (58 bp):
GTAGGTCGCCAGGAGTGCATGGCGACCTACAAAGTCACCCGGAGGGAATGGCGACCTT
Found at i:9055 original size:12 final size:12
Alignment explanation
Indices: 9038--9062 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9028 TGCCATGCAA
9038 CACGTTCATTCT
1 CACGTTCATTCT
9050 CACGTTCATTCT
1 CACGTTCATTCT
9062 C
1 C
9063 TCTGTTTGAG
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:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (12 bp):
CACGTTCATTCT
Found at i:9122 original size:29 final size:29
Alignment explanation
Indices: 9080--9136 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
9070 GAGCAAGGGT
9080 AGGTCGCCCGGAGTGCATGGCGACCTACA
1 AGGTCGCCCGGAGTGCATGGCGACCTACA
* *
9109 AGGTCGTCCGGAGTGCCTGGCGACCTAC
1 AGGTCGCCCGGAGTGCATGGCGACCTAC
9137 GACCAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.18, C:0.32, G:0.35, T:0.16
Consensus pattern (29 bp):
AGGTCGCCCGGAGTGCATGGCGACCTACA
Found at i:11652 original size:16 final size:16
Alignment explanation
Indices: 11631--11667 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
11621 TTGGTTGAAA
11631 GAATAAAAGATTACTG
1 GAATAAAAGATTACTG
*
11647 GAATAAAATATTACTG
1 GAATAAAAGATTACTG
11663 GAATA
1 GAATA
11668 TATATTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.27
Consensus pattern (16 bp):
GAATAAAAGATTACTG
Found at i:13895 original size:7 final size:7
Alignment explanation
Indices: 13883--13909 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
13873 AAGAAGAAAA
13883 AATCTAG
1 AATCTAG
13890 AATCTAG
1 AATCTAG
13897 AATCTAG
1 AATCTAG
13904 AATCTA
1 AATCTA
13910 ATCTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.11, T:0.30
Consensus pattern (7 bp):
AATCTAG
Found at i:14973 original size:19 final size:19
Alignment explanation
Indices: 14949--14986 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14939 CATCCTATTC
14949 CTAGGGTTTTCTGTTTCTT
1 CTAGGGTTTTCTGTTTCTT
14968 CTAGGGTTTTCTGTTTCTT
1 CTAGGGTTTTCTGTTTCTT
14987 GTTTCACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.16, G:0.21, T:0.58
Consensus pattern (19 bp):
CTAGGGTTTTCTGTTTCTT
Found at i:18009 original size:2 final size:2
Alignment explanation
Indices: 18004--18032 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17994 TTTTTTTATC
18004 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18033 TTAATGGTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19540 original size:6 final size:6
Alignment explanation
Indices: 19496--19537 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
19486 TCAAGGCATG
* *
19496 TGCTTC TGCTTC TGCTTC TGCTTC TGCTTC AGCTTC AGCTTC
1 TGCTTC TGCTTC TGCTTC TGCTTC TGCTTC TGCTTC TGCTTC
19538 AGCCCAGGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.05, C:0.33, G:0.17, T:0.45
Consensus pattern (6 bp):
TGCTTC
Found at i:27645 original size:29 final size:29
Alignment explanation
Indices: 27602--27684 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
27592 CTCACCTAAC
27602 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
27632 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
27661 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
27685 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:32412 original size:29 final size:29
Alignment explanation
Indices: 32369--32451 Score: 139
Period size: 29 Copynumber: 2.8 Consensus size: 29
32359 CTCACCTAAC
32369 TAAATTGATGTAAGCAATGACATCATTAAT
1 TAAA-TGATGTAAGCAATGACATCATTAAT
*
32399 TAAATGATGTAAGCAATGACATCTTTAAT
1 TAAATGATGTAAGCAATGACATCATTAAT
*
32428 TAAATGATGTAAGTAATGACATCA
1 TAAATGATGTAAGCAATGACATCA
32452 ATTTAGTTTG
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
29 46 0.92
30 4 0.08
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (29 bp):
TAAATGATGTAAGCAATGACATCATTAAT
Found at i:36306 original size:20 final size:21
Alignment explanation
Indices: 36281--36335 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
36271 ATCATTCCTC
36281 TTATTTTATTAT-CTCTTATT
1 TTATTTTATTATACTCTTATT
*
36301 TTA-TTTATTATACTTTTATT
1 TTATTTTATTATACTCTTATT
*
36321 TT-TTTTATTTTACTC
1 TTATTTTATTATACTC
36336 ATTAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 8 0.27
20 22 0.73
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTTTATTATACTCTTATT
Found at i:39646 original size:28 final size:28
Alignment explanation
Indices: 39581--39646 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
39571 GCCCCAATTT
* *
39581 TTTTAT-ATTTATAATTAGGGCCTCCAA
1 TTTTATAATTTATAATTAAGACCTCCAA
**
39608 TTTT-TATATTTATAATTAAGACCTTTAA
1 TTTTATA-ATTTATAATTAAGACCTCCAA
39636 TTTTATAATTT
1 TTTTATAATTT
39647 CAATTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
26 1 0.03
27 4 0.12
28 25 0.78
29 2 0.06
ACGTcount: A:0.32, C:0.09, G:0.06, T:0.53
Consensus pattern (28 bp):
TTTTATAATTTATAATTAAGACCTCCAA
Found at i:44755 original size:16 final size:17
Alignment explanation
Indices: 44734--44773 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
44724 ATATATAAAA
44734 TAATAATAAT-AATTAT
1 TAATAATAATAAATTAT
44750 TAATAATAATAAATTAT
1 TAATAATAATAAATTAT
44767 T-ATAATA
1 TAATAATA
44774 CTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TAATAATAATAAATTAT
Found at i:44782 original size:2 final size:2
Alignment explanation
Indices: 44775--44803 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
44765 ATTATAATAC
44775 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44804 TTTAAATTCG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45199 original size:147 final size:146
Alignment explanation
Indices: 45007--45306 Score: 485
Period size: 147 Copynumber: 2.1 Consensus size: 146
44997 TATTTAACCG
* * * * * *
45007 TTAA-TCGAACTGAATTTTTTTTGAAAATAATTAATCGAACCGAACAAAGTTCATTTAATCGGTC
1 TTAATTCGAACTGAAATTTTTTCGAAAATAACTAACCAAACCGAACAAAATTCATTTAATCGGTC
*
45071 AATTAACCGAATTAACCGAAATTTATAAATAATACATATTATATATTAAATATTTTATATTTCCA
66 AATTAACCGAATTAACCAAAATTTATAAATAATACATATTATATATTAAATA-TTTATATTTCCA
*
45136 GTTAATTTGGTTGGTAA
130 ATTAATTTGGTTGGTAA
* *
45153 TTAATTCGAACTGAAATTTTTTCGAAATTAACTAACCAAACCGAACAAAATTCATTTAATTGGTC
1 TTAATTCGAACTGAAATTTTTTCGAAAATAACTAACCAAACCGAACAAAATTCATTTAATCGGTC
*
45218 AATTAACCGAATTAACCAAAATTTATAAATAATACATATTATATATTAAATATTTATATTTTCAA
66 AATTAACCGAATTAACCAAAATTTATAAATAATACATATTATATATTAAATATTTATATTTCCAA
45283 TTAATTTGGTTGGTAA
131 TTAATTTGGTTGGTAA
45299 TTAATTCG
1 TTAATTCG
45307 GTTAAAACCG
Statistics
Matches: 142, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
146 39 0.27
147 103 0.73
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (146 bp):
TTAATTCGAACTGAAATTTTTTCGAAAATAACTAACCAAACCGAACAAAATTCATTTAATCGGTC
AATTAACCGAATTAACCAAAATTTATAAATAATACATATTATATATTAAATATTTATATTTCCAA
TTAATTTGGTTGGTAA
Found at i:51069 original size:21 final size:21
Alignment explanation
Indices: 51030--51070 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
51020 ATTCAAAGAG
51030 GGGAATCGATTCCCCTGCTACA
1 GGGAATCGATT-CCCTGCTACA
51052 GGGAATCGATAT-CCTGCTA
1 GGGAATCGAT-TCCCTGCTA
51071 TCCTGCTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 10 0.56
23 1 0.06
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.24
Consensus pattern (21 bp):
GGGAATCGATTCCCTGCTACA
Found at i:51814 original size:24 final size:24
Alignment explanation
Indices: 51787--51848 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
51777 AGCTCGTATA
51787 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGTAGTGCCACGTAG
* *
51811 AATTTGCACCGAAGTGCCGCGTAG
1 AATTTGCACCGTAGTGCCACGTAG
*
51835 AA-ATGCACCGTAGT
1 AATTTGCACCGTAGT
51849 ACCATATAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 10 0.29
24 24 0.71
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (24 bp):
AATTTGCACCGTAGTGCCACGTAG
Found at i:55469 original size:12 final size:13
Alignment explanation
Indices: 55446--55513 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
55436 GATGTTTGGA
55446 TGCATGGATGCAT
1 TGCATGGATGCAT
55459 TGCAT-GATGCAT
1 TGCATGGATGCAT
* *
55471 CGATGCAT-TAGTGCAGA
1 ---TGCATGGA-TGCA-T
55488 TGCATGGATGCAT
1 TGCATGGATGCAT
*
55501 TGCAGGGATGCAT
1 TGCATGGATGCAT
55514 GGATGCACTG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 7 0.16
13 17 0.39
14 9 0.20
15 7 0.16
16 4 0.09
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (13 bp):
TGCATGGATGCAT
Found at i:55497 original size:8 final size:8
Alignment explanation
Indices: 55442--55541 Score: 55
Period size: 8 Copynumber: 14.0 Consensus size: 8
55432 ATTCGATGTT
55442 TGGATGCA
1 TGGATGCA
55450 TGGATGCA
1 TGGATGCA
55458 T---TGCA
1 TGGATGCA
55463 T-GATGCA
1 TGGATGCA
*
55470 TCGATGCA
1 TGGATGCA
*
55478 T-TAGTGCA
1 TGGA-TGCA
55486 --GATGCA
1 TGGATGCA
55492 TGGATGCA
1 TGGATGCA
55500 T---TGCA
1 TGGATGCA
*
55505 GGGATGCA
1 TGGATGCA
55513 TGGATGCA
1 TGGATGCA
*
55521 ---CTGCA
1 TGGATGCA
*
55526 GGGATGCA
1 TGGATGCA
55534 TGGATGCA
1 TGGATGCA
55542 CTTTGACACC
Statistics
Matches: 73, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
5 13 0.18
6 4 0.05
7 7 0.10
8 49 0.67
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (8 bp):
TGGATGCA
Found at i:55512 original size:21 final size:21
Alignment explanation
Indices: 55443--55541 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
55433 TTCGATGTTT
55443 GGATGCATGGATGCATTGCA-
1 GGATGCATGGATGCATTGCAG
* *
55463 TGATGCATCGATGCATT--AG
1 GGATGCATGGATGCATTGCAG
55482 TGCAGATGCATGGATGCATTGCAG
1 -G--GATGCATGGATGCATTGCAG
*
55506 GGATGCATGGATGCACTGCAG
1 GGATGCATGGATGCATTGCAG
55527 GGATGCATGGATGCA
1 GGATGCATGGATGCA
55542 CTTTGACACC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.01
20 15 0.22
21 34 0.50
22 15 0.22
23 1 0.01
24 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.24
Consensus pattern (21 bp):
GGATGCATGGATGCATTGCAG
Found at i:55644 original size:29 final size:29
Alignment explanation
Indices: 55623--55680 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
55613 AAACTTTGAA
55623 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
55652 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
55681 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:55670 original size:30 final size:30
Alignment explanation
Indices: 55623--55682 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
55613 AAACTTTGAA
55623 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
55652 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
55683 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:56652 original size:12 final size:13
Alignment explanation
Indices: 56629--56688 Score: 51
Period size: 13 Copynumber: 5.0 Consensus size: 13
56619 GATGTTTGGA
56629 TGCATGGATGCAT
1 TGCATGGATGCAT
56642 TGCAT-GATGCAT
1 TGCATGGATGCAT
*
56654 T--A--G-TGCAGA
1 TGCATGGATGCA-T
56663 TGCATGGATGCAT
1 TGCATGGATGCAT
*
56676 TGCAGGGATGCAT
1 TGCATGGATGCAT
56689 GGATGCACTG
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
8 4 0.11
9 2 0.05
10 1 0.03
11 1 0.03
12 8 0.21
13 18 0.47
14 4 0.11
ACGTcount: A:0.25, C:0.15, G:0.32, T:0.28
Consensus pattern (13 bp):
TGCATGGATGCAT
Found at i:56685 original size:21 final size:21
Alignment explanation
Indices: 56661--56718 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
56651 CATTAGTGCA
*
56661 GATGCATGGATGCATTGCAGG
1 GATGCATGGATGCACTGCAGG
56682 GATGCATGGATGCACTGCAGG
1 GATGCATGGATGCACTGCAGG
56703 GATGCATGGATGCACT
1 GATGCATGGATGCACT
56719 TTGACACCCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.24, C:0.17, G:0.36, T:0.22
Consensus pattern (21 bp):
GATGCATGGATGCACTGCAGG
Found at i:56819 original size:29 final size:29
Alignment explanation
Indices: 56798--56855 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
56788 AAACTTTGAA
56798 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
56827 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
56856 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:56845 original size:30 final size:30
Alignment explanation
Indices: 56798--56857 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
56788 AAACTTTGAA
56798 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
56827 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
56858 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:57825 original size:12 final size:13
Alignment explanation
Indices: 57802--57869 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
57792 GATGTTTGGA
57802 TGCATGGATGCAT
1 TGCATGGATGCAT
57815 TGCAT-GATGCAT
1 TGCATGGATGCAT
* *
57827 CGATGCAT-TAGTGCAGA
1 ---TGCATGGA-TGCA-T
57844 TGCATGGATGCAT
1 TGCATGGATGCAT
*
57857 TGCAGGGATGCAT
1 TGCATGGATGCAT
57870 GGATGCACTG
Statistics
Matches: 44, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
12 7 0.16
13 17 0.39
14 9 0.20
15 7 0.16
16 4 0.09
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (13 bp):
TGCATGGATGCAT
Found at i:57853 original size:8 final size:8
Alignment explanation
Indices: 57798--57897 Score: 55
Period size: 8 Copynumber: 14.0 Consensus size: 8
57788 ATTCGATGTT
57798 TGGATGCA
1 TGGATGCA
57806 TGGATGCA
1 TGGATGCA
57814 T---TGCA
1 TGGATGCA
57819 T-GATGCA
1 TGGATGCA
*
57826 TCGATGCA
1 TGGATGCA
*
57834 T-TAGTGCA
1 TGGA-TGCA
57842 --GATGCA
1 TGGATGCA
57848 TGGATGCA
1 TGGATGCA
57856 T---TGCA
1 TGGATGCA
*
57861 GGGATGCA
1 TGGATGCA
57869 TGGATGCA
1 TGGATGCA
*
57877 ---CTGCA
1 TGGATGCA
*
57882 GGGATGCA
1 TGGATGCA
57890 TGGATGCA
1 TGGATGCA
57898 CTTTGACGCC
Statistics
Matches: 73, Mismatches: 7, Indels: 24
0.70 0.07 0.23
Matches are distributed among these distances:
5 13 0.18
6 4 0.05
7 7 0.10
8 49 0.67
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.25
Consensus pattern (8 bp):
TGGATGCA
Found at i:57868 original size:21 final size:21
Alignment explanation
Indices: 57799--57897 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
57789 TTCGATGTTT
57799 GGATGCATGGATGCATTGCA-
1 GGATGCATGGATGCATTGCAG
* *
57819 TGATGCATCGATGCATT--AG
1 GGATGCATGGATGCATTGCAG
57838 TGCAGATGCATGGATGCATTGCAG
1 -G--GATGCATGGATGCATTGCAG
*
57862 GGATGCATGGATGCACTGCAG
1 GGATGCATGGATGCATTGCAG
57883 GGATGCATGGATGCA
1 GGATGCATGGATGCA
57898 CTTTGACGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
18 1 0.01
20 15 0.22
21 34 0.50
22 15 0.22
23 1 0.01
24 2 0.03
ACGTcount: A:0.25, C:0.16, G:0.34, T:0.24
Consensus pattern (21 bp):
GGATGCATGGATGCATTGCAG
Found at i:58030 original size:30 final size:30
Alignment explanation
Indices: 57979--58038 Score: 95
Period size: 29 Copynumber: 2.0 Consensus size: 30
57969 AAACTTTGAA
57979 TAAATTCAATTAAGTCAAAAAA-CATTTTG
1 TAAATTCAATTAAGTCAAAAAACCATTTTG
*
58008 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCAAAAAACCATTTTG
58039 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCAAAAAACCATTTTG
Found at i:58047 original size:34 final size:29
Alignment explanation
Indices: 57979--58038 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 29
57969 AAACTTTGAA
57979 TAAATTCAATTAAGTCAAAAAACATTTTG
1 TAAATTCAATTAAGTCAAAAAACATTTTG
*
58008 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGT-CAAAAAACATTTTG
58039 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 4 0.14
31 13 0.46
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTAAGTCAAAAAACATTTTG
Found at i:61442 original size:24 final size:24
Alignment explanation
Indices: 61415--61480 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
61405 AGCTCGTATA
61415 AATTTGCACCGTAATGCCACGTAG
1 AATTTGCACCGTAATGCCACGTAG
61439 AATTTGCACCG-AAGTGCCACGTAG
1 AATTTGCACCGTAA-TGCCACGTAG
* *
61463 AA-ATGCACCGTAGTGCCA
1 AATTTGCACCGTAATGCCA
61481 TATAAGATTG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 14 0.37
24 24 0.63
ACGTcount: A:0.30, C:0.26, G:0.23, T:0.21
Consensus pattern (24 bp):
AATTTGCACCGTAATGCCACGTAG
Found at i:64812 original size:2 final size:2
Alignment explanation
Indices: 64805--64832 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64795 TTTTTATTAA
64805 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64833 GTCAAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65159 original size:23 final size:21
Alignment explanation
Indices: 65105--65147 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
65095 AGAATAATTA
65105 TGTCTTTGTGATATGTTCCTC
1 TGTCTTTGTGATATGTTCCTC
65126 TGTCTTTGTGATATGTTCCTC
1 TGTCTTTGTGATATGTTCCTC
65147 T
1 T
65148 CTTCTTTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (21 bp):
TGTCTTTGTGATATGTTCCTC
Found at i:66116 original size:12 final size:12
Alignment explanation
Indices: 66095--66127 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
66085 CACCTTCGCT
66095 CTCCTCTCC-TC
1 CTCCTCTCCTTC
66106 CTCCATCTCCTTC
1 CTCC-TCTCCTTC
66119 CTCCTCTCC
1 CTCCTCTCC
66128 ATTTGCGCCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 10 0.50
13 6 0.30
ACGTcount: A:0.03, C:0.61, G:0.00, T:0.36
Consensus pattern (12 bp):
CTCCTCTCCTTC
Found at i:71628 original size:64 final size:63
Alignment explanation
Indices: 71555--71733 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
71545 GGAACACACT
* * * **
71555 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* *
71619 AGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* *
71683 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
71734 CAATTTATTC
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
62 1 0.01
64 96 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:78257 original size:64 final size:63
Alignment explanation
Indices: 78184--78362 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
78174 GGAACACACT
* * * **
78184 AGTGCATCGGTGCACCAAGTGTGCATCGATGCATAAAATGCATTCGATGTTTGAA-AATAGCCTG
1 AGTGCATCGGTGCA-TAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAA-AACCCA
* *
78248 AGTGCATCGGTGCAT-TGCTTGTGCATCGATGCATGAAATGCATTCGATGTTTTAATAAAACCCA
1 AGTGCATCGGTGCATAAG--TGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
* *
78312 AGTGCATCGATGCATAGAGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGGTGCATA-AGTGTGCATCGATGCATGAAATGCATTCGATGTT
78363 CAATTTATTC
Statistics
Matches: 100, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
62 1 0.01
64 96 0.96
65 2 0.02
66 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (63 bp):
AGTGCATCGGTGCATAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAATAAAACCCA
Found at i:80694 original size:39 final size:39
Alignment explanation
Indices: 80650--80732 Score: 130
Period size: 39 Copynumber: 2.1 Consensus size: 39
80640 CTCATGATTT
* *
80650 TATCAAAATCATGACAAACAATATCATATACAATAGTCA
1 TATCAAAACCATGACAAACAATATCATACACAATAGTCA
* *
80689 TATCAAAACCATGATAAACAATATCATACATAATAGTCA
1 TATCAAAACCATGACAAACAATATCATACACAATAGTCA
80728 TATCA
1 TATCA
80733 TATTCTTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.27
Consensus pattern (39 bp):
TATCAAAACCATGACAAACAATATCATACACAATAGTCA
Found at i:80898 original size:18 final size:18
Alignment explanation
Indices: 80875--80925 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
80865 TCAAAATTTT
80875 TTCATAACTTATTTAAGA
1 TTCATAACTTATTTAAGA
* *
80893 TTCATAACTTAATTTCATA
1 TTCATAACTT-ATTTAAGA
*
80912 TTCATAGCTTATTT
1 TTCATAACTTATTT
80926 TCAAGTTTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.33, C:0.14, G:0.04, T:0.49
Consensus pattern (18 bp):
TTCATAACTTATTTAAGA
Found at i:84543 original size:21 final size:21
Alignment explanation
Indices: 84519--84560 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
84509 TATAGTAACC
*
84519 TGCTATAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
84540 TGCTACAGTGCATCGATGCAT
1 TGCTACAGTGCATCGATGCAT
84561 CGATGCACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (21 bp):
TGCTACAGTGCATCGATGCAT
Found at i:85267 original size:31 final size:31
Alignment explanation
Indices: 85244--85384 Score: 219
Period size: 31 Copynumber: 4.5 Consensus size: 31
85234 CATAGATTCT
* * *
85244 GAAGAACCTAGGTAATCAGTCCATATGTCCT
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
85275 GAAGAACATAGGTAAACAGTCAATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
* *
85306 GAAGAACATAGGTAAAAAATCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
85337 GAAGAACATAGGTAAACAGTCCATATGTCCC
1 GAAGAACATAGGTAAACAGTCCATATGTCCC
*
85368 GAAGAACACAGGTAAAC
1 GAAGAACATAGGTAAAC
85385 CCTCGACCCG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 100 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (31 bp):
GAAGAACATAGGTAAACAGTCCATATGTCCC
Found at i:91342 original size:30 final size:31
Alignment explanation
Indices: 91281--91343 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 31
91271 TAAACATCAA
* * *
91281 CCCCATAACTTTTCAAAATTTCTAAATAGGT
1 CCCCATAACTTTTCAAAAATTATAAAAAGGT
91312 CCCC-TAAC-TTTCAAAAAATTATAAAAAGGT
1 CCCCATAACTTTTC-AAAAATTATAAAAAGGT
91342 CC
1 CC
91344 AAAATTTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 20 0.71
31 4 0.14
ACGTcount: A:0.40, C:0.24, G:0.06, T:0.30
Consensus pattern (31 bp):
CCCCATAACTTTTCAAAAATTATAAAAAGGT
Found at i:92933 original size:17 final size:18
Alignment explanation
Indices: 92911--92944 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
92901 TATTTGAGTT
92911 TTTTAAA-AATAAAAATA
1 TTTTAAATAATAAAAATA
*
92928 TTTTAAATATTAAAAAT
1 TTTTAAATAATAAAAAT
92945 TAAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTTTAAATAATAAAAATA
Found at i:93513 original size:59 final size:59
Alignment explanation
Indices: 93444--93592 Score: 210
Period size: 59 Copynumber: 2.5 Consensus size: 59
93434 TCACTCCCAT
* *
93444 TTTAAATTAATCTCCAAACTTTT-AGGTATTCCAAGATCATCCTCAAACTATGACCCTTA
1 TTTAAATTAATCCCCAAACTTTTGA-GCATTCCAAGATCATCCTCAAACTATGACCCTTA
*
93503 TTTAAATTAATCCCCAAACTTTTGAGCATTCCAAGATCATCCTCAAACTATGGCCCTTA
1 TTTAAATTAATCCCCAAACTTTTGAGCATTCCAAGATCATCCTCAAACTATGACCCTTA
* * * *
93562 TTCTAAATTAGTCCTCAAACATTTGAACATT
1 TT-TAAATTAATCCCCAAACTTTTGAGCATT
93593 GTAATAATAT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
59 56 0.69
60 25 0.31
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.35
Consensus pattern (59 bp):
TTTAAATTAATCCCCAAACTTTTGAGCATTCCAAGATCATCCTCAAACTATGACCCTTA
Found at i:93578 original size:31 final size:30
Alignment explanation
Indices: 93482--93581 Score: 80
Period size: 30 Copynumber: 3.3 Consensus size: 30
93472 TTCCAAGATC
*
93482 ATCCTCAAACTATGACCCTTATT-TAAATT
1 ATCCTCAAACTATGGCCCTTATTCTAAATT
* * * ** * *
93511 AATCCCCAAACTTTTGAGC--ATTCCAAGATC
1 -ATCCTCAAACTATGGCCCTTATTCTAA-ATT
93541 ATCCTCAAACTATGGCCCTTATTCTAAATT
1 ATCCTCAAACTATGGCCCTTATTCTAAATT
93571 AGTCCTCAAAC
1 A-TCCTCAAAC
93582 ATTTGAACAT
Statistics
Matches: 50, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
28 3 0.06
29 15 0.30
30 17 0.34
31 15 0.30
ACGTcount: A:0.33, C:0.28, G:0.07, T:0.32
Consensus pattern (30 bp):
ATCCTCAAACTATGGCCCTTATTCTAAATT
Found at i:94326 original size:11 final size:11
Alignment explanation
Indices: 94300--94336 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
94290 TAGTCATTAA
94300 AATT-TAAAA-
1 AATTATAAAAT
94309 AATTATAAAAT
1 AATTATAAAAT
*
94320 TATTATAAAAT
1 AATTATAAAAT
94331 AATTAT
1 AATTAT
94337 TAAACTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 4 0.17
10 5 0.21
11 15 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
AATTATAAAAT
Found at i:94346 original size:21 final size:22
Alignment explanation
Indices: 94304--94351 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
94294 CATTAAAATT
*
94304 TAAAA-AATTATAAAATTATTA
1 TAAAATAATTATAAAACTATTA
*
94325 TAAAATAATTATTAAACT-TTA
1 TAAAATAATTATAAAACTATTA
*
94346 TCAAAT
1 TAAAAT
94352 TGTTACGAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
TAAAATAATTATAAAACTATTA
Found at i:98348 original size:22 final size:21
Alignment explanation
Indices: 98305--98347 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
98295 AATCCCCGTA
*
98305 GTTTTTTAAGCGGGGACGGGG
1 GTTTTTTAAACGGGGACGGGG
*
98326 GTTTTTTAAACGGGGATGGGG
1 GTTTTTTAAACGGGGACGGGG
98347 G
1 G
98348 GACCAATACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.07, G:0.47, T:0.30
Consensus pattern (21 bp):
GTTTTTTAAACGGGGACGGGG
Found at i:100579 original size:26 final size:28
Alignment explanation
Indices: 100550--100615 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 28
100540 GAAAATTTTA
100550 AGCTC-GC-GAGTTTTCGAGTCGAGTCG
1 AGCTCAGCAGAGTTTTCGAGTCGAGTCG
*
100576 AGCTCAATTTCAGAGTTTTCGAGTCGAGTCG
1 AGCTC-A--GCAGAGTTTTCGAGTCGAGTCG
100607 AGCTCAGCA
1 AGCTCAGCA
100616 ATACTCAAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
26 5 0.15
28 2 0.06
30 2 0.06
31 24 0.73
ACGTcount: A:0.21, C:0.23, G:0.29, T:0.27
Consensus pattern (28 bp):
AGCTCAGCAGAGTTTTCGAGTCGAGTCG
Found at i:104680 original size:49 final size:49
Alignment explanation
Indices: 104608--104706 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
104598 AAACTGCATC
104608 GATTCAAGTGGGAGTTCCTTGGCAGCCACCAACCTGCAAAAAATGCAAA
1 GATTCAAGTGGGAGTTCCTTGGCAGCCACCAACCTGCAAAAAATGCAAA
104657 GATTCAAGTGGGAGTTCCTTGGCAGCCACCAACCTGCAAAAAATGCAAA
1 GATTCAAGTGGGAGTTCCTTGGCAGCCACCAACCTGCAAAAAATGCAAA
104706 G
1 G
104707 TTTTTGGCCA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.18
Consensus pattern (49 bp):
GATTCAAGTGGGAGTTCCTTGGCAGCCACCAACCTGCAAAAAATGCAAA
Found at i:106056 original size:32 final size:31
Alignment explanation
Indices: 105938--106060 Score: 119
Period size: 31 Copynumber: 3.9 Consensus size: 31
105928 TCCTCAGCAA
* * * *
105938 CTGTCCATAGGTTCTGAAGAACCTAGGTGAA-
1 CTGTCCATATGTTCCGTAGAACATAGGT-AAT
*
105969 CTGTCCATATGTTCCTTAGAACATAGGT-AT
1 CTGTCCATATGTTCCGTAGAACATAGGTAAT
*
105999 ACTGTCCATATG-TCTCG-AAAGACATAGGTAATT
1 -CTGTCCATATGTTC-CGTAGA-ACATAGGTAA-T
106032 CTGTCCATATGTTCCGTAGAACATAGGTA
1 CTGTCCATATGTTCCGTAGAACATAGGTA
106061 CCCTCGACTC
Statistics
Matches: 76, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
29 1 0.01
30 4 0.05
31 43 0.57
32 23 0.30
33 5 0.07
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (31 bp):
CTGTCCATATGTTCCGTAGAACATAGGTAAT
Found at i:114464 original size:18 final size:19
Alignment explanation
Indices: 114429--114465 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
114419 CATGGAATGT
114429 AAGATTATCAGTGGGAATAA
1 AAGATTATCAG-GGGAATAA
114449 AAGATTATCA-GGGAATA
1 AAGATTATCAGGGGAATA
114466 GGATTACTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.05, G:0.24, T:0.24
Consensus pattern (19 bp):
AAGATTATCAGGGGAATAA
Found at i:116393 original size:20 final size:20
Alignment explanation
Indices: 116341--116393 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
116331 TAATACAAAA
*
116341 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATTCTGACTT
*
116361 TCGCAACGTGATTCTGACTT
1 TCGCAACGAGATTCTGACTT
*
116381 TCGCAACGCGATT
1 TCGCAACGAGATT
116394 TACATAGCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGCAACGAGATTCTGACTT
Found at i:116958 original size:19 final size:19
Alignment explanation
Indices: 116936--116977 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
116926 AAATAACTAT
*
116936 CGCAACGAGAAATAAAAAA
1 CGCAACGAGAAACAAAAAA
* *
116955 CGCAACGCGAAACAAAAAT
1 CGCAACGAGAAACAAAAAA
116974 CGCA
1 CGCA
116978 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.24, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGAGAAACAAAAAA
Found at i:116976 original size:38 final size:38
Alignment explanation
Indices: 116903--116977 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 38
116893 AGAATAGTTT
* * * **
116903 CGAGAATGAAAATCGCAACGCGGAAATAACTATCGCAA
1 CGAGAATAAAAAACGCAACGCGGAAACAAAAATCGCAA
116941 CGAGAAATAAAAAACGCAACGC-GAAACAAAAATCGCA
1 CGAG-AATAAAAAACGCAACGCGGAAACAAAAATCGCA
116978 TTGCGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
38 16 0.52
39 15 0.48
ACGTcount: A:0.51, C:0.21, G:0.19, T:0.09
Consensus pattern (38 bp):
CGAGAATAAAAAACGCAACGCGGAAACAAAAATCGCAA
Found at i:117024 original size:33 final size:33
Alignment explanation
Indices: 116987--117071 Score: 152
Period size: 33 Copynumber: 2.5 Consensus size: 33
116977 ATTGCGATTT
116987 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
117020 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
117053 TCATTTCCGCGTTGCGATT
1 TCATTT-CGCGTTGCGATT
117072 TTCATTTCAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.76
34 12 0.24
ACGTcount: A:0.12, C:0.26, G:0.24, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:119160 original size:42 final size:42
Alignment explanation
Indices: 119084--119172 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 42
119074 GACTCGCCTG
* * *
119084 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
* * * * *
119126 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
119168 TCATC
1 TCATC
119173 GTTGAAGAGG
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.21, C:0.38, G:0.17, T:0.24
Consensus pattern (42 bp):
TCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCCCCTA
Found at i:120579 original size:14 final size:14
Alignment explanation
Indices: 120560--120595 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
120550 ATTGTTTAAT
120560 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
120574 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
120588 TGATTTGT
1 TGATTTGT
120596 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:120746 original size:19 final size:19
Alignment explanation
Indices: 120722--120780 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
120712 GAAATTAGCG
120722 TTGCGATTTTCATTTTGCA
1 TTGCGATTTTCATTTTGCA
* *
120741 TTGCGA--TTC--TCT-CG
1 TTGCGATTTTCATTTTGCA
*
120755 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTTGCA
120774 TTGCGAT
1 TTGCGAT
120781 AGTAATTTCC
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
14 7 0.23
15 2 0.07
16 3 0.10
17 3 0.10
18 1 0.03
19 14 0.47
ACGTcount: A:0.14, C:0.20, G:0.19, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTTGCA
Found at i:123072 original size:12 final size:12
Alignment explanation
Indices: 123055--123079 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
123045 TCTTCGGGGA
123055 CTTTTTCTTCTT
1 CTTTTTCTTCTT
123067 CTTTTTCTTCTT
1 CTTTTTCTTCTT
123079 C
1 C
123080 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:123288 original size:24 final size:24
Alignment explanation
Indices: 123254--123307 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
123244 CTGAAACATC
* *
123254 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
123278 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
123302 ATCAAA
1 ATCAAA
123308 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:124383 original size:20 final size:20
Alignment explanation
Indices: 124358--124415 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
124348 ATTCATTTGA
124358 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
124378 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
124398 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
124416 CGCAATGCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:124458 original size:14 final size:14
Alignment explanation
Indices: 124439--124491 Score: 61
Period size: 14 Copynumber: 3.5 Consensus size: 14
124429 GAAAATCGCA
124439 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
*
124453 TTGCGATTTCATTTCG
1 TTGCGATTT--TCTCG
124469 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
124485 TTGCGAT
1 TTGCGAT
124492 AGCCATTTCG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 16 0.48
16 8 0.24
18 9 0.27
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:124474 original size:18 final size:16
Alignment explanation
Indices: 124434--124484 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
124424 GAAATGAAAA
124434 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
*
124450 TCG--TTGCGATTTCATT
1 TCGCATTGCGATTT--TC
124466 TCGCATTGCGATTTTC
1 TCGCATTGCGATTTTC
124482 TCG
1 TCG
124485 TTGCGATAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.31
16 11 0.38
18 9 0.31
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.45
Consensus pattern (16 bp):
TCGCATTGCGATTTTC
Found at i:126514 original size:20 final size:19
Alignment explanation
Indices: 126491--126558 Score: 82
Period size: 20 Copynumber: 3.5 Consensus size: 19
126481 GAAACTTAAA
126491 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCG-AAATGACT
*
126511 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGC-GAAATGACT
* **
126531 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
126550 ATCGCAACG
1 ATCGCAACG
126559 ACAAAATCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
19 14 0.34
20 26 0.63
21 1 0.02
ACGTcount: A:0.38, C:0.24, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:126566 original size:14 final size:14
Alignment explanation
Indices: 126547--126604 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
126537 ATGCGAAATG
126547 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
126561 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
*
126577 ATGAAATCGCAATGAC
1 A--AAATCGCAACGAC
126593 AAAATCGCAACG
1 AAAATCGCAACG
126605 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 20 0.56
16 7 0.19
18 9 0.25
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:126594 original size:32 final size:33
Alignment explanation
Indices: 126531--126609 Score: 133
Period size: 32 Copynumber: 2.4 Consensus size: 33
126521 GGAAATGGCT
*
126531 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
126564 ATCGCAACGCGAAATG-AAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
126596 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
126610 CACAAATCGC
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 29 0.66
33 15 0.34
ACGTcount: A:0.47, C:0.23, G:0.19, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:126657 original size:14 final size:14
Alignment explanation
Indices: 126638--126695 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
126628 TTTCATTTCG
126638 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
126652 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
126668 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
126684 CGTTGCGATTTT
1 CGTTGCGATTTT
126696 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:126702 original size:33 final size:33
Alignment explanation
Indices: 126625--126711 Score: 158
Period size: 32 Copynumber: 2.7 Consensus size: 33
126615 ATCGCATTGT
*
126625 GATTTTCATTTCGCGTTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
126658 GA-TTTCATTTCGCATTGCGATTTTGTCGTTGC
1 GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
126690 GATTTTCATTTCGCATTGCGAT
1 GATTTTCATTTCGCATTGCGAT
126712 AGCCATTTCC
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
32 31 0.60
33 21 0.40
ACGTcount: A:0.13, C:0.18, G:0.22, T:0.47
Consensus pattern (33 bp):
GATTTTCATTTCGCATTGCGATTTTGTCGTTGC
Found at i:126730 original size:20 final size:19
Alignment explanation
Indices: 126696--126750 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
126686 TTGCGATTTT
*
126696 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
126715 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
126735 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
126751 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:127258 original size:18 final size:18
Alignment explanation
Indices: 127232--127271 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
127222 GTCGATCAGA
* *
127232 TGATGGCTCTGGGTGAGG
1 TGATAGCTCTGGGCGAGG
127250 TGATAGCTCTGGGCGAGG
1 TGATAGCTCTGGGCGAGG
127268 TGAT
1 TGAT
127272 GGCTTCCGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.45, T:0.28
Consensus pattern (18 bp):
TGATAGCTCTGGGCGAGG
Found at i:128645 original size:20 final size:20
Alignment explanation
Indices: 128597--128655 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
128587 AATAGTTTCT
** *
128597 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
128617 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
128637 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
128656 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:128948 original size:22 final size:22
Alignment explanation
Indices: 128918--128961 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
128908 GATGGAGATA
128918 GACGAATTTCGCCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
* *
128940 GACGGATTTCGTCGGAGATGGG
1 GACGAATTTCGCCGGAGATGGG
128962 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGAATTTCGCCGGAGATGGG
Found at i:129175 original size:20 final size:20
Alignment explanation
Indices: 129149--129262 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
129139 GATTATGTAT
129149 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
129169 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
129189 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* ** *
129209 TATCTCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
129230 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
129250 TATCGCATTGCGA
1 TATCGCGTTGCGA
129263 TTTTCCCAAT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 3 0.04
20 63 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:129266 original size:41 final size:41
Alignment explanation
Indices: 129129--129264 Score: 159
Period size: 41 Copynumber: 3.3 Consensus size: 41
129119 CGCTTTGAAA
*
129129 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
129170 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * * *
129210 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
129251 ATCGCATTGCGATT
1 ATCGCATTGCGATT
129265 TTCCCAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:129278 original size:21 final size:21
Alignment explanation
Indices: 129252--129365 Score: 151
Period size: 21 Copynumber: 5.5 Consensus size: 21
129242 ATAGTCAGTA
129252 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
129273 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* **
129294 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
129314 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
129335 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
129355 TCGCATTGCGA
1 TCGCATTGCGA
129366 ATTGGGAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
20 33 0.41
21 48 0.59
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:129303 original size:62 final size:61
Alignment explanation
Indices: 129232--129365 Score: 173
Period size: 62 Copynumber: 2.2 Consensus size: 61
129222 TTTTGTATTA
*
129232 TCGCATTGCGATAGTCA-GTA-TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGAT--TCACGTATTCGCATTGCGATTTTCCCAATTCGCATTGCGA-TTTACCAAT
* * * **
129294 TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACCAAT
129355 TCGCATTGCGA
1 TCGCATTGCGA
129366 ATTGGGAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
60 2 0.03
61 19 0.30
62 43 0.67
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (61 bp):
TCGCATTGCGATTCACGTATTCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACCAAT
Found at i:129316 original size:41 final size:41
Alignment explanation
Indices: 129252--129365 Score: 183
Period size: 41 Copynumber: 2.8 Consensus size: 41
129242 ATAGTCAGTA
* **
129252 TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTATTCGCATTGCGATTTTCCCAAT
129294 TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
*
129335 TCGCGTTGCGATTTACTTATTCGCATTGCGA
1 TCGCATTGCGATTTACTTATTCGCATTGCGA
129366 ATTGGGAAAA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
41 57 0.84
42 11 0.16
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
Found at i:129380 original size:62 final size:62
Alignment explanation
Indices: 129232--129380 Score: 156
Period size: 62 Copynumber: 2.4 Consensus size: 62
129222 TTTTGTATTA
* * ** *
129232 TCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTGACAAAATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTTACCAAT
* ** * * **
129294 TCGCATTGCGATTTACTTATTCGCATTGCGATTTTCCCAATTCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTGACAAAATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTTACCAAT
**
129355 TCGCATTGCGAATTGGGAAAATCGCA
1 TCGCATTGCG-ATTGACAAAATCGCA
129381 ACGACACTGT
Statistics
Matches: 69, Mismatches: 17, Indels: 2
0.78 0.19 0.02
Matches are distributed among these distances:
61 16 0.23
62 53 0.77
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.36
Consensus pattern (62 bp):
TCGCATTGCGATTGACAAAATCGCATTGCGATTTTCCCAATTCGCATTGCGATTTTACCAAT
Found at i:130266 original size:59 final size:60
Alignment explanation
Indices: 130193--130329 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 60
130183 AATATAAGGA
130193 ATAGTCGG-GTGATCATTTTGCAACTTTTAATAG-TCAATGGAC-TAACAAAGTAACACTCT
1 ATAGTCGGAG-GATCATTTTGCAACTTTTAATAGTTCAA-GGACTTAACAAAGTAACACTCT
* * * **
130252 ATAGTCGGAGGATCATTTTGTAACTTTTAATAGTTGAAGGACTTAATAAAGTAGTACTCT
1 ATAGTCGGAGGATCATTTTGCAACTTTTAATAGTTCAAGGACTTAACAAAGTAACACTCT
* **
130312 ATAATCAAAGGATCATTT
1 ATAGTCGGAGGATCATTT
130330 GTGTACTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 34 0.51
60 33 0.49
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (60 bp):
ATAGTCGGAGGATCATTTTGCAACTTTTAATAGTTCAAGGACTTAACAAAGTAACACTCT
Found at i:130338 original size:60 final size:59
Alignment explanation
Indices: 130203--130338 Score: 159
Period size: 60 Copynumber: 2.3 Consensus size: 59
130193 ATAGTCGGGT
* * **
130203 GATCATTTTGCAACTTTTAATAGTCAATGGACTAACAAAGTAACACTCTATAGTCGGAG
1 GATCATTTTGTAACTTTTAATAGTCAATGGACTAACAAAGTAACACTCTATAATCAAAG
* * **
130262 GATCATTTTGTAACTTTTAATAGTTGAA-GGACTTAATAAAGTAGTACTCTATAATCAAAG
1 GATCATTTTGTAACTTTTAATAG-TCAATGGAC-TAACAAAGTAACACTCTATAATCAAAG
130322 GATCATTTGTGT-ACTTT
1 GATCATTT-TGTAACTTT
130339 ACCCTAATAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
59 26 0.39
60 37 0.56
61 3 0.05
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (59 bp):
GATCATTTTGTAACTTTTAATAGTCAATGGACTAACAAAGTAACACTCTATAATCAAAG
Found at i:132829 original size:29 final size:30
Alignment explanation
Indices: 132787--132854 Score: 120
Period size: 29 Copynumber: 2.3 Consensus size: 30
132777 AACCGAAAAA
132787 GCAGAAATGCATAACAATCCAACTGTCGC-
1 GCAGAAATGCATAACAATCCAACTGTCGCG
132816 GCAGAAATGCATAACAATCCAACTGTCGCG
1 GCAGAAATGCATAACAATCCAACTGTCGCG
*
132846 GTAGAAATG
1 GCAGAAATG
132855 AGTAATGACG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 29 0.78
30 8 0.22
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.18
Consensus pattern (30 bp):
GCAGAAATGCATAACAATCCAACTGTCGCG
Found at i:149512 original size:25 final size:25
Alignment explanation
Indices: 149477--149525 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
149467 AAATACGGTA
*
149477 TGAACAATAACCTGCTACATTACCG
1 TGAACAATAACCTGCTACAGTACCG
*
149502 TGAACAGTAACCTGCTACAGTACC
1 TGAACAATAACCTGCTACAGTACC
149526 AAAAAATGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.22
Consensus pattern (25 bp):
TGAACAATAACCTGCTACAGTACCG
Found at i:150013 original size:16 final size:17
Alignment explanation
Indices: 149992--150024 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
149982 TTATCATGAT
149992 CTCTATCAT-ATTCATA
1 CTCTATCATCATTCATA
*
150008 CTCTATTATCATTCATA
1 CTCTATCATCATTCATA
150025 TTTCTTATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.24, G:0.00, T:0.45
Consensus pattern (17 bp):
CTCTATCATCATTCATA
Found at i:150023 original size:17 final size:17
Alignment explanation
Indices: 149980--150024 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 17
149970 CATATGCCAA
*
149980 TATTATCA-TGAT-CTC
1 TATTATCATTCATACTC
*
149995 TATCAT-ATTCATACTC
1 TATTATCATTCATACTC
150011 TATTATCATTCATA
1 TATTATCATTCATA
150025 TTTCTTATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 8 0.33
16 8 0.33
17 7 0.29
ACGTcount: A:0.31, C:0.20, G:0.02, T:0.47
Consensus pattern (17 bp):
TATTATCATTCATACTC
Found at i:158654 original size:15 final size:15
Alignment explanation
Indices: 158636--158670 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
158626 CGAGGGTATT
158636 GTAGTCATTCGAGAC
1 GTAGTCATTCGAGAC
*
158651 GTAGTCCTTCGAGAC
1 GTAGTCATTCGAGAC
158666 GTAGT
1 GTAGT
158671 GGTCCTACGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.29
Consensus pattern (15 bp):
GTAGTCATTCGAGAC
Found at i:160017 original size:20 final size:22
Alignment explanation
Indices: 159981--160022 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
159971 TGAAATTTTC
159981 GTTCAAGCCCAGAAAA-TCACT
1 GTTCAAGCCCAGAAAATTCACT
*
160002 GTTCATGCCC-GAAAATTCACT
1 GTTCAAGCCCAGAAAATTCACT
160023 ATAACAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (22 bp):
GTTCAAGCCCAGAAAATTCACT
Found at i:161980 original size:18 final size:18
Alignment explanation
Indices: 161957--162002 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
161947 TGTTTATGAG
*
161957 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGTCAA
*
161975 GGAATTGGAATCTGTCAA
1 GGAATTAGAATCTGTCAA
161993 -GAATTAGAAT
1 GGAATTAGAAT
162003 ATGTTAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.39, C:0.07, G:0.26, T:0.28
Consensus pattern (18 bp):
GGAATTAGAATCTGTCAA
Found at i:162013 original size:17 final size:17
Alignment explanation
Indices: 161957--162014 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
161947 TGTTTATGAG
161957 GGAATTAGAATCTGTGAA
1 GGAATTAGAATCTGT-AA
*
161975 GGAATTGGAATCTGTCAA
1 GGAATTAGAATCTGT-AA
* *
161993 -GAATTAGAATATGTTA
1 GGAATTAGAATCTGTAA
162009 GGAATT
1 GGAATT
162015 GTAATCCAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 1 0.03
17 17 0.50
18 16 0.47
ACGTcount: A:0.38, C:0.05, G:0.26, T:0.31
Consensus pattern (17 bp):
GGAATTAGAATCTGTAA
Found at i:164639 original size:21 final size:21
Alignment explanation
Indices: 164597--164639 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
164587 TTTCTGGGCT
* *
164597 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
164618 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
164639 A
1 A
164640 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:165406 original size:31 final size:30
Alignment explanation
Indices: 165367--165463 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 30
165357 AGTCGAGGGT
165367 TTACCTATGTCTTTCGAGACATATGGACAG
1 TTACCTATGTCTTTCGAGACATATGGACAG
*** *
165397 TATACCTATGTTCTAAGGA-ACATATGGATAG
1 T-TACCTATG-TCTTTCGAGACATATGGACAG
* * *
165428 TTTACCTAGGT-TCTTCGGGACCTATGGACAG
1 -TTACCTATGTCT-TTCGAGACATATGGACAG
165459 TTACC
1 TTACC
165464 GAGGATCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
29 1 0.02
30 8 0.16
31 36 0.71
32 6 0.12
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (30 bp):
TTACCTATGTCTTTCGAGACATATGGACAG
Found at i:165480 original size:30 final size:30
Alignment explanation
Indices: 165446--165604 Score: 275
Period size: 30 Copynumber: 5.3 Consensus size: 30
165436 GGTTCTTCGG
*
165446 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
*
165476 GACCTCTGGACAATTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
165506 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
165536 GACCTCTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
* *
165566 GACCTCTGGACAGTTACCG-GGGTCTTTGT
1 GACCTCTGGACAGTTACCGAGGATCTTTAT
165595 GACCTCTGGA
1 GACCTCTGGA
165605 TAGGTCCTTT
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
29 18 0.15
30 106 0.85
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
GACCTCTGGACAGTTACCGAGGATCTTTAT
Found at i:170128 original size:31 final size:30
Alignment explanation
Indices: 170089--170185 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 30
170079 AGTCGAGGGT
170089 TTACCTATGTCTTTCGAGACATATGGACAG
1 TTACCTATGTCTTTCGAGACATATGGACAG
*** *
170119 TATACCTATGTTCTAAGGA-ACATATGGATAG
1 T-TACCTATG-TCTTTCGAGACATATGGACAG
* * *
170150 TTTACCTAGGT-TCTTCGGGATATATGGACAG
1 -TTACCTATGTCT-TTCGAGACATATGGACAG
170181 TTACC
1 TTACC
170186 GAGGATCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
29 1 0.02
30 8 0.16
31 36 0.71
32 6 0.12
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (30 bp):
TTACCTATGTCTTTCGAGACATATGGACAG
Found at i:170208 original size:30 final size:30
Alignment explanation
Indices: 170174--170326 Score: 272
Period size: 30 Copynumber: 5.1 Consensus size: 30
170164 TCGGGATATA
170174 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
170204 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
170234 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
*
170264 TGGACAGTTACCGAGGATCTTTATAACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* *
170294 TGGACAGTTACCG-GGGTCTTTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
170323 TGGA
1 TGGA
170327 TAGGTCCTTT
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
29 17 0.14
30 102 0.86
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:171877 original size:59 final size:58
Alignment explanation
Indices: 171758--171917 Score: 146
Period size: 59 Copynumber: 2.7 Consensus size: 58
171748 ATACGTATAA
*
171758 TTTA-GGATAAAATTGAAATGTTCAAAAAGTTTGGAGACCAAATTAGAATGACGATCATAG
1 TTTAGGGATAAAA-TGAAATGTT--AAAAGTTTGGAGACCAAATTAGAATGAAGATCATAG
* * *
171818 TTTGGGGATGAAAATGAAATGTTAAAAGTTT-GAGAACCAATTTAGAATGATAG-TTATAG
1 TTTAGGGAT-AAAATGAAATGTTAAAAGTTTGGAG-ACCAAATTAGAATGA-AGATCATAG
* * * **
171877 TTTAGGGATCAAATTAAAATATTTAAAAGTTTATAGACCAA
1 TTTAGGGAT-AAAATGAAAT-GTTAAAAGTTTGGAGACCAA
171918 TTTGAACTGA
Statistics
Matches: 84, Mismatches: 10, Indels: 12
0.79 0.09 0.11
Matches are distributed among these distances:
58 3 0.04
59 43 0.51
60 19 0.23
61 15 0.18
62 4 0.05
ACGTcount: A:0.43, C:0.06, G:0.19, T:0.31
Consensus pattern (58 bp):
TTTAGGGATAAAATGAAATGTTAAAAGTTTGGAGACCAAATTAGAATGAAGATCATAG
Found at i:172708 original size:2 final size:2
Alignment explanation
Indices: 172701--172725 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
172691 ACCACTCATA
172701 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
172726 GTATTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:173387 original size:105 final size:107
Alignment explanation
Indices: 173166--173620 Score: 576
Period size: 112 Copynumber: 4.1 Consensus size: 107
173156 TTGTCGGTTT
* * **
173166 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAATTAAAAAAATG----AA-C
*
173230 GGTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAA
61 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
173277 GTGTCGATACTTTATAAAAATATATTGATCTATAACAATATAACAATTAAAAAAATG-A-GGTCT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAATTAAAAAAATGAACGGTCT
*
173340 ATAAATGACAAAACATGTAAAGCGCTACCGGATATATTGAAA
66 ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
173382 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAAC-ATGTAAAAAAATGACAAAAT
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAT-TAAAAAAATG----AA-
* *
173446 CGGTCAATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAA
60 CGGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* * *
173494 GTGTTGATACTTTATAAAAATGTATCGATCCATAATAATATAACAAGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAATTAAAAAAATG----AA-C
* * * *
173559 GGTCTATAAATGACAAAACAGATAAAACGCTACCGGATATGTTGATA
61 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
173606 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
173621 TATAAGTATC
Statistics
Matches: 312, Mismatches: 22, Indels: 19
0.88 0.06 0.05
Matches are distributed among these distances:
104 2 0.01
105 96 0.31
107 1 0.00
110 1 0.00
111 45 0.14
112 166 0.53
113 1 0.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.27
Consensus pattern (107 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAATTAAAAAAATGAACGGTCT
ATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:173547 original size:217 final size:218
Alignment explanation
Indices: 173166--173620 Score: 682
Period size: 217 Copynumber: 2.1 Consensus size: 218
173156 TTGTCGGTTT
*
173166 GTGTCGATACTTTATAAAAATATATTGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
* * *
173231 GTCTATAAATGACAAAACAGGTAAAGCGCTATCGGATATATTGAAAGTGTCGATACTTTATAAAA
66 GTCAATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTATAAAA
* * *
173296 ATATATTGATCTATAACAATATAACAATTAAAAAAATG-A-GGTCTATAAATGACAAAACATG-T
131 ATATATCGATCCATAACAATATAACAAGTAAAAAAATGAACGGTCTATAAATGACAAAACA-GAT
*
173358 AAAGCGCTACCGGATATATTGAAA
195 AAAACGCTACCGGATATATTGAAA
* * *
173382 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGT-AAAAAATGACAAAACC
*
173447 GGTCAATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAAGTGTTGATACTTTATAAA
65 GGTCAATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTATAAA
* *
173512 AATGTATCGATCCATAATAATATAACAAGTAAAAAAATGACAAAACCGGTCTATAAATGACAAAA
130 AATATATCGATCCATAACAATATAACAAGTAAAAAAATG----AA-CGGTCTATAAATGACAAAA
* *
173577 CAGATAAAACGCTACCGGATATGTTGATA
190 CAGATAAAACGCTACCGGATATATTGAAA
173606 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
173621 TATAAGTATC
Statistics
Matches: 214, Mismatches: 16, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
216 45 0.21
217 110 0.51
222 1 0.00
223 1 0.00
224 57 0.27
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.27
Consensus pattern (218 bp):
GTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACAGGTAAAAAATGACAAAACCG
GTCAATAAATGACAAAACAGGTAAAGCGCTACCGAATATATTGAAAGTGTCGATACTTTATAAAA
ATATATCGATCCATAACAATATAACAAGTAAAAAAATGAACGGTCTATAAATGACAAAACAGATA
AAACGCTACCGGATATATTGAAA
Found at i:174288 original size:23 final size:23
Alignment explanation
Indices: 174233--174289 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
174223 TTAATTAGAA
*
174233 AATATGTTAATATAAGCGCTACAT
1 AATATATT-ATATAAGCGCTACAT
* * * *
174257 ATTACATTATATAAGCGTTACCT
1 AATATATTATATAAGCGCTACAT
174280 AATATATTAT
1 AATATATTAT
174290 TGTAGTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (23 bp):
AATATATTATATAAGCGCTACAT
Found at i:177378 original size:26 final size:26
Alignment explanation
Indices: 177349--177408 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
177339 TGTTGATTTT
177349 TATA-ATACAGTAGTTGTGA-ACATGCA
1 TATAGATA-AGTA-TTGTGATACATGCA
*
177375 TATATGATAATTATTGTGATACATGCA
1 TATA-GATAAGTATTGTGATACATGCA
177402 TA-AGATA
1 TATAGATA
177409 TATATATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
25 4 0.13
26 11 0.37
27 12 0.40
28 3 0.10
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
TATAGATAAGTATTGTGATACATGCA
Found at i:177437 original size:12 final size:12
Alignment explanation
Indices: 177419--177454 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
177409 TATATATGTT
177419 CATGTGATATGA
1 CATGTGATATGA
*
177431 TATGTGATATGA
1 CATGTGATATGA
*
177443 CCTGTGATATGA
1 CATGTGATATGA
177455 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:180858 original size:21 final size:21
Alignment explanation
Indices: 180834--180878 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
180824 AATATGTAAA
180834 TCGCATTGCAATTTTCCAAAT
1 TCGCATTGCAATTTTCCAAAT
*
180855 TCGCGTTGCAATTTTCCAAAT
1 TCGCATTGCAATTTTCCAAAT
180876 TCG
1 TCG
180879 TAACGCAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (21 bp):
TCGCATTGCAATTTTCCAAAT
Found at i:180886 original size:21 final size:21
Alignment explanation
Indices: 180787--180886 Score: 64
Period size: 21 Copynumber: 4.9 Consensus size: 21
180777 TAACGTGAAC
* * *
180787 TCCAATTTCGCAACTC-AGTT
1 TCCAAATTCGCAACGCAATTT
*
180807 TCCAAATTCGCAACGCGAATATG
1 TCCAAATTCGCAACGC-AAT-TT
**
180830 T--AAA-TCGCATTGCAATTT
1 TCCAAATTCGCAACGCAATTT
***
180848 TCCAAATTCGCGTTGCAATTT
1 TCCAAATTCGCAACGCAATTT
*
180869 TCCAAATTCGTAACGCAA
1 TCCAAATTCGCAACGCAA
180887 ATATGAAAAT
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.03
19 3 0.05
20 24 0.39
21 30 0.48
22 1 0.02
23 2 0.03
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (21 bp):
TCCAAATTCGCAACGCAATTT
Found at i:181386 original size:22 final size:22
Alignment explanation
Indices: 181361--181404 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
181351 CGGCGACATC
181361 TGTCCCCATCTCCGACGAAATT
1 TGTCCCCATCTCCGACGAAATT
* *
181383 TGTCCTCATCTCCGGCGAAATT
1 TGTCCCCATCTCCGACGAAATT
181405 CATCTATCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (22 bp):
TGTCCCCATCTCCGACGAAATT
Found at i:183974 original size:42 final size:42
Alignment explanation
Indices: 183922--184040 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
183912 GATTCACCTG
* * *
183922 TCATCGTTCAAGAGGCCTCTCCTATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
* * *
183964 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGGCCCTT
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
** *
184006 TCATCGTTCAAGAGATCCCTCCCACCGTTCGAGAG
1 TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAG
184041 CCCGATTCAC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (42 bp):
TCATCGTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTA
Found at i:184025 original size:21 final size:21
Alignment explanation
Indices: 183922--184019 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
183912 GATTCACCTG
*
183922 TCATCGTTCAAGAGGCCTCT-
1 TCATCGTTCAAGAGGCCCCTA
*
183942 CCTATCGTTCAAGAGGCCCCTA
1 TC-ATCGTTCAAGAGGCCCCTA
* *
183964 TCATCCTTCAAGAGGCCCCTC
1 TCATCGTTCAAGAGGCCCCTA
* * * *
183985 CCACCGTTCAAGAGGGCCCTT
1 TCATCGTTCAAGAGGCCCCTA
184006 TCATCGTTCAAGAG
1 TCATCGTTCAAGAG
184020 ATCCCTCCCA
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 1 0.02
21 62 0.97
22 1 0.02
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:184034 original size:21 final size:21
Alignment explanation
Indices: 183926--184040 Score: 106
Period size: 21 Copynumber: 5.5 Consensus size: 21
183916 CACCTGTCAT
* * *
183926 CGTTCAAGAGGCCTCTCCTAT
1 CGTTCAAGAGGCCCCTCCCAC
**
183947 CGTTCAAGAGGCCCCTATCATC
1 CGTTCAAGAGGCCCCTCCCA-C
183969 C-TTCAAGAGGCCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
* ** *
183989 CGTTCAAGAGGGCCCTTTCAT
1 CGTTCAAGAGGCCCCTCCCAC
**
184010 CGTTCAAGAGATCCCTCCCAC
1 CGTTCAAGAGGCCCCTCCCAC
*
184031 CGTTCGAGAG
1 CGTTCAAGAG
184041 CCCGATTCAC
Statistics
Matches: 75, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 2 0.03
21 72 0.96
22 1 0.01
ACGTcount: A:0.21, C:0.37, G:0.20, T:0.23
Consensus pattern (21 bp):
CGTTCAAGAGGCCCCTCCCAC
Found at i:188087 original size:799 final size:800
Alignment explanation
Indices: 184904--188094 Score: 5875
Period size: 800 Copynumber: 4.0 Consensus size: 800
184894 TCGGAGGGAA
* *
184904 CCGATTCCCCCCAGGGGTATCGATTCCCCCCACTGTTCAACGGTCGAAATATTTGAATTTTACAT
1 CCGATTCCCCCCAGGGGTATCGATTCCCCTCACTGTTCAACGGTCGAAATATTTGAATTTTACAC
* * * *
184969 TTAGGGAACTGATTCTCCATGAGGGGTACCGATTCCCCCCACACTCCAAGTTGTTGTATTAATTG
66 TTAGGGAACCGATTCCCCATGAGGGGTACCGATTCCCCCCACGCTCCAAGCTGTTGTATTAATTG
* * *
185034 TTTTTACACTTAAACGGCTCCAATAACTTCATTAATGATCCCTAACATTCAGAAGTGATTCAAGG
131 TTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAGG
*
185099 TGTATTTAAGCAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAAAATCAAGA
196 TGTATTTAAGCAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAGA
* *
185164 GAGAATAAAAGAGAAAGCATCAAACGTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTTAATAT
261 GAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATAT
185229 TCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTGT
326 TCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTGT
*
185294 TCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGTAAATTTGTAATCT
391 TCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATCT
*
185359 TCTATTTGAGAAAAGAGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTGTAAGGTTATCT
456 TCTATTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATCT
*
185424 CTTTTGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAA
521 CTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAA
185489 GGTAGTGGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTCA
586 GGTAGTGGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTCA
** *
185554 ATTTTCTGCAAAAGCTTCCACAAAATTTTAATTATCAATTTACCCCCCTCTTGGCCGATTCCGTC
651 ATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGTC
*
185619 AATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTTGATAAGGTTAGTAT
716 AATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTCGATAAGGTTAGTAT
185684 TTATTTTTGAATTTTAATTG
781 TTATTTTTGAATTTTAATTG
185704 CCGATTCCCCCCAGGGGTATCGATTCCCCTCACTGTTCAACGGTCGAAATATTTGAATTTTACAC
1 CCGATTCCCCCCAGGGGTATCGATTCCCCTCACTGTTCAACGGTCGAAATATTTGAATTTTACAC
*
185769 TTAGGGAACCGATTCCCCATGAGGGGTACCGATTCCCCCCACGTTCCAAGCTGTTGTATTAATTG
66 TTAGGGAACCGATTCCCCATGAGGGGTACCGATTCCCCCCACGCTCCAAGCTGTTGTATTAATTG
185834 TTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAGG
131 TTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAGG
*
185899 TGTATTTAAGTAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAGA
196 TGTATTTAAGCAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAGA
185964 GAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATAT
261 GAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATAT
186029 TCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTGT
326 TCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTGT
*
186094 TCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGTAAATTTGTAATCT
391 TCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATCT
* *
186159 TCTATTTGAGAAAAGAGTGTTCTCAATAATTGGGGTATATTCTTGAGGGAGTTGTAAGGTTATCT
456 TCTATTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATCT
*
186224 CTTTTGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAA
521 CTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAA
*
186289 GGTAGTTGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTCA
586 GGTAGTGGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTCA
* *
186354 ATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGTCAATTTACCCCCCTCTTGGCCGATTCCGTC
651 ATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGTC
*
186419 AATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTTGATAAGGTTAGTAT
716 AATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTCGATAAGGTTAGTAT
186484 TTATTTTTGAATTTTAATTG
781 TTATTTTTGAATTTTAATTG
186504 CCGATTCCCCCCAGGGGTATCGATTCCCCTCACTGTTCAACGGTCGAAATATTTGAATTTTACAC
1 CCGATTCCCCCCAGGGGTATCGATTCCCCTCACTGTTCAACGGTCGAAATATTTGAATTTTACAC
186569 TTAGGGAACCGATTCCCCATGAGGGGTACCGATT-CCCCCACGCTCCAAGCTGTTGTATTAATTG
66 TTAGGGAACCGATTCCCCATGAGGGGTACCGATTCCCCCCACGCTCCAAGCTGTTGTATTAATTG
*
186633 TTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGGTTCAAGG
131 TTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAGG
*
186698 TGTATTTAAGCAAGCTTAGACGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAGA
196 TGTATTTAAGCAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAGA
186763 GAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATAT
261 GAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATAT
* * * *
186828 TCATTTTGCTTTCAAGAAAACTTATTGTGCTCAATTTTATTTATTCTTGAGTATTCTTTTATTTG
326 TCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTC-TTTCTTTG
186893 TTCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATC
390 TTCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATC
*
186958 TTCTCTTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATC
455 TTCTATTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATC
*
187023 TCTTTGGCCTCAAAAGAAAGAACGAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTA
520 TCTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTA
* *
187088 AGGTAGTGGACGTAGACTTTGGTTGATAAAGTCGAACCACTCTAAATCGCTGTGCAATTACTTTC
585 AGGTAGTGGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTC
*
187153 AATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGTCGATTCCGT
650 AATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGT
*
187218 CAATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGATCGATAAGGTTAGTA
715 CAATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTCGATAAGGTTAGTA
187283 TTTATTTTTGAATTTTAATTG
780 TTTATTTTTGAATTTTAATTG
* * *
187304 TCGATTCCCCCCAGGGGTATCGATTCCCC-CTACTGATCAACGGCCGAAATATTTGAATTTTACA
1 CCGATTCCCCCCAGGGGTATCGATTCCCCTC-ACTGTTCAACGGTCGAAATATTTGAATTTTACA
* *
187368 CTAAGGGAACCGATTCCCCATGAAGGGTACCGATT-CCCCCACGCTCCAAGCTGTTGTATTAATT
65 CTTAGGGAACCGATTCCCCATGAGGGGTACCGATTCCCCCCACGCTCCAAGCTGTTGTATTAATT
187432 GTTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAG
130 GTTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAG
*
187497 GTGTATTTAAGTAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAG
195 GTGTATTTAAGCAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAG
187562 AGAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATA
260 AGAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATA
187627 TTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTG
325 TTCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTG
187692 TTCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATC
390 TTCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATC
*
187757 TTCTCTTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATC
455 TTCTATTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATC
*
187822 TCTTTGGCCTCAAAAGAAAGAACGAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTA
520 TCTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTA
*
187887 AGGTAGTTGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTC
585 AGGTAGTGGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTC
187952 AATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGT
650 AATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGT
*
188017 CAATCGATTAACTCAACAAAAAGCTAAACTTTATCCTACGTGGTGGGAGGTCGATAAGGTTAGTA
715 CAATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTCGATAAGGTTAGTA
*
188082 TTTATTTTCGAAT
780 TTTATTTTTGAAT
188095 ATTTTAAAAG
Statistics
Matches: 2331, Mismatches: 58, Indels: 5
0.97 0.02 0.00
Matches are distributed among these distances:
799 678 0.29
800 1653 0.71
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (800 bp):
CCGATTCCCCCCAGGGGTATCGATTCCCCTCACTGTTCAACGGTCGAAATATTTGAATTTTACAC
TTAGGGAACCGATTCCCCATGAGGGGTACCGATTCCCCCCACGCTCCAAGCTGTTGTATTAATTG
TTTTCACACTTAAACGGCTCCAATAACTTCATTAATGATCCCCAACGTTCAGAAGTGATTCAAGG
TGTATTTAAGCAAGCTTAGAAGCCATTGATCAAAAACAAGAAACATCAAGCAACTAGAATCAAGA
GAGAATAAAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATAT
TCATTTTGCTTTCAAGAACACTTATTGTGCTCAATTGTATTTATTCTTGAGTGTTCTTTCTTTGT
TCTAGAATTGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATCT
TCTATTTGAGAAAAGAGTGTTCTCAAGAATTGAGGTATATTCTTGAGGGAGTTGTAAGGTTATCT
CTTTGGCCTCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAA
GGTAGTGGACGTAGACTTTGGTTGATAAAGTCAAACCACTCTAAATCGTTGTGCAATTACTTTCA
ATTTTCTGCAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGTC
AATCGATTAACTCAACAAAAAGCTAAACTTTATCCTGCGTGGTGGGAGGTCGATAAGGTTAGTAT
TTATTTTTGAATTTTAATTG
Found at i:188802 original size:14 final size:14
Alignment explanation
Indices: 188783--188817 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
188773 GAAATTGATG
188783 TATTTGTTAAAGTT
1 TATTTGTTAAAGTT
188797 TATTTG-TAAAGTT
1 TATTTGTTAAAGTT
*
188810 GATTTGTT
1 TATTTGTT
188818 TAATTGATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.26, C:0.00, G:0.17, T:0.57
Consensus pattern (14 bp):
TATTTGTTAAAGTT
Found at i:188872 original size:64 final size:64
Alignment explanation
Indices: 188798--188945 Score: 244
Period size: 64 Copynumber: 2.3 Consensus size: 64
188788 GTTAAAGTTT
188798 ATTTGT-AAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
* * ***
188861 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
188925 ATTTGTAAAAGTTGATTTGTT
1 ATTTGTAAAAGTTGATTTGTT
188946 GTTTAAATTT
Statistics
Matches: 79, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
63 6 0.08
64 73 0.92
ACGTcount: A:0.28, C:0.02, G:0.18, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTTTAATTG
Found at i:191526 original size:24 final size:24
Alignment explanation
Indices: 191492--191545 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
191482 CTGAAACATC
191492 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
191516 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
191540 ATCAAA
1 ATCAAA
191546 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:191559 original size:24 final size:24
Alignment explanation
Indices: 191492--191559 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
191482 CTGAAACATC
* * *
191492 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
191516 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
191540 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
191560 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Done.