Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 30 of 356
Found at i:10229668 original size:19 final size:19
Alignment explanation
Indices: 10229644--10229680 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10229634 TATTATTAAT
*
10229644 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
10229663 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
10229681 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:10229746 original size:16 final size:16
Alignment explanation
Indices: 10229715--10229751 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
10229705 ATGTGAATAA
10229715 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
10229731 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
10229747 TATTA
1 TATTA
10229752 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:10229796 original size:73 final size:74
Alignment explanation
Indices: 10229653--10229822 Score: 177
Period size: 73 Copynumber: 2.3 Consensus size: 74
10229643 TATATTTATA
* * *
10229653 ATTATAATAAATATTTATTATTAAAATATTAATATTGAATATTTTTAATAATATGTGAATAATAT
1 ATTATATTAAA-ATTTATTATTAAAATA-TAATATTGAATATTTTAAATAATATATGAATAATAT
*
10229718 TATTTAAAATT
64 AATTTAAAATT
* * *
10229729 ATTATTTTTAAAATTTATTATTAAAATA-AA-ATTGAA-ATATTTAAATAATTTATTAA-AATAA
1 ATTA-TATTAAAATTTATTATTAAAATATAATATTGAATAT-TTTAAATAATATATGAATAAT-A
* *
10229790 TAATTTATATTT
63 TAATTTAAAATT
10229802 ATTATATTAATAATTTATTAT
1 ATTATATTAA-AATTTATTAT
10229823 ACTACTAAAT
Statistics
Matches: 80, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
72 10 0.12
73 43 0.54
74 2 0.03
76 20 0.25
77 5 0.06
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (74 bp):
ATTATATTAAAATTTATTATTAAAATATAATATTGAATATTTTAAATAATATATGAATAATATAA
TTTAAAATT
Found at i:10229802 original size:22 final size:22
Alignment explanation
Indices: 10229776--10229819 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
10229766 TATTTAAATA
10229776 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
10229798 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
10229820 TATACTACTA
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:10234140 original size:29 final size:30
Alignment explanation
Indices: 10234081--10234138 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
10234071 TCCGAGCCTT
*
10234081 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
10234111 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
10234139 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:10234368 original size:13 final size:13
Alignment explanation
Indices: 10234350--10234381 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
10234340 TTTCCAGCAA
10234350 TTATGAATTTATT
1 TTATGAATTTATT
10234363 TTATGAATTTATT
1 TTATGAATTTATT
*
10234376 TGATGA
1 TTATGA
10234382 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:10234589 original size:50 final size:50
Alignment explanation
Indices: 10234476--10234717 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
10234466 ATTTGGGTAA
* * *
10234476 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
10234532 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10234582 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
10234632 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
10234682 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
10234718 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:10234665 original size:100 final size:103
Alignment explanation
Indices: 10234476--10234725 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
10234466 ATTTGGGTAA
10234476 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
10234541 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
10234582 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
10234644 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
10234682 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
10234726 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:10238953 original size:19 final size:18
Alignment explanation
Indices: 10238901--10238953 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
10238891 ATGATTAACC
*
10238901 AATTCAATAATATAAA-T
1 AATTCAATAATGTAAATT
*
10238918 AATACAA-AATGTGAAATTT
1 AATTCAATAATGT-AAA-TT
10238937 AATTCAATAATGTAAAT
1 AATTCAATAATGTAAAT
10238954 AGTAAACATA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.14
17 9 0.31
18 1 0.03
19 10 0.34
20 5 0.17
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.34
Consensus pattern (18 bp):
AATTCAATAATGTAAATT
Found at i:10240381 original size:18 final size:19
Alignment explanation
Indices: 10240342--10240384 Score: 54
Period size: 18 Copynumber: 2.3 Consensus size: 19
10240332 ATGGAAGTAA
10240342 TAAAATGTGAATAATAAAAT
1 TAAAATGT-AATAATAAAAT
10240362 TAAAATGT-ATAA-AAATAT
1 TAAAATGTAATAATAAA-AT
10240380 TAAAA
1 TAAAA
10240385 GAAAGTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 3 0.14
18 11 0.50
20 8 0.36
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (19 bp):
TAAAATGTAATAATAAAAT
Found at i:10243347 original size:26 final size:25
Alignment explanation
Indices: 10243318--10243399 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
10243308 CAATAGATTT
10243318 ATCTCGTACACTTAAATTTAGAATTG
1 ATCTC-TACACTTAAATTTAGAATTG
* * * *
10243344 ATCTCTTCAATCAAATATT--CATAT-
1 ATCTCTACACTTAAAT-TTAGAAT-TG
*
10243368 ATCTCATACACTTAAATTTAGAGTTG
1 ATCTC-TACACTTAAATTTAGAATTG
10243394 ATCTCT
1 ATCTCT
10243400 TTAATCGAAC
Statistics
Matches: 41, Mismatches: 9, Indels: 13
0.65 0.14 0.21
Matches are distributed among these distances:
24 9 0.22
25 19 0.46
26 13 0.32
ACGTcount: A:0.34, C:0.18, G:0.07, T:0.40
Consensus pattern (25 bp):
ATCTCTACACTTAAATTTAGAATTG
Found at i:10246031 original size:21 final size:20
Alignment explanation
Indices: 10245998--10246036 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
10245988 AACTTTTCAC
*
10245998 AATTTAGTGTGAATAAAATTT
1 AATTTAATGTGAA-AAAATTT
*
10246019 AATTTAATTTGAAAAAAT
1 AATTTAATGTGAAAAAAT
10246037 ATTTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
AATTTAATGTGAAAAAATTT
Found at i:10246209 original size:20 final size:19
Alignment explanation
Indices: 10246186--10246231 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
10246176 CAAACTTAAC
*
10246186 AAAAATTAAAAATAATTTTT
1 AAAAATTAAAAAT-ATTTAT
**
10246206 AAAAATTCTAAATATTTAT
1 AAAAATTAAAAATATTTAT
10246225 AAAAATT
1 AAAAATT
10246232 TTAATTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTAAAAATATTTAT
Found at i:10246222 original size:19 final size:18
Alignment explanation
Indices: 10246195--10246245 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
10246185 CAAAAATTAA
10246195 AAATAATTTTTAAAAATTCT
1 AAAT-ATTTTTAAAAATT-T
*
10246215 AAATATTTATAAAAATTT
1 AAATATTTTTAAAAATTT
* *
10246233 TAATTTTTTTAAA
1 AAATATTTTTAAA
10246246 TATAATAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 11 0.41
19 12 0.44
20 4 0.15
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (18 bp):
AAATATTTTTAAAAATTT
Found at i:10261862 original size:19 final size:19
Alignment explanation
Indices: 10261838--10261877 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10261828 TACCTCACAG
*
10261838 CCCAATAGCTAAACCCAGA
1 CCCAATAACTAAACCCAGA
* *
10261857 CCCAATAATTAAACCTAGA
1 CCCAATAACTAAACCCAGA
10261876 CC
1 CC
10261878 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.35, G:0.07, T:0.15
Consensus pattern (19 bp):
CCCAATAACTAAACCCAGA
Found at i:10263471 original size:6 final size:6
Alignment explanation
Indices: 10263460--10263489 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
10263450 GATTTTATTT
10263460 ATATAC ATATAC ATTATAC ATATAC ATATA
1 ATATAC ATATAC A-TATAC ATATAC ATATA
10263490 TTTTTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (6 bp):
ATATAC
Found at i:10263479 original size:13 final size:13
Alignment explanation
Indices: 10263461--10263486 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10263451 ATTTTATTTA
10263461 TATACATATACAT
1 TATACATATACAT
10263474 TATACATATACAT
1 TATACATATACAT
10263487 ATATTTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (13 bp):
TATACATATACAT
Found at i:10264699 original size:132 final size:130
Alignment explanation
Indices: 10264454--10264823 Score: 483
Period size: 132 Copynumber: 2.8 Consensus size: 130
10264444 AAGTATTCGT
*
10264454 TTAAGAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGTGAAATAGTGCCCTAACG
1 TTAA-AATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGTG-AATCGTGCCCTAACG
* *
10264519 TGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATTGAATATCCCTTCAAAATTTCACTCACGCC
64 TGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACGCC
10264584 T-
129 TA
* * * * *
10264585 TTCAAAAATTCTTTAAAACGAAGTCGAGATTTGATGTTTGGCAATTCGCAGAAGCGTGCCCTAAC
1 TT--AAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCG-TGAATCGTGCCCTAAC
* * *
10264650 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGT
63 GTGTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACGC
10264715 CTA
128 CTA
** * * *
10264718 TTAAAA-TCCCTAAAACGAAGGCGATATGCGATATTTGGCAATTCGTTGAATCGTGCCCTAACGT
1 TTAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCG-TGAATCGTGCCCTAACGT
* * * * *
10264782 GTTGGGTTGCAATTTCCCATTTGTTTAAAATAATCAAATATC
65 GTTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATC
10264824 CCACAGGTCT
Statistics
Matches: 209, Mismatches: 26, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
130 85 0.41
131 6 0.03
132 113 0.54
133 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (130 bp):
TTAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGTGAATCGTGCCCTAACGTG
TTGGGTTGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCACTCACGCCTA
Found at i:10267584 original size:11 final size:11
Alignment explanation
Indices: 10267563--10267592 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
10267553 TACTCAAGTT
10267563 AGCTA-AATCG
1 AGCTACAATCG
10267573 AGCTACAATCG
1 AGCTACAATCG
10267584 AGCTACAAT
1 AGCTACAAT
10267593 GATCTCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (11 bp):
AGCTACAATCG
Found at i:10280113 original size:11 final size:11
Alignment explanation
Indices: 10280097--10280121 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10280087 CACCATGGAA
10280097 TTTTCAATTAT
1 TTTTCAATTAT
10280108 TTTTCAATTAT
1 TTTTCAATTAT
10280119 TTT
1 TTT
10280122 CTAACTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTCAATTAT
Found at i:10280246 original size:17 final size:17
Alignment explanation
Indices: 10280221--10280254 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10280211 TGGGTTCCAA
*
10280221 AGTAAATTTCTAAATTT
1 AGTAAATTTCAAAATTT
*
10280238 AGTACATTTCAAAATTT
1 AGTAAATTTCAAAATTT
10280255 TATAGAACCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (17 bp):
AGTAAATTTCAAAATTT
Found at i:10281004 original size:15 final size:15
Alignment explanation
Indices: 10280986--10281021 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10280976 ATGCATATGC
10280986 ATATCATATATATAT
1 ATATCATATATATAT
*
10281001 ATATCATATATTTAT
1 ATATCATATATATAT
*
10281016 GTATCA
1 ATATCA
10281022 ATCATAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (15 bp):
ATATCATATATATAT
Found at i:10283686 original size:21 final size:21
Alignment explanation
Indices: 10283660--10283714 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 21
10283650 TTAAACTAAA
10283660 TTAA-TTTATTT-TTTTATAATT
1 TTAATTTTATTTATTTT-TAA-T
*
10283681 TTAATTTTATTTATTTTTTAT
1 TTAATTTTATTTATTTTTAAT
10283702 TTAATTTTATTTA
1 TTAATTTTATTTA
10283715 AAAGTATCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 18 0.58
22 9 0.29
23 4 0.13
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (21 bp):
TTAATTTTATTTATTTTTAAT
Found at i:10283693 original size:10 final size:10
Alignment explanation
Indices: 10283680--10283715 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
10283670 TTTTTATAAT
10283680 TTTAATTTTA
1 TTTAATTTTA
*
10283690 TTTATTTTTTA
1 TTTA-ATTTTA
10283701 TTTAATTTTA
1 TTTAATTTTA
10283711 TTTAA
1 TTTAA
10283716 AAGTATCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTAATTTTA
Found at i:10288726 original size:10 final size:9
Alignment explanation
Indices: 10288705--10288752 Score: 51
Period size: 9 Copynumber: 4.9 Consensus size: 9
10288695 AATATAAATT
10288705 AAAAATTTA
1 AAAAATTTA
10288714 AAAAATTTA
1 AAAAATTTA
10288723 AAAAATTAAATA
1 AAAAATT---TA
*
10288735 AAGAATTTA
1 AAAAATTTA
10288744 AAATAATTT
1 AAA-AATTT
10288753 TTTTATAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
9 20 0.61
10 5 0.15
12 8 0.24
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTTA
Found at i:10288733 original size:30 final size:32
Alignment explanation
Indices: 10288691--10288752 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
10288681 GTGTTTGACA
10288691 AAAAAATATAAATTAAA-AATTTAAAA-AATTT
1 AAAAAATATAAA-TAAAGAATTTAAAATAATTT
10288722 AAAAAAT-TAAATAAAGAATTTAAAATAATTT
1 AAAAAATATAAATAAAGAATTTAAAATAATTT
10288753 TTTTATAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
29 4 0.14
30 13 0.45
31 12 0.41
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (32 bp):
AAAAAATATAAATAAAGAATTTAAAATAATTT
Found at i:10294044 original size:13 final size:13
Alignment explanation
Indices: 10294026--10294051 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10294016 TGCAATAGAT
10294026 TAGAGTAGAGTAG
1 TAGAGTAGAGTAG
10294039 TAGAGTAGAGTAG
1 TAGAGTAGAGTAG
10294052 AGATAGCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.38, T:0.23
Consensus pattern (13 bp):
TAGAGTAGAGTAG
Found at i:10296411 original size:21 final size:20
Alignment explanation
Indices: 10296385--10296427 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10296375 TTTTATATTA
*
10296385 TTTAATTTAATTGTTTTCATT
1 TTTAA-TTAATTGTTATCATT
*
10296406 TTTAATTCATTGTTATCATT
1 TTTAATTAATTGTTATCATT
10296426 TT
1 TT
10296428 AGACTCGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (20 bp):
TTTAATTAATTGTTATCATT
Found at i:10298692 original size:29 final size:29
Alignment explanation
Indices: 10298624--10298685 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 29
10298614 TTATTCTCGC
* * *
10298624 ATATAT-TTTTTTCTAAATTTATTTATGT
1 ATATATATGTTTTCTAAATCTATTTATAT
10298652 ATATATATGTTTT-TAAATCTA-TTATAT
1 ATATATATGTTTTCTAAATCTATTTATAT
10298679 ATATATA
1 ATATATA
10298686 AGTGTTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 12 0.40
28 13 0.43
29 5 0.17
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (29 bp):
ATATATATGTTTTCTAAATCTATTTATAT
Found at i:10300051 original size:127 final size:128
Alignment explanation
Indices: 10299737--10300066 Score: 403
Period size: 128 Copynumber: 2.6 Consensus size: 128
10299727 AAAAATTCCT
* * * *
10299737 TAAAACGAAAGCAATGTTTGATGTTTGAAAATTCGAGAAATCGTGCCCTATCGTGCTGGGTTTCG
1 TAAAAC-AAGGCAATGTTTGATGTTTGGAAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTTCG
* * * * * * * *
10299802 ATTTCCCATTTGTTCAAAATAATCGAACCTTCCTTTAGAATTTCACTCGTGTTTTTCTAAATTT
65 ATTTCTCGTTTATTCAAAATAATCAAACATTCCTTTAGAATTTCACTCGTATTCTTCTAAATTC
* ** * *
10299866 TAAAACAAGGCAATGTTTGATGCTTGGAAATT-TGGAGAACCGTGCCCTATCATGCTGGGTTTCG
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCAAG-GAATCGTGCCCTATCGTGCTGGGTTTCG
* *
10299930 ATTTCTCGTTTATTCAAAATAATCAAATATTCCTTTAGAATTTCATTCGTATTCTT-TAAATTC
65 ATTTCTCGTTTATTCAAAATAATCAAACATTCCTTTAGAATTTCACTCGTATTCTTCTAAATTC
** * * *
10299993 TAAAACAAGGCAATGTTCAATGTTTGGAAGTTCAAGGAATCGTGCCCTACCGTGCTGGGTTTTGA
1 TAAAACAAGGCAATGTTTGATGTTTGGAAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
*
10300058 TTTTTCGTT
66 TTTCTCGTT
10300067 GGACTAAATG
Statistics
Matches: 170, Mismatches: 29, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
127 68 0.40
128 96 0.56
129 6 0.04
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.38
Consensus pattern (128 bp):
TAAAACAAGGCAATGTTTGATGTTTGGAAATTCAAGGAATCGTGCCCTATCGTGCTGGGTTTCGA
TTTCTCGTTTATTCAAAATAATCAAACATTCCTTTAGAATTTCACTCGTATTCTTCTAAATTC
Found at i:10300915 original size:28 final size:28
Alignment explanation
Indices: 10300857--10300915 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
10300847 AGATGGAATG
* *
10300857 ATTATTTAACTAGTAGACGAAGTATAAA
1 ATTATTTAACTAATAAACGAAGTATAAA
10300885 ATTATTTAACTACATAAAC-AA-TATAATA
1 ATTATTTAACTA-ATAAACGAAGTATAA-A
10300913 ATT
1 ATT
10300916 TTTCCTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.19
28 18 0.67
29 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (28 bp):
ATTATTTAACTAATAAACGAAGTATAAA
Found at i:10304775 original size:26 final size:26
Alignment explanation
Indices: 10304746--10304798 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
10304736 TTTACAGTTT
10304746 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
10304772 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
10304798 T
1 T
10304799 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:10306216 original size:36 final size:36
Alignment explanation
Indices: 10306152--10306230 Score: 142
Period size: 35 Copynumber: 2.2 Consensus size: 36
10306142 GTCCTTATAT
10306152 TTTTTTTCGTTTTGAGTAATTTAATTTTTTC-TTTA
1 TTTTTTTCGTTTTGAGTAATTTAATTTTTTCTTTTA
10306187 TTTTTTTCGTTTTGAGTAATTTAATTTTTTCTTTTA
1 TTTTTTTCGTTTTGAGTAATTTAATTTTTTCTTTTA
10306223 TGTTTTTT
1 T-TTTTTT
10306231 AACTTTTTTT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
35 31 0.74
36 5 0.12
37 6 0.14
ACGTcount: A:0.15, C:0.05, G:0.09, T:0.71
Consensus pattern (36 bp):
TTTTTTTCGTTTTGAGTAATTTAATTTTTTCTTTTA
Found at i:10307413 original size:123 final size:125
Alignment explanation
Indices: 10307252--10307477 Score: 368
Period size: 124 Copynumber: 1.8 Consensus size: 125
10307242 GTTTACCAAA
10307252 ATATTTAATATTATAACTCTTTGCCGGTGATAAAGATTCCATACATGTTT-TTTATATTAAAACA
1 ATATTTAATATTATAACTCTTTGCCGGTGATAAAGATTCCATACATGTTTATTT-TATTAAAACA
* *
10307316 TA-AATTTAATAAATAAATATGTAAAATGTTAAAATCATATGTTTGTTTTAATCTAAAAAT
65 TATAATTTAAAAAATAAATATATAAAATGTTAAAATCATATGTTTGTTTTAATCTAAAAAT
**
10307376 ATATTTAATATTATAACTCTTTG-TTGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
1 ATATTTAATATTATAACTCTTTGCCGGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
**
10307440 ATGTTTTAAAAAATAAATATATAAAATGTTAAAATCAT
66 ATAATTTAAAAAATAAATATATAAAATGTTAAAATCAT
10307478 TTTATTACCT
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
123 36 0.38
124 58 0.62
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (125 bp):
ATATTTAATATTATAACTCTTTGCCGGTGATAAAGATTCCATACATGTTTATTTTATTAAAACAT
ATAATTTAAAAAATAAATATATAAAATGTTAAAATCATATGTTTGTTTTAATCTAAAAAT
Found at i:10307930 original size:26 final size:26
Alignment explanation
Indices: 10307882--10307932 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
10307872 AACCAAATAA
*
10307882 CAATAGTATTAATTAAAAATAAATTC
1 CAATAGTATTAAATAAAAATAAATTC
* * *
10307908 CAATTGTATTAAATATAATTAAATT
1 CAATAGTATTAAATAAAAATAAATT
10307933 TAAGTTTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (26 bp):
CAATAGTATTAAATAAAAATAAATTC
Found at i:10308468 original size:77 final size:77
Alignment explanation
Indices: 10308337--10308491 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 77
10308327 CCTATCATTC
* * * *
10308337 ATCTTAAAAATAATTTCGATATTCCTCCTGAAATATTGTTCATTCTTCCGCCTTTATACTTTGTT
1 ATCTTAAAAATAATTTCGATATTCCTCCTCAAATATTGTTCATTCTTCCACCTTTAAACTCTGTT
10308402 TCATACTTGTGG
66 TCATACTTGTGG
* * *
10308414 ATCTTCAAAATAATTTTGATATTGCTCCTCAAATATTGTTCATTCTTCCACCTTTAAACTCTGTT
1 ATCTTAAAAATAATTTCGATATTCCTCCTCAAATATTGTTCATTCTTCCACCTTTAAACTCTGTT
10308479 TCATACTTGTGG
66 TCATACTTGTGG
10308491 A
1 A
10308492 GTTGCGTGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
77 71 1.00
ACGTcount: A:0.26, C:0.20, G:0.10, T:0.45
Consensus pattern (77 bp):
ATCTTAAAAATAATTTCGATATTCCTCCTCAAATATTGTTCATTCTTCCACCTTTAAACTCTGTT
TCATACTTGTGG
Found at i:10324970 original size:13 final size:14
Alignment explanation
Indices: 10324954--10324989 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10324944 CAATCTCATA
10324954 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
10324967 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
10324980 TCTC-ATTTCA
1 TCTCAATTTCA
10324990 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:10324979 original size:18 final size:19
Alignment explanation
Indices: 10324941--10324981 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
10324931 TGGTTCATGT
10324941 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
10324960 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
10324978 TTTC
1 TTTC
10324982 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:10325504 original size:18 final size:19
Alignment explanation
Indices: 10325478--10325516 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
10325468 TTTCAATTCA
10325478 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
*
10325497 ATTC-AATATTCAATATAT
1 ATTCAAATAATCAATATAT
10325515 AT
1 AT
10325517 ATCTATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:10326848 original size:5 final size:5
Alignment explanation
Indices: 10326838--10326890 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
10326828 TTACTTATTT
* *
10326838 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
10326886 ATATA
1 ATATA
10326891 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:10326854 original size:12 final size:12
Alignment explanation
Indices: 10326837--10326892 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
10326827 TTTACTTATT
10326837 TATATAATATAA
1 TATATAATATAA
10326849 TATATAATATAATA
1 TATATAATAT-A-A
10326863 TACTATAATATAA
1 TA-TATAATATAA
*
10326876 TA-ATAATTTAA
1 TATATAATATAA
10326887 TATATA
1 TATATA
10326893 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:10327233 original size:27 final size:27
Alignment explanation
Indices: 10327195--10327247 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
10327185 TCGTTACAAG
*
10327195 TTGTGCCTATCTCAGAGGTGCAAATGA
1 TTGTGCCTATCTCAGAGGCGCAAATGA
10327222 TTGTGCCTATCTCAGAGGCGCAAATG
1 TTGTGCCTATCTCAGAGGCGCAAATG
10327248 GTAGGGCCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (27 bp):
TTGTGCCTATCTCAGAGGCGCAAATGA
Found at i:10330759 original size:33 final size:33
Alignment explanation
Indices: 10330717--10330797 Score: 108
Period size: 33 Copynumber: 2.5 Consensus size: 33
10330707 GCTTGAGCCA
* * *
10330717 GGAGGAGTGGAGTACGGCGATTGATACGGGTCG
1 GGAGGAGTGGAGTACGACAATTGATACGGGCCG
*
10330750 GGAGGAGTGGAGTACGACAATTGATACTGGCCG
1 GGAGGAGTGGAGTACGACAATTGATACGGGCCG
* *
10330783 GAAGGAGCGGAGTAC
1 GGAGGAGTGGAGTAC
10330798 TGAGGTAGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.14, G:0.44, T:0.16
Consensus pattern (33 bp):
GGAGGAGTGGAGTACGACAATTGATACGGGCCG
Found at i:10333446 original size:60 final size:62
Alignment explanation
Indices: 10333362--10333494 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 62
10333352 ATACTAAACT
* * * * *
10333362 AAACAC-AACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTA-C
1 AAACACAAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTATA
*
10333422 AAACACAAAAAATTT-TAACATAATCCTAAATTACAAACAAATTATTTTTAAAATAATTATA
1 AAACACAAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTATA
*
10333483 AAAAACAAAAAA
1 AAACACAAAAAA
10333495 AATTACATTC
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
60 46 0.72
61 18 0.28
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (62 bp):
AAACACAAAAAATTTATAACATAATCCTAAATTACAAACAAATTAATTTTAAAATAATTATA
Found at i:10333655 original size:19 final size:19
Alignment explanation
Indices: 10333611--10333658 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
10333601 CTTTTTTCAT
10333611 TCTTCTTCTTCTCTCCTTCC
1 TCTT-TTCTTCTCTCCTTCC
* *
10333631 TTTTTTCTTCTC-CTTTCTC
1 TCTTTTCTTCTCTCCTTC-C
10333650 TCTTTTCTT
1 TCTTTTCTT
10333659 TCCCTCTTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 17 0.71
20 3 0.12
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (19 bp):
TCTTTTCTTCTCTCCTTCC
Found at i:10333822 original size:31 final size:31
Alignment explanation
Indices: 10333779--10333887 Score: 121
Period size: 32 Copynumber: 3.5 Consensus size: 31
10333769 GCTGAGTAGG
10333779 GGGCATGCATGCAGGCTGCAAGAGGACTGTTC
1 GGGCA-GCATGCAGGCTGCAAGAGGACTGTTC
* * * * *
10333811 GGGCAGTATGCAGG-TGCAGGGAGAACTATTT
1 GGGCAGCATGCAGGCTGCA-AGAGGACTGTTC
* *
10333842 GGGAAGCAGGCAGGCTGCAAGGAGGACTGTTC
1 GGGCAGCATGCAGGCTGCAA-GAGGACTGTTC
10333874 GGGCAGCATGCAGG
1 GGGCAGCATGCAGG
10333888 GCAGGTCATT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
30 4 0.07
31 27 0.45
32 29 0.48
ACGTcount: A:0.24, C:0.18, G:0.41, T:0.17
Consensus pattern (31 bp):
GGGCAGCATGCAGGCTGCAAGAGGACTGTTC
Found at i:10339483 original size:48 final size:48
Alignment explanation
Indices: 10339329--10339476 Score: 224
Period size: 48 Copynumber: 3.1 Consensus size: 48
10339319 ATATATACAC
* * **
10339329 ATCTCATACATATTTCACATTAACCATTTGGCTTTACCACATATGCAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
** *
10339377 GGCTCATACATATTTCACATTAGCCTTTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
*
10339425 ATCTCATACATATTTTACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
10339473 ATCT
1 ATCT
10339477 TGTACATCAA
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 89 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATAT
Found at i:10340791 original size:26 final size:27
Alignment explanation
Indices: 10340746--10340798 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
10340736 TTAAATTCTG
* *
10340746 GCATGCATTCGGACACTTAAAAATTCA
1 GCATACATTCGAACACTTAAAAATTCA
*
10340773 GCATACATTCGAACA-TTAAAATTTCA
1 GCATACATTCGAACACTTAAAAATTCA
10340799 CTAGCTGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.28
Consensus pattern (27 bp):
GCATACATTCGAACACTTAAAAATTCA
Found at i:10341132 original size:21 final size:23
Alignment explanation
Indices: 10341099--10341141 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
10341089 ACCAGGATTT
10341099 ATTACACGAT-AAACTA-CAGCA
1 ATTACACGATAAAACTATCAGCA
* *
10341120 ATTACATGCTAAAACTATCAGC
1 ATTACACGATAAAACTATCAGC
10341142 CTTCAACAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.44
22 6 0.33
23 4 0.22
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.23
Consensus pattern (23 bp):
ATTACACGATAAAACTATCAGCA
Found at i:10342457 original size:47 final size:46
Alignment explanation
Indices: 10342343--10342516 Score: 137
Period size: 46 Copynumber: 3.7 Consensus size: 46
10342333 GCATATCTGT
* * **
10342343 GCCGATGCCATGTCCTAGACATGGTCTTACACT-G-ACACATC-TTGTA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCAC-CCTCATAATA
* *
10342389 GTCGATGCATGTCCTAGACATGTCTTACACTAGCACCCGTC-TCAATA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACCC-TCAT-AATA
* * *
10342436 -CCTATGCCATGTCCCAAACATGGTCTTACACT-G-ACTCTCATAATA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCACCCTCATAATA
10342481 TGGCCGATGCATGTCCCAGACATGTCTTACACTAGC
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGC
10342517 TCACAATAGC
Statistics
Matches: 105, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
44 10 0.10
45 22 0.21
46 29 0.28
47 29 0.28
48 15 0.14
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACCCTCATAATA
Found at i:10342458 original size:92 final size:93
Alignment explanation
Indices: 10342347--10342516 Score: 245
Period size: 94 Copynumber: 1.8 Consensus size: 93
10342337 ATCTGTGCCG
* * * * *
10342347 ATGCCATGTCCTAGACATGGTCTTACACTGACACATC-T-TGTAGTCGATGCATGTCCTAGACAT
1 ATGCCATGTCCCAAACATGGTCTTACACTGACAC-TCATATATAGCCGATGCATGTCCCAGACAT
10342410 GTCTTACACTAGCACCCGTCTCAATACCT
65 GTCTTACACTAGCACCCGTCTCAATACCT
* *
10342439 ATGCCATGTCCCAAACATGGTCTTACACTGACTCTCATAATATGGCCGATGCATGTCCCAGACAT
1 ATGCCATGTCCCAAACATGGTCTTACACTGACACTCAT-ATATAGCCGATGCATGTCCCAGACAT
10342504 GTCTTACACTAGC
65 GTCTTACACTAGC
10342517 TCACAATAGC
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
91 2 0.03
92 32 0.47
94 34 0.50
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.28
Consensus pattern (93 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGACACTCATATATAGCCGATGCATGTCCCAGACATG
TCTTACACTAGCACCCGTCTCAATACCT
Found at i:10345800 original size:43 final size:43
Alignment explanation
Indices: 10345720--10346106 Score: 517
Period size: 43 Copynumber: 9.0 Consensus size: 43
10345710 ATATCGTACA
* * ** * *
10345720 ATGCCAACGTCCCAGACATGGTTTTACATGTAGTCACAAATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* * *
10345763 ATGCC-ACTGTCCCAAACAG-GGTCTTATACATTATCACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACATAATCACATATCG
*
10345806 ATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* *
10345849 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* ** *
10345892 ATGCCAACGTCCTAGATATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
*
10345935 ATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* * **
10345978 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
*
10346021 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
* * *
10346064 ATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
10346107 TTTTAACCAT
Statistics
Matches: 307, Mismatches: 33, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
42 3 0.01
43 302 0.98
44 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAATCACATATCG
Found at i:10345944 original size:22 final size:22
Alignment explanation
Indices: 10345876--10345944 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
10345866 GTGGTCTTAC
10345876 ACGTAATCACATATCGATGCCA
1 ACGTAATCACATATCGATGCCA
** * * *
10345898 ACGTCCT-AGATAT-GGT-CTTA
1 ACGTAATCACATATCGATGC-CA
10345918 CACGTAATCACATATCGATGCCA
1 -ACGTAATCACATATCGATGCCA
10345941 ACGT
1 ACGT
10345945 CCCAGACGTG
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 1 0.03
20 3 0.09
21 10 0.31
22 14 0.44
23 3 0.09
24 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (22 bp):
ACGTAATCACATATCGATGCCA
Found at i:10345950 original size:129 final size:129
Alignment explanation
Indices: 10345720--10346106 Score: 587
Period size: 129 Copynumber: 3.0 Consensus size: 129
10345710 ATATCGTACA
* * * * * * *
10345720 ATGCCAACGTCCCAGACATGGTTTTACATGTAGTCACAAATCGATGCC-ACTGTCCCAAACAGGG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAAC-GTCCCAGATATGG
* * *
10345784 TCTTATACATTATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACATAATCACATATCG
65 TCTTACACATAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
10345849 ATGCCAACGTCCCAGATGTGGTCTTACACGTAATCACATATCGATGCCAACGTCCTAGATATGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGATATGGT
* *
10345914 CTTACACGTAATCACATATCGATGCCAACGTCCCAGACGTGGTCTTACACGTAATCACATATCG
66 CTTACACATAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
* * *
10345978 ATGCCAACATCCCAAACGTGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGATGTGGT
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGATATGGT
*
10346043 CTTACACATAATCACATATCGATGCCAACATCCCAGACATGGTCTTACACGTAATCACATATCG
66 CTTACACATAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
10346107 TTTTAACCAT
Statistics
Matches: 233, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
129 231 0.99
130 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.25
Consensus pattern (129 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATGCCAACGTCCCAGATATGGT
CTTACACATAATCACATATCGATGCCAACATCCCAGACGTGGTCTTACACGTAATCACATATCG
Found at i:10347773 original size:30 final size:30
Alignment explanation
Indices: 10347738--10347804 Score: 125
Period size: 30 Copynumber: 2.2 Consensus size: 30
10347728 ACCCCAGGGG
10347738 ACACACGACTGTGTAACATAGCCGTGTGTC
1 ACACACGACTGTGTAACATAGCCGTGTGTC
*
10347768 ACACACGACTGTGTAACATAGCCGTGTGTG
1 ACACACGACTGTGTAACATAGCCGTGTGTC
10347798 ACACACG
1 ACACACG
10347805 GCTGAGTCAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (30 bp):
ACACACGACTGTGTAACATAGCCGTGTGTC
Found at i:10347780 original size:15 final size:15
Alignment explanation
Indices: 10347738--10347785 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
10347728 ACCCCAGGGG
10347738 ACACACGACTGTGTA
1 ACACACGACTGTGTA
* * *
10347753 ACATA-GCCGTGTGTC
1 ACACACGAC-TGTGTA
10347768 ACACACGACTGTGTA
1 ACACACGACTGTGTA
10347783 ACA
1 ACA
10347786 TAGCCGTGTG
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 2 0.08
15 21 0.84
16 2 0.08
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (15 bp):
ACACACGACTGTGTA
Found at i:10347795 original size:15 final size:15
Alignment explanation
Indices: 10347747--10347796 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
10347737 GACACACGAC
10347747 TGTGTAACATAGCCG
1 TGTGTAACATAGCCG
* * *
10347762 TGTGTCACACACGAC-
1 TGTGTAACATA-GCCG
10347777 TGTGTAACATAGCCG
1 TGTGTAACATAGCCG
10347792 TGTGT
1 TGTGT
10347797 GACACACGGC
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (15 bp):
TGTGTAACATAGCCG
Found at i:10350051 original size:26 final size:25
Alignment explanation
Indices: 10350022--10350122 Score: 86
Period size: 23 Copynumber: 4.2 Consensus size: 25
10350012 CAGATTGTAT
10350022 GAGCTTACCGATATATCAGCTCGTAA
1 GAGCTTACCGAT-TATCAGCTCGTAA
* * *
10350048 GAGCTTA-CTATTCTCAGCTCGTAT
1 GAGCTTACCGATTATCAGCTCGTAA
* * *
10350072 GAGCTTA-CTATT-TCAGCTCATTA
1 GAGCTTACCGATTATCAGCTCGTAA
* *
10350095 GAGCTTACTG-TT-TCAGCTCGTTA
1 GAGCTTACCGATTATCAGCTCGTAA
10350118 GAGCT
1 GAGCT
10350123 AACTGTCCAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
23 32 0.49
24 23 0.35
25 3 0.05
26 7 0.11
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (25 bp):
GAGCTTACCGATTATCAGCTCGTAA
Found at i:10350128 original size:23 final size:23
Alignment explanation
Indices: 10350037--10350122 Score: 120
Period size: 23 Copynumber: 3.7 Consensus size: 23
10350027 TACCGATATA
*
10350037 TCAGCTCGTAAGAGCTTACTATT
1 TCAGCTCGTTAGAGCTTACTATT
10350060 CTCAGCTCG-TATGAGCTTACTATT
1 -TCAGCTCGTTA-GAGCTTACTATT
* *
10350084 TCAGCTCATTAGAGCTTACTGTT
1 TCAGCTCGTTAGAGCTTACTATT
10350107 TCAGCTCGTTAGAGCT
1 TCAGCTCGTTAGAGCT
10350123 AACTGTCCAT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
23 34 0.61
24 22 0.39
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.36
Consensus pattern (23 bp):
TCAGCTCGTTAGAGCTTACTATT
Found at i:10353724 original size:17 final size:17
Alignment explanation
Indices: 10353704--10353737 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10353694 AATAAATTAT
*
10353704 AAATGAATAAAAATATA
1 AAATAAATAAAAATATA
*
10353721 AAATAAATACAAATATA
1 AAATAAATAAAAATATA
10353738 CCTTAATAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (17 bp):
AAATAAATAAAAATATA
Found at i:10354155 original size:27 final size:27
Alignment explanation
Indices: 10354117--10354182 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
10354107 CTGCAAAGTG
*
10354117 GGTGCCGTCTCTAACAGCCCCTCCACC
1 GGTGCCGCCTCTAACAGCCCCTCCACC
* **
10354144 GGTGCCGCCTCTGACATTCCCTCCACC
1 GGTGCCGCCTCTAACAGCCCCTCCACC
10354171 GGTGCCGCCTCT
1 GGTGCCGCCTCT
10354183 TTTCTAGGCG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.11, C:0.47, G:0.21, T:0.21
Consensus pattern (27 bp):
GGTGCCGCCTCTAACAGCCCCTCCACC
Found at i:10358214 original size:21 final size:21
Alignment explanation
Indices: 10358160--10358203 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
10358150 TATTAATTGC
10358160 TTAAAAATTTAAAATTTATAT
1 TTAAAAATTTAAAATTTATAT
10358181 TTAAAAATTTAAAATTTATAT
1 TTAAAAATTTAAAATTTATAT
10358202 TT
1 TT
10358204 CATATATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAAATTTAAAATTTATAT
Found at i:10364084 original size:24 final size:24
Alignment explanation
Indices: 10364047--10364093 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10364037 AACATGGACC
* *
10364047 GATTCTATGTTGATATAATGAATT
1 GATTCGATGCTGATATAATGAATT
*
10364071 GATTCGATGCTGATATAGTGAAT
1 GATTCGATGCTGATATAATGAAT
10364094 AGTTGATATT
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:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (24 bp):
GATTCGATGCTGATATAATGAATT
Found at i:10368271 original size:19 final size:19
Alignment explanation
Indices: 10368249--10368310 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
10368239 AAATAGAAGA
10368249 AAACTAAAATATTATATAG
1 AAACTAAAATATTATATAG
*
10368268 AAACTTTAAAA-A-TAGA-AG
1 AAAC--TAAAATATTATATAG
10368286 AAAACTAAAATATTATATAG
1 -AAACTAAAATATTATATAG
10368306 AAACT
1 AAACT
10368311 TTAACAAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
17 5 0.14
18 3 0.09
19 19 0.54
20 3 0.09
21 5 0.14
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (19 bp):
AAACTAAAATATTATATAG
Found at i:10368288 original size:38 final size:38
Alignment explanation
Indices: 10368237--10368314 Score: 156
Period size: 38 Copynumber: 2.1 Consensus size: 38
10368227 TTTTTACCAA
10368237 AAAAATAGAAGAAAACTAAAATATTATATAGAAACTTT
1 AAAAATAGAAGAAAACTAAAATATTATATAGAAACTTT
10368275 AAAAATAGAAGAAAACTAAAATATTATATAGAAACTTT
1 AAAAATAGAAGAAAACTAAAATATTATATAGAAACTTT
10368313 AA
1 AA
10368315 CAAGACCAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.62, C:0.05, G:0.08, T:0.26
Consensus pattern (38 bp):
AAAAATAGAAGAAAACTAAAATATTATATAGAAACTTT
Found at i:10375846 original size:21 final size:21
Alignment explanation
Indices: 10375820--10375860 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10375810 ATCTGCTCAA
* *
10375820 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
10375841 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
10375861 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:10387008 original size:74 final size:73
Alignment explanation
Indices: 10386912--10387132 Score: 193
Period size: 74 Copynumber: 3.1 Consensus size: 73
10386902 TGCGAAAGAG
* * *
10386912 TTTGTGCCCAGCGCTAGTCGGATAAACCGACGAATAATTAGTGAGCCTAGCTCTAGTTGGATAAA
1 TTTGTGCCTAACGATAGTCGGATAAACCGACGAATAATTAGTGAGCC-AGCTCTAGTTGGATAAA
10386977 CTAACAATA
65 CTAACAATA
** * * * * * * **
10386986 TTTGTGCCTAACTCTTGTCGGATAAACCGATGAAT--GTA-TG-CCCAACACTAGTCAGAT-AAC
1 TTTGTGCCTAACGATAGTCGGATAAACCGACGAATAATTAGTGAGCCAGCTCTAGTTGGATAAAC
*
10387046 TGACGAA-A
66 TAAC-AATA
* * *
10387054 GTTGTGCCTAGCGATAGTCGGATAAACCAACGAATAATTTAGTGAGTCCAGCTCTAGTTGGATAA
1 TTTGTGCCTAACGATAGTCGGATAAACCGACGAATAA-TTAGTGAG-CCAGCTCTAGTTGGATAA
* *
10387119 ACCAACGATA
64 ACTAACAATA
10387129 TTTG
1 TTTG
10387133 CGCCCAGTGC
Statistics
Matches: 109, Mismatches: 29, Indels: 17
0.70 0.19 0.11
Matches are distributed among these distances:
68 35 0.32
69 12 0.11
70 2 0.02
71 4 0.04
72 4 0.04
74 43 0.39
75 9 0.08
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (73 bp):
TTTGTGCCTAACGATAGTCGGATAAACCGACGAATAATTAGTGAGCCAGCTCTAGTTGGATAAAC
TAACAATA
Found at i:10390307 original size:29 final size:30
Alignment explanation
Indices: 10390247--10390308 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
10390237 TTTTATTTTA
*
10390247 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAGGCAT
10390277 TTGTTAATTTT-TTATTATTTTAGAA-GCAT
1 TTGTTAATTTTCTTATTATTTTA-AAGGCAT
10390306 TTG
1 TTG
10390309 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.26, C:0.03, G:0.11, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAGGCAT
Found at i:10391934 original size:138 final size:138
Alignment explanation
Indices: 10391686--10391938 Score: 382
Period size: 138 Copynumber: 1.8 Consensus size: 138
10391676 TTTGACATGA
* * * *
10391686 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATTTTGCCATGGTATCTTTCAAC
1 TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
** *
10391751 CATGATCTTATTCATTTCATGTCACGTTACCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
66 CATGATCTTACACATTTCATATCACGTTACCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
10391816 TGTCACGC
131 TGTCACGC
* *
10391824 TGCCATGGTATCTTTCAACCT-TGGTCTTATTCATTTCCCGTCATGTTGCCATGGTATCTTTCAA
1 TGCCATAGTATCTTTCAA-CTATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAA
* * *
10391888 CCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATG
65 CCATGATCTTACACATTTCATATCACGTTACCATGGTATCTTTCAACCATG
10391939 CCACGGTATC
Statistics
Matches: 102, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
138 100 0.98
139 2 0.02
ACGTcount: A:0.20, C:0.25, G:0.14, T:0.42
Consensus pattern (138 bp):
TGCCATAGTATCTTTCAACTATGGTCTTACTCATTTCCCGTCATGTTGCCATGGTATCTTTCAAC
CATGATCTTACACATTTCATATCACGTTACCATGGTATCTTTCAACCATGGTCTTATTCATTTCA
TGTCACGC
Found at i:10391946 original size:21 final size:21
Alignment explanation
Indices: 10391916--10391959 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
10391906 CATATCATGT
*
10391916 TGCCATGGTATCTTTCAACCA
1 TGCCACGGTATCTTTCAACCA
10391937 TGCCACGGTATCTTTCAACCA
1 TGCCACGGTATCTTTCAACCA
10391958 TG
1 TG
10391960 GTCTTACACA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.32
Consensus pattern (21 bp):
TGCCACGGTATCTTTCAACCA
Found at i:10391947 original size:67 final size:67
Alignment explanation
Indices: 10391870--10392005 Score: 254
Period size: 67 Copynumber: 2.0 Consensus size: 67
10391860 CCCGTCATGT
*
10391870 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
1 TGCCACGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
10391935 CA
66 CA
*
10391937 TGCCACGGTATCTTTCAACCATGGTCTTACACATTTCATATTATGTTGCCATGGTATCTTTCAAC
1 TGCCACGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
10392002 CA
66 CA
10392004 TG
1 TG
10392006 GTCTTACATA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.38
Consensus pattern (67 bp):
TGCCACGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTTTCAAC
CA
Found at i:10391953 original size:46 final size:46
Alignment explanation
Indices: 10391681--10391938 Score: 347
Period size: 46 Copynumber: 5.6 Consensus size: 46
10391671 TTATCTTTGA
* * * * *
10391681 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTTCATGT
* *
10391727 CATTTTGCCATGGTATCTTTCAACCATGATCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* *
10391773 CACGTTACCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
* * * **
10391819 CACGCTGCCATGGTATCTTTCAACCTTGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
** *
10391865 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
10391911 CATGTTGCCATGGTATCTTTCAACCATG
1 CATGTTGCCATGGTATCTTTCAACCATG
10391939 CCACGGTATC
Statistics
Matches: 187, Mismatches: 24, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
45 4 0.02
46 183 0.98
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
Found at i:10393313 original size:14 final size:11
Alignment explanation
Indices: 10393253--10393308 Score: 67
Period size: 11 Copynumber: 4.9 Consensus size: 11
10393243 CTTTATATAC
* *
10393253 TAATAAAACAA
1 TAATAAAATAT
10393264 TAATAAAATATCT
1 TAATAAAATA--T
*
10393277 TATTAAAATAT
1 TAATAAAATAT
10393288 TAATAAAATAT
1 TAATAAAATAT
10393299 TAATAAAATA
1 TAATAAAATA
10393309 ATATTTATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 30 0.77
13 9 0.23
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:10396293 original size:46 final size:46
Alignment explanation
Indices: 10396234--10396400 Score: 219
Period size: 46 Copynumber: 3.6 Consensus size: 46
10396224 TTGACATGAC
* * *
10396234 GCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTT
* * *
10396280 GCCATGGTATCTTTCAACCATGGTCTTATTCA-ATTCATGTCACGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTTC-TGTCATGTT
* * * *
10396326 GCCATGGTATCTTTCAATCATGGTCTTATTCATTTCCCGTCATGTT
1 GCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTT
*
10396372 TCCATGGTATCTTTCAACCATGGTCTTAC
1 GCCATGGTATCTTTCAACCATGGTCTTAC
10396401 ATATTTCATT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
45 3 0.03
46 100 0.95
47 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (46 bp):
GCCATGGTATCTTTCAACCATGGTCTTACTCATTTTCTGTCATGTT
Found at i:10398163 original size:24 final size:22
Alignment explanation
Indices: 10398133--10398191 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 22
10398123 CTTTATATAC
10398133 TAATAAAATAATAATAAAATATCT
1 TAATAAAATAATAATAAAATA--T
* *
10398157 TATTAAAATATTAATAAAATAT
1 TAATAAAATAATAATAAAATAT
10398179 TAATAAAATAATA
1 TAATAAAATAATA
10398192 TTGATCTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 12 0.39
24 19 0.61
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAATAAAATAATAATAAAATAT
Found at i:10398193 original size:14 final size:11
Alignment explanation
Indices: 10398133--10398188 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
10398123 CTTTATATAC
*
10398133 TAATAAAATAA
1 TAATAAAATAT
10398144 TAATAAAATATCT
1 TAATAAAATA--T
*
10398157 TATTAAAATAT
1 TAATAAAATAT
10398168 TAATAAAATAT
1 TAATAAAATAT
10398179 TAATAAAATA
1 TAATAAAATA
10398189 ATATTGATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 31 0.77
13 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:10406969 original size:24 final size:25
Alignment explanation
Indices: 10406930--10406980 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
10406920 AAGAATAATT
*
10406930 TGAATATTTGATATTGCCTAATAAA
1 TGAATATTCGATATTGCCTAATAAA
* *
10406955 TGAATA-TCGATATTGCTTAGTAAA
1 TGAATATTCGATATTGCCTAATAAA
10406979 TG
1 TG
10406981 TCAAGCCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (25 bp):
TGAATATTCGATATTGCCTAATAAA
Found at i:10412821 original size:43 final size:42
Alignment explanation
Indices: 10412763--10412914 Score: 157
Period size: 43 Copynumber: 3.5 Consensus size: 42
10412753 TCCCGACGTA
* *
10412763 GTCTTACATGTAATCAAATATCGATGCCATTGTCCCAAACAGG
1 GTCTTACATGAAATCAAATATCGATGCCA-TGTCCCAGACAGG
* *
10412806 GTCTTACACGAAATCAAATA-CGATGCCGATGTCCCAGACATG
1 GTCTTACATGAAATCAAATATCGATGCC-ATGTCCCAGACAGG
* *
10412848 GTCTTACATGTAAATCATAA-GTCGATGCCAACGTCCCAGAC-GTG
1 GTCTTACATG-AAATCA-AATATCGATGCC-ATGTCCCAGACAG-G
* *
10412892 GTCTTACATGAAAACACATATCG
1 GTCTTACATGAAATCAAATATCG
10412915 GATCCTATGT
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
42 28 0.31
43 33 0.36
44 30 0.33
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
GTCTTACATGAAATCAAATATCGATGCCATGTCCCAGACAGG
Found at i:10412884 original size:44 final size:42
Alignment explanation
Indices: 10412744--10412901 Score: 160
Period size: 42 Copynumber: 3.7 Consensus size: 42
10412734 AGCTCATACA
* *
10412744 ATGCCAACGTCCC-GACGTAGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATC-AA-ATCG
** * * *
10412786 ATGCCATTGTCCCAAACAGGGTCTTACACG-AAATCAAATACG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAAT-CG
* *
10412828 ATGCCGATGTCCCAGACATGGTCTTACATGTAAATCATAAGTCG
1 ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCA-AA-TCG
*
10412872 ATGCCAACGTCCCAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACATGGTCTTACATG
10412902 AAAACACATA
Statistics
Matches: 95, Mismatches: 15, Indels: 10
0.79 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 40 0.42
43 21 0.22
44 31 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACATGGTCTTACATGTAAATCAAATCG
Found at i:10416779 original size:17 final size:17
Alignment explanation
Indices: 10416734--10416785 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
10416724 GGTATTTTTA
*
10416734 ACACAAATATGAAATT-
1 ACACAAATATTAAATTC
* *
10416750 AAAAAAATGATTAAATTC
1 ACACAAAT-ATTAAATTC
10416768 ACACAAATATTATAATTC
1 ACACAAATATTA-AATTC
10416786 TTGAAACTGA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
16 6 0.21
17 11 0.39
18 11 0.39
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.29
Consensus pattern (17 bp):
ACACAAATATTAAATTC
Found at i:10418725 original size:20 final size:20
Alignment explanation
Indices: 10418678--10418728 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
10418668 TTTAATATAT
10418678 AATTAATATGATTTAAATTA
1 AATTAATATGATTTAAATTA
**
10418698 AAAAAATATG-TTTAAATTTA
1 AATTAATATGATTTAAA-TTA
*
10418718 ATTTAATATGA
1 AATTAATATGA
10418729 GTCGCACGAA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (20 bp):
AATTAATATGATTTAAATTA
Found at i:10425647 original size:21 final size:20
Alignment explanation
Indices: 10425593--10425648 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
10425583 CCGCCAGGCT
*
10425593 AGCTTTTTTTTTTTAGATTC
1 AGCTTTTTTTTTTCAGATTC
* *
10425613 AGCTTCTTTTTTTCAGTTTC
1 AGCTTTTTTTTTTCAGATTC
10425633 AGCCTTTTTTTTTTCA
1 AG-CTTTTTTTTTTCA
10425649 ACAATTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.12, C:0.16, G:0.09, T:0.62
Consensus pattern (20 bp):
AGCTTTTTTTTTTCAGATTC
Found at i:10430574 original size:6 final size:6
Alignment explanation
Indices: 10430563--10430589 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
10430553 ATGCCATGCC
10430563 AGCATT AGCATT AGCATT AGCATT AGC
1 AGCATT AGCATT AGCATT AGCATT AGC
10430590 TTCACATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (6 bp):
AGCATT
Found at i:10433057 original size:18 final size:18
Alignment explanation
Indices: 10433034--10433070 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
10433024 ACTAGTCATT
*
10433034 TAGTTTCCTTATCTTGCG
1 TAGTTTCCTTATCTCGCG
10433052 TAGTTTCCTTATCTCGCG
1 TAGTTTCCTTATCTCGCG
10433070 T
1 T
10433071 GAGTCAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.11, C:0.24, G:0.16, T:0.49
Consensus pattern (18 bp):
TAGTTTCCTTATCTCGCG
Found at i:10438953 original size:20 final size:20
Alignment explanation
Indices: 10438930--10438977 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
10438920 TAAATTCTAA
*
10438930 AAAGATAAATACAA-TTAATT
1 AAAGATAAATA-AAGATAATT
10438950 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
10438970 AAA-ATAAA
1 AAAGATAAA
10438978 ATCCTAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:10439002 original size:27 final size:26
Alignment explanation
Indices: 10438972--10439033 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
10438962 AGATAATTAA
10438972 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATT-AATAATCCT
* * * *
10438999 AATAATTATCTTAATATTAATTATCCT
1 AATAA-AATCCTAAAATTAATAATCCT
10439026 AATAAAAT
1 AATAAAAT
10439034 GGAGTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 18 0.62
28 9 0.31
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAATAATCCT
Found at i:10453444 original size:14 final size:13
Alignment explanation
Indices: 10453438--10453472 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
10453428 TTTTAAAAGT
10453438 TTTTTTTTTGGAAA
1 TTTTTTTTT-GAAA
10453452 TTTTTTTTTGAAA
1 TTTTTTTTTGAAA
10453465 TTTTTTTT
1 TTTTTTTT
10453473 CATATGACTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.17, C:0.00, G:0.09, T:0.74
Consensus pattern (13 bp):
TTTTTTTTTGAAA
Found at i:10453446 original size:16 final size:15
Alignment explanation
Indices: 10453427--10453472 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
10453417 CTATTTATAA
10453427 TTTTT-AAAAGTTTTT
1 TTTTTGAAAA-TTTTT
*
10453442 TTTTTGGAAA-TTTT
1 TTTTTGAAAATTTTT
10453456 TTTTTG-AAATTTTT
1 TTTTTGAAAATTTTT
10453470 TTT
1 TTT
10453473 CATATGACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 3 0.11
14 17 0.61
15 5 0.18
16 3 0.11
ACGTcount: A:0.22, C:0.00, G:0.09, T:0.70
Consensus pattern (15 bp):
TTTTTGAAAATTTTT
Found at i:10453674 original size:37 final size:37
Alignment explanation
Indices: 10453624--10453698 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
10453614 CCACCCATTC
10453624 TTGTATCAAGAAGTAGAAAGGTGATGGGTGGTACTGG
1 TTGTATCAAGAAGTAGAAAGGTGATGGGTGGTACTGG
10453661 TTGTATCAAGAAGTAGAAAGGTGATGGGTGGTACTGG
1 TTGTATCAAGAAGTAGAAAGGTGATGGGTGGTACTGG
10453698 T
1 T
10453699 GGGACTACGA
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:0.29, C:0.05, G:0.37, T:0.28
Consensus pattern (37 bp):
TTGTATCAAGAAGTAGAAAGGTGATGGGTGGTACTGG
Found at i:10453964 original size:23 final size:23
Alignment explanation
Indices: 10453937--10453984 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
10453927 TTTCTAACTT
10453937 GTAATTTGATTTTTGTTAGAGGG
1 GTAATTTGATTTTTGTTAGAGGG
10453960 GTAATTTGATTTTTGTTAGAGGG
1 GTAATTTGATTTTTGTTAGAGGG
10453983 GT
1 GT
10453985 TGAGTATTTT
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:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (23 bp):
GTAATTTGATTTTTGTTAGAGGG
Found at i:10455714 original size:29 final size:29
Alignment explanation
Indices: 10455677--10455746 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
10455667 ATATACATTG
* * * *
10455677 TTAATTCTATTTTATTTTTATAGTTACTT
1 TTAAATCTATTTAATATATATAGTTACTT
* *
10455706 TTAAATCTATTTAATATATATATTTTCTT
1 TTAAATCTATTTAATATATATAGTTACTT
10455735 TTCAAATCTATT
1 TT-AAATCTATT
10455747 AGGTAAATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 25 0.74
30 9 0.26
ACGTcount: A:0.30, C:0.09, G:0.01, T:0.60
Consensus pattern (29 bp):
TTAAATCTATTTAATATATATAGTTACTT
Found at i:10455784 original size:28 final size:28
Alignment explanation
Indices: 10455703--10455785 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 28
10455693 TTTATAGTTA
*
10455703 CTTTT-AAATCTATTTAATATATATATTTT
1 CTTTTAAAATCTA-TT-ATATATATATTCT
* ** *
10455732 CTTTTCAAATCTATTAGGTAAATATTCT
1 CTTTTAAAATCTATTATATATATATTCT
* *
10455760 CTTTTAAAATTTTTTATATATATATT
1 CTTTTAAAATCTATTATATATATATT
10455786 TTTAAATTTA
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
28 29 0.67
29 7 0.16
30 7 0.16
ACGTcount: A:0.34, C:0.08, G:0.02, T:0.55
Consensus pattern (28 bp):
CTTTTAAAATCTATTATATATATATTCT
Found at i:10457109 original size:26 final size:26
Alignment explanation
Indices: 10457059--10457110 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10457049 TATATGTATT
*
10457059 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* * *
10457085 AAAATGTATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
10457111 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:10457407 original size:11 final size:11
Alignment explanation
Indices: 10457393--10457490 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
10457383 TATTTACATA
10457393 ATATAAAAAAT
1 ATATAAAAAAT
*
10457404 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
10457417 GATATTAAAAAT
1 -ATATAAAAAAT
10457429 ATATACATAAAA-
1 ATATA-A-AAAAT
*
10457441 ATATAATAAAT
1 ATATAAAAAAT
* *
10457452 ATATATAATAT
1 ATATAAAAAAT
* *
10457463 ATATATATAAT
1 ATATAAAAAAT
* *
10457474 GTATAAAATAT
1 ATATAAAAAAT
10457485 ATATAA
1 ATATAA
10457491 TACATACACA
Statistics
Matches: 66, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
10 3 0.05
11 38 0.58
12 12 0.18
13 9 0.14
14 4 0.06
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:10457414 original size:45 final size:45
Alignment explanation
Indices: 10457353--10457456 Score: 113
Period size: 45 Copynumber: 2.2 Consensus size: 45
10457343 CAATATAGAC
* * *
10457353 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
10457398 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
*
10457446 ATAAATATATA
1 AAAAATATATA
10457457 TAATATATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
45 32 0.64
46 2 0.04
47 1 0.02
48 15 0.30
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.34
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:10457421 original size:25 final size:23
Alignment explanation
Indices: 10457393--10457490 Score: 94
Period size: 22 Copynumber: 4.3 Consensus size: 23
10457383 TATTTACATA
10457393 ATATAAAAAATATATGAATAATAT
1 ATATAAAAAATATAT-AATAATAT
* *
10457417 GATATTAAAAATATATACATAA-AA
1 -ATATAAAAAATATATA-ATAATAT
*
10457441 ATATAATAAATATAT-ATAATAT
1 ATATAAAAAATATATAATAATAT
* * *
10457463 ATATATATAATGTATAA-AATAT
1 ATATAAAAAATATATAATAATAT
10457485 ATATAA
1 ATATAA
10457491 TACATACACA
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
21 4 0.07
22 22 0.37
23 14 0.23
24 2 0.03
25 18 0.30
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (23 bp):
ATATAAAAAATATATAATAATAT
Found at i:10457478 original size:13 final size:13
Alignment explanation
Indices: 10457441--10457478 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
10457431 ATACATAAAA
*
10457441 ATATAATAAATAT
1 ATATAATATATAT
10457454 ATATAATATATAT
1 ATATAATATATAT
*
10457467 ATATAATGTATA
1 ATATAATATATA
10457479 AAATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (13 bp):
ATATAATATATAT
Found at i:10459276 original size:45 final size:45
Alignment explanation
Indices: 10459220--10459305 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
10459210 CGATATCTAC
*
10459220 TATCTTTGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGT
*
10459265 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAAAT
1 TATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAAT
10459306 TTGCTTCTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGT
Found at i:10459754 original size:205 final size:204
Alignment explanation
Indices: 10459399--10459909 Score: 693
Period size: 205 Copynumber: 2.5 Consensus size: 204
10459389 AAATCTGCTT
* * * *
10459399 CTTCGATTTGTTCCCTGAAAAAACAGAGATGCAAAATCATCTTAGATTTGCTTTAACTTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGC-AAATCATCTTAGATTTGCTTTAACGTAAGCAC
* * * * * *
10459464 GTGAAAGCCTAATCAGCTACGTCTTTGATTTGCTCCTTGTAAGCACAATGATGCTAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * * * *
10459529 GGATCTGCTTCAGTATAAACATCTGAAGGTTG-GATCTGCTATGTGTCTAC-CATCCATCGAAGT
130 GGATCTACTTCAGCATAAACATCTGAAGG-TGAGATCTACTATGTATCTACTC-TCCATCAAAGT
*
10459592 GGAGATGCCAGA
193 AGAGATGCCAGA
10459604 CTTCGATTTGTTCTCTGACAATACAGAGATGCGAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGC-AAATCATCTTAGATTTGCTTTAACGTAAGCAC
*
10459669 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTGTAAGCACAAGGATACCAAACCATCTT
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
* * *
10459734 GGATCTACTTCAGCATAAACATCTGAAGGTGAGATCTACTATGTATCTGCTCTCTATTAAAGTAG
130 GGATCTACTTCAGCATAAACATCTGAAGGTGAGATCTACTATGTATCTACTCTCCATCAAAGTAG
10459799 AGATGCCAGA
195 AGATGCCAGA
* * * * * * **
10459809 CTTCGATTTGTTCTCTGACACTACAGAGACGACAAATCACCTTGGATTTGCTTCATCGTAAATAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATG-CAAATCATCTTAGATTTGCTTTAACGTAAGCAC
* *
10459874 GTGAAAGCCAAATCAGCTATATCTTCGATCTGCTCC
65 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCC
10459910 ACGCTGAATA
Statistics
Matches: 271, Mismatches: 32, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
204 2 0.01
205 267 0.99
206 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (204 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCAAATCATCTTAGATTTGCTTTAACGTAAGCACG
TGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTTG
GATCTACTTCAGCATAAACATCTGAAGGTGAGATCTACTATGTATCTACTCTCCATCAAAGTAGA
GATGCCAGA
Found at i:10470379 original size:26 final size:26
Alignment explanation
Indices: 10470329--10470380 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
10470319 TATATGTATT
*
10470329 AAAATATATACGTAATAATAGAAATA
1 AAAATATATACGTAATAATAAAAATA
* * *
10470355 AAAATGTATACGTAGTATTAAAAATA
1 AAAATATATACGTAATAATAAAAATA
10470381 TATACATAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (26 bp):
AAAATATATACGTAATAATAAAAATA
Found at i:10470678 original size:11 final size:11
Alignment explanation
Indices: 10470664--10470761 Score: 72
Period size: 11 Copynumber: 8.5 Consensus size: 11
10470654 TATTTACATA
10470664 ATATAAAAAAT
1 ATATAAAAAAT
*
10470675 ATATGAATAATAT
1 ATAT-AA-AAAAT
*
10470688 GATATTAAAAAT
1 -ATATAAAAAAT
10470700 ATATACATAAAA-
1 ATATA-A-AAAAT
*
10470712 ATATAATAAAT
1 ATATAAAAAAT
* *
10470723 ATATATATAAT
1 ATATAAAAAAT
*
10470734 ATATATAAAAT
1 ATATAAAAAAT
* *
10470745 ATATCAAATAT
1 ATATAAAAAAT
10470756 ATATAA
1 ATATAA
10470762 TACATACACA
Statistics
Matches: 68, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
10 3 0.04
11 40 0.59
12 12 0.18
13 9 0.13
14 4 0.06
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (11 bp):
ATATAAAAAAT
Found at i:10470685 original size:45 final size:45
Alignment explanation
Indices: 10470624--10470756 Score: 127
Period size: 45 Copynumber: 3.0 Consensus size: 45
10470614 CCATATAGAC
* * *
10470624 AAAAATATATACATAATGT-AGTATTGAAAATATTTACATAATATA
1 AAAAATATATACATAATATGA-TATTAAAAATATATACATAATATA
10470669 AAAAATATATGA-ATAATATGATATTAAAAATATATACATAAAAATATA
1 AAAAATATAT-ACATAATATGATATTAAAAATATATACAT---AATATA
* *
10470717 ATAAATATATATATAATAT-ATA-T-AAAATATAT-CA-AATATA
1 AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
10470757 TATAATACAT
Statistics
Matches: 78, Mismatches: 4, Indels: 17
0.79 0.04 0.17
Matches are distributed among these distances:
40 6 0.08
44 2 0.03
45 41 0.53
46 3 0.04
47 4 0.05
48 22 0.28
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (45 bp):
AAAAATATATACATAATATGATATTAAAAATATATACATAATATA
Found at i:10470736 original size:20 final size:20
Alignment explanation
Indices: 10470710--10470761 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
10470700 ATATACATAA
10470710 AAATATA-ATAAATATATAT-
1 AAATATATATAAA-ATATATC
10470729 ATAATATATATAAAATATATC
1 A-AATATATATAAAATATATC
10470750 AAATATATATAA
1 AAATATATATAA
10470762 TACATACACA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 1 0.03
20 23 0.77
21 6 0.20
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATATATATAAAATATATC
Found at i:10470763 original size:9 final size:9
Alignment explanation
Indices: 10470712--10470763 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
10470702 ATACATAAAA
10470712 ATATAATA-
1 ATATAATAT
10470720 A-AT-ATAT
1 ATATAATAT
10470727 ATATAATAT
1 ATATAATAT
*
10470736 ATATAAAAT
1 ATATAATAT
10470745 ATATCAAATAT
1 ATAT--AATAT
10470756 ATATAATA
1 ATATAATA
10470764 CATACACATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
8 3 0.08
9 20 0.54
11 8 0.22
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (9 bp):
ATATAATAT
Found at i:10477650 original size:29 final size:29
Alignment explanation
Indices: 10477599--10477665 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
10477589 CACCCTTGTC
10477599 CCTCACCTCTCCCCCACCATCTC-CCCTCCT
1 CCTC-CCTCTCCCCCACCATCTCTCCCT-CT
* * *
10477629 CCTCCCTCTTCCCGACCGTCTCTCCCTCT
1 CCTCCCTCTCCCCCACCATCTCTCCCTCT
10477658 CCTCCCTC
1 CCTCCCTC
10477666 CCTTTCCATC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 25 0.76
30 8 0.24
ACGTcount: A:0.06, C:0.64, G:0.03, T:0.27
Consensus pattern (29 bp):
CCTCCCTCTCCCCCACCATCTCTCCCTCT
Found at i:10477815 original size:6 final size:6
Alignment explanation
Indices: 10477804--10477849 Score: 76
Period size: 6 Copynumber: 7.8 Consensus size: 6
10477794 GGAAAAGATG
*
10477804 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA G-GGGG GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
10477850 TTTTATTAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.28, C:0.00, G:0.72, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:10482177 original size:30 final size:28
Alignment explanation
Indices: 10482112--10482178 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 28
10482102 TCTGTTTCTA
*
10482112 ATTTTTAATAAAATTAAATATTTCTTAT
1 ATTTTTATTAAAATTAAATATTTCTTAT
10482140 ATTTTTATTAAAAATT-AATAATTT-TTAT
1 ATTTTTATT-AAAATTAAAT-ATTTCTTAT
10482168 AGCTTTTTATT
1 A--TTTTTATT
10482179 TTTATCATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
28 16 0.47
29 10 0.29
30 8 0.24
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (28 bp):
ATTTTTATTAAAATTAAATATTTCTTAT
Found at i:10486871 original size:43 final size:43
Alignment explanation
Indices: 10486810--10486894 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
10486800 CTCCAAGAAG
10486810 TATGTATCTTTAATCTACTTTGTACGTCTATGATAGTTTCCTA
1 TATGTATCTTTAATCTACTTTGTACGTCTATGATAGTTTCCTA
* *
10486853 TATGTATCTTTAATCTACTTTGTAGGTCTATGATATTTTCCT
1 TATGTATCTTTAATCTACTTTGTACGTCTATGATAGTTTCCT
10486895 TTAACTGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.22, C:0.15, G:0.12, T:0.51
Consensus pattern (43 bp):
TATGTATCTTTAATCTACTTTGTACGTCTATGATAGTTTCCTA
Found at i:10504647 original size:20 final size:20
Alignment explanation
Indices: 10504624--10504666 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10504614 TAAATTCTAA
* *
10504624 AAAGATAAATACAATTAATT
1 AAAGATAAATAAAAATAATT
*
10504644 AAAGATAATTAAAAATAATT
1 AAAGATAAATAAAAATAATT
10504664 AAA
1 AAA
10504667 ATTAAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (20 bp):
AAAGATAAATAAAAATAATT
Found at i:10507036 original size:46 final size:44
Alignment explanation
Indices: 10506932--10507039 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
10506922 TGTCTTTAAC
** * * *
10506932 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
10506976 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
10507022 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
10507040 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:10507918 original size:9 final size:9
Alignment explanation
Indices: 10507904--10507937 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
10507894 TTCTATTCTG
10507904 TTTCTTTTC
1 TTTCTTTTC
10507913 TTTCTTTT-
1 TTTCTTTTC
*
10507921 TTTCTATTC
1 TTTCTTTTC
10507930 TTTCTTTT
1 TTTCTTTT
10507938 GTTTTATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:10507930 original size:17 final size:17
Alignment explanation
Indices: 10507904--10507937 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10507894 TTCTATTCTG
*
10507904 TTTCTTTTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
10507921 TTTCTATTCTTTCTTTT
1 TTTCTATTCTTTCTTTT
10507938 GTTTTATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTATTCTTTCTTTT
Found at i:10507959 original size:5 final size:5
Alignment explanation
Indices: 10507946--10508018 Score: 64
Period size: 5 Copynumber: 14.6 Consensus size: 5
10507936 TTGTTTTATG
10507946 TATATA TATAA TATAA TATAA TAT-A T-TAA TAATAA TATAA TATAA -A-AA
1 TATA-A TATAA TATAA TATAA TATAA TATAA T-ATAA TATAA TATAA TATAA
* *
10507994 CATAA TCATTAC TATAA TATAA TAT
1 TATAA T-A-TAA TATAA TATAA TAT
10508019 TTTTTAACAC
Statistics
Matches: 57, Mismatches: 3, Indels: 15
0.76 0.04 0.20
Matches are distributed among these distances:
3 3 0.05
4 6 0.11
5 35 0.61
6 10 0.18
7 3 0.05
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (5 bp):
TATAA
Found at i:10507971 original size:19 final size:19
Alignment explanation
Indices: 10507947--10507989 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
10507937 TGTTTTATGT
10507947 ATATATATAAT-ATAATATA
1 ATATAT-TAATAATAATATA
10507966 ATATATTAATAATAATATA
1 ATATATTAATAATAATATA
10507985 ATATA
1 ATATA
10507990 AAAACATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 4 0.17
19 19 0.83
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATTAATAATAATATA
Found at i:10507999 original size:24 final size:25
Alignment explanation
Indices: 10507953--10508017 Score: 71
Period size: 24 Copynumber: 2.6 Consensus size: 25
10507943 ATGTATATAT
* *
10507953 ATAATATAATATAATATATTAAT-A
1 ATAATATAATATAATAAAATAATCA
10507977 ATAATATAATATAA-AAACATAATCA
1 ATAATATAATATAATAAA-ATAATCA
* *
10508002 TTACTATAATATAATA
1 ATAATATAATATAATA
10508018 TTTTTTAACA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 2 0.06
24 18 0.53
25 13 0.38
26 1 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATATAATATAATAAAATAATCA
Found at i:10511471 original size:19 final size:19
Alignment explanation
Indices: 10511447--10511498 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 19
10511437 ATTCAATTCA
10511447 ATTCAAATAATCAATATAT
1 ATTCAAATAATCAATATAT
10511466 ATTC-AAT-AT--ATATAT
1 ATTCAAATAATCAATATAT
*
10511481 A-TCAATTCAATCAATATA
1 ATTCAAAT-AATCAATATA
10511499 AAATTAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
14 2 0.07
15 9 0.33
17 4 0.15
18 3 0.11
19 9 0.33
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCAAATAATCAATATAT
Found at i:10514989 original size:3 final size:3
Alignment explanation
Indices: 10514981--10515162 Score: 88
Period size: 3 Copynumber: 61.3 Consensus size: 3
10514971 GATGAAAACG
* * * * * * *
10514981 ATA ATA ATA ATA ATA ATG TTG ATA ATA ATA ATA GTA GTA GTA AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
10515029 ATA ATA CTA ATG ATA ATA ATA A-A AGTA ATA ATA AGA ATA TTA TTA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * * * *
10515074 TTA GTA TTA ATA ATA ATG ATA ATA GTA ATA A-A AAA ATA A-A AAA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
10515120 A-A AAA AGTA ATA GTA ATA A-A AGTGA A-A ATA ATA GTA ATA ATA A
1 ATA ATA A-TA ATA ATA ATA ATA A-T-A ATA ATA ATA ATA ATA ATA A
10515163 CGGTAAATAC
Statistics
Matches: 140, Mismatches: 29, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
2 12 0.09
3 122 0.87
4 4 0.03
5 2 0.01
ACGTcount: A:0.60, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:10515116 original size:7 final size:8
Alignment explanation
Indices: 10515100--10515125 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
10515090 TGATAATAGT
10515100 AATAAAAA
1 AATAAAAA
10515108 AATAAAAA
1 AATAAAAA
10515116 AATAAAAA
1 AATAAAAA
10515124 AA
1 AA
10515126 GTAATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AATAAAAA
Found at i:10515264 original size:23 final size:23
Alignment explanation
Indices: 10515237--10515293 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
10515227 AAAAAGATAC
*
10515237 AAATAAAATAAATGATGAAATAT
1 AAATAAAATAAATAATGAAATAT
* * *
10515260 TAATAATAA-GAATAATGATATAT
1 AAATAA-AATAAATAATGAAATAT
10515283 AAATAAAATAA
1 AAATAAAATAA
10515294 GTGTGCTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
22 2 0.08
23 22 0.85
24 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (23 bp):
AAATAAAATAAATAATGAAATAT
Found at i:10515374 original size:3 final size:3
Alignment explanation
Indices: 10515368--10515885 Score: 145
Period size: 3 Copynumber: 172.3 Consensus size: 3
10515358 AAAAGAAAAT
* * *
10515368 ATA ATA ATA ATA ATA ATA AT- ACA ATA GTA ATA ATA ATA AAA AGGT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A--TA
* * *
10515413 ATA ATA AT- CTA TTA GATA GTA A-A ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
* * * * * * *
10515458 ATG GTA ATA GTG ATA TTA GTA GTA ATA ATA ATA ATA ATA ATA GGA-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA --ATA
* * * * * *
10515504 ATA ATA GTA CATTA ATA ATG ATA GTA TATG TTA ATA ACA ATA ATA ATA
1 ATA ATA ATA -A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA
* * * *
10515552 TATA AAA ATA GGA-A ATA ATA AT- ATG GTA AAA ATA ATA ATA ATA ATA
1 -ATA ATA ATA --ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
10515598 ACA AAA ATA GTA ATA ATA GTA TGTG A-A ATA ATA ATT GTA A-A A-A
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * *
10515641 ATA ATA GTA ATA ATT ATA TTG ATA ATA CTA ATA ATA ATA GTA GTA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
10515688 AAA ATA AAA AAA ATA A-A AAA AAA ATA ATA GTA AAA ATG ACA ATA A-A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
10515734 ATA A-G ATA ATA ATA ATG ATA A-A AAA ATA A-A A-A AAA AGTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA
** ** * * * * *
10515776 ACG GCA ATA ATA ATA ATA CCATA ATA AAA AAA AGAA ATA ATA ACA TGTAA
1 ATA ATA ATA ATA ATA ATA --ATA ATA ATA ATA A-TA ATA ATA ATA -AT-A
* * * *
10515826 ATA ATA ATA ACA ATA ATA ACA ATA AT- ATA TTT ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
10515873 GTA AAA ATA ATA A
1 ATA ATA ATA ATA A
10515886 AATTAACTTT
Statistics
Matches: 372, Mismatches: 108, Indels: 70
0.68 0.20 0.13
Matches are distributed among these distances:
2 29 0.08
3 314 0.84
4 21 0.06
5 8 0.02
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (3 bp):
ATA
Done.