Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, 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: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 19 of 402
Found at i:4465765 original size:17 final size:19
Alignment explanation
Indices: 4465725--4465767 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4465715 AAAATGAAAA
*
4465725 AAATTTTTTTTCTTTACTT
1 AAATTTTTTTTCTTCACTT
*
4465744 TAATTTTTTTT-TTCA-TT
1 AAATTTTTTTTCTTCACTT
4465761 AAATTTT
1 AAATTTT
4465768 ATACTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 8 0.38
18 3 0.14
19 10 0.48
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (19 bp):
AAATTTTTTTTCTTCACTT
Found at i:4470753 original size:30 final size:30
Alignment explanation
Indices: 4470717--4470825 Score: 96
Period size: 30 Copynumber: 3.6 Consensus size: 30
4470707 TTTTTATTGC
*
4470717 ATTCAAACAATCTTTTAATTTTTAATTTAT
1 ATTCAAATAATCTTTTAATTTTTAATTTAT
** * **
4470747 ATTCAAATAAAATTTTAATATTTAATTTGC
1 ATTCAAATAATCTTTTAATTTTTAATTTAT
* * *
4470777 ATCCAAATAAGTCTTTAAATTTTAAATTTAT
1 ATTCAAATAA-TCTTTTAATTTTTAATTTAT
4470808 ACTT-AAATAAAT-TTTTAA
1 A-TTCAAAT-AATCTTTTAA
4470826 CATAAATCAT
Statistics
Matches: 60, Mismatches: 16, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
30 38 0.63
31 19 0.32
32 3 0.05
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (30 bp):
ATTCAAATAATCTTTTAATTTTTAATTTAT
Found at i:4472676 original size:19 final size:19
Alignment explanation
Indices: 4472639--4472680 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
4472629 AAGATAGAGG
4472639 TTCAATTTCCTTAAGTTTT
1 TTCAATTTCCTTAAGTTTT
*
4472658 ATTCAATTT-CTTCAGTTTT
1 -TTCAATTTCCTTAAGTTTT
4472677 TTCA
1 TTCA
4472681 TATTGTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 4 0.19
19 9 0.43
20 8 0.38
ACGTcount: A:0.21, C:0.17, G:0.05, T:0.57
Consensus pattern (19 bp):
TTCAATTTCCTTAAGTTTT
Found at i:4476167 original size:18 final size:18
Alignment explanation
Indices: 4476144--4476187 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4476134 TACCTCATCT
*
4476144 TCATCTTCATAATATTCA
1 TCATCTTCATAACATTCA
* *
4476162 TCATCTCCATAACCTTCA
1 TCATCTTCATAACATTCA
*
4476180 TCAACTTC
1 TCATCTTC
4476188 TTCATCACTG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.30, C:0.32, G:0.00, T:0.39
Consensus pattern (18 bp):
TCATCTTCATAACATTCA
Found at i:4477940 original size:26 final size:26
Alignment explanation
Indices: 4477904--4477954 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
4477894 CTAACGTTCC
* *
4477904 GCTTTATATATGGAAATGAAATCAAG
1 GCTTTATATATGAAAATAAAATCAAG
4477930 GCTTTATATATGAAAATAAAATCAA
1 GCTTTATATATGAAAATAAAATCAA
4477955 AGCCCGAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.47, C:0.08, G:0.14, T:0.31
Consensus pattern (26 bp):
GCTTTATATATGAAAATAAAATCAAG
Found at i:4490052 original size:2 final size:2
Alignment explanation
Indices: 4490045--4490076 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4490035 AAACCCAAAC
4490045 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4490077 GCAAATTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4496606 original size:10 final size:9
Alignment explanation
Indices: 4496593--4496653 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 9
4496583 GAGCTATTTC
4496593 ATTTTTTGGT
1 ATTTTTT-GT
4496603 ATTTTTTGT
1 ATTTTTTGT
*
4496612 TTTTTTTGT
1 ATTTTTTGT
4496621 A-TTTTT-T
1 ATTTTTTGT
* *
4496628 ATGTGTT-T
1 ATTTTTTGT
4496636 ATTTTTTAGT
1 ATTTTTT-GT
4496646 ATTTTTTG
1 ATTTTTTG
4496654 CATGATTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
7 2 0.05
8 14 0.33
9 11 0.26
10 15 0.36
ACGTcount: A:0.11, C:0.00, G:0.13, T:0.75
Consensus pattern (9 bp):
ATTTTTTGT
Found at i:4501204 original size:8 final size:8
Alignment explanation
Indices: 4501187--4501238 Score: 61
Period size: 8 Copynumber: 6.4 Consensus size: 8
4501177 AGAAAATGAG
4501187 AAAGAGAAA
1 AAAGA-AAA
*
4501196 AAATAAAA
1 AAAGAAAA
4501204 AAATGAAAA
1 AAA-GAAAA
*
4501213 AAA-AAGA
1 AAAGAAAA
4501220 AAAGAAAA
1 AAAGAAAA
4501228 AAAGAAAA
1 AAAGAAAA
4501236 AAA
1 AAA
4501239 ATGAAAGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
7 6 0.16
8 20 0.54
9 11 0.30
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.04
Consensus pattern (8 bp):
AAAGAAAA
Found at i:4501227 original size:23 final size:23
Alignment explanation
Indices: 4501195--4501244 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
4501185 AGAAAGAGAA
*
4501195 AAAATAAAAAAATGAAAAAAAAAG
1 AAAAGAAAAAAA-GAAAAAAAAAG
*
4501219 AAAAGAAAAAAAGAAAAAAAATG
1 AAAAGAAAAAAAGAAAAAAAAAG
4501242 AAA
1 AAA
4501245 GAATGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 13 0.54
24 11 0.46
ACGTcount: A:0.84, C:0.00, G:0.10, T:0.06
Consensus pattern (23 bp):
AAAAGAAAAAAAGAAAAAAAAAG
Found at i:4501230 original size:33 final size:36
Alignment explanation
Indices: 4501173--4501253 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 36
4501163 TAATGGATGA
*
4501173 AAAAAGAAAATGAGAAAGAGAAAAAA-TAAAAAAATG
1 AAAAAGAAAATGAGAAAGA-AAAAAAGAAAAAAAATG
4501209 AAAAA-AAAA-GA-AAAGAAAAAAAGAAAAAAAATG
1 AAAAAGAAAATGAGAAAGAAAAAAAGAAAAAAAATG
4501242 AAAGAATGAAAA
1 AAA-AA-GAAAA
4501254 AAAAATGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
32 6 0.15
33 17 0.43
34 4 0.10
35 4 0.10
36 9 0.22
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (36 bp):
AAAAAGAAAATGAGAAAGAAAAAAAGAAAAAAAATG
Found at i:4501254 original size:37 final size:35
Alignment explanation
Indices: 4501173--4501274 Score: 95
Period size: 37 Copynumber: 2.9 Consensus size: 35
4501163 TAATGGATGA
* *
4501173 AAAAAGAAAATGAGAAAGAGAAAAAA-TAAAAAAATG
1 AAAAAGAAAAAGA-AAAGA-AAAAAAGAAAAAAAATG
4501209 -AAAA-AAAAAGAAAAGAAAAAAAGAAAAAAAATG
1 AAAAAGAAAAAGAAAAGAAAAAAAGAAAAAAAATG
* *
4501242 AAAGAATGAAAAA-AAAATGAAAATAAGAGAAAA
1 AAA-AA-GAAAAAGAAAA-GAAAAAAAGAAAAAA
4501275 GAAAGACTCA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
32 6 0.11
33 14 0.25
34 8 0.14
35 6 0.11
36 4 0.07
37 18 0.32
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (35 bp):
AAAAAGAAAAAGAAAAGAAAAAAAGAAAAAAAATG
Found at i:4501264 original size:8 final size:8
Alignment explanation
Indices: 4501179--4501255 Score: 52
Period size: 8 Copynumber: 9.5 Consensus size: 8
4501169 ATGAAAAAAG
4501179 AAAATGAGA
1 AAAATGA-A
*
4501188 AAGA-GAA
1 AAAATGAA
*
4501195 AAAATAAA
1 AAAATGAA
4501203 AAAATGAA
1 AAAATGAA
4501211 AAAA--AA
1 AAAATGAA
*
4501217 AGAAAAGAA
1 A-AAATGAA
*
4501226 AAAAAGAAAA
1 AAAATG--AA
4501236 AAAATGAA
1 AAAATGAA
*
4501244 AGAATGAA
1 AAAATGAA
4501252 AAAA
1 AAAA
4501256 AAATGAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
6 3 0.05
7 7 0.13
8 32 0.58
9 6 0.11
10 7 0.13
ACGTcount: A:0.79, C:0.00, G:0.14, T:0.06
Consensus pattern (8 bp):
AAAATGAA
Found at i:4502035 original size:79 final size:79
Alignment explanation
Indices: 4501866--4502035 Score: 218
Period size: 79 Copynumber: 2.2 Consensus size: 79
4501856 TAAGATATGG
* * * *
4501866 TCAAATGATGAAAATGATGTGGTACAATAGACAAAACTTGTTTTGAAATGGCTAGTGCTGAGAAA
1 TCAAGTGATGAAAATAATATGGTACAATAGACAAAACTTGTTTTGAAATAGCTAGTGCTGAGAAA
**
4501931 CCTATGAATGGTGA
66 CCTATGAATAATGA
* * * *
4501945 TCAAGTAATGAAAATAATATGG-ATCAATGGACAGAATTTGTTTTGAAATAGCTAGTGCTGAGAA
1 TCAAGTGATGAAAATAATATGGTA-CAATAGACAAAACTTGTTTTGAAATAGCTAGTGCTGAGAA
4502009 ACCTATGAATAATGA
65 ACCTATGAATAATGA
4502024 -CTAAGTGATGAA
1 TC-AAGTGATGAA
4502036 TATGGAGATG
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
78 2 0.03
79 76 0.97
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (79 bp):
TCAAGTGATGAAAATAATATGGTACAATAGACAAAACTTGTTTTGAAATAGCTAGTGCTGAGAAA
CCTATGAATAATGA
Found at i:4503169 original size:43 final size:41
Alignment explanation
Indices: 4503058--4503334 Score: 249
Period size: 41 Copynumber: 6.6 Consensus size: 41
4503048 ATTATTGAGG
4503058 AGCATTTTATTTTTCAAAGTTGTGGTGCCTC-AGTTTAAA-A
1 AGCATTTTATTTTTCAAAGTTGTGGTGCCTCTA-TTTAAAGA
*
4503098 GAGCATTTTATTTTTCAAAATTGTGGTGCCTCTATTTAAAGA
1 -AGCATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGA
* *
4503140 AGCATTTTATTTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAG-
1 AGCATTTTA--TTTTTCAAAGTTGTGGTGCCTCTATTTA-AAGA
* * *
4503183 AGCATTTTATTTTTCAAAAGTTGTTGTGCCTCTA-TGAAAAA
1 AGCATTTTATTTTTC-AAAGTTGTGGTGCCTCTATTTAAAGA
* ** * *
4503224 AGCATTTTATTTTTCAAAAATTGTGGTGTTTCTATTTAGAGG
1 AGCATTTTATTTTTC-AAAGTTGTGGTGCCTCTATTTAAAGA
* * * *
4503266 AGTATTTATTTTTTTTCAAAAGTTTGTGGTGCCTTCTGTTTAGATG-
1 AGCA-TT-TTATTTTTC-AAAG-TTGTGGTGCC-TCTATTTA-AAGA
* *
4503312 AGCCTTTTATTTTTTAAAGTTGT
1 AGCATTTTATTTTTCAAAGTTGT
4503335 TGAACCTCTG
Statistics
Matches: 194, Mismatches: 29, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.01
41 83 0.43
42 27 0.14
43 40 0.21
44 22 0.11
45 10 0.05
46 9 0.05
47 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.47
Consensus pattern (41 bp):
AGCATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAAAGA
Found at i:4503280 original size:84 final size:83
Alignment explanation
Indices: 4503058--4503299 Score: 292
Period size: 84 Copynumber: 2.9 Consensus size: 83
4503048 ATTATTGAGG
*
4503058 AGCATTTTATTTTTCAAAGTTGTGGTGCCTC-AGTTTAAAAGAGCATTTTATTTTTCAAAA-TTG
1 AGCATTTTATTTTTCAAAGTTGTGGTGCCTCTA-TTTAGAAGAGCATTTTATTTTTCAAAAGTTG
* *
4503121 TGGTGCCTCTATTTAAAGA
65 TGGTGCCTCTATTGAAAAA
* *
4503140 AGCATTTTATTTTTTTCAAAGTTATGGTGCCTCTGTTTAGAAGAGCATTTTATTTTTCAAAAGTT
1 AGCATTTTA--TTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCATTTTATTTTTCAAAAGTT
*
4503205 GTTGTGCCTCTA-TGAAAAA
64 GTGGTGCCTCTATTGAAAAA
* ** * * *
4503224 AGCATTTTATTTTTCAAAAATTGTGGTGTTTCTATTTAGAGGAGTATTTATTTTTTTTCAAAAGT
1 AGCATTTTATTTTTC-AAAGTTGTGGTGCCTCTATTTAGAAGAGCA-TT-TTATTTTTCAAAAG-
4503289 TTGTGGTGCCT
62 TTGTGGTGCCT
4503300 TCTGTTTAGA
Statistics
Matches: 137, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
82 15 0.11
83 23 0.17
84 63 0.46
85 26 0.19
86 10 0.07
ACGTcount: A:0.26, C:0.11, G:0.17, T:0.45
Consensus pattern (83 bp):
AGCATTTTATTTTTCAAAGTTGTGGTGCCTCTATTTAGAAGAGCATTTTATTTTTCAAAAGTTGT
GGTGCCTCTATTGAAAAA
Found at i:4503346 original size:41 final size:42
Alignment explanation
Indices: 4503300--4503393 Score: 102
Period size: 43 Copynumber: 2.2 Consensus size: 42
4503290 TGTGGTGCCT
* * *
4503300 TCTGTTTAGATGAGCCT-TTTATTTTTTAAAGTTGTTGAA-CC
1 TCTGTTTAGAAGAGCCTATTTATATTTTAAAGTCG-TGAAGCC
* * *
4503341 TCTGTTCAGAAGAGCTTGATTTATATTTTAAAGTCGTGAAGTC
1 TCTGTTTAGAAGAGCCT-ATTTATATTTTAAAGTCGTGAAGCC
4503384 TCTGTTTAGA
1 TCTGTTTAGA
4503394 GGAGTTTTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 14 0.33
42 4 0.09
43 25 0.58
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (42 bp):
TCTGTTTAGAAGAGCCTATTTATATTTTAAAGTCGTGAAGCC
Found at i:4504726 original size:51 final size:52
Alignment explanation
Indices: 4504621--4504727 Score: 121
Period size: 52 Copynumber: 2.1 Consensus size: 52
4504611 AAAATTAAAT
* * * * * *
4504621 AAAAATAATTTCTAATTAGGCCTAAATGTGAAAAATTTAGAAATTTCGAGAA
1 AAAAATAATTTCTAATTAGACCCAAATGTAAAAAATTTAGAAATTCCAACAA
4504673 AAAAAT-ATTTCTTAATT-GACCCAAATGGTAAAAAATTTAGAAA-TCCAACAA
1 AAAAATAATTTC-TAATTAGACCCAAAT-GTAAAAAATTTAGAAATTCCAACAA
4504724 AAAA
1 AAAA
4504728 TAAAAGAAAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
51 21 0.45
52 26 0.55
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.28
Consensus pattern (52 bp):
AAAAATAATTTCTAATTAGACCCAAATGTAAAAAATTTAGAAATTCCAACAA
Found at i:4507407 original size:58 final size:58
Alignment explanation
Indices: 4507329--4507744 Score: 340
Period size: 58 Copynumber: 6.9 Consensus size: 58
4507319 TGATCTCTTT
* * * * * *
4507329 AAAATGAAAATGTGAAAAAAATATTTTTAAAGAAAAGTTGAATGTATCAA-TTTCTTTTG
1 AAAATAAAAAT-TAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTC-CTTA
* * * *
4507388 AACATAAAAATTAAAAAAAATATTTTTGAGGGAAAGTTGAAAGTATCAATTTCCCTTA
1 AAAATAAAAATTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* ** * *
4507446 AAAATAAAGATTTTAAAAAATATTTTTAA-GACAAAGTTGAAAGTATCTATTTT-TTTA
1 AAAATAAAAATTAAAAAAAATATTTTTAAGGA-AAAGTTGAAAGTATCAATTTTCCTTA
* * * * *
4507503 AAAATAATAAA-AAAAATCTCAAGAAGGGATTTTTCAGGAAAAGTTAAAAGTATCAATTTTTCTT
1 AAAATAA-AAATTAAAA----AA-AA--TATTTTTAAGGAAAAGTTGAAAGTATCAA-TTTTCCT
*
4507567 TG
57 TA
* * *
4507569 AAAAT-AAAATTAAAAAAAAAAAGCATTTCTTGAGGAAAAGTTGGAAA-TACCAATTTTCCTTA
1 AAAATAAAAATT---AAAAAAAA-TATTT-TTAAGGAAAAGTT-GAAAGTATCAATTTTCCTTA
* * *
4507631 AAAATAAAATTTGAAGAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTG
1 AAAATAAAAATT-AAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
* *
4507690 AAAATAAAATTTTCAAAAAAATATTTTTAAGGAAAATGTTGAAAGTATCAATTTT
1 AAAATAAAA-ATTAAAAAAAATATTTTTAAGGAAAA-GTTGAAAGTATCAATTTT
4507745 TCTTGTATAA
Statistics
Matches: 290, Mismatches: 44, Indels: 45
0.77 0.12 0.12
Matches are distributed among these distances:
57 13 0.04
58 84 0.29
59 67 0.23
60 25 0.09
61 9 0.03
62 19 0.07
63 24 0.08
64 30 0.10
65 7 0.02
66 8 0.03
68 4 0.01
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAATAAAAATTAAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA
Found at i:4510714 original size:324 final size:324
Alignment explanation
Indices: 4510119--4510769 Score: 1178
Period size: 324 Copynumber: 2.0 Consensus size: 324
4510109 TTAGGTGAAA
4510119 TCATTGAGAATGCCATTAAAAATGATAAATTGAAAGGAGGAAAAACCAAGAAGGCATCAAAGATG
1 TCATTGAGAATGCCATTAAAAATGATAAATTGAAAGGAGGAAAAACCAAGAAGGCATCAAAGATG
4510184 AAAGAGACTGAAGCTCAAGCAGTGAACTTCGATAGACAATTAAGGGGATATAAACCCTATCCACC
66 AAAGAGACTGAAGCTCAAGCAGTGAACTTCGATAGACAATTAAGGGGATATAAACCCTATCCACC
*
4510249 ATAAAGTTACTCTCTATACTATCATATTGTGAACAATGCTTCATACCAGCCCATACCACAACCAT
131 ATAAAGTTACTCTCTATACTATCATACTGTGAACAATGCTTCATACCAGCCCATACCACAACCAT
* *
4510314 CTTAGTCATCTACATACCGGTCTGTTTTTAGCCTCTAAGCTCTCACATACAACCTTAACATTCAA
196 CTTAGTCATCCACATACCGGTATGTTTTTAGCCTCTAAGCTCTCACATACAACCTTAACATTCAA
*
4510379 CCTCTTGCAAGACCCTAAAATCATCCTGTTAGCCTAGCAAGTGGTTCATGAGAGTAACGATTAC
261 CCTCCTGCAAGACCCTAAAATCATCCTGTTAGCCTAGCAAGTGGTTCATGAGAGTAACGATTAC
* *
4510443 TCATTGAGAATGCCATTAAAAATGATAAATTGAAAGGAGGAGAAACCAAGAAGGCATTAAAGATG
1 TCATTGAGAATGCCATTAAAAATGATAAATTGAAAGGAGGAAAAACCAAGAAGGCATCAAAGATG
* *
4510508 AAAGAGACTGAAGCTTAAGCAGTGAACTTTGATAGACAATTAAGGGGATATAAACCCTATCCACC
66 AAAGAGACTGAAGCTCAAGCAGTGAACTTCGATAGACAATTAAGGGGATATAAACCCTATCCACC
* * *
4510573 ATAAAGTTACTCTTTATACTATCCTACTGTGAACAATGCCTT-ATACCAGCCCATACCACAACTA
131 ATAAAGTTACTCTCTATACTATCATACTGTGAACAATG-CTTCATACCAGCCCATACCACAACCA
*
4510637 TCTTAGTCATCCACATACTGGTATGTTTTTAGCCTCTAAGCTCTCACATACAACCTTAACATTCA
195 TCTTAGTCATCCACATACCGGTATGTTTTTAGCCTCTAAGCTCTCACATACAACCTTAACATTCA
4510702 ACCTCCTGCAAGACCCTAAAATCATCCTGTTAGCCTAGCAAGTGGTTCATGAGAGTAACGATTAC
260 ACCTCCTGCAAGACCCTAAAATCATCCTGTTAGCCTAGCAAGTGGTTCATGAGAGTAACGATTAC
4510767 TCA
1 TCA
4510770 AGAAAAACTC
Statistics
Matches: 314, Mismatches: 12, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
324 311 0.99
325 3 0.01
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.26
Consensus pattern (324 bp):
TCATTGAGAATGCCATTAAAAATGATAAATTGAAAGGAGGAAAAACCAAGAAGGCATCAAAGATG
AAAGAGACTGAAGCTCAAGCAGTGAACTTCGATAGACAATTAAGGGGATATAAACCCTATCCACC
ATAAAGTTACTCTCTATACTATCATACTGTGAACAATGCTTCATACCAGCCCATACCACAACCAT
CTTAGTCATCCACATACCGGTATGTTTTTAGCCTCTAAGCTCTCACATACAACCTTAACATTCAA
CCTCCTGCAAGACCCTAAAATCATCCTGTTAGCCTAGCAAGTGGTTCATGAGAGTAACGATTAC
Found at i:4513400 original size:21 final size:21
Alignment explanation
Indices: 4513353--4513393 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4513343 TTATGAGAGT
**
4513353 CTTTGAATTTCAAATGAGAAC
1 CTTTGAATTTCAAAAAAGAAC
4513374 CTTTGAATTTCAAAAAAGAA
1 CTTTGAATTTCAAAAAAGAA
4513394 TTTTTGAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (21 bp):
CTTTGAATTTCAAAAAAGAAC
Found at i:4513735 original size:42 final size:42
Alignment explanation
Indices: 4513676--4513910 Score: 283
Period size: 42 Copynumber: 5.6 Consensus size: 42
4513666 CATGATTGTC
*
4513676 AAGGAGCATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTA
1 AAGGAGCATTTTATTTTTCAAAGTTATGGTTGCCTCTATTTA
4513718 AAGGAGCATTTTATTTTTCTAAAGTTATGGTTG-CTCTATTTA
1 AAGGAGCATTTTATTTTTC-AAAGTTATGGTTGCCTCTATTTA
* * * *
4513760 AAAGAGAATTTTATTTTCCAAAGTTATGGTTGCCTTTATTTA
1 AAGGAGCATTTTATTTTTCAAAGTTATGGTTGCCTCTATTTA
* * * * * * *
4513802 GAGAAGTATTTTATTTTTCAAAGTTGTAGTTACCTTTATTTA
1 AAGGAGCATTTTATTTTTCAAAGTTATGGTTGCCTCTATTTA
* * * *
4513844 GAGAAGCATTTTATTTTCCTAAAGTTATGGTTGTCTCTATTTA
1 AAGGAGCATTTTATTTTTC-AAAGTTATGGTTGCCTCTATTTA
* *
4513887 GAGGAGCAATTTATTTTTCAAAGT
1 AAGGAGCATTTTATTTTTCAAAGT
4513911 CGTTGAGCCT
Statistics
Matches: 167, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
41 13 0.08
42 108 0.65
43 46 0.28
ACGTcount: A:0.28, C:0.10, G:0.17, T:0.46
Consensus pattern (42 bp):
AAGGAGCATTTTATTTTTCAAAGTTATGGTTGCCTCTATTTA
Found at i:4513928 original size:126 final size:126
Alignment explanation
Indices: 4513683--4513930 Score: 329
Period size: 126 Copynumber: 2.0 Consensus size: 126
4513673 GTCAAGGAGC
* * * *
4513683 ATTTTATTTTTCAAAGTTGTGGTTGCCTCTATTTAAAGGAGCATTTTATTTTTCTAAAGTTATGG
1 ATTTTATTTTTCAAAGTTGTAGTTACCTCTATTTAAAGAAGCATTTTATTTTCCTAAAGTTATGG
* * *
4513748 TTGCTCTATTTAAAAGAGAATTTTATTTTCCAAAGTTATGGTTGCCTTTATTTAGAGAAGT
66 TTGCTCTATTTAAAAGAGAATTTTATTTTCCAAAGTCATGGTAGCCTCTATTTAGAGAAGT
* *
4513809 ATTTTATTTTTCAAAGTTGTAGTTACCTTTATTTAGAGAAGCATTTTATTTTCCTAAAGTTATGG
1 ATTTTATTTTTCAAAGTTGTAGTTACCTCTATTTAAAGAAGCATTTTATTTTCCTAAAGTTATGG
* * * * * *
4513874 TTGTCTCTATTTAGAGGAGCAA-TTTATTTTTCAAAGTCGTTG-AGCCTCTGTTTAGAG
66 TTG-CTCTATTTAAAAGAG-AATTTTATTTTCCAAAGTCATGGTAGCCTCTATTTAGAG
4513931 GAGCTTAATT
Statistics
Matches: 105, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
126 74 0.70
127 29 0.28
128 2 0.02
ACGTcount: A:0.26, C:0.10, G:0.17, T:0.46
Consensus pattern (126 bp):
ATTTTATTTTTCAAAGTTGTAGTTACCTCTATTTAAAGAAGCATTTTATTTTCCTAAAGTTATGG
TTGCTCTATTTAAAAGAGAATTTTATTTTCCAAAGTCATGGTAGCCTCTATTTAGAGAAGT
Found at i:4513988 original size:18 final size:17
Alignment explanation
Indices: 4513949--4513991 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
4513939 TTTACTTTTT
4513949 CAAAAAAAAAATAAAAA
1 CAAAAAAAAAATAAAAA
*
4513966 CAAAAACAAAAAT-TAAA
1 CAAAAA-AAAAATAAAAA
4513983 CGAAAAAAA
1 C-AAAAAAA
4513992 TGTGTCAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.81, C:0.09, G:0.02, T:0.07
Consensus pattern (17 bp):
CAAAAAAAAAATAAAAA
Found at i:4515209 original size:60 final size:60
Alignment explanation
Indices: 4514975--4515456 Score: 378
Period size: 60 Copynumber: 7.9 Consensus size: 60
4514965 TGAAAATGTG
* *
4514975 AAAAAAATATTTTTGAAAAAAAGTT-AAATGTATCAA-TTTCCTTTGAACATAAAAA-TT-A
1 AAAAAAATATTTTTGAAGAAAAGTTGAAA-GTATCAATTTTCC-TTGAAAATAAAAATTTAA
* * * * * *
4515033 AAAAATATATTTTTTAGGGAAAGTTGAAAGTATCAATTTTTCTTTGAAAAT-AAAATTAAA
1 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAAAATTTAA
* * * *
4515093 AAAAAAAGCATTTCTTGATGAAAAGTTGGAAA-TACCAATTTTCCTTAAAAAT-AAAATTTGAA
1 AAAAAAA-TATTT-TTGAAGAAAAGTT-GAAAGTATCAATTTTCCTTGAAAATAAAAATTT-AA
** *
4515155 AAAAAAATATTTTAAAAGAAAAGTT-AAAGTATTAATTTTCCTTGAAAATAAAAATTTTCAA
1 AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAA-TTT-AA
* *
4515216 AAAAAATATATATTCTTGAGGAAAAGTTGAAAGTATCAATTTT-CTTGAAAATAAAATTTTCAAA
1 AAAAAA-ATAT-TT-TTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTT----
4515280 AA
59 AA
* * * * **
4515282 TAAAAAAATATTTTTTAA-AAAAGTTGAAAGCATCAATTTTTCTTAAAAAT-AAAATTTTC
1 -AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTAA
* * * * * * *
4515341 AAAAAAATACTTTTGAGGAAAAGGTTTAAAGTGTCAATTTTCCTTAAAAATAAAACTTT-T
1 AAAAAAATATTTTTGAAGAAAA-GTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTAA
* * * *
4515401 TAAAAAATAATTTTG-AGTAAAAAGTTGAAAGTATAAATTTTTCTTGAAAAATAAAA
1 AAAAAAATATTTTTGAAG--AAAAGTTGAAAGTATCAATTTTCCTTG-AAAATAAAA
4515457 CCTTAAAATG
Statistics
Matches: 342, Mismatches: 55, Indels: 51
0.76 0.12 0.11
Matches are distributed among these distances:
58 48 0.14
59 33 0.10
60 80 0.23
61 56 0.16
62 28 0.08
63 36 0.11
64 34 0.10
65 15 0.04
66 6 0.02
67 6 0.02
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (60 bp):
AAAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAAAATTTAA
Found at i:4516299 original size:19 final size:21
Alignment explanation
Indices: 4516275--4516318 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
4516265 GATACCTTTT
4516275 TTTTTCTTATTTC-TTCTT-C
1 TTTTTCTTATTTCTTTCTTAC
*
4516294 TTTTTCTTCTTTCTTTCTTAC
1 TTTTTCTTATTTCTTTCTTAC
4516315 TTTT
1 TTTT
4516319 CACCTCATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 5 0.23
21 5 0.23
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTTTCTTATTTCTTTCTTAC
Found at i:4516445 original size:20 final size:19
Alignment explanation
Indices: 4516417--4516469 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
4516407 GCTTCATATT
*
4516417 TTCTTTTTCCTTTCCTTTTC
1 TTCTATTTCCTTTCC-TTTC
*
4516437 TTCTATTTCTCTTTTCTTTC
1 TTCTATTTC-CTTTCCTTTC
* *
4516457 TTTTATTTTCTTT
1 TTCTATTTCCTTT
4516470 TTTCCTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 19 0.68
21 5 0.18
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTATTTCCTTTCCTTTC
Found at i:4516473 original size:21 final size:20
Alignment explanation
Indices: 4516433--4516470 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
4516423 TTCCTTTCCT
4516433 TTTCTTCTATTTCTCTTTTC
1 TTTCTTCTATTTCTCTTTTC
*
4516453 TTTCTTTTATTT-TCTTTT
1 TTTCTTCTATTTCTCTTTT
4516471 TTCCTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.05, C:0.18, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTCTATTTCTCTTTTC
Found at i:4516545 original size:19 final size:19
Alignment explanation
Indices: 4516523--4516592 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
4516513 TCCTTTTTTA
4516523 TTTTTTTCTTTTCTTCTTC
1 TTTTTTTCTTTTCTTCTTC
*
4516542 TTTTTTTCTTCTCTTCTTC
1 TTTTTTTCTTTTCTTCTTC
* * *
4516561 ATTTTATAT-TTTTCATATTC
1 -TTTT-TTTCTTTTCTTCTTC
4516581 TTCTTTTTCTTT
1 TT-TTTTTCTTT
4516593 CTTTTTTTTC
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 22 0.54
20 17 0.41
21 2 0.05
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTTTCTTTTCTTCTTC
Found at i:4516600 original size:13 final size:13
Alignment explanation
Indices: 4516525--4516605 Score: 56
Period size: 15 Copynumber: 5.7 Consensus size: 13
4516515 CTTTTTTATT
4516525 TTTTTCTTTTCTTC
1 TTTTTC-TTTCTTC
*
4516539 TTCTTTTTTTCTTC
1 TT-TTTCTTTCTTC
*
4516553 TCTTCTTCATTT-TATA
1 T-TT-TTC-TTTCT-TC
4516569 TTTTTCATATTCTTC
1 TTTTTC-T-TTCTTC
*
4516584 TTTTTCTTTCTTT
1 TTTTTCTTTCTTC
4516597 TTTTTCTTT
1 TTTTTCTTT
4516606 TTATCCTTTT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 14 0.25
14 17 0.31
15 18 0.33
16 6 0.11
ACGTcount: A:0.06, C:0.19, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTTCTTTCTTC
Found at i:4516616 original size:42 final size:45
Alignment explanation
Indices: 4516533--4516616 Score: 102
Period size: 42 Copynumber: 1.9 Consensus size: 45
4516523 TTTTTTTCTT
* *
4516533 TTCTTCTTCTTTTTTTCTTCTCTTCTTCATTTTATATTTTTCATA
1 TTCTTCTTCTTTCTTTCTTCTCTTCTTCATTTTATACTTTTCATA
* * *
4516578 TTCTTCTT-TTTCTTTCTT-T-TTTTTCTTTTTATCCTTTTC
1 TTCTTCTTCTTTCTTTCTTCTCTTCTTCATTTTATACTTTTC
4516617 TAGCCAAATC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
42 16 0.47
43 1 0.03
44 9 0.26
45 8 0.24
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (45 bp):
TTCTTCTTCTTTCTTTCTTCTCTTCTTCATTTTATACTTTTCATA
Found at i:4517310 original size:63 final size:61
Alignment explanation
Indices: 4517235--4517543 Score: 300
Period size: 66 Copynumber: 5.0 Consensus size: 61
4517225 AATGCCTTTA
*
4517235 TTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAAAATATCTTTTTTGAAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTT-AAAAAAATATCTTTTTT-AAAATTTTATT
* *
4517298 TTTAAGGAAAATTGATA-TTCTCAACTTTT-CTTAAAAAAATATCTTTTTTATTGAAA-TTTATT
1 TTCAAGAAAAATTGATACTT-TCAACTTTTCCTTAAAAAAATATCTTTTTTA---AAATTTTATT
* * * *
4517360 TTCAAGAAAAATTGATATTTTAAACTTTTCCTT---AAAAT-TTTTTTTTAAAATTTGATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTTTTAAAATTTTATT
* * *
4517417 TTCAAGAAAAATTGATACTTTCAACTTTTCCTT--AAAAATGTGTTTTTAAAATTTTTATTTTTT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTTTTAAA-----A--TTTT
4517480 ATT
59 ATT
* *
4517483 TTCAAGAAAAATTGATACCTTCAACTTTTCCTT--AAAAATAT-TTTATTTGAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTT-TTTAAAATTTTATT
4517542 TT
1 TT
4517544 TGAAAATATT
Statistics
Matches: 214, Mismatches: 15, Indels: 38
0.80 0.06 0.14
Matches are distributed among these distances:
56 3 0.01
57 36 0.17
58 5 0.02
59 26 0.12
60 6 0.03
61 18 0.08
62 34 0.16
63 33 0.15
64 1 0.00
65 3 0.01
66 49 0.23
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (61 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTTTTAAAATTTTATT
Found at i:4517371 original size:62 final size:62
Alignment explanation
Indices: 4517235--4517543 Score: 279
Period size: 63 Copynumber: 5.0 Consensus size: 62
4517225 AATGCCTTTA
*
4517235 TTCAAGGAAAATTGATACTTTCAACTTTTCCTTAAAAAAAATATC--TTTTTTGAAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTT-AAAAAAATATCTTTTTTTTG-AAA-TTTATT
* *
4517298 TTTAAGGAAAATTGATA-TTCTCAACTTTT-CTTAAAAAAATATCTTTTTTATTGAAATTTATT
1 TTCAAGAAAAATTGATACTT-TCAACTTTTCCTTAAAAAAATATCTTTTTT-TTGAAATTTATT
* * *
4517360 TTCAAGAAAAATTGATATTTTAAACTTTTCCTT----AAA-AT-TTTTTTTTAAAATTTGATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTTTTTTGAAATTT-ATT
** * * **
4517417 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATGTGT-TTTTAAAATTTTTATTTTTTA
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTT----TTTTGA-AATTTA
4517481 TT
61 TT
* *
4517483 TTCAAGAAAAATTGATACCTTCAACTTTTCCTT--AAAAATA--TTTTATTTGAAATTTTATT
1 TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTTTTTTGAAA-TTTATT
4517542 TT
1 TT
4517544 TGAAAATATT
Statistics
Matches: 207, Mismatches: 21, Indels: 40
0.77 0.08 0.15
Matches are distributed among these distances:
56 8 0.04
57 40 0.19
58 2 0.01
59 15 0.07
61 12 0.06
62 39 0.19
63 41 0.20
64 7 0.03
66 40 0.19
67 3 0.01
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (62 bp):
TTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAAATATCTTTTTTTTGAAATTTATT
Found at i:4517555 original size:15 final size:16
Alignment explanation
Indices: 4517517--4517556 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
4517507 CTTTTCCTTA
4517517 AAAATATT-TTATTTG
1 AAAATATTATTATTTG
*
4517532 -AAATTTTATT-TTTG
1 AAAATATTATTATTTG
4517546 AAAATATTATT
1 AAAATATTATT
4517557 GAAAAATGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
14 10 0.48
15 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
AAAATATTATTATTTG
Found at i:4517799 original size:3 final size:3
Alignment explanation
Indices: 4517791--4517856 Score: 89
Period size: 3 Copynumber: 21.7 Consensus size: 3
4517781 AATAGATAGA
*
4517791 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
4517838 AAA AAT ATAT AAAT AAT AA
1 AAT AAT A-AT -AAT AAT AA
4517857 AAATTAAAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
2 2 0.04
3 49 0.88
4 4 0.07
5 1 0.02
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:4517860 original size:9 final size:9
Alignment explanation
Indices: 4517791--4517869 Score: 74
Period size: 9 Copynumber: 9.0 Consensus size: 9
4517781 AATAGATAGA
*
4517791 AATAATAAT
1 AATAAAAAT
*
4517800 AATAATAAT
1 AATAAAAAT
*
4517809 AATAATAAT
1 AATAAAAAT
*
4517818 AATAATAAT
1 AATAAAAAT
4517827 AAT-AAAAT
1 AATAAAAAT
*
4517835 GATAAAAAT
1 AATAAAAAT
*
4517844 -ATATAAAT
1 AATAAAAAT
4517852 AATAAAAATT
1 AATAAAAA-T
4517862 AA-AAAAAT
1 AATAAAAAT
4517870 CGTAACGTTG
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
8 14 0.22
9 46 0.73
10 3 0.05
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (9 bp):
AATAAAAAT
Found at i:4518731 original size:12 final size:11
Alignment explanation
Indices: 4518714--4518774 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 11
4518704 ATGATAAATC
4518714 AAATAAAATATA
1 AAATAAAATA-A
4518726 AAATAAAATAA
1 AAATAAAATAA
*
4518737 AATATAAACAATGA
1 AA-AT-AA-AATAA
4518751 AAATAAAATAA
1 AAATAAAATAA
4518762 TAAAT-AAATAA
1 -AAATAAAATAA
4518773 AA
1 AA
4518775 CTCAAAAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
10 2 0.05
11 13 0.30
12 18 0.42
13 4 0.09
14 6 0.14
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:4518734 original size:17 final size:17
Alignment explanation
Indices: 4518709--4518774 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
4518699 ACCTGATGAT
*
4518709 AAATCAAATAAAATATA
1 AAATAAAATAAAATATA
4518726 AAATAAAATAAAATATAA
1 AAATAAAATAAAATAT-A
4518744 ACAATGAAAATAAAATA-A
1 A-AAT-AAAATAAAATATA
4518762 TAAAT-AAATAAAA
1 -AAATAAAATAAAA
4518775 CTCAAAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 8 0.18
17 15 0.34
18 6 0.14
19 4 0.09
20 11 0.25
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAAAATAAAATATA
Found at i:4519204 original size:41 final size:41
Alignment explanation
Indices: 4519155--4519234 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 41
4519145 ATGAATTAAA
*
4519155 CTCCTCTAAACAGAGGCATCACAACTTT-GAAAAGTAAAATG
1 CTCCTCTAAACAGAGGCACCACAACTTTGGAAAA-TAAAATG
* *
4519196 CTCCTCTAAATAGAGGCACCATAACTTTGGAAAATAAAA
1 CTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAAA
4519235 CACTCATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 30 0.86
42 5 0.14
ACGTcount: A:0.42, C:0.21, G:0.14, T:0.23
Consensus pattern (41 bp):
CTCCTCTAAACAGAGGCACCACAACTTTGGAAAATAAAATG
Found at i:4519737 original size:79 final size:79
Alignment explanation
Indices: 4519594--4519843 Score: 367
Period size: 79 Copynumber: 3.2 Consensus size: 79
4519584 TTTTCATTCT
* * **
4519594 AGTTTGAAGATTCACATTCGACGAACA-TTAGGGTTTCACATCTCAAAGATCCTTATTTGAAACT
1 AGTTCGAAGATTCACATTCGAC-AA-ATTTTGGGTTTCACATCTCAAAGATTATTATTTGAAACT
*
4519658 CAAATATTCTCATTTG
64 CAAAGATTCTCATTTG
* * *
4519674 AGTTCGAAGATTCACATTCGACAAATTTTGGGTTTCACACCTTAAAGATTATCATTTGAAACTCA
1 AGTTCGAAGATTCACATTCGACAAATTTTGGGTTTCACATCTCAAAGATTATTATTTGAAACTCA
*
4519739 AAGATTCACATTTG
66 AAGATTCTCATTTG
* *
4519753 AGTTCGAAGATTCACATTCAACAAATTTTGGGTTTCACATCTCAAAGATTGTTATTTGAAACTCA
1 AGTTCGAAGATTCACATTCGACAAATTTTGGGTTTCACATCTCAAAGATTATTATTTGAAACTCA
4519818 AAGATTCTCATTTG
66 AAGATTCTCATTTG
*
4519832 AGTTTGAAGATT
1 AGTTCGAAGATT
4519844 TTCATCAAAA
Statistics
Matches: 153, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
78 1 0.01
79 131 0.86
80 21 0.14
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (79 bp):
AGTTCGAAGATTCACATTCGACAAATTTTGGGTTTCACATCTCAAAGATTATTATTTGAAACTCA
AAGATTCTCATTTG
Found at i:4519817 original size:21 final size:21
Alignment explanation
Indices: 4519793--4519832 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4519783 GGTTTCACAT
* *
4519793 CTCAAAGATTGTTATTTGAAA
1 CTCAAAGATTCTCATTTGAAA
4519814 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
4519833 GTTTGAAGAT
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:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGAAA
Found at i:4520040 original size:11 final size:11
Alignment explanation
Indices: 4520024--4520059 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
4520014 TTTAAAAAAA
4520024 AATGCTAATGT
1 AATGCTAATGT
4520035 AATGCTAATGT
1 AATGCTAATGT
4520046 AATGC--ATGT
1 AATGCTAATGT
4520055 AATGC
1 AATGC
4520060 AGATTTCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
9 9 0.36
11 16 0.64
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.33
Consensus pattern (11 bp):
AATGCTAATGT
Found at i:4520757 original size:20 final size:20
Alignment explanation
Indices: 4520732--4520790 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
4520722 CAGGTCCGGG
4520732 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
4520752 CCCGGATCAATTGGGCCTGA
1 CCCGGATCAATTGGGCCTGA
* *
4520772 CCCAGATCATTTGGGCCTG
1 CCCGGATCAATTGGGCCTG
4520791 GCCCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.19, C:0.31, G:0.29, T:0.22
Consensus pattern (20 bp):
CCCGGATCAATTGGGCCTGA
Found at i:4521467 original size:31 final size:32
Alignment explanation
Indices: 4521421--4521492 Score: 98
Period size: 31 Copynumber: 2.3 Consensus size: 32
4521411 AATTTCCAGA
*
4521421 TTCCGGC-AAAATTCCGGCG-ACTTTTGAA-TT
1 TTCCGGCGACAATTCCGGCGAAC-TTTGAAGTT
4521451 TTCCGGCGACAATTCCGGCGAACTTTGAAGTT
1 TTCCGGCGACAATTCCGGCGAACTTTGAAGTT
4521483 TT-CGGCGACA
1 TTCCGGCGACA
4521493 GACCCAGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 7 0.18
31 25 0.66
32 6 0.16
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (32 bp):
TTCCGGCGACAATTCCGGCGAACTTTGAAGTT
Found at i:4521578 original size:19 final size:19
Alignment explanation
Indices: 4521554--4521598 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4521544 TCCGGCCAAT
4521554 TTCCGGCGAAATTCCCAGA
1 TTCCGGCGAAATTCCCAGA
* *
4521573 TTCCGGTGAAATTTCCAGA
1 TTCCGGCGAAATTCCCAGA
*
4521592 ATCCGGC
1 TTCCGGC
4521599 ACCGGCGTTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (19 bp):
TTCCGGCGAAATTCCCAGA
Found at i:4521828 original size:5 final size:5
Alignment explanation
Indices: 4521818--4521855 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
4521808 TTCAGCCCCT
*
4521818 CCGAG CCGAG CCGAG CCGAG CCGCA- CCAAG CCGAG CCG
1 CCGAG CCGAG CCGAG CCGAG CCG-AG CCGAG CCGAG CCG
4521856 CGATCCGAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 27 0.93
6 1 0.03
ACGTcount: A:0.21, C:0.45, G:0.34, T:0.00
Consensus pattern (5 bp):
CCGAG
Found at i:4522667 original size:15 final size:14
Alignment explanation
Indices: 4522649--4522725 Score: 86
Period size: 13 Copynumber: 5.4 Consensus size: 14
4522639 ATTTGAGTCT
4522649 TTTTTTCTTCTTTTA
1 TTTTTT-TTCTTTTA
4522664 TTTTTTTTTCTTTTA
1 -TTTTTTTTCTTTTA
4522679 -TTTTTTTCTTTTA
1 TTTTTTTTCTTTTA
*
4522692 -TTTTTTTCTTTTTC
1 TTTTTTTTC-TTTTA
*
4522706 TTTTATTTTCTTTCA
1 TTTT-TTTTCTTTTA
4522721 TTTTT
1 TTTTT
4522726 CATTTTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
13 21 0.38
14 5 0.09
15 18 0.33
16 11 0.20
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTTTTCTTTTA
Found at i:4522684 original size:32 final size:30
Alignment explanation
Indices: 4522648--4522739 Score: 114
Period size: 31 Copynumber: 2.9 Consensus size: 30
4522638 AATTTGAGTC
4522648 TTTTTTTCTTCTTTTATTTTTTTTTCTTTTA
1 TTTTTTTCTT-TTTTATTTTTTTTTCTTTTA
*
4522679 TTTTTTTCTTTTATTTTTTTCTTTTTCTTTTA
1 TTTTTTTCTTTT-TTATTTT-TTTTTCTTTTA
*
4522711 TTTTCTTTCATTTTTCA-TTTTTTTTCTTT
1 TTTT-TTTC-TTTTTTATTTTTTTTTCTTT
4522740 CCTTTGGCAT
Statistics
Matches: 54, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
30 2 0.04
31 25 0.46
32 18 0.33
33 5 0.09
34 4 0.07
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.83
Consensus pattern (30 bp):
TTTTTTTCTTTTTTATTTTTTTTTCTTTTA
Found at i:4522690 original size:8 final size:8
Alignment explanation
Indices: 4522646--4522807 Score: 76
Period size: 8 Copynumber: 18.1 Consensus size: 8
4522636 TTAATTTGAG
4522646 TCTTTTTT
1 TCTTTTTT
4522654 TCTTCTTTT
1 TCTT-TTTT
*
4522663 ATTTTTTTT
1 -TCTTTTTT
4522672 TCTTTTATT
1 TCTTTT-TT
*
4522681 TTTTTCTTT
1 TCTTT-TTT
*
4522690 TATTTTTT
1 TCTTTTTT
4522698 TCTTTTTCT
1 TCTTTTT-T
*
4522707 T-TTATTT
1 TCTTTTTT
4522714 TCTTTCATTTT
1 TC-TT--TTTT
4522725 TCATTTTTTT
1 TC--TTTTTT
4522735 TCTTTCCTTT
1 TCTTT--TTT
*
4522745 GGCATTTTTT
1 -TC-TTTTTT
4522755 TCTTTTTT
1 TCTTTTTT
4522763 TCATCCATTTTT
1 TC-T---TTTTT
*
4522775 CCTTTTTT
1 TCTTTTTT
4522783 AT-TTTTTT
1 -TCTTTTTT
*
4522791 TATTTTTT
1 TCTTTTTT
4522799 TCTTTTTT
1 TCTTTTTT
4522807 T
1 T
4522808 TTCTCTCATC
Statistics
Matches: 122, Mismatches: 12, Indels: 40
0.70 0.07 0.23
Matches are distributed among these distances:
7 3 0.02
8 58 0.48
9 26 0.21
10 16 0.13
11 7 0.06
12 12 0.10
ACGTcount: A:0.07, C:0.13, G:0.01, T:0.79
Consensus pattern (8 bp):
TCTTTTTT
Found at i:4522691 original size:28 final size:28
Alignment explanation
Indices: 4522649--4522739 Score: 96
Period size: 28 Copynumber: 3.1 Consensus size: 28
4522639 ATTTGAGTCT
4522649 TTTTTTCTTCTTTTATTTTTTT-TTCTTT-
1 TTTTTT-TTCTTTTATTTTTTTCTT-TTTC
4522677 TATTTTTTTCTTTTATTTTTTTCTTTTTC
1 T-TTTTTTTCTTTTATTTTTTTCTTTTTC
* *
4522706 TTTTATTTTCTTTCATTTTTCATTTTTTTTC
1 TTTT-TTTTCTTTTATTTTT--TTCTTTTTC
4522737 TTT
1 TTT
4522740 CCTTTGGCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
28 22 0.40
29 22 0.40
31 11 0.20
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (28 bp):
TTTTTTTTCTTTTATTTTTTTCTTTTTC
Found at i:4522740 original size:21 final size:20
Alignment explanation
Indices: 4522648--4522759 Score: 90
Period size: 21 Copynumber: 5.5 Consensus size: 20
4522638 AATTTGAGTC
4522648 TTTTTTTC-TTC-TTTTAT-T
1 TTTTTTTCTTTCATTTT-TCT
*
4522666 TTTTTTTCTTTTATTTTTTTCT
1 TTTTTTTCTTTCA--TTTTTCT
4522688 TTTATTTT-TTTC-TTTTTCT
1 TTT-TTTTCTTTCATTTTTCT
4522707 TTTATTTTCTTTCATTTTTCAT
1 TTT-TTTTCTTTCATTTTTC-T
* ** *
4522729 TTTTTTTCTTTCCTTTGGCA
1 TTTTTTTCTTTCATTTTTCT
4522749 TTTTTTTCTTT
1 TTTTTTTCTTT
4522760 TTTTCATCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.10
19 17 0.22
20 15 0.19
21 20 0.25
22 15 0.19
23 4 0.05
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.79
Consensus pattern (20 bp):
TTTTTTTCTTTCATTTTTCT
Found at i:4522808 original size:28 final size:28
Alignment explanation
Indices: 4522648--4522809 Score: 78
Period size: 29 Copynumber: 5.6 Consensus size: 28
4522638 AATTTGAGTC
*
4522648 TTTTTTTCTTCTTTTATTTTTTTTTCTTTTA
1 TTTTTTTCTT-TTTT-TTTTATTTT-TTTTA
4522679 TTTTTTTCTTTTATTTTTT-TCTTTTTCTT-
1 TTTTTTTCTTTT-TTTTTTAT-TTTTT-TTA
* * * *
4522708 TTATTTTCTTTCATTTTTCATTTTTTTTC
1 TTTTTTTCTTT-TTTTTTTATTTTTTTTA
* **** * *
4522737 TTTCCTTTGGCATTTTTTTCTTTTTTTCA
1 TTT-TTTTCTTTTTTTTTTATTTTTTTTA
*** **
4522766 TCCATTT-TTCCTTTTTTATTTTTTTTA
1 TTTTTTTCTTTTTTTTTTATTTTTTTTA
4522793 TTTTTTTCTTTTTTTTT
1 TTTTTTTCTTTTTTTTT
4522810 CTCTCATCTT
Statistics
Matches: 95, Mismatches: 28, Indels: 19
0.67 0.20 0.13
Matches are distributed among these distances:
27 18 0.19
28 12 0.13
29 38 0.40
30 15 0.16
31 12 0.13
ACGTcount: A:0.07, C:0.12, G:0.01, T:0.80
Consensus pattern (28 bp):
TTTTTTTCTTTTTTTTTTATTTTTTTTA
Found at i:4526726 original size:61 final size:59
Alignment explanation
Indices: 4526654--4526901 Score: 216
Period size: 61 Copynumber: 4.1 Consensus size: 59
4526644 CTTTGTTAAA
* *
4526654 AAAAATTGATACTTT-AACTTTTTCTTAAAAAAAACACTTTTTTTGAAAATTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTT-AAAAAAA-A-TTTTTTTAAAAATTTATTTTCAAG
* *** * *
4526715 AAAAATTGATACTTTCAACTTTTCCTTAACAATGTTTTTTCCTTACAATTTTATTTTCAAG
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAAAAATTTTT--TTAAAAATTTATTTTCAAG
* * * **
4526776 GAAAATTGATATTTTTCAAC-TTTCCTTTAAAAAATATTTTTAAAAAAAATTTGATTTTCAAG
1 AAAAATTGATA-CTTTCAACTTTTCC-TTAAAAAAAATTTTT-TTAAAAATTT-ATTTTCAAG
* * * * * *
4526838 AAAAATTGATACTTTCAATTTTTTCTT-AAAAATATTTTTTGAAAATTTTATTTTTAA-
1 AAAAATTGATACTTTCAACTTTTCCTTAAAAAAAATTTTTTTAAAAATTTATTTTCAAG
4526895 AAAAATT
1 AAAAATT
4526902 ATTGAAAAAT
Statistics
Matches: 153, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
57 7 0.05
58 7 0.05
59 12 0.08
60 12 0.08
61 64 0.42
62 51 0.33
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.46
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCCTTAAAAAAAATTTTTTTAAAAATTTATTTTCAAG
Found at i:4526780 original size:62 final size:60
Alignment explanation
Indices: 4526699--4526901 Score: 193
Period size: 62 Copynumber: 3.4 Consensus size: 60
4526689 ACTTTTTTTG
* ****
4526699 AAAA-TTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAACAATGTTTTTTCCTT
1 AAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TTTTTTAAAA
* * * *
4526759 ACAATTTTATTTTCAAGGAAAATTGATATTTTTCAAC-TTTCCTTTAAAAAATATTTTTAAAA
1 AAAATTTTATTTTCAAGAAAAATTGATA-CTTTCAACTTTTCC-TT-AAAAATTTTTTTAAAA
* * * *
4526821 AAAATTTGATTTTCAAGAAAAATTGATACTTTCAATTTTTTCTTAAAAATATTTTTT---G
1 AAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAAT-TTTTTTAAAA
*
4526879 AAAATTTTATTTTTAA-AAAAATT
1 AAAATTTTATTTTCAAGAAAAATT
4526902 ATTGAAAAAT
Statistics
Matches: 118, Mismatches: 19, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
57 7 0.06
58 14 0.12
60 9 0.08
61 40 0.34
62 43 0.36
63 5 0.04
ACGTcount: A:0.39, C:0.09, G:0.05, T:0.47
Consensus pattern (60 bp):
AAAATTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATTTTTTTAAAA
Found at i:4526911 original size:28 final size:27
Alignment explanation
Indices: 4526854--4526909 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
4526844 TGATACTTTC
* *
4526854 AATTTTTTCTTAAAAATATTTTTTGAA
1 AATTTTTTCTTAAAAATAATTATTGAA
*
4526881 AATTTTATTTTTAAAAA-AATTATTGAA
1 AATTTT-TTCTTAAAAATAATTATTGAA
4526908 AA
1 AA
4526910 ATGAAGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (27 bp):
AATTTTTTCTTAAAAATAATTATTGAA
Found at i:4526964 original size:3 final size:3
Alignment explanation
Indices: 4526956--4526995 Score: 62
Period size: 3 Copynumber: 12.7 Consensus size: 3
4526946 AATAGACAGA
4526956 AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT -AAT AAT AA
4526996 AAAAAACCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
3 30 0.86
4 4 0.11
5 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4527502 original size:30 final size:31
Alignment explanation
Indices: 4527437--4527519 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 31
4527427 ACTAGTTGAA
* * **
4527437 AAATTCAGTCGACATCAAAAAAGTTACCGGT
1 AAATTCAATCGACGTCAAAAAAGTTACCGAC
* *
4527468 AAATTTAATCGACGTC-AAAAAGTTACTGAC
1 AAATTCAATCGACGTCAAAAAAGTTACCGAC
* *
4527498 AAATTCAACCGACGTCGAAAAA
1 AAATTCAATCGACGTCAAAAAA
4527520 TTCAACCAGA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
30 25 0.58
31 18 0.42
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (31 bp):
AAATTCAATCGACGTCAAAAAAGTTACCGAC
Found at i:4527875 original size:12 final size:11
Alignment explanation
Indices: 4527860--4527920 Score: 50
Period size: 12 Copynumber: 5.1 Consensus size: 11
4527850 ATCTGAGAAT
4527860 AAATCAAATAAA
1 AAAT-AAATAAA
4527872 AAATAAAATAAA
1 AAAT-AAATAAA
* *
4527884 AGATAAACAATA
1 AAATAAATAA-A
*
4527896 AAAGTAAAATAAT
1 AAA-T-AAATAAA
4527909 AAATAAATAAA
1 AAATAAATAAA
4527920 A
1 A
4527921 CACAAAAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
11 12 0.31
12 18 0.46
13 4 0.10
14 5 0.13
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:4527895 original size:19 final size:20
Alignment explanation
Indices: 4527867--4527920 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
4527857 AATAAATCAA
4527867 ATAAAAAATAAAA-TAAAAG
1 ATAAAAAATAAAAGTAAAAG
* *
4527886 ATAAACAATAAAAGTAAAATA
1 ATAAAAAATAAAAGTAAAA-G
4527907 ATAAATAAATAAAA
1 ATAAA-AAATAAAA
4527921 CACAAAAAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 12 0.41
20 5 0.17
21 5 0.17
22 7 0.24
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (20 bp):
ATAAAAAATAAAAGTAAAAG
Found at i:4527954 original size:16 final size:15
Alignment explanation
Indices: 4527933--4527967 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4527923 CAAAAAGAGG
4527933 ATAAGTAAATAAATAA
1 ATAAGTAAATAAA-AA
*
4527949 ATAAGTAAATGAAAA
1 ATAAGTAAATAAAAA
4527964 ATAA
1 ATAA
4527968 AAAACATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.09, T:0.23
Consensus pattern (15 bp):
ATAAGTAAATAAAAA
Found at i:4528826 original size:14 final size:14
Alignment explanation
Indices: 4528807--4528836 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4528797 TATCAATAAT
4528807 TTTTATTAATTCAA
1 TTTTATTAATTCAA
*
4528821 TTTTATTAATTTAA
1 TTTTATTAATTCAA
4528835 TT
1 TT
4528837 AATTCTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATTAATTCAA
Found at i:4530802 original size:22 final size:22
Alignment explanation
Indices: 4530774--4530820 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
4530764 CTATTGGGCC
4530774 ACACTGGTGTTACTACTAAAGA
1 ACACTGGTGTTACTACTAAAGA
4530796 ACACTGGTGTTACTACTAAAGA
1 ACACTGGTGTTACTACTAAAGA
4530818 ACA
1 ACA
4530821 AAGCTGATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (22 bp):
ACACTGGTGTTACTACTAAAGA
Found at i:4537147 original size:6 final size:6
Alignment explanation
Indices: 4537136--4537164 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4537126 GTGTGGCAGT
4537136 CTGGCA CTGGCA CTGGCA CTGGCA CTGGC
1 CTGGCA CTGGCA CTGGCA CTGGCA CTGGC
4537165 GTGCAGTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.17
Consensus pattern (6 bp):
CTGGCA
Found at i:4539720 original size:24 final size:26
Alignment explanation
Indices: 4539681--4539746 Score: 93
Period size: 24 Copynumber: 2.6 Consensus size: 26
4539671 AATTATTGTT
4539681 TTGATGATTTTTATTTCTTTAATTTAG
1 TTGATGATTTTTATTTCTTTAATTT-G
*
4539708 -TG-TG-TTTTTATTTGTTTAATTTG
1 TTGATGATTTTTATTTCTTTAATTTG
4539731 TTGATGATTTTTATTT
1 TTGATGATTTTTATTT
4539747 AAATTTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 1 0.03
24 19 0.54
25 4 0.11
26 11 0.31
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.67
Consensus pattern (26 bp):
TTGATGATTTTTATTTCTTTAATTTG
Found at i:4541136 original size:68 final size:67
Alignment explanation
Indices: 4541036--4541168 Score: 185
Period size: 68 Copynumber: 2.0 Consensus size: 67
4541026 TTGTTATTCC
* * *
4541036 TTGCTGTTGAATTGGAACTAACTAGAATTGACTATTGTTGCTAATGTTGATGGTTTGTTGCTGTT
1 TTGCTGTTGAATTGGAACTAACTAGAACTGACTATTATTGCTAATGTTGATGGTTTGCTGCTGTT
4541101 CT
66 CT
* * * * *
4541103 TTGCTGTTGGAATTGGAACTAATTGGAACTGACTGTTATTGCTATTGTTGGTGGTTTGCTGCTGT
1 TTGCTGTT-GAATTGGAACTAACTAGAACTGACTATTATTGCTAATGTTGATGGTTTGCTGCTGT
4541168 T
65 T
4541169 TGATTAGGGA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
67 8 0.14
68 49 0.86
ACGTcount: A:0.19, C:0.11, G:0.26, T:0.44
Consensus pattern (67 bp):
TTGCTGTTGAATTGGAACTAACTAGAACTGACTATTATTGCTAATGTTGATGGTTTGCTGCTGTT
CT
Found at i:4543385 original size:23 final size:24
Alignment explanation
Indices: 4543336--4543385 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4543326 ACTCATACTT
*
4543336 ACTATTCCTATAGTCAGAGTCCTC
1 ACTATACCTATAGTCAGAGTCCTC
*
4543360 ACTATACCTATAGTC-GATTCCTC
1 ACTATACCTATAGTCAGAGTCCTC
4543383 ACT
1 ACT
4543386 CTCTGTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (24 bp):
ACTATACCTATAGTCAGAGTCCTC
Found at i:4549080 original size:15 final size:16
Alignment explanation
Indices: 4549050--4549083 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4549040 GCATTTTAAA
*
4549050 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
4549066 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
4549081 ATT
1 ATT
4549084 TTCAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:4549614 original size:7 final size:7
Alignment explanation
Indices: 4549588--4549636 Score: 64
Period size: 7 Copynumber: 6.7 Consensus size: 7
4549578 TTAAGTCCAC
4549588 TTTTATT
1 TTTTATT
4549595 TATATTCATT
1 T-T-TT-ATT
4549605 TTTTATT
1 TTTTATT
4549612 TTTTATT
1 TTTTATT
4549619 TTTTA-T
1 TTTTATT
4549625 TTTTATT
1 TTTTATT
4549632 TTTTA
1 TTTTA
4549637 AAATTAATTG
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 6 0.16
7 22 0.58
8 3 0.08
9 3 0.08
10 4 0.11
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTATT
Found at i:4549620 original size:13 final size:14
Alignment explanation
Indices: 4549588--4549636 Score: 64
Period size: 13 Copynumber: 3.4 Consensus size: 14
4549578 TTAAGTCCAC
4549588 TTTTATTTATATTCATT
1 TTTTATTT-T-TT-ATT
4549605 TTTTATTTTTTATT
1 TTTTATTTTTTATT
4549619 TTTTA-TTTTTATT
1 TTTTATTTTTTATT
4549632 TTTTA
1 TTTTA
4549637 AAATTAATTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 13 0.41
14 8 0.25
15 2 0.06
16 1 0.03
17 8 0.25
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTTATT
Found at i:4549717 original size:24 final size:23
Alignment explanation
Indices: 4549680--4549732 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
4549670 CAAAAATTTG
*
4549680 AAAA-AAAAAGCAAAAATACA-A
1 AAAACAAAAAGCAAAAAAACAGA
4549701 AACAACAAAAAGCCAAAAAAACAGA
1 AA-AACAAAAAG-CAAAAAAACAGA
4549726 AAAACAA
1 AAAACAA
4549733 GTAAAGGCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 2 0.07
22 2 0.07
23 6 0.22
24 14 0.52
25 3 0.11
ACGTcount: A:0.77, C:0.15, G:0.06, T:0.02
Consensus pattern (23 bp):
AAAACAAAAAGCAAAAAAACAGA
Found at i:4550551 original size:7 final size:8
Alignment explanation
Indices: 4550532--4550561 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4550522 AAAACTACCA
*
4550532 AAAAAATG
1 AAAAAATT
4550540 AAAAAATT
1 AAAAAATT
4550548 AAAAAATT
1 AAAAAATT
4550556 AAAAAA
1 AAAAAA
4550562 CCCCATTACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (8 bp):
AAAAAATT
Found at i:4551122 original size:11 final size:11
Alignment explanation
Indices: 4551091--4551124 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
4551081 TTTTTTAAAA
4551091 AATTGTTTATTT
1 AATT-TTTATTT
4551103 AATTTTTTATTT
1 AA-TTTTTATTT
4551115 AATTTTTATT
1 AATTTTTATT
4551125 ATTTTTTAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 8 0.38
12 11 0.52
13 2 0.10
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (11 bp):
AATTTTTATTT
Found at i:4551631 original size:30 final size:29
Alignment explanation
Indices: 4551582--4551666 Score: 120
Period size: 30 Copynumber: 2.9 Consensus size: 29
4551572 TCTTTTTTTT
4551582 TTATTAATAAAAT--AAAATAACTAAAAA
1 TTATTAATAAAATAAAAAATAACTAAAAA
4551609 TTATTAAATAAAATAAAAAATAACTAAAAA
1 TTATT-AATAAAATAAAAAATAACTAAAAA
* *
4551639 TTATTAGTAAAAATAAAAATTAACTAAA
1 TTATTAAT-AAAATAAAAAATAACTAAA
4551667 TTAATGATGA
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
27 5 0.10
28 8 0.15
29 2 0.04
30 37 0.71
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
TTATTAATAAAATAAAAAATAACTAAAAA
Found at i:4553168 original size:16 final size:17
Alignment explanation
Indices: 4553108--4553183 Score: 65
Period size: 16 Copynumber: 4.6 Consensus size: 17
4553098 ATATACATTA
4553108 ATCTTTACTTTATGTATTT
1 ATCTTTA-TTTAT-TATTT
4553127 ATC-TTATTT-TGT-TTT
1 ATCTTTATTTAT-TATTT
4553142 ATACTTT-TTTA-TATTT
1 AT-CTTTATTTATTATTT
4553158 ATCTTTATTTATTATTT
1 ATCTTTATTTATTATTT
*
4553175 -TTTTTATTT
1 ATCTTTATTT
4553184 TTTTTATTTC
Statistics
Matches: 50, Mismatches: 1, Indels: 15
0.76 0.02 0.23
Matches are distributed among these distances:
15 10 0.20
16 24 0.48
17 10 0.20
18 3 0.06
19 3 0.06
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.71
Consensus pattern (17 bp):
ATCTTTATTTATTATTT
Found at i:4557816 original size:26 final size:26
Alignment explanation
Indices: 4557732--4557877 Score: 106
Period size: 26 Copynumber: 5.5 Consensus size: 26
4557722 TTATTATTAC
*
4557732 TATTA-TTATTTATTAATATATAATTTT
1 TATTATTTATCTATTAATATAT-A-TTT
* *
4557759 TATTACTATTTAACTATT-A-ACATATTT
1 TA-T--TATTTATCTATTAATATATATTT
*
4557786 TATTATTTATCTGTTAATATATATTT
1 TATTATTTATCTATTAATATATATTT
* *
4557812 TATTA-TTAT-TATTTATCTATTCATATAT
1 TATTATTTATCTA-TTA-ATA-T-ATATTT
4557840 TATTATTTATCTATTAATATATATTT
1 TATTATTTATCTATTAATATATATTT
4557866 T-TTATTTTATCT
1 TATTA-TTTATCT
4557878 TTTTTTCTTG
Statistics
Matches: 95, Mismatches: 11, Indels: 27
0.71 0.08 0.20
Matches are distributed among these distances:
24 11 0.12
25 11 0.12
26 28 0.29
27 9 0.09
28 14 0.15
29 10 0.11
30 5 0.05
31 7 0.07
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (26 bp):
TATTATTTATCTATTAATATATATTT
Found at i:4557832 original size:14 final size:13
Alignment explanation
Indices: 4557722--4557872 Score: 59
Period size: 14 Copynumber: 11.7 Consensus size: 13
4557712 AATTTTTTAT
*
4557722 TTATTA-TTACTA
1 TTATTATTTATTA
4557734 TTATTATTTATTAA
1 TTATTATTTATT-A
*
4557748 TATATAATTT-TTA
1 T-TATTATTTATTA
*
4557761 TTACTATTTA--A
1 TTATTATTTATTA
* **
4557772 CTATTAACATATT-
1 TTATT-ATTTATTA
*
4557785 TTATTATTTATCTG
1 TTATTATTTAT-TA
* *
4557799 TTAATATATATT-
1 TTATTATTTATTA
4557811 TTATTA-TTATTA
1 TTATTATTTATTA
*
4557823 TTTATCTATTCATATA
1 -TTAT-TATTTAT-TA
4557839 TTATTATTTATCTA
1 TTATTATTTAT-TA
* *
4557853 TTAATATATATT-
1 TTATTATTTATTA
4557865 TT-TTATTT
1 TTATTATTT
4557873 TATCTTTTTT
Statistics
Matches: 103, Mismatches: 22, Indels: 29
0.67 0.14 0.19
Matches are distributed among these distances:
11 12 0.12
12 26 0.25
13 17 0.17
14 32 0.31
15 14 0.14
16 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (13 bp):
TTATTATTTATTA
Found at i:4557832 original size:22 final size:23
Alignment explanation
Indices: 4557807--4557870 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 23
4557797 TGTTAATATA
*
4557807 TATTTTAT-TATTATTATTTATC
1 TATTTCATATATTATTATTTATC
4557829 TA-TTCATATATTATTATTTATC
1 TATTTCATATATTATTATTTATC
* *
4557851 TA-TTAATATA-TATTTTTTAT
1 TATTTCATATATTATTATTTAT
4557871 TTTATCTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.34
22 25 0.66
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTTCATATATTATTATTTATC
Found at i:4557837 original size:54 final size:54
Alignment explanation
Indices: 4557732--4557875 Score: 195
Period size: 54 Copynumber: 2.7 Consensus size: 54
4557722 TTATTATTAC
* * * *
4557732 TATTA-TTATTTATTAATATATAATTTTTATTACTATTTAACTATTAACATATTT
1 TATTATTTATCTATTAATATATATTTTTTATTATTATTTAACTATT-ACATATAT
* *
4557786 TATTATTTATCTGTTAATATATATTTTATTATTATTATTTATCTATT-CATATAT
1 TATTATTTATCTATTAATATATATTTT-TTATTATTATTTAACTATTACATATAT
4557840 TATTATTTATCTATTAATATATATTTTTTATT-TTAT
1 TATTATTTATCTATTAATATATATTTTTTATTATTAT
4557876 CTTTTTTTCT
Statistics
Matches: 81, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
52 4 0.05
53 5 0.06
54 37 0.46
55 18 0.22
56 17 0.21
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (54 bp):
TATTATTTATCTATTAATATATATTTTTTATTATTATTTAACTATTACATATAT
Found at i:4558158 original size:24 final size:24
Alignment explanation
Indices: 4558125--4558175 Score: 61
Period size: 23 Copynumber: 2.1 Consensus size: 24
4558115 TTAAAACAGC
4558125 TTTAGGAATTTGTGGGAA-TTTTTTT
1 TTTAGGAATTT-T-GGAAGTTTTTTT
*
4558150 TTTA-GAATTTTTGAAGTTTTTTT
1 TTTAGGAATTTTGGAAGTTTTTTT
4558173 TTT
1 TTT
4558176 TTTTCAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.12
23 11 0.46
24 6 0.25
25 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.63
Consensus pattern (24 bp):
TTTAGGAATTTTGGAAGTTTTTTT
Found at i:4558760 original size:17 final size:16
Alignment explanation
Indices: 4558746--4558816 Score: 101
Period size: 15 Copynumber: 4.4 Consensus size: 16
4558736 AATTATTTAG
4558746 TATTTTT-TTTTATTT
1 TATTTTTATTTTATTT
*
4558761 GATTTTTATTTT-TTT
1 TATTTTTATTTTATTT
4558776 TATTTTTATCTTTATTTT
1 TATTTTTAT-TTTA-TTT
4558794 TATTTTTATTTTATTT
1 TATTTTTATTTTATTT
4558810 TATTTTT
1 TATTTTT
4558817 TTATTTTCTT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
15 17 0.34
16 17 0.34
17 4 0.08
18 12 0.24
ACGTcount: A:0.15, C:0.01, G:0.01, T:0.82
Consensus pattern (16 bp):
TATTTTTATTTTATTT
Found at i:4558772 original size:5 final size:5
Alignment explanation
Indices: 4558746--4558823 Score: 72
Period size: 5 Copynumber: 15.2 Consensus size: 5
4558736 AATTATTTAG
* *
4558746 TATTT TTTTT TATTT GATTTT TATTT T-TTT TATTTT TATCTT TATTTT
1 TATTT TATTT TATTT TA-TTT TATTT TATTT TA-TTT TAT-TT TA-TTT
4558794 TATTTT TATTT TATTT TA-TT T-TTT TATTT T
1 TA-TTT TATTT TATTT TATTT TATTT TATTT T
4558824 CTTTAAATAA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
4 10 0.16
5 28 0.45
6 23 0.37
7 1 0.02
ACGTcount: A:0.15, C:0.01, G:0.01, T:0.82
Consensus pattern (5 bp):
TATTT
Found at i:4558773 original size:6 final size:6
Alignment explanation
Indices: 4558748--4558823 Score: 74
Period size: 6 Copynumber: 13.5 Consensus size: 6
4558738 TTATTTAGTA
* *
4558748 TTTT-T TTTTA- TTTGAT TTTTA- -TTT-T TTTTAT TTTTAT CTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
*
4558791 TTTTAT TTTTA- TTTTAT TTTATTT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTT-TAT TTTTAT TTT
4558824 CTTTAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
4 3 0.05
5 16 0.28
6 34 0.59
7 5 0.09
ACGTcount: A:0.14, C:0.01, G:0.01, T:0.83
Consensus pattern (6 bp):
TTTTAT
Found at i:4558906 original size:60 final size:58
Alignment explanation
Indices: 4558842--4559121 Score: 318
Period size: 60 Copynumber: 4.8 Consensus size: 58
4558832 AAAATTCTAA
*
4558842 AAAAAATATTTTTGAAGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
1 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--TTTTCT
*
4558902 AAAAAATATTTTTG-AGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * * *
4558960 AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTTGGAAATAA-TTTTCT
1 AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAGTTTTCT
* * * *
4559018 AAAAAAGGTTTTTTTG-AGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TCTC-
1 AAAAAA--TATTTTTGAAG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTCT
* * * *
4559077 AGGAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 A-AAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTG
4559122 TACAAAAGCA
Statistics
Matches: 189, Mismatches: 21, Indels: 22
0.81 0.09 0.09
Matches are distributed among these distances:
58 79 0.42
59 30 0.16
60 80 0.42
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAAGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
Found at i:4558983 original size:118 final size:115
Alignment explanation
Indices: 4558842--4559121 Score: 366
Period size: 118 Copynumber: 2.4 Consensus size: 115
4558832 AAAATTCTAA
* * *
4558842 AAAAAATATTTTTGAAGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCTAAAAA
1 AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAA---TTTTCTAAAAA
* *
4558907 A-TATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTC
63 AGTATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAG-TCTC
* *
4558959 TAAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTTGGAAATAATTTTCTAAAAAA
1 -AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAATTTTCTAAAAAA
* * *
4559024 GGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAGTCTC
64 -GTATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAGTCTC
* *
4559077 AGGAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 A-AAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
4559122 TACAAAAGCA
Statistics
Matches: 144, Mismatches: 13, Indels: 11
0.86 0.08 0.07
Matches are distributed among these distances:
116 12 0.08
117 8 0.06
118 107 0.74
119 17 0.12
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (115 bp):
AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAATTTTCTAAAAAAGT
ATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTCGAAAATAAAGTCTC
Found at i:4558989 original size:58 final size:58
Alignment explanation
Indices: 4558842--4559121 Score: 341
Period size: 58 Copynumber: 4.8 Consensus size: 58
4558832 AAAATTCTAA
* *
4558842 AAAAAATATTTTTGAAGAGAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAG--TTTTCT
* *
4558902 AAAAAATATTTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
* * *
4558960 AAAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTTGGAAATAA-TTTTCT
1 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCCTTGAAAATAAGTTTTCT
* * * * *
4559018 AAAAAAGGTTTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTCGAAATTAAAG-TCTC-
1 AAAAAA--TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAAT-AAGTTTTCT
* * *
4559077 AGGAAAATATTTTCGAGGAAAAGTTGAAAGTATCAATTTTTCTTG
1 A-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTG
4559122 TACAAAAGCA
Statistics
Matches: 191, Mismatches: 23, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
58 83 0.43
59 25 0.13
60 83 0.43
ACGTcount: A:0.41, C:0.07, G:0.14, T:0.38
Consensus pattern (58 bp):
AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATAAGTTTTCT
Found at i:4562875 original size:12 final size:11
Alignment explanation
Indices: 4562858--4562918 Score: 61
Period size: 12 Copynumber: 5.2 Consensus size: 11
4562848 ATGATAAATC
4562858 AAATAAAATATA
1 AAATAAAATA-A
4562870 AAATAAAATAA
1 AAATAAAATAA
*
4562881 AATATAAACAATGA
1 AA-AT-AA-AATAA
4562895 AAATAAAATAA
1 AAATAAAATAA
4562906 TAAAT-AAATAA
1 -AAATAAAATAA
4562917 AA
1 AA
4562919 CTCAGAAAGA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
10 2 0.05
11 13 0.30
12 18 0.42
13 4 0.09
14 6 0.14
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:4562878 original size:17 final size:17
Alignment explanation
Indices: 4562853--4562918 Score: 73
Period size: 17 Copynumber: 3.8 Consensus size: 17
4562843 ACCTGATGAT
*
4562853 AAATCAAATAAAATATA
1 AAATAAAATAAAATATA
4562870 AAATAAAATAAAATATAA
1 AAATAAAATAAAATAT-A
4562888 ACAATGAAAATAAAATA-A
1 A-AAT-AAAATAAAATATA
4562906 TAAAT-AAATAAAA
1 -AAATAAAATAAAA
4562919 CTCAGAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
16 8 0.18
17 15 0.34
18 6 0.14
19 4 0.09
20 11 0.25
ACGTcount: A:0.74, C:0.03, G:0.02, T:0.21
Consensus pattern (17 bp):
AAATAAAATAAAATATA
Found at i:4571613 original size:24 final size:26
Alignment explanation
Indices: 4571574--4571639 Score: 93
Period size: 24 Copynumber: 2.6 Consensus size: 26
4571564 AATTATTGTT
4571574 TTGATGATTTTTATTTCTTTAATTTAG
1 TTGATGATTTTTATTTCTTTAATTT-G
*
4571601 -TG-TG-TTTTTATTTGTTTAATTTG
1 TTGATGATTTTTATTTCTTTAATTTG
4571624 TTGATGATTTTTATTT
1 TTGATGATTTTTATTT
4571640 AAATTTGCAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
23 1 0.03
24 19 0.54
25 4 0.11
26 11 0.31
ACGTcount: A:0.18, C:0.02, G:0.14, T:0.67
Consensus pattern (26 bp):
TTGATGATTTTTATTTCTTTAATTTG
Found at i:4573050 original size:68 final size:67
Alignment explanation
Indices: 4572917--4573051 Score: 162
Period size: 68 Copynumber: 2.0 Consensus size: 67
4572907 TTTGTTGCTA
* * ** *
4572917 TTGTTATTCCTTGCTGTTGAATTGGAACTAACTAGAATTGATTATTGTTGCTGTTGTTAATGGTT
1 TTGTTATTCCTTGCTGTTGAATTGAAACTAACTAGAACTGATTATTGTTGCTACTGTTAACGGTT
4572982 TG
66 TG
* * * * **
4572984 TTGTTGTTCCTTGCTGTTGGAATTGAAACTAATTGGAACTGATTGTTGTTGCTACTGTTGGCGGT
1 TTGTTATTCCTTGCTGTT-GAATTGAAACTAACTAGAACTGATTATTGTTGCTACTGTTAACGGT
4573049 TTG
65 TTG
4573052 CTGCTGTTTG
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
67 17 0.30
68 39 0.70
ACGTcount: A:0.19, C:0.10, G:0.25, T:0.46
Consensus pattern (67 bp):
TTGTTATTCCTTGCTGTTGAATTGAAACTAACTAGAACTGATTATTGTTGCTACTGTTAACGGTT
TG
Found at i:4575246 original size:23 final size:24
Alignment explanation
Indices: 4575197--4575246 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4575187 ACTCATTCTT
*
4575197 ACTATTCCTATAGTCAGAGTCCTC
1 ACTATACCTATAGTCAGAGTCCTC
* *
4575221 ACTATACCTATAG-CCGATTCCTC
1 ACTATACCTATAGTCAGAGTCCTC
4575244 ACT
1 ACT
4575247 TTCTGTTCCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.26, C:0.32, G:0.10, T:0.32
Consensus pattern (24 bp):
ACTATACCTATAGTCAGAGTCCTC
Found at i:4576137 original size:17 final size:17
Alignment explanation
Indices: 4576115--4576156 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
4576105 ATCGTATCAA
*
4576115 TATGTTTAGTTTTTTTT
1 TATGTTTAGTGTTTTTT
*
4576132 TATGTTTGGTGTTTTTT
1 TATGTTTAGTGTTTTTT
4576149 TATGTTTA
1 TATGTTTA
4576157 ATCCTGTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.12, C:0.00, G:0.17, T:0.71
Consensus pattern (17 bp):
TATGTTTAGTGTTTTTT
Found at i:4576194 original size:13 final size:13
Alignment explanation
Indices: 4576176--4576200 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4576166 AGGAATGTTG
4576176 TTTATTGTATGAT
1 TTTATTGTATGAT
4576189 TTTATTGTATGA
1 TTTATTGTATGA
4576201 AAGTGTTACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (13 bp):
TTTATTGTATGAT
Found at i:4579917 original size:23 final size:24
Alignment explanation
Indices: 4579878--4579934 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
4579868 CTCTAAAAAA
4579878 ATAAAAAATGAATTTTTATAAAGG
1 ATAAAAAATGAATTTTTATAAAGG
*
4579902 ATAAAAAATGAATTTTTATAATGG
1 ATAAAAAATGAATTTTTATAAAGG
4579926 ATAAAAAAT
1 ATAAAAAAT
4579935 AAGATATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (24 bp):
ATAAAAAATGAATTTTTATAAAGG
Found at i:4580985 original size:15 final size:16
Alignment explanation
Indices: 4580955--4580988 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4580945 GCATTTTAAA
*
4580955 ATTATAATTATTTTAT
1 ATTATAAATATTTTAT
4580971 ATTATAAAT-TTTTAT
1 ATTATAAATATTTTAT
4580986 ATT
1 ATT
4580989 TTCAAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATAAATATTTTAT
Found at i:4581519 original size:7 final size:7
Alignment explanation
Indices: 4581494--4581531 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
4581484 TTAAGTCCAC
4581494 TTTTA-T
1 TTTTATT
4581500 TTTTA-T
1 TTTTATT
*
4581506 CTTTATT
1 TTTTATT
4581513 TTTTATT
1 TTTTATT
4581520 TTTTATT
1 TTTTATT
4581527 TTTTA
1 TTTTA
4581532 AAATTAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 10 0.34
7 19 0.66
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTATT
Found at i:4583012 original size:18 final size:19
Alignment explanation
Indices: 4582991--4583036 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
4582981 TTTTTTTGAA
4582991 AATTTTTTATTTA-ATTTT
1 AATTTTTTATTTATATTTT
*
4583009 AA-TTTTTA-TTATTTTTT
1 AATTTTTTATTTATATTTT
*
4583026 AGTTTTTTATT
1 AATTTTTTATT
4583037 GTTATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 3 0.13
17 11 0.48
18 8 0.35
19 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
AATTTTTTATTTATATTTT
Found at i:4583524 original size:30 final size:29
Alignment explanation
Indices: 4583476--4583559 Score: 118
Period size: 30 Copynumber: 2.9 Consensus size: 29
4583466 TTTTTTTTTC
4583476 TATTAATAAAAT--AAAATAACTAAAAAT
1 TATTAATAAAATAAAAAATAACTAAAAAT
4583503 TATTAAATAAAATAAAAAATAACTAAAAAT
1 TATT-AATAAAATAAAAAATAACTAAAAAT
* *
4583533 TATTAGTAAAAATAAAAATTAACTAAA
1 TATTAAT-AAAATAAAAAATAACTAAA
4583560 TTAATGATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
27 4 0.08
28 8 0.16
29 2 0.04
30 37 0.73
ACGTcount: A:0.67, C:0.04, G:0.01, T:0.29
Consensus pattern (29 bp):
TATTAATAAAATAAAAAATAACTAAAAAT
Found at i:4585061 original size:16 final size:17
Alignment explanation
Indices: 4585001--4585067 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 17
4584991 ATATACATTA
4585001 ATCTTTACTTTATGTATTT
1 ATCTTTA-TTTAT-TATTT
4585020 ATC-TTATTT-TGT-TTT
1 ATCTTTATTTAT-TATTT
4585035 ATACTTT-TTTA-TATTT
1 AT-CTTTATTTATTATTT
4585051 ATCTTTATTTATTATTT
1 ATCTTTATTTATTATTT
4585068 TTTGATTTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
15 10 0.24
16 16 0.38
17 10 0.24
18 3 0.07
19 3 0.07
ACGTcount: A:0.21, C:0.07, G:0.03, T:0.69
Consensus pattern (17 bp):
ATCTTTATTTATTATTT
Found at i:4586097 original size:4 final size:4
Alignment explanation
Indices: 4586088--4586122 Score: 52
Period size: 4 Copynumber: 8.2 Consensus size: 4
4586078 TTCTTTGGTA
4586088 TATT TATT TATT TATT TATT TATTT TAATT TATT T
1 TATT TATT TATT TATT TATT TA-TT T-ATT TATT T
4586123 TTCTATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 22 0.76
5 6 0.21
6 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:4589643 original size:3 final size:3
Alignment explanation
Indices: 4589635--4589697 Score: 54
Period size: 3 Copynumber: 18.3 Consensus size: 3
4589625 TGTTAATATA
4589635 TAT TAT TAT TAT TAT TATT TAT CTAT TCAT ATAT TAT TATT TAT CTAT
1 TAT TAT TAT TAT TAT TA-T TAT -TAT T-AT -TAT TAT TA-T TAT -TAT
4589683 TCAT ATAT TAT TAT T
1 T-AT -TAT TAT TAT T
4589698 TATCTATTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 16
0.76 0.00 0.24
Matches are distributed among these distances:
3 30 0.58
4 20 0.38
5 2 0.04
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:4589653 original size:33 final size:33
Alignment explanation
Indices: 4589609--4589675 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
4589599 ACTATTAACA
*
4589609 TATTTTATTATTTATCTGTTAATATA-TATTAT
1 TATTTTATTATTTATCTATTAATATATTATTAT
*
4589641 TATTATTATTATTTATCTATTCATATATTATTAT
1 TATT-TTATTATTTATCTATTAATATATTATTAT
4589675 T
1 T
4589676 TATCTATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
32 4 0.13
33 20 0.65
34 7 0.23
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (33 bp):
TATTTTATTATTTATCTATTAATATATTATTAT
Found at i:4589669 original size:22 final size:22
Alignment explanation
Indices: 4589644--4589713 Score: 131
Period size: 22 Copynumber: 3.2 Consensus size: 22
4589634 ATATTATTAT
4589644 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTCATA
4589666 TATTATTATTTATCTATTCATA
1 TATTATTATTTATCTATTCATA
*
4589688 TATTATTATTTATCTATTAATA
1 TATTATTATTTATCTATTCATA
4589710 TATT
1 TATT
4589714 TTTTTAATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
TATTATTATTTATCTATTCATA
Found at i:4589672 original size:55 final size:57
Alignment explanation
Indices: 4589560--4589706 Score: 162
Period size: 55 Copynumber: 2.6 Consensus size: 57
4589550 TTATTATTAC
* * *
4589560 TATTA-TTATTTATTAATATATA--ATT-TGTATTACTATTTAACTATTAACATATTT
1 TATTATTTATCTATTAATATATATTATTATCTATTACTATTTAACTATT-ACATATAT
* * *
4589614 TATTATTTATCTGTTAATATATATTATTAT-TATTATTATTTATCTATT-CATATAT
1 TATTATTTATCTATTAATATATATTATTATCTATTACTATTTAACTATTACATATAT
*
4589669 TATTATTTATCTATTCATATATTATTATTTATCTATTA
1 TATTATTTATCTATTAATATA-TATTA-TTATCTATTA
4589707 ATATATTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 10
0.82 0.07 0.10
Matches are distributed among these distances:
54 5 0.06
55 40 0.51
56 5 0.06
57 23 0.29
58 6 0.08
ACGTcount: A:0.34, C:0.06, G:0.01, T:0.59
Consensus pattern (57 bp):
TATTATTTATCTATTAATATATATTATTATCTATTACTATTTAACTATTACATATAT
Found at i:4590556 original size:7 final size:7
Alignment explanation
Indices: 4590544--4590579 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
4590534 TTTTTTTTTC
4590544 TTATTTA
1 TTATTTA
4590551 TTATTTA
1 TTATTTA
4590558 TTATTTA
1 TTATTTA
4590565 TTA-TTA
1 TTATTTA
4590571 TTATTTA
1 TTATTTA
4590578 TT
1 TT
4590580 GTATTAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.21
7 22 0.79
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:4590568 original size:10 final size:10
Alignment explanation
Indices: 4590548--4590670 Score: 59
Period size: 10 Copynumber: 12.8 Consensus size: 10
4590538 TTTTTCTTAT
4590548 TTATTATTTA
1 TTATTATTTA
4590558 TTATT-TATTA
1 TTATTAT-TTA
4590568 TTATTATTTA
1 TTATTATTTA
* *
4590578 TT-GTATTAGA
1 TTATTATT-TA
* *
4590588 TTA-GAATTA
1 TTATTATTTA
*
4590597 TTAGTATTTA
1 TTATTATTTA
*
4590607 TTTTTATTTGA
1 TTATTATTT-A
*
4590618 TTTTTATTT-
1 TTATTATTTA
4590627 TT-TTATTTA
1 TTATTATTTA
4590636 TCT-TTATTT-
1 T-TATTATTTA
4590645 TCTA-T-TTTA
1 T-TATTATTTA
4590654 TT-TTATTTA
1 TTATTATTTA
*
4590663 TTTTTATT
1 TTATTATT
4590671 GTTATTTTTT
Statistics
Matches: 91, Mismatches: 9, Indels: 26
0.72 0.07 0.21
Matches are distributed among these distances:
8 11 0.12
9 23 0.25
10 46 0.51
11 11 0.12
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.70
Consensus pattern (10 bp):
TTATTATTTA
Found at i:4590612 original size:6 final size:6
Alignment explanation
Indices: 4590603--4590679 Score: 68
Period size: 6 Copynumber: 12.5 Consensus size: 6
4590593 ATTATTAGTA
* *
4590603 TTTATT TTTA-T TTGATT TTTATT TTT-TT ATTTATC TTTATT TTCTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT -TTTATT TTTATT TT-TATT
* *
4590651 TTATTTT ATTTATT TTTATT GTTATT TTT
1 TT-TATT -TTTATT TTTATT TTTATT TTT
4590680 TTGATTTTTT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
5 6 0.11
6 36 0.63
7 13 0.23
8 2 0.04
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:4590688 original size:10 final size:9
Alignment explanation
Indices: 4590601--4590689 Score: 54
Period size: 10 Copynumber: 8.9 Consensus size: 9
4590591 GAATTATTAG
4590601 TATTTATTTT
1 TATTT-TTTT
4590611 TATTTGATTTT
1 TATTT--TTTT
4590622 TA-TTTTTT
1 TATTTTTTT
*
4590630 TATTTATCTT
1 TATTT-TTTT
4590640 TATTTTCTATTT
1 TA-TTT-T-TTT
*
4590652 TATTTTATT
1 TATTTTTTT
4590661 TATTTTTATTGT
1 TA-TTTT-TT-T
4590673 TATTTTTTT
1 TATTTTTTT
*
4590682 GATTTTTT
1 TATTTTTT
4590690 CTTAAATTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
8 6 0.09
9 14 0.22
10 19 0.29
11 19 0.29
12 7 0.11
ACGTcount: A:0.17, C:0.02, G:0.03, T:0.78
Consensus pattern (9 bp):
TATTTTTTT
Found at i:4590812 original size:58 final size:56
Alignment explanation
Indices: 4590703--4590857 Score: 163
Period size: 56 Copynumber: 2.7 Consensus size: 56
4590693 AAATTAAAAA
**
4590703 TTCTAAAAAAATATTTTTGA-AAAGAAGTTGAAAGTATCAATTTTCGCTTGAAAATAAGT
1 TTCTAAAAAAATA-TTTTGAGAAA-AAGTTGAAAGTATCAAAGTTCGCTTG-AAA-AAGT
* *
4590762 TTCTAAAAAAATATTTCGAGAAAAAGTTGAAAGATAT-AAAGTT-GCTTTGAAAAATT
1 TTCTAAAAAAATATTTTGAGAAAAAGTTGAAAG-TATCAAAGTTCGC-TTGAAAAAGT
* * * *
4590818 TTCTAAAAAAGTTTTTTAAGAAAAAATTGAAAGTATCAAA
1 TTCTAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAAA
4590858 TTTTCCTCGA
Statistics
Matches: 83, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
55 3 0.04
56 34 0.41
57 5 0.06
58 22 0.27
59 19 0.23
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.34
Consensus pattern (56 bp):
TTCTAAAAAAATATTTTGAGAAAAAGTTGAAAGTATCAAAGTTCGCTTGAAAAAGT
Found at i:4592289 original size:21 final size:21
Alignment explanation
Indices: 4592265--4592311 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
4592255 GAGTCCGTCA
4592265 AGACAAGAGCAATTTTATCAG
1 AGACAAGAGCAATTTTATCAG
4592286 AGACAAGAGCAATTTTATCAG
1 AGACAAGAGCAATTTTATCAG
4592307 AGACA
1 AGACA
4592312 CGGGCATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.45, C:0.15, G:0.19, T:0.21
Consensus pattern (21 bp):
AGACAAGAGCAATTTTATCAG
Found at i:4601429 original size:25 final size:25
Alignment explanation
Indices: 4601376--4601430 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
4601366 ATATGCTTGA
* *
4601376 AAAAAAAAAGAGAAAAAATAAAATT
1 AAAAAAAAAGAAAAAAAATAAAATG
**
4601401 AAAAAAAAAGAAAAAAAATTGAATG
1 AAAAAAAAAGAAAAAAAATAAAATG
4601426 AAAAA
1 AAAAA
4601431 TGAGGACTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.80, C:0.00, G:0.09, T:0.11
Consensus pattern (25 bp):
AAAAAAAAAGAAAAAAAATAAAATG
Found at i:4602555 original size:83 final size:82
Alignment explanation
Indices: 4602467--4602690 Score: 290
Period size: 83 Copynumber: 2.7 Consensus size: 82
4602457 AGTTGTGATA
* * * *
4602467 CCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTG-TGATGCCTTTGATTAGAGGAGCAATTTA
1 CCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGA-GCCTCTGATTAGAGGAGCAATTTA
*
4602531 CTTTT-CAAATATCGTTGAG
65 -TTTTCCAAA-ATCATTGAG
* *
4602550 CCTCTGATTAGAGGAGCCTTTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTAT
1 CCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCAATTTAT
*
4602615 TTTCCAAAGTCATTGAG
66 TTTCCAAAATCATTGAG
* * * *
4602632 CCTCTGATGAGATGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAAGAGC
1 CCTCTGATTAGAGGAGCCATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGC
4602691 TTTGTTTATG
Statistics
Matches: 125, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
82 37 0.30
83 85 0.68
84 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (82 bp):
CCTCTGATTAGAGGAGCCATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCAATTTAT
TTTCCAAAATCATTGAG
Found at i:4602660 original size:124 final size:128
Alignment explanation
Indices: 4602450--4602733 Score: 336
Period size: 124 Copynumber: 2.3 Consensus size: 128
4602440 AGCATTTACT
* * * *
4602450 TTTC-CAAAGTTG-TGATACCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGATGCCTTT
1 TTTCTCAAAGTCGTTGA-ACCTCTGATTAGAGGAGCAATTTATTTTCCAAAGTTGTGATGCCTCT
* *
4602513 GATTAGAGGAGCAATTTACTTTTCAAATA-TCGTTGAGCCTCTGATTAGAGGAGC-CT-TTTAT-
65 GATGAGAGGAGCAATTTACTTTTCAAA-AGTCGTTGAGCCTCTGATTAGAAGAGCTCTGTTTATG
* *
4602574 TTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGAGCCATTTATTTTCCAAAGTCAT-TGA-GCCTC
1 TTTCTCAAAGTCGTTGAACCTCTGATTAGAGGAGCAATTTATTTTCCAAAGT--TGTGATGCCTC
* * * * *
4602636 TGATGAGATGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAGAAGAGCTTTGTTTATG
64 TGATGAGAGGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAAGAGCTCTGTTTATG
4602701 TTTCTCAAAGTCGTTGAACCTCT-ACTTAGAGGA
1 TTTCTCAAAGTCGTTGAACCTCTGA-TTAGAGGA
4602734 ACTTTGATCA
Statistics
Matches: 136, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
123 1 0.01
124 92 0.68
125 7 0.05
126 6 0.04
127 4 0.03
128 26 0.19
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (128 bp):
TTTCTCAAAGTCGTTGAACCTCTGATTAGAGGAGCAATTTATTTTCCAAAGTTGTGATGCCTCTG
ATGAGAGGAGCAATTTACTTTTCAAAAGTCGTTGAGCCTCTGATTAGAAGAGCTCTGTTTATG
Found at i:4602717 original size:45 final size:41
Alignment explanation
Indices: 4602437--4602733 Score: 280
Period size: 41 Copynumber: 7.1 Consensus size: 41
4602427 ATGATCATCA
* * * *
4602437 AGGAGC-ATTTACTTTTCCAAAGTTG-TGATACCTCTGTTTAG
1 AGGAGCTATTTA-TTTTTCAAAGTCGTTGA-GCCTCTGATTAG
* * *
4602478 AGGAGCAATTTATTTTTCAAAGTTG-TGATGCCTTTGATTAG
1 AGGAGCTATTTATTTTTCAAAGTCGTTGA-GCCTCTGATTAG
* * *
4602519 AGGAGCAATTTACTTTTCAAATATCGTTGAGCCTCTGATTAG
1 AGGAGCTATTTATTTTTCAAA-GTCGTTGAGCCTCTGATTAG
4602561 AGGAGCCT-TTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
1 AGGAG-CTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * * *
4602602 AGGAGCCATTTATTTTCCAAAGTCATTGAGCCTCTGATGAG
1 AGGAGCTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
* * *
4602643 ATGAGCCATTTATTTTTCAAAAGTCGTTGAGCCTCTGCTTAG
1 AGGAGCTATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAG
* * *
4602685 AAGAGCTTTGTTTATGTTTCTCAAAGTCGTTGAACCTCT-ACTTAG
1 AGGAGC--TATTTAT-TTT-TCAAAGTCGTTGAGCCTCTGA-TTAG
4602730 AGGA
1 AGGA
4602734 ACTTTGATCA
Statistics
Matches: 219, Mismatches: 26, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
40 1 0.00
41 121 0.55
42 60 0.27
43 4 0.02
44 5 0.02
45 26 0.12
46 2 0.01
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (41 bp):
AGGAGCTATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAG
Found at i:4602944 original size:11 final size:11
Alignment explanation
Indices: 4602926--4602979 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
4602916 CATTTGTAAT
4602926 TTTA-TTTTTA
1 TTTATTTTTTA
4602936 TTTATTTTTTA
1 TTTATTTTTTA
**
4602947 TTT-TTTTCAA
1 TTTATTTTTTA
*
4602957 TAT-TTTTTTA
1 TTTATTTTTTA
*
4602967 TTTATTTATTA
1 TTTATTTTTTA
4602978 TT
1 TT
4602980 ACTATTATGA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:4603047 original size:24 final size:24
Alignment explanation
Indices: 4603016--4603104 Score: 110
Period size: 24 Copynumber: 3.8 Consensus size: 24
4603006 TTTTTATTAC
4603016 TATTTATCTATTAACATATTTTAT
1 TATTTATCTATTAACATATTTTAT
* * * *
4603040 TATTTATCTGTTAATATTTTTTTT
1 TATTTATCTATTAACATATTTTAT
*
4603064 TATTTATCTATT--CATATATTAT
1 TATTTATCTATTAACATATTTTAT
*
4603086 TATTTATCTATTAATATAT
1 TATTTATCTATTAACATAT
4603105 ATTTTTTGTT
Statistics
Matches: 53, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
22 18 0.34
24 35 0.66
ACGTcount: A:0.30, C:0.07, G:0.01, T:0.62
Consensus pattern (24 bp):
TATTTATCTATTAACATATTTTAT
Found at i:4603068 original size:48 final size:49
Alignment explanation
Indices: 4602956--4603120 Score: 148
Period size: 48 Copynumber: 3.4 Consensus size: 49
4602946 ATTTTTTTCA
* * *
4602956 ATATTTTTT-TATTTATTTATT-ATTACTATTATGATTTAT-TAAT-ATAT
1 ATATTTTTTGTATTTATCTATTCA-TA-TATTATTATTTATCTATTAATAT
* * * *
4603003 AATTTTTTATTACTATTTATCTATTAACATATTTTATTATTTATCTGTTAATAT
1 -ATATTTT-TT-GTATTTATCTATT--CATATATTATTATTTATCTATTAATAT
4603057 -T-TTTTTT-TATTTATCTATTCATATATTATTATTTATCTATTAATAT
1 ATATTTTTTGTATTTATCTATTCATATATTATTATTTATCTATTAATAT
4603103 ATATTTTTTGT-TTTATCT
1 ATATTTTTTGTATTTATCT
4603121 TTTTTTCTTG
Statistics
Matches: 98, Mismatches: 8, Indels: 22
0.77 0.06 0.17
Matches are distributed among these distances:
46 25 0.26
47 1 0.01
48 31 0.32
49 3 0.03
50 2 0.02
51 15 0.15
52 12 0.12
53 4 0.04
54 5 0.05
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (49 bp):
ATATTTTTTGTATTTATCTATTCATATATTATTATTTATCTATTAATAT
Found at i:4603438 original size:20 final size:20
Alignment explanation
Indices: 4603413--4603459 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
4603403 TGAAGTTGTT
4603413 TTTTTTGAAAAATCTGG-AAA
1 TTTTTTG-AAAATCTGGAAAA
*
4603433 TTTTTT-AGAATCTGGCAAAA
1 TTTTTTGAAAATCTGG-AAAA
4603453 TTTTTTG
1 TTTTTTG
4603460 GTGATATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 8 0.35
20 15 0.65
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (20 bp):
TTTTTTGAAAATCTGGAAAA
Found at i:4603941 original size:3 final size:3
Alignment explanation
Indices: 4603933--4603996 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
4603923 ATTTATTTTC
*
4603933 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4603981 TTTA TTGA TTA -TA TTA
1 -TTA TT-A TTA TTA TTA
4603997 GAATTATTTA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 2 0.04
3 48 0.86
4 6 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:4604061 original size:22 final size:20
Alignment explanation
Indices: 4604018--4604086 Score: 70
Period size: 19 Copynumber: 3.4 Consensus size: 20
4604008 TATTTCTTAT
**
4604018 TTTA-TTTTATTTTCATTTA
1 TTTATTTTTATTTTGTTTTA
4604037 TTTATTTTTATCTTTGTTTTTA
1 TTTATTTTTAT-TTTG-TTTTA
*
4604059 TTTTTTTTTTATTTTGTTTT-
1 -TTTATTTTTATTTTGTTTTA
4604079 TTTATTTT
1 TTTATTTT
4604087 CTTTAAATAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
19 11 0.26
20 6 0.14
21 7 0.17
22 8 0.19
23 10 0.24
ACGTcount: A:0.13, C:0.03, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTATTTTTATTTTGTTTTA
Found at i:4604080 original size:12 final size:12
Alignment explanation
Indices: 4604041--4604086 Score: 60
Period size: 11 Copynumber: 3.8 Consensus size: 12
4604031 CATTTATTTA
4604041 TTTTTATCTTTG-
1 TTTTTAT-TTTGT
4604053 TTTTTATTTT-T
1 TTTTTATTTTGT
4604064 TTTTTATTTTGTT
1 TTTTTATTTTG-T
4604077 TTTTTATTTT
1 TTTTTATTTT
4604087 CTTTAAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.42
12 7 0.23
13 11 0.35
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTGT
Found at i:4604080 original size:14 final size:13
Alignment explanation
Indices: 4604041--4604086 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
4604031 CATTTATTTA
4604041 TTTTTATCTTTG--
1 TTTTTAT-TTTGTT
4604053 TTTTTA-TTT-TT
1 TTTTTATTTTGTT
4604064 TTTTTATTTTGTT
1 TTTTTATTTTGTT
4604077 TTTTTATTTT
1 TTTTTATTTT
4604087 CTTTAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 3 0.10
11 6 0.20
12 9 0.30
13 12 0.40
ACGTcount: A:0.09, C:0.02, G:0.04, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTGTT
Done.