Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 111 of 190
Found at i:33754576 original size:23 final size:23
Alignment explanation
Indices: 33754546--33754621 Score: 118
Period size: 23 Copynumber: 3.3 Consensus size: 23
33754536 AGTGTTACTA
33754546 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
33754569 ATCAGTGGTAGCTACGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
33754592 ATCAGTGGTA-CATTCGGCTATAT
1 ATCAGTGGTAGC-TTCGGCTACAT
33754615 ATCAGTG
1 ATCAGTG
33754622 TGGCACTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
22 1 0.02
23 48 0.98
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:33758435 original size:17 final size:17
Alignment explanation
Indices: 33758381--33758438 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
33758371 GTCATATGGT
*
33758381 CGTGTGTCACACACGCC
1 CGTGTCTCACACACGCC
*
33758398 CATGTCTCACACACGCC
1 CGTGTCTCACACACGCC
* *
33758415 CGTGTCTCACACATGCT
1 CGTGTCTCACACACGCC
33758432 CGTGTCT
1 CGTGTCT
33758439 TAAGCCGTAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.17, C:0.40, G:0.19, T:0.24
Consensus pattern (17 bp):
CGTGTCTCACACACGCC
Found at i:33759417 original size:38 final size:38
Alignment explanation
Indices: 33759107--33759418 Score: 389
Period size: 38 Copynumber: 8.3 Consensus size: 38
33759097 GTAAATTTTT
* *
33759107 AATA-CACTGGCAC-AAGCCTGCTAGGCACAGAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* **
33759143 AATAACACTTGCACAAAGCCTGCTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* * * *
33759181 AATAACATCTGCACAAAGCCTGCTAGGCACATAGCTCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
*
33759219 AATATCACCGGTACAAAGCCTGCTAGGCA-AGTAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACA-TAGCCCG
** *
33759257 AATATCATTGGCACAAAGCTTGCTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
*
33759295 AATATCACCGGTACAAAGCCTGCTAGGCA-AGTAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACA-TAGCCCG
** **
33759333 AATATCATTGGCACAAAGCCTATTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
** *
33759371 AATATCACCAACACAAAGCCTGCTAGGCACATATCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
33759409 AATATCACCG
1 AATATCACCG
33759419 CTTTTCTATT
Statistics
Matches: 239, Mismatches: 31, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
36 4 0.02
37 10 0.04
38 223 0.93
39 2 0.01
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.17
Consensus pattern (38 bp):
AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
Found at i:33760785 original size:25 final size:25
Alignment explanation
Indices: 33760763--33760835 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
33760753 AATGGCTCCT
33760763 AAGAGCTTCCCGTTATACAGCTCAC
1 AAGAGCTTCCCGTTATACAGCTCAC
* * *
33760788 ATGAGCTTCCCGTTATA-TGACTCAA
1 AAGAGCTTCCCGTTATACAG-CTCAC
*
33760813 AAGAGCTTCCTGTT-TACATGCTC
1 AAGAGCTTCCCGTTATACA-GCTC
33760836 GTATGAGCAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
24 3 0.08
25 35 0.90
26 1 0.03
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (25 bp):
AAGAGCTTCCCGTTATACAGCTCAC
Found at i:33761422 original size:15 final size:15
Alignment explanation
Indices: 33761402--33761431 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33761392 AGTGATAACA
33761402 TACAAATATTTTATT
1 TACAAATATTTTATT
33761417 TACAAATATTTTATT
1 TACAAATATTTTATT
33761432 GAGATTAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (15 bp):
TACAAATATTTTATT
Found at i:33762338 original size:9 final size:9
Alignment explanation
Indices: 33762324--33762354 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33762314 GTTAAACGAA
33762324 TCGAGTTAT
1 TCGAGTTAT
*
33762333 TCGAGTTAA
1 TCGAGTTAT
33762342 TCGAGTTAT
1 TCGAGTTAT
33762351 TCGA
1 TCGA
33762355 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:33762435 original size:9 final size:9
Alignment explanation
Indices: 33762408--33762444 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33762398 TGAGTTTTCG
33762408 AATTCGAAT
1 AATTCGAAT
* *
33762417 AACTCAAAT
1 AATTCGAAT
33762426 AATTCGAAT
1 AATTCGAAT
33762435 AATTCGAAT
1 AATTCGAAT
33762444 A
1 A
33762445 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33763316 original size:5 final size:5
Alignment explanation
Indices: 33763306--33763331 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
33763296 GAACAAATAT
33763306 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
33763332 ATTCCATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:33770640 original size:23 final size:23
Alignment explanation
Indices: 33770613--33770657 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
33770603 TTACAATATT
33770613 TGTCATTATGGTCGATGATTATA
1 TGTCATTATGGTCGATGATTATA
*
33770636 TGTCATTTTGGTCGATGATTAT
1 TGTCATTATGGTCGATGATTAT
33770658 GGCATGAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.09, G:0.22, T:0.47
Consensus pattern (23 bp):
TGTCATTATGGTCGATGATTATA
Found at i:33776738 original size:38 final size:38
Alignment explanation
Indices: 33776676--33777062 Score: 456
Period size: 38 Copynumber: 10.2 Consensus size: 38
33776666 GTAAATTTTC
* **
33776676 AATA-CACCGGCAC-AAGCCTACTAGGCACAGGGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* * *
33776712 AATAACACCGGTACAAAGCCTGCTAGGCACATAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
*
33776750 AATATCACCGGCACAAAGCCTACTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
** *
33776788 AATATCACTAGCATAAAGCCTGCTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* * *
33776826 AATATCAACAGCACAAAGCCTGCTAGGCACAGA-CCTCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCC-CG
* * *
33776864 AATAACATCGGTACAAAGCCTGCTAGGCACATAGCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* *
33776902 AATATCACCGGCACAAAGCCTGCTAAGCACATATCCCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* * * *
33776940 AATATGACCAGCACAAAGCCTGCTAGGCACAAAGCCCA
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* * *
33776978 AATATCACTGGCACAAAGCCTGCTAGGCACAGAGCTCG
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
* ** ** **
33777016 AATAACATTGATACAAAGCCTGCTAGGCACATAGCCTA
1 AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
33777054 AATATCACC
1 AATATCACC
33777063 ACATTTCTAT
Statistics
Matches: 297, Mismatches: 50, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
36 4 0.01
37 10 0.03
38 281 0.95
39 2 0.01
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (38 bp):
AATATCACCGGCACAAAGCCTGCTAGGCACATAGCCCG
Found at i:33776965 original size:152 final size:152
Alignment explanation
Indices: 33776685--33777062 Score: 564
Period size: 152 Copynumber: 2.5 Consensus size: 152
33776675 CAATACACCG
* * *
33776685 GCAC-AAGCCTACTAGGCACAGGGCC-CGAATAACACCGGTACAAAGCCTGCTAGGCACATAGCC
1 GCACAAAGCCTGCTAGGCACA-GACCTCGAATAACATCGGTACAAAGCCTGCTAGGCACATAGCC
* * *
33776748 CAAATATCACCGGCACAAAGCCTACTAGGCACATAGCCCGAATATCACTAGCATAAAGCCTGCTA
65 CAAATATCACCGGCACAAAGCCTACTAAGCACATAGCCCGAATATCACCAGCACAAAGCCTGCTA
* *
33776813 GGCACATAGCCCGAATATCAAC-A
130 GGCACAAAGCCCAAATATC-ACTA
33776836 GCACAAAGCCTGCTAGGCACAGACCTCGAATAACATCGGTACAAAGCCTGCTAGGCACATAGCCC
1 GCACAAAGCCTGCTAGGCACAGACCTCGAATAACATCGGTACAAAGCCTGCTAGGCACATAGCCC
* * * *
33776901 GAATATCACCGGCACAAAGCCTGCTAAGCACATATCCCGAATATGACCAGCACAAAGCCTGCTAG
66 AAATATCACCGGCACAAAGCCTACTAAGCACATAGCCCGAATATCACCAGCACAAAGCCTGCTAG
*
33776966 GCACAAAGCCCAAATATCACTG
131 GCACAAAGCCCAAATATCACTA
* * * *
33776988 GCACAAAGCCTGCTAGGCACAGAGCTCGAATAACATTGATACAAAGCCTGCTAGGCACATAGCCT
1 GCACAAAGCCTGCTAGGCACAGACCTCGAATAACATCGGTACAAAGCCTGCTAGGCACATAGCCC
33777053 AAATATCACC
66 AAATATCACC
33777063 ACATTTCTAT
Statistics
Matches: 206, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
151 9 0.04
152 197 0.96
ACGTcount: A:0.35, C:0.31, G:0.19, T:0.15
Consensus pattern (152 bp):
GCACAAAGCCTGCTAGGCACAGACCTCGAATAACATCGGTACAAAGCCTGCTAGGCACATAGCCC
AAATATCACCGGCACAAAGCCTACTAAGCACATAGCCCGAATATCACCAGCACAAAGCCTGCTAG
GCACAAAGCCCAAATATCACTA
Found at i:33778685 original size:9 final size:9
Alignment explanation
Indices: 33778671--33778773 Score: 57
Period size: 10 Copynumber: 10.9 Consensus size: 9
33778661 GCCCATTTTT
33778671 ATTTTAAAA
1 ATTTTAAAA
33778680 ATTTTAAAAA
1 ATTTT-AAAA
**
33778690 ATTAAAAAAA
1 ATT-TTAAAA
33778700 GTATTTTAAAA
1 --ATTTTAAAA
*
33778711 ATATTTTAAA
1 AT-TTTAAAA
**
33778721 ATTAAAAAA
1 ATTTTAAAA
33778730 ATTTTAAAA
1 ATTTTAAAA
*
33778739 ATATTTTAAA
1 AT-TTTAAAA
33778749 A--TTAAAA
1 ATTTTAAAA
* *
33778756 AATTAAAAA
1 ATTTTAAAA
33778765 ATATTTAAA
1 AT-TTTAAA
33778774 TTAAAAAATT
Statistics
Matches: 70, Mismatches: 15, Indels: 17
0.69 0.15 0.17
Matches are distributed among these distances:
7 6 0.09
9 26 0.37
10 31 0.44
11 4 0.06
12 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (9 bp):
ATTTTAAAA
Found at i:33778710 original size:11 final size:11
Alignment explanation
Indices: 33778670--33778749 Score: 68
Period size: 11 Copynumber: 7.9 Consensus size: 11
33778660 GGCCCATTTT
33778670 TATTTT-AAAA
1 TATTTTAAAAA
33778680 -ATTTTAAAAA
1 TATTTTAAAAA
**
33778690 -ATTAAAAAAA
1 TATTTTAAAAA
33778700 GTATTTTAAAAA
1 -TATTTTAAAAA
33778712 TATTTT--AAA
1 TATTTTAAAAA
33778721 -A--TTAAAAA
1 TATTTTAAAAA
*
33778729 AATTTTAAAAA
1 TATTTTAAAAA
33778740 TATTTTAAAA
1 TATTTTAAAA
33778750 TTAAAAAATT
Statistics
Matches: 57, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
6 2 0.04
8 4 0.07
9 9 0.16
10 12 0.21
11 22 0.39
12 8 0.14
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:33778736 original size:28 final size:28
Alignment explanation
Indices: 33778671--33778781 Score: 133
Period size: 28 Copynumber: 4.0 Consensus size: 28
33778661 GCCCATTTTT
*
33778671 ATTTTAAAAAT-TTTAAAAAATTAAAAAAA
1 ATTTTAAAAATATTT-TAAAATT-AAAAAA
33778700 GTATTTTAAAAATATTTTAAAATTAAAAAA
1 --ATTTTAAAAATATTTTAAAATTAAAAAA
33778730 ATTTTAAAAATATTTTAAAATT-AAAAA
1 ATTTTAAAAATATTTTAAAATTAAAAAA
*
33778757 A-TTAAAAAATA-TTT-AAATTAAAAAA
1 ATTTTAAAAATATTTTAAAATTAAAAAA
33778782 TTAAAAAATT
Statistics
Matches: 76, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
24 5 0.07
25 8 0.11
26 9 0.12
27 6 0.08
28 22 0.29
30 6 0.08
31 17 0.22
32 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (28 bp):
ATTTTAAAAATATTTTAAAATTAAAAAA
Found at i:33778757 original size:8 final size:8
Alignment explanation
Indices: 33778718--33778830 Score: 79
Period size: 8 Copynumber: 13.5 Consensus size: 8
33778708 AAAATATTTT
33778718 AAAATTAAA
1 AAAATT-AA
33778727 AAAATTTTAA
1 AAAA--TTAA
**
33778737 AAATATTTT
1 AAA-ATTAA
33778746 AAAATTAA
1 AAAATTAA
33778754 AAAATTAA
1 AAAATTAA
*
33778762 AAAA-TATT
1 AAAATTA-A
*
33778770 TAAATTAA
1 AAAATTAA
33778778 AAAATTAA
1 AAAATTAA
33778786 AAAATTAA
1 AAAATTAA
33778794 AAATTATTTAA
1 AAA--A-TTAA
*
33778805 AATATT--
1 AAAATTAA
*
33778811 TAAATTAA
1 AAAATTAA
33778819 AAAATTAA
1 AAAATTAA
33778827 AAAA
1 AAAA
33778831 GTATGTAAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 21
0.71 0.10 0.18
Matches are distributed among these distances:
6 4 0.05
7 2 0.02
8 49 0.60
9 12 0.15
10 6 0.07
11 9 0.11
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
AAAATTAA
Found at i:33778778 original size:41 final size:40
Alignment explanation
Indices: 33778746--33778830 Score: 136
Period size: 41 Copynumber: 2.1 Consensus size: 40
33778736 AAAATATTTT
33778746 AAAATTAAAAAATTA-AAAAATATTTAAATTAAAAAATTAA
1 AAAATT-AAAAATTATAAAAATATTTAAATTAAAAAATTAA
*
33778786 AAAATTAAAAATTATTTAAAATATTTAAATTAAAAAATTAA
1 AAAATTAAAAATTA-TAAAAATATTTAAATTAAAAAATTAA
33778827 AAAA
1 AAAA
33778831 GTATGTAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 8 0.19
40 6 0.14
41 28 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (40 bp):
AAAATTAAAAATTATAAAAATATTTAAATTAAAAAATTAA
Found at i:33778787 original size:32 final size:33
Alignment explanation
Indices: 33778718--33778840 Score: 133
Period size: 32 Copynumber: 3.6 Consensus size: 33
33778708 AAAATATTTT
*
33778718 AAAATTAAAAAA-ATTTTAAAAATATTTTAAAATTAA
1 AAAATTAAAAAATA-TTT-AAAATA--TAAAAATTAA
*
33778754 AAAATTAAAAAATATTTAAATTA-AAAAATTAA
1 AAAATTAAAAAATATTTAAAATATAAAAATTAA
* **
33778786 AAAATTAAAAATTATTTAAAATATTTAAATTAA
1 AAAATTAAAAAATATTTAAAATATAAAAATTAA
*
33778819 AAAATTAAAAAAGTATGTAAAA
1 AAAATTAAAAAA-TATTTAAAA
33778841 AATATTTTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
32 29 0.38
33 18 0.24
34 8 0.11
35 5 0.07
36 15 0.20
37 1 0.01
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (33 bp):
AAAATTAAAAAATATTTAAAATATAAAAATTAA
Found at i:33784093 original size:19 final size:21
Alignment explanation
Indices: 33784059--33784104 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
33784049 TAACACAATC
*
33784059 TCAATTATTTTTAATTTT-TT
1 TCAATTATTCTTAATTTTGTT
33784079 TCAATTA-TCTTAATTTTGTT
1 TCAATTATTCTTAATTTTGTT
33784099 T-AATTA
1 TCAATTA
33784105 AGTTATCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (21 bp):
TCAATTATTCTTAATTTTGTT
Found at i:33786688 original size:20 final size:20
Alignment explanation
Indices: 33786606--33786690 Score: 61
Period size: 20 Copynumber: 4.2 Consensus size: 20
33786596 TATTTTTTTA
*
33786606 AATTTAATATTAAAGTGATT
1 AATTTAATATTAAATTGATT
*
33786626 -ATCTTAATATCAAA-T--TT
1 AAT-TTAATATTAAATTGATT
* * *
33786643 AATCTAATATATATCATTATATT
1 AATTTAATAT-TA-AATT-GATT
33786666 AATTTAATATTAAATTGATT
1 AATTTAATATTAAATTGATT
33786686 AATTT
1 AATTT
33786691 TAATCATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
17 8 0.16
18 3 0.06
19 4 0.08
20 19 0.38
21 3 0.06
22 2 0.04
23 11 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (20 bp):
AATTTAATATTAAATTGATT
Found at i:33787951 original size:25 final size:25
Alignment explanation
Indices: 33787923--33787979 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
33787913 TACTGATTTG
*
33787923 CAGCTCGTGA-GAACTTACCGATACT
1 CAGCTCGT-ATGAACTTACCAATACT
* *
33787948 CAGCTCGTATGAGCTTACCAATATT
1 CAGCTCGTATGAACTTACCAATACT
33787973 CAGCTCG
1 CAGCTCG
33787980 GAGGAGTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (25 bp):
CAGCTCGTATGAACTTACCAATACT
Found at i:33787990 original size:25 final size:25
Alignment explanation
Indices: 33787923--33787991 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 25
33787913 TACTGATTTG
* *
33787923 CAGCTCGTGA-GAACTTACCGATACT
1 CAGCTCG-GAGGAGCTTACCAATACT
* * *
33787948 CAGCTCGTATGAGCTTACCAATATT
1 CAGCTCGGAGGAGCTTACCAATACT
*
33787973 CAGCTCGGAGGAGTTTACC
1 CAGCTCGGAGGAGCTTACC
33787992 GATAATCGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
24 1 0.03
25 35 0.97
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (25 bp):
CAGCTCGGAGGAGCTTACCAATACT
Found at i:33794064 original size:39 final size:40
Alignment explanation
Indices: 33793972--33794064 Score: 118
Period size: 39 Copynumber: 2.4 Consensus size: 40
33793962 CGTTTGGACA
* * *
33793972 AAAAACGCCGCTAAAAATCGAGCATTAGCGGTGCTTTTTG
1 AAAAACACCGCTAAAAATCGAGCATTAGCAGCGCTTTTTG
* *
33794012 GAAAACACTGCTAAAAAT-GAGCATTAGCAGCG-TTTTTG
1 AAAAACACCGCTAAAAATCGAGCATTAGCAGCGCTTTTTG
33794050 AAAAAGCACCGCTAA
1 AAAAA-CACCGCTAA
33794065 TGCTCGGGGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
38 10 0.22
39 20 0.44
40 15 0.33
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (40 bp):
AAAAACACCGCTAAAAATCGAGCATTAGCAGCGCTTTTTG
Found at i:33794143 original size:41 final size:41
Alignment explanation
Indices: 33794035--33794148 Score: 165
Period size: 41 Copynumber: 2.8 Consensus size: 41
33794025 AAAATGAGCA
* *
33794035 TTAGCAGCGTTTTTGAAAAAGCACCGCTAATGCTCGGGGCT
1 TTAGCAGCGTTTTTGAAAAAGCGCCGCTAATTCTCGGGGCT
* *
33794076 TTAGCGGCGCTTTTGAAAAAGCGCCGCTAATTCTCGGGGCT
1 TTAGCAGCGTTTTTGAAAAAGCGCCGCTAATTCTCGGGGCT
* **
33794117 TTAGCTGCGTTTTTGAAAAATTGCCGCTAATT
1 TTAGCAGCGTTTTTGAAAAAGCGCCGCTAATT
33794149 AATACTATCG
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (41 bp):
TTAGCAGCGTTTTTGAAAAAGCGCCGCTAATTCTCGGGGCT
Found at i:33794370 original size:79 final size:79
Alignment explanation
Indices: 33794287--33794451 Score: 192
Period size: 79 Copynumber: 2.1 Consensus size: 79
33794277 GGATTATGGG
** * *
33794287 TTTAGGGGTTATGATTT-ATGATTTATG-GTTT-AAAGGTTGGGGTTTAAGGTTTAGAGGGTATA
1 TTTAGGGGTTA-GATTTAATG-TTTA-GAGTTTAAAAGGCCGGGGTTTAAAGTTTAAAGGGTATA
33794349 CGTTAAGAGTTTAGGAT
63 CGTTAAGAGTTTAGGAT
* * * **
33794366 TTTAGGGTTTAGGTTTAATGTTTAGAGTTTAAAAGGCCGGGGTTTAAAGTTTAAAGGTTATGTGT
1 TTTAGGGGTTAGATTTAATGTTTAGAGTTTAAAAGGCCGGGGTTTAAAGTTTAAAGGGTATACGT
*
33794431 TAAGGGTTTAGGAT
66 TAAGAGTTTAGGAT
33794445 TTTAGGG
1 TTTAGGG
33794452 TTTTAAGGTT
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
77 1 0.01
78 12 0.16
79 60 0.82
ACGTcount: A:0.25, C:0.02, G:0.32, T:0.41
Consensus pattern (79 bp):
TTTAGGGGTTAGATTTAATGTTTAGAGTTTAAAAGGCCGGGGTTTAAAGTTTAAAGGGTATACGT
TAAGAGTTTAGGAT
Found at i:33794452 original size:79 final size:81
Alignment explanation
Indices: 33794325--33794472 Score: 210
Period size: 79 Copynumber: 1.9 Consensus size: 81
33794315 TTTAAAGGTT
* * *
33794325 GGGGTTTAAGGTTTAGAGGGTATACGTTAAGAGTTTAGGATTTTAGGG-TTT-AGGTTTAATGTT
1 GGGGTTTAAAGTTTAAAGGGTATACGTTAAGAGTTTAGGATTTTAGGGTTTTAAGGTTTAAGGTT
33794388 TAGAGTTTAAAAGGCC
66 TAGAGTTTAAAAGGCC
* ** * *
33794404 GGGGTTTAAAGTTTAAAGGTTATGTGTTAAGGGTTTAGGATTTTAGGGTTTTAAGGTTTAGGGTT
1 GGGGTTTAAAGTTTAAAGGGTATACGTTAAGAGTTTAGGATTTTAGGGTTTTAAGGTTTAAGGTT
33794469 TAGA
66 TAGA
33794473 TTAACTAGTG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
79 42 0.71
80 3 0.05
81 14 0.24
ACGTcount: A:0.26, C:0.02, G:0.32, T:0.40
Consensus pattern (81 bp):
GGGGTTTAAAGTTTAAAGGGTATACGTTAAGAGTTTAGGATTTTAGGGTTTTAAGGTTTAAGGTT
TAGAGTTTAAAAGGCC
Found at i:33799107 original size:43 final size:43
Alignment explanation
Indices: 33799059--33799142 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 43
33799049 AGTTCATTAC
* *
33799059 AAGATTTCCTTGATTAAGTAAATA-TATTATATCTTTTATTATT
1 AAGATTTACTTGATTAAG-AAAAAGTATTATATCTTTTATTATT
* *
33799102 AAGATTTACTTGATTAAGAAAAAGTATTGTATGTTTTATTA
1 AAGATTTACTTGATTAAGAAAAAGTATTATATCTTTTATTA
33799143 CCTTGCATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 4 0.11
43 32 0.89
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.48
Consensus pattern (43 bp):
AAGATTTACTTGATTAAGAAAAAGTATTATATCTTTTATTATT
Found at i:33799265 original size:35 final size:34
Alignment explanation
Indices: 33799226--33799293 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
33799216 TTTAATTGTG
*
33799226 TTATTAATTTATTAT-TTTAAATTTTAAATTTAAAT
1 TTATTAATTT-TTATATTT-AATTTTAAAGTTAAAT
*
33799261 TTATTAATTTTTATATTTAGTTTTAAAGTTAAA
1 TTATTAATTTTTATATTTAATTTTAAAGTTAAA
33799294 ATTTTTGTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (34 bp):
TTATTAATTTTTATATTTAATTTTAAAGTTAAAT
Found at i:33799269 original size:14 final size:14
Alignment explanation
Indices: 33799231--33799270 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
33799221 TTGTGTTATT
*
33799231 AATTTATTATTTTA
1 AATTTATTAATTTA
*
33799245 AATTT-TAAATTTA
1 AATTTATTAATTTA
33799258 AATTTATTAATTT
1 AATTTATTAATTT
33799271 TTATATTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 11 0.50
14 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AATTTATTAATTTA
Found at i:33799296 original size:35 final size:35
Alignment explanation
Indices: 33799226--33799297 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
33799216 TTTAATTGTG
*
33799226 TTATTAATTTATTATTTTAAATTTTAAATTTAAAT
1 TTATTAATTTATTATTTTAAATTTTAAATTAAAAT
*
33799261 TTATTAATTT-TTATATTT-AGTTTTAAAGTTAAAAT
1 TTATTAATTTATTAT-TTTAAATTTTAAA-TTAAAAT
33799296 TT
1 TT
33799298 TTGTAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 12 0.36
35 21 0.64
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (35 bp):
TTATTAATTTATTATTTTAAATTTTAAATTAAAAT
Found at i:33802381 original size:5 final size:5
Alignment explanation
Indices: 33802371--33802398 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
33802361 AAGAGAATAC
33802371 TTGGT TTGGT TTGGT TTGGT TTGGT TTG
1 TTGGT TTGGT TTGGT TTGGT TTGGT TTG
33802399 TAATATAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.39, T:0.61
Consensus pattern (5 bp):
TTGGT
Found at i:33802654 original size:43 final size:39
Alignment explanation
Indices: 33802580--33802702 Score: 142
Period size: 43 Copynumber: 3.0 Consensus size: 39
33802570 CGGCCCGAAT
33802580 TATATATTAAATATATATATTTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATA-TTTTTATTTTTAATCAAATA
* * *
33802620 TACTTTTTATTAAATATATAT-TTTTTGGACTTTTAATACGAAT-
1 TA---TATATTAAATATATATATTTTT--ATTTTTAAT-CAAATA
33802663 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
1 TATATATTAAATATATATATTTTTATTTTTAATCAAATA
33802702 T
1 T
33802703 GGGCCAGGCA
Statistics
Matches: 69, Mismatches: 6, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
38 4 0.06
39 9 0.13
40 17 0.25
41 10 0.14
43 25 0.36
44 4 0.06
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (39 bp):
TATATATTAAATATATATATTTTTATTTTTAATCAAATA
Found at i:33803776 original size:52 final size:52
Alignment explanation
Indices: 33803661--33803784 Score: 128
Period size: 52 Copynumber: 2.4 Consensus size: 52
33803651 ATACAAAAAA
* * *
33803661 AAAAC-AAAATAAATTTTGGGTGCTGGCCTGTCAATGGCCAGCACCACCTAGG
1 AAAACGAAAAAAAATTTTGGGTACTAGCCTGTCAATGGCCAGCACCACCTA-G
* * *
33803713 AAAACGAAAAAAAA-TTTGGGTACTAGCCTGTTAATGGTCGGCACCAGCCT-G
1 AAAACGAAAAAAAATTTTGGGTACTAGCCTGTCAATGGCCAGCACCA-CCTAG
*
33803764 AAAATGATAAAAAAAATTTTG
1 AAAACG--AAAAAAAATTTTG
33803785 TATCATACTG
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
51 6 0.10
52 32 0.53
53 18 0.30
54 4 0.07
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.23
Consensus pattern (52 bp):
AAAACGAAAAAAAATTTTGGGTACTAGCCTGTCAATGGCCAGCACCACCTAG
Found at i:33803883 original size:55 final size:55
Alignment explanation
Indices: 33803799--33804841 Score: 859
Period size: 55 Copynumber: 18.8 Consensus size: 55
33803789 ATACTGGTAT
** *
33803799 ACAAAAAAAAATTGGGGGTGCTGGCCTGTCAATGGTCGGCACCACCAGTACGAAA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
** * *
33803854 ACAAAAAAAAAAATTGGATGCTGGCCTGTCAATGG-C--CAGCACCAGTACGAAA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* ** * * * *
33803906 ATGAAAAAATAAAGTTTTTTTCTGTGCCGGCTTATCAATGGCCGG---CACCAGTATGAAA
1 A-CAAAAAA-AAA----TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * *
33803964 ACGAAAAAAAATTTTGGGTGCTGGCCTATCAATGGCTGGCACCACCAGTATGAAA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
*
33804019 ACGAAAAAAAAA-TTTGTGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
1 AC-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * * *
33804074 ACGAAAAAAAATTTTGGGTGCTGGCCTGTAAATGGCTGACACCACCAGTACAAAA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
** * * * *
33804129 AC-GGAAAAAA-TTTGGGTGAT-GCTTTGTCAATGGTCGGCACCACCAATACGAAA
1 ACAAAAAAAAATTTTGGGTGCTGGC-CTGTCAATGGCCGGCACCACCAGTACGAAA
* * *
33804182 A-AGGAAAAAAAATTTTGGATGCTGGCCTGTAAATGGCC-G-A-CACCAATACGAAA
1 ACA--AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
** * ** *
33804235 ACAGAAAAAAAAGTTTTGGGTGCTGGTTTATCAATGGCTAGCACCATCAGTACGAAA
1 ACA-AAAAAAAA-TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * * *
33804292 ACGAAAAAAATATTTTAGGTACTGGCCTGTCAATGGCCGGCACTACTAGTACGAAA
1 AC-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * *
33804348 ACGAAAAAAAATATTTTTTTTGGTACTGACCTGTCAATGGCCGGCACCACTAGTACGAAA
1 AC-AAAAAAAA-A---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * * * * *
33804408 ACAAAAAAAAAATTTGGGTGCTGGCCTGTAAATAGTCGACACCACTAGTACAAAA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * *
33804463 ACGAAAAAAAAA--TTGGGTGATGTCCTGTCAATGGCCGGCACCACTAGTAGGAAA
1 AC-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * *
33804517 A-AGGGAAAAAAAATTTTGGGTGCTGACATATAAATGGCC-G-A-CACCAGTACGAAA
1 ACA---AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * ** * * * * *
33804571 ACGAAAAAAATTTTTGCCTGCTTGCCTGTCAATGGCTGACATCACCAGTACAAAA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * * * ** *
33804626 ACGGGAAAAAAAA-TTTGGGTGTTGACTTATCAATGGTTGGCACCATCAGTACGAAA
1 AC--AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * *
33804682 ACGAAAAAAATATTTTAGGTACTGGCCTGTCAATGGCCGGCACTACCAGTACGAAA
1 AC-AAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* * * *
33804738 ACGAAAAAAAATATTTTTTTTGGTACTGGCCTGTCAATGGCCGACACCATCAGTACGAAA
1 AC-AAAAAAAA-A---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
* *
33804798 ACAAAAAAAAATTTTGGGTGCTAGTCTGTCAATGGCCGGCACCA
1 ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCA
33804842 AATTTATCAA
Statistics
Matches: 796, Mismatches: 145, Indels: 94
0.77 0.14 0.09
Matches are distributed among these distances:
52 67 0.08
53 62 0.08
54 88 0.11
55 230 0.29
56 159 0.20
57 56 0.07
58 32 0.04
59 17 0.02
60 85 0.11
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (55 bp):
ACAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCACCAGTACGAAA
Found at i:33804710 original size:390 final size:387
Alignment explanation
Indices: 33803940--33804819 Score: 1106
Period size: 390 Copynumber: 2.3 Consensus size: 387
33803930 TGCCGGCTTA
* * * *
33803940 TCAATGGCCGGCAC--CAGTATGAAAACG-AAAAAAA-A---TTTTGGGTGCTGGCCTATCAATG
1 TCAATGGCCGGCACTACAGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGGCCTGTCAATG
* * * * * * * *
33803998 GCTGGCACCACCAGTATGAAAACGAAAAAAAAATTTGTGTGCTGGCCTGTCAATGGCCGGCACCA
66 GCCGGCACCACTAGTACGAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTAAATAGCCGACACCA
* * * *
33804063 CCAGTACGAAAACGAAAAAAAATTTTGGGTGCTGGCCTGTAAATGGCTGACACCACCAGTACAAA
131 CCAGTACAAAAACGAAAAAAAATATTGGGTGATGGCCTGTAAATGGCCGACACCACCAGTACAAA
* * * * *
33804128 AACGGAAAAAATTTGGGTGATGCTTTGTCAATGGTCGGCACCACCAATACGAAAAAGGAAAAAAA
196 AACGGAAAAAATTTGGGTGATGCTATATAAATGGTCCGCACCACCAATACGAAAAACGAAAAAAA
* *
33804193 ATTTTGGATGCTGGCCTGTAAATGGCCGACACCAATACGAAAACAGAAAAAAAAGTTTTGGGTGC
261 ATTTTGCATGCTGGCCTGTAAATGGCCGACACCAATACAAAAACAGAAAAAAAAG-TTTGGGTGC
**
33804258 TGGTTTATCAATGGCTAGCACCATCAGTACGAAAACGAAAAAAATATTTTAGGTACTGGCCTG
325 TGACTTATCAATGGCTAGCACCATCAGTACGAAAACGAAAAAAATATTTTAGGTACTGGCCTG
*
33804321 TCAATGGCCGGCACTACTAGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGACCTGTCAAT
1 TCAATGGCCGGCACTAC-AGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGGCCTGTCAAT
*
33804386 GGCCGGCACCACTAGTACGAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTAAATAGTCGACACC
65 GGCCGGCACCACTAGTACGAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTAAATAGCCGACACC
* * * * * *
33804451 ACTAGTACAAAAACGAAAAAAAA-ATTGGGTGATGTCCTGTCAATGGCCGGCACCACTAGTAGGA
130 ACCAGTACAAAAACGAAAAAAAATATTGGGTGATGGCCTGTAAATGGCCGACACCACCAGTA-CA
* * *
33804515 AAAAGGGAAAAAAAATTTTGGGTGCTGAC-ATATAAATGG-CCG-A-CACCAGTACG-AAAACGA
194 AAAACGG--AAAAAA-TTTGGGTGATG-CTATATAAATGGTCCGCACCACCAATACGAAAAACGA
* * * * * * *
33804575 AAAAAATTTTTGCCTGCTTGCCTGTCAATGGCTGACATCACCAGTACAAAAACGGGAAAAAAAA-
255 AAAAAAATTTTGCATGCTGGCCTGTAAATGGCCG--A-CACCAATACAAAAAC-AGAAAAAAAAG
* * *
33804639 TTTGGGTGTTGACTTATCAATGGTTGGCACCATCAGTACGAAAACGAAAAAAATATTTTAGGTAC
316 TTTGGGTGCTGACTTATCAATGGCTAGCACCATCAGTACGAAAACGAAAAAAATATTTTAGGTAC
33804704 TGGCCTG
381 TGGCCTG
33804711 TCAATGGCCGGCACTACCAGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGGCCTGTCAAT
1 TCAATGGCCGGCACTA-CAGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGGCCTGTCAAT
* *
33804776 GGCCGACACCA-TCAGTACGAAAACAAAAAAAAATTTTGGGTGCT
65 GGCCGGCACCACT-AGTACGAAAACAAAAAAAAAATTTGGGTGCT
33804820 AGTCTGTCAA
Statistics
Matches: 431, Mismatches: 49, Indels: 29
0.85 0.10 0.06
Matches are distributed among these distances:
381 14 0.03
383 1 0.00
384 11 0.03
385 7 0.02
386 1 0.00
388 65 0.15
389 112 0.26
390 171 0.40
391 22 0.05
392 26 0.06
393 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (387 bp):
TCAATGGCCGGCACTACAGTACGAAAACGAAAAAAAATATTTTTTTTGGTACTGGCCTGTCAATG
GCCGGCACCACTAGTACGAAAACAAAAAAAAAATTTGGGTGCTGGCCTGTAAATAGCCGACACCA
CCAGTACAAAAACGAAAAAAAATATTGGGTGATGGCCTGTAAATGGCCGACACCACCAGTACAAA
AACGGAAAAAATTTGGGTGATGCTATATAAATGGTCCGCACCACCAATACGAAAAACGAAAAAAA
ATTTTGCATGCTGGCCTGTAAATGGCCGACACCAATACAAAAACAGAAAAAAAAGTTTGGGTGCT
GACTTATCAATGGCTAGCACCATCAGTACGAAAACGAAAAAAATATTTTAGGTACTGGCCTG
Found at i:33806553 original size:5 final size:5
Alignment explanation
Indices: 33806545--33806623 Score: 50
Period size: 5 Copynumber: 14.6 Consensus size: 5
33806535 AATATTTTTT
* * * *
33806545 AAATG AAATG AAAGGG AAATGG TAATGG TAATG AAAATG AAATT AGAATG
1 AAATG AAATG AAA-TG AAAT-G AAAT-G AAATG -AAATG AAATG A-AATG
* *
33806595 AAATG AAATAA AAATA AAATG AAATG AAA
1 AAATG AAAT-G AAATG AAATG AAATG AAA
33806624 AAAAAAAGTT
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
5 35 0.57
6 26 0.43
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.20
Consensus pattern (5 bp):
AAATG
Found at i:33806629 original size:16 final size:16
Alignment explanation
Indices: 33806578--33806629 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
33806568 AATGGTAATG
* *
33806578 AAAATGAAATTAGAAT
1 AAAATGAAATAAAAAT
*
33806594 GAAATGAAATAAAAAT
1 AAAATGAAATAAAAAT
33806610 AAAATGAAATGAAAAA-
1 AAAATGAAAT-AAAAAT
33806626 AAAA
1 AAAA
33806630 AGTTGAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (16 bp):
AAAATGAAATAAAAAT
Found at i:33807310 original size:33 final size:33
Alignment explanation
Indices: 33807254--33807316 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
33807244 ACCACCGCGG
* * *
33807254 TTCACCTTCAACCGCAGCTAACGACCGCCGCTA
1 TTCACCCTCAACCACAGCCAACGACCGCCGCTA
* *
33807287 TTCACCCTCAACCACCGCCAACGATCGCCG
1 TTCACCCTCAACCACAGCCAACGACCGCCG
33807317 ATCACTCCAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.24, C:0.46, G:0.14, T:0.16
Consensus pattern (33 bp):
TTCACCCTCAACCACAGCCAACGACCGCCGCTA
Found at i:33807384 original size:48 final size:48
Alignment explanation
Indices: 33807329--33807426 Score: 196
Period size: 48 Copynumber: 2.0 Consensus size: 48
33807319 CACTCCATGG
33807329 ATCCTAATCCGAATGTTCTTTTAAATGACAACGACCACATTGCAAGCA
1 ATCCTAATCCGAATGTTCTTTTAAATGACAACGACCACATTGCAAGCA
33807377 ATCCTAATCCGAATGTTCTTTTAAATGACAACGACCACATTGCAAGCA
1 ATCCTAATCCGAATGTTCTTTTAAATGACAACGACCACATTGCAAGCA
33807425 AT
1 AT
33807427 GTGCATAAGG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (48 bp):
ATCCTAATCCGAATGTTCTTTTAAATGACAACGACCACATTGCAAGCA
Found at i:33809462 original size:17 final size:19
Alignment explanation
Indices: 33809427--33809469 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
33809417 AATTATTCTA
*
33809427 TAAATATTTCTTTTATTTT
1 TAAATATTTCTTATATTTT
33809446 TAAAT-TTTCTTAT-TTTT
1 TAAATATTTCTTATATTTT
33809463 T-AATATT
1 TAAATATT
33809470 AATTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 3 0.14
17 7 0.32
18 7 0.32
19 5 0.23
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (19 bp):
TAAATATTTCTTATATTTT
Found at i:33809787 original size:86 final size:90
Alignment explanation
Indices: 33809688--33809874 Score: 215
Period size: 86 Copynumber: 2.1 Consensus size: 90
33809678 CAGATGGGTA
* *** * * *
33809688 AAATTAATACACGAAAATTTAATTTTCAAACTTTATAT-AT-TACAAATTAAATTAAATTTAC-A
1 AAATTAATACACGAAAATATAAAAATCAAACCTTAAATCATAAACAAA-TAAATTAAATTTACAA
33809750 TAT-AAAAAATACAAACATTC-TAAG
65 TATAAAAAAATACAAACATTCTTAAG
* * * *
33809774 AAATTATTACACGAAAATATAAAAATGAAACCTTAAATCCTAAACAAATATATTAAATTTACATA
1 AAATTAATACACGAAAATATAAAAATCAAACCTTAAATCATAAACAAATAAATTAAATTTACA-A
33809839 TATAAAAAAATACAAACATTCTTAAG
65 TATAAAAAAATACAAACATTCTTAAG
33809865 AAA-TAATACA
1 AAATTAATACA
33809875 ATTATTTTCA
Statistics
Matches: 83, Mismatches: 12, Indels: 8
0.81 0.12 0.08
Matches are distributed among these distances:
86 30 0.36
87 14 0.17
88 5 0.06
89 4 0.05
90 23 0.28
91 7 0.08
ACGTcount: A:0.55, C:0.11, G:0.03, T:0.31
Consensus pattern (90 bp):
AAATTAATACACGAAAATATAAAAATCAAACCTTAAATCATAAACAAATAAATTAAATTTACAAT
ATAAAAAAATACAAACATTCTTAAG
Found at i:33810041 original size:49 final size:49
Alignment explanation
Indices: 33809980--33810083 Score: 199
Period size: 49 Copynumber: 2.1 Consensus size: 49
33809970 TCTACCGGTT
*
33809980 TCAACCACAACCTAGTTGCGGAATAAACACTACTGCACCATAGATAATG
1 TCAATCACAACCTAGTTGCGGAATAAACACTACTGCACCATAGATAATG
33810029 TCAATCACAACCTAGTTGCGGAATAAACACTACTGCACCATAGATAATG
1 TCAATCACAACCTAGTTGCGGAATAAACACTACTGCACCATAGATAATG
33810078 TCAATC
1 TCAATC
33810084 TGCGTTGGAC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.22
Consensus pattern (49 bp):
TCAATCACAACCTAGTTGCGGAATAAACACTACTGCACCATAGATAATG
Found at i:33810628 original size:53 final size:53
Alignment explanation
Indices: 33810420--33810735 Score: 227
Period size: 53 Copynumber: 5.9 Consensus size: 53
33810410 GCACCAAATT
* *
33810420 TTTTTTTTTCGTTTTCGTACTGGTGGTGCCGACCATTGATAGGCCAGCA--CAAAA
1 TTTTTTTTTCGTTTTCGTACTGGT-GT-CAG-CCATTGACAGGCCAGCACCCAAAA
***** * *
33810474 -AAGAATTT-G-TTTCAGTACTGGTGTCGGCCATTGATA-GCCTAGCACCCAAAA
1 TTTTTTTTTCGTTTTC-GTACTGGTGTCAGCCATTGACAGGCC-AGCACCCAAAA
***
33810525 TTTTTTTTTTCTGTTTTCGTACTGGTAGTGCCAGCCATTGACAAATCAGCACCCAAAA
1 -TTTTTTTTTC-GTTTTCGTACTGGT-GT--CAGCCATTGACAGGCCAGCACCCAAAA
*
33810583 TTTTTTTTTCGTTTTCGTATTGGTGTTC-GCCATTGACAGGCCAGCACCCAAAA
1 TTTTTTTTTCGTTTTCGTACTGGTG-TCAGCCATTGACAGGCCAGCACCCAAAA
* * * *
33810636 TTTTTTTTCCGTTTTCGTGCTGGTG-CAGACCATTGATAGGCCAGTACCCAAAA
1 TTTTTTTTTCGTTTTCGTACTGGTGTCAG-CCATTGACAGGCCAGCACCCAAAA
*** * * * * *
33810689 -AAATTTTTCGTTTTCCTAGGTGGTGTCGGCCATTAACAAGCCAGCAC
1 TTTTTTTTTCGTTTTCGTA-CTGGTGTCAGCCATTGACAGGCCAGCAC
33810736 AAAAAAAATT
Statistics
Matches: 208, Mismatches: 36, Indels: 37
0.74 0.13 0.13
Matches are distributed among these distances:
48 3 0.01
49 13 0.06
50 2 0.01
51 12 0.06
52 22 0.11
53 91 0.44
54 3 0.01
55 10 0.05
56 20 0.10
57 10 0.05
58 21 0.10
59 1 0.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (53 bp):
TTTTTTTTTCGTTTTCGTACTGGTGTCAGCCATTGACAGGCCAGCACCCAAAA
Found at i:33810865 original size:51 final size:52
Alignment explanation
Indices: 33810800--33810948 Score: 158
Period size: 53 Copynumber: 2.9 Consensus size: 52
33810790 TTTTAGTGTT
* * * *
33810800 GGTGCCGGCTATTGACAGGCCAGCGCCCAAATTTTTTTT-GTTTTCAAAAGC
1 GGTGCCGACCATTGACAGGCCAGCACCCAAATTTTTTTTCATTTTCAAAAGC
* * ** * *
33810851 GGTGCCGACCATTGACACGACAGCACCCAAATTTTTTTTTCATTTTCCTAGGT
1 GGTGCCGACCATTGACAGGCCAGCACCCAAA-TTTTTTTTCATTTTCAAAAGC
* *
33810904 GGTGCC-ACCCATTGACAGGCAAGCACCCAAATTTTTTTTTATTTT
1 GGTGCCGA-CCATTGACAGGCCAGCACCCAAATTTTTTTTCATTTT
33810949 TTTTGTATAC
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
51 26 0.32
52 22 0.27
53 33 0.41
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (52 bp):
GGTGCCGACCATTGACAGGCCAGCACCCAAATTTTTTTTCATTTTCAAAAGC
Found at i:33819181 original size:3 final size:3
Alignment explanation
Indices: 33819173--33819203 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
33819163 CCCCTCTATC
*
33819173 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
33819204 AAAAACTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:33827651 original size:23 final size:22
Alignment explanation
Indices: 33827620--33827662 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
33827610 CTTAATTACT
*
33827620 TCAAAAATGATCAAATTATAAA
1 TCAAAAATGATAAAATTATAAA
33827642 TCAATAAATGATAAAATTATA
1 TCAA-AAATGATAAAATTATA
33827663 TTTTGATCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.58, C:0.07, G:0.05, T:0.30
Consensus pattern (22 bp):
TCAAAAATGATAAAATTATAAA
Found at i:33845307 original size:22 final size:22
Alignment explanation
Indices: 33845280--33845326 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
33845270 TTTTAATGAC
* *
33845280 ATTTTTAATGCATTAAGTTTAA
1 ATTTTTAATGCAATAAGTATAA
*
33845302 ATTTTTCATGCAATAAGTATAA
1 ATTTTTAATGCAATAAGTATAA
33845324 ATT
1 ATT
33845327 CACGTGTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (22 bp):
ATTTTTAATGCAATAAGTATAA
Found at i:33848347 original size:16 final size:15
Alignment explanation
Indices: 33848313--33848357 Score: 58
Period size: 16 Copynumber: 3.1 Consensus size: 15
33848303 AAATAATTTA
*
33848313 AAATTTAAA--AATC
1 AAATTTAAACTAATT
33848326 AAATTTAAACTACATT
1 AAATTTAAACTA-ATT
33848342 AAATTTAAACTAATT
1 AAATTTAAACTAATT
33848357 A
1 A
33848358 GAGAGTTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 9 0.32
15 5 0.18
16 14 0.50
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATTTAAACTAATT
Found at i:33849086 original size:180 final size:181
Alignment explanation
Indices: 33848756--33849116 Score: 656
Period size: 180 Copynumber: 2.0 Consensus size: 181
33848746 TTTTTTTACT
*
33848756 TTTGACTAAAGTTAGGGTCCTCTCTACAATTAGTCCAAAACACTTTTTTTATTTGCAAAATAAGA
1 TTTGACTAAAGTTAGGGTCCTCTCTACAATTAGTCCAAAACAATTTTTTTATTTGCAAAATAAGA
33848821 ACCACCCATTTTCATTACCCTCAACATCCACCATAAAAATCACTAAATTTCATCACCGTCAATTC
66 ACCACCCATTTTCATTACCCTCAACATCCACCATAAAAATCACTAAATTTCATCACCGTCAATTC
*
33848886 CCTACTCCTATCTTTATCGCTCCTCACTT-CGTCGCCCCCACACAATAAAAA
131 CCTACTCCCATCTTTATCGCTCCTCA-TTCCGTCGCCCCCACACAATAAAAA
*
33848937 TTTGACTAAAGTTA-GGTCCTTTCTACAATTAGTCCAAAACAATTTTTTTATTTGCAAAATAAGA
1 TTTGACTAAAGTTAGGGTCCTCTCTACAATTAGTCCAAAACAATTTTTTTATTTGCAAAATAAGA
33849001 ACCACCCATTTTCATTACCCTCAACATCCACCATAAAAATCACTAAATTTCATCACCGTCAATTC
66 ACCACCCATTTTCATTACCCTCAACATCCACCATAAAAATCACTAAATTTCATCACCGTCAATTC
33849066 CCTACTCCCAT-TTCTATCGCTCCTCATTCCGTCGCCCCCACACAATAAAAA
131 CCTACTCCCATCTT-TATCGCTCCTCATTCCGTCGCCCCCACACAATAAAAA
33849117 CAACATGATG
Statistics
Matches: 175, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
179 4 0.02
180 157 0.90
181 14 0.08
ACGTcount: A:0.32, C:0.30, G:0.06, T:0.31
Consensus pattern (181 bp):
TTTGACTAAAGTTAGGGTCCTCTCTACAATTAGTCCAAAACAATTTTTTTATTTGCAAAATAAGA
ACCACCCATTTTCATTACCCTCAACATCCACCATAAAAATCACTAAATTTCATCACCGTCAATTC
CCTACTCCCATCTTTATCGCTCCTCATTCCGTCGCCCCCACACAATAAAAA
Found at i:33865783 original size:23 final size:23
Alignment explanation
Indices: 33865747--33865797 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
33865737 CCAATGTCGT
* *
33865747 TGTAATATCTCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
33865770 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
33865793 AGTAA
1 TGTAA
33865798 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:33869542 original size:59 final size:61
Alignment explanation
Indices: 33869475--33869592 Score: 177
Period size: 59 Copynumber: 2.0 Consensus size: 61
33869465 TGATTAAACT
* * *
33869475 TAATCACTTTAATAATAAATTAATATAATA-TTAA-TATTAGATTAAATTTAATATTAAGA
1 TAATCACTTTAATAATAAATTAATAAAATAGATAAGTATTAAATTAAATTTAATATTAAGA
* *
33869534 TAATCACTTTAATATTAAATTAATAAAATAGATAAGTATTAAATTTAATTTAATATTAA
1 TAATCACTTTAATAATAAATTAATAAAATAGATAAGTATTAAATTAAATTTAATATTAA
33869593 ACTATTAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 28 0.54
60 3 0.06
61 21 0.40
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (61 bp):
TAATCACTTTAATAATAAATTAATAAAATAGATAAGTATTAAATTAAATTTAATATTAAGA
Found at i:33869902 original size:13 final size:13
Alignment explanation
Indices: 33869886--33869929 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
33869876 TTTTTCAAGA
33869886 AAATTCCTTAATC
1 AAATTCCTTAATC
*
33869899 AAATTCCTTAATT
1 AAATTCCTTAATC
*
33869912 AAATTCTTTAATC
1 AAATTCCTTAATC
33869925 AAATT
1 AAATT
33869930 ATTTAGTTGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.41, C:0.16, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTCCTTAATC
Found at i:33869934 original size:13 final size:13
Alignment explanation
Indices: 33869886--33869934 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
33869876 TTTTTCAAGA
*
33869886 AAATTCCTTAATC
1 AAATTCTTTAATC
* *
33869899 AAATTCCTTAATT
1 AAATTCTTTAATC
33869912 AAATTCTTTAATC
1 AAATTCTTTAATC
*
33869925 AAATTATTTA
1 AAATTCTTTA
33869935 GTTGAGTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (13 bp):
AAATTCTTTAATC
Found at i:33872195 original size:23 final size:23
Alignment explanation
Indices: 33872168--33872220 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
33872158 AGTGTTATTG
33872168 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
33872191 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
33872214 ATCAGTG
1 ATCAGTG
33872221 TGGCACTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:33873566 original size:15 final size:15
Alignment explanation
Indices: 33873546--33873575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33873536 CTATGCATGC
*
33873546 AAAATATAAAAGACA
1 AAAATACAAAAGACA
33873561 AAAATACAAAAGACA
1 AAAATACAAAAGACA
33873576 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.73, C:0.10, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAATACAAAAGACA
Found at i:33876091 original size:15 final size:15
Alignment explanation
Indices: 33876071--33876100 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
33876061 AATGTGACAT
33876071 TCTATAGCTCGGACC
1 TCTATAGCTCGGACC
33876086 TCTATAGCTCGGACC
1 TCTATAGCTCGGACC
33876101 CGATGATCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.27
Consensus pattern (15 bp):
TCTATAGCTCGGACC
Found at i:33876438 original size:53 final size:53
Alignment explanation
Indices: 33876380--33876487 Score: 198
Period size: 53 Copynumber: 2.0 Consensus size: 53
33876370 ATGTCATGTT
*
33876380 TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGATTATTTAACTACA
1 TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGAATATTTAACTACA
*
33876433 TACATGGACCGATTATTTAATTAGTAGAAGAAGTACAAGAATATTTAACTACA
1 TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGAATATTTAACTACA
33876486 TA
1 TA
33876488 AACAATATAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (53 bp):
TACATGGACCGATTATTTAATTAATAGAAGAAGTACAAGAATATTTAACTACA
Found at i:33884811 original size:51 final size:51
Alignment explanation
Indices: 33884752--33884872 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
33884742 CCTCTCTCAT
* *
33884752 ATTTCCTCTCAATTTCCTTCCAAAATTCTCAT-AAATCCATATTCAATTTCA
1 ATTTCCTCTCAATTTCCTTCCAAAAATCTC-TCAAAGCCATATTCAATTTCA
* *
33884803 ATTTCCTCTCAATTTCATTCCAAAAATCTCTCAAAGCCATATTTAATTTCA
1 ATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAAGCCATATTCAATTTCA
*
33884854 ATTTGCTCTCAATTTCCTT
1 ATTTCCTCTCAATTTCCTT
33884873 TTTTAAAATA
Statistics
Matches: 63, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 1 0.02
51 62 0.98
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (51 bp):
ATTTCCTCTCAATTTCCTTCCAAAAATCTCTCAAAGCCATATTCAATTTCA
Found at i:33885992 original size:7 final size:7
Alignment explanation
Indices: 33885976--33886007 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
33885966 TGCAAATAGA
*
33885976 TATTTTG
1 TATTTAG
33885983 TATTTAG
1 TATTTAG
33885990 TATTTAG
1 TATTTAG
33885997 TATTTAG
1 TATTTAG
33886004 TATT
1 TATT
33886008 ATATATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.12, T:0.62
Consensus pattern (7 bp):
TATTTAG
Found at i:33886686 original size:18 final size:18
Alignment explanation
Indices: 33886659--33886698 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
33886649 CAGGTGCGTT
*
33886659 TCCTATCCCTTATATGTA
1 TCCTAACCCTTATATGTA
33886677 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
33886695 TCCT
1 TCCT
33886699 TTTCCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:33887163 original size:25 final size:25
Alignment explanation
Indices: 33887132--33887458 Score: 180
Period size: 25 Copynumber: 13.6 Consensus size: 25
33887122 TTGATATTAT
33887132 TTGATGTAATAAAATAGAAGTTTTA
1 TTGATGTAATAAAATAGAAGTTTTA
* * *
33887157 TTGATGTAATAAAAATTGAAATTTTT
1 TTGATGTAAT-AAAATAGAAGTTTTA
** * *
33887183 TTGA-GT--T-ATTTTG-A-TATTA
1 TTGATGTAATAAAATAGAAGTTTTA
33887202 TTTGATGTAATAAAATAGAAGTTTTA
1 -TTGATGTAATAAAATAGAAGTTTTA
*
33887228 TTGATGTAATAAAAATTTA-AAATTTT-
1 TTGATGTAAT-AAAA--TAGAAGTTTTA
** * *
33887254 TTGA-GT--T-ATTTTG-A-TATTA
1 TTGATGTAATAAAATAGAAGTTTTA
33887273 TTTGATGTAATAAAATAGAAG-TTTA
1 -TTGATGTAATAAAATAGAAGTTTTA
33887298 TATGATGTAATAAAATAGAAGTTTTA
1 T-TGATGTAATAAAATAGAAGTTTTA
** * *
33887324 TTGATGTAATAAAAATTTAAATTTTT
1 TTGATGTAAT-AAAATAGAAGTTTTA
* ** *
33887350 TTGA-GT--T--ATTTTAA-TATTA
1 TTGATGTAATAAAATAGAAGTTTTA
33887369 TCTGATGTAATAAAATAGAAG-TTTA
1 T-TGATGTAATAAAATAGAAGTTTTA
33887394 TTTGATGTAATAAAATAGAAG-TTTA
1 -TTGATGTAATAAAATAGAAGTTTTA
*
33887419 TATAATGTAATAAAATAGAAG-TTTA
1 T-TGATGTAATAAAATAGAAGTTTTA
*
33887444 TTTGATGTGATAAAA
1 -TTGATGTAATAAAA
33887459 ATTGAAAACT
Statistics
Matches: 235, Mismatches: 34, Indels: 66
0.70 0.10 0.20
Matches are distributed among these distances:
18 3 0.01
19 9 0.04
20 18 0.08
21 11 0.05
23 6 0.03
24 8 0.03
25 122 0.52
26 50 0.21
27 6 0.03
28 2 0.01
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (25 bp):
TTGATGTAATAAAATAGAAGTTTTA
Found at i:33887190 original size:71 final size:71
Alignment explanation
Indices: 33887105--33887312 Score: 373
Period size: 71 Copynumber: 2.9 Consensus size: 71
33887095 TTATTTGTAC
*
33887105 AAATATTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAA
1 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAA
33887170 AATTGA
66 AATTGA
*
33887176 AATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAA
1 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAA
*
33887241 AATTTA
66 AATTGA
33887247 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAG-TTTATATGATGTAATAA
1 AAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTAT-TGATGTAATAA
33887311 AA
65 AA
33887313 TAGAAGTTTT
Statistics
Matches: 132, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
70 5 0.04
71 127 0.96
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (71 bp):
AAATTTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAA
AATTGA
Found at i:33887307 original size:96 final size:96
Alignment explanation
Indices: 33887199--33887433 Score: 409
Period size: 96 Copynumber: 2.4 Consensus size: 96
33887189 TATTTTGATA
33887199 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAAATTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAAATTTTTTGAGTTATT
* *
33887264 TTGATATTATTTGATGTAATAAAATAGAAGT
66 TTAATATTATCTGATGTAATAAAATAGAAGT
* *
33887295 TTATATGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAATTTTTTTGAGTTATT
1 TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAAATTTTTTGAGTTATT
33887360 TTAATATTATCTGATGTAATAAAATAGAAGT
66 TTAATATTATCTGATGTAATAAAATAGAAGT
*
33887391 TTATTTGATGTAATAAAATAGAAG-TTTATATAATGTAATAAAA
1 TTATTTGATGTAATAAAATAGAAGTTTTAT-TGATGTAATAAAA
33887434 TAGAAGTTTA
Statistics
Matches: 132, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
95 5 0.04
96 127 0.96
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.44
Consensus pattern (96 bp):
TTATTTGATGTAATAAAATAGAAGTTTTATTGATGTAATAAAAATTTAAAATTTTTTGAGTTATT
TTAATATTATCTGATGTAATAAAATAGAAGT
Found at i:33887490 original size:23 final size:23
Alignment explanation
Indices: 33887460--33887980 Score: 871
Period size: 23 Copynumber: 22.7 Consensus size: 23
33887450 GTGATAAAAA
**
33887460 TTGAAAACTTTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887483 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887506 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
*
33887529 TTAAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887552 TTGAAAACCCTAACCTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
33887575 TTGAAAAACCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887598 TTGAAAACCCTAACATAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887621 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887644 TTGAAAATCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887667 TTGAAAACCCTAACCTAAGTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887690 TTGAAAACCCCAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887713 TTGAAAACCCCAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887736 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
* *
33887759 TTGAAAACCCTAACTTAATTAAA
1 TTGAAAACCCTAACCTAATTAAG
* *
33887782 TTAAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887805 TTGAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887828 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887851 TTAAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
*
33887874 TTGAAAACCCTAACCTATTTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887897 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887920 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887943 TTGAAAACCCTAACCTAATTAAG
1 TTGAAAACCCTAACCTAATTAAG
33887966 TTGAAAACCCTAACC
1 TTGAAAACCCTAACC
33887981 CTAAACTTAA
Statistics
Matches: 466, Mismatches: 32, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 466 1.00
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (23 bp):
TTGAAAACCCTAACCTAATTAAG
Found at i:33892543 original size:13 final size:13
Alignment explanation
Indices: 33892525--33892553 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
33892515 TTATTGAAAA
33892525 TCTGTTGAAGATT
1 TCTGTTGAAGATT
33892538 TCTGTTGAAGATT
1 TCTGTTGAAGATT
33892551 TCT
1 TCT
33892554 TCTTCTCGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.48
Consensus pattern (13 bp):
TCTGTTGAAGATT
Found at i:33910365 original size:13 final size:14
Alignment explanation
Indices: 33910349--33910378 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33910339 AACTTTAAAT
33910349 ATTG-ACTCTTTTA
1 ATTGTACTCTTTTA
33910362 ATTGTACTCTTTTA
1 ATTGTACTCTTTTA
33910376 ATT
1 ATT
33910379 TTTAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.23, C:0.13, G:0.07, T:0.57
Consensus pattern (14 bp):
ATTGTACTCTTTTA
Found at i:33917382 original size:9 final size:9
Alignment explanation
Indices: 33917365--33917395 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33917355 TTGAGTTGAT
33917365 TCGAATAAC
1 TCGAATAAC
*
33917374 TCGATTAAC
1 TCGAATAAC
33917383 TCGAATAAC
1 TCGAATAAC
33917392 TCGA
1 TCGA
33917396 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:33918231 original size:21 final size:21
Alignment explanation
Indices: 33918206--33918265 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
33918196 TATTTATTTG
*
33918206 ATAAAAATTTATATTTATTAT
1 ATAAAAATTTATATTTAATAT
* ** * *
33918227 TTAAATTTTTTTATATAATAT
1 ATAAAAATTTATATTTAATAT
33918248 ATAAAAA-TTATATTTAAT
1 ATAAAAATTTATATTTAAT
33918266 GCACAGTTAG
Statistics
Matches: 28, Mismatches: 11, Indels: 1
0.70 0.28 0.03
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATAAAAATTTATATTTAATAT
Found at i:33924786 original size:29 final size:29
Alignment explanation
Indices: 33924741--33924803 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
33924731 TTAATAATAA
33924741 TTAT-TAAAAAAATTAAATTATTTATTAT
1 TTATATAAAAAAATTAAATTATTTATTAT
*
33924769 TTATATAAAAAATTTAAATTATTTATTAT
1 TTATATAAAAAAATTAAATTATTTATTAT
33924798 TTATAT
1 TTATAT
33924804 CAATAATCTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
TTATATAAAAAAATTAAATTATTTATTAT
Found at i:33924986 original size:49 final size:50
Alignment explanation
Indices: 33924920--33925017 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
33924910 ATTACAACAT
33924920 CATTCCATTCAACCAAACACA-AGAA-TACCATTACAGTTCTATTCCATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACCATTACAGTTCTATTCCATTC
* * *
33924969 CATTCCATTCAATCAAACAATTGAATTACTATTACAGTTCTATTCCATT
1 CATTCCATTCAACCAAACAATAGAATTACCATTACAGTTCTATTCCATT
33925018 ACACTTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 1 0.02
49 21 0.48
50 22 0.50
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.34
Consensus pattern (50 bp):
CATTCCATTCAACCAAACAATAGAATTACCATTACAGTTCTATTCCATTC
Found at i:33925020 original size:16 final size:16
Alignment explanation
Indices: 33924999--33925070 Score: 83
Period size: 16 Copynumber: 4.5 Consensus size: 16
33924989 TTGAATTACT
*
33924999 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
33925015 ATTACA-CTTCTATTAC
1 ATTACAGC-TCTATTCC
* * *
33925031 ATTATAGCTCTATACA
1 ATTACAGCTCTATTCC
33925047 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
33925063 ATTACAGC
1 ATTACAGC
33925071 GAACCAAACG
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
16 44 0.98
17 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:33927493 original size:24 final size:24
Alignment explanation
Indices: 33927460--33927523 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
33927450 AAACCTAATT
* * *
33927460 CTAATCAATGTTAAATATATTATG
1 CTAATAAATGCTAAATATATTATA
33927484 CTAATAAATGCTAAATATATTATA
1 CTAATAAATGCTAAATATATTATA
* *
33927508 CCAATAAATACTAAAT
1 CTAATAAATGCTAAAT
33927524 CTTCTAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.48, C:0.11, G:0.05, T:0.36
Consensus pattern (24 bp):
CTAATAAATGCTAAATATATTATA
Found at i:33936556 original size:23 final size:23
Alignment explanation
Indices: 33936529--33936575 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
33936519 ATTAGGGGAG
*
33936529 AAAATTAACGAATTTTGAGGGTT
1 AAAATTAAAGAATTTTGAGGGTT
*
33936552 AAAATTAAAGAATTTTGGGGGTT
1 AAAATTAAAGAATTTTGAGGGTT
33936575 A
1 A
33936576 TCGGGATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.34
Consensus pattern (23 bp):
AAAATTAAAGAATTTTGAGGGTT
Found at i:33939489 original size:18 final size:19
Alignment explanation
Indices: 33939468--33939508 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 19
33939458 TTTGGTTAAA
33939468 AATTAACC-AAATTAACCG
1 AATTAACCTAAATTAACCG
* *
33939486 AATT-ACCTGAATTACCCG
1 AATTAACCTAAATTAACCG
33939504 AATTA
1 AATTA
33939509 TTTTTTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (19 bp):
AATTAACCTAAATTAACCG
Found at i:33939544 original size:12 final size:13
Alignment explanation
Indices: 33939513--33939561 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
33939503 GAATTATTTT
*
33939513 TTTTATTTTTAGA
1 TTTTAGTTTTAGA
*
33939526 CTTTAGTTTTAG-
1 TTTTAGTTTTAGA
33939538 TTTTAGTTTTAGAA
1 TTTTAGTTTTAG-A
33939552 TTTTA-TTTTA
1 TTTTAGTTTTA
33939562 TTTATTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 11 0.35
13 15 0.48
14 5 0.16
ACGTcount: A:0.22, C:0.02, G:0.10, T:0.65
Consensus pattern (13 bp):
TTTTAGTTTTAGA
Found at i:33947240 original size:23 final size:23
Alignment explanation
Indices: 33947210--33947257 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
33947200 ATAGTGCAGT
33947210 AAACCGCTGTACAAAAGTACCGC
1 AAACCGCTGTACAAAAGTACCGC
33947233 AAACCGCTGTACAAAAGTACCGC
1 AAACCGCTGTACAAAAGTACCGC
33947256 AA
1 AA
33947258 TTAAAACTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.42, C:0.29, G:0.17, T:0.12
Consensus pattern (23 bp):
AAACCGCTGTACAAAAGTACCGC
Found at i:33970751 original size:18 final size:17
Alignment explanation
Indices: 33970723--33970760 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
33970713 ATTAAAAATG
33970723 ATTTTTTAATTGTTA-AA
1 ATTTTTTAATT-TTATAA
33970740 ATTTTATTAATTTTATAA
1 ATTTT-TTAATTTTATAA
33970758 ATT
1 ATT
33970761 ATTGATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTTTAATTTTATAA
Found at i:33970910 original size:2 final size:2
Alignment explanation
Indices: 33970903--33970944 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
33970893 AGACTTTGTA
33970903 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
33970945 GTGGTTTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33979157 original size:14 final size:14
Alignment explanation
Indices: 33979140--33979170 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33979130 AAACCTTAAA
33979140 CATGAACCCCAAAC
1 CATGAACCCCAAAC
*
33979154 CATGAATCCCAAAC
1 CATGAACCCCAAAC
33979168 CAT
1 CAT
33979171 AAATCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.39, G:0.06, T:0.13
Consensus pattern (14 bp):
CATGAACCCCAAAC
Found at i:33979457 original size:13 final size:13
Alignment explanation
Indices: 33979439--33979466 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
33979429 ATAAAATGAT
33979439 TTCTCCTAAACTA
1 TTCTCCTAAACTA
33979452 TTCTCCTAAACTA
1 TTCTCCTAAACTA
33979465 TT
1 TT
33979467 AATGAGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (13 bp):
TTCTCCTAAACTA
Found at i:33981370 original size:3 final size:3
Alignment explanation
Indices: 33981362--33981434 Score: 58
Period size: 3 Copynumber: 24.3 Consensus size: 3
33981352 AAATTAGTCC
* * * ***
33981362 TTA TTA TTA TTA TTA ATC TTA TTA TTA TTA TCA TTA GCG TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
33981409 CTTA TTC TTA TTA TTG TTA TTA TTA T
1 -TTA TTA TTA TTA TTA TTA TTA TTA T
33981435 ATTTAGTACT
Statistics
Matches: 52, Mismatches: 16, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.29, C:0.07, G:0.04, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:33981719 original size:2 final size:2
Alignment explanation
Indices: 33981712--33981746 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33981702 TTCATACTTT
33981712 TA TA TA 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 TA TA TA T
33981747 TATTAGNNNN
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33981867 original size:2 final size:2
Alignment explanation
Indices: 33981860--33981894 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33981850 NNNTATTACT
33981860 TA TA TA 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 TA TA TA T
33981895 TGTTATTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:33983900 original size:37 final size:37
Alignment explanation
Indices: 33983859--33983933 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
33983849 TTGTTTTAGT
33983859 TTTTTAAAATTTTAAATTAATATTTTTAGTTAATAAA
1 TTTTTAAAATTTTAAATTAATATTTTTAGTTAATAAA
33983896 TTTTTAAAATTTTAAATTAATATTTTTAGTTAATAAA
1 TTTTTAAAATTTTAAATTAATATTTTTAGTTAATAAA
33983933 T
1 T
33983934 ATATTGTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (37 bp):
TTTTTAAAATTTTAAATTAATATTTTTAGTTAATAAA
Found at i:33983928 original size:13 final size:13
Alignment explanation
Indices: 33983875--33983930 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
33983865 AAATTTTAAA
33983875 TTAATATTTTTAG
1 TTAATATTTTTAG
**
33983888 TTAATAAATTT--
1 TTAATATTTTTAG
* * *
33983899 TTAAAATTTTAAA
1 TTAATATTTTTAG
33983912 TTAATATTTTTAG
1 TTAATATTTTTAG
33983925 TTAATA
1 TTAATA
33983931 AATATATTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 4
0.71 0.20 0.09
Matches are distributed among these distances:
11 7 0.22
13 25 0.78
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (13 bp):
TTAATATTTTTAG
Found at i:33997389 original size:2 final size:2
Alignment explanation
Indices: 33997382--33997423 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
33997372 CACTTGGACC
33997382 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
33997424 TACTCTACAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33998285 original size:26 final size:27
Alignment explanation
Indices: 33998233--33998295 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 27
33998223 ATAAAAAATA
33998233 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
33998260 ACCAAAATATTATAA-TTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
33998286 ACCAAAATAT
1 ACCAAAATAT
33998296 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 21 0.58
27 15 0.42
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:33998574 original size:37 final size:37
Alignment explanation
Indices: 33998524--33998614 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
33998514 CCCTCGTAAT
33998524 TTAAAATAGAGTTATTAAATGAGAATAATTTATTAAA
1 TTAAAATAGAGTTATTAAATGAGAATAATTTATTAAA
*
33998561 TTAAAATAGAGTTATTAAATGAGAATAGTTTATTAAA
1 TTAAAATAGAGTTATTAAATGAGAATAATTTATTAAA
33998598 TTAAAATAGAGTTATTA
1 TTAAAATAGAGTTATTA
33998615 CTTAATTAGA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.38
Consensus pattern (37 bp):
TTAAAATAGAGTTATTAAATGAGAATAATTTATTAAA
Found at i:33998619 original size:18 final size:19
Alignment explanation
Indices: 33998524--33998614 Score: 114
Period size: 18 Copynumber: 4.9 Consensus size: 19
33998514 CCCTCGTAAT
33998524 TTAAAATAGAGTTATTAAA
1 TTAAAATAGAGTTATTAAA
* * *
33998543 TGAGAATA-ATTTATTAAA
1 TTAAAATAGAGTTATTAAA
33998561 TTAAAATAGAGTTATTAAA
1 TTAAAATAGAGTTATTAAA
* * *
33998580 TGAGAATAG-TTTATTAAA
1 TTAAAATAGAGTTATTAAA
33998598 TTAAAATAGAGTTATTA
1 TTAAAATAGAGTTATTA
33998615 CTTAATTAGA
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
18 30 0.52
19 28 0.48
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.38
Consensus pattern (19 bp):
TTAAAATAGAGTTATTAAA
Found at i:33999261 original size:27 final size:27
Alignment explanation
Indices: 33999174--33999252 Score: 140
Period size: 27 Copynumber: 2.9 Consensus size: 27
33999164 CATTTTAGTC
33999174 CTTTGGCACCATTGGTGCCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
33999201 CTTTGGCACCATTGGTGTCGCCAATCT
1 CTTTGGCACCATTGGTGCCGCCAATCT
*
33999228 CTTTGGCACCTTTGGTGCCGCCAAT
1 CTTTGGCACCATTGGTGCCGCCAAT
33999253 GTGATTGGCC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.14, C:0.32, G:0.23, T:0.32
Consensus pattern (27 bp):
CTTTGGCACCATTGGTGCCGCCAATCT
Found at i:33999344 original size:27 final size:28
Alignment explanation
Indices: 33999314--33999378 Score: 114
Period size: 28 Copynumber: 2.4 Consensus size: 28
33999304 TGTTTTTGGT
*
33999314 ATATTTTGGTAAAT-AAAAAAATTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
33999341 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
33999369 ATATTTTGGT
1 ATATTTTGGT
33999379 TATTTTTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 14 0.39
28 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.42
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:34006301 original size:26 final size:27
Alignment explanation
Indices: 34006234--34006302 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 27
34006224 GCACACCGCA
* *
34006234 GCTCTT-ATGAGCTT-CTCGTTATATG
1 GCTCTTCATGAGCTTCCTCATTATAAG
34006259 GCTCTTCATGAGCTTCCTCATTA-AAG
1 GCTCTTCATGAGCTTCCTCATTATAAG
**
34006285 GCTCTTTGTGAGCTTCCT
1 GCTCTTCATGAGCTTCCT
34006303 GTTAGTGCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
25 6 0.16
26 26 0.68
27 6 0.16
ACGTcount: A:0.16, C:0.25, G:0.19, T:0.41
Consensus pattern (27 bp):
GCTCTTCATGAGCTTCCTCATTATAAG
Found at i:34006394 original size:24 final size:24
Alignment explanation
Indices: 34006352--34006398 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
34006342 GTGCTTCCCG
* *
34006352 TTAATTGCTCTTCGTAGCTACCCA
1 TTAATTGCACTTCGGAGCTACCCA
*
34006376 TTAATTGCACTTTGGAGCTACCC
1 TTAATTGCACTTCGGAGCTACCC
34006399 GTTATAGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.21, C:0.28, G:0.15, T:0.36
Consensus pattern (24 bp):
TTAATTGCACTTCGGAGCTACCCA
Found at i:34010538 original size:4 final size:4
Alignment explanation
Indices: 34010529--34010594 Score: 62
Period size: 4 Copynumber: 15.0 Consensus size: 4
34010519 ATGATGATAT
34010529 TAAA TAAA TAAA TAAA TAAA TAAA TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA T-AAA T-AAA T-AAA T-AAA T-AAA
34010578 TAAA -AAGA TAAAA TAAA
1 TAAA TAA-A T-AAA TAAA
34010595 AATGCTATGC
Statistics
Matches: 58, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.03
4 28 0.48
5 26 0.45
6 2 0.03
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:34010560 original size:5 final size:5
Alignment explanation
Indices: 34010530--34010595 Score: 74
Period size: 5 Copynumber: 14.6 Consensus size: 5
34010520 TGATGATATT
34010530 AAAT- AAAT- AAAT- AAAT- AAAT- AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
*
34010575 AAAT- AAA-A AGATA AAATA AAA
1 AAATA AAATA AAATA AAATA AAA
34010596 ATGCTATGCT
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
4 25 0.44
5 32 0.56
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:34010588 original size:28 final size:27
Alignment explanation
Indices: 34010530--34010595 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 27
34010520 TGATGATATT
34010530 AAAT-AAAT-AAATAAATAAATAAATA
1 AAATAAAATAAAATAAATAAATAAATA
34010555 AAATAAAATAAAATAAAATAAAATAAA-A
1 AAATAAAATAAAAT-AAAT-AAATAAATA
*
34010583 AGATAAAATAAAA
1 AAATAAAATAAAA
34010596 ATGCTATGCT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 4 0.11
26 4 0.11
27 4 0.11
28 17 0.47
29 7 0.19
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.20
Consensus pattern (27 bp):
AAATAAAATAAAATAAATAAATAAATA
Found at i:34010713 original size:7 final size:7
Alignment explanation
Indices: 34010701--34010731 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
34010691 TAATACTAAT
34010701 ATAAATA
1 ATAAATA
34010708 ATAAATA
1 ATAAATA
34010715 ATAAATA
1 ATAAATA
34010722 AT-AATA
1 ATAAATA
34010728 ATAA
1 ATAA
34010732 CAAACAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.26
7 17 0.74
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
ATAAATA
Found at i:34010720 original size:14 final size:13
Alignment explanation
Indices: 34010692--34010731 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
34010682 TTATTTCTAT
*
34010692 AATACTAAT-ATA
1 AATAATAATAATA
34010704 AATAATAAATAATA
1 AATAAT-AATAATA
34010718 AATAATAATAATA
1 AATAATAATAATA
34010731 A
1 A
34010732 CAAACAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
12 5 0.20
13 11 0.44
14 9 0.36
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.30
Consensus pattern (13 bp):
AATAATAATAATA
Found at i:34012537 original size:94 final size:94
Alignment explanation
Indices: 34012413--34013164 Score: 870
Period size: 94 Copynumber: 8.0 Consensus size: 94
34012403 AGTTTCATGT
* * * * * * *
34012413 TGCTCCATTGCAACTTTA-AGAAGATAAGATTTGTTATTGTAGTTTCAATCCAACCCACCGCAAC
1 TGCTCCACTGCAACTTTAGAG-AGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAAC
34012477 TTCAGGGGTATAAGG-TTTGTAGCTTCAATC
65 TTCAGGGGTAT-AGGATTTGTAGCTTCAATC
* * * *
34012507 TGTTCCACTGCAACTTTAGAGAGATAAGATTCGCTATAGTAGATTCAATCTGACCCACTGAAACT
1 TGCTCCACTGCAACTTTAGAGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
* * *
34012572 TCAGAGGTATAGGATTTGTAGTTTCATTC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * * * *
34012601 CGCTCCACTACAATTTTA-AGGAGATAAAATTCTCCATGGTAGATTTAATCCGACCCACTGCAAC
1 TGCTCCACTGCAACTTTAGA-GAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAAC
34012665 TTCAGGGGTATAGGATTTGTAGCTTCAATC
65 TTCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * * * *
34012695 TGCTCTACTGCAACTTTAGGGAGATAATATTCGCTATAGTAGAATCAATCCAACCCATTGCAACT
1 TGCTCCACTGCAACTTTAGAGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
* *
34012760 TCAGGGGTATAAGATTTGTAGTTTCAATC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
* *
34012789 TGCTTCACTGCAA-TTTCA-AGGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACAGCAA
1 TGCTCCACTGCAACTTT-AGA-GAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAA
* *
34012852 TTTCAGGGGTATAGGAGTTGTAGCTTCAATC
64 CTTCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * *
34012883 TACTCCACTGTAACTTTAGGGAGATAAGATTC-CTTATGGTAGATTCAATCTGACCCACTGTAAC
1 TGCTCCACTGCAACTTTAGAGAGATAAGATTCGC-TATGGTAGATTCAATCCGACCCACTGCAAC
*
34012947 TTCAGGGGTATAAGATTTGTAGCTTCAATC
65 TTCAGGGGTATAGGATTTGTAGCTTCAATC
* * * * * **
34012977 TACTCCACTGCAACTTTAGGGTGACAAGATTCGCTATGGTAGATTCAATTCGACCCACTGGGACT
1 TGCTCCACTGCAACTTTAGAGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
*
34013042 TCAGGGGTATAGGATTTGTAGCTTCAACC
66 TCAGGGGTATAGGATTTGTAGCTTCAATC
** * * * * * *
34013071 TGCTCCACTGCAACTTTAG-GAAGATAAGATTCGCCCTCGTAGTTTTATTCTGACCCACTACAAC
1 TGCTCCACTGCAACTTTAGAG-AGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAAC
* *
34013135 TTCAGGGGTATAGGAATTGTAGCTTTAATC
65 TTCAGGGGTATAGGATTTGTAGCTTCAATC
34013165 CGAAGATTTG
Statistics
Matches: 556, Mismatches: 91, Indels: 22
0.83 0.14 0.03
Matches are distributed among these distances:
93 9 0.02
94 541 0.97
95 6 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (94 bp):
TGCTCCACTGCAACTTTAGAGAGATAAGATTCGCTATGGTAGATTCAATCCGACCCACTGCAACT
TCAGGGGTATAGGATTTGTAGCTTCAATC
Found at i:34013006 original size:44 final size:43
Alignment explanation
Indices: 34012869--34013101 Score: 155
Period size: 44 Copynumber: 5.0 Consensus size: 43
34012859 GGTATAGGAG
34012869 TTGTAGCTTCAATCTACTCCACTGTAACTTTAGGGAGATAAGATTCCT
1 TTGTAGCTTCAATCTACTCCACTGTAACTTTAGGG-GATAAGA----T
* *
34012917 TATGGTAGATTCAATCTGAC-CCACTGTAACTTCAGGGGTATAAGAT
1 T-T-GTAGCTTCAATCT-ACTCCACTGTAACTTTAGGGG-ATAAGAT
* *
34012963 TTGTAGCTTCAATCTACTCCACTGCAACTTTAGGGTGACAAGATT
1 TTGTAGCTTCAATCTACTCCACTGTAACTTTAGGG-GATAAGA-T
* * ** * *
34013008 CGCTATGGTAGATTCAATTCGAC-CCACTGGGACTTCAGGGGTATAGGAT
1 ---T-T-GTAGCTTCAA-TCTACTCCACTGTAACTTTAGGGG-ATAAGAT
* * * *
34013057 TTGTAGCTTCAACCTGCTCCACTGCAACTTTAGGAAGATAAGAT
1 TTGTAGCTTCAATCTACTCCACTGTAACTTTAGG-GGATAAGAT
34013101 T
1 T
34013102 CGCCCTCGTA
Statistics
Matches: 147, Mismatches: 22, Indels: 36
0.72 0.11 0.18
Matches are distributed among these distances:
43 4 0.03
44 61 0.41
45 5 0.03
46 3 0.02
48 2 0.01
49 5 0.03
50 61 0.41
51 6 0.04
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
TTGTAGCTTCAATCTACTCCACTGTAACTTTAGGGGATAAGAT
Found at i:34013171 original size:71 final size:71
Alignment explanation
Indices: 34013096--34013234 Score: 233
Period size: 71 Copynumber: 2.0 Consensus size: 71
34013086 TTAGGAAGAT
*
34013096 AAGATTCGCCCTCGTAGTTTTATTCTGACCCACTACAACTTCAGGGGTATAGGAATTGTAGCTTT
1 AAGATTCGCCCTCGTAGTTTTATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTAGCTTT
34013161 AATCCG
66 AATCCG
* * * *
34013167 AAGATTTGTCCTCGTAGTTTTATTTTAACCCACTGCAACTTCAGGGGTATAGGAATTGTAGCTTT
1 AAGATTCGCCCTCGTAGTTTTATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTAGCTTT
34013232 AAT
66 AAT
34013235 TCAATCCTCT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
71 63 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (71 bp):
AAGATTCGCCCTCGTAGTTTTATTCTAACCCACTACAACTTCAGGGGTATAGGAATTGTAGCTTT
AATCCG
Found at i:34013296 original size:44 final size:43
Alignment explanation
Indices: 34013196--34013301 Score: 117
Period size: 44 Copynumber: 2.4 Consensus size: 43
34013186 TTATTTTAAC
* *
34013196 CCACTGCAACTTCAGGGGTATAGGAATTGTAGCTTTAATTCAAT
1 CCACTGCAACTTCAGGGATATAGGAATTGTAGCTTCAATTC-AT
* * *
34013240 CCTCTGCGACTTCAGGGATATA-GAATTTGTAGCTTCATCTTGC-T
1 CCACTGCAACTTCAGGGATATAGGAA-TTGTAGCTTCA-ATT-CAT
34013284 CCACTGCAACTTCAGGGA
1 CCACTGCAACTTCAGGGA
34013302 GATAAGATTC
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
43 3 0.06
44 46 0.88
45 2 0.04
46 1 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (43 bp):
CCACTGCAACTTCAGGGATATAGGAATTGTAGCTTCAATTCAT
Found at i:34015535 original size:25 final size:25
Alignment explanation
Indices: 34015488--34015535 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
34015478 TATCGAGCCA
*
34015488 TATAACGGGAAACTCATGTGAGCTG
1 TATAACGGGAAACTCATGCGAGCTG
* *
34015513 TATAACGGGAAGCTCTTGCGAGC
1 TATAACGGGAAACTCATGCGAGC
34015536 CATTTATTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (25 bp):
TATAACGGGAAACTCATGCGAGCTG
Found at i:34015575 original size:25 final size:25
Alignment explanation
Indices: 34015547--34015616 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
34015537 ATTTATTGGA
34015547 AAGCTCAAGAGAGCCAAATATCAGG
1 AAGCTCAAGAGAGCCAAATATCAGG
*** *
34015572 AAGCTTGTGAGAGCCAAATATCGGG
1 AAGCTCAAGAGAGCCAAATATCAGG
* *
34015597 ATGCTCATA-AGAGCTAAATA
1 AAGCTCA-AGAGAGCCAAATA
34015617 ATGGGAAACT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.19
Consensus pattern (25 bp):
AAGCTCAAGAGAGCCAAATATCAGG
Found at i:34015622 original size:25 final size:25
Alignment explanation
Indices: 34015556--34015634 Score: 70
Period size: 25 Copynumber: 3.2 Consensus size: 25
34015546 AAAGCTCAAG
* * ** *
34015556 AGAGCCAAATATCAGGAAGCTTGTG
1 AGAGCCAAATATCGGGAAACTCATA
**
34015581 AGAGCCAAATATCGGGATGCTCATA
1 AGAGCCAAATATCGGGAAACTCATA
*
34015606 AGAGCTAAATAAT-GGGAAACTCATA
1 AGAGCCAAAT-ATCGGGAAACTCATA
34015631 AGAG
1 AGAG
34015635 TTGTGGTGTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
25 43 0.96
26 2 0.04
ACGTcount: A:0.41, C:0.15, G:0.25, T:0.19
Consensus pattern (25 bp):
AGAGCCAAATATCGGGAAACTCATA
Found at i:34018195 original size:9 final size:9
Alignment explanation
Indices: 34018183--34018249 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
34018173 AAATTAACAA
34018183 AATTAACCG
1 AATTAACCG
34018192 AATTAACCG
1 AATTAACCG
*
34018201 AATTACCCG
1 AATTAACCG
*
34018210 AATTACCCG
1 AATTAACCG
34018219 AATTAACCG
1 AATTAACCG
34018228 AATT-ACCTG
1 AATTAACC-G
*
34018237 AATTAACCA
1 AATTAACCG
34018246 AATT
1 AATT
34018250 GAATCACTAC
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
8 3 0.06
9 47 0.89
10 3 0.06
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:34018213 original size:27 final size:27
Alignment explanation
Indices: 34018183--34018249 Score: 107
Period size: 27 Copynumber: 2.5 Consensus size: 27
34018173 AAATTAACAA
34018183 AATTAACCGAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
34018210 AATTACCCGAATTAACCGAATTACCTG
1 AATTAACCGAATTAACCGAATTACCCG
*
34018237 AATTAACCAAATT
1 AATTAACCGAATT
34018250 GAATCACTAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.42, C:0.24, G:0.09, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:34018583 original size:18 final size:19
Alignment explanation
Indices: 34018548--34018599 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
34018538 AACCGACCGA
***
34018548 TTAACCGAATTCGGTCGG-
1 TTAACCGAATTTTTTCGGT
34018566 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTTTTTCGG-T
*
34018586 TTACCCGAATTTTT
1 TTAACCGAATTTTT
34018600 CACACCCCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 15 0.54
20 13 0.46
ACGTcount: A:0.21, C:0.19, G:0.17, T:0.42
Consensus pattern (19 bp):
TTAACCGAATTTTTTCGGT
Found at i:34026322 original size:22 final size:22
Alignment explanation
Indices: 34026294--34026446 Score: 225
Period size: 22 Copynumber: 7.0 Consensus size: 22
34026284 TGTTGATAGT
*
34026294 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
34026316 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
34026338 ACGTACTAAGCTCTCATGTTTA
1 ACGTACTAAGCTCTCATGTTTA
* * * **
34026360 ACGAACTAAACCCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
**
34026382 ACGTACTAAGCTCTCATGGCTA
1 ACGTACTAAGCTCTCATGTTTA
*
34026404 ACGTACTAAGCTCTCATGTTTC
1 ACGTACTAAGCTCTCATGTTTA
34026426 ACGTACTAAGCTCTCATGTTT
1 ACGTACTAAGCTCTCATGTTT
34026447 GAACAATAAA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 119 1.00
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (22 bp):
ACGTACTAAGCTCTCATGTTTA
Found at i:34028301 original size:21 final size:21
Alignment explanation
Indices: 34028276--34028317 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34028266 TTTTCTAAAG
*
34028276 ATGTGTATTGGACTAAATTGA
1 ATGTGAATTGGACTAAATTGA
* *
34028297 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGACTAAATTGA
34028318 GCTAAATTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.02, G:0.21, T:0.40
Consensus pattern (21 bp):
ATGTGAATTGGACTAAATTGA
Found at i:34031545 original size:25 final size:25
Alignment explanation
Indices: 34031517--34031700 Score: 107
Period size: 25 Copynumber: 7.4 Consensus size: 25
34031507 ATCCCGTTAT
* *
34031517 ATGGCTCTCACGAGCTTCTAGATTA
1 ATGGCTCTCATGAGCTTCTCGATTA
* * * *
34031542 ATGGCTCTCTTAAGCTTCTTG-TTT
1 ATGGCTCTCATGAGCTTCTCGATTA
34031566 ATGGCTCGT-ATGAGCTTC-CTGA-TA
1 ATGGCTC-TCATGAGCTTCTC-GATTA
* * *
34031590 ATTTGGCTCTCTTAAGCTTCTCG-TTT
1 A--TGGCTCTCATGAGCTTCTCGATTA
34031616 ATGGCTCGT-ATGAGCTTC-CTGA-TA
1 ATGGCTC-TCATGAGCTTCTC-GATTA
** *
34031640 ATTTGGCTCTCCGGAGCTTTTCGA-TA
1 A--TGGCTCTCATGAGCTTCTCGATTA
*
34031666 ATTGGCTCTCACGAGCTTCTCGATTA
1 A-TGGCTCTCATGAGCTTCTCGATTA
34031692 ATGGCTCTC
1 ATGGCTCTC
34031701 TGAAACTTCC
Statistics
Matches: 122, Mismatches: 21, Indels: 32
0.70 0.12 0.18
Matches are distributed among these distances:
23 1 0.01
24 35 0.29
25 48 0.39
26 36 0.30
27 2 0.02
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (25 bp):
ATGGCTCTCATGAGCTTCTCGATTA
Found at i:34031581 original size:24 final size:24
Alignment explanation
Indices: 34031554--34031633 Score: 74
Period size: 24 Copynumber: 3.2 Consensus size: 24
34031544 GGCTCTCTTA
34031554 AGCTTCTTGTTTATGGCTCGTATG
1 AGCTTCTTGTTTATGGCTCGTATG
* * *
34031578 AGCTTCCTGATAATT-TGGCTC-TCTTA
1 AGCTTCTTG-T--TTATGGCTCGT-ATG
*
34031604 AGCTTCTCGTTTATGGCTCGTATG
1 AGCTTCTTGTTTATGGCTCGTATG
34031628 AGCTTC
1 AGCTTC
34031634 CTGATAATTT
Statistics
Matches: 43, Mismatches: 7, Indels: 12
0.69 0.11 0.19
Matches are distributed among these distances:
23 2 0.05
24 21 0.49
25 4 0.09
26 14 0.33
27 2 0.05
ACGTcount: A:0.15, C:0.21, G:0.21, T:0.42
Consensus pattern (24 bp):
AGCTTCTTGTTTATGGCTCGTATG
Found at i:34031598 original size:26 final size:26
Alignment explanation
Indices: 34031567--34031648 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
34031557 TTCTTGTTTA
34031567 TGGCTCGTATGAGCTTCCTGATAATT
1 TGGCTCGTATGAGCTTCCTGATAATT
* *
34031593 TGGCTC-TCTTAAGCTT-CTCG-T--TT
1 TGGCTCGT-ATGAGCTTCCT-GATAATT
34031616 ATGGCTCGTATGAGCTTCCTGATAATT
1 -TGGCTCGTATGAGCTTCCTGATAATT
34031643 TGGCTC
1 TGGCTC
34031649 TCCGGAGCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
23 2 0.05
24 13 0.30
25 8 0.18
26 19 0.43
27 2 0.05
ACGTcount: A:0.16, C:0.22, G:0.22, T:0.40
Consensus pattern (26 bp):
TGGCTCGTATGAGCTTCCTGATAATT
Found at i:34031607 original size:50 final size:50
Alignment explanation
Indices: 34031543--34031650 Score: 207
Period size: 50 Copynumber: 2.2 Consensus size: 50
34031533 TCTAGATTAA
*
34031543 TGGCTCTCTTAAGCTTCTTGTTTATGGCTCGTATGAGCTTCCTGATAATT
1 TGGCTCTCTTAAGCTTCTCGTTTATGGCTCGTATGAGCTTCCTGATAATT
34031593 TGGCTCTCTTAAGCTTCTCGTTTATGGCTCGTATGAGCTTCCTGATAATT
1 TGGCTCTCTTAAGCTTCTCGTTTATGGCTCGTATGAGCTTCCTGATAATT
34031643 TGGCTCTC
1 TGGCTCTC
34031651 CGGAGCTTTT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 57 1.00
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (50 bp):
TGGCTCTCTTAAGCTTCTCGTTTATGGCTCGTATGAGCTTCCTGATAATT
Found at i:34031804 original size:25 final size:25
Alignment explanation
Indices: 34031748--34031809 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 25
34031738 TTACGACTCT
*
34031748 TATGAGCTTCCCGTTATATAGCTCG
1 TATGAGCTTCCCGTTACATAGCTCG
* *
34031773 AAAGAGCTTCCCGTTTACAT-GCTCG
1 TATGAGCTTCCCG-TTACATAGCTCG
34031798 TATGAGCATTCC
1 TATGAGC-TTCC
34031810 TGAATATGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
25 21 0.70
26 9 0.30
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (25 bp):
TATGAGCTTCCCGTTACATAGCTCG
Found at i:34035629 original size:27 final size:26
Alignment explanation
Indices: 34035578--34035629 Score: 61
Period size: 29 Copynumber: 1.9 Consensus size: 26
34035568 TTGAACTTTG
*
34035578 TTCTTTTTTTTTTGTATTCTAGATTTC
1 TTCTTTTTTTTTTCTATTC-AGATTTC
34035605 TTCTTCTTATTTTTTCTATTC-GATT
1 TTCTT-TT-TTTTTTCTATTCAGATT
34035630 GCTTGTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
27 9 0.41
28 2 0.09
29 11 0.50
ACGTcount: A:0.12, C:0.13, G:0.06, T:0.69
Consensus pattern (26 bp):
TTCTTTTTTTTTTCTATTCAGATTTC
Found at i:34036842 original size:13 final size:13
Alignment explanation
Indices: 34036810--34036843 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
34036800 TCCTAATACT
34036810 AATATTA-TATTA
1 AATATTATTATTA
34036822 AA-ATTATTATTA
1 AATATTATTATTA
34036834 AATATTATTA
1 AATATTATTA
34036844 AGAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:34036854 original size:22 final size:22
Alignment explanation
Indices: 34036817--34036881 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 22
34036807 ACTAATATTA
34036817 TATTAAAATTATTATTAAATA-T
1 TATTAAAATTA-TATTAAATAGT
*
34036839 TATTAAGAATTATATTAAGAAAGT
1 TATTAA-AATTATATTAA-ATAGT
*
34036863 TATT-AAATTATATTTAATA
1 TATTAAAATTATATTAAATA
34036882 ATAATTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.05
22 22 0.59
23 8 0.22
24 5 0.14
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TATTAAAATTATATTAAATAGT
Found at i:34036859 original size:12 final size:12
Alignment explanation
Indices: 34036813--34036856 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
34036803 TAATACTAAT
34036813 ATTA-TATTAAA
1 ATTATTATTAAA
34036824 ATTATTATT-AA
1 ATTATTATTAAA
34036835 A-TATTATTAAGA
1 ATTATTATTAA-A
34036847 ATTA-TATTAA
1 ATTATTATTAA
34036857 GAAAGTTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 7 0.24
11 8 0.28
12 12 0.41
13 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:34039141 original size:29 final size:29
Alignment explanation
Indices: 34039109--34039174 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
34039099 ACCAAAAAAA
34039109 GCCGTTTTTTTCAAAATTTACCGAAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* * ** *
34039138 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
*
34039167 GCCATTTT
1 GCCGTTTT
34039175 CCGGGAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (29 bp):
GCCGTTTTTTTCAAAATTTACCGAAATGG
Found at i:34042194 original size:10 final size:10
Alignment explanation
Indices: 34042179--34042205 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
34042169 TAAAATTATC
34042179 AAATTATGTA
1 AAATTATGTA
34042189 AAATTATGTA
1 AAATTATGTA
34042199 AAATTAT
1 AAATTAT
34042206 TAAGCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (10 bp):
AAATTATGTA
Done.