Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009066.1 Hibiscus syriacus cultivar Beakdansim tig00112490_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 821833
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 5
Found at i:1043 original size:16 final size:16
Alignment explanation
Indices: 1017--1056 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1007 ACCATCCATA
*
1017 AATCC-AAAATCCAAC
1 AATCCAAAAATCAAAC
1032 AATCCAAAAATCAAAC
1 AATCCAAAAATCAAAC
*
1048 AATTCAAAA
1 AATCCAAAA
1057 TGTTGAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.23
16 17 0.77
ACGTcount: A:0.60, C:0.25, G:0.00, T:0.15
Consensus pattern (16 bp):
AATCCAAAAATCAAAC
Found at i:3045 original size:20 final size:21
Alignment explanation
Indices: 2966--3045 Score: 76
Period size: 20 Copynumber: 3.9 Consensus size: 21
2956 CAGAACCCCA
* *
2966 GGGGGGTATCGATTCCCT-GT
1 GGGGGGAATCGATTCCCTCAT
*
2986 GGGGGGAATCGGTTCCCTTCA-
1 GGGGGGAATCGATTCCC-TCAT
** *
3007 AAGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTCAT
3028 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
3046 TACACAAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
20 29 0.59
21 20 0.41
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTCAT
Found at i:6885 original size:22 final size:21
Alignment explanation
Indices: 6843--6882 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6833 GAGTTTGTTT
* *
6843 TCATTTTTCTATTTTGAAACA
1 TCATTTTTATATTTTAAAACA
6864 TCATTTTTATATTTTAAAA
1 TCATTTTTATATTTTAAAA
6883 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.55
Consensus pattern (21 bp):
TCATTTTTATATTTTAAAACA
Found at i:14383 original size:19 final size:19
Alignment explanation
Indices: 14359--14401 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
14349 CAGACAATGG
*
14359 CCACAGGAGCTGACTACAC
1 CCACAGGAGCCGACTACAC
*
14378 CCACAGGAGCCGACTACGC
1 CCACAGGAGCCGACTACAC
14397 CCACA
1 CCACA
14402 AAAGACAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.42, G:0.21, T:0.07
Consensus pattern (19 bp):
CCACAGGAGCCGACTACAC
Found at i:15450 original size:35 final size:35
Alignment explanation
Indices: 15404--15479 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
15394 AAAACAATCC
* *
15404 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
* *
15439 TCAATTTCATTCTCAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
15474 TCAATT
1 TCAATT
15480 AAATTCAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:16025 original size:128 final size:120
Alignment explanation
Indices: 15862--16113 Score: 369
Period size: 128 Copynumber: 2.0 Consensus size: 120
15852 TTCAATCTTT
* **
15862 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGG
1 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGG
* *
15927 ATCTGACATGTGTTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
66 ATCTGACATATGTTA--ACATGATCATG--A--TGTCATTGGTGACAAATGTCACCACCTA
*
15988 ATTATTTATATGCTATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCA
1 ATTATTTATAT--AATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCA
*
16053 GGATCTGACATATGTTAACATGATCATGATGTTATTGGTGACAAATGTCACCACCTA
64 GGATCTGACATATGTTAACATGATCATGATGTCATTGGTGACAAATGTCACCACCTA
16110 ATTA
1 ATTA
16114 GAAGAAAATT
Statistics
Matches: 117, Mismatches: 7, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
122 30 0.26
124 1 0.01
126 22 0.19
128 64 0.55
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (120 bp):
ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGG
ATCTGACATATGTTAACATGATCATGATGTCATTGGTGACAAATGTCACCACCTA
Found at i:16471 original size:28 final size:27
Alignment explanation
Indices: 16440--16502 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
16430 AGTTGATACA
16440 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGATTT
** * *
16468 ATATATTTTTAAACTAAATTTAATATTT
1 ATAT-TTTAAAAAATAAATTTAAGATTT
16496 ATATTTT
1 ATATTTT
16503 TCATATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 3 0.10
28 22 0.73
29 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGATTT
Found at i:16602 original size:15 final size:16
Alignment explanation
Indices: 16578--16614 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
16568 TTTAATTTCT
16578 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
16592 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
16608 TGATTCA
1 T-ATTCA
16615 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:18912 original size:16 final size:16
Alignment explanation
Indices: 18893--18926 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
18883 ACCTAACCTA
*
18893 TTATGAACCTGACTTG
1 TTATGAACCTGACATG
18909 TTATGAACCTGACATG
1 TTATGAACCTGACATG
18925 TT
1 TT
18927 TTTAACCTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (16 bp):
TTATGAACCTGACATG
Found at i:21725 original size:111 final size:109
Alignment explanation
Indices: 21531--21819 Score: 461
Period size: 111 Copynumber: 2.6 Consensus size: 109
21521 TACTCTAACA
* * *
21531 GTTTTGTCATATTTATACCTGTTGTATTGTAAAATATCGATCCTTTTTATAAAAGGATCGATACT
1 GTTTTATCATATTTTTACCTGTTATATTGTAAAATATCGATCCTTTTTA-AAAA-GATCGATACT
21596 TTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTG
64 TTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTG
*
21642 GTTTTATCATATTTTTACCTGTTATATTGTAAAGTATCGATCCTTTTATAAAAATGATCGATACT
1 GTTTTATCATATTTTTACCTGTTATATTGTAAAATATCGATCCTTTT-TAAAAA-GATCGATACT
21707 TTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTG
64 TTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTG
* * *
21753 GTTTTATCATATTTTTACATGTTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACT
1 GTTTTATCATATTTTTACCTGTTATATTGTAAAATATCGAT-CCTTTTTAAAAAG-ATCGATACT
21818 TT
64 TT
21820 ATAGTCATTA
Statistics
Matches: 166, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
110 1 0.01
111 158 0.95
112 7 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (109 bp):
GTTTTATCATATTTTTACCTGTTATATTGTAAAATATCGATCCTTTTTAAAAAGATCGATACTTT
CAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTG
Found at i:23150 original size:112 final size:112
Alignment explanation
Indices: 22944--23321 Score: 564
Period size: 112 Copynumber: 3.4 Consensus size: 112
22934 AACTTTCAAA
* * * *
22944 AAAGTATCGATCATTTTTATAAAAAGTATCTATACTTTAAACATATCAGGTAAATTTTACCGGTT
1 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
* *
23009 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGT
66 TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
* * *
23056 AAATTATCTATCATTTTTAT-AAAAGGATCGATACTTTCAACATATTAGGTAAAATTTTACCGTT
1 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGT-AAATTTTACCGTT
23120 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
65 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
** * *
23168 AAAGTATTTATCCTTCTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
1 AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
* * *
23232 TTATCATAATAAAACT-AGTTTTGTCATATTTTTACCTGTTCTATTGT
66 TTGTCATAATGAAACTGA-TTTTGTCATATTTTTACCTGTTATATTGT
23279 AAAGTATCGATCATTTTTATAAAAAAGGATCGATACTTTCAAC
1 AAAGTATCGATCATTTTTAT-AAAAAGGATCGATACTTTCAAC
23322 CCATTTGTTT
Statistics
Matches: 241, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
110 1 0.00
111 98 0.41
112 121 0.50
113 21 0.09
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (112 bp):
AAAGTATCGATCATTTTTATAAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
TTGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
Found at i:23190 original size:692 final size:692
Alignment explanation
Indices: 21561--23170 Score: 2735
Period size: 692 Copynumber: 2.3 Consensus size: 692
21551 GTTGTATTGT
* * *
21561 AAAATATCGATCCTTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
1 AAAATATCGATCCTTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGTT
* *
21625 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAAGTATCGATC-CTTTT
66 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAAGTATCAATCATTTTT
*
21689 ATAAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG
131 AT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG
* *
21754 TTTTATCATATTTTTACATGTTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTT
195 TTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTT
* *
21819 TATAGTCATTATTACTGCTTTTCTTTTAAATTCCAAAAGTGCTGATACTTATTTAAATGGAATCG
260 TATAGGCACTATTACTGCTTTTCTTTTAAATTCCAAAAGTGCTGATACTTATTTAAATGGAATCG
* * *
21884 ATACTTTCAACATATCCGGTAGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTGAAAAACATT
325 ATACTTTCAACATATACGGTAGGTAGTTTAATGTAATAGGTAGATATTTCACTATGAAAAACATT
* *
21949 AATTTAAGGTTATCTTTTGAGTGAGATTTAAGATATTAATTTAGTAATTATAAGCGTCTAATGAT
390 AATTTAAGGTTATATTTTGAGTAAGATTTAAGATATTAATTTAGTAATTATAAGCGTCTAATGAT
* *
22014 TTATTTTGTATGTTACGGTATATATTATTATTAAATTAAAAACAATAATCATAGATATTACATAT
455 TTATTTTGTATGTTACGGTATATATTATTACTAAATTAAAAACAATAAACATAGATATTACATAT
22079 TTATTATTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
520 TTATTATTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
22144 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
585 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* **
22209 CGCTATTAAAAATTTTTGAAACATAAATTACATAACTTTCAAAA
650 CACTATTAAAAAAATTTGAAACATAAATTACATAACTTTC-AAA
*
22253 AAAATATCGATCCTTTTTATAAAAAAGTATATATACTTTCAACATATCAGGTAAATTTTACCGGT
1 AAAATATCGATCCTTTTTAT-AAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGT
* * * *
22318 TTTGTCATAATGAAACTGATTTTGTCATATTTATA--TGTTATATTATAAAGTATCAATCATTTT
65 TTTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAAGTATCAATCATTTT
*
22381 TACAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG
130 TATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG
*
22446 TTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATAGTT
195 TTTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTT
* * * *
22511 TATAGGCGCTATTACTGTTTTTCTTTTAAATTCCAAAAGTGTTGATACTTTTTTAAATGGAATCG
260 TATAGGCACTATTACTGCTTTTCTTTTAAATTCCAAAAGTGCTGATACTTATTTAAATGGAATCG
* *
22576 ATACTTTCAATATATATGGTAGGTAGTTTAATGTAATAGGTAGATATTTCACTATGAAAAACATT
325 ATACTTTCAACATATACGGTAGGTAGTTTAATGTAATAGGTAGATATTTCACTATGAAAAACATT
* *
22641 AATTTAAGGTTATATTTTGAGTAAGTTTTAAGATATTAATTTAGTAATTATACGCGTCTAATGAT
390 AATTTAAGGTTATATTTTGAGTAAGATTTAAGATATTAATTTAGTAATTATAAGCGTCTAATGAT
* *
22706 TTATTTTTTATGTTATGGTATATATTATTACTAAATTAAAAACAATAAACATAGATATTACATAT
455 TTATTTTGTATGTTACGGTATATATTATTACTAAATTAAAAACAATAAACATAGATATTACATAT
22771 TTATTATTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
520 TTATTATTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
22836 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
585 ACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
*
22901 CACTATTAAAAAAAATTT-AAATATAAATTACATAACTTTCAAA
650 CACTATT-AAAAAAATTTGAAACATAAATTACATAACTTTCAAA
* * *
22944 AAAGTATCGATCATTTTTATAAAAAGTATCTATACTTTAAACATATCAGGTAAATTTTACCGGTT
1 AAAATATCGATCCTTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGTT
* *
23009 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAATTATCTATCATTTTT
66 TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAAGTATCAATCATTTTT
* *
23074 ATAAAAGGATCGATACTTTCAACATATTAGGTAAAATTTTACCGTTTTTGTCATAATGAAACTGA
131 ATAAAAGGATCGATACTTTCAACATATCAGGT-AAATTTTACCGTTTTTGTCATAATGAAACTGG
23139 TTTTGTCATATTTTTACCTGTTATATTGTAAA
195 TTTTGTCATATTTTTACCTGTTATATTGTAAA
23171 GTATTTATCC
Statistics
Matches: 860, Mismatches: 51, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
690 74 0.09
691 21 0.02
692 618 0.72
693 76 0.09
694 71 0.08
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (692 bp):
AAAATATCGATCCTTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGTT
TTGTCATAATGAAACTGGTTTTATCATATTTTTACCTGTTATATTGTAAAGTATCAATCATTTTT
ATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGT
TTTGTCATATTTTTACCTGTTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTT
ATAGGCACTATTACTGCTTTTCTTTTAAATTCCAAAAGTGCTGATACTTATTTAAATGGAATCGA
TACTTTCAACATATACGGTAGGTAGTTTAATGTAATAGGTAGATATTTCACTATGAAAAACATTA
ATTTAAGGTTATATTTTGAGTAAGATTTAAGATATTAATTTAGTAATTATAAGCGTCTAATGATT
TATTTTGTATGTTACGGTATATATTATTACTAAATTAAAAACAATAAACATAGATATTACATATT
TATTATTATCTTTGGTTAAAATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAA
CAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAAC
ACTATTAAAAAAATTTGAAACATAAATTACATAACTTTCAAA
Found at i:23603 original size:4 final size:4
Alignment explanation
Indices: 23594--23620 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
23584 TTCAACTATG
23594 TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TAT
23621 ACATGCATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:24373 original size:23 final size:23
Alignment explanation
Indices: 24347--24397 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
24337 AACTTATTTT
*
24347 ATTATATAAACGCTACCTATTAC
1 ATTATATAAACGCTACCTAATAC
* * *
24370 ATTATATAAGCGTTACCTAATAT
1 ATTATATAAACGCTACCTAATAC
24393 ATTAT
1 ATTAT
24398 TGTGATCGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (23 bp):
ATTATATAAACGCTACCTAATAC
Found at i:24496 original size:87 final size:85
Alignment explanation
Indices: 24245--24505 Score: 308
Period size: 87 Copynumber: 3.0 Consensus size: 85
24235 TAACAAATTA
* * * *
24245 AGTAATTAACCTATTTTAATAAATAAACTCTACCTTTACGTTATATAAGCGCTACCTAATATGTT
1 AGTAATTAACCTATTTTATTATATAAACGCTACCTTTACATTATATAAGCGCTACCTAATATGTT
* * *
24310 ATTTGCTTAATAATGTTTCG
66 ATTTACTTGATAATATTTCG
* * *
24330 AGTAATTAACTTATTTTATTATATAAACGCTACCTATTACATTATATAAGCGTTACCTAATATAT
1 AGTAATTAACCTATTTTATTATATAAACGCTACCT-TTACATTATATAAGCGCTACCTAATATGT
* *
24395 TATTGTGA-TCGATAATATTTCT
65 TATT-T-ACTTGATAATATTTCG
* ** * *
24417 AGTAATTAACCTATTTTATTATATAAGCGCTATATGTTACATTATATAAACGGTACCTAATATGT
1 AGTAATTAACCTATTTTATTATATAAACGCTACCT-TTACATTATATAAGCGCTACCTAATATGT
24482 TATTATACTTGATAATATTCTCG
65 TATT-TACTTGATAATATT-TCG
24505 A
1 A
24506 TTAAATGATA
Statistics
Matches: 148, Mismatches: 23, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
85 31 0.21
86 31 0.21
87 83 0.56
88 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.42
Consensus pattern (85 bp):
AGTAATTAACCTATTTTATTATATAAACGCTACCTTTACATTATATAAGCGCTACCTAATATGTT
ATTTACTTGATAATATTTCG
Found at i:25121 original size:11 final size:10
Alignment explanation
Indices: 25107--25184 Score: 59
Period size: 11 Copynumber: 7.3 Consensus size: 10
25097 TATAGGTTAC
25107 ATATATTATTT
1 ATATA-TATTT
*
25118 ATATAATATAT
1 ATAT-ATATTT
* *
25129 AAATAGATTGT
1 ATATATATT-T
*
25140 ATATATATAT
1 ATATATATTT
25150 ATACTATAGTTT
1 ATA-TATA-TTT
25162 ATATATA-TT
1 ATATATATTT
25171 ATATATAATTT
1 ATATAT-ATTT
25182 ATA
1 ATA
25185 CATACATGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 8 0.15
10 8 0.15
11 31 0.58
12 6 0.11
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (10 bp):
ATATATATTT
Found at i:25122 original size:2 final size:2
Alignment explanation
Indices: 25107--25177 Score: 51
Period size: 2 Copynumber: 36.5 Consensus size: 2
25097 TATAGGTTAC
* * * *
25107 AT AT AT -T AT TT AT AT A- AT AT AT AA AT AG AT -T GT 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
*
25146 AT AT AT ACT AT AGT TT AT AT AT AT -T AT AT AT A
1 AT AT AT A-T AT A-T AT AT AT AT AT AT AT AT AT A
25178 ATTTATACAT
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
1 4 0.07
2 47 0.87
3 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25164 original size:44 final size:42
Alignment explanation
Indices: 25104--25199 Score: 101
Period size: 42 Copynumber: 2.3 Consensus size: 42
25094 AACTATAGGT
*
25104 TACATATA-T-TA-TTTATATA-ATATATAAATAGATTGTATATA
1 TACATATACTATAGTTTATATATAT-TATAAATA-ATT-TATACA
* *
25145 TATATATACTATAGTTTATATATATTATATATAATTTATACA
1 TACATATACTATAGTTTATATATATTATAAATAATTTATACA
*
25187 TACATGTACTATA
1 TACATATACTATA
25200 AATTACATAT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
41 7 0.15
42 17 0.37
43 5 0.11
44 15 0.33
45 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (42 bp):
TACATATACTATAGTTTATATATATTATAAATAATTTATACA
Found at i:25166 original size:20 final size:20
Alignment explanation
Indices: 25107--25184 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
25097 TATAGGTTAC
*
25107 ATATATTATTTATATA-ATAT
1 ATATATAATTTATATATAT-T
*
25127 ATAAATAGATTGTATATATATAT
1 ATATATA-ATT-TATATATAT-T
*
25150 ATACTATAGTTTATATATATT
1 ATA-TATAATTTATATATATT
25171 ATATATAATTTATA
1 ATATATAATTTATA
25185 CATACATGTA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
20 15 0.31
21 7 0.14
22 15 0.31
23 9 0.18
24 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.04, T:0.50
Consensus pattern (20 bp):
ATATATAATTTATATATATT
Found at i:25247 original size:37 final size:35
Alignment explanation
Indices: 25170--25248 Score: 86
Period size: 37 Copynumber: 2.2 Consensus size: 35
25160 TTATATATAT
*
25170 TATATATAATTTATACATACATGTACTATAAATTA
1 TATATATAATTTATACATACATATACTATAAATTA
* * * **
25205 CATATATAATTTATATGTATACATATATTATAGGTTA
1 TATATATAATTTATA--CATACATATACTATAAATTA
25242 TATATAT
1 TATATAT
25249 TAACTATTGT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
35 14 0.40
37 21 0.60
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (35 bp):
TATATATAATTTATACATACATATACTATAAATTA
Found at i:25418 original size:7 final size:7
Alignment explanation
Indices: 25406--25435 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
25396 GTTAGGATTT
25406 CTATAAA
1 CTATAAA
25413 CTATAAA
1 CTATAAA
*
25420 CTTTAAA
1 CTATAAA
25427 CTATAAA
1 CTATAAA
25434 CT
1 CT
25436 TTATTACTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (7 bp):
CTATAAA
Found at i:25428 original size:14 final size:14
Alignment explanation
Indices: 25409--25438 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
25399 AGGATTTCTA
25409 TAAACTATAAACTT
1 TAAACTATAAACTT
25423 TAAACTATAAACTT
1 TAAACTATAAACTT
25437 TA
1 TA
25439 TTACTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
TAAACTATAAACTT
Found at i:25510 original size:2 final size:2
Alignment explanation
Indices: 25503--25579 Score: 77
Period size: 2 Copynumber: 38.0 Consensus size: 2
25493 TCATATAGTT
*
25503 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
25545 GTT TA TA CA TA CA TA TA CTA TA -A GT- TA TA TA TA TA
1 -TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA
25580 GTTCCGGGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
1 2 0.03
2 57 0.92
3 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (2 bp):
TA
Found at i:25806 original size:2 final size:2
Alignment explanation
Indices: 25801--25859 Score: 73
Period size: 2 Copynumber: 29.0 Consensus size: 2
25791 TTATATAGTT
* * * *
25801 TA TA TA TG TA TA GTT TA TA TA CA TA TA CA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25844 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
25860 GAAAATTAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
2 47 0.98
3 1 0.02
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:25827 original size:15 final size:15
Alignment explanation
Indices: 25793--25827 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
25783 TATATAGGTT
*
25793 ATATAGTTTATATAT
1 ATATAGTTTATATAC
*
25808 GTATAGTTTATATAC
1 ATATAGTTTATATAC
25823 ATATA
1 ATATA
25828 CATATATATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (15 bp):
ATATAGTTTATATAC
Found at i:26303 original size:13 final size:13
Alignment explanation
Indices: 26258--26330 Score: 65
Period size: 13 Copynumber: 5.3 Consensus size: 13
26248 ATATACTTTT
26258 TATAGTTTATACATA
1 TATAGTTTAT--ATA
* *
26273 TATAATTTACATA
1 TATAGTTTATATA
26286 TATAGTTTATATA
1 TATAGTTTATATA
*
26299 TATAGTTCATATACA
1 TATAGTT--TATATA
* *
26314 CATAATTTATATA
1 TATAGTTTATATA
26327 TATA
1 TATA
26331 TAGCTTATAA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
13 29 0.62
15 18 0.38
ACGTcount: A:0.42, C:0.07, G:0.04, T:0.47
Consensus pattern (13 bp):
TATAGTTTATATA
Found at i:26350 original size:18 final size:19
Alignment explanation
Indices: 26327--26362 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
26317 AATTTATATA
26327 TATATAGCTTATA-ATAAT
1 TATATAGCTTATATATAAT
*
26345 TATATAGTTTATATATAA
1 TATATAGCTTATATATAA
26363 ACTTATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TATATAGCTTATATATAAT
Found at i:26375 original size:17 final size:16
Alignment explanation
Indices: 26353--26387 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
26343 ATTATATAGT
26353 TTATATATAAACTTATA
1 TTATATATAAA-TTATA
*
26370 TTATATATATATTATA
1 TTATATATAAATTATA
26386 TT
1 TT
26388 TTTTTTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTATATATAAATTATA
Found at i:29440 original size:304 final size:306
Alignment explanation
Indices: 28888--29457 Score: 995
Period size: 304 Copynumber: 1.9 Consensus size: 306
28878 CTGTTTTGAC
*
28888 TGGTTTTAGTCATTCATGTTTAAGTTCTGCTGCCATTCATGCTAGGGCTGTTAGTTCTGTTTCTA
1 TGGTTTTAGTCATTCATGTTTAAGTTCTGCTGCCATTAATGCTAGGGCTGTTAGTTCTGTTTCTA
28953 GTCTTTCGAGCAAGCTGAAAAAATGGAACAATGGTGGTAGGCTGCCACGTAGATTGGTGGTAGGC
66 GTCTTTCGAGCAAGCTGAAAAAATGGAACAATGGTGGTAGGC-GCCACGTAGATTGGTGGTAGGC
29018 TTTGGGGCTTCATTTTGGGCTCCGTTTATGAACATGGAAGGCAATAACAAGTCTTTCATGGCTTC
130 TTTGGGGCTTCATTTTGGGCTCCGTTTATGAACATGGAAGGCAATAACAAGTCTTTCATGGCTTC
* *
29083 TGCAAGGCTAAAGAGTACTGTTGAACAGGTTCATTTTTCAATGTTTAACAATTCTTCTTTCATTG
195 TGCAAGGCTAAAGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATTG
29148 ATTTGGTTTCTGGGGTTTTCCCCCTTGCAGCCTGTGTTTTGAATGAA
260 ATTTGGTTTCTGGGGTTTTCCCCCTTGCAGCCTGTGTTTTGAATGAA
*
29195 TGGTTTTAGTCATTCATGTTTAAGTTCTGCTGCC-TTAATGCTAGGGCTGTTAGTTCTGTTTTTA
1 TGGTTTTAGTCATTCATGTTTAAGTTCTGCTGCCATTAATGCTAGGGCTGTTAGTTCTGTTTCTA
* *
29259 GTCTTTCGAGCAAGCTGAAAAAATGGATCAATGGTGGTAGGC-CCACGTAGATTGGTGGTAGGTT
66 GTCTTTCGAGCAAGCTGAAAAAATGGAACAATGGTGGTAGGCGCCACGTAGATTGGTGGTAGGCT
* *
29323 TTGGGGC-TCTATTTTGGGCTCCGTTTATGAATAT-GACAGGCAATAGCAAGTCTTTCATGGCTT
131 TTGGGGCTTC-ATTTTGGGCTCCGTTTATGAACATGGA-AGGCAATAACAAGTCTTTCATGGCTT
**
29386 CTGGGAGGCTAAAGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATT
194 CTGCAAGGCTAAAGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATT
29451 GATTTGG
259 GATTTGG
29458 CTTCATTTTG
Statistics
Matches: 251, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
303 4 0.02
304 144 0.57
306 69 0.27
307 34 0.14
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (306 bp):
TGGTTTTAGTCATTCATGTTTAAGTTCTGCTGCCATTAATGCTAGGGCTGTTAGTTCTGTTTCTA
GTCTTTCGAGCAAGCTGAAAAAATGGAACAATGGTGGTAGGCGCCACGTAGATTGGTGGTAGGCT
TTGGGGCTTCATTTTGGGCTCCGTTTATGAACATGGAAGGCAATAACAAGTCTTTCATGGCTTCT
GCAAGGCTAAAGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATTGA
TTTGGTTTCTGGGGTTTTCCCCCTTGCAGCCTGTGTTTTGAATGAA
Found at i:29566 original size:129 final size:129
Alignment explanation
Indices: 29333--29586 Score: 454
Period size: 129 Copynumber: 2.0 Consensus size: 129
29323 TTGGGGCTCT
* **
29333 ATTTTGGGCTCCGTTTATGAATATGACAGGCAATAGCAAGTCTTTCATGGCTTCTGGGAGGCTAA
1 ATTTTGGGCTCCGTTTATGAACATGACAGGCAATAGCAAGTCTTTCATGGCTTCTGCAAGGCTAA
29398 AGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATTGATTTGGCTTC
66 AGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATTGATTTGGCTTC
29462 ATTTTGGGCTCCGTTTATGAACATGACAGGCAATAGCAAGTCTTTCATGGCTTCTGCAAGGCTAA
1 ATTTTGGGCTCCGTTTATGAACATGACAGGCAATAGCAAGTCTTTCATGGCTTCTGCAAGGCTAA
* * *
29527 AGAGTACTTTTGAACAGGTTCATTTTTCAATGTTTAACAATTCTTCTTTCATTGATTTGG
66 AGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATTGATTTGG
29587 TTTCTGGGTT
Statistics
Matches: 119, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
129 119 1.00
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (129 bp):
ATTTTGGGCTCCGTTTATGAACATGACAGGCAATAGCAAGTCTTTCATGGCTTCTGCAAGGCTAA
AGAGTACTGTTGAACAGGTTCATTTTTCAATATTCAACAATTCTTCTTTCATTGATTTGGCTTC
Found at i:39526 original size:17 final size:18
Alignment explanation
Indices: 39504--39541 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
39494 ATTATATGGA
*
39504 TATTATTCAT-TTATTTT
1 TATTATTCATGTTATTAT
39521 TATTATTCATGTTATTAT
1 TATTATTCATGTTATTAT
39539 TAT
1 TAT
39542 ATAGTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (18 bp):
TATTATTCATGTTATTAT
Found at i:40170 original size:19 final size:18
Alignment explanation
Indices: 40110--40188 Score: 69
Period size: 19 Copynumber: 4.5 Consensus size: 18
40100 CTATTTTTCC
40110 TTATC-TTA-TTTATTTT
1 TTATCTTTATTTTATTTT
40126 TTA--TTTATTTTATTTT
1 TTATCTTTATTTTATTTT
**
40142 TTCCCTTTTATTTTATTTT
1 TTATC-TTTATTTTATTTT
*
40161 ATTATCTTTATCTTATTTGT
1 -TTATCTTTATTTTATTT-T
40181 TT-TCTTTA
1 TTATCTTTA
40189 CCTTGTTTAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
15 3 0.06
16 13 0.25
18 6 0.12
19 26 0.50
20 4 0.08
ACGTcount: A:0.16, C:0.09, G:0.01, T:0.73
Consensus pattern (18 bp):
TTATCTTTATTTTATTTT
Found at i:40985 original size:11 final size:12
Alignment explanation
Indices: 40969--40997 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
40959 TTTTTCTAAC
40969 TGTTTGCC-TTG
1 TGTTTGCCTTTG
40980 TGTTTGCCTTTG
1 TGTTTGCCTTTG
40992 TGTTTG
1 TGTTTG
40998 TTTTTAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.00, C:0.14, G:0.28, T:0.59
Consensus pattern (12 bp):
TGTTTGCCTTTG
Found at i:43082 original size:8 final size:8
Alignment explanation
Indices: 43069--43104 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
43059 GAACATTTCA
*
43069 TGCATTCT
1 TGCATTTT
43077 TGCA-TTT
1 TGCATTTT
43084 TGCATTTT
1 TGCATTTT
43092 TGCATTTT
1 TGCATTTT
43100 TGCAT
1 TGCAT
43105 CTTCATCTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (8 bp):
TGCATTTT
Found at i:43089 original size:15 final size:16
Alignment explanation
Indices: 43069--43104 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
43059 GAACATTTCA
43069 TGCATTCTTGCA-TTT
1 TGCATTCTTGCATTTT
*
43084 TGCATTTTTGCATTTT
1 TGCATTCTTGCATTTT
43100 TGCAT
1 TGCAT
43105 CTTCATCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.56
Consensus pattern (16 bp):
TGCATTCTTGCATTTT
Found at i:44340 original size:22 final size:23
Alignment explanation
Indices: 44300--44357 Score: 75
Period size: 22 Copynumber: 2.5 Consensus size: 23
44290 AATCAAGAAC
44300 AAAAAAGAAAAGAAGCAAAAAAG
1 AAAAAAGAAAAGAAGCAAAAAAG
44323 AAAAAA-AACAAGAA-CAAAAAAG
1 AAAAAAGAA-AAGAAGCAAAAAAG
44345 AAAAGAAGCAAAA
1 AAAA-AAG-AAAA
44358 ATCAAAAGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
22 14 0.45
23 13 0.42
24 2 0.06
25 2 0.06
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (23 bp):
AAAAAAGAAAAGAAGCAAAAAAG
Found at i:44343 original size:15 final size:16
Alignment explanation
Indices: 44294--44358 Score: 60
Period size: 16 Copynumber: 3.8 Consensus size: 16
44284 AGATTCAATC
44294 AAGAA-CAAAAAAGAA
1 AAGAAGCAAAAAAGAA
44309 AAGAAGCAAAAAAGAAAAAA
1 AAGAAGCAAAAAAG----AA
*
44329 AACAAGAACAAAAAAGAA
1 AAGAAG--CAAAAAAGAA
44347 AAGAAGCAAAAA
1 AAGAAGCAAAAA
44359 TCAAAAGGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
15 5 0.12
16 14 0.34
18 7 0.17
20 7 0.17
22 8 0.20
ACGTcount: A:0.78, C:0.08, G:0.14, T:0.00
Consensus pattern (16 bp):
AAGAAGCAAAAAAGAA
Found at i:44364 original size:22 final size:22
Alignment explanation
Indices: 44302--44364 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
44292 TCAAGAACAA
* *
44302 AAAAGAAA-AGAAGCAAAAAAG
1 AAAAGAAACAAAAACAAAAAAG
* *
44323 AAAAAAAACAAGAACAAAAAAG
1 AAAAGAAACAAAAACAAAAAAG
*
44345 AAAAGAAGCAAAAATCAAAA
1 AAAAGAAACAAAAA-CAAAA
44365 GGAAAAGGGA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
21 7 0.21
22 21 0.64
23 5 0.15
ACGTcount: A:0.78, C:0.08, G:0.13, T:0.02
Consensus pattern (22 bp):
AAAAGAAACAAAAACAAAAAAG
Found at i:47051 original size:106 final size:106
Alignment explanation
Indices: 46866--47291 Score: 660
Period size: 106 Copynumber: 4.0 Consensus size: 106
46856 TCGCGCCACC
* *
46866 CGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
46931 TTCAGAGA-CAATTTCAACTTCACAGCGAAGGGCATTGGACT
66 TTCAGA-ACCAATTTCAACTTCACAGCGAAGGACATTGGACT
46972 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
* * *
47037 TTCAGAGCTAATTTCAACTTCACAGCGAAGGGCATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGACATTGGACT
* * *
47078 CGAGACAGCACAAGTTCAACTTCACAACAAAGGGACGACTGGTTGTCAACAAACAATTTCCCAAT
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
*
47143 TTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACT
66 TTCAGAACCAATTTCAACTTCACAGCGAAGGACATTGGACT
* *
47184 CGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTGTCAACAAA-AATTTTCCTAA
1 CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAA-TTTCCCAA
* * * *
47248 -TTCTAGAACCAATTTTAACTTCACGGCGGAGGATATTGGACT
65 TTTC-AGAACCAATTTCAACTTCACAGCGAAGGACATTGGACT
47290 CG
1 CG
47292 GAACACTACT
Statistics
Matches: 298, Mismatches: 19, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
105 5 0.02
106 293 0.98
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (106 bp):
CGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAAT
TTCAGAACCAATTTCAACTTCACAGCGAAGGACATTGGACT
Found at i:48620 original size:18 final size:17
Alignment explanation
Indices: 48581--48623 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
48571 ATTATATGGA
48581 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
48597 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
48615 TATTATTAT
1 TATTATTAT
48624 ACGTGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:48930 original size:17 final size:17
Alignment explanation
Indices: 48891--48933 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
48881 ATATATATAT
*
48891 TATTTTTTTATTATTTT
1 TATTTTTTTATTATTTA
*
48908 TGTTTTTTTATTCA-TTA
1 TATTTTTTTATT-ATTTA
48925 TATTTTTTT
1 TATTTTTTT
48934 TAAAACCTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TATTTTTTTATTATTTA
Found at i:48931 original size:18 final size:17
Alignment explanation
Indices: 48893--48935 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
48883 ATATATATTA
*
48893 TTTTTTTATTATTTTTG
1 TTTTTTTATTATTTATG
48910 TTTTTTTATTCATTATAT-
1 TTTTTTTATT-ATT-TATG
48928 TTTTTTTA
1 TTTTTTTA
48936 AAACCTTGTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 10 0.43
18 11 0.48
19 2 0.09
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTTTTTATTATTTATG
Found at i:48934 original size:21 final size:19
Alignment explanation
Indices: 48893--48934 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
48883 ATATATATTA
48893 TTTTTTTATTATTTTTGTT
1 TTTTTTTATTATTTTTGTT
*
48912 TTTTTATTCATTATATTT-TT
1 TTTTT-TT-ATTATTTTTGTT
48932 TTT
1 TTT
48935 AAAACCTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
20 7 0.35
21 8 0.40
ACGTcount: A:0.14, C:0.02, G:0.02, T:0.81
Consensus pattern (19 bp):
TTTTTTTATTATTTTTGTT
Found at i:49143 original size:38 final size:40
Alignment explanation
Indices: 49092--49170 Score: 110
Period size: 40 Copynumber: 2.0 Consensus size: 40
49082 AGTGAGAGGG
*
49092 TAGCTTTTCTATTTT-TAAATA-TTTGTTGTATATATATA
1 TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
*
49130 TAGCTTATT-TATTTTATTAATACTTTGATGTATATATATA
1 TAGCTT-TTCTATTTTATAAATACTTTGATGTATATATATA
49170 T
1 T
49171 TTTTTCATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
38 12 0.33
39 7 0.19
40 17 0.47
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (40 bp):
TAGCTTTTCTATTTTATAAATACTTTGATGTATATATATA
Found at i:49258 original size:19 final size:19
Alignment explanation
Indices: 49234--49283 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
49224 ATCTTATTTA
49234 TTTATTTTATTTT-TTCCC
1 TTTATTTTATTTTATTCCC
* *
49252 TTTTATTTAATTTTATTCTC
1 -TTTATTTTATTTTATTCCC
*
49272 TTTATCTTATTT
1 TTTATTTTATTT
49284 GTTTTCTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 22 0.85
20 4 0.15
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTATTTTATTTTATTCCC
Found at i:60982 original size:124 final size:124
Alignment explanation
Indices: 60795--61343 Score: 782
Period size: 124 Copynumber: 4.4 Consensus size: 124
60785 ATCACGAAGA
* * * ** * * *
60795 AGCATTGTCAT-CC-CGACCAGATCTCCTCATTATATAGGAGCCGTTTCAACCCTGGATAGCCAA
1 AGCAGTGTCATCCCTCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
*
60858 GATTCATCATAGTATGAACAGAGTTATCATCCTTAGATGGTCAAGACTCATCGCATATG
66 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* *
60917 AGCAGTGTCATCCCTCAACCAAATATCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
1 AGCAGTGTCATCCCTCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
* *
60982 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAAACTAATCGCATATG
66 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* * *
61041 AGCAGTGTCATCCCTTGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCCTGGATAACCAA
1 AGCAGTGTCATCCCTCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
* *
61106 GATTCATCGTAGTATGAACAGAGTTATCACTCTTAGATGGTCAAGACTCATCGCATATG
66 GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* * *
61165 AGCAGTGTCATCCATCGACCAGATCTTCTCATCACGTAGGAGCCGTGTCAACCCTT-GATAACCA
1 AGCAGTGTCATCCCTCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCAA-CCTTGGATAACCA
* * * * * *
61229 AGATTCATCGTAGTATGAGCAGTGTCATCACCCTTAGATGGCCAAGACTCATCGAATATG
65 AGATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
* * *
61289 AGCAGTGTCATCCC-CTGACCAAATTTCCTCATCACGTAGGAGCTGTGTCACCCTT
1 AGCAGTGTCATCCCTC-GACCAAATCTCCTCATCACGTAGGAGCCGTGTCAACCTT
61344 AGACGACCAG
Statistics
Matches: 385, Mismatches: 38, Indels: 7
0.90 0.09 0.02
Matches are distributed among these distances:
122 10 0.03
123 7 0.02
124 365 0.95
125 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (124 bp):
AGCAGTGTCATCCCTCGACCAAATCTCCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAA
GATTCATCATAGTATGAACAGAGTTATCACCCTTAGATGGTCAAGACTCATCGCATATG
Found at i:62128 original size:32 final size:32
Alignment explanation
Indices: 62058--62154 Score: 108
Period size: 32 Copynumber: 3.1 Consensus size: 32
62048 AATATTTGGT
* * *
62058 AACCCTACCA-CACCATAACTCATCAATCG-G
1 AACCCTACCACCACCATATCTCATCATTCGAC
* * * *
62088 TACCCTACCACCATCGTATTTCATCATTCGAC
1 AACCCTACCACCACCATATCTCATCATTCGAC
*
62120 AACCCTACCACCACCATATCTCATCATTCGGC
1 AACCCTACCACCACCATATCTCATCATTCGAC
62152 AAC
1 AAC
62155 TGAATGAAGC
Statistics
Matches: 53, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
30 9 0.17
31 14 0.26
32 30 0.57
ACGTcount: A:0.31, C:0.40, G:0.06, T:0.23
Consensus pattern (32 bp):
AACCCTACCACCACCATATCTCATCATTCGAC
Found at i:66100 original size:16 final size:16
Alignment explanation
Indices: 66079--66109 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
66069 GAGTTTTTAT
*
66079 TATAATATTTATAATA
1 TATAATATATATAATA
66095 TATAATATATATAAT
1 TATAATATATATAAT
66110 TTTGTTTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATAATATATATAATA
Found at i:66171 original size:21 final size:21
Alignment explanation
Indices: 66145--66184 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
66135 TATATAATAT
*
66145 ATAATTTTTAAAACATATAAC
1 ATAATTTTAAAAACATATAAC
*
66166 ATAATTTTAAAAATATATA
1 ATAATTTTAAAAACATATA
66185 CTATATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAATTTTAAAAACATATAAC
Found at i:66209 original size:28 final size:25
Alignment explanation
Indices: 66136--66290 Score: 98
Period size: 28 Copynumber: 6.3 Consensus size: 25
66126 TATAGTATAT
*
66136 ATATAATATATAATTTTT--AAAA-C
1 ATAT-ATATATAATTTTTGAAAAATA
*
66159 ATATA-ACATAA-TTTT-AAAAATA
1 ATATATATATAATTTTTGAAAAATA
66181 TATACTATATATAATTTTTGAAAACATA
1 -ATA-TATATATAATTTTTGAAAA-ATA
* * *
66209 TGTAATATATATTACTTTTGAAAAA-A
1 -AT-ATATATATAATTTTTGAAAAATA
*
66235 AT-T-CATATAATTTTTGAAAACATA
1 ATATATATATAATTTTTGAAAA-ATA
66259 ATATATTATATAATTTTT-AAAAAGTA
1 ATATA-TATATAATTTTTGAAAAA-TA
66285 A-ATATA
1 ATATATA
66291 GTAAACATAT
Statistics
Matches: 106, Mismatches: 11, Indels: 29
0.73 0.08 0.20
Matches are distributed among these distances:
20 4 0.04
21 9 0.08
22 15 0.14
23 9 0.08
24 7 0.07
25 11 0.10
26 12 0.11
27 16 0.15
28 22 0.21
29 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (25 bp):
ATATATATATAATTTTTGAAAAATA
Found at i:66290 original size:27 final size:27
Alignment explanation
Indices: 66188--66281 Score: 83
Period size: 27 Copynumber: 3.6 Consensus size: 27
66178 ATATATACTA
*
66188 TATATAATTTTTGAAAACAT-ATGTAAT
1 TATATAATTTTTGAAAACATAATAT-AT
* *
66215 ATATATTACTTTTG-AAA-A-AA-AT-T
1 -TATATAATTTTTGAAAACATAATATAT
*
66238 CATATAATTTTTGAAAACATAATATAT
1 TATATAATTTTTGAAAACATAATATAT
*
66265 TATATAATTTTTAAAAA
1 TATATAATTTTTGAAAA
66282 GTAAATATAG
Statistics
Matches: 52, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
22 10 0.19
23 4 0.08
24 1 0.02
25 3 0.06
26 4 0.08
27 19 0.37
28 11 0.21
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (27 bp):
TATATAATTTTTGAAAACATAATATAT
Found at i:66318 original size:3 final size:3
Alignment explanation
Indices: 66302--66400 Score: 134
Period size: 3 Copynumber: 34.0 Consensus size: 3
66292 TAAACATATA
* *
66302 ATT ATT GTT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
66350 ATT ATT ATT ATT ATT ATT ATTT ATT -TT ATT -TT ATT -TT ATT -TT
1 ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
*
66392 ATT TTT ATT
1 ATT ATT ATT
66401 TTTCTTTTCT
Statistics
Matches: 87, Mismatches: 4, Indels: 10
0.86 0.04 0.10
Matches are distributed among these distances:
2 8 0.09
3 76 0.87
4 3 0.03
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
ATT
Found at i:66401 original size:6 final size:6
Alignment explanation
Indices: 66315--66425 Score: 72
Period size: 6 Copynumber: 19.2 Consensus size: 6
66305 ATTGTTGTTA
* * * * * * * *
66315 TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA TTATTA
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
66363 TTATTAT TTA-TT TTA-TT TTA-TT TTA-TT TTATTT TTATTT TT-CTT
1 TTATT-T TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
*
66407 TT-CTT TTATTTT TTATTT T
1 TTATTT TTA-TTT TTATTT T
66426 CGGGTCCAGT
Statistics
Matches: 98, Mismatches: 3, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
5 28 0.29
6 62 0.63
7 8 0.08
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (6 bp):
TTATTT
Found at i:79558 original size:13 final size:13
Alignment explanation
Indices: 79540--79577 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
79530 GTAATGTCTA
79540 AATGTTTGATTAG
1 AATGTTTGATTAG
79553 AATGTTTGATTAG
1 AATGTTTGATTAG
*
79566 AATGCTTGATTA
1 AATGTTTGATTA
79578 TATTTTTGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.03, G:0.21, T:0.45
Consensus pattern (13 bp):
AATGTTTGATTAG
Found at i:81923 original size:2 final size:2
Alignment explanation
Indices: 81916--81954 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
81906 AGAAGGTTTC
81916 TA TA 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 TA TA T
81955 TTCTCTCACT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:84674 original size:23 final size:22
Alignment explanation
Indices: 84626--84691 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 22
84616 ATCTATTCCC
*
84626 TCAAGGAGGGAATCGGTTCCAAT
1 TCAAGG-GGGAATCGGTTCCCAT
*
84649 TCAAAGGGGGAATCGGTTCCCCT
1 TC-AAGGGGGAATCGGTTCCCAT
* * *
84672 TCATGGGGGTATCGATTCCC
1 TCAAGGGGGAATCGGTTCCC
84692 TCTGCCCTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
22 15 0.41
23 18 0.49
24 4 0.11
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (22 bp):
TCAAGGGGGAATCGGTTCCCAT
Found at i:84692 original size:21 final size:21
Alignment explanation
Indices: 84610--84692 Score: 60
Period size: 23 Copynumber: 3.8 Consensus size: 21
84600 AGAACCCGTG
* *
84610 GGGGGTATCTATTCCC-TCAA
1 GGGGGAATCGATTCCCTTCAA
* *
84630 GGAGGGAATCGGTTCCAATTCAAA
1 GG-GGGAATCGATTCC-CTTC-AA
* *
84654 GGGGGAATCGGTTCCCCTTCAT
1 GGGGGAATCGATT-CCCTTCAA
*
84676 GGGGGTATCGATTCCCT
1 GGGGGAATCGATTCCCT
84693 CTGCCCTATA
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
20 2 0.04
21 14 0.28
22 12 0.24
23 16 0.32
24 6 0.12
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTTCAA
Found at i:95336 original size:225 final size:225
Alignment explanation
Indices: 94996--95759 Score: 824
Period size: 225 Copynumber: 3.4 Consensus size: 225
94986 ACCTGGAAAC
* * * * * * *
94996 GCATCCAGTACCGACTGCATTTTAGCTTAACTCAGTGGCGATGAGCCATCTTCCATTCAAATCTC
1 GCATCCAGAACTGACTGCATTTTGGCTTAACTCAGAGGCGAGGAGCCATCTTTCAGTCAAATCTC
* * * * * * * *
95061 TTTGAAA-CCAATCTCAAATGCAC-AACAAAGGATTTTGGGTTCGAAAACCAATCCAGAATCGGG
66 -TTCAAAGTCAATCTCAACTCCACGAA-GAAGGATATTGGGTTCGAAAACCAATCCAGAATTGGA
* * *
95124 TGTAGTCTAGCTTAACTCAGCGACGAGGAGCTAGTTTTCAATCGAAGTTTTCAGGTCTAGTATCA
129 TGCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGTTTACAATCGAAGTTTTCAGGTCAAGTATCA
* *
95189 ACTTCACGACGGAGGATTATTGACCCAAAAAT
194 ACTTCACGACGGAGGATTCTTAACCCAAAAAT
* * * * * *
95221 GCATCCAGAACTTACTGCATTTTGGTTTAACTCAGTGGCGGGGAGTCATCTTCCAGTCAAATCTC
1 GCATCCAGAACTGACTGCATTTTGGCTTAACTCAGAGGCGAGGAGCCATCTTTCAGTCAAATCTC
* * * * * *
95286 TTCAAAGTCATTCTTAACTCCATGAAGGAGGATATTGGGTTCGAAAACCAATCC-GAAATTAGTT
66 TTCAAAGTCAATCTCAACTCCACGAAGAAGGATATTGGGTTCGAAAACCAATCCAG-AATTGGAT
* *
95350 GCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGTTTCCAATCGAAGTTTT-AGGCCAAGTCA-CA
130 GCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGTTTACAATCGAAGTTTTCAGGTCAAGT-ATCA
* * *
95413 ACTTCACAACGGAGGATTCTTAACCCAGAAAC
194 ACTTCACGACGGAGGATTCTTAACCCAAAAAT
* * * ** *
95445 ACATCC--AAGTCGACTGCATTTTGGCTTAACTCAGCGATGAGAAGCCATCTTTCAGTCAAATCT
1 GCATCCAGAACT-GACTGCATTTTGGCTTAACTCAGAGGCGAGGAGCCATCTTTCAGTCAAATCT
* ** * *
95508 CTTCAAAGTCAATATCAACTCCACGGCGAAGGATATTGGGTTTGAAAACCAATCCAAAATTGGAT
65 CTTCAAAGTCAATCTCAACTCCACGAAGAAGGATATTGGGTTCGAAAACCAATCCAGAATTGGAT
* * * * * * *
95573 GCAGTCTAGCTTAACGCGGCGATGATGAACTAGTTTACAGTCAAAGTTTTCAGGGT-AAGTATCA
130 GCAGTCTAGCTTAACTCAGCGACGAGGAGCTAGTTTACAATCGAAGTTTTCA-GGTCAAGTATCA
* **
95637 ACTTCACGACGGAGGATTCTTAATCCGTAAAT
194 ACTTCACGACGGAGGATTCTTAACCCAAAAAT
* * * * * *
95669 GCATCCAGAACCGACTTCATTTTGACTTAACTCAAAGGCGAGGAGCCATCTTTTAGTCAAATTTC
1 GCATCCAGAACTGACTGCATTTTGGCTTAACTCAGAGGCGAGGAGCCATCTTTCAGTCAAATCTC
* *
95734 TTCGAATTCAATCTCAACTCCACGAA
66 TTCAAAGTCAATCTCAACTCCACGAA
95760 AACTAATCCA
Statistics
Matches: 444, Mismatches: 84, Indels: 22
0.81 0.15 0.04
Matches are distributed among these distances:
222 3 0.01
223 139 0.31
224 86 0.19
225 212 0.48
226 4 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (225 bp):
GCATCCAGAACTGACTGCATTTTGGCTTAACTCAGAGGCGAGGAGCCATCTTTCAGTCAAATCTC
TTCAAAGTCAATCTCAACTCCACGAAGAAGGATATTGGGTTCGAAAACCAATCCAGAATTGGATG
CAGTCTAGCTTAACTCAGCGACGAGGAGCTAGTTTACAATCGAAGTTTTCAGGTCAAGTATCAAC
TTCACGACGGAGGATTCTTAACCCAAAAAT
Found at i:96343 original size:24 final size:24
Alignment explanation
Indices: 96315--96464 Score: 121
Period size: 22 Copynumber: 6.0 Consensus size: 24
96305 TATTTAGCAT
96315 ATATATAATATATAGTTTTT-AAA
1 ATATATAATATATAGTTTTTGAAA
96338 AGTATATAATATA-A-TTTTTGAAA
1 A-TATATAATATATAGTTTTTGAAA
*
96361 ACATATGCAATATATAGTTTTTGAGAA
1 ATATAT--AATATATAGTTTTTGA-AA
* **
96388 CATATGTAACATATATAACTTTTGAAA
1 -ATATAT-A-ATATATAGTTTTTGAAA
* *
96415 ACATAT--CATATAGTTTTTGAAA
1 ATATATAATATATAGTTTTTGAAA
96437 ATATAATATATTATATAGTTTTTGAAA
1 ATAT-ATA-A-TATATAGTTTTTGAAA
96464 A
1 A
96465 AGTGCATATA
Statistics
Matches: 100, Mismatches: 13, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
22 25 0.25
23 8 0.08
24 17 0.17
25 1 0.01
26 11 0.11
27 21 0.21
28 17 0.17
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.42
Consensus pattern (24 bp):
ATATATAATATATAGTTTTTGAAA
Found at i:96410 original size:28 final size:26
Alignment explanation
Indices: 96346--96420 Score: 96
Period size: 26 Copynumber: 2.8 Consensus size: 26
96336 AAAGTATATA
*
96346 ATATAATTTTTGAAAACATATGCAAT
1 ATATAATTTTTGAAAACATATGAAAT
* *
96372 ATATAGTTTTTGAGAACATATGTAACAT
1 ATATAATTTTTGAAAACATATG-AA-AT
*
96400 ATATAACTTTTGAAAACATAT
1 ATATAATTTTTGAAAACATAT
96421 CATATAGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 20 0.49
27 1 0.02
28 20 0.49
ACGTcount: A:0.44, C:0.08, G:0.09, T:0.39
Consensus pattern (26 bp):
ATATAATTTTTGAAAACATATGAAAT
Found at i:96445 original size:20 final size:22
Alignment explanation
Indices: 96324--96446 Score: 74
Period size: 26 Copynumber: 5.2 Consensus size: 22
96314 TATATATAAT
*
96324 ATATAGTTTTT-AAAAGTATATA
1 ATATAGTTTTTGAAAA-CATATA
*
96346 ATATAATTTTTGAAAACATATGCAA
1 ATATAGTTTTTGAAAACATAT---A
*
96371 TATATAGTTTTTGAGAACATATGTAA
1 -ATATAGTTTTTGAAAACATA--T-A
*
96397 CATATA-TAACTTTTGAAAACATATC
1 -ATATAGT---TTTTGAAAACATATA
96422 ATATAGTTTTTG-AAA-ATATA
1 ATATAGTTTTTGAAAACATATA
96442 ATATA
1 ATATA
96447 TTATATAGTT
Statistics
Matches: 82, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
20 9 0.11
21 3 0.04
22 19 0.23
23 4 0.05
24 5 0.06
25 3 0.04
26 26 0.32
28 13 0.16
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (22 bp):
ATATAGTTTTTGAAAACATATA
Found at i:96488 original size:3 final size:3
Alignment explanation
Indices: 96482--96555 Score: 53
Period size: 3 Copynumber: 24.3 Consensus size: 3
96472 ATAATAAACA
* * * * *
96482 TAT TAT TAT TGT TGT TAT TAC TAT TAT TA- TAT TTT TATT TACT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT
*
96528 TCT T-T TATT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT T
96556 TTCATTTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
2 4 0.07
3 46 0.79
4 8 0.14
ACGTcount: A:0.24, C:0.04, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:98376 original size:22 final size:23
Alignment explanation
Indices: 98351--98399 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
98341 TCTTTCAATG
* *
98351 AAAGGACTTAA-CCTTTTGATTA
1 AAAGGACCTAACCCTTTTGATGA
*
98373 AAA-GACCTAACCCTTTTTATGA
1 AAAGGACCTAACCCTTTTGATGA
98395 AAAGG
1 AAAGG
98400 TTTAACATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 6 0.27
22 15 0.68
23 1 0.05
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (23 bp):
AAAGGACCTAACCCTTTTGATGA
Found at i:98452 original size:25 final size:22
Alignment explanation
Indices: 98386--98458 Score: 74
Period size: 23 Copynumber: 3.1 Consensus size: 22
98376 GACCTAACCC
98386 TTTTTATGAAAAGGTTTAACAT
1 TTTTTATGAAAAGGTTTAACAT
* *
98408 TTTTTCATGAAAAGGCTTAACCT
1 TTTTT-ATGAAAAGGTTTAACAT
* *
98431 TTAATTGTATGAAAGGGTTTAACGT
1 TT--TT-TATGAAAAGGTTTAACAT
98456 TTT
1 TTT
98459 CATAAAAGGG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 5 0.12
23 18 0.43
25 18 0.43
26 1 0.02
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (22 bp):
TTTTTATGAAAAGGTTTAACAT
Found at i:102923 original size:48 final size:48
Alignment explanation
Indices: 102827--102969 Score: 252
Period size: 48 Copynumber: 3.0 Consensus size: 48
102817 ATAAAAGGAC
102827 TTAACTTTTCCATGAAGAATATTGTTTAAA-TGGACATGATTGAATAATA
1 TTAACTTTTCCATGAAGAATATTG-TTAAATTGG-CATGATTGAATAATA
102876 TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAATA
1 TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAATA
*
102924 TTAACTTTTTCATGAAGAATATTGTTAAATTGGCATGATTGAATAA
1 TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAA
102970 CATCGATTAA
Statistics
Matches: 92, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
48 65 0.71
49 27 0.29
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.40
Consensus pattern (48 bp):
TTAACTTTTCCATGAAGAATATTGTTAAATTGGCATGATTGAATAATA
Found at i:102951 original size:24 final size:24
Alignment explanation
Indices: 102827--102951 Score: 83
Period size: 24 Copynumber: 5.2 Consensus size: 24
102817 ATAAAAGGAC
102827 TTAACTTTTCCATGAAGAATATTG
1 TTAACTTTTCCATGAAGAATATTG
* *** * * *
102851 TTTAA-ATGGACATGATTGAATAATA
1 -TTAACTTTTCCATGA-AGAATATTG
102876 TTAACTTTTCCATGAAGAATATTG
1 TTAACTTTTCCATGAAGAATATTG
* ** * * *
102900 TTAA-ATTGGCATGATTGAATAATA
1 TTAACTTTTCCATGA-AGAATATTG
*
102924 TTAACTTTTTCATGAAGAATATTG
1 TTAACTTTTCCATGAAGAATATTG
102948 TTAA
1 TTAA
102952 ATTGGCATGA
Statistics
Matches: 70, Mismatches: 26, Indels: 9
0.67 0.25 0.09
Matches are distributed among these distances:
23 7 0.10
24 40 0.57
25 23 0.33
ACGTcount: A:0.38, C:0.08, G:0.14, T:0.41
Consensus pattern (24 bp):
TTAACTTTTCCATGAAGAATATTG
Found at i:102967 original size:24 final size:24
Alignment explanation
Indices: 102843--102968 Score: 87
Period size: 24 Copynumber: 5.2 Consensus size: 24
102833 TTTCCATGAA
102843 GAATATTGTTTAAA-TGGACATGATT
1 GAATATTG-TTAAATTGG-CATGATT
* * * ** *
102868 GAATAATATTAACTTTTCCATGA-A
1 GAATATTGTTAA-ATTGGCATGATT
102892 GAATATTGTTAAATTGGCATGATT
1 GAATATTGTTAAATTGGCATGATT
* * * ** *
102916 GAATAATATTAACTTTTTCATGA-A
1 GAATATTGTTAA-ATTGGCATGATT
102940 GAATATTGTTAAATTGGCATGATT
1 GAATATTGTTAAATTGGCATGATT
102964 GAATA
1 GAATA
102969 ACATCGATTA
Statistics
Matches: 72, Mismatches: 24, Indels: 11
0.67 0.22 0.10
Matches are distributed among these distances:
23 14 0.19
24 39 0.54
25 18 0.25
26 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (24 bp):
GAATATTGTTAAATTGGCATGATT
Found at i:105175 original size:28 final size:27
Alignment explanation
Indices: 105061--105192 Score: 104
Period size: 28 Copynumber: 4.7 Consensus size: 27
105051 CTTATATAAC
* *
105061 AAATAAATACATAAAGTATTTTTTTC-
1 AAATAAATACTTAAAGTATTTTTGTCA
** * * *
105087 ATTTAAATACTTAAAATATTTTTTATTA
1 AAATAAATACTTAAAGTA-TTTTTGTCA
* *
105115 AAAGAAATATTTAAAGTTATCTTTTAGTCA
1 AAATAAATACTTAAAG-TAT-TTTT-GTCA
*
105145 AAATAAATACCTAAAGTATTTTTGGTCA
1 AAATAAATACTTAAAGTATTTTT-GTCA
**
105173 AAATAGGTACTTAAAGTATT
1 AAATAAATACTTAAAGTATT
105193 CAACTTTTTC
Statistics
Matches: 81, Mismatches: 20, Indels: 8
0.74 0.18 0.07
Matches are distributed among these distances:
26 14 0.17
27 6 0.07
28 37 0.46
29 9 0.11
30 15 0.19
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.42
Consensus pattern (27 bp):
AAATAAATACTTAAAGTATTTTTGTCA
Found at i:106660 original size:32 final size:34
Alignment explanation
Indices: 106598--106668 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 34
106588 TTTTTTAGTA
106598 TTTTAGTATTTGATATGTTTAATATCTAAATAAT
1 TTTTAGTATTTGATATGTTTAATATCTAAATAAT
* *
106632 TGTTTA-TATTTTATAT-TTT-ATATTTAAATAAT
1 T-TTTAGTATTTGATATGTTTAATATCTAAATAAT
106664 TTTTA
1 TTTTA
106669 AAATTTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 4 0.12
32 13 0.38
33 3 0.09
34 10 0.29
35 4 0.12
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (34 bp):
TTTTAGTATTTGATATGTTTAATATCTAAATAAT
Found at i:107699 original size:24 final size:24
Alignment explanation
Indices: 107632--107689 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
107622 ATATGAAATA
107632 ATTATAAAAAAGTATATTTATAAT
1 ATTATAAAAAAGTATATTTATAAT
107656 ATTATAAAAAAGTATATTTATAAT
1 ATTATAAAAAAGTATATTTATAAT
107680 ATTATAAAAA
1 ATTATAAAAA
107690 TATTTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (24 bp):
ATTATAAAAAAGTATATTTATAAT
Found at i:107701 original size:22 final size:21
Alignment explanation
Indices: 107645--107697 Score: 56
Period size: 24 Copynumber: 2.4 Consensus size: 21
107635 ATAAAAAAGT
107645 ATATTTA-TAATATTATAAAAA
1 ATATTTATTAATATTAT-AAAA
107666 AGTATATT-TATAATATTATAAAA
1 A-TAT-TTAT-TAATATTATAAAA
107689 ATATTTATT
1 ATATTTATT
107698 TAATTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
21 4 0.15
22 7 0.26
23 7 0.26
24 9 0.33
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATTTATTAATATTATAAAA
Found at i:107887 original size:23 final size:23
Alignment explanation
Indices: 107861--107917 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
107851 AATTTAAAAA
107861 TAATATTATTTCAAATAAATAAT
1 TAATATTATTTCAAATAAATAAT
*
107884 TAATATTATTTGAAATAAATAAT
1 TAATATTATTTCAAATAAATAAT
*
107907 TAATATAATTT
1 TAATATTATTT
107918 TAAAAATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (23 bp):
TAATATTATTTCAAATAAATAAT
Found at i:107921 original size:19 final size:20
Alignment explanation
Indices: 107875--107964 Score: 60
Period size: 23 Copynumber: 4.3 Consensus size: 20
107865 ATTATTTCAA
*
107875 ATAAATAATTAATATTATTT
1 ATAAATAATTAATATAATTT
107895 GAAATAAATAATTAATATAATTTT
1 ---ATAAATAATTAATATAA-TTT
* * *
107919 AAAAATAAAATAA-ATATTTT
1 ATAAAT-AATTAATATAATTT
*
107939 A-AAATAATT-TTATAATATT
1 ATAAATAATTAATATAAT-TT
107958 ATAAATA
1 ATAAATA
107965 TACTTTTAGA
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
18 7 0.13
19 7 0.13
20 9 0.16
21 8 0.15
22 5 0.09
23 16 0.29
24 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
ATAAATAATTAATATAATTT
Found at i:107971 original size:22 final size:21
Alignment explanation
Indices: 107931--107977 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
107921 AAATAAAATA
* *
107931 AATATTTTAAAATAATTTTAT
1 AATATTATAAAATAATTTTAG
*
107952 AATATTATAAATATACTTTTAG
1 AATATTATAAA-ATAATTTTAG
107974 AATA
1 AATA
107978 ATAATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (21 bp):
AATATTATAAAATAATTTTAG
Found at i:107978 original size:33 final size:34
Alignment explanation
Indices: 107935--108000 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 34
107925 AAAATAAATA
**
107935 TTTTAAAATAATTTTAT-AATATTATAAATATAC
1 TTTTAAAATAATAATATAAATATTATAAATATAC
* *
107968 TTTTAGAATAATAATATAAATTTTATAAATATA
1 TTTTAAAATAATAATATAAATATTATAAATATA
108001 TATGAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 14 0.50
34 14 0.50
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.47
Consensus pattern (34 bp):
TTTTAAAATAATAATATAAATATTATAAATATAC
Found at i:110453 original size:15 final size:15
Alignment explanation
Indices: 110435--110467 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
110425 TACTATGAGT
*
110435 ATATGTTCTATGTGA
1 ATATGTTCTATGTAA
110450 ATATGTTCTATGTAA
1 ATATGTTCTATGTAA
110465 ATA
1 ATA
110468 AATGATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.45
Consensus pattern (15 bp):
ATATGTTCTATGTAA
Found at i:110610 original size:23 final size:23
Alignment explanation
Indices: 110580--110654 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
110570 ATTCTACGTA
110580 GTCCTTTGGGACAATTTTATGTG
1 GTCCTTTGGGACAATTTTATGTG
*
110603 GTCCTTTGGGACAATTCTATGTG
1 GTCCTTTGGGACAATTTTATGTG
* * * *
110626 GTCATCCT-GGATAAATTTATGTG
1 GTCCT-TTGGGACAATTTTATGTG
110649 GTCCTT
1 GTCCTT
110655 CGAGACAAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (23 bp):
GTCCTTTGGGACAATTTTATGTG
Found at i:110664 original size:23 final size:23
Alignment explanation
Indices: 110580--110671 Score: 87
Period size: 23 Copynumber: 4.0 Consensus size: 23
110570 ATTCTACGTA
* *
110580 GTCCTTTGGGACAATTTTATGTG
1 GTCCTTCGGGACAAATTTATGTG
*
110603 GTCCTTTGGGAC-AATTCTATGTG
1 GTCCTTCGGGACAAATT-TATGTG
* * * *
110626 GTCATCCTGGATAAATTTATGTG
1 GTCCTTCGGGACAAATTTATGTG
* *
110649 GTCCTTCGAGACAAATCTATGTG
1 GTCCTTCGGGACAAATTTATGTG
110672 CCTTTTCAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
22 3 0.05
23 48 0.87
24 4 0.07
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.38
Consensus pattern (23 bp):
GTCCTTCGGGACAAATTTATGTG
Found at i:116987 original size:696 final size:696
Alignment explanation
Indices: 115120--117212 Score: 3567
Period size: 688 Copynumber: 3.0 Consensus size: 696
115110 TATATATCAA
* *
115120 GGAGATTATTCGACTTCATGGAGTTTCGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
1 GGAGATTGTTCGACTTCATGGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
115185 CAATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACATCCTCTCAC
66 CAATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAG--CA-CC-C-CA-
*
115250 CCCAAAGACAGATGGTTAATTTGAGCGGACTATCTAGGTTTTGGAAGATA-AGTTAAGGGCGTGT
125 --C--AGACAGATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATA-TTAAGGGCGTGT
*
115314 GTGATTGATTTCAATAGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAG
185 GTGATTGATTTCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAG
115379 TTATCAATCCAGCTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTAC
250 TTATCAATCCAGCTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTAC
*
115444 TTAATTGGTACGAATTAAAGGATTGGGAAGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAA
315 TTAATTGGTACGAATTAAAGGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAA
*
115509 AAGGTCCAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTATACGGATTT
380 AAGGTCCAGGTGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACACGGATTT
* * *
115574 AAAAAGAAAAGAGATTGAGTATCAAATAGGAGATAAAGTGTTTTTGAAAGTCTCTTATTGGAAAA
445 AAAAAGAAAAGAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTAATTGGAATA
* *
115639 AAATGTTTCATTTTGGTTGAAAGGAAAATCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATA
510 AAGTGTTTCATTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATA
115704 AAGAGAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGT
575 AAGAGAGTGGGACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGT
115769 TTTTCATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC
640 TTTTCATGTTTCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC
* *
115826 GAAGATTGTTCGACTTTATGGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
1 GGAGATTGTTCGACTTCATGGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
* *
115891 CAATAG-TTTGGAAGTCTTTACATGAAGCCTTAGGTTCTTGATTGAACTTT--------ATAGAC
66 CAAT-GTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACCCCACAGAC
* * *
115947 AGATGGTCAATTTGAACGGACTATCTAGGTTTTGGAAGATATGTTAAGGGCGTGCGTGATTGATT
130 AGATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATATTAAGGGCGTGTGTGATTGATT
*
116012 TCAATGGATCTTAGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATCAATCC
195 TCAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATCAATCC
* *
116077 AGCTTTAAAAAAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTGCTTAATTGGTA
260 AGCTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTACTTAATTGGTA
116142 CGAATTAAAGGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAGGTCCAGG
325 CGAATTAAAGGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAGGTCCAGG
* *
116207 TGATCCAACATAACCTTAAAGTGGCATCAGACAAATAAAAGTCCTACACGAATTTAAAAAGAAAA
390 TGATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACACGGATTTAAAAAGAAAA
* *
116272 GAGATTGAGTATTAAGTAGGGGATAAAGTGTTTTTGAAAGTCTCTAATTGGAATAAAGTGTTTCA
455 GAGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTAATTGGAATAAAGTGTTTCA
116337 TTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAGAGAGTGG
520 TTTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAGAGAGTGG
* * *
116402 GACGAGTAGCATATCAGTTAGCATTGCCACTAGAAATGGAGAAGATCCATAATTTTTTTCATGTT
585 GACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTTCATGTT
* * *
116467 TCCATGTTCAGAAGATATCGATCAGATCCTTCTCACATTATAACAAC
650 TCGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC
*
116514 GGAGATTGTTCGACTTCATAGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
1 GGAGATTGTTCGACTTCATGGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
*
116579 CAATGTTTTGGAAGTCTTTACATAAAGCCTTAGGTTCTCGATTGAACTTTAGCACCCCACAGACA
66 CAATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACCCCACAGACA
*
116644 GATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATATTAAGGGCGTGTGTGATTGAATT
131 GATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATATTAAGGGCGTGTGTGATTGATTT
*
116709 CAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATCAATCGA
196 CAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATCAATCCA
* * * *
116774 GCTTTAACATGGTACCGTATGAGGCGTTGTATGGAAGAAAATATAGAACACTACTTAATTGGTAC
261 GCTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTACTTAATTGGTAC
* *
116839 GAATTAAAAGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAATAAAAGGTCCAGGT
326 GAATTAAAGGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAGGTCCAGGT
* * *
116904 GATCCAACATAACCTTAAAGTGGCATCAGATAAACAAAAGTTCTACGCGGATTTAAAAAGAAAAG
391 GATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACACGGATTTAAAAAGAAAAG
* *
116969 AGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTCATTAGAATAAAGTGTTTCAT
456 AGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTAATTGGAATAAAGTGTTTCAT
* *
117034 TTTAGTTGAAAGGAAAAGCTCAGTTCTAGATTCATTAGCCCGTATGAGATTATAAAGAGAGTGGG
521 TTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAGAGAGTGGG
*
117099 ACGAGTAACATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTTCATGTTT
586 ACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTTCATGTTT
117164 CGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC
651 CGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC
117210 GGA
1 GGA
117213 AGAGATAGAA
Statistics
Matches: 1307, Mismatches: 69, Indels: 32
0.93 0.05 0.02
Matches are distributed among these distances:
687 1 0.00
688 653 0.50
693 1 0.00
696 543 0.42
706 108 0.08
707 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.30
Consensus pattern (696 bp):
GGAGATTGTTCGACTTCATGGAGTTTTGAGTTCAATAGTATCTGACAGAGATCCAAGGTTTACGT
CAATGTTTTGGAAGTCTTTACATGAAGCCTTAGGTTCTCGATTGAACTTTAGCACCCCACAGACA
GATGGTCAATTTGAGCGGACTATCTAGGTTTTGGAAGATATATTAAGGGCGTGTGTGATTGATTT
CAATGGATCTTGGGAGAAGTATATGCTGCTCGCAGAGTTTGCGTACAATAACAGTTATCAATCCA
GCTTTAAAATAGTACCGTATGAGGCATTGTATGGAAGAAAATGTAGAACACTACTTAATTGGTAC
GAATTAAAGGATTGGGACGTTCTTGGTCCTGATTTGATTAAAGAAGTAGAAGAAAAGGTCCAGGT
GATCCAACATAACCTTAAAGTGGCATCAGACAAACAAAAGTCCTACACGGATTTAAAAAGAAAAG
AGATTGAGTATCAAGTAGGAGATAAAGTGTTTTTGAAAGTCTCTAATTGGAATAAAGTGTTTCAT
TTTGGTTGAAAGGAAAAGCTCAGTCCTAGATTCATTAGCCCGTATGAGATTATAAAGAGAGTGGG
ACGAGTAGCATATCAGTTAGCATTGCCACCAGAAATGGAGAAGATCCACAATGTTTTTCATGTTT
CGATGCTCAGAAGATATCGATCAGATCCTTCTCACATCATAACAAC
Found at i:118778 original size:15 final size:15
Alignment explanation
Indices: 118760--118789 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
118750 TATGAGTATT
118760 TGTTCTATGTGAATA
1 TGTTCTATGTGAATA
118775 TGTTCTATGTGAATA
1 TGTTCTATGTGAATA
118790 AATGATAATT
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:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (15 bp):
TGTTCTATGTGAATA
Found at i:118950 original size:23 final size:23
Alignment explanation
Indices: 118892--118950 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 23
118882 GAGTCGAGGG
* *
118892 ATTCTACGCGGTCTTTCGGGACA
1 ATTCTAAGCGGTCCTTCGGGACA
* * * *
118915 ATTTTATGTGGTCCTTCGTGACA
1 ATTCTAAGCGGTCCTTCGGGACA
118938 ATTCTAAGCGGTC
1 ATTCTAAGCGGTC
118951 ATCTTGAACA
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.22, G:0.24, T:0.36
Consensus pattern (23 bp):
ATTCTAAGCGGTCCTTCGGGACA
Found at i:118973 original size:23 final size:23
Alignment explanation
Indices: 118901--118994 Score: 75
Period size: 23 Copynumber: 4.1 Consensus size: 23
118891 GATTCTACGC
* * * *
118901 GGTCTTTCGGGACAATTTTATGT
1 GGTCCTTCGAGACAAATCTATGT
* * * *
118924 GGTCCTTCGTGACAATTCTAAGC
1 GGTCCTTCGAGACAAATCTATGT
*
118947 GGTCATCTT-GA-ACAAATTTATGT
1 GGTC--CTTCGAGACAAATCTATGT
118970 GGTCCTTCGAGACAAATCTATGT
1 GGTCCTTCGAGACAAATCTATGT
118993 GG
1 GG
118995 CATTTCAGTG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
21 3 0.05
22 2 0.04
23 47 0.84
24 1 0.02
25 3 0.05
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.35
Consensus pattern (23 bp):
GGTCCTTCGAGACAAATCTATGT
Found at i:119834 original size:22 final size:21
Alignment explanation
Indices: 119808--119855 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
119798 ATTTTCTGGA
119808 AAAAAATCAAAAAAAAATTGTTT
1 AAAAAA-C-AAAAAAAATTGTTT
**
119831 AAAAAACAAAAACTATTGTTT
1 AAAAAACAAAAAAAATTGTTT
119852 AAAA
1 AAAA
119856 CCAAACGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 16 0.70
22 1 0.04
23 6 0.26
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (21 bp):
AAAAAACAAAAAAAATTGTTT
Found at i:122230 original size:9 final size:9
Alignment explanation
Indices: 122208--122250 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
122198 TTGAATTTAA
*
122208 AAAAAATCAG
1 AAAAAAT-AC
122218 AAAAAATAC
1 AAAAAATAC
122227 AAAAAATTAC
1 AAAAAA-TAC
*
122237 AAAAATTAC
1 AAAAAATAC
122246 AAAAA
1 AAAAA
122251 CAATTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
9 15 0.50
10 15 0.50
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAAATAC
Found at i:122232 original size:19 final size:19
Alignment explanation
Indices: 122208--122250 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
122198 TTGAATTTAA
*
122208 AAAAAATCAGAAAAAATAC
1 AAAAAATCACAAAAAATAC
* *
122227 AAAAAATTACAAAAATTAC
1 AAAAAATCACAAAAAATAC
122246 AAAAA
1 AAAAA
122251 CAATTAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAAAATCACAAAAAATAC
Found at i:122314 original size:115 final size:115
Alignment explanation
Indices: 122111--122326 Score: 301
Period size: 115 Copynumber: 1.9 Consensus size: 115
122101 TGAATTTAAA
*
122111 AAAAAATCAGAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
1 AAAAAATCACAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
*
122176 TCAATCTTGCAAATTAGTATACTTGAATTTAAAAAAAATCAGAAAAAATAC
66 TCAATCTTGCAAATTAATATACTTGAA-TTAAAAAAAATCAGAAAAAATAC
* * *
122227 AAAAAATTACAAAAATTACAAAA-ACAATTAGTATGTTTATTTATCTAATTTCAATGTATTTTTA
1 AAAAAATCACAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
* ** * * *
122291 T-ATATTTTTTAATTTAATTTACTTTAATTAAAAAAA
66 TCA-ATCTTGCAAATTAATATACTTGAATTAAAAAAA
122327 TGTATCATGA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
114 10 0.11
115 57 0.65
116 21 0.24
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (115 bp):
AAAAAATCACAAAAATTACAAAATAAAATTAGTATGCTTATTTATCTAATTTCAATGTATTTTTA
TCAATCTTGCAAATTAATATACTTGAATTAAAAAAAATCAGAAAAAATAC
Found at i:125899 original size:2 final size:2
Alignment explanation
Indices: 125845--125891 Score: 69
Period size: 2 Copynumber: 23.5 Consensus size: 2
125835 TACTATGTTG
*
125845 TA TA T- TA TA TA GTA TA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
125887 TA TA T
1 TA TA T
125892 CAATATATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:127217 original size:30 final size:30
Alignment explanation
Indices: 127183--127260 Score: 84
Period size: 31 Copynumber: 2.6 Consensus size: 30
127173 CTAGTTTAGA
* *
127183 CCCTTAAATTTCTATTTTTGATATTTTTGT
1 CCCTTAAATTTTTATTTTTGATATTTTTAT
* * *
127213 CCCTTAACCTTTTTGTTTTTGCTATTTTTAT
1 CCCTTAA-ATTTTTATTTTTGATATTTTTAT
* *
127244 CCTTTACATTTTTATTT
1 CCCTTAAATTTTTATTT
127261 ATTTATTATA
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
30 15 0.39
31 23 0.61
ACGTcount: A:0.17, C:0.17, G:0.05, T:0.62
Consensus pattern (30 bp):
CCCTTAAATTTTTATTTTTGATATTTTTAT
Found at i:127274 original size:2 final size:2
Alignment explanation
Indices: 127267--127295 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127257 ATTTATTTAT
127267 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
127296 TCTTTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131585 original size:99 final size:98
Alignment explanation
Indices: 131394--131602 Score: 312
Period size: 99 Copynumber: 2.1 Consensus size: 98
131384 CGTATACCCG
* * *
131394 GATTATAATATTATACAATAAAGCTTGAGCTGTTCCTCTAAAGCAATTGGTTAAACTCCCCGGCT
1 GATTATAATATTATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACTCCCCGACT
*
131459 TTATGGATAAGATTCAACTAACCTGATAAAGGT
66 TTATGGATAAGATTCAACTAACATGATAAAGGT
* * *
131492 GATTATAATATCTATACAATAAAGCTTGAGTTGTCCCTCTAAATAAATTGGTTAAA-TGCCTCGA
1 GATTATAATAT-TATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACT-CCCCGA
* *
131556 CTTTATGGATAAGATTCAGCTAGCATGATAAAGGT
64 CTTTATGGATAAGATTCAACTAACATGATAAAGGT
131591 GATTATAATATT
1 GATTATAATATT
131603 GAGCTGTCCC
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
98 13 0.13
99 87 0.87
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.33
Consensus pattern (98 bp):
GATTATAATATTATACAATAAAGCTTGAGCTGTCCCTCTAAAGAAATTGGTTAAACTCCCCGACT
TTATGGATAAGATTCAACTAACATGATAAAGGT
Found at i:133370 original size:85 final size:85
Alignment explanation
Indices: 133218--133604 Score: 558
Period size: 85 Copynumber: 4.5 Consensus size: 85
133208 TATCACAACT
* * *
133218 TAGCTCAGGGCGAGAAGGGCTATCTGTCAGCAAAAAAAACCTTCGACTTCGATTACATTCAGCTC
1 TAGCTCAAGGCGAGAAGGGCTATCTGT---CAACAAAAACCTTCGAGTTCGATTACATTCAGCTC
133283 AAGGACATATCAAATTTACAGCG
63 AAGGACATATCAAATTTACAGCG
*
133306 TAGCTCAAGGCGAGAACGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAG
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAG
*
133371 GACATATCAAATTTATAGCG
66 GACATATCAAATTTACAGCG
*
133391 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAAC--AAAAACCTTCGAGTTCGATTACATTCAGCTCA
*
133456 AGGACATGTCAAATTTACAGCG
64 AGGACATATCAAATTTACAGCG
* * * * * *
133478 TAGCTCAAGGCAAGAAGGACTATATGTCAACAAAAACCTTCGGGGTTTGATTGCATTCAGCTCAA
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTC-GAGTTCGATTACATTCAGCTCAA
**
133543 GGACATATCAAATTTACAGTA
65 GGACATATCAAATTTACAGCG
* * *
133564 TAACTCAAGGCGAGAAGGGTTATCTGTCAACAAATACCTTC
1 TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTC
133605 TTCAGCTCAA
Statistics
Matches: 271, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
85 94 0.35
86 73 0.27
87 79 0.29
88 25 0.09
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (85 bp):
TAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAAAACCTTCGAGTTCGATTACATTCAGCTCAAG
GACATATCAAATTTACAGCG
Found at i:133508 original size:172 final size:173
Alignment explanation
Indices: 133218--133597 Score: 602
Period size: 173 Copynumber: 2.2 Consensus size: 173
133208 TATCACAACT
* * *
133218 TAGCTCAGGGCGAGAAGGGCTATCTGTCAGCAAAAAAAACCTTCGACTTCGATTACATTCAGCTC
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAAC-AAAAAAACCTTCGACTTCGATTACATTCAGCTC
* *
133283 AAGGACATATCAAATTTACAGCGTAGCTCAAGGCGAGAACGGCTATCTGTCAACAAAAACCTTC-
65 AAGGACATATCAAATTTACAGCGTAGCTCAAGGCAAGAACGGCTATATGTCAACAAAAACCTTCG
* *
133347 GAGTTCGATTACATTCAGCTCAAGGACATATCAAATTTATAGCG
130 GAGTTCGATTACATTCAGCTCAAGGACATATCAAATTTACAGCA
*
133391 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAAACCTTCGAGTTCGATTACATTCAGCTCA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAAACCTTCGACTTCGATTACATTCAGCTCA
*
133456 AGGACATGTCAAATTTACAGCGTAGCTCAAGGCAAGAA-GGACTATATGTCAACAAAAACCTTCG
66 AGGACATATCAAATTTACAGCGTAGCTCAAGGCAAGAACGG-CTATATGTCAACAAAAACCTTCG
* * * *
133520 GGGTTTGATTGCATTCAGCTCAAGGACATATCAAATTTACAGTA
130 GAGTTCGATTACATTCAGCTCAAGGACATATCAAATTTACAGCA
*
133564 TAACTCAAGGCGAGAAGGGTTATCTGTCAACAAA
1 TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAA
133598 TACCTTCTTC
Statistics
Matches: 191, Mismatches: 14, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
171 2 0.01
172 90 0.47
173 99 0.52
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.24
Consensus pattern (173 bp):
TAGCTCAAGGCGAGAAGGGTTATCTGTCAACAAAAAAACCTTCGACTTCGATTACATTCAGCTCA
AGGACATATCAAATTTACAGCGTAGCTCAAGGCAAGAACGGCTATATGTCAACAAAAACCTTCGG
AGTTCGATTACATTCAGCTCAAGGACATATCAAATTTACAGCA
Found at i:133650 original size:72 final size:72
Alignment explanation
Indices: 133533--133669 Score: 204
Period size: 72 Copynumber: 1.9 Consensus size: 72
133523 TTTGATTGCA
** *
133533 TTCAGCTCAAGGACATATCAAATTTACAGTATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAA
1 TTCAGCTCAAGGACATATCAAATTTACACCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAA
133598 TACCTTC
66 TACCTTC
* * *
133605 TTCAGCTCAAGGGA-ATGTCAAATTTACACCATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAA
1 TTCAGCTCAA-GGACATATCAAATTTACACCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAA
133669 A
65 A
133670 AACTGTCGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
72 55 0.95
73 3 0.05
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (72 bp):
TTCAGCTCAAGGACATATCAAATTTACACCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAA
TACCTTC
Found at i:134415 original size:21 final size:18
Alignment explanation
Indices: 134375--134421 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
134365 TATTATGTTG
134375 TATATTATATAGTATAAA
1 TATATTATATAGTATAAA
*
134393 TATATATATATATTATATGAA
1 TATAT-TATATAGTATA--AA
134414 TATATTAT
1 TATATTAT
134422 TACATTGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 5 0.20
19 10 0.40
20 3 0.12
21 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (18 bp):
TATATTATATAGTATAAA
Found at i:134884 original size:22 final size:21
Alignment explanation
Indices: 134835--134885 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
134825 GAACCCAATC
* *
134835 GAAAAAATAGAGAGTTTCGAA
1 GAAAAAATAAAGAGATTCGAA
*
134856 AAGAAAAATAAAGAGATTCGAA
1 GA-AAAAATAAAGAGATTCGAA
134878 GGAAAAAA
1 -GAAAAAA
134886 ATACAGAACC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 1 0.04
22 22 0.92
23 1 0.04
ACGTcount: A:0.61, C:0.04, G:0.22, T:0.14
Consensus pattern (21 bp):
GAAAAAATAAAGAGATTCGAA
Found at i:137506 original size:2 final size:2
Alignment explanation
Indices: 137499--137531 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
137489 ACTCACTTTT
137499 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 T
137532 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:138617 original size:2 final size:2
Alignment explanation
Indices: 138610--138644 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
138600 TCATGTTATG
*
138610 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
138645 TATTTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:138725 original size:24 final size:25
Alignment explanation
Indices: 138697--138744 Score: 80
Period size: 24 Copynumber: 1.9 Consensus size: 25
138687 GTTTGATTTA
138697 ATTATTTTAATAG-GTAGTGGTTTG
1 ATTATTTTAATAGCGTAGTGGTTTG
138721 ATTATTTTAATAGCTGTAGTGGTT
1 ATTATTTTAATAGC-GTAGTGGTT
138745 AAGGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 13 0.59
26 9 0.41
ACGTcount: A:0.25, C:0.02, G:0.23, T:0.50
Consensus pattern (25 bp):
ATTATTTTAATAGCGTAGTGGTTTG
Found at i:139048 original size:21 final size:21
Alignment explanation
Indices: 138985--139055 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
138975 TTTATTTTTT
* *
138985 TATTTTGTT-TTC-TTTATCA
1 TATTTTTTTATTCTTTTTTCA
* * *
139004 T-TTTTTTTATTATTATATTAA
1 TATTTTTTTATTCTT-TTTTCA
139025 TATTTTTTTATTCTTTTTTCA
1 TATTTTTTTATTCTTTTTTCA
139046 TATTTTTTTA
1 TATTTTTTTA
139056 ACAATCTAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
18 6 0.15
19 3 0.08
20 1 0.03
21 18 0.45
22 12 0.30
ACGTcount: A:0.20, C:0.06, G:0.01, T:0.73
Consensus pattern (21 bp):
TATTTTTTTATTCTTTTTTCA
Found at i:139139 original size:20 final size:20
Alignment explanation
Indices: 139110--139150 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
139100 AAAGGTAATT
* *
139110 TATTTGAATTGAATTTTTTA
1 TATTTAAATTGAAATTTTTA
*
139130 TATTTAAATTTAAATTTTTA
1 TATTTAAATTGAAATTTTTA
139150 T
1 T
139151 TTTCGTGATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (20 bp):
TATTTAAATTGAAATTTTTA
Found at i:141791 original size:94 final size:95
Alignment explanation
Indices: 141683--141880 Score: 281
Period size: 95 Copynumber: 2.1 Consensus size: 95
141673 ATTATAATTA
* *
141683 TATATATATACAATAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAA-GGACCGACTTTATG
1 TATA-ATATACAATAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAACGCACCGACTTCATG
*
141747 GATAAGATTCAGCTAGCCCGATAGAGGCGAT
65 GATAAGATTCAGCTAGCCCGATAAAGGCGAT
* * * * *
141778 TATAATATACAATAAAGCTTGAGTTGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCTTCATGG
1 TATAATATACAATAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAACGCACCGACTTCATGG
* * *
141843 ATAATATTCAGCTAGCCTGATAAAGGTGAT
66 ATAAGATTCAGCTAGCCCGATAAAGGCGAT
141873 TATAATAT
1 TATAATAT
141881 TAAGCTGTCC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
94 42 0.46
95 49 0.54
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (95 bp):
TATAATATACAATAAAACTTGAGATGTCCCTCTAGAGCAAATGGTTAAACGCACCGACTTCATGG
ATAAGATTCAGCTAGCCCGATAAAGGCGAT
Found at i:143057 original size:171 final size:171
Alignment explanation
Indices: 142759--144057 Score: 1486
Period size: 171 Copynumber: 7.7 Consensus size: 171
142749 TGACATGTTG
* * * * *
142759 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACACAAAGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
* * * * * * *
142824 TAGAAAGGTTATCTATCAAC-AAAGACCTTCGAGTTCAATTACATTCAGCTTAAAGGCATATCAA
66 GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * * *
142888 ATTTACAGCATAGCTCAAGGCGAGAAGAGCTATATGTCGAC
131 ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
* * * * *
142929 AAAGACCTTCGAGTTCAATTACACTCAGCTTAAAGACACATCAAATTTACAACATAGCTCAAGGT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
* * * *
142994 GAAAAGGGCTATTTGTAAACAAAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGCATATCAA
66 GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * * *
143059 ATTTATAGCATAAATCAAAGCGAGAAGGGTTATCTGTCAAC
131 ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
* * * *
143100 CAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGCATATCAAA-TTACAGCATAGCTCAAGGT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
* * * * *
143164 GAGAATGGCTATCTATCAAC-CAAGACCTTTGTA-TTCGATTACAATCAGCTCAAAGG-----C-
66 GAGAAGGGCTATCTGTCAACAAAAGACCTTCG-AGTTCGATTACACTCAGCTCAAAGGCATATCA
*
143221 -ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTTAAC
130 AATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
*
143262 AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGG
*
143327 CGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCA
65 CGAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCA
* * *
143392 AATTTACAACATAACTCAAGGTGAGAAGGGTTATCTGTCAAC
130 AATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
* * * * *
143434 CAAGACATTCGAGTTCGATTACACTCAGCTCAAAGG-----C--GTTTACAGCATAACTCAAGGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
* * * * * * * * * *
143492 GAAAAGGGTTATCTGTCAGCAAAAGGCATTCGAGTTCGATTAAATTCAACTCAAAGGTACATCAA
66 GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * ** * *
143557 AATTACAACATTGCTCAAGGCGAGAATAGTTATTTGTCAAC
131 ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
* * * * *
143598 CAAGACCTTCAAGTTTGATTACACTCAGCTCAAAGGCATATCCAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
* *
143663 GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCA
66 GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
* * *
143728 ATTTACATCACAACTCAAGGCGAGAAGGGTTATCTGTCAAC
131 ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
* * * * * *
143769 CAAGACCTTTGAGTTCAATTACACTCAGCTCAAAGGCACATCCAACTTACAACATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
* * * * * *
143834 GAGAAGGGCTATATGTTAACAAAAGACCTTCGAGTTCGATCACACTAAGCTCAAATGCATATCCA
66 GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
143899 ATTTACAGCATAACTCAAGGCGAGAAG-GCTTATCTGTCAAC
131 ATTTACAGCATAACTCAAGGCGAGAAGAG-TTATCTGTCAAC
* * * * ** * * **
143940 AAAAGACCTTTGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAATTTACAGCTTAGCTTAATT
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGG
** * * * *
144005 CGAGAAAAGCTATTTGTCAACAAAA-AACTGTCGAGTTCGATTCCATTCAGCTC
65 CGAGAAGGGCTATCTGTCAACAAAAGACCT-TCGAGTTCGATTACACTCAGCTC
144058 GATGACACAT
Statistics
Matches: 955, Mismatches: 151, Indels: 44
0.83 0.13 0.04
Matches are distributed among these distances:
162 36 0.04
163 41 0.04
164 177 0.19
165 30 0.03
166 1 0.00
169 31 0.03
170 104 0.11
171 408 0.43
172 127 0.13
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (171 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGGC
GAGAAGGGCTATCTGTCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAA
ATTTACAGCATAACTCAAGGCGAGAAGAGTTATCTGTCAAC
Found at i:143060 original size:86 final size:85
Alignment explanation
Indices: 142759--144057 Score: 1390
Period size: 86 Copynumber: 15.4 Consensus size: 85
142749 TGACATGTTG
* * *
142759 AAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAGCATAACACAAAGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * * *
142824 TAGAAAGGTTATCTATCAAC
66 GAGAAGGGCTATCTGTCAAC
* * * *
142844 AAAGACCTTCGAGTTCAATTACATTCAGCTTAAAGGCATATCAAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * *
142909 GAGAAGAGCTATATGTCGAC
66 GAGAAGGGCTATCTGTCAAC
* * * * * * *
142929 AAAGACCTTCGAGTTCAATTACACTCAGCTTAAAGACACATCAAATTTACAACATAGCTCAAGGT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * *
142994 GAAAAGGGCTATTTGTAAAC
66 GAGAAGGGCTATCTGTCAAC
* * * *
143014 AAAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGCATATCAAATTTATAGCATAAATCAAAG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
*
143079 CGAGAAGGGTTATCTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* * * *
143100 CAAGACCTTCGAGTTCGATTACACTCAGTTCAAAGGCATATCAAA-TTACAGCATAGCTCAAGGT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* *
143164 GAGAATGGCTATCTATCAAC
66 GAGAAGGGCTATCTGTCAAC
* * *
143184 CAAGACCTTTGTA-TTCGATTACAATCAGCTCAAAGG-----C--ATTTACAGCATAACTCAAGG
1 AAAGACCTTCG-AGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
* * *
143241 CGAGAAGAGTTATCTGTTAAC
65 CGAGAAGGGCTATCTGTCAAC
* * *
143262 AAAAGACCTTCGAGTTCGATTACATTCAGCTCAAAGGCACATCAAATTTACAGCATAGCTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
143327 CGAGAAGGGCTATCTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* *
143348 AAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
* *
143413 TGAGAAGGGTTATCTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* * * *
143434 CAAGACATTCGAGTTCGATTACACTCAGCTCAAAGG-----C--GTTTACAGCATAACTCAAGGA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* * *
143492 GAAAAGGGTTATCTGTCAGC
66 GAGAAGGGCTATCTGTCAAC
* * * * * * * * * **
143512 AAAAGGCATTCGAGTTCGATTAAATTCAACTCAAAGGTACATCAAAATTACAACATTGCTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
** * *
143577 CGAGAATAGTTATTTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* * * * *
143598 CAAGACCTTCAAGTTTGATTACACTCAGCTCAAAGGCATATCCAATTTACAGCATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
143663 GAGAAGGGCTATCTGTCAAC
66 GAGAAGGGCTATCTGTCAAC
* * * *
143683 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCCAATTTACATCACAACTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
*
143748 CGAGAAGGGTTATCTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* * * * * * * *
143769 CAAGACCTTTGAGTTCAATTACACTCAGCTCAAAGGCACATCCAACTTACAACATAGCTCAAGGC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
* *
143834 GAGAAGGGCTATATGTTAAC
66 GAGAAGGGCTATCTGTCAAC
* * * *
143854 AAAAGACCTTCGAGTTCGATCACACTAAGCTCAAATGCATATCCAATTTACAGCATAACTCAAGG
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
143919 CGAGAA-GGCTTATCTGTCAAC
65 CGAGAAGGGC-TATCTGTCAAC
* * * * * * * * **
143940 AAAAGACCTTTGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAATTTACAGCTTAGCTTAATT
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGG
** *
144005 CGAGAAAAGCTATTTGTCAAC
65 CGAGAAGGGCTATCTGTCAAC
* * * *
144026 AAAAAACTGTCGAGTTCGATTCCATTCAGCTC
1 AAAGACCT-TCGAGTTCGATTACACTCAGCTC
144058 GATGACACAT
Statistics
Matches: 1028, Mismatches: 161, Indels: 49
0.83 0.13 0.04
Matches are distributed among these distances:
77 1 0.00
78 69 0.07
79 63 0.06
80 1 0.00
84 64 0.06
85 377 0.37
86 451 0.44
87 2 0.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAGGC
GAGAAGGGCTATCTGTCAAC
Found at i:145780 original size:7 final size:7
Alignment explanation
Indices: 145768--145811 Score: 65
Period size: 7 Copynumber: 6.6 Consensus size: 7
145758 AATATATTGT
145768 TTTTTTA
1 TTTTTTA
145775 TTTTTTA
1 TTTTTTA
145782 TTTTTTA
1 TTTTTTA
145789 --TTTTA
1 TTTTTTA
*
145794 TTTTTTT
1 TTTTTTA
145801 TTTTTTA
1 TTTTTTA
145808 TTTT
1 TTTT
145812 ATGTTTATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 5 0.15
7 28 0.85
ACGTcount: A:0.11, C:0.00, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTA
Found at i:145785 original size:5 final size:5
Alignment explanation
Indices: 145770--145845 Score: 54
Period size: 5 Copynumber: 15.6 Consensus size: 5
145760 TATATTGTTT
*
145770 TTTTA TTTT- TTATT- TTTTA TTTTA TTTT- TTTTT TTTTA TTTTA TGTTTA
1 TTTTA TTTTA TT-TTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA
* * *
145819 TGTTT- TTGT- TTTTC TTTAA TTTTA TTT
1 T-TTTA TTTTA TTTTA TTTTA TTTTA TTT
145846 AGTTCCATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
4 13 0.22
5 38 0.63
6 9 0.15
ACGTcount: A:0.13, C:0.01, G:0.04, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:145794 original size:19 final size:19
Alignment explanation
Indices: 145770--145813 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
145760 TATATTGTTT
145770 TTTTATTTTTTATTTTTTA
1 TTTTATTTTTTATTTTTTA
*
145789 TTTTATTTTTTTTTTTTTA
1 TTTTATTTTTTATTTTTTA
145808 TTTTAT
1 TTTTAT
145814 GTTTATGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTATTTTTTATTTTTTA
Found at i:145819 original size:30 final size:31
Alignment explanation
Indices: 145762--145843 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 31
145752 TAATTAAATA
* *
145762 TATTGTTTTTTTATT-TTTTATTTTTTAT-TT
1 TATTGTTTTTTTTTTATTTTA-TGTTTATGTT
*
145792 TATTTTTTTTTTTTTATTTTATGTTTATGTT
1 TATTGTTTTTTTTTTATTTTATGTTTATGTT
* *
145823 T-TTGTTTTTCTTTAATTTTAT
1 TATTGTTTTTTTTTTATTTTAT
145844 TTAGTTCCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
30 36 0.82
31 8 0.18
ACGTcount: A:0.13, C:0.01, G:0.05, T:0.80
Consensus pattern (31 bp):
TATTGTTTTTTTTTTATTTTATGTTTATGTT
Found at i:145824 original size:19 final size:18
Alignment explanation
Indices: 145778--145830 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
145768 TTTTTTATTT
*
145778 TTTATTTTTTATTTTATTT
1 TTTATTTTTTATTTTA-TG
*
145797 TTTTTTTTTTATTTTATG
1 TTTATTTTTTATTTTATG
*
145815 TTTATGTTTTTGTTTT
1 TTTAT-TTTTTATTTT
145831 TCTTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 5 0.17
19 24 0.83
ACGTcount: A:0.11, C:0.00, G:0.06, T:0.83
Consensus pattern (18 bp):
TTTATTTTTTATTTTATG
Found at i:145974 original size:26 final size:25
Alignment explanation
Indices: 145925--145999 Score: 116
Period size: 26 Copynumber: 3.0 Consensus size: 25
145915 GTTTGATTTA
*
145925 ATTATTTTAATAG-GTAGTAGTTTG
1 ATTATTTTAATAGTGTAGTGGTTTG
145949 ATTATTTTAATATGTGTAGTGGTTTG
1 ATTATTTTAATA-GTGTAGTGGTTTG
145975 ATTATTTTAATAGGTGTAGTGGTTT
1 ATTATTTTAATA-GTGTAGTGGTTT
146000 AGGTTGAATT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 12 0.26
25 1 0.02
26 34 0.72
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.52
Consensus pattern (25 bp):
ATTATTTTAATAGTGTAGTGGTTTG
Found at i:149687 original size:16 final size:16
Alignment explanation
Indices: 149662--149698 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
149652 AAAATATAAG
149662 AAAAAAGAAAATAATT
1 AAAAAAGAAAATAATT
*
149678 AAAAAGGAAAATAATT
1 AAAAAAGAAAATAATT
149694 AAAAA
1 AAAAA
149699 TTAAGATACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (16 bp):
AAAAAAGAAAATAATT
Found at i:151690 original size:25 final size:23
Alignment explanation
Indices: 151641--151685 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
151631 GAAAAAAATA
*
151641 TATATTTTATAAATATATATTTT
1 TATATTTTATAAAAATATATTTT
151664 TATATCTTTATAAAAA-ATATTT
1 TATAT-TTTATAAAAATATATTT
151686 ATTTACTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TATATTTTATAAAAATATATTTT
Found at i:151832 original size:44 final size:43
Alignment explanation
Indices: 151745--151832 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
151735 TATTTTTCTT
* *
151745 AATATTAAAAAATAAATAAATATTAATAAAACATTTTTCTAAA
1 AATAATAAAAAATAAATAAATATTAATAAAACATTTTTATAAA
* * *
151788 AATAATAAAAAATAAATTAA-ATTAATATATATATATTTTATAAA
1 AATAATAAAAAATAAATAAATATTAATA-AAACAT-TTTTATAAA
151832 A
1 A
151833 GTATGATATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 7 0.18
43 22 0.58
44 9 0.24
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (43 bp):
AATAATAAAAAATAAATAAATATTAATAAAACATTTTTATAAA
Found at i:153345 original size:3 final size:3
Alignment explanation
Indices: 153337--153417 Score: 117
Period size: 3 Copynumber: 26.0 Consensus size: 3
153327 ATTATTTATT
*
153337 TAA TAA TAA TAA TAA TAA TAA TATA TAA TATA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA TAA
*
153384 TAA TAA TAA TAA TAA TAA TATT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
153418 AAATGAAAAT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
3 63 0.89
4 8 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:153673 original size:45 final size:45
Alignment explanation
Indices: 153618--153740 Score: 183
Period size: 45 Copynumber: 2.7 Consensus size: 45
153608 CACTTTAGGT
*
153618 CTTATAGATGACCCGGAGGATTTGAAAACATCATGCACTAAAGGG
1 CTTATAGATGACCCGAAGGATTTGAAAACATCATGCACTAAAGGG
* * * *
153663 CTTACAGATGACCTGAAGGCTTTGAAAACATCATGCACTGAAGGG
1 CTTATAGATGACCCGAAGGATTTGAAAACATCATGCACTAAAGGG
* *
153708 CTTATAGATGACCCGAAGGTTTTGAAAATATCA
1 CTTATAGATGACCCGAAGGATTTGAAAACATCA
153741 AAAAGCTCCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (45 bp):
CTTATAGATGACCCGAAGGATTTGAAAACATCATGCACTAAAGGG
Found at i:153814 original size:45 final size:45
Alignment explanation
Indices: 153748--154151 Score: 695
Period size: 45 Copynumber: 9.0 Consensus size: 45
153738 TCAAAAAGCT
153748 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
153795 CCCGAAGGTTTTGAAAACATCATACACTGAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
153840 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
153885 CCCGAAGGTTTTGAAAACATCATGCACTGATGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
153930 CCCGAAGGTTTTGAAAATATCATGCACTGAA-GGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
153974 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
154019 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGG-TTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
* *
154063 CCCGAAGGTTTTGAAAACATCTTGCACTAAAGGGCTTACAGATGA
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
154108 CCCGAAGGTTTTGAAAACATCATGCATTGAAGGGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
154152 TGGGAAATAG
Statistics
Matches: 338, Mismatches: 17, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
44 83 0.25
45 247 0.73
47 8 0.02
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (45 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:154009 original size:89 final size:90
Alignment explanation
Indices: 153748--154151 Score: 695
Period size: 89 Copynumber: 4.5 Consensus size: 90
153738 TCAAAAAGCT
153748 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
1 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAAC
* *
153813 ATCATACACTGAAGGGCTTACAGATGA
64 ATCATGCACTAAAGGGCTTACAGATGA
*
153840 CCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
* *
153905 CATGCACTGATGGGCTTACAGATGA
66 CATGCACTAAAGGGCTTACAGATGA
*
153930 CCCGAAGGTTTTGAAAATATCATGCACTGAA-GGCTTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
153994 CATGCACTAAAGGGCTTACAGATGA
66 CATGCACTAAAGGGCTTACAGATGA
*
154019 CCCAAAGGTTTTGAAAACATCATGCACTGAAGGG-TTACAGATGACCCGAAGGTTTTGAAAACAT
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
*
154083 CTTGCACTAAAGGGCTTACAGATGA
66 CATGCACTAAAGGGCTTACAGATGA
*
154108 CCCGAAGGTTTTGAAAACATCATGCATTGAAGGGCTTACAGATG
1 CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
154152 TGGGAAATAG
Statistics
Matches: 298, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
89 171 0.57
90 119 0.40
92 8 0.03
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (90 bp):
CCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACAT
CATGCACTAAAGGGCTTACAGATGA
Found at i:154028 original size:134 final size:135
Alignment explanation
Indices: 153758--154151 Score: 702
Period size: 134 Copynumber: 2.9 Consensus size: 135
153748 CCCGAAGGCT
*
153758 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATACACT
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
153823 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCC
*
153888 GAAGG
131 AAAGG
* *
153893 TTTTGAAAACATCATGCACTGATGGGCTTACAGATGACCCGAAGGTTTTGAAAATATCATGCACT
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
153958 GAA-GGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCC
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCC
154022 AAAGG
131 AAAGG
*
154027 TTTTGAAAACATCATGCACTGAAGGG-TTACAGATGACCCGAAGGTTTTGAAAACATCTTGCACT
1 TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
* * *
154091 AAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGGCTTACAGATG
66 GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATG
154152 TGGGAAATAG
Statistics
Matches: 248, Mismatches: 10, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
133 38 0.15
134 145 0.58
135 65 0.26
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (135 bp):
TTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACT
GAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTAAAGGGCTTACAGATGACCC
AAAGG
Found at i:154855 original size:22 final size:22
Alignment explanation
Indices: 154821--154921 Score: 157
Period size: 22 Copynumber: 4.6 Consensus size: 22
154811 AATAAAGCTT
*
154821 TCATCTTTGAAGAGAGAATCCA
1 TCATCTTTGAAGAGAGAATCTA
* * *
154843 TCATTTTTTAAGAGAGAATATA
1 TCATCTTTGAAGAGAGAATCTA
*
154865 TCATCTTTGAAGAGTGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
154887 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
154909 TCATCTTTGAAGA
1 TCATCTTTGAAGA
154922 ATGTAGATGT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Found at i:155450 original size:54 final size:53
Alignment explanation
Indices: 155289--155454 Score: 205
Period size: 54 Copynumber: 3.1 Consensus size: 53
155279 ATAATCATTG
* *
155289 GTTCGTAAAACATTTGACAACACGATCATCCTTTTC-TGTGGCTTCTGTCCAGAG
1 GTTCTTAAAACATTTGACAACAC-ATCAT-CTTTTCTTGTGGCTTCTGTCCAGAT
* *
155343 GTT-TGTAAAACATTTGACAACACATTCATCATTTCTTGTGGTTTCTG-CACAGAT
1 GTTCT-TAAAACATTTGACAACACA-TCATCTTTTCTTGTGGCTTCTGTC-CAGAT
*
155397 GTTCTTAAAACATTTGACAGCACATCCATCTTTTCTTGTGGCTTCTGTCCAGAT
1 GTTCTTAAAACATTTGACAACACAT-CATCTTTTCTTGTGGCTTCTGTCCAGAT
155451 -TTCT
1 GTTCT
155455 GGTCAGGAAA
Statistics
Matches: 98, Mismatches: 7, Indels: 15
0.82 0.06 0.12
Matches are distributed among these distances:
53 12 0.12
54 84 0.86
55 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (53 bp):
GTTCTTAAAACATTTGACAACACATCATCTTTTCTTGTGGCTTCTGTCCAGAT
Found at i:156388 original size:75 final size:75
Alignment explanation
Indices: 156309--156554 Score: 377
Period size: 75 Copynumber: 3.3 Consensus size: 75
156299 CAGCATGCCC
* * * * ** *
156309 CAGCATGCCCTATCATTTGTTGATA-TGAACGTTCAAAATGAGTTAATATTCTAATTTCTGATTG
1 CAGCATGCCCCATCATTTGTTAATACAG-ACGTTCAAAATGCGCCAATATTCCAATTTCTGATTG
156373 AAATGGGCTTT
65 AAATGGGCTTT
*
156384 CAGCATTCCCCATCATTTGTTAATACAGACGTTCAAAATGCGCCAATATTCCAATTTCTGATTGA
1 CAGCATGCCCCATCATTTGTTAATACAGACGTTCAAAATGCGCCAATATTCCAATTTCTGATTGA
156449 AATGGGCTTT
66 AATGGGCTTT
* * *
156459 CAACATGCCCCAGCATTTGCTAATACAGACGTTCAAAATGCGCCAATATTCCAATTTCTGATTGA
1 CAGCATGCCCCATCATTTGTTAATACAGACGTTCAAAATGCGCCAATATTCCAATTTCTGATTGA
156524 AATGGGCTTT
66 AATGGGCTTT
156534 CAGCATGCCCCATCATTTGTT
1 CAGCATGCCCCATCATTTGTT
156555 GATGTGAGTA
Statistics
Matches: 155, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
75 154 0.99
76 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.34
Consensus pattern (75 bp):
CAGCATGCCCCATCATTTGTTAATACAGACGTTCAAAATGCGCCAATATTCCAATTTCTGATTGA
AATGGGCTTT
Done.