Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 18 of 168
Found at i:4871566 original size:18 final size:18
Alignment explanation
Indices: 4871527--4871574 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
4871517 CGAGATTTTT
* * *
4871527 TTTTTGAAAAAACGAAAA
1 TTTTTCAAAACACCAAAA
4871545 -TTTTCAAAACACCAAAA
1 TTTTTCAAAACACCAAAA
*
4871562 TTTTTTAAAACAC
1 TTTTTCAAAACAC
4871575 AAGGATTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.31
Consensus pattern (18 bp):
TTTTTCAAAACACCAAAA
Found at i:4871629 original size:17 final size:17
Alignment explanation
Indices: 4871579--4871639 Score: 72
Period size: 17 Copynumber: 3.6 Consensus size: 17
4871569 AAACACAAGG
4871579 ATTTTTGAAATACGAAA
1 ATTTTTGAAATACGAAA
*
4871596 A-ATTTGAAA-ACAAGAAA
1 ATTTTTGAAATAC--GAAA
4871613 ATTTTTGAAATACGAAA
1 ATTTTTGAAATACGAAA
*
4871630 ATTTTAGAAA
1 ATTTTTGAAA
4871640 CNNNNNNNNN
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
15 2 0.05
16 7 0.19
17 19 0.51
18 7 0.19
19 2 0.05
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.31
Consensus pattern (17 bp):
ATTTTTGAAATACGAAA
Found at i:4878622 original size:113 final size:113
Alignment explanation
Indices: 4878424--4878692 Score: 380
Period size: 113 Copynumber: 2.4 Consensus size: 113
4878414 TACTCTAACA
* * * *
4878424 AAAAGCACCGCAAAAAAGCTGAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGAGTGTAGCGGCG
1 AAAAGCGCCGCAAAAAAG-TTAAGCCAACGACGCCGTTTTCTGAGTTTCTGCGAGTGTAGCGGCA
*
4878489 TTTTCTGAAAATCGTTGCTAATGCTC-TTGACTTTAGC-AGCATTTTCTG
65 TTTTCTGAAAATCGTCGCTAATGCTCTTTGACTTTAGCTA-CATTTTCTG
* *
4878537 AAAAGCGTCGCAAAAAAGTTAAGGCCAACGACGCCGTTTTCTGAGTTTCTGCGCGTGTAGCGGCA
1 AAAAGCGCCGCAAAAAAGTTAA-GCCAACGACGCCGTTTTCTGAGTTTCTGCGAGTGTAGCGGCA
* * *
4878602 TTTTTTGAAAATCGTCGCTAATGCTCTTTGCCTTTAGCTACGTTTTCTG
65 TTTTCTGAAAATCGTCGCTAATGCTCTTTGACTTTAGCTACATTTTCTG
* *
4878651 AAAAGCGCCGCAAAAAACCTAAAGCCAACGACGCCGTTTTCT
1 AAAAGCGCCGCAAAAAA-GTTAAGCCAACGACGCCGTTTTCT
4878693 TTGTTTTTGG
Statistics
Matches: 139, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
112 3 0.02
113 79 0.57
114 53 0.38
115 4 0.03
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (113 bp):
AAAAGCGCCGCAAAAAAGTTAAGCCAACGACGCCGTTTTCTGAGTTTCTGCGAGTGTAGCGGCAT
TTTCTGAAAATCGTCGCTAATGCTCTTTGACTTTAGCTACATTTTCTG
Found at i:4878720 original size:114 final size:113
Alignment explanation
Indices: 4878424--4878741 Score: 406
Period size: 114 Copynumber: 2.8 Consensus size: 113
4878414 TACTCTAACA
* * *
4878424 AAAAGCACCGCAAAAAAGCTGAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGAGTGTAGCGGCG
1 AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
* *
4878489 TTTTCTGAAAATCGTTGCTAATGCTCTTGACTTTAGCAGCATTTTCTG
66 TTTTTTGAAAATCGTCGCTAATGCTCTTGACTTTAGCAGCATTTTCTG
* * * * *
4878537 AAAAGCGTCGCAAAAAAGTTAAGGCCAACGACGCCGTTTTCTGAGTTTCTGCGCGTGTAGCGGCA
1 AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
* *
4878602 TTTTTTGAAAATCGTCGCTAATGCTCTTTGCCTTTAGCTA-CGTTTTCTG
66 TTTTTTGAAAATCGTCGCTAATGCTC-TTGACTTTAGC-AGCATTTTCTG
* ** * * * *
4878651 AAAAGCGCCGCAAAAAACCTAAAGCCAACGACGCCGTTTTCTTTGTTTTTGGGCCTTTAGCAGCG
1 AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
* *
4878716 TTTTTAT-AAAAGCGCCGCTAATGCTC
66 TTTTT-TGAAAATCGTCGCTAATGCTC
4878742 CGGCCTTTAG
Statistics
Matches: 176, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
113 81 0.46
114 93 0.53
115 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (113 bp):
AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
TTTTTTGAAAATCGTCGCTAATGCTCTTGACTTTAGCAGCATTTTCTG
Found at i:4879399 original size:21 final size:20
Alignment explanation
Indices: 4879362--4879401 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4879352 GGGATTTTTG
**
4879362 GTTTTTGAATTTGGGGTTTA
1 GTTTTTGAATTAAGGGTTTA
4879382 GTTTTTGAACTTAAGGGTTT
1 GTTTTTGAA-TTAAGGGTTT
4879402 GGGGTTTGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.17, C:0.03, G:0.28, T:0.53
Consensus pattern (20 bp):
GTTTTTGAATTAAGGGTTTA
Found at i:4879408 original size:7 final size:7
Alignment explanation
Indices: 4879396--4879478 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
4879386 TTGAACTTAA
4879396 GGGTTTG
1 GGGTTTG
4879403 GGGTTT-
1 GGGTTTG
* *
4879409 GGGATTA
1 GGGTTTG
* *
4879416 GGGATTA
1 GGGTTTG
*
4879423 GGGTTTT
1 GGGTTTG
*
4879430 GAGTTTG
1 GGGTTTG
*
4879437 GGGTTTA
1 GGGTTTG
* *
4879444 GTGTTCG
1 GGGTTTG
*
4879451 GGGTTAG
1 GGGTTTG
4879458 GGGTTTAG
1 GGGTTT-G
4879466 GGGTTTG
1 GGGTTTG
4879473 GGGTTT
1 GGGTTT
4879479 AAGGATAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 5 0.08
7 49 0.80
8 7 0.11
ACGTcount: A:0.10, C:0.01, G:0.48, T:0.41
Consensus pattern (7 bp):
GGGTTTG
Found at i:4879444 original size:21 final size:21
Alignment explanation
Indices: 4879364--4879472 Score: 53
Period size: 21 Copynumber: 5.2 Consensus size: 21
4879354 GATTTTTGGT
* * *
4879364 TTTTGAATTTGGGGTTTA-GT
1 TTTTGAGTTAGGGGTTTAGGG
* *
4879384 TTTTGAACTTAAGGGTTT-GGG
1 TTTTG-AGTTAGGGGTTTAGGG
* * *
4879405 GTTTGGGATTA-GGGATTAGGG
1 TTTTGAG-TTAGGGGTTTAGGG
* *
4879426 TTTTGAGTTTGGGGTTTAGTG
1 TTTTGAGTTAGGGGTTTAGGG
** *
4879447 TTCGGGGTTAGGGGTTTAGGG
1 TTTTGAGTTAGGGGTTTAGGG
*
4879468 GTTTG
1 TTTTG
4879473 GGGTTTAAGG
Statistics
Matches: 63, Mismatches: 21, Indels: 9
0.68 0.23 0.10
Matches are distributed among these distances:
20 12 0.19
21 51 0.81
ACGTcount: A:0.14, C:0.02, G:0.40, T:0.44
Consensus pattern (21 bp):
TTTTGAGTTAGGGGTTTAGGG
Found at i:4879470 original size:15 final size:15
Alignment explanation
Indices: 4879450--4879479 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4879440 TTTAGTGTTC
4879450 GGGGTTAGGGGTTTA
1 GGGGTTAGGGGTTTA
*
4879465 GGGGTTTGGGGTTTA
1 GGGGTTAGGGGTTTA
4879480 AGGATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.53, T:0.37
Consensus pattern (15 bp):
GGGGTTAGGGGTTTA
Found at i:4880279 original size:232 final size:232
Alignment explanation
Indices: 4879942--4880446 Score: 859
Period size: 232 Copynumber: 2.2 Consensus size: 232
4879932 GTTTTCTTTG
* * * *
4879942 TTAAGGAAACTGCATCGTTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCGCGAATATAT
1 TTAAGGAAACTGCGTCATTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCACAAATATAT
4880007 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
66 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
* *
4880072 ATAAACGCCGCAAAAATCCAAATGGTGTTACGAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
131 ATAAACGCCGCAAAAATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
* *
4880137 GGCGCTTCTAATAAACGCTGCAAATATGCATTATAAC
196 GGCGCTTCTAATAAACGCCGCAAAGATGCATTATAAC
* * *
4880174 TTAAGGAAACTTCGTCATTTTCCATTGTTATTAGTGGTGCTACACCCAAGATGCCACAAATATAT
1 TTAAGGAAACTGCGTCATTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCACAAATATAT
* *
4880239 TTTAAAATTTACAGGGGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGTGT
66 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
*
4880304 ATAAACGCCGCAAATATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
131 ATAAACGCCGCAAAAATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
*
4880369 GGCGCTTCTCATAAACGCCGCAAAGATGCATTATAAC
196 GGCGCTTCTAATAAACGCCGCAAAGATGCATTATAAC
4880406 TTAAGGAAACTGCGT-AGTTTTCCATTGTTATTAGTGGCGCT
1 TTAAGGAAACTGCGTCA-TTTTCCATTGTTATTAGTGGCGCT
4880447 TGCTTAAAAC
Statistics
Matches: 255, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
231 1 0.00
232 254 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (232 bp):
TTAAGGAAACTGCGTCATTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCACAAATATAT
TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
ATAAACGCCGCAAAAATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
GGCGCTTCTAATAAACGCCGCAAAGATGCATTATAAC
Found at i:4880733 original size:19 final size:19
Alignment explanation
Indices: 4880711--4880755 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4880701 CTCTCATCTC
*
4880711 CCCCAAATCACTAAAATTT
1 CCCCAAATCACTAAAAGTT
* * *
4880730 CCCCTAATCCCTAACAGTT
1 CCCCAAATCACTAAAAGTT
4880749 CCCCAAA
1 CCCCAAA
4880756 CCCAACGTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (19 bp):
CCCCAAATCACTAAAAGTT
Found at i:4883425 original size:113 final size:114
Alignment explanation
Indices: 4883291--4883498 Score: 346
Period size: 113 Copynumber: 1.8 Consensus size: 114
4883281 ACACTTCATA
** *
4883291 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-ACATAACTTATAT
1 ACTTATATAATATTAAGATAAAATTGATAATTACATAACTCATATAATATTAACATAACTTATAT
4883355 AATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAGATT
66 AATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAGATT
* * *
4883404 ACTTATATAATATTAAGATAAAATTGATAATTACATAACTCGTTTAATATTAAGATAACTTATAT
1 ACTTATATAATATTAAGATAAAATTGATAATTACATAACTCATATAATATTAACATAACTTATAT
*
4883469 AATATTAAGATAAAATTTCTAATTACATAA
66 AATATTAAGATAAAATTTCGAATTACATAA
4883499 CTCGTTTAAT
Statistics
Matches: 87, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
113 46 0.53
114 41 0.47
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.40
Consensus pattern (114 bp):
ACTTATATAATATTAAGATAAAATTGATAATTACATAACTCATATAATATTAACATAACTTATAT
AATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAGATT
Found at i:4883436 original size:57 final size:57
Alignment explanation
Indices: 4883288--4883963 Score: 442
Period size: 57 Copynumber: 11.6 Consensus size: 57
4883278 AGGACACTTC
*
4883288 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATT-AC
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
* *
4883344 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
* ** ** *
4883401 ATTACTTATATAATATTAAGATAAAATTGATAATTACATAACTCGTTTAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
** * *
4883458 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTT
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAA--G
* * * * * * ** *
4883517 CTAA-TT-TGTAAGTA--CACAT-CAATTTCTCATTTGATAACTTATACAATATTAAG
1 ATAACTTATATAA-TATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
* ** * * * *
4883570 ATAAAATT-T-CGA-ATT-ACAT-AACTTATATAATATTAAGATTAA-TTATATAATATTAAG
1 AT-AACTTATATAATATTAAGATAAAATT-TCT-A-ATT-ACA-TAACTTATATAATATTAAG
* * * * *
4883627 ATCAAATT-TCT-A-ATT-ACAT-AACTCGTT-TAATATTAAGATAACTTATATAATATTAAG
1 AT-AACTTATATAATATTAAGATAAAAT--TTCT-A-ATT-ACATAACTTATATAATATTAAG
* * * *
4883684 ATAAAATTTCTAATTACATAACTCATTTA-ATATTAATTTCTAATTTGTA-AGTACACATCA-AT
1 AT--AA---C---TTATATAA-T-ATTAAGATA-AAATTTCTAA--T-TACA-TA-AC-TTATA-
** *
4883746 TTCTCATTTTAG
48 TAAT-A-TTAAG
* * *
4883758 GTAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
* *
4883815 ATTACTTATATAATATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
* *
4883872 ATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGAT-TAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACT-TATATAATATTAAG
4883929 ATAACTTATATAATATTAAGATAAAATTTCTAATT
1 ATAACTTATATAATATTAAGATAAAATTTCTAATT
4883964 CCGTAACCTA
Statistics
Matches: 507, Mismatches: 67, Indels: 91
0.76 0.10 0.14
Matches are distributed among these distances:
52 1 0.00
53 8 0.02
54 5 0.01
55 28 0.06
56 61 0.12
57 313 0.62
58 13 0.03
59 8 0.02
60 3 0.01
61 4 0.01
62 2 0.00
64 14 0.03
65 5 0.01
66 7 0.01
68 1 0.00
69 10 0.02
70 6 0.01
71 6 0.01
72 6 0.01
73 1 0.00
74 5 0.01
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAG
Found at i:4883491 original size:20 final size:20
Alignment explanation
Indices: 4883288--4883482 Score: 101
Period size: 20 Copynumber: 10.2 Consensus size: 20
4883278 AGGACACTTC
*
4883288 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
4883308 ATAAAATT-TCT-A-ATT-AC
1 AT-AAATTATATAATATTAAG
* *
4883325 ATAACTTATATAATATT-AC
1 ATAAATTATATAATATTAAG
*
4883344 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
** *
4883364 ATAAAATT-T-CGA-ATT-AC
1 AT-AAATTATATAATATTAAG
*
4883381 ATAATTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
4883401 ATTACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
4883421 ATAAA--AT-TGATAATT-AC
1 ATAAATTATATAAT-ATTAAG
* ** *
4883438 ATAACTCGTTTAATATTAAG
1 ATAAATTATATAATATTAAG
*
4883458 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
4883478 ATAAA
1 ATAAA
4883483 ATTTCTAATT
Statistics
Matches: 132, Mismatches: 28, Indels: 30
0.69 0.15 0.16
Matches are distributed among these distances:
16 8 0.06
17 17 0.13
18 13 0.10
19 31 0.23
20 55 0.42
21 8 0.06
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAAATTATATAATATTAAG
Found at i:4883567 original size:206 final size:208
Alignment explanation
Indices: 4883344--4883927 Score: 1037
Period size: 206 Copynumber: 2.8 Consensus size: 208
4883334 ATAATATTAC
* *
4883344 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAGATTACTTA
1 ATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTA
* **
4883409 TATAATATTAAGATAAAATTGATAATTACATAACTCGTTTAATATTAAGATAACTTATATAATAT
66 TATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAATAT
4883474 TAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTTCTAATTTGTAAGTACACATCAA
131 TAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTTCTAATTTGTAAGTACACATCAA
4883539 TTTCTCA-TTT-G
196 TTTCTCATTTTAG
*
4883550 ATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTAATTA
1 ATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTA
4883615 TATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAATAT
66 TATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAATAT
*
4883680 TAAGATAAAATTTCTAATTACATAACTCATTTAATATTAATTTCTAATTTGTAAGTACACATCAA
131 TAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTTCTAATTTGTAAGTACACATCAA
4883745 TTTCTCATTTTAG
196 TTTCTCATTTTAG
*
4883758 GTAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTA
1 ATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTA
** * *
4883823 TATAATATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAGATTACTTATATAATAT
66 TATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAATAT
*
4883888 TAAGATAAAATTTCTAATTACATAACTCGATTAATATTAA
131 TAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAA
4883928 GATAACTTAT
Statistics
Matches: 361, Mismatches: 15, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
206 195 0.54
207 3 0.01
208 163 0.45
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (208 bp):
ATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTA
TATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAATAT
TAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTTCTAATTTGTAAGTACACATCAA
TTTCTCATTTTAG
Found at i:4883697 original size:20 final size:20
Alignment explanation
Indices: 4883587--4883688 Score: 86
Period size: 20 Copynumber: 5.2 Consensus size: 20
4883577 TTCGAATTAC
*
4883587 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
*
4883607 ATTAATTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
4883627 ATCAAATT-TCT-A-ATT-AC
1 AT-AAATTATATAATATTAAG
* ** *
4883644 ATAACTCGTTTAATATTAAG
1 ATAAATTATATAATATTAAG
*
4883664 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
4883684 ATAAA
1 ATAAA
4883689 ATTTCTAATT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
16 3 0.05
17 5 0.08
18 4 0.06
19 4 0.06
20 44 0.69
21 4 0.06
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAAATTATATAATATTAAG
Found at i:4883715 original size:94 final size:94
Alignment explanation
Indices: 4883614--4883816 Score: 237
Period size: 94 Copynumber: 2.2 Consensus size: 94
4883604 AAGATTAATT
* * ** *
4883614 ATATAATATTAAGATCAAATTTCTAATTACATAACTCGTT-TAATATTAAGATAACTTATATAAT
1 ATATAATATTAAGATCAAATTTCTAAGTACACAACAAGTTCTAAT-TTAAGATAACTTATACAAT
*
4883678 ATTAAGATAAAATTTCTAATTACATAACTC
65 ATTAAGATAAAATTTCGAATTACATAACTC
* ** * * * * * * *
4883708 ATTTAATATTAATTTCTAATTTGTAAGTACACATCAATTTCTCATTTTAGGTAACTTATACAATA
1 ATATAATATTAAGATCAAATTTCTAAGTACACAACAAGTTCTAATTTAAGATAACTTATACAATA
*
4883773 TTAAGATAAAATTTCGAATTACATAACTT
66 TTAAGATAAAATTTCGAATTACATAACTC
4883802 ATATAATATTAAGAT
1 ATATAATATTAAGAT
4883817 TACTTATATA
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
94 85 0.97
95 3 0.03
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (94 bp):
ATATAATATTAAGATCAAATTTCTAAGTACACAACAAGTTCTAATTTAAGATAACTTATACAATA
TTAAGATAAAATTTCGAATTACATAACTC
Found at i:4883823 original size:20 final size:20
Alignment explanation
Indices: 4883795--4883952 Score: 145
Period size: 20 Copynumber: 8.2 Consensus size: 20
4883785 TTCGAATTAC
4883795 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
*
4883815 ATTACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
* * *
4883835 ATCAAATT-TCT-A-ATT-AC
1 AT-AACTTATATAATATTAAG
4883852 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
*
4883872 ATTACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
* * *
4883892 ATAAAATT-TCT-A-ATT-AC
1 AT-AACTTATATAATATTAAG
*
4883909 ATAACTCGAT-TAATATTAAG
1 ATAACT-TATATAATATTAAG
4883929 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
4883949 ATAA
1 ATAA
4883953 AATTTCTAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
16 7 0.06
17 9 0.08
18 9 0.08
19 10 0.09
20 68 0.62
21 6 0.06
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (20 bp):
ATAACTTATATAATATTAAG
Found at i:4883857 original size:94 final size:94
Alignment explanation
Indices: 4883664--4883873 Score: 239
Period size: 94 Copynumber: 2.2 Consensus size: 94
4883654 TAATATTAAG
* * **
4883664 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATTTAATATTAATTTCTAATT
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATCTAATT
* * * *
4883729 TGTAAGTACACATCAATTTCTCATTTTAG
66 TATAAGTAAACATCAATTTCTCATATTAC
* * * *
4883758 GTAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT-TACTT
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATCTAATT
*
4883822 ATATAA-TATTAAGATCAAATTTCT-A-ATTAC
66 -TATAAGTA--AACATC-AATTTCTCATATTAC
4883852 ATAACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
4883874 TACTTATATA
Statistics
Matches: 97, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
93 6 0.06
94 79 0.81
95 5 0.05
96 7 0.07
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (94 bp):
ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATCTAATT
TATAAGTAAACATCAATTTCTCATATTAC
Found at i:4883914 original size:151 final size:151
Alignment explanation
Indices: 4883612--4883932 Score: 373
Period size: 151 Copynumber: 2.1 Consensus size: 151
4883602 TTAAGATTAA
* * * *
4883612 TTATATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAA
1 TTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATAACTTATATAA
* ** * *
4883677 TATTAAGATAAAATTTCTAATTACATAACTCATTTAATATTAATTTCTAATTTGTAAGTACACAT
66 TATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAAGATCTAATTTATAAGTAAACAT
* * **
4883742 CAATTTCTCATTTTAGGTAAC
131 AAATTTCTCATATTACATAAC
* * *
4883763 TTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAA
1 TTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATAACTTATATAA
* * *
4883828 TATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAGAT-TACTTATATAA-TATTAA
66 TATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAAGATCTAATT-TATAAGTA--AA
*
4883891 GATAAAATTTCT-A-ATTACATAAC
128 CAT-AAATTTCTCATATTACATAAC
*
4883914 TCGAT-TAATATTAAGATAA
1 T-TATATAATATTAAGATAA
4883933 CTTATATAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
150 6 0.04
151 124 0.87
152 6 0.04
153 7 0.05
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (151 bp):
TTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATAACTTATATAA
TATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAAGATCTAATTTATAAGTAAACAT
AAATTTCTCATATTACATAAC
Found at i:4883995 original size:9 final size:9
Alignment explanation
Indices: 4883978--4884201 Score: 187
Period size: 9 Copynumber: 25.4 Consensus size: 9
4883968 AACCTAATAT
*
4883978 ATAAATTAC
1 ATAACTTAC
4883987 ATAACTTAC
1 ATAACTTAC
4883996 ATAACTTAC
1 ATAACTTAC
* *
4884005 ATAAATTAA
1 ATAACTTAC
4884014 ATAACTTAC
1 ATAACTTAC
*
4884023 ATAACTTAA
1 ATAACTTAC
4884032 ATAACTTAC
1 ATAACTTAC
4884041 ATAA--TAC
1 ATAACTTAC
*
4884048 GTAACCTT-C
1 ATAA-CTTAC
*
4884057 CTAACTTAC
1 ATAACTTAC
* * *
4884066 ATTATTTAG
1 ATAACTTAC
4884075 ATAA--TAC
1 ATAACTTAC
* *
4884082 ATAGCCTAC
1 ATAACTTAC
4884091 ATAACTTAC
1 ATAACTTAC
*
4884100 AAAACTTAC
1 ATAACTTAC
* *
4884109 ATAAATTAA
1 ATAACTTAC
*
4884118 ATAACTTCC
1 ATAACTTAC
4884127 ATAACTTAC
1 ATAACTTAC
*
4884136 ATAACTCAC
1 ATAACTTAC
4884145 ATAA--TAC
1 ATAACTTAC
*
4884152 ACAACTTAC
1 ATAACTTAC
4884161 ATAACTTAC
1 ATAACTTAC
*
4884170 ATAA--AAC
1 ATAACTTAC
4884177 ATAACTTATTAC
1 ATAAC---TTAC
4884189 ATAACTTAC
1 ATAACTTAC
4884198 ATAA
1 ATAA
4884202 TACATAAAAA
Statistics
Matches: 170, Mismatches: 32, Indels: 26
0.75 0.14 0.11
Matches are distributed among these distances:
7 22 0.13
8 3 0.02
9 137 0.81
10 1 0.01
12 7 0.04
ACGTcount: A:0.47, C:0.20, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:4884023 original size:114 final size:114
Alignment explanation
Indices: 4883759--4884028 Score: 282
Period size: 114 Copynumber: 2.4 Consensus size: 114
4883749 TCATTTTAGG
* * * *** * *
4883759 TAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTAT
1 TAACTTACATAATATTAACATAAAATTAATAATTACATAACTGATATAATATTAAGATAACTTAT
* *
4883824 ATAATATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAGA
66 ATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAACA
* * * **
4883873 TTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGAT-TAATATTAAGATAACTTA
1 TAACTTACATAATATTAACATAAAATTAATAATTACATAACT-GATATAATATTAAGATAACTTA
* *
4883937 TATAATATTAAGATAAAATTTCTAATTCCGTAACCTAATATATAA-ATT-ACA
65 TATAATATTAAGATAAAATTTCTAATTACATAA-CT--TATATAATATTAACA
*
4883988 TAACTTACATAA-CTT-ACAT-AAATTAAATAACTTACATAACT
1 TAACTTACATAATATTAACATAAAATT-AATAA-TTACATAACT
4884029 TAAATAACTT
Statistics
Matches: 135, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
112 5 0.04
113 6 0.04
114 98 0.73
115 16 0.12
116 3 0.02
117 7 0.05
ACGTcount: A:0.47, C:0.11, G:0.04, T:0.39
Consensus pattern (114 bp):
TAACTTACATAATATTAACATAAAATTAATAATTACATAACTGATATAATATTAAGATAACTTAT
ATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAACA
Found at i:4884124 original size:61 final size:61
Alignment explanation
Indices: 4884088--4884208 Score: 151
Period size: 61 Copynumber: 2.0 Consensus size: 61
4884078 ATACATAGCC
* *
4884088 TACATAACTTACAAAACTTACATAAATTAAATAACTTCCATAACTTACATAACTCACATAA
1 TACACAACTTACAAAACTTACATAAATTAAATAACTTACATAACTTACATAACTCACATAA
* *
4884149 TACACAACTTACATAACTTACATAAA--ACATAACTTATTACATAACTTACATAA-T-ACATAA
1 TACACAACTTACAAAACTTACATAAATTAAATAAC---TTACATAACTTACATAACTCACATAA
4884209 AAATATATCA
Statistics
Matches: 53, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
59 6 0.11
60 6 0.11
61 25 0.47
62 16 0.30
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.30
Consensus pattern (61 bp):
TACACAACTTACAAAACTTACATAAATTAAATAACTTACATAACTTACATAACTCACATAA
Found at i:4884166 original size:104 final size:104
Alignment explanation
Indices: 4883984--4884171 Score: 297
Period size: 104 Copynumber: 1.8 Consensus size: 104
4883974 ATATATAAAT
* * *
4883984 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTTACATAATACG
1 TACATAACTTACAAAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
* *
4884049 TAACCTTCCTAACTTACATTATTTAGATAATACATAGCC
66 CAACCTTCATAACTTACATTATTTAGATAATACATAGCC
* *
4884088 TACATAACTTACAAAACTTACATAAATTAAATAACTTCCATAACTTACATAACTCACATAATACA
1 TACATAACTTACAAAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
4884153 CAA-CTTACATAACTTACAT
66 CAACCTT-CATAACTTACAT
4884172 AAAACATAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
103 3 0.04
104 73 0.96
ACGTcount: A:0.46, C:0.21, G:0.02, T:0.32
Consensus pattern (104 bp):
TACATAACTTACAAAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
CAACCTTCATAACTTACATTATTTAGATAATACATAGCC
Found at i:4889744 original size:21 final size:20
Alignment explanation
Indices: 4889683--4889749 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
4889673 GCTACAACTT
*
4889683 AGAGGCAGCAGCGATGGAAGC
1 AGAGGCTGCAGCGA-GGAAGC
* **
4889704 AGCGGCTGCAGTAAGGGAAGC
1 AGAGGCTGCAGCGA-GGAAGC
4889725 AGAGGCTGCAGCGAGAGAAGC
1 AGAGGCTGCAGCGAG-GAAGC
4889746 AGAG
1 AGAG
4889750 CAGAGCAGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 1 0.03
21 36 0.97
ACGTcount: A:0.33, C:0.18, G:0.43, T:0.06
Consensus pattern (20 bp):
AGAGGCTGCAGCGAGGAAGC
Found at i:4890166 original size:41 final size:42
Alignment explanation
Indices: 4890112--4890235 Score: 144
Period size: 41 Copynumber: 3.0 Consensus size: 42
4890102 TTTGTGAATA
* * * *
4890112 AAGCGCTGCTAAAGAACCTGATCTTTAGTGTCATTTTTTT-G
1 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCC
*
4890153 AAGCGCTGCTAAAGAACATGA-CTTTTAGCGGCGTTTTTTTCC
1 AAGCGCTGCTAAAGAACATGATC-TTTAGCGGCATTTTTTTCC
* * *
4890195 AAGCGCCGTTAAAGAACATGATCTTTAGCGGCGTTTATTTT
1 AAGCGCTGCTAAAGAACATGATCTTTAGCGGCATTT-TTTT
4890236 TGTAAACGCT
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
40 1 0.01
41 34 0.47
42 32 0.44
43 5 0.07
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (42 bp):
AAGCGCTGCTAAAGAACATGATCTTTAGCGGCATTTTTTTCC
Found at i:4892301 original size:20 final size:20
Alignment explanation
Indices: 4892272--4892321 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
4892262 TCTCTCTCAA
4892272 CAAAAA-AATTAAAAAAATT
1 CAAAAATAATTAAAAAAATT
* *
4892291 CAAAAATAATTTTATAAAATT
1 CAAAAATAA-TTAAAAAAATT
4892312 C-AAAATAATT
1 CAAAAATAATT
4892322 TTTTAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
20 9 0.33
21 10 0.37
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAAAATAATTAAAAAAATT
Found at i:4892341 original size:19 final size:20
Alignment explanation
Indices: 4892285--4892347 Score: 85
Period size: 20 Copynumber: 3.2 Consensus size: 20
4892275 AAAAATTAAA
4892285 AAAATTCAAAAATAATTTTAT
1 AAAATTC-AAAATAATTTTAT
*
4892306 AAAATTCAAAATAATTTTTT
1 AAAATTCAAAATAATTTTAT
*
4892326 AAATTTCAAAAT-A-TTTAT
1 AAAATTCAAAATAATTTTAT
4892344 AAAA
1 AAAA
4892348 ATTCCCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 7 0.18
19 1 0.03
20 23 0.61
21 7 0.18
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATTCAAAATAATTTTAT
Found at i:4897441 original size:41 final size:42
Alignment explanation
Indices: 4897396--4897502 Score: 101
Period size: 41 Copynumber: 2.6 Consensus size: 42
4897386 ATCTATAGTA
* *
4897396 GCGTTTTTATCTGAGCGCCGCTAAT-TCCCCGATCTTTAGGG
1 GCGTTTTTATATGAGCGCCGCTAATATCCCCGATCTTTAGCG
** * * * *
4897437 GCGTTTCCATATGAACGCCGC-AATATCTCTGGTCTTTAGCG
1 GCGTTTTTATATGAGCGCCGCTAATATCCCCGATCTTTAGCG
* * *
4897478 GCGATTTTATTTCAGCGCCGCTAAT
1 GCGTTTTTATATGAGCGCCGCTAAT
4897503 GCTTGCATCT
Statistics
Matches: 50, Mismatches: 14, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
40 3 0.06
41 44 0.88
42 3 0.06
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (42 bp):
GCGTTTTTATATGAGCGCCGCTAATATCCCCGATCTTTAGCG
Found at i:4897594 original size:41 final size:41
Alignment explanation
Indices: 4897549--4897660 Score: 129
Period size: 41 Copynumber: 2.7 Consensus size: 41
4897539 GCTCTTTGCA
* * * *
4897549 TTTAGCGGCGATTTTGTATAAGCGCCGCTAATGCT-CGGAT
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATCCTCCGGAT
* * *
4897589 CTTTAGTGACGTTTTTATCTAAGCGCCAG-TAATCCTCCGGCT
1 -TTTAGCGGCGTTTTTATCTAAGCGCC-GCTAATCCTCCGGAT
4897631 TTTAGCGGCGTTTTTATCTAAGCGCCGCTA
1 TTTAGCGGCGTTTTTATCTAAGCGCCGCTA
4897661 GTTTATTACC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
40 1 0.02
41 53 0.90
42 5 0.08
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATCTAAGCGCCGCTAATCCTCCGGAT
Found at i:4897656 original size:82 final size:78
Alignment explanation
Indices: 4897471--4897660 Score: 202
Period size: 78 Copynumber: 2.4 Consensus size: 78
4897461 ATCTCTGGTC
* * * *
4897471 TTTAGCGGCGATTTTATTTCAGCGCCGCTAATGCTTGCATCTTTAGTGGTTATTCTGAGCGCCAC
1 TTTAGCGGCGATTTTATATAAGCGCCGCTAATGCTCGCATCTTTAGTGGTTATTCTAAGCGCCAC
* **
4897536 TATGCTCTTTGCA
66 TATCCTCTCGGCA
* * *
4897549 TTTAGCGGCGATTTTGTATAAGCGCCGCTAATGCTCGGATCTTTAGTGACGTTTTTATCTAAGCG
1 TTTAGCGGCGATTTTATATAAGCGCCGCTAATGCTCGCATCTTTAGTG--G-TTAT-TCTAAGCG
* *
4897614 CCAGTAATCCTC-CGGCT
62 CCACT-ATCCTCTCGGCA
* *
4897631 TTTAGCGGCGTTTTTATCTAAGCGCCGCTA
1 TTTAGCGGCGATTTTATATAAGCGCCGCTA
4897661 GTTTATTACC
Statistics
Matches: 92, Mismatches: 15, Indels: 6
0.81 0.13 0.05
Matches are distributed among these distances:
78 43 0.47
80 1 0.01
81 3 0.03
82 40 0.43
83 5 0.05
ACGTcount: A:0.18, C:0.23, G:0.23, T:0.36
Consensus pattern (78 bp):
TTTAGCGGCGATTTTATATAAGCGCCGCTAATGCTCGCATCTTTAGTGGTTATTCTAAGCGCCAC
TATCCTCTCGGCA
Found at i:4898205 original size:14 final size:14
Alignment explanation
Indices: 4898185--4898223 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
4898175 TTTAAGGTTA
4898185 ATTTAGGGTTAGAG
1 ATTTAGGGTTAGAG
* *
4898199 GTTTAGGGGTTTGAG
1 ATTTA-GGGTTAGAG
4898214 ATTTAGGGTT
1 ATTTAGGGTT
4898224 TCAACGGTCA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (14 bp):
ATTTAGGGTTAGAG
Found at i:4898224 original size:14 final size:14
Alignment explanation
Indices: 4898158--4898224 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
4898148 TTCGGGGTAT
* *
4898158 AGATTTAAGGTTTA
1 AGATTTAGGGTTTG
*
4898172 AGATTTAAGG-TT-
1 AGATTTAGGGTTTG
*
4898184 A-ATTTAGGGTTAG
1 AGATTTAGGGTTTG
*
4898197 AGGTTTAGGGGTTTG
1 AGATTTA-GGGTTTG
4898212 AGATTTAGGGTTT
1 AGATTTAGGGTTT
4898225 CAACGGTCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
11 7 0.16
12 2 0.05
13 3 0.07
14 20 0.45
15 12 0.27
ACGTcount: A:0.27, C:0.00, G:0.31, T:0.42
Consensus pattern (14 bp):
AGATTTAGGGTTTG
Found at i:4899639 original size:27 final size:27
Alignment explanation
Indices: 4899609--4899660 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
4899599 AATAAACAAA
* *
4899609 TAAATAAGTAAGTAATTATTTATTTGT
1 TAAATAAATAAGTAATTAATTATTTGT
**
4899636 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATAAGTAATTAATTATTT
4899661 AAATGTAAGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (27 bp):
TAAATAAATAAGTAATTAATTATTTGT
Found at i:4900552 original size:11 final size:11
Alignment explanation
Indices: 4900536--4900562 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
4900526 TTTGTTTAAT
4900536 TTACTTTCATA
1 TTACTTTCATA
4900547 TTACTTTCATA
1 TTACTTTCATA
4900558 TTACT
1 TTACT
4900563 GGTTGAGTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.00, T:0.56
Consensus pattern (11 bp):
TTACTTTCATA
Found at i:4902429 original size:21 final size:22
Alignment explanation
Indices: 4902380--4902430 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
4902370 AACATCTTTG
*
4902380 ATATATATATTTATATAAAGTT
1 ATATATATATTTATATAAAATT
*
4902402 TTA-ATATATTTAT-TAAAATT
1 ATATATATATTTATATAAAATT
4902422 ATATATATA
1 ATATATATA
4902431 CTTGAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATATATATATTTATATAAAATT
Found at i:4902551 original size:13 final size:15
Alignment explanation
Indices: 4902518--4902558 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
4902508 AATAATTTAA
4902518 ATAACTTACATAATAC
1 ATAACTTACAT-ATAC
4902534 ATAACTTACAT-T-C
1 ATAACTTACATATAC
4902547 ATAACTTACATA
1 ATAACTTACATA
4902559 AACTTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.46, C:0.20, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACTTACATATAC
Found at i:4902653 original size:9 final size:9
Alignment explanation
Indices: 4902641--4902926 Score: 185
Period size: 9 Copynumber: 32.8 Consensus size: 9
4902631 ATATAAACAA
4902641 AACTTACAT
1 AACTTACAT
*
4902650 AACTTAAAT
1 AACTTACAT
*
4902659 ATA-TTACAC
1 A-ACTTACAT
4902668 AACTTACAT
1 AACTTACAT
*
4902677 AACCTACAT
1 AACTTACAT
4902686 AA--TACAT
1 AACTTACAT
4902693 AACTTACAT
1 AACTTACAT
4902702 AACTTACAT
1 AACTTACAT
*
4902711 AACCTACAT
1 AACTTACAT
4902720 AA--TACAT
1 AACTTACAT
4902727 AACTTACAT
1 AACTTACAT
4902736 AACTTACAT
1 AACTTACAT
4902745 AACTTACAT
1 AACTTACAT
*
4902754 AA-TACACAAT
1 AACT-TAC-AT
4902764 AACTTAC--
1 AACTTACAT
4902771 AACTTACAT
1 AACTTACAT
*
4902780 AACATACATT
1 AACTTACA-T
**
4902790 AA-TTTGAT
1 AACTTACAT
4902798 AACTTACAT
1 AACTTACAT
*
4902807 AAGTTACAT
1 AACTTACAT
***
4902816 AAGACACAAT
1 AACTTAC-AT
4902826 AACTTAC--
1 AACTTACAT
4902833 AACTTACAT
1 AACTTACAT
**
4902842 AACAGACAT
1 AACTTACAT
*
4902851 -A-TGTATGAT
1 AACT-TA-CAT
4902860 AACTTACAT
1 AACTTACAT
* * *
4902869 AGCTGACTT
1 AACTTACAT
4902878 AA--TACAT
1 AACTTACAT
*
4902885 GACTTACAT
1 AACTTACAT
4902894 AACTT--AT
1 AACTTACAT
4902901 -ACTCGTACAT
1 AACT--TACAT
4902911 AACTTACAT
1 AACTTACAT
*
4902920 AAGTTAC
1 AACTTAC
4902927 TTAATACATA
Statistics
Matches: 215, Mismatches: 35, Indels: 54
0.71 0.12 0.18
Matches are distributed among these distances:
6 3 0.01
7 34 0.16
8 8 0.04
9 144 0.67
10 21 0.10
11 5 0.02
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:4902706 original size:34 final size:34
Alignment explanation
Indices: 4902662--4902817 Score: 199
Period size: 34 Copynumber: 4.5 Consensus size: 34
4902652 CTTAAATATA
*
4902662 TTACACAACTTACATAACCTACATAATACATAAC
1 TTACATAACTTACATAACCTACATAATACATAAC
4902696 TTACATAACTTACATAACCTACATAATACATAAC
1 TTACATAACTTACATAACCTACATAATACATAAC
*
4902730 TTACATAACTTACATAACTTACATAATACACAATAAC
1 TTACATAACTTACATAACCTACATAAT--AC-ATAAC
* **
4902767 TTAC--AACTTACATAACATACATTAATTTGATAAC
1 TTACATAACTTACATAACCTACA-TAA-TACATAAC
*
4902801 TTACATAAGTTACATAA
1 TTACATAACTTACATAA
4902818 GACACAATAA
Statistics
Matches: 109, Mismatches: 6, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
34 68 0.62
35 16 0.15
36 15 0.14
37 10 0.09
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (34 bp):
TTACATAACTTACATAACCTACATAATACATAAC
Found at i:4902753 original size:43 final size:43
Alignment explanation
Indices: 4902601--4902869 Score: 164
Period size: 43 Copynumber: 6.2 Consensus size: 43
4902591 TTTTTATATA
* * * * *
4902601 AACTTACATAA--TACATAGCATACATAACAAATATAA-ACAA
1 AACTTACATAACTTACATAACTTACATAACATACATAATACAT
* * *
4902641 AACTTACATAACTTAAATATA-TTACACAACTTACATAACCTACAT
1 AACTTACATAACTTACATA-ACTTACATAACATACATAA--TACAT
*
4902686 AA--TACATAACTTACATAACTTACATAACCTACATAATACAT
1 AACTTACATAACTTACATAACTTACATAACATACATAATACAT
* *
4902727 AACTTACATAACTTACATAACTTACAT-A-ATACACAATAACTTAC
1 AACTTACATAACTTACATAACTTACATAACATACATAAT-AC--AT
* ** *
4902771 AACTTACATAACATACATTAA-TTTGATAACTTACATAAGTTACAT
1 AACTTACATAACTTACA-TAACTTACATAACATACATAA--TACAT
*** * * *
4902816 AAGACACAATAACTTAC--AACTTACATAACAGACATATGTATGAT
1 AACTTAC-ATAACTTACATAACTTACATAACATACATA-ATA-CAT
4902860 AACTTACATA
1 AACTTACATA
4902870 GCTGACTTAA
Statistics
Matches: 175, Mismatches: 33, Indels: 39
0.71 0.13 0.16
Matches are distributed among these distances:
40 11 0.06
41 14 0.08
42 21 0.12
43 59 0.34
44 39 0.22
45 14 0.08
46 14 0.08
47 2 0.01
48 1 0.01
ACGTcount: A:0.49, C:0.20, G:0.03, T:0.29
Consensus pattern (43 bp):
AACTTACATAACTTACATAACTTACATAACATACATAATACAT
Found at i:4902800 original size:62 final size:62
Alignment explanation
Indices: 4902734--4902883 Score: 214
Period size: 62 Copynumber: 2.4 Consensus size: 62
4902724 CATAACTTAC
*
4902734 ATAACTTACATAACTTACATAATACACAATAACTTACAACTTACATAACATACATTAAT-T-TG
1 ATAACTTACATAACTTACATAATACACAATAACTTACAACTTACATAACAGACA-T-ATGTATG
* *
4902796 ATAACTTACATAAGTTACATAAGACACAATAACTTACAACTTACATAACAGACATATGTATG
1 ATAACTTACATAACTTACATAATACACAATAACTTACAACTTACATAACAGACATATGTATG
* * *
4902858 ATAACTTACATAGCTGACTTAATACA
1 ATAACTTACATAACTTACATAATACA
4902884 TGACTTACAT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
60 2 0.03
61 2 0.03
62 74 0.95
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (62 bp):
ATAACTTACATAACTTACATAATACACAATAACTTACAACTTACATAACAGACATATGTATG
Found at i:4909108 original size:43 final size:43
Alignment explanation
Indices: 4909049--4909378 Score: 299
Period size: 43 Copynumber: 7.6 Consensus size: 43
4909039 AAAACACAGC
* * * * **
4909049 CTATTGTGGCGTTTTTTTGCATAAGCGCCGCGAAAGATCCCCGT
1 CTATCGTGGCG-TTTCTTGCATAAGCGCCGCAAAAGAACCCTAT
* *
4909093 CTGTAGTGGCGTTT-TTAG-ACTAAGCGCCGCAAAAGAACCCTAT
1 CTATCGTGGCGTTTCTT-GCA-TAAGCGCCGCAAAAGAACCCTAT
*
4909136 CTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTAT
1 CTATCGTGGCGTTTCTTGCATAAGCGCCGCAAAAGAACCCTAT
* *
4909179 CTATCGTGGCGTTTCTTGCATAAGCGCCGGAAAAGAACCTTAT
1 CTATCGTGGCGTTTCTTGCATAAGCGCCGCAAAAGAACCCTAT
* * * *
4909222 CTATCGTGGCGTTTCCT--ATTGAAGCACCGGAGAAGAACCCTAT
1 CTATCGTGGCGTTTCTTGCA-T-AAGCGCCGCAAAAGAACCCTAT
* * * *
4909265 CTATAGTGGCGTTTCTTGTATAAGCGCCGGAAAAGAACCCTCT
1 CTATCGTGGCGTTTCTTGCATAAGCGCCGCAAAAGAACCCTAT
* * * * * * * * *
4909308 CTCTAGTGGCGTTTGTTGTACAAGCGCCGCTATAGAACCCAAG
1 CTATCGTGGCGTTTCTTGCATAAGCGCCGCAAAAGAACCCTAT
* * *
4909351 CTATAGTGGCGTTTTTTTGTATAAGCGC
1 CTATCGTGGCG-TTTCTTGCATAAGCGC
4909379 TGCTATAGAT
Statistics
Matches: 245, Mismatches: 32, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.00
42 4 0.02
43 212 0.87
44 27 0.11
45 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.29
Consensus pattern (43 bp):
CTATCGTGGCGTTTCTTGCATAAGCGCCGCAAAAGAACCCTAT
Found at i:4909188 original size:86 final size:86
Alignment explanation
Indices: 4909049--4909364 Score: 334
Period size: 86 Copynumber: 3.7 Consensus size: 86
4909039 AAAACACAGC
* * * * * ** *
4909049 CTATTGTGGCGTTTTTTTGCATAAGCGCCGCGAAAGATCCCCGTCTGTAGTGGCGTTT-TTAGAC
1 CTATCGTGGCG-TTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCGTTTCTT-GAC
*
4909113 TAAGCGCCGCAAAAGAACCCTAT
64 TAAGCGCCGGAAAAGAACCCTAT
*
4909136 CTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATCGTGGCGTTTCTTG-CAT
1 CTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCGTTTCTTGAC-T
*
4909200 AAGCGCCGGAAAAGAACCTTAT
65 AAGCGCCGGAAAAGAACCCTAT
* * * * *
4909222 CTATCGTGGCGTTTCCTAT-TGAAGCACCGGAGAAGAACCCTATCTATAGTGGCGTTTCTTGTA-
1 CTATCGTGGCGTTTCTTGTAT-AAGCGCCGCAAAAGAACCCTATCTATAGTGGCGTTTCTTG-AC
*
4909285 TAAGCGCCGGAAAAGAACCCTCT
64 TAAGCGCCGGAAAAGAACCCTAT
* * * * * * * *
4909308 CTCTAGTGGCGTTTGTTGTACAAGCGCCGCTATAGAACCCAAGCTATAGTGGCGTTT
1 CTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCGTTT
4909365 TTTTGTATAA
Statistics
Matches: 191, Mismatches: 32, Indels: 13
0.81 0.14 0.06
Matches are distributed among these distances:
85 2 0.01
86 177 0.93
87 12 0.06
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (86 bp):
CTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCGTTTCTTGACTA
AGCGCCGGAAAAGAACCCTAT
Found at i:4909345 original size:129 final size:129
Alignment explanation
Indices: 4909125--4909364 Score: 345
Period size: 129 Copynumber: 1.9 Consensus size: 129
4909115 AGCGCCGCAA
* *
4909125 AAGAACCCTATCTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATCGTGGCG
1 AAGAACCCTATCTATAGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCG
* * ** * *
4909190 TTTCTTGCATAAGCGCCGGAAAAGAACCTTATCTATCGTGGCGTTTCCTATTGAAGCACCGGAG
66 TTTCTTGCACAAGCGCCGCAAAAGAACCCAAGCTATAGTGGCGTTTCCTATTGAAGCACCGGAG
* * *
4909254 AAGAACCCTATCTATAGTGGCGTTTCTTGTATAAGCGCCGGAAAAGAACCCTCTCTCTAGTGGCG
1 AAGAACCCTATCTATAGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCG
* * * *
4909319 TTTGTTGTACAAGCGCCGCTATAGAACCCAAGCTATAGTGGCGTTT
66 TTTCTTGCACAAGCGCCGCAAAAGAACCCAAGCTATAGTGGCGTTT
4909365 TTTTGTATAA
Statistics
Matches: 96, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
129 96 1.00
ACGTcount: A:0.25, C:0.24, G:0.23, T:0.28
Consensus pattern (129 bp):
AAGAACCCTATCTATAGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTATCTATAGTGGCG
TTTCTTGCACAAGCGCCGCAAAAGAACCCAAGCTATAGTGGCGTTTCCTATTGAAGCACCGGAG
Found at i:4909386 original size:44 final size:43
Alignment explanation
Indices: 4909049--4909534 Score: 292
Period size: 43 Copynumber: 11.3 Consensus size: 43
4909039 AAAACACAGC
* * * * * * **
4909049 CTATTGTGGCGTTTTTTTGCATAAGCGCCGCGAAAGATCCCCGT
1 CTATAGTGGCG-TTTCTTGTATAAGCGCCGCTATAGAACCCTAT
* * *
4909093 CTGTAGTGGCGTTT-TTAG-ACTAAGCGCCGCAAAAGAACCCTAT
1 CTATAGTGGCGTTTCTT-GTA-TAAGCGCCGCTATAGAACCCTAT
* * *
4909136 CTATCGTGGCGTTTCTTGTATAAGCGCCGCAAAAGAACCCTAT
1 CTATAGTGGCGTTTCTTGTATAAGCGCCGCTATAGAACCCTAT
* * ** * *
4909179 CTATCGTGGCGTTTCTTGCATAAGCGCCGGAAAAGAACCTTAT
1 CTATAGTGGCGTTTCTTGTATAAGCGCCGCTATAGAACCCTAT
* * * * * *
4909222 CTATCGTGGCGTTTCCTAT-TGAAGCACCG-GAGAAGAACCCTAT
1 CTATAGTGGCGTTTCTTGTAT-AAGCGCCGCTA-TAGAACCCTAT
** * *
4909265 CTATAGTGGCGTTTCTTGTATAAGCGCCGGAAAAGAACCCTCT
1 CTATAGTGGCGTTTCTTGTATAAGCGCCGCTATAGAACCCTAT
* * * * *
4909308 CTCTAGTGGCGTTTGTTGTACAAGCGCCGCTATAGAACCCAAG
1 CTATAGTGGCGTTTCTTGTATAAGCGCCGCTATAGAACCCTAT
* * * *
4909351 CTATAGTGGCGTTTTTTTGTATAAGCGCTGCTATAGATCAC-AT
1 CTATAGTGGCG-TTTCTTGTATAAGCGCCGCTATAGAACCCTAT
* * ** * **
4909394 CTATAGTGGCGTTT-TGAGTATAATCGCCGGAATAGACCCACCCT
1 CTATAGTGGCGTTTCT-TGTATAAGCGCCGCTATAGAACC-CTAT
* * * * *
4909438 CTATAGTTGCGTTT-TTCGGATAAGCGCCGCTAGA-AAGGCCGAT
1 CTATAGTGGCGTTTCTT-GTATAAGCGCCGCTATAGAA-CCCTAT
* * *
4909481 CTATAATGGCG-TT-TTGTATGTAAGCGCCGCTAAAGAGCCAC-AT
1 CTATAGTGGCGTTTCTTGTA--TAAGCGCCGCTATAGAACC-CTAT
4909524 CTATAGTGGCG
1 CTATAGTGGCG
4909535 CGGCAAAAGA
Statistics
Matches: 359, Mismatches: 65, Indels: 37
0.78 0.14 0.08
Matches are distributed among these distances:
41 3 0.01
42 28 0.08
43 260 0.72
44 68 0.19
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (43 bp):
CTATAGTGGCGTTTCTTGTATAAGCGCCGCTATAGAACCCTAT
Found at i:4909607 original size:40 final size:40
Alignment explanation
Indices: 4909558--4909637 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
4909548 GCCGTAATAG
4909558 GTCTTCATCTATAGCGGCGTTTATTAGAAGAAGCGCCGCT
1 GTCTTCATCTATAGCGGCGTTTATTAGAAGAAGCGCCGCT
4909598 GTCTTCATCTATAGCGGCGTTTATTAGAAGAAGCGCCGCT
1 GTCTTCATCTATAGCGGCGTTTATTAGAAGAAGCGCCGCT
4909638 ATAGTTAGCG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.30
Consensus pattern (40 bp):
GTCTTCATCTATAGCGGCGTTTATTAGAAGAAGCGCCGCT
Found at i:4912282 original size:23 final size:24
Alignment explanation
Indices: 4912252--4912300 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
4912242 TTGAATCGTA
*
4912252 TTTTATAA-TTGTTAATATTTTAT
1 TTTTATAACTTGTTAATAATTTAT
*
4912275 TTTTATAACTTTTTAATAATTTAT
1 TTTTATAACTTGTTAATAATTTAT
4912299 TT
1 TT
4912301 GATTTGCACT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (24 bp):
TTTTATAACTTGTTAATAATTTAT
Found at i:4912741 original size:3 final size:3
Alignment explanation
Indices: 4912592--4912724 Score: 257
Period size: 3 Copynumber: 44.3 Consensus size: 3
4912582 ATTTATATCT
4912592 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
4912640 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
4912688 AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
4912725 GTCAAGGATG
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 128 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:4921501 original size:78 final size:78
Alignment explanation
Indices: 4921372--4921527 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
4921362 GGCAGTTTTG
4921372 GTGCAATTTACTTTAAACCAGTCATTGGAATCATCCTTGTCCTCCATGCTAAAAGGGTAGTGAAA
1 GTGCAATTTACTTTAAACCAGTCATTGGAATCATCCTTGTCCTCCATGCTAAAAGGGTAGTGAAA
4921437 TTTAACATTCCCA
66 TTTAACATTCCCA
*
4921450 GTGCAATTTACTTTAAACCAGTCATTGGAATCATCTTTGTCCTCCATGCTAAAAGGGTAGTGAAA
1 GTGCAATTTACTTTAAACCAGTCATTGGAATCATCCTTGTCCTCCATGCTAAAAGGGTAGTGAAA
4921515 TTTAACATTCCCA
66 TTTAACATTCCCA
4921528 CAGTTCTCCA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (78 bp):
GTGCAATTTACTTTAAACCAGTCATTGGAATCATCCTTGTCCTCCATGCTAAAAGGGTAGTGAAA
TTTAACATTCCCA
Found at i:4922313 original size:41 final size:41
Alignment explanation
Indices: 4922225--4922318 Score: 95
Period size: 41 Copynumber: 2.3 Consensus size: 41
4922215 GTTTTTAATC
* * * *
4922225 GAAAGCATTTTCAAGTGATTTGTAGAAAAATGTTTCCCACT
1 GAAAGCATTTTCAAGTGATTTGCAAAAAAATGCTTCCAACT
4922266 -AGAAGCATTTTCAACGT-A-TTGACAAAAAAATGCTTCCAACT
1 GA-AAGCATTTTCAA-GTGATTTG-CAAAAAAATGCTTCCAACT
4922307 GAAAGCACTTTT
1 GAAAGCA-TTTT
4922319 GTCACATCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
40 4 0.09
41 33 0.75
42 7 0.16
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (41 bp):
GAAAGCATTTTCAAGTGATTTGCAAAAAAATGCTTCCAACT
Found at i:4922588 original size:3 final size:3
Alignment explanation
Indices: 4922580--4922646 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
4922570 TTGGTTTCTT
4922580 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4922628 TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
4922647 CTTCTTTTAA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4924565 original size:25 final size:25
Alignment explanation
Indices: 4924501--4924567 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
4924491 CTTCCGTCAA
* *
4924501 TGGCTCTTATGAGCTTCTCGATAAT
1 TGGCTCTTATGAGCTTCCCGATAAC
* * *
4924526 TAGCTTTTCA-AAGCTTCCCGATAAC
1 TGGCTCTT-ATGAGCTTCCCGATAAC
4924551 TGGCTCTTATGAGCTTC
1 TGGCTCTTATGAGCTTC
4924568 TTGTTATATG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
24 1 0.03
25 30 0.94
26 1 0.03
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (25 bp):
TGGCTCTTATGAGCTTCCCGATAAC
Found at i:4924591 original size:50 final size:50
Alignment explanation
Indices: 4924501--4924595 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
4924491 CTTCCGTCAA
**
4924501 TGGCTCTTATGAGCTTCTCGATAATTAGCTTTTCAAAGCTTCCCGATAAC
1 TGGCTCTTATGAGCTTCTCGATAATTAGCTTGACAAAGCTTCCCGATAAC
* * * *
4924551 TGGCTCTTATGAGCTTCTTG-TTATATGGCTTGACAGAGCTTCCCG
1 TGGCTCTTATGAGCTTCTCGATAAT-TAGCTTGACAAAGCTTCCCG
4924596 TTTATGTGCT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 3 0.08
50 35 0.92
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (50 bp):
TGGCTCTTATGAGCTTCTCGATAATTAGCTTGACAAAGCTTCCCGATAAC
Found at i:4925404 original size:7 final size:7
Alignment explanation
Indices: 4925380--4925484 Score: 93
Period size: 7 Copynumber: 15.0 Consensus size: 7
4925370 TTAAAAAAGT
4925380 AATTGAG
1 AATTGAG
*
4925387 AAATGAG
1 AATTGAG
*
4925394 AATTGAT
1 AATTGAG
*
4925401 AATTAAG
1 AATTGAG
4925408 AATTGAG
1 AATTGAG
*
4925415 GATTGAG
1 AATTGAG
*
4925422 GATTGAG
1 AATTGAG
*
4925429 GATTGAG
1 AATTGAG
* *
4925436 AAATGAA
1 AATTGAG
4925443 AATTGAG
1 AATTGAG
*
4925450 GATTGAG
1 AATTGAG
*
4925457 AATTTAG
1 AATTGAG
*
4925464 GATTGAG
1 AATTGAG
*
4925471 GATTGAG
1 AATTGAG
*
4925478 TATTGAG
1 AATTGAG
4925485 TTGAAAAGAA
Statistics
Matches: 80, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 80 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (7 bp):
AATTGAG
Found at i:4929300 original size:29 final size:29
Alignment explanation
Indices: 4929267--4929322 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
4929257 AAACGGATTT
*
4929267 GATCAAATTAGTTTTTATATTATTAAATA
1 GATCAAATTAGTCTTTATATTATTAAATA
*
4929296 GATCAATTTAGTCTTTATATTATTAAA
1 GATCAAATTAGTCTTTATATTATTAAA
4929323 AAGAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.48
Consensus pattern (29 bp):
GATCAAATTAGTCTTTATATTATTAAATA
Found at i:4932014 original size:20 final size:21
Alignment explanation
Indices: 4931991--4932040 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
4931981 AATTAAAGAT
**
4931991 ATAAAAATTA-TTAAATTTTA
1 ATAAAAATTATTTAAAAGTTA
4932011 ATAAAAA-TATTTAAAAGTTA
1 ATAAAAATTATTTAAAAGTTA
*
4932031 TTAAAAATTA
1 ATAAAAATTA
4932041 GAAAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.84
21 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (21 bp):
ATAAAAATTATTTAAAAGTTA
Found at i:4932088 original size:20 final size:20
Alignment explanation
Indices: 4931990--4932095 Score: 56
Period size: 20 Copynumber: 5.2 Consensus size: 20
4931980 CAATTAAAGA
*
4931990 TATAAAAATTATT-AAATTT
1 TATAAAAATAATTAAAATTT
* *
4932009 TAATAAAAATATTTAAAA-GT
1 T-ATAAAAATAATTAAAATTT
* ** *
4932029 TATTAAAAATTAGAAAAATAAAT
1 TA-TAAAAATAATTAAAAT--TT
*
4932052 TGTAAAAA-AATTGTAAAATTT
1 TATAAAAATAA-T-TAAAATTT
*
4932073 TATAAAAATAATTAAAAATT
1 TATAAAAATAATTAAAATTT
4932093 TAT
1 TAT
4932096 CAAATATATA
Statistics
Matches: 63, Mismatches: 15, Indels: 17
0.66 0.16 0.18
Matches are distributed among these distances:
19 2 0.03
20 33 0.52
21 13 0.21
22 8 0.13
23 7 0.11
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (20 bp):
TATAAAAATAATTAAAATTT
Found at i:4938121 original size:25 final size:25
Alignment explanation
Indices: 4938093--4938243 Score: 98
Period size: 25 Copynumber: 6.1 Consensus size: 25
4938083 TACACCGCAA
*
4938093 CTCTTATGAGCGTCCCGATATATGG
1 CTCTTATGAGCTTCCCGATATATGG
* *
4938118 CTCTCCA-GAGCTTCCCGTTATATGG
1 CTCT-TATGAGCTTCCCGATATATGG
* ** *
4938143 TTCTTGCGAGCTTCCTG-T-TATGG
1 CTCTTATGAGCTTCCCGATATATGG
* *
4938166 CTCTTATGAGCTTCTCGATA-ATTAG
1 CTCTTATGAGCTTCCCGATATA-TGG
*
4938191 CTCTTCA-GAGCTTCCCGGTA-ACTGG
1 CTCTT-ATGAGCTTCCCGATATA-TGG
* * * *
4938216 ATCTTTTGAGCTTCCCGTTATACGG
1 CTCTTATGAGCTTCCCGATATATGG
4938241 CTC
1 CTC
4938244 GACAGAGCTT
Statistics
Matches: 96, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
23 17 0.18
24 3 0.03
25 73 0.76
26 3 0.03
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (25 bp):
CTCTTATGAGCTTCCCGATATATGG
Found at i:4938129 original size:104 final size:104
Alignment explanation
Indices: 4937947--4938139 Score: 271
Period size: 104 Copynumber: 1.9 Consensus size: 104
4937937 TATGGGTTTT
* * * *
4937947 CCGATTGGCTGTGATCCTGTATGTGTTACAGACACACCATAGCTCTTACGAGCGTCCCAATATTT
1 CCGATTGGCTGTGATCCTGCATGTGTTACAGACACACCACAACTCTTACGAGCGTCCCAATATAT
4938012 GGCTCTCACGAGCTTCCCGTTATAGCTCTTCGGAGCATC
66 GGCTCTCACGAGCTTCCCGTTATAGCTCTTCGGAGCATC
* ** * * * *
4938051 CCGATTGGTTGTGATCCTGCATGTGTTTTAGATACACCGCAACTCTTATGAGCGTCCCGATATAT
1 CCGATTGGCTGTGATCCTGCATGTGTTACAGACACACCACAACTCTTACGAGCGTCCCAATATAT
4938116 GGCTCTC-CAGAGCTTCCCGTTATA
66 GGCTCTCAC-GAGCTTCCCGTTATA
4938140 TGGTTCTTGC
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
103 1 0.01
104 76 0.99
ACGTcount: A:0.20, C:0.27, G:0.21, T:0.31
Consensus pattern (104 bp):
CCGATTGGCTGTGATCCTGCATGTGTTACAGACACACCACAACTCTTACGAGCGTCCCAATATAT
GGCTCTCACGAGCTTCCCGTTATAGCTCTTCGGAGCATC
Found at i:4938227 original size:73 final size:73
Alignment explanation
Indices: 4938093--4938236 Score: 175
Period size: 73 Copynumber: 2.0 Consensus size: 73
4938083 TACACCGCAA
* * *
4938093 CTCTTATGAGCGTCCCGATATATGGCTCTCCAGAGCTTCCCGTTATATGGTTCTTGCGAGCTTCC
1 CTCTTATGAGCGTCCCGATATATAGCTCTCCAGAGCTTCCCGGTATATGGATCTTGCGAGCTTCC
*
4938158 TGTTATGG
66 CGTTATGG
* * * **
4938166 CTCTTATGAGCTTCTCGATA-ATTAGCTCTTCAGAGCTTCCCGGTA-ACTGGATCTTTTGAGCTT
1 CTCTTATGAGCGTCCCGATATA-TAGCTCTCCAGAGCTTCCCGGTATA-TGGATCTTGCGAGCTT
4938229 CCCGTTAT
64 CCCGTTAT
4938237 ACGGCTCGAC
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
72 2 0.03
73 58 0.97
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.37
Consensus pattern (73 bp):
CTCTTATGAGCGTCCCGATATATAGCTCTCCAGAGCTTCCCGGTATATGGATCTTGCGAGCTTCC
CGTTATGG
Found at i:4940484 original size:20 final size:19
Alignment explanation
Indices: 4940455--4940503 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
4940445 CAAAATATTG
*
4940455 TTTTTTTTTTATGCTTTCA
1 TTTTTCTTTTATGCTTTCA
*
4940474 TCTTTTCTTTTATTCTTTCA
1 T-TTTTCTTTTATGCTTTCA
*
4940494 TTTTTGTTTT
1 TTTTTCTTTT
4940504 GGGAATATTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (19 bp):
TTTTTCTTTTATGCTTTCA
Found at i:4943821 original size:21 final size:21
Alignment explanation
Indices: 4943778--4943821 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4943768 ACATGCCTAT
* *
4943778 TGAAAGAAGCACACGACCGTG
1 TGAAAGAAACACACGACCATG
* *
4943799 TGAAGGAAACACACGCCCATG
1 TGAAAGAAACACACGACCATG
4943820 TG
1 TG
4943822 TTCGAGCTGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.36, C:0.25, G:0.27, T:0.11
Consensus pattern (21 bp):
TGAAAGAAACACACGACCATG
Found at i:4947878 original size:34 final size:34
Alignment explanation
Indices: 4947835--4947952 Score: 114
Period size: 34 Copynumber: 3.4 Consensus size: 34
4947825 AAGCAGGGTT
*
4947835 AAGTAGCACCACGAGATGTAAATTATAATTCTTA
1 AAGTAGCACCACTAGATGTAAATTATAATTCTTA
*** ** *
4947869 AAGTAGCACCACTACTGAT-TTTCTT-TTCTTTTTAA
1 AAGTAGCACCACTA--GATGTAAATTATAATTCTT-A
* *
4947904 AATTAGCACCACTAAATGTAAATTATAATTCTTA
1 AAGTAGCACCACTAGATGTAAATTATAATTCTTA
4947938 AAGTAGCACCACTAG
1 AAGTAGCACCACTAG
4947953 TGTTTTTCTT
Statistics
Matches: 62, Mismatches: 17, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
33 2 0.03
34 35 0.56
35 22 0.35
36 3 0.05
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (34 bp):
AAGTAGCACCACTAGATGTAAATTATAATTCTTA
Found at i:4947949 original size:69 final size:69
Alignment explanation
Indices: 4947838--4947991 Score: 263
Period size: 69 Copynumber: 2.2 Consensus size: 69
4947828 CAGGGTTAAG
*
4947838 TAGCACCACGAGATGTAAATTATAATTCTTAAAGTAGCACCACTACTGATTTTCTTTTCTTTTTA
1 TAGCACCACTAGATGTAAATTATAATTCTTAAAGTAGCACCACTACTGATTTTCTTTTCTTTTTA
4947903 AAAT
66 AAAT
* * *
4947907 TAGCACCACTAAATGTAAATTATAATTCTTAAAGTAGCACCACTAGTGTTTTTCTTTTCTTTTTA
1 TAGCACCACTAGATGTAAATTATAATTCTTAAAGTAGCACCACTACTGATTTTCTTTTCTTTTTA
4947972 AAAT
66 AAAT
*
4947976 TAGCGCCACTAGATGT
1 TAGCACCACTAGATGT
4947992 CAAAATAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
69 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (69 bp):
TAGCACCACTAGATGTAAATTATAATTCTTAAAGTAGCACCACTACTGATTTTCTTTTCTTTTTA
AAAT
Found at i:4947973 original size:34 final size:35
Alignment explanation
Indices: 4947868--4947987 Score: 100
Period size: 35 Copynumber: 3.5 Consensus size: 35
4947858 TATAATTCTT
* *
4947868 AAAGTAGCACCACTACTGATTTTCTTTTCTTTTTA
1 AAAGTAGCACCACTAGTGTTTTTCTTTTCTTTTTA
* * *** * ** *
4947903 AAATTAGCACCACTAAATGTAAAT-TATAATTCTT-
1 AAAGTAGCACCACT-AGTGTTTTTCTTTTCTTTTTA
4947937 AAAGTAGCACCACTAGTGTTTTTCTTTTCTTTTTA
1 AAAGTAGCACCACTAGTGTTTTTCTTTTCTTTTTA
* *
4947972 AAATTAGCGCCACTAG
1 AAAGTAGCACCACTAG
4947988 ATGTCAAAAT
Statistics
Matches: 61, Mismatches: 21, Indels: 6
0.69 0.24 0.07
Matches are distributed among these distances:
33 5 0.08
34 19 0.31
35 33 0.54
36 4 0.07
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (35 bp):
AAAGTAGCACCACTAGTGTTTTTCTTTTCTTTTTA
Found at i:4952435 original size:14 final size:14
Alignment explanation
Indices: 4952418--4952447 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4952408 AGAGGCTGAT
4952418 CTTAAGGTATTCAA
1 CTTAAGGTATTCAA
4952432 CTTAAGGTATTCAA
1 CTTAAGGTATTCAA
4952446 CT
1 CT
4952448 GTAACCTTCT
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:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (14 bp):
CTTAAGGTATTCAA
Found at i:4953960 original size:125 final size:125
Alignment explanation
Indices: 4953735--4953987 Score: 445
Period size: 125 Copynumber: 2.0 Consensus size: 125
4953725 TTAGGGTTTT
* * *
4953735 TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGATCAAATAGTATAAAATCGCTTCTAGT
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
*
4953800 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCCTTTGCTACAG
*
4953860 TAGGTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
1 TAGGTCATGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
4953925 AGGATGCTATTTGAGAAGAATTTGTGAAAGT-GCGCCCTCGTGGACGCGCCTTTGCTACAG
66 AGGATGCTATTTGAGAAGAATTTGTGAAA-TCGCGCCCTCGTGGACGCGCCTTTGCTACAG
4953985 TAG
1 TAG
4953988 CATGTTTGGG
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
125 121 0.99
126 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTCTAGC
AGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCCTTTGCTACAG
Found at i:4954270 original size:25 final size:25
Alignment explanation
Indices: 4954242--4954289 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
4954232 GGCGTAAAAT
4954242 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
4954267 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
4954290 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:4954321 original size:45 final size:47
Alignment explanation
Indices: 4954257--4954347 Score: 132
Period size: 48 Copynumber: 2.0 Consensus size: 47
4954247 TTTTATTACA
* *
4954257 TCAAATAAACTTCTA-TT-TTATTACATCAAATAATATCAAAATAAC
1 TCAAAAAAACTTCTATTTATTATTACATAAAATAATATCAAAATAAC
*
4954302 TCAAAAAAATTTCTATTTTATTATTACATAAAATAATATCAAAATA
1 TCAAAAAAACTTCTA-TTTATTATTACATAAAATAATATCAAAATA
4954348 TTCAAAATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
45 13 0.32
47 2 0.05
48 25 0.62
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (47 bp):
TCAAAAAAACTTCTATTTATTATTACATAAAATAATATCAAAATAAC
Found at i:4954340 original size:48 final size:48
Alignment explanation
Indices: 4954274--4954432 Score: 149
Period size: 48 Copynumber: 3.1 Consensus size: 48
4954264 AACTTCTATT
4954274 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTA
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTA
* * * * *
4954322 TTATTACATAAAATAATATCAAAAT-ATTCAAAATATTTGTACAAATTAATTAAGCTCATG
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATT-T-C----T-ATT----T--TA
4954382 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTA
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTA
4954430 TTA
1 TTA
4954433 CATCAAATAA
Statistics
Matches: 87, Mismatches: 10, Indels: 28
0.70 0.08 0.22
Matches are distributed among these distances:
47 10 0.11
48 29 0.33
49 1 0.01
50 1 0.01
53 1 0.01
54 6 0.07
55 1 0.01
58 1 0.01
59 1 0.01
60 26 0.30
61 10 0.11
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (48 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTA
Found at i:4954438 original size:25 final size:25
Alignment explanation
Indices: 4954410--4954467 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 25
4954400 TCAAAATAAC
4954410 TCAAA-AAAATTTCTATTTTATTACA
1 TCAAATAAAATTT-TATTTTATTACA
*
4954435 TCAAATAAACTTTTATTTTATTACA
1 TCAAATAAAATTTTATTTTATTACA
4954460 TCAAATAA
1 TCAAATAA
4954468 TATCAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 25 0.81
26 6 0.19
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (25 bp):
TCAAATAAAATTTTATTTTATTACA
Found at i:4954456 original size:70 final size:70
Alignment explanation
Indices: 4954382--4954512 Score: 244
Period size: 70 Copynumber: 1.9 Consensus size: 70
4954372 TAAGCTCATG
* *
4954382 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTATTACATCAAATAAACTT
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCCTATTTTATTACATAAAATAAACTT
4954447 TTATT
66 TTATT
4954452 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCCTATTTTATTACATAAAATAA
1 TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCCTATTTTATTACATAAAATAA
4954513 TATCAAAATA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 59 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (70 bp):
TTATTACATCAAATAATATCAAAATAACTCAAAAAAATTCCTATTTTATTACATAAAATAAACTT
TTATT
Found at i:4954979 original size:18 final size:18
Alignment explanation
Indices: 4954941--4954980 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4954931 GACTCGGAAA
* * *
4954941 AGGATATATATAAGGGTT
1 AGGATACATATAAAGGCT
4954959 AGGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
4954977 AGGA
1 AGGA
4954981 AATGCACCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.28, T:0.25
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:4956867 original size:51 final size:51
Alignment explanation
Indices: 4956806--4956903 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
4956796 AATTATTTAA
4956806 AAATAGGGATTTAAGAGAAATTTAAGAA-GAACTTGAGAGCAAATTGAAATT
1 AAATAGGGATTTAAGAGAAATTT-AGAAGGAACTTGAGAGCAAATTGAAATT
* * * *
4956857 AAATATGGATTTGAGAGAAATTTTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGA
4956904 GAGGAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
50 3 0.07
51 39 0.93
ACGTcount: A:0.46, C:0.03, G:0.23, T:0.28
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAGAAGGAACTTGAGAGCAAATTGAAATT
Found at i:4956901 original size:12 final size:11
Alignment explanation
Indices: 4956865--4956919 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
4956855 TTAAATATGG
4956865 ATTTGAGAGAA
1 ATTTGAGAGAA
*
4956876 ATTTTGA-AGGA
1 A-TTTGAGAGAA
4956887 ATTTGAGAGCAA
1 ATTTGAGAG-AA
4956899 A-TTGAGAGGAA
1 ATTTGAGA-GAA
4956910 ATTTGAGAGA
1 ATTTGAGAGA
4956920 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 5 0.14
11 18 0.49
12 14 0.38
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:4956912 original size:23 final size:21
Alignment explanation
Indices: 4956865--4956919 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 21
4956855 TTAAATATGG
4956865 ATTTGAGAGAAATTTTGAAGGA
1 ATTTGAGAGAAA-TTTGAAGGA
4956887 ATTTGAGAGCAAA-TTGAGAGGAA
1 ATTTGAGAG-AAATTTGA-AGG-A
4956910 ATTTGAGAGA
1 ATTTGAGAGA
4956920 GGATTAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.13
22 13 0.43
23 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.29, T:0.27
Consensus pattern (21 bp):
ATTTGAGAGAAATTTGAAGGA
Found at i:4957414 original size:88 final size:89
Alignment explanation
Indices: 4957305--4957476 Score: 247
Period size: 89 Copynumber: 1.9 Consensus size: 89
4957295 AAATTGAAGG
* * * * * *
4957305 GGTAGAAAAATAGAAATATGG-AGAATATAAATTTTCTTTCCATGTGTGTGCTTGGTAGGAAAGA
1 GGTAGAAAAATAGAAAGATGGAAAAATATAAATTTTCTTTCCATATGTGTGCTTAGCAGGAAACA
**
4957369 TGGAAAAATTGAAAGAAAAGAAAA
66 TGGAAAAATCAAAAGAAAAGAAAA
* *
4957393 GGTAGAAAGATAGAAAGATGGAAAAATATAAATTTTCTTTTCATATGTGTGCTTAGCAGGAAACA
1 GGTAGAAAAATAGAAAGATGGAAAAATATAAATTTTCTTTCCATATGTGTGCTTAGCAGGAAACA
4957458 TGGAAAAATCAAAAGAAAA
66 TGGAAAAATCAAAAGAAAA
4957477 AATATTTTTT
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
88 19 0.26
89 54 0.74
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.26
Consensus pattern (89 bp):
GGTAGAAAAATAGAAAGATGGAAAAATATAAATTTTCTTTCCATATGTGTGCTTAGCAGGAAACA
TGGAAAAATCAAAAGAAAAGAAAA
Found at i:4958347 original size:164 final size:164
Alignment explanation
Indices: 4958067--4958372 Score: 417
Period size: 164 Copynumber: 1.9 Consensus size: 164
4958057 TGTTGTAACA
* * *
4958067 GTCAACATTAGTCAAAGGGCCTATTTGGCCAATTTTTTAAGTTTAGTGGCTCAATTGGGTGCAAA
1 GTCAACATTAGTCAAAGGGCCTATTTGACCAATTTGTTAAGTTTAGGGGCTCAATTGGGTGCAAA
* * * *
4958132 AAGTTCGTAGGGGTTTAATTAATTTTTTTTTTGAATTCGAGGACCAAAAATACCATTAAGCCCTT
66 AAGTTCATAGGGGCTTAATTAATTTTTTTTTTGAATTCGAGGACAAAAAATACCATTAAGCCATT
4958197 CTTTAACTATTGATATATCCTTTTCTATGTATTG
131 CTTTAACTATTGATATATCCTTTTCTATGTATTG
* *
4958231 GTCAACATTAGTCAAATGGCCTATTTGACCAATTTGTT-AGTTTAGGGGCTCAATTGGGTGTAAA
1 GTCAACATTAGTCAAAGGGCCTATTTGACCAATTTGTTAAGTTTAGGGGCTCAATTGGGTGCAAA
*
4958295 AAGTTCATAGGGGCTTAATTGATTTTTTGAAAATGTTTG-A-T-GA-GA-AAAAAATACCATTAA
66 AAGTTCATAGGGGCTTAATTAATTTTTT-----T-TTTGAATTCGAGGACAAAAAATACCATTAA
*
4958355 GTCATTCTTTAACTATTG
125 GCCATTCTTTAACTATTG
4958373 TTATGTCTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 12
0.84 0.07 0.08
Matches are distributed among these distances:
163 49 0.39
164 65 0.52
165 2 0.02
166 2 0.02
167 1 0.01
168 2 0.02
169 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (164 bp):
GTCAACATTAGTCAAAGGGCCTATTTGACCAATTTGTTAAGTTTAGGGGCTCAATTGGGTGCAAA
AAGTTCATAGGGGCTTAATTAATTTTTTTTTTGAATTCGAGGACAAAAAATACCATTAAGCCATT
CTTTAACTATTGATATATCCTTTTCTATGTATTG
Found at i:4961288 original size:34 final size:35
Alignment explanation
Indices: 4961245--4961310 Score: 107
Period size: 34 Copynumber: 1.9 Consensus size: 35
4961235 AATCTAAATA
*
4961245 TGTATCATTAACATTATCGAGATC-ATTTTTTATC
1 TGTATCATTAACATTATCAAGATCTATTTTTTATC
*
4961279 TGTATCATTAATATTATCAAGATCTATTTTTT
1 TGTATCATTAACATTATCAAGATCTATTTTTT
4961311 TATGTACTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 22 0.76
35 7 0.24
ACGTcount: A:0.30, C:0.12, G:0.08, T:0.50
Consensus pattern (35 bp):
TGTATCATTAACATTATCAAGATCTATTTTTTATC
Found at i:4966468 original size:5 final size:5
Alignment explanation
Indices: 4966458--4966483 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4966448 ACAAAGGATA
4966458 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
4966484 ATCTCTTCCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:4971538 original size:18 final size:18
Alignment explanation
Indices: 4971506--4971540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4971496 CTTTTATAAA
* *
4971506 TACATACATATATTTTTG
1 TACATACAAACATTTTTG
4971524 TACATACAAACATTTTT
1 TACATACAAACATTTTT
4971541 ATATATATAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.14, G:0.03, T:0.46
Consensus pattern (18 bp):
TACATACAAACATTTTTG
Found at i:4973120 original size:24 final size:25
Alignment explanation
Indices: 4973093--4973142 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4973083 CCCTTGATTT
*
4973093 TTATA-TCTTTTGTTAATTTGCCTC
1 TTATACTCTTTTGTTAATTTGACTC
* *
4973117 TTATACTTTTTTTTTAATTTGACTC
1 TTATACTCTTTTGTTAATTTGACTC
4973142 T
1 T
4973143 CAACCTCTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.18, C:0.14, G:0.06, T:0.62
Consensus pattern (25 bp):
TTATACTCTTTTGTTAATTTGACTC
Found at i:4973912 original size:3 final size:3
Alignment explanation
Indices: 4973906--4973981 Score: 152
Period size: 3 Copynumber: 25.3 Consensus size: 3
4973896 TCTTTTTTTA
4973906 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
4973954 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4973982 GGTTGAGCTC
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4976717 original size:11 final size:10
Alignment explanation
Indices: 4976701--4976751 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
4976691 TAAATTTATT
4976701 TAATATTTTA
1 TAATATTTTA
*
4976711 T-ATATATTAA
1 TAATAT-TTTA
4976721 TAATATTTTA
1 TAATATTTTA
4976731 -AA-ATTTTA
1 TAATATTTTA
*
4976739 TAAAATTTTA
1 TAATATTTTA
4976749 TAA
1 TAA
4976752 AATATATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
8 6 0.17
9 8 0.23
10 17 0.49
11 4 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TAATATTTTA
Found at i:4976718 original size:18 final size:18
Alignment explanation
Indices: 4976681--4976732 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
4976671 TTTATTAATT
* *
4976681 TTTAATTTTTTAAATTTA
1 TTTAATATTTTAAATATA
*
4976699 TTTAATATTTTATATATA
1 TTTAATATTTTAAATATA
4976717 TTAATAATATTTTAAA
1 TT--TAATATTTTAAA
4976733 ATTTTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 17 0.61
20 11 0.39
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTAATATTTTAAATATA
Found at i:4976744 original size:10 final size:10
Alignment explanation
Indices: 4976729--4976754 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4976719 AATAATATTT
4976729 TAAAATTTTA
1 TAAAATTTTA
4976739 TAAAATTTTA
1 TAAAATTTTA
4976749 TAAAAT
1 TAAAAT
4976755 ATATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (10 bp):
TAAAATTTTA
Found at i:4976765 original size:18 final size:17
Alignment explanation
Indices: 4976744--4976782 Score: 62
Period size: 16 Copynumber: 2.3 Consensus size: 17
4976734 TTTTATAAAA
4976744 TTTTATAAAATATATTAT
1 TTTTATAAAA-ATATTAT
4976762 TTTT-TAAAAATATTAT
1 TTTTATAAAAATATTAT
4976778 TTTTA
1 TTTTA
4976783 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 11 0.55
17 5 0.25
18 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TTTTATAAAAATATTAT
Found at i:4976778 original size:19 final size:17
Alignment explanation
Indices: 4976744--4976791 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 17
4976734 TTTTATAAAA
4976744 TTTTATAAAATATATTATT
1 TTTTA-AAAATATATT-TT
4976763 TTTTAAAAATATTATTTT
1 TTTTAAAAATA-TATTTT
4976781 TAATTTAAAAA
1 T--TTTAAAAA
4976792 AAAATTAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 9 0.35
19 9 0.35
20 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTAAAAATATATTTT
Found at i:4977264 original size:165 final size:159
Alignment explanation
Indices: 4976984--4977298 Score: 384
Period size: 165 Copynumber: 1.9 Consensus size: 159
4976974 CATTGTAATA
*
4976984 GTCAACATTAGTCAAAGGGCCTATTTAGCAAATTTTATTAGTTCAGGGCAATTGGGTGCAAAAAG
1 GTCAACATTAGTCAAAGGGCCTATTTAGCAAATTTTATTAGTTAAGGGCAATTGGGTGCAAAAAG
* * *
4977049 TTCACAAGGGTTAATTGATTTTTTGATAAAGTTCGAGGACCAAAAATACCATTAAACCCTTCTTT
66 TTCACAAGGGTTAATTGATTTTTCGATAAAGTTCGAGGA-CAAAAATACCAATAAACCCTACTTT
*
4977114 AACTATTGGTATATCTTTTTCTAAGTATCG
130 AACTATTGATATATCTTTTTCTAAGTATCG
* * * * *
4977144 GTCAACATTAGTCAAATGGCTTATTTGGTC-AATTTTGTTAGTTTAAGGGCTTAGTTGGGTGCAA
1 GTCAACATTAGTCAAAGGGCCTATTTAG-CAAATTTTATTAG-TTAAGGGC--AATTGGGTGCAA
* * * *
4977208 AAAGTTCGCAGGGGCTTAATTGACTTTTTCGA-AATAGTTCGACAGTA-AAAAATACCAATAAGC
62 AAAGTTCACAAGGG-TTAATTGA-TTTTTCGATAA-AGTTCG--AGGACAAAAATACCAATAAAC
*
4977271 CCTACTTTAACTATTGATATGTCTTTTT
122 CCTACTTTAACTATTGATATATCTTTTT
4977299 TAATTAATTT
Statistics
Matches: 131, Mismatches: 15, Indels: 13
0.82 0.09 0.08
Matches are distributed among these distances:
160 35 0.27
161 8 0.06
163 23 0.18
164 10 0.08
165 52 0.40
167 3 0.02
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (159 bp):
GTCAACATTAGTCAAAGGGCCTATTTAGCAAATTTTATTAGTTAAGGGCAATTGGGTGCAAAAAG
TTCACAAGGGTTAATTGATTTTTCGATAAAGTTCGAGGACAAAAATACCAATAAACCCTACTTTA
ACTATTGATATATCTTTTTCTAAGTATCG
Found at i:4985360 original size:38 final size:38
Alignment explanation
Indices: 4985317--4985403 Score: 97
Period size: 38 Copynumber: 2.3 Consensus size: 38
4985307 TACAAAGTAA
*
4985317 TCAAAATAATT-TTTAATTTTCAAAATATTTATAAAAAT
1 TCAAAAT-ATTATTTAATTTTCAAAAAATTTATAAAAAT
* * * *
4985355 TCAAAATTTTATTTATTTTTTAAAAAATTTATAAAAGT
1 TCAAAATATTATTTAATTTTCAAAAAATTTATAAAAAT
*
4985393 TTAAAA-ATTAT
1 TCAAAATATTAT
4985404 AAAAAAATTG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
37 6 0.15
38 35 0.85
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (38 bp):
TCAAAATATTATTTAATTTTCAAAAAATTTATAAAAAT
Found at i:4985432 original size:22 final size:20
Alignment explanation
Indices: 4985377--4985444 Score: 61
Period size: 22 Copynumber: 3.4 Consensus size: 20
4985367 TTATTTTTTA
4985377 AAAAATT-T-ATAAAAGTTT
1 AAAAATTATAATAAAAGTTT
*
4985395 AAAAATTATAA-AAAAATTGT
1 AAAAATTATAATAAAAGTT-T
*
4985415 AAAGAATATATAATAAAAAATTT
1 AAA-AAT-TATAAT-AAAAGTTT
4985438 AAAAATT
1 AAAAATT
4985445 TTCTAATATA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
18 7 0.17
19 7 0.17
20 5 0.12
21 4 0.10
22 8 0.19
23 4 0.10
24 7 0.17
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAAATTATAATAAAAGTTT
Found at i:4991467 original size:164 final size:166
Alignment explanation
Indices: 4991157--4991475 Score: 453
Period size: 165 Copynumber: 1.9 Consensus size: 166
4991147 ACGTCAATAT
* ** * * *
4991157 TGTAACGGTCAACATTAGTCAAATGGCCTATTTGGTCAATTTTGTTAGTTAAGTGACTCAATTGG
1 TGTAACGGTCAACATTAGTCAAAGGGCCTATTTGACCAATTTTATTAGTTAAGGGACTCAATTGA
* *
4991222 GTGCAAAAAATTCATAGGGGTTTAATTAATTTTTTTTGAAAAAGTTCGAGGACCAAAAATACCAT
66 GTGCAAAAAATTCACAGGGGCTTAATTAATTTTTTTTGAAAAAGTTCGAGGACCAAAAATACCAT
4991287 TAAGCCCTTCTTTAACTATTGATATATCCTTTTCTA
131 TAAGCCCTTCTTTAACTATTGATATATCCTTTTCTA
* * *
4991323 TGTATCGGTCAACATTAGTCAAAGGGCCTATTTGACCAA-TTTATTAGTTCAGGGGCTCAATTGA
1 TGTAACGGTCAACATTAGTCAAAGGGCCTATTTGACCAATTTTATTAGTTAAGGGACTCAATTGA
* * *** * * *
4991387 GTGTAAAAAGTTCACAGGGGCTTAATTAATTTTTTTT-TTTAAGTTTGATGAGCAAAAATACCAT
66 GTGCAAAAAATTCACAGGGGCTTAATTAATTTTTTTTGAAAAAGTTCGAGGACCAAAAATACCAT
4991451 TAAGCCCTTCTTTAACTATTGATAT
131 TAAGCCCTTCTTTAACTATTGATAT
4991476 GTCTTTTTTA
Statistics
Matches: 134, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
164 46 0.34
165 53 0.40
166 35 0.26
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.37
Consensus pattern (166 bp):
TGTAACGGTCAACATTAGTCAAAGGGCCTATTTGACCAATTTTATTAGTTAAGGGACTCAATTGA
GTGCAAAAAATTCACAGGGGCTTAATTAATTTTTTTTGAAAAAGTTCGAGGACCAAAAATACCAT
TAAGCCCTTCTTTAACTATTGATATATCCTTTTCTA
Found at i:4993239 original size:29 final size:29
Alignment explanation
Indices: 4993177--4993242 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
4993167 TTTTTTTACA
*
4993177 TTATCTATAATAATTCAATTTGATTTAGT
1 TTATTTATAATAATTCAATTTGATTTAGT
4993206 TTATTTATAATAATTCAATTTGATTTAGT
1 TTATTTATAATAATTCAATTTGATTTAGT
4993235 TTATTTAT
1 TTATTTAT
4993243 TTTTATATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (29 bp):
TTATTTATAATAATTCAATTTGATTTAGT
Found at i:4994168 original size:18 final size:19
Alignment explanation
Indices: 4994137--4994176 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
4994127 CTTGCCAATA
4994137 TTTCTAGAAAATGATTTAC
1 TTTCTAGAAAATGATTTAC
4994156 TTTCTAG-AAATGATTTAC
1 TTTCTAGAAAATGATTTAC
4994174 TTT
1 TTT
4994177 TTTTGTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (19 bp):
TTTCTAGAAAATGATTTAC
Found at i:4995243 original size:13 final size:13
Alignment explanation
Indices: 4995225--4995249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4995215 AGTTCTTCAT
4995225 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
4995238 TGCTTTTGAGAA
1 TGCTTTTGAGAA
4995250 CTTTGAGTGT
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:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:5001553 original size:9 final size:9
Alignment explanation
Indices: 5001539--5001569 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5001529 GTTAAACGAA
5001539 TCGAGTTAT
1 TCGAGTTAT
*
5001548 TCGAGTTAA
1 TCGAGTTAT
5001557 TCGAGTTAT
1 TCGAGTTAT
5001566 TCGA
1 TCGA
5001570 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:5011973 original size:46 final size:46
Alignment explanation
Indices: 5011901--5012543 Score: 851
Period size: 46 Copynumber: 14.0 Consensus size: 46
5011891 NNNNNNNNNN
* * *
5011901 TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * *
5011947 TCATATATTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
*
5011993 TCCTATATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* *
5012039 TCCTGTATTTGGTAGTGG-GGGGATCGAAGATAGCAGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * *
5012084 TCCTATTTTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTATCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* *
5012130 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATATCAGTTCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
*
5012176 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGTAGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * * *
5012222 TCCTGTATTTTGCAGCTGAGGGGATCGAGGATATCGGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
5012268 TCCTGTATTTGG-AGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * * *
5012313 TCCTGTATTTGGTAG-TGAGGGGATTGAAGATAGTAGATCTTCTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * *
5012358 TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCGTATCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * *
5012404 TCATATATTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * ** *
5012450 TCCTATTTTTGGCAGTAGAGGGGATCGAAGATAGCAGATCTTATCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
* * * * * *
5012496 TGCTATATTTGGCAGCGGAGGGTATCGACGATATCGGATCTTGTCT
1 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
5012542 TC
1 TC
5012544 NNNNNNNNNN
Statistics
Matches: 521, Mismatches: 73, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
45 121 0.23
46 400 0.77
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCT
Found at i:5012391 original size:274 final size:275
Alignment explanation
Indices: 5011901--5012543 Score: 1000
Period size: 274 Copynumber: 2.3 Consensus size: 275
5011891 NNNNNNNNNN
*
5011901 TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCATATATTTGGCAGCGGA
1 TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCCTATATTTGGCAGCGGA
* * *
5011966 GGAGATCGAGGATAGCAGATCTTGTCTTCCTATATTTGGCAGCGGAGGGGATCGAAGATAGCAGA
66 GGGGATCGAGGATATCGGATCTTGTCTTCCTATATTTGGCAGCGGAGGGGATCGAAGATAGCAGA
* * *
5012031 TCTTGTCTTCCTGTATTTGGTAGTGGGGGGATCGAAGATAGCAGATCTTGTCTTCCTATTTTTGG
131 TCTTGTCTTCCTGTATTTGGTAGTGAGGGGATCGAAGATAGCAGATCTTCTCTTCCTATATTTGG
* * * *
5012096 CAGCAGAGGGGATCGAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGA
196 CAGCAGAGGGGATCGAAGATAGCAGATCGTATCTTCATATATTTGGCAGCGGAGGAGATCGAAGA
* *
5012161 TATCAGTTCTTGTCT
261 TAGCAGATCTTGTCT
* * * * *
5012176 TCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTTGCAGCTGA
1 TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCCTATATTTGGCAGCGGA
*
5012241 GGGGATCGAGGATATCGGATCTTGTCTTCCTGTATTTGG-AGCGGAGGGGATCGAAGATAGCAGA
66 GGGGATCGAGGATATCGGATCTTGTCTTCCTATATTTGGCAGCGGAGGGGATCGAAGATAGCAGA
* * *
5012305 TCTTGTCTTCCTGTATTTGGTAGTGAGGGGATTGAAGATAGTAGATCTTCTCTTCCTGTATTTGG
131 TCTTGTCTTCCTGTATTTGGTAGTGAGGGGATCGAAGATAGCAGATCTTCTCTTCCTATATTTGG
* *
5012370 CAGCAGAGGGGATCGAAGATAGTAGATCGTATCTTCATATATTTGGCAGCGGAGGAGATCGAGGA
196 CAGCAGAGGGGATCGAAGATAGCAGATCGTATCTTCATATATTTGGCAGCGGAGGAGATCGAAGA
5012435 TAGCAGATCTTGTCT
261 TAGCAGATCTTGTCT
* * * * *
5012450 TCCTATTTTTGGCAGTAGAGGGGATCGAAGATAGCAGATCTTATCTTGCTATATTTGGCAGCGGA
1 TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCCTATATTTGGCAGCGGA
* *
5012515 GGGTATCGACGATATCGGATCTTGTCTTC
66 GGGGATCGAGGATATCGGATCTTGTCTTC
5012544 NNNNNNNNNN
Statistics
Matches: 332, Mismatches: 36, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
274 238 0.72
275 94 0.28
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (275 bp):
TCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCCTATATTTGGCAGCGGA
GGGGATCGAGGATATCGGATCTTGTCTTCCTATATTTGGCAGCGGAGGGGATCGAAGATAGCAGA
TCTTGTCTTCCTGTATTTGGTAGTGAGGGGATCGAAGATAGCAGATCTTCTCTTCCTATATTTGG
CAGCAGAGGGGATCGAAGATAGCAGATCGTATCTTCATATATTTGGCAGCGGAGGAGATCGAAGA
TAGCAGATCTTGTCT
Found at i:5014128 original size:46 final size:46
Alignment explanation
Indices: 5014061--5018271 Score: 2835
Period size: 46 Copynumber: 90.5 Consensus size: 46
5014051 GTCTCATGTT
* *
5014061 TTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTATCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5014107 TTTGGCAGCGGAGGGGATCGAATATATCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5014153 TTTGGCAGCGGAGGGGATCGAGGATATCGGATCTTGTCTTCTTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5014199 TTTGG-AGCGGAGGGGATCGAAGATAGCAGATATTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * * *
5014244 TTTGGTAG-TGAGGGGATTGAAGACAGTAGATCTTCTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * *
5014289 TTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCATATA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5014335 TTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTATA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5014381 TTTGGCAGCGAAGTGGATCGAAGATAGCAGATCTTGTCTTCCTGTT
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5014427 TTTGGCAGCGGAGGGGATCGAATATATCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5014473 TTTGGCAGCGGAGGGGATCGAGGATATCGGA-----TC-T--TGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5014511 TTTGGCAGCAGAAGGGATCGAAGATATCAGATCTTGTCTTCTTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5014557 TTTGGCAGCAGAGGTGATCGAAGATAGCAGATCTTATCTTCCAG-A
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5014602 TTTGGCAGCAGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * *
5014648 TTTGGCAGCGAAAGGGATGGAAGATATCAGATCTTGTCTTCTTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5014694 TTGGGTAGCAGAAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5014740 TTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTATCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5014786 TTTGGCCGCGGA-GGGAGTCGAAGATATCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGA-TCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5014832 TTTGGGCAGCGGAGGGGATCGAGGATATCAGATCTTGTCTTCCTATA
1 TTT-GGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5014879 TTTGG-AGCGGAGGGGATCGAAGATAGCAAATCTTGTCTTCCAGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * * *
5014924 TTTGGTAGTGG-GGGGATTGAAGACAGTAGATCTTCTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *****************************
5014969 TTTGGCAGCAGAGGGGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 TTTGGCAGCGGAGGGGA---------TCGAAGATAGCAGATCTTGTCTTCCTGTA
**********************************************
5015024 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
**************** * * ** * * ** ****
5015070 NNNNNNNNNNNNNNNNATTTGGCAGCGGAGGAGAT-TGAGGATAGGAG-A
1 TTTGGCAGCGGAGGGGA--TCGAAG-ATAGCAGATCT-TGTCTTCCTGTA
* ** ** * * *
5015118 TCTTGTCTTCCTATATTTGGCAGCGAAAGGGATCGAAGATAACAGATCTTGTCTTCCTGTA
1 T-TTGGC-AGC-GGA--GGGGATCG-AA--GAT---AG----CAGATCTTGTCTTCCTGTA
* * * *
5015179 TTTGGCAGCGGAGGGGATCGAAGATATCAAATATTTTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5015225 TTTGGCAGCAGAGGGGATCGACGAAAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5015271 TTTGGCAGCAGAGGGGATCGAAGATAACAGATCTTTTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * *
5015317 TTTGGCAGCGGTGGGGA-AGAAAGATCG-AGGATCTTGTCTAGCAGATCTTGTC
1 TTTGGCAGCGGAGGGGATCG-AAGATAGCA-GATCTTGTCT------TCCTGTA
* ** * ** * * *
5015369 TTCCT-GTATTTGGCAGCGGAGGGGATCGA-AGATAGCAGATCTTATCTTCATGTA
1 TT--TGGCA-GCGG-AGGGGA-TCGA-AGATAG----CAGATCTTGTCTTCCTGTA
* * *
5015423 TTTGGCAGCAGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5015469 TTTGGTAG-TG-GGGGATTGAAGATAGCAGATCTTGTCTTCCTGTG
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5015513 TTTGGCAGCAGA-GGGATCGAAGATAGTAGATCTTATCTTCATGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5015558 TTTGGCAGCGGACGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5015604 TTTGGCAGCCGAAGGGGATCGAAGATAGTAGAATCTTGTCTTCCTGTCA
1 TTTGGCAG-CGGAGGGGATCGAAGATAGCAG-ATCTTGTCTTCCTGT-A
* *
5015653 TTTGGCAGCAGAGGGGATCGAAGATATCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * **
5015699 TTTGGTAGTAGGCGGAGGGGATCGAAGATATCAGATCTTGTTTTCCTAAA
1 TTT-G--GCA-GCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5015749 TTTGGCAGCGAAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
**
5015795 TTT-GCGAGTC-G-GGGGATTAAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGC-AG-CGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5015840 TTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCATGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5015886 TTTTGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTG
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * *
5015932 TTTGGAAGCGAAGGGGATCGAAAATAGTAGATCTTGTCTTCCTGCA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
** * * * *
5015978 TTTGATAGTGG-GGGGATTGAAGATAGCAGATCTTATCTTCATGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5016023 TTTGGCAGCGGAGGAGATTGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5016069 TTTGGCAGCGAATGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * ****
5016115 TTTGGCAGCGGAGGGGATCAAAGATATCAGATCTTTTCTTCCNNNNNNNNNNNNNNNN
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCC------------TGTA
**********************************************
5016173 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*************************************** *
5016219 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAT-CAG-A
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
** ** * *** * * * * * * **
5016263 TCTTTTCTTCCTGA--ATTTGGCAGCGAAAG-GGAT-TGAAGGT-AT-C-AAA
1 T-TTGGC-AGCGGAGGGGATCG-A-AGATAGCAGATCT---TGTCTTCCTGTA
* ** * * * *
5016309 TCTTGTCTTCCTGTATTTGGCAGCGAAGGGGATCGAATATAGCAGATCTTGTCTTCCTGTA
1 T-TTGGC-AGC-GGA--GGGGATCGAA-------G---ATAGCAGATCTTGTCTTCCTGTA
*
5016370 TCTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * * *
5016416 TCTGGCAGTGG-CGGGATCGAAGATATCAAATCTTGTCTTCCTATA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5016461 TTTGGCAGCTGAGGGGATCGAAGATAACAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5016507 TTTGGCAGTGGAAGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5016553 TTTGGCCGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTGCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5016599 TTT-GAAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5016644 TTTGG-AGCGGAGGGGATCAAAGATAGTACATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5016689 TTTCGCAGCGG-GGGGATCGAAGATAGTAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5016734 TTTGGCAGCGAAGGGGATCGAAGATAGCAGATCATGTTTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5016780 TTTGGCAGCGGAGGCGATCGACGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* ** * *
5016826 TTCGGTTGTGG-GGGGATTGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* ** * * * *
5016871 TTCGGCAGTAGAGGGGATCAAAGATAGTAGATCTTATCTTCATGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5016917 TTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * *
5016963 TCTGGCAGCGG-CGGGATCGAAGATACCAAATCTTGTCTTCCTGAA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017008 TTTGGCAGCGAATGGGATTGAAGATATCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * **
5017054 TCTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017100 TCTGGCAGCGG-CGGGATCGAAGATACCAAATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017145 TTTGGCAGCTGAGGGGATCGAAGATAACAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017191 TTTGGCAGTGGAAGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017237 TTTGGCCGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTGCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017283 TTT-GAAGCGGAGGGGATCGAAGATAGTAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5017328 TTTGGCAGCGGAGGGGATCGAAGATAGTAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5017374 TTTGGCAGCGGAGGGAATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5017420 TTTGGCAGCGGAGGGGATTGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * ** * * * *
5017466 TTCGACAGTAGAGGGGATCAAAGATAGTAGATCTTATCTTCATGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017512 TTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * * *
5017558 TGTGGCAGCGAATGGGATCGACGATAGCAGATCTTGCCTTCCCGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5017604 TTTGGCAGCAGAGGGGATCGAAGATATCAGATCTTGTCTTCCTGAA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017650 TTTGGCAGCGAAAGGGATTGAAGATATCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017696 TTTGGCAGCGGAGGGAATCGAAGATAGTAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5017742 TCTGGCAGCGGAGGGGATCGAAGATATCAGATCTTTTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017788 TTTGGCAGCGGAGGGGATCGACGATAGCAGATCTTGTTTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5017834 TCTGGCAGCGGAGGGGATCGAAGATATCAAATCTTGTCTTCCTG-A
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017879 TTTTGACAGTGGAGGGGATCGAAGATAACAGATCTTATCTTCCTGTA
1 -TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017926 TTTGGCAGTGGAAGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5017972 TTTGGCAGCGAAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5018018 TGTGGCAGCGGAGGGGATCGAAGATAGCAAATATTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5018064 TTTGGCAGCGGAGGGGATCGAAGATAGCATATATTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
5018110 TTTGG-AGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5018155 TTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5018201 TTTGGCAGCGAAGGAGATCGAAGATAGCAGATCATGTTTTCCTGTA
1 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
**
5018247 TTTGGCAGCGGAGTAGATCGAAGAT
1 TTTGGCAGCGGAGGGGATCGAAGAT
5018272 GGTGAATCTT
Statistics
Matches: 3358, Mismatches: 672, Indels: 270
0.78 0.16 0.06
Matches are distributed among these distances:
38 31 0.01
40 1 0.00
41 2 0.00
43 2 0.00
44 39 0.01
45 679 0.20
46 2326 0.69
47 76 0.02
48 37 0.01
49 15 0.00
50 44 0.01
51 6 0.00
52 10 0.00
53 8 0.00
54 11 0.00
55 6 0.00
56 17 0.01
57 3 0.00
58 5 0.00
59 6 0.00
60 27 0.01
61 7 0.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.28
Consensus pattern (46 bp):
TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
Found at i:5014528 original size:38 final size:38
Alignment explanation
Indices: 5014469--5014547 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
5014459 CTTGTCTTCC
* * * *
5014469 TGTATTTGGCAGCGGAGGGGATCGAGGATATCGGATCT
1 TGTATTTGGCAGCAGAAGGGATCGAAGATATCAGATCT
5014507 TGTATTTGGCAGCAGAAGGGATCGAAGATATCAGATCT
1 TGTATTTGGCAGCAGAAGGGATCGAAGATATCAGATCT
5014545 TGT
1 TGT
5014548 CTTCTTGTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (38 bp):
TGTATTTGGCAGCAGAAGGGATCGAAGATATCAGATCT
Found at i:5015967 original size:183 final size:182
Alignment explanation
Indices: 5015086--5018271 Score: 2896
Period size: 183 Copynumber: 17.1 Consensus size: 182
5015076 NNNNNNNNNN
* * * * * * *
5015086 ATTTGGCAGCGGAGGAGATTGAGGATAGGAGATCTTGTCTTCCTATATTTGGCAGCGAAAGGGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCG-GAGGGAT
* * * * *
5015151 CGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATATCAAATATTTT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* *
5015216 CTTCCTGTATTTGGCAGCAGAGGGGATCGACGAAAGCAGATCTTGTCTTCCTGT
130 CTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* *
5015270 ATTTGGCAGCAGAGGGGATCGAAGATAACAGATCTTTTCTTCCTGTATTTGGCAGCGGTGGGGAA
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGC-----GG-A
* *
5015335 GAAAGATCGAGGATCTTGTCTAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAG
60 G--GGATCGA--A----G-ATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAG
* * * *
5015400 ATAGCAGATCTTATCTTCATGTATTTGGCAGCAGAGGAGATCGAGGATAGCAGATCTTGTCTTCC
116 ATAGCAGATCTTGTCTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCC
5015465 TGT
180 TGT
* * * * *
5015468 ATTTGGTAG-TG-GGGGATTGAAGATAGCAGATCTTGTCTTCCTGTGTTTGGCAGCAGAGGGATC
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATC
* * * * * *
5015531 GAAGATAGTAGATCTTATCTTCATGTATTTGGCAGCGGACGAGATCGAGGATAGCAGATCTTGTC
66 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTC
*
5015596 TTCCTGTATTTGGCAGCCGAAGGGGATCGAAGATAGTAGAATCTTGTCTTCCTGT
131 TTCCTGTATTTGGCAG-CG-AGGGGATCGAAGATAGCAG-ATCTTGTCTTCCTGT
* *
5015651 CATTTGGCAGCAGAGGGGATCGAAGATATCAGATCTTGTCTTCCTGTATTTGGTAGTAGGCGGAG
1 -ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTT-G--GCA-GCGGA-
* * ** *
5015716 GGGATCGAAGATATCAGATCTTGTTTTCCTAAATTTGGCAGCGAAGGGGATCGAAGATAGCAGAT
60 GGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGAT
**
5015781 CTTGTCTTCCTGTATTT-GCGAGTCG-GGGGATTAAAGATAGCAGATCTTGTCTTCCTGT
125 CTTGTCTTCCTGTATTTGGC-AG-CGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * *
5015839 ATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTTCATGTATTTTGCAGCGGAGGAGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGG-GAT
* * * * * *
5015904 CGAGGATAGCAGATCTTGTCTTCCTGTGTTTGGAAGCGAAGGGGATCGAAAATAGTAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* ** * * * * *
5015969 CTTCCTGCATTTGATAGTGGGGGGATTGAAGATAGCAGATCTTATCTTCATGT
130 CTTCCTGTATTTGGCAGCGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * * *
5016022 ATTTGGCAGCGGAGGAGATTGAGGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAATGGGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGAT
* * *
5016087 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCAAAGATATCAGATCTTTT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
***********************************************
5016152 CTTCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
130 CTTCC-------------TGTATTTGGCAGCGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTG
*
5016217 N
182 T
**************************************** * ** ** *
5016218 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNAT-CAG-ATCTTTTCTTCCTGAATTT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT-TTGGC-AGC-GGA---
* * * *
5016281 GGCAGCGAAAGGGATTGAAGGTATCAAATCTTGTCTTCCTGTATTTGGCAGCGAAGGGGATCGAA
60 GGGATCG-AA--GA-T--A-G---CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAA
* *
5016346 TATAGCAGATCTTGTCTTCCTGTATCTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTC
115 GATAGCAGATCTTGTCTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTC
5016411 CTGT
179 CTGT
* * * * * *
5016415 ATCTGGCAG-TG-GCGGGATCGAAGATATCAAATCTTGTCTTCCTATATTTGGCAGCTGAGGGGA
1 ATTTGGCAGCAGAG-GGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGA
* * * * *
5016478 TCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAAGAGATCGAGGATAGCAGATCTTG
64 TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTG
* *
5016543 TCTTCCTGTATTTGGCCGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTGCTGT
129 TCTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* *
5016598 ATTT-GAAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG-AGCGGAGGGGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGAT
* * * * *
5016661 CAAAGATAGTACATCTTGTCTTCCTGTATTTCGCAGCGG-GGGGATCGAAGATAGTAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* *
5016725 CTTCCTGTATTTGGCAGCGAAGGGGATCGAAGATAGCAGATCATGTTTTCCTGT
130 CTTCCTGTATTTGGCAGCG-AGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * * ** * * *
5016779 ATTTGGCAGCGGAGGCGATCGACGATAGCAGATCTTGTCTTCCTGTATTCGGTTGTGGGGGGATT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATC
* ** * * *
5016844 GAAGATAGCAGATCTTGTCTTCCTGTATTCGGCAGTAGAGGGGATCAAAGATAGTAGATCTTATC
66 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTC
* *
5016909 TTCATGTATTTGGCAGCGGAGGAGATCGAAGATAGCAGATCTTGTCTTCCTGT
131 TTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * * *
5016962 ATCTGGCAGC-G-GCGGGATCGAAGATACCAAATCTTGTCTTCCTGAATTTGGCAGCGAATGGGA
1 ATTTGGCAGCAGAG-GGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGA
* * * * **
5017025 TTGAAGATATCAGATCTTGTCTTCCTGTATCTAGCAGCGGAGTAGATCGAAGATAGCAGATCTTG
64 TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTG
* * *
5017090 TCTTCCTGTATCTGGCAGCG-GCGGGATCGAAGATACCAAATCTTGTCTTCCTGT
129 TCTTCCTGTATTTGGCAGCGAG-GGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * *
5017144 ATTTGGCAGCTGAGGGGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAAGAGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGG-AGGGAT
* *
5017209 CGAGGATAGCAGATCTTGTCTTCCTGTATTTGGCCGCGGAGGGGATCGAAGATAGCAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* * *
5017274 CTTGCTGTATTT-GAAGCGGAGGGGATCGAAGATAGTAGATCTTGTCTTCCTGT
130 CTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* *
5017327 ATTTGGCAGCGGAGGGGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGAAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGG-AT
*
5017392 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATTGAAGATAGCAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* * * * * * *
5017457 CTTCCTGTATTCGACAGTAGAGGGGATCAAAGATAGTAGATCTTATCTTCATGT
130 CTTCCTGTATTTGGCAG-CGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * * *
5017511 ATTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTATGTGGCAGCGAATGGGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGAT
* * * * *
5017576 CGACGATAGCAGATCTTGCCTTCCCGTATTTGGCAGCAGAGGGGATCGAAGATATCAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* * * *
5017641 CTTCCTGAATTTGGCAGCGAAAGGGATTGAAGATATCAGATCTTGTCTTCCTGT
130 CTTCCTGTATTTGGCAGCG-AGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * * *
5017695 ATTTGGCAGCGGAGGGAATCGAAGATAGTAGATCTTGTCTTCCTGTATCTGGCAGCGGAGGGGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGAT
* * *
5017760 CGAAGATATCAGATCTTTTCTTCCTGTATTTGGCAGCGGAGGGGATCGACGATAGCAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* * * *
5017825 TTTCCTGTATCTGGCAGCGGAGGGGATCGAAGATATCAAATCTTGTCTTCCTG-
130 CTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* ** * * * *
5017878 ATTTTGACAGTGGAGGGGATCGAAGATAACAGATCTTATCTTCCTGTATTTGGCAGTGGAAGAGA
1 A-TTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGG-AGGGA
* * * *
5017943 TCGAGGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCGAGGATAGCAGATCTTG
64 TCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTG
* * *
5018008 TCTTCCTGTATGTGGCAGCGGAGGGGATCGAAGATAGCAAATATTGTCTTCCTGT
129 TCTTCCTGTATTTGGCAGC-GAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* * *
5018063 ATTTGGCAGCGGAGGGGATCGAAGATAGCATATATTGTCTTCCTGTATTTGG-AGCGGAGGGGAT
1 ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGAT
*
5018127 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGT
65 CGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGT
* * *
5018192 CTTCCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCATGTTTTCCTGT
130 CTTCCTGTATTTGGCAGCG-AGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
* **
5018246 ATTTGGCAGCGGAGTAGATCGAAGAT
1 ATTTGGCAGCAGAGGGGATCGAAGAT
5018272 GGTGAATCTT
Statistics
Matches: 2412, Mismatches: 501, Indels: 179
0.78 0.16 0.06
Matches are distributed among these distances:
180 1 0.00
181 144 0.06
182 230 0.10
183 942 0.39
184 621 0.26
185 7 0.00
186 35 0.01
187 48 0.02
188 21 0.01
189 21 0.01
190 10 0.00
191 82 0.03
192 2 0.00
193 6 0.00
194 2 0.00
195 6 0.00
196 43 0.02
197 9 0.00
198 114 0.05
199 6 0.00
200 2 0.00
202 2 0.00
203 1 0.00
205 1 0.00
206 1 0.00
209 55 0.02
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.29
Consensus pattern (182 bp):
ATTTGGCAGCAGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATC
GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTC
TTCCTGTATTTGGCAGCGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGT
Found at i:5016506 original size:137 final size:137
Alignment explanation
Indices: 5016259--5018271 Score: 2713
Period size: 137 Copynumber: 14.6 Consensus size: 137
5016249 NNNNNNNNAT
* * * * * * *
5016259 CAGATCTTTTCTTCCTGAATTTGGCAGCGAAAGGGATTGAAGGTATCAAATCTTGTCTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCG-GAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5016324 TTTGGCAGCGAAGGGGATCGAATATAGCAGATCTTGTCTTCCTGTATCTGGCAGCGGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
5016389 GAAGATAG
130 GAAGATAG
* * * * * *
5016397 CAGATCTTGTCTTCCTGTATCTGGCAGTGGCGGGATCGAAGATATCAAATCTTGTCTTCCTATAT
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * * *
5016462 TTGGCAGCTGAGGGGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAAGAGATCG
66 TTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCG
*
5016527 AGGATAG
131 AAGATAG
* *
5016534 CAGATCTTGTCTTCCTGTATTTGGCCGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTGCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5016599 TTT-GAAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGG-AGCGGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
5016662 AAAGATAG
130 GAAGATAG
* * * * *
5016670 TACATCTTGTCTTCCTGTATTTCGCAGCGGGGGGATCGAAGATAGTAGATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * *
5016735 TTGGCAGCGAAGGGGATCGAAGATAGCAGATCATGTTTTCCTGTATTTGGCAGCGGAGGCGATCG
66 TTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCG
*
5016800 ACGATAG
131 AAGATAG
* ** * * *
5016807 CAGATCTTGTCTTCCTGTATTCGGTTGTGGGGGGATTGAAGATAGCAGATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* ** * * * * *
5016872 TCGGCAGTAGAGGGGATCAAAGATAGTAGATCTTATCTTCATGTATTTGGCAGCGGAGGAGATCG
66 TTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCG
5016937 AAGATAG
131 AAGATAG
* * * * *
5016944 CAGATCTTGTCTTCCTGTATCTGGCAGCGGCGGGATCGAAGATACCAAATCTTGTCTTCCTGAAT
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * * * * **
5017009 TTGGCAGCGAATGGGATTGAAGATATCAGATCTTGTCTTCCTGTATCTAGCAGCGGAGTAGATCG
66 TTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCG
5017074 AAGATAG
131 AAGATAG
* * * *
5017081 CAGATCTTGTCTTCCTGTATCTGGCAGCGGCGGGATCGAAGATACCAAATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
* * * * *
5017146 TTGGCAGCTGAGGGGATCGAAGATAACAGATCTTGTCTTCCTGTATTTGGCAGTGGAAGAGATCG
66 TTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCG
*
5017211 AGGATAG
131 AAGATAG
* *
5017218 CAGATCTTGTCTTCCTGTATTTGGCCGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTGCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* *
5017283 TTT-GAAGCGGAGGGGATCGAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
5017347 GAAGATAG
130 GAAGATAG
*
5017355 TAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGAATCGAAGATAGCAGATCTTGTCTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGG-ATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * **
5017420 TTTGGCAGCGGAGGGGATTGAAGATAGCAGATCTTGTCTTCCTGTATTCGACAGTAGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
5017485 AAAGATAG
130 GAAGATAG
* * * *
5017493 TAGATCTTATCTTCATGTATTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGG-GATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * * * *
5017558 TGTGGCAGCGAATGGGATCGACGATAGCAGATCTTGCCTTCCCGTATTTGGCAGCAGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
5017623 GAAGATAT
130 GAAGATAG
* * * *
5017631 CAGATCTTGTCTTCCTGAATTTGGCAGCGAAAGGGATTGAAGATATCAGATCTTGTCTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCG-GAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * *
5017696 TTTGGCAGCGGAGGGAATCGAAGATAGTAGATCTTGTCTTCCTGTATCTGGCAGCGGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
5017761 GAAGATAT
130 GAAGATAG
* * *
5017769 CAGATCTTTTCTTCCTGTATTTGGCAGCGGAGGGGATCGACGATAGCAGATCTTGTTTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * * *
5017834 TCTGGCAGCGGAGGGGATCGAAGATATCAAATCTTGTCTTCCTG-ATTTTGACAGTGGAGGGGAT
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA-TTTGGCAGCGGAGGGGAT
*
5017898 CGAAGATAA
129 CGAAGATAG
* * * *
5017907 CAGATCTTATCTTCCTGTATTTGGCAGTGGAAGAGATCGAGGATAGCAGATCTTGTCTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGG-AGGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
* * * *
5017972 TTTGGCAGCGAAGGAGATCGAGGATAGCAGATCTTGTCTTCCTGTATGTGGCAGCGGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
5018037 GAAGATAG
130 GAAGATAG
* * * *
5018045 CAAATATTGTCTTCCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCATATATTGTCTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGA-GGGATCGAAGATAGCAGATCTTGTCTTCCTGTA
*
5018110 TTTGG-AGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGATC
65 TTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
5018174 GAAGATAG
130 GAAGATAG
* * *
5018182 CAGATCTTGTCTTCCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCATGTTTTCCTGTA
1 CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGG-GATCGAAGATAGCAGATCTTGTCTTCCTGTA
**
5018247 TTTGGCAGCGGAGTAGATCGAAGAT
65 TTTGGCAGCGGAGGGGATCGAAGAT
5018272 GGTGAATCTT
Statistics
Matches: 1644, Mismatches: 216, Indels: 30
0.87 0.11 0.02
Matches are distributed among these distances:
135 34 0.02
136 90 0.05
137 812 0.49
138 702 0.43
139 6 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (137 bp):
CAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
TTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATCG
AAGATAG
Found at i:5039276 original size:46 final size:46
Alignment explanation
Indices: 5037281--5039266 Score: 2820
Period size: 46 Copynumber: 43.3 Consensus size: 46
5037271 NNNNNNNNNN
* *
5037281 CCTGTATTTGGCAGCGGATGGGATCGAAGATAGCAGATCTTGTCGT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5037327 CCTGTATTT-GCAGCGGAGGGGATTGAAGATAACAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5037372 CCTATATTTGG-AGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5037417 CCTGTATTTGG-AGCGGAGGGGATCAAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5037462 CCTGTATTTGGCAGTGAAGGAGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5037508 CCTGTATTTGGTAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * * * *
5037554 CCTGTATTTAGTAGTGG-GGGGATTGAAGACAGCAGATCTTCTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * * *
5037599 CCTGTATTTGGCAGCAGAGAGGATCGAAGACAGTAGATCTTATCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5037645 CATGTATTTGGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * * **
5037691 CCTATATTTTGCAGCGAAGGGAATCGAAGATATTAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5037737 CCTGTATTTGGCAGCGGTGGGGATCGACGATAGCAGATCTTTTCTC
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5037783 CCTGTATTTGGCAGCAGAGGGGATCGAAGATATCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5037829 CCTGAATTTGGCAGC-GATAGGGATTGAAGATATCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGA-GGGGATCGAAGATAGCAGATCTTGTCTT
* *
5037875 CCTATATTTGGCAGCGGAGGGGATCAAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5037921 CCTGTATCTGGCAGTGGAGGGG-TCGAAGATATCAAATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5037966 TCTGTTTTTGGCAGCGGAGCGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
5038012 CCTGTATTTGG-AGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5038057 CCTGTATTTGGCAGCGAAGGAGATCGAAGATAGCAGATCATGTTTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
5038103 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5038149 CCTGTATTTGGTAGTGG-GGGGATTGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5038194 CCTGTATTTGGCAGCAGAGGGGATCGAAGATAGTAGATCTTATCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5038240 CATGTATTTTGCAGCGGAGGAGATCGAGGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5038286 CCTGTATTTGGCAGCGAAGGGGATCGAAAATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5038332 CCTGTATTTGGCAGCGGAGGGGATCGAAGATATCAGATCTTTTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5038378 CCTGTATTTGGCAGCAGAGGGGATCGACGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* **
5038424 CCTGTATTTGGCAGCAGAGGGGATCGAAGATATTAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * * * *
5038470 CCTGAATTTGGCAGCGAAAGGGATTGAAGATATCAGATCTTGTTTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5038516 CCTGTATTTGGCAGCGGAGAGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5038562 CCTGTATCTGGCAGCGAAGGGGATCGAAGATATCAAATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5038608 CCTGTATTTGGCAGCGGAGGGGATCGAAGGTAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5038654 CCTGTATTTGGTAGCGGAAGAGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5038700 CCTGTATTTGGCAGCGGAAGGGATCAAAGATATCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5038746 CTTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * * *
5038792 CCTGTATTTGGCAGCGAAGGAGATTGAAGATAGCGGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5038838 CCTGTATTTGGCCGCGGAGGGGAACGAAGATAGCAAATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5038884 CATGTATTTGGGCAG-GGAGGGGATGGAAGATAGCAGATCTTGTCTT
1 CCTGTATTT-GGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* ** *
5038930 CCTGCATTTGGCAGCGGAGAAGATCGAAGATAGCAAATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5038976 ACTATATTTGACAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5039022 CCTGTATTTGGCAGCGGAGGGGATCGAAGACAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* *
5039068 CCTGTAATTGGCAGTGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
5039114 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
* * *
5039160 CCTGTATTTGGCAACAGAGGGGATCGAAGATAGCAGATCTTGTTTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
** * * *
5039206 CCTGTATTTGGCAGCGGAGAAGATCAAAGATAGCAGATCTTATGTT
1 CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
*
5039252 CATGTATTTGGCAGC
1 CCTGTATTTGGCAGC
5039267 AAAGGAGATC
Statistics
Matches: 1715, Mismatches: 215, Indels: 20
0.88 0.11 0.01
Matches are distributed among these distances:
45 293 0.17
46 1416 0.83
47 6 0.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (46 bp):
CCTGTATTTGGCAGCGGAGGGGATCGAAGATAGCAGATCTTGTCTT
Found at i:5042978 original size:2 final size:2
Alignment explanation
Indices: 5042971--5043018 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
5042961 NNNNNNNNAG
5042971 TA TA TA TA TA TA TA TA TA 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
5043013 TA TA TA
1 TA TA TA
5043019 AAAGAAAAAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5043363 original size:16 final size:17
Alignment explanation
Indices: 5043333--5043365 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5043323 GTTTAAAAGA
5043333 ATTTTCAAATATATATG
1 ATTTTCAAATATATATG
*
5043350 ATTTT-AAATTTATATG
1 ATTTTCAAATATATATG
5043366 TTCTAACATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (17 bp):
ATTTTCAAATATATATG
Found at i:5052730 original size:28 final size:28
Alignment explanation
Indices: 5052698--5052753 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
5052688 ACTCCATCAG
5052698 AGATTAATTGTCAGACATAACTATGTCT
1 AGATTAATTGTCAGACATAACTATGTCT
5052726 AGATTAATTGTCAGACATAACTATGTCT
1 AGATTAATTGTCAGACATAACTATGTCT
5052754 TAATCCAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (28 bp):
AGATTAATTGTCAGACATAACTATGTCT
Found at i:5059638 original size:36 final size:36
Alignment explanation
Indices: 5059569--5059653 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 36
5059559 CTACCTTCAT
* * *
5059569 CCGATTTGCTTCCTTGTTTCTTTGTTTTTCTTTTCTG
1 CCGATTTGC-TCCTAGTTTATTTGTTTTTCTTTTCTA
*
5059606 TCGATTTGCTCCTAGTTTATTT-TCTTTTCTTTTCTA
1 CCGATTTGCTCCTAGTTTATTTGT-TTTTCTTTTCTA
5059642 CCGATTTGCTCC
1 CCGATTTGCTCC
5059654 CCCCGTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 1 0.02
36 33 0.79
37 8 0.19
ACGTcount: A:0.07, C:0.24, G:0.12, T:0.58
Consensus pattern (36 bp):
CCGATTTGCTCCTAGTTTATTTGTTTTTCTTTTCTA
Found at i:5063196 original size:30 final size:29
Alignment explanation
Indices: 5063161--5063354 Score: 226
Period size: 30 Copynumber: 6.5 Consensus size: 29
5063151 ATTTTCTTTA
*
5063161 AAAATTACATTTTAACCCCTAAACTTTTTT
1 AAAATTACATTTTAACCCCTAAA-TTTTCT
*
5063191 GAAATTACATTTTAACCCCTAAACTTTTCT
1 AAAATTACATTTTAACCCCTAAA-TTTTCT
* ** *
5063221 AAAATTACATTTCAAATCCTAAAGTTTCCT
1 AAAATTACATTTTAACCCCTAAA-TTTTCT
* *
5063251 AAAATTATATTTCAACCCCTAAATTTTCCT
1 AAAATTACATTTTAACCCCTAAATTTT-CT
*
5063281 AAAATTACATTTTAACCCTTAAAATTTTCT
1 AAAATTACATTTTAACCCCT-AAATTTTCT
* *
5063311 AAAATTACATTTTGACCCTTAAATTTTCAT
1 AAAATTACATTTTAACCCCTAAATTTTC-T
*
5063341 GAAATTACATTTTA
1 AAAATTACATTTTA
5063355 GCCTTAAAAG
Statistics
Matches: 143, Mismatches: 18, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
29 11 0.08
30 125 0.87
31 7 0.05
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCTAAATTTTCT
Found at i:5063565 original size:17 final size:17
Alignment explanation
Indices: 5063535--5063570 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
5063525 CTCAATCAAT
5063535 AAAAAAAAGAAAAGCAAA
1 AAAAAAAAGAAAAG-AAA
5063553 AAAAAAAAG-AAAGAAA
1 AAAAAAAAGAAAAGAAA
5063569 AA
1 AA
5063571 CGTAACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.28
17 4 0.22
18 9 0.50
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAAGAAAAGAAA
Found at i:5075362 original size:18 final size:18
Alignment explanation
Indices: 5075321--5075363 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
5075311 TATTAAATTG
*
5075321 TCATTTTATATGTATTAC
1 TCATTTAATATGTATTAC
*
5075339 TTATTTAATATGTATATAC
1 TCATTTAATATGTAT-TAC
5075358 -CATTTA
1 TCATTTA
5075364 TTTGATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (18 bp):
TCATTTAATATGTATTAC
Found at i:5081897 original size:13 final size:13
Alignment explanation
Indices: 5081883--5081931 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
5081873 AGATTCAATA
5081883 AAAAAAT-AAAAT
1 AAAAAATCAAAAT
5081895 --AAAATCAAAAT
1 AAAAAATCAAAAT
5081906 AAAAAATC-AAAT
1 AAAAAATCAAAAT
5081918 CAAAAAAATCAAAA
1 --AAAAAATCAAAA
5081932 AATCAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 4 0.13
13 6 0.19
14 8 0.26
15 3 0.10
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAATCAAAAT
Found at i:5081911 original size:18 final size:18
Alignment explanation
Indices: 5081890--5081988 Score: 64
Period size: 18 Copynumber: 5.5 Consensus size: 18
5081880 ATAAAAAAAT
5081890 AAAATAAAATCAAAATAA
1 AAAATAAAATCAAAATAA
*
5081908 AAAATCAAATCAAAA-AA
1 AAAATAAAATCAAAATAA
*
5081925 ATCAA-AAAATCAAAA-AA
1 A-AAATAAAATCAAAATAA
* *
5081942 AAGAA-AACAATTAAAAT-C
1 AA-AATAA-AATCAAAATAA
* *
5081960 AAAATCAAAATTAAAGTCAA
1 AAAAT-AAAATCAAAAT-AA
5081980 AAAATAAAA
1 AAAATAAAA
5081989 AAAAAGAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
17 21 0.32
18 33 0.51
19 6 0.09
20 5 0.08
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (18 bp):
AAAATAAAATCAAAATAA
Found at i:5082941 original size:7 final size:7
Alignment explanation
Indices: 5082923--5082972 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
5082913 GAGTCGTAAA
5082923 AAAAATG
1 AAAAATG
5082930 AAAAAATG
1 -AAAAATG
5082938 -AAAATG
1 AAAAATG
5082944 AAAAATG
1 AAAAATG
5082951 AAAAATGG
1 AAAAAT-G
5082959 AAAAA-G
1 AAAAATG
5082965 TAAAAATG
1 -AAAAATG
5082973 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 17 0.45
8 14 0.37
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:5082943 original size:14 final size:13
Alignment explanation
Indices: 5082924--5082954 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
5082914 AGTCGTAAAA
5082924 AAAATGAAAAAATG
1 AAAATG-AAAAATG
5082938 AAAATGAAAAATG
1 AAAATGAAAAATG
5082951 AAAA
1 AAAA
5082955 ATGGAAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:5082961 original size:15 final size:15
Alignment explanation
Indices: 5082923--5082974 Score: 65
Period size: 15 Copynumber: 3.6 Consensus size: 15
5082913 GAGTCGTAAA
*
5082923 AAAAATGAAAAAATG
1 AAAAATGGAAAAATG
5082938 -AAAAT-GAAAAATG
1 AAAAATGGAAAAATG
5082951 AAAAATGGAAAAA-G
1 AAAAATGGAAAAATG
5082965 TAAAAATGGA
1 -AAAAATGGA
5082975 GAGGCTAAGG
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 7 0.21
14 11 0.33
15 15 0.45
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAAATGGAAAAATG
Found at i:5084429 original size:43 final size:43
Alignment explanation
Indices: 5084363--5084639 Score: 303
Period size: 43 Copynumber: 6.5 Consensus size: 43
5084353 TGCTCAAAGC
*
5084363 ATGGTGCCCGAGGCTCCCGCACGACTAAGGGCCTAGGTTGCCG
1 ATGGTGCCCGAGGCTCCCACACGACTAAGGGCCTAGGTTGCCG
* * * *
5084406 ATGGTGCCCGAGGTTCCCACACGACCAAGGTCCTAGGTTCCCG
1 ATGGTGCCCGAGGCTCCCACACGACTAAGGGCCTAGGTTGCCG
** * **
5084449 ATGGTGCCCGAGGCTCCCGTAC-ATCTGATCGCCTAGG-TGCCG
1 ATGGTGCCCGAGGCTCCCACACGA-CTAAGGGCCTAGGTTGCCG
* * * *
5084491 GTGGTGCCCGAGGCTCTCTCACGACCAAGGGCCTAGGTTGCCG
1 ATGGTGCCCGAGGCTCCCACACGACTAAGGGCCTAGGTTGCCG
* * *
5084534 ATGGTGCCCGAGGCTCCCGCACGACAAAGGGCCTAGGTTCCCG
1 ATGGTGCCCGAGGCTCCCACACGACTAAGGGCCTAGGTTGCCG
* ** *
5084577 ATGGTGTCCGAGGCTCCCACAC-A-TGCAAGCACCGAGG-TGCCG
1 ATGGTGCCCGAGGCTCCCACACGACT--AAGGGCCTAGGTTGCCG
5084619 ATGGTGCCCGAGGCTCCCACA
1 ATGGTGCCCGAGGCTCCCACA
5084640 TATGTCTAAT
Statistics
Matches: 194, Mismatches: 35, Indels: 11
0.81 0.15 0.05
Matches are distributed among these distances:
42 57 0.29
43 137 0.71
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (43 bp):
ATGGTGCCCGAGGCTCCCACACGACTAAGGGCCTAGGTTGCCG
Found at i:5084519 original size:85 final size:86
Alignment explanation
Indices: 5084363--5084636 Score: 331
Period size: 85 Copynumber: 3.2 Consensus size: 86
5084353 TGCTCAAAGC
* *
5084363 ATGGTGCCCGAGGCTCCCGCACGACTAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCACAC
1 ATGGTGCCCGAGGCTCCCGCACGACTAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACAC
*
5084428 GACCAAGGTCCTAGGTTCCCG
66 GACCAAGGGCCTAGGTTCCCG
* * * * * *
5084449 ATGGTGCCCGAGGCTCCCGTAC-ATCTGATCGCCTAGG-TGCCGGTGGTGCCCGAGGCTCTCTCA
1 ATGGTGCCCGAGGCTCCCGCACGA-CTAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACA
*
5084512 CGACCAAGGGCCTAGGTTGCCG
65 CGACCAAGGGCCTAGGTTCCCG
* * * *
5084534 ATGGTGCCCGAGGCTCCCGCACGACAAAGGGCCTAGGTTCCCGATGGTGTCCGAGGCTCCCACAC
1 ATGGTGCCCGAGGCTCCCGCACGACTAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACAC
* ** * *
5084599 -ATGCAAGCACCGAGG-TGCCG
66 GA-CCAAGGGCCTAGGTTCCCG
5084619 ATGGTGCCCGAGGCTCCC
1 ATGGTGCCCGAGGCTCCC
5084637 ACATATGTCT
Statistics
Matches: 160, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 97 0.61
86 63 0.39
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (86 bp):
ATGGTGCCCGAGGCTCCCGCACGACTAAGCGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACAC
GACCAAGGGCCTAGGTTCCCG
Found at i:5084592 original size:128 final size:128
Alignment explanation
Indices: 5084363--5084636 Score: 397
Period size: 128 Copynumber: 2.1 Consensus size: 128
5084353 TGCTCAAAGC
* *
5084363 ATGGTGCCCGAGGCTCCCGCACGACTAAGGGCCTAGGTTGCCGATGGTGCCCGAGGTTCCCACAC
1 ATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACAC
* * ** * * * *
5084428 GACCAAGGTCCTAGGTTCCCGATGGTGCCCGAGGCTCCCGTACAT-CTGATCGCCTAGGTGCCG
66 GACAAAGGGCCTAGGTTCCCGATGGTGCCCGAGGCTCCCACACATGC-AAGCACCGAGGTGCCG
* * * *
5084491 GTGGTGCCCGAGGCTCTCTCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCGCAC
1 ATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACAC
*
5084556 GACAAAGGGCCTAGGTTCCCGATGGTGTCCGAGGCTCCCACACATGCAAGCACCGAGGTGCCG
66 GACAAAGGGCCTAGGTTCCCGATGGTGCCCGAGGCTCCCACACATGCAAGCACCGAGGTGCCG
5084619 ATGGTGCCCGAGGCTCCC
1 ATGGTGCCCGAGGCTCCC
5084637 ACATATGTCT
Statistics
Matches: 128, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
128 127 0.99
129 1 0.01
ACGTcount: A:0.17, C:0.34, G:0.32, T:0.17
Consensus pattern (128 bp):
ATGGTGCCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCCACAC
GACAAAGGGCCTAGGTTCCCGATGGTGCCCGAGGCTCCCACACATGCAAGCACCGAGGTGCCG
Found at i:5084705 original size:20 final size:22
Alignment explanation
Indices: 5084667--5084724 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
5084657 CAATTTTGAC
*
5084667 CTAAAAATATATAATTATAT-TT
1 CTAAAAATATA-AAATATATGTT
5084689 -TAAAAATATAAAATATATGTT
1 CTAAAAATATAAAATATATGTT
5084710 CT-AAAAT-TAAAATAT
1 CTAAAAATATAAAATAT
5084725 TTTATTATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
20 15 0.45
21 17 0.52
22 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (22 bp):
CTAAAAATATAAAATATATGTT
Found at i:5085944 original size:176 final size:176
Alignment explanation
Indices: 5085646--5086002 Score: 669
Period size: 176 Copynumber: 2.0 Consensus size: 176
5085636 TACTCATCTA
*
5085646 TTTTCTAATCAATATGCAGGCACGAAATGGAAATTTCCATGAGAAAGAAGTATCGCGTATGAAAA
1 TTTTCTAATCAATATGCAGGCACGAAATGGAAATTTCCATGAAAAAGAAGTATCGCGTATGAAAA
* *
5085711 AGTAAGTTCCATGACATCGGCTGAAGCAATAACAACAATTGCAAAAAGACGTTGACTCCTATAGA
66 AGTAAGTTCCATGACATCGGCTGAAGCAATAACAACAACTGCAAAAAGACATTGACTCCTATAGA
5085776 AATCCATCAGTTTGGAAACTATAACGTATATGCTACGACTGGGTTT
131 AATCCATCAGTTTGGAAACTATAACGTATATGCTACGACTGGGTTT
*
5085822 TTTTCTAATCAATATGCAGTCACGAAATGGAAATTTCCATGAAAAAGAAGTATCGCGTATGAAAA
1 TTTTCTAATCAATATGCAGGCACGAAATGGAAATTTCCATGAAAAAGAAGTATCGCGTATGAAAA
5085887 AGTAAGTTCCATGACATCGGCTGAAGCAATAACAACAACTGCAAAAAGACATTGACTCCTATAGA
66 AGTAAGTTCCATGACATCGGCTGAAGCAATAACAACAACTGCAAAAAGACATTGACTCCTATAGA
*
5085952 AATCCATCAGTTTGGAAACTATAACGTATTTGCTACGACTGGGTTT
131 AATCCATCAGTTTGGAAACTATAACGTATATGCTACGACTGGGTTT
5085998 TTTTC
1 TTTTC
5086003 GTGTGTAACC
Statistics
Matches: 176, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
176 176 1.00
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.27
Consensus pattern (176 bp):
TTTTCTAATCAATATGCAGGCACGAAATGGAAATTTCCATGAAAAAGAAGTATCGCGTATGAAAA
AGTAAGTTCCATGACATCGGCTGAAGCAATAACAACAACTGCAAAAAGACATTGACTCCTATAGA
AATCCATCAGTTTGGAAACTATAACGTATATGCTACGACTGGGTTT
Found at i:5088145 original size:29 final size:29
Alignment explanation
Indices: 5088112--5088175 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
5088102 TAACCCACCA
5088112 CCCAACTTTTTGAAAAATTACAATTTTG-C
1 CCCAAC-TTTTGAAAAATTACAATTTTGTC
* * *
5088141 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGTC
5088171 CCCAA
1 CCCAA
5088176 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 23 0.77
30 7 0.23
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGTC
Done.