Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold44
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: 3265628
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 491382 characters in sequence are not A, C, G, or T
File 15 of 17
Found at i:2863335 original size:35 final size:35
Alignment explanation
Indices: 2863289--2863456 Score: 168
Period size: 35 Copynumber: 4.9 Consensus size: 35
2863279 TTCAAGTGAT
* ** *
2863289 GAAGAGGTTCTATCTTAGTCTTTGTAAAATCTAAG
1 GAAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
* * *
2863324 GAAGAGGTTCTATCTTAGCCTCTCTAAAAGATGGG
1 GAAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
*
2863359 GAAGAGATTCTATCTTAGCCTTTGTAAAAGATAGG
1 GAAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
* * **
2863394 GAAAATGTTCTATCTTAGCCTAAG-AAAAGATA-G
1 GAAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
*
2863427 G--GAGGTTCTATATTAG-C-TTGTAAAAAGATA
1 GAAGAGGTTCTATCTTAGCCTTTGT-AAAAGATA
2863457 AAGTTGTAAG
Statistics
Matches: 110, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 20 0.18
33 2 0.02
34 8 0.07
35 78 0.71
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (35 bp):
GAAGAGGTTCTATCTTAGCCTTTGTAAAAGATAGG
Found at i:2864459 original size:19 final size:20
Alignment explanation
Indices: 2864414--2864467 Score: 83
Period size: 19 Copynumber: 2.7 Consensus size: 20
2864404 CTGCCAGTTT
*
2864414 CATGTATCGATACAATTTGAC
1 CATGTATCGATACAA-TTGAA
2864435 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
2864454 CATGTATCGATACA
1 CATGTATCGATACA
2864468 TTGTATCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 17 0.53
21 15 0.47
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:2864492 original size:33 final size:32
Alignment explanation
Indices: 2864437--2864501 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 32
2864427 AATTTGACCA
* *
2864437 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCAATACAATGAACATGTATCAATACAT
* *
2864469 TGTATCAATAGAATGCAGCATGTATCAATACAT
1 TGTATCAATACAATG-AACATGTATCAATACAT
2864502 CTGGGTGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCAATACAATGAACATGTATCAATACAT
Found at i:2871324 original size:24 final size:24
Alignment explanation
Indices: 2871293--2871349 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
2871283 TACCATGGCT
* *
2871293 TTCTTCTTTGGTTTGCTCACATTC
1 TTCTTCTTCGATTTGCTCACATTC
2871317 TTCTTCTTCGATTTGCTCACATTC
1 TTCTTCTTCGATTTGCTCACATTC
2871341 TTCTTCTTC
1 TTCTTCTTC
2871350 AAATTAGGAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.09, C:0.28, G:0.09, T:0.54
Consensus pattern (24 bp):
TTCTTCTTCGATTTGCTCACATTC
Found at i:2873183 original size:13 final size:13
Alignment explanation
Indices: 2873165--2873195 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
2873155 ACATTTCTTC
2873165 ATGTATCGATACA
1 ATGTATCGATACA
2873178 ATGTATCGATACA
1 ATGTATCGATACA
*
2873191 TTGTA
1 ATGTA
2873196 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2873187 original size:33 final size:33
Alignment explanation
Indices: 2873145--2873211 Score: 102
Period size: 33 Copynumber: 2.0 Consensus size: 33
2873135 GTTACATGCT
2873145 ATGTATCGATACATT-T-CTTCATGTATCGATACA
1 ATGTATCGATACATTGTAC--CATGTATCGATACA
2873178 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
2873211 A
1 A
2873212 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 30 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:2873285 original size:19 final size:19
Alignment explanation
Indices: 2873242--2873296 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
2873232 GCCAGTTTCC
*
2873242 TGTATCGATACAATTTGACCA
1 TGTATCGATACAA--TGAACA
*
2873263 TGTATTGATACAATGAACA
1 TGTATCGATACAATGAACA
2873282 TGTATCGATACAATG
1 TGTATCGATACAATG
2873297 TATCGATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 19 0.61
21 12 0.39
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAATGAACA
Found at i:2878145 original size:13 final size:13
Alignment explanation
Indices: 2878117--2878167 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
2878107 TTAAAAAGTT
2878117 AAAAGAAAAAGCACA
1 AAAAGAAAAA-CA-A
2878132 AAAATGAAAAACAA
1 AAAA-GAAAAACAA
2878146 AAAAGAAAAA-AA
1 AAAAGAAAAACAA
2878158 ATAAA-AAAAA
1 A-AAAGAAAAA
2878168 AGGAAAGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
12 8 0.24
13 9 0.26
14 5 0.15
15 6 0.18
16 6 0.18
ACGTcount: A:0.82, C:0.06, G:0.08, T:0.04
Consensus pattern (13 bp):
AAAAGAAAAACAA
Found at i:2878148 original size:23 final size:21
Alignment explanation
Indices: 2878117--2878168 Score: 59
Period size: 23 Copynumber: 2.4 Consensus size: 21
2878107 TTAAAAAGTT
* * *
2878117 AAAAGAAAAAGCACAAAAATGA
1 AAAAAAAAAAGAAAAAAAAT-A
2878139 AAAACAAAAAAGAAAAAAAATA
1 AAAA-AAAAAAGAAAAAAAATA
2878161 AAAAAAAA
1 AAAAAAAA
2878169 GGAAAGGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 9 0.35
23 13 0.50
ACGTcount: A:0.83, C:0.06, G:0.08, T:0.04
Consensus pattern (21 bp):
AAAAAAAAAAGAAAAAAAATA
Found at i:2882018 original size:20 final size:20
Alignment explanation
Indices: 2881993--2882138 Score: 150
Period size: 20 Copynumber: 6.8 Consensus size: 20
2881983 CTGCCAAGGA
2881993 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2882013 AATGTATCGATACATTGA-TC
1 AATGTATCGATACATT-ATTC
** *
2882033 TTTGTATCAATACATCTCGAATTTTTACCC
1 AATGTATCGATACAT-T---A---TT---C
2882063 AGATGTATCGATACATTATTC
1 A-ATGTATCGATACATTATTC
2882084 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2882104 AATGTATCGATACATTATTC
1 AATGTATCGATACATTATTC
2882124 AATGTATCGATACAT
1 AATGTATCGATACAT
2882139 GCATGCAAAT
Statistics
Matches: 107, Mismatches: 7, Indels: 24
0.78 0.05 0.17
Matches are distributed among these distances:
20 84 0.79
21 4 0.04
23 1 0.01
24 2 0.02
27 2 0.02
30 2 0.02
31 12 0.11
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (20 bp):
AATGTATCGATACATTATTC
Found at i:2885662 original size:20 final size:19
Alignment explanation
Indices: 2885639--2885712 Score: 78
Period size: 19 Copynumber: 3.7 Consensus size: 19
2885629 CACACCCAGA
*
2885639 TGTATCGATACATGCTGCTT
1 TGTATCGATACATG-TGCAT
* *
2885659 TGTATCAATACATGTTCAT
1 TGTATCGATACATGTGCAT
2885678 TGTATCGATACATG-GACAAAT
1 TGTATCGATACATGTG-C--AT
2885699 TGTATCGATACATG
1 TGTATCGATACATG
2885713 AAACTGGCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.37
20 13 0.28
21 16 0.35
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATGTGCAT
Found at i:2885767 original size:20 final size:20
Alignment explanation
Indices: 2885742--2885794 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
2885732 TATCACTATT
*
2885742 TGTATCGATACATGATA-CAA
1 TGTATCGATACATGA-AGAAA
*
2885762 TGTATCGATGCATGAAGAAA
1 TGTATCGATACATGAAGAAA
2885782 TGTATCGATACAT
1 TGTATCGATACAT
2885795 AGCTTGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (20 bp):
TGTATCGATACATGAAGAAA
Found at i:2893450 original size:13 final size:13
Alignment explanation
Indices: 2893432--2893457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2893422 GTAGCTAAAC
2893432 TTGTATCGATACA
1 TTGTATCGATACA
2893445 TTGTATCGATACA
1 TTGTATCGATACA
2893458 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2897000 original size:199 final size:191
Alignment explanation
Indices: 2896646--2897030 Score: 535
Period size: 199 Copynumber: 2.0 Consensus size: 191
2896636 GCACAAGCAA
** *
2896646 TCAAAATTTAATTACTAATGGACAGCAAACTTCTTATTCTGTAGATTCATATAAAATGAAAAAAA
1 TCAAAATTTAATTACTAATGGACAGCAAACTTCTTATTCCATAGATTAATATAAAATGAAAAAAA
*
2896711 ACAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCTTTAATTAATACCAAAACAAGACAAAC
66 AAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCTTTAATTAATACCAAAACAAGACAAAC
* *
2896776 ACTAGGACCAAAATTGCAAACAAAGAA-GTA-ATATTGAGGATTAAAAAGGAAAATCAATC
131 ACTAGGACAAAAATTGCAAACAAAGAATGTATATATTGAAGATTAAAAAGGAAAATCAATC
*
2896835 TCAAAATTTAATTTAC-AAGTGGATAGCAAACTTCTTATTCCATAGATTAATATAAAATGAAAGA
1 TCAAAATTTAA-TTACTAA-TGGACAGCAAACTTCTTATTCCATAGATTAATATAAAAT----G-
2896899 AATAAAAATTAAAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCTTTAATTAATACCAAA
59 -A-AAAAA--AAAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCTTTAATTAATACCAAA
* * * *
2896964 CCAAGACAAATACTAGG-CAAGAAATTGCAAACAAAGAATTTATATATTGAAGATTCAAAAGGAA
120 ACAAGACAAACACTAGGACAA-AAATTGCAAACAAAGAATGTATATATTGAAGATTAAAAAGGAA
2897028 AAT
184 AAT
2897031 TATTCTGCTT
Statistics
Matches: 171, Mismatches: 11, Indels: 16
0.86 0.06 0.08
Matches are distributed among these distances:
189 13 0.08
190 39 0.23
194 1 0.01
196 1 0.01
197 5 0.03
198 2 0.01
199 86 0.50
200 2 0.01
201 22 0.13
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (191 bp):
TCAAAATTTAATTACTAATGGACAGCAAACTTCTTATTCCATAGATTAATATAAAATGAAAAAAA
AAAAAAAGAAATGCAGCACTTAATTATGAAAATAAACCTTTAATTAATACCAAAACAAGACAAAC
ACTAGGACAAAAATTGCAAACAAAGAATGTATATATTGAAGATTAAAAAGGAAAATCAATC
Found at i:2899404 original size:17 final size:17
Alignment explanation
Indices: 2899382--2899475 Score: 59
Period size: 17 Copynumber: 5.2 Consensus size: 17
2899372 GCACGTTTGA
2899382 TTTATTATAATAATTAT
1 TTTATTATAATAATTAT
2899399 TTTATTATAAAATAATTTAAT
1 TTTATTAT--AATAA-TT-AT
* *
2899420 GTGTTA-TATAATTATTTAA
1 -T-TTATTATAA-TAATTAT
*
2899439 TTTATTA-AATATTTAT
1 TTTATTATAATAATTAT
*
2899455 TTTA-TAAAATAATTAAT
1 TTTATTATAATAATT-AT
2899472 TTTA
1 TTTA
2899476 ATTTATAAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.03
16 16 0.25
17 19 0.30
18 3 0.05
19 6 0.10
20 6 0.10
21 4 0.06
22 4 0.06
23 3 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TTTATTATAATAATTAT
Found at i:2899453 original size:16 final size:16
Alignment explanation
Indices: 2899403--2899473 Score: 61
Period size: 16 Copynumber: 4.1 Consensus size: 16
2899393 AATTATTTTA
2899403 TTATAAAATAATTTAATGT
1 TTATAAAAT-ATTTAA--T
*
2899422 GTTATATAATTATTTAAT
1 -TTATA-AAATATTTAAT
* *
2899440 TTATTAAATATTTATT
1 TTATAAAATATTTAAT
*
2899456 TTATAAAATAATTAAT
1 TTATAAAATATTTAAT
2899472 TT
1 TT
2899474 TAATTTATAA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
16 24 0.56
17 4 0.09
18 1 0.02
20 11 0.26
21 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (16 bp):
TTATAAAATATTTAAT
Found at i:2899658 original size:16 final size:16
Alignment explanation
Indices: 2899637--2899667 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2899627 TATTATTATT
2899637 ATTTTATTTAATTTTA
1 ATTTTATTTAATTTTA
*
2899653 ATTTTATTTTATTTT
1 ATTTTATTTAATTTT
2899668 TATAAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATTTAATTTTA
Found at i:2899668 original size:11 final size:11
Alignment explanation
Indices: 2899624--2899670 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
2899614 ATTAAAGTTA
*
2899624 TATTATTATTAT
1 TATT-TTATTTT
2899636 TATTTTA-TTT
1 TATTTTATTTT
* *
2899646 AATTTTAATTT
1 TATTTTATTTT
2899657 TATTTTATTTT
1 TATTTTATTTT
2899668 TAT
1 TAT
2899671 AAAATAATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
10 8 0.27
11 18 0.60
12 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:2899687 original size:5 final size:5
Alignment explanation
Indices: 2899624--2899667 Score: 52
Period size: 5 Copynumber: 8.2 Consensus size: 5
2899614 ATTAAAGTTA
*
2899624 TATTAT TATTAT TATTT TATTT AATTT TAATTT TATTT TATTT T
1 TATT-T TATT-T TATTT TATTT TATTT T-ATTT TATTT TATTT T
2899668 TATAAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
5 20 0.57
6 15 0.43
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (5 bp):
TATTT
Found at i:2900423 original size:18 final size:16
Alignment explanation
Indices: 2900392--2900425 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
2900382 AAAGAAATTC
2900392 AATATTTTAAATATAA
1 AATATTTTAAATATAA
2900408 AATATCTTTAAAATATAA
1 AATAT-TTT-AAATATAA
2900426 TATCTACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 3 0.19
18 8 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
AATATTTTAAATATAA
Found at i:2900427 original size:16 final size:17
Alignment explanation
Indices: 2900392--2900430 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2900382 AAAGAAATTC
2900392 AATAT-TTTAAATATAA
1 AATATCTTTAAATATAA
*
2900408 AATATCTTTAAA-ATAT
1 AATATCTTTAAATATAA
2900424 AATATCT
1 AATATCT
2900431 ACATTAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATCTTTAAATATAA
Found at i:2900857 original size:2 final size:2
Alignment explanation
Indices: 2900852--2900878 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2900842 ACACACACAC
2900852 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2900879 ATAGAGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2901600 original size:16 final size:16
Alignment explanation
Indices: 2901565--2901596 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
2901555 TAACATGATA
2901565 TTATTTGTATATATTT
1 TTATTTGTATATATTT
2901581 TTATTT-TATA-ATTT
1 TTATTTGTATATATTT
2901595 TT
1 TT
2901597 TTATGTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 4 0.25
16 6 0.38
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
TTATTTGTATATATTT
Found at i:2902768 original size:75 final size:74
Alignment explanation
Indices: 2902638--2902836 Score: 211
Period size: 75 Copynumber: 2.6 Consensus size: 74
2902628 TAGGAGTCAT
* * *
2902638 GTAGAACTTTCATGTCACACATATACTTTAA-AGCATTTTAGTCATTTCACTTTAAAATGGAGTC
1 GTAGAACTTTCATGT--CACATATAC-TTAAGGGCATTTTAGTCATTTTACCTTAAAATGGAGTC
2902702 TTGTAGGGTCACC
63 TTGTAGGGTC-CC
* * * ** * *
2902715 TTAGAACTTTCACGTCACATGTACTTAAGGGCATTTTAGTCATTTTACCTTAAAATTTAGTTTTT
1 GTAGAACTTTCATGTCACATATACTTAAGGGCATTTTAGTCATTTTACCTTAAAATGGAGTCTTG
*
2902780 TAGGGTCGC
66 TAGGGTCCC
* * *
2902789 GTATGAACTTTCATTTCACATATACCTTAAGGGAATGTTAGTCATTTT
1 GTA-GAACTTTCATGTCACATATA-CTTAAGGGCATTTTAGTCATTTT
2902837 CGAGTCCCTG
Statistics
Matches: 102, Mismatches: 17, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
74 7 0.07
75 61 0.60
76 21 0.21
77 13 0.13
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.40
Consensus pattern (74 bp):
GTAGAACTTTCATGTCACATATACTTAAGGGCATTTTAGTCATTTTACCTTAAAATGGAGTCTTG
TAGGGTCCC
Found at i:2905156 original size:165 final size:161
Alignment explanation
Indices: 2904985--2905449 Score: 503
Period size: 165 Copynumber: 2.8 Consensus size: 161
2904975 ACTAGTTTTA
* * *
2904985 AAAAATTCCTTTTA-TTTCATGAA-TTTTTCATTTTTCCTTAAAATTATCCTGTTTTTGAAATAC
1 AAAAATT--TTTTATTTTCAT-AAGTTTTTCATTTTTCTTTGAAATT-TCCTGTTTTCGAAATAC
2905048 GGAGTTTGCTACTCCGTAAATGTTTTCGAGGGGATTTTTCTTATTTTATAAATTTTAAAATTCAT
62 GGAGTTTGCTACTCCGTAAATGTTTTC-AGGGGATTTTTCTTATTTTATAAATTTTAAAATTCAT
* *
2905113 CAAATATCATCATTTAATTTATAGTGAATCAACTTTG
126 CAAATAT-ATCATTTAATTCATAGTAAATCAACTTTG
* ** * *
2905150 AAAAATTTATTTATTTTCATAAGTTTTTCCTTTTTTCTTTGAAATCCCCCTATTTCCGAAATACG
1 AAAAATTT-TTTATTTTCATAAGTTTTT-CATTTTTCTTTGAAAT-TTCCTGTTTTCGAAATACG
* * *
2905215 GAGTTTGTTACTTCGTAAATGTTTTCAGGGGGATTTTT-TT-TGTTTATAATTTTTAAAATTCAT
63 GAGTTTGCTACTCCGTAAATGTTTTCA-GGGGATTTTTCTTAT-TTTATAAATTTTAAAATTCAT
* **
2905278 CAAATA-ATCATTTAATTCATAGTAAATTAGTTTTG
126 CAAATATATCATTTAATTCATAGTAAATCAACTTTG
2905313 -AAAATTTAATTTATTTTCATAAGTTTTTCATTTTTTTCTTTGAAATTTCCTTGTTTTCGAAATA
1 AAAAATTT--TTTATTTTCATAAGTTTTTCA--TTTTTCTTTGAAATTTCC-TGTTTTCGAAATA
* * * * * * *
2905377 TGGAGTTTTCTACTCCGAAAATATTTTCAGAGGGATTTTTCTCAGTTTA-AAATTTTTAAAATCC
61 CGGAGTTTGCTACTCCGTAAATGTTTTCAG-GGGATTTTTCTTATTTTATAAA-TTTTAAAATTC
*
2905441 ATCTAATAT
124 ATCAAATAT
2905450 TCTCATTAGA
Statistics
Matches: 252, Mismatches: 32, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
162 8 0.03
163 48 0.19
164 66 0.26
165 69 0.27
166 61 0.24
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (161 bp):
AAAAATTTTTTATTTTCATAAGTTTTTCATTTTTCTTTGAAATTTCCTGTTTTCGAAATACGGAG
TTTGCTACTCCGTAAATGTTTTCAGGGGATTTTTCTTATTTTATAAATTTTAAAATTCATCAAAT
ATATCATTTAATTCATAGTAAATCAACTTTG
Found at i:2906019 original size:12 final size:12
Alignment explanation
Indices: 2906002--2906043 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
2905992 CAAGTAGAAG
2906002 AAAAGAGAAAAA
1 AAAAGAGAAAAA
*
2906014 AAAAGAAAGAAAA
1 AAAAGAGA-AAAA
2906027 AAAAGAGAAAAA
1 AAAAGAGAAAAA
2906039 GAAAA
1 -AAAA
2906044 ATTAAGCCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAGAAAAA
Found at i:2906021 original size:17 final size:17
Alignment explanation
Indices: 2905999--2906044 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
2905989 TAGCAAGTAG
2905999 AAGAAAAGAGAAAAAAA
1 AAGAAAAGAGAAAAAAA
2906016 AAG-AAAGA-AAAAAAA
1 AAGAAAAGAGAAAAAAA
*
2906031 GAGAAAA-AGAAAAA
1 AAGAAAAGAGAAAAA
2906045 TTAAGCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 10 0.38
16 13 0.50
17 3 0.12
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAGAAAAGAGAAAAAAA
Found at i:2906026 original size:14 final size:15
Alignment explanation
Indices: 2906007--2906036 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2905997 AGAAGAAAAG
2906007 AGAAAAAAAA-AGAA
1 AGAAAAAAAAGAGAA
2906021 AGAAAAAAAAGAGAA
1 AGAAAAAAAAGAGAA
2906036 A
1 A
2906037 AAGAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AGAAAAAAAAGAGAA
Found at i:2906028 original size:16 final size:17
Alignment explanation
Indices: 2906000--2906044 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
2905990 AGCAAGTAGA
2906000 AGAAAAGAGAAAAAAAA-
1 AGAAAA-AGAAAAAAAAG
2906017 AG--AAAGAAAAAAAAG
1 AGAAAAAGAAAAAAAAG
2906032 AGAAAAAGAAAAA
1 AGAAAAAGAAAAA
2906045 TTAAGCCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
17 11 0.44
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AGAAAAAGAAAAAAAAG
Found at i:2906029 original size:15 final size:16
Alignment explanation
Indices: 2906003--2906044 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
2905993 AAGTAGAAGA
2906003 AAAGAGAAAAAAAAAG
1 AAAGAGAAAAAAAAAG
*
2906019 AAAGA-AAAAAAAGAG
1 AAAGAGAAAAAAAAAG
*
2906034 AAAAAGAAAAA
1 AAAGAGAAAAA
2906045 TTAAGCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAGAGAAAAAAAAAG
Found at i:2906112 original size:12 final size:12
Alignment explanation
Indices: 2906095--2906131 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
2906085 TCTTCTTATT
2906095 TTGCTTTCTTTC
1 TTGCTTTCTTTC
2906107 TTGCTTTCTTTC
1 TTGCTTTCTTTC
*
2906119 TTG-TTTATTTC
1 TTGCTTTCTTTC
2906130 TT
1 TT
2906132 CATGATGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.03, C:0.19, G:0.08, T:0.70
Consensus pattern (12 bp):
TTGCTTTCTTTC
Found at i:2908866 original size:20 final size:20
Alignment explanation
Indices: 2908841--2908878 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
2908831 TTTAACACAG
2908841 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2908861 ATGTATCGATACATTCTT
1 ATGTATCGATACATTCTT
2908879 TCGTTTTACG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2924117 original size:28 final size:27
Alignment explanation
Indices: 2924062--2924673 Score: 437
Period size: 28 Copynumber: 22.1 Consensus size: 27
2924052 CTAGAACATT
* * * *
2924062 CATCTCTTGAAAGCCCATAGGTCAGTGG
1 CATCT-TTCAAAGCCCACAAGTTAGTGG
*
2924090 CATGCTTTCAAAGTCCACAAGTTAGTGG
1 CAT-CTTTCAAAGCCCACAAGTTAGTGG
*
2924118 CATCCTTTCAAAGCCCACAAGTCAGTGG
1 CAT-CTTTCAAAGCCCACAAGTTAGTGG
* * *
2924146 CATCCTTCAAAG--CTC--G-CAGTGG
1 CATCTTTCAAAGCCCACAAGTTAGTGG
* * *
2924168 CACCTCTTCAGAGCCCACAAGTTAATGG
1 CATCT-TTCAAAGCCCACAAGTTAGTGG
*
2924196 CATCCTTTCAAAGTCCACAAGTTAGTGG
1 CAT-CTTTCAAAGCCCACAAGTTAGTGG
* * *
2924224 CACCTCTTCACAGCCCACAAGTCAGTGG
1 CATCT-TTCAAAGCCCACAAGTTAGTGG
*
2924252 CATCTTTTCAAAGCCCATAAGTTAGTGG
1 CATC-TTTCAAAGCCCACAAGTTAGTGG
* *
2924280 CATCTCTTCAAAGCCCATAGGTTAGTGG
1 CATCT-TTCAAAGCCCACAAGTTAGTGG
* * * *
2924308 TATCTCTTCAAATCCCATAGGTTAGTGG
1 CATCT-TTCAAAGCCCACAAGTTAGTGG
2924336 CATCCTTTCAAAGCCCACAAGTTAGTGG
1 CAT-CTTTCAAAGCCCACAAGTTAGTGG
*
2924364 CATCTTTTCAAAGCCCACAAGTCAGTGG
1 CATC-TTTCAAAGCCCACAAGTTAGTGG
*
2924392 CATCTTTTCAAAGCCCACAAGTAAGTGG
1 CATC-TTTCAAAGCCCACAAGTTAGTGG
* * *
2924420 CACCCTTTTCAAAGCTCACAAGTCAGTGG
1 CA-TC-TTTCAAAGCCCACAAGTTAGTGG
* * *
2924449 CATCTTTTCAAAGCCTATAAGTCAGTGG
1 CATC-TTTCAAAGCCCACAAGTTAGTGG
* * **
2924477 AATCTTTTCAAAGCCTACAAGCAAGTGG
1 CATC-TTTCAAAGCCCACAAGTTAGTGG
* ** *
2924505 CACCCTTTTTAAGCCCACAAG-TCGATGG
1 CA-TCTTTCAAAGCCCACAAGTTAG-TGG
* * **
2924533 CACCCTTCTAAAGCCCACAAGCAAGTGG
1 CATCTTTC-AAAGCCCACAAGTTAGTGG
* **
2924561 CATCCTTT-TAAGCCCACAAGTCGGTGG
1 CAT-CTTTCAAAGCCCACAAGTTAGTGG
* * *
2924588 CACCCTTCCAAAGCCCACAAGTAAGTGG
1 CA-TCTTTCAAAGCCCACAAGTTAGTGG
* * ** **
2924616 TACCCTTTTTAAGCCCACAAGTCGGTGG
1 CA-TCTTTCAAAGCCCACAAGTTAGTGG
* * **
2924644 CACCCTTCCAAAGCCCACAAGCAAGTGG
1 CA-TCTTTCAAAGCCCACAAGTTAGTGG
2924672 CA
1 CA
2924674 CCCTTTTTAA
Statistics
Matches: 479, Mismatches: 84, Indels: 42
0.79 0.14 0.07
Matches are distributed among these distances:
22 9 0.02
23 7 0.01
25 4 0.01
27 38 0.08
28 384 0.80
29 37 0.08
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (27 bp):
CATCTTTCAAAGCCCACAAGTTAGTGG
Found at i:2924232 original size:56 final size:56
Alignment explanation
Indices: 2924071--2924706 Score: 530
Period size: 56 Copynumber: 11.5 Consensus size: 56
2924061 TCATCTCTTG
* * * * *
2924071 AAAGCCCATAGGTCAGTGGCATGCTTTCAAAGTCCACAAGTTAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCA-CCTTTTC
* * *
2924127 AAAGCCCACAAGTCAGTGGCATCC-TTCAAAG--CTC--G-CAGTGGCACCTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCTTTTC
* * * * * *
2924177 AGAGCCCACAAGTTAATGGCATCCTTTCAAAGTCCACAAGTTAGTGGCACCTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCTTTTC
* * * * * *
2924233 ACAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCATAAGTTAGTGGCATCTCTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCTTTTC
* * * * * * * *
2924289 AAAGCCCATAGGTTAGTGGTAT-CTCTTCAAATCCCATAGGTTAGTGGCATCC-TTTC
1 AAAGCCCACAAGTCAGTGGCATCCT-TTCAAAGCCCACAAGTAAGTGGCA-CCTTTTC
* * * *
2924345 AAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCTTTTC
* * * * *
2924401 AAAGCCCACAAGTAAGTGGCACCCTTTTCAAAGCTCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTAAGTGGCACCTTTTC
* * * * * *
2924458 AAAGCCTATAAGTCAGTGGAATCTTTTCAAAGCCTACAAGCAAGTGGCACCCTTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCA-CCTTTTC
* * *
2924514 TAAGCCCACAAGTC-GATGGCA-CCCTTCTAAAGCCCACAAGCAAGTGGCATCCTTTT-
1 AAAGCCCACAAGTCAG-TGGCATCCTTTC-AAAGCCCACAAGTAAGTGGCA-CCTTTTC
* * * *
2924570 -AAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGTAAGTGGTACCCTTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCA-CCTTTTC
* * * * *
2924625 TAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCAAGTGGCACCCTTTT-
1 AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCA-CCTTTTC
* * * * *
2924681 TAAGCTCATAAGTCGGTGGCACCCTT
1 AAAGCCCACAAGTCAGTGGCATCCTT
2924707 CTAAAGTCCA
Statistics
Matches: 493, Mismatches: 69, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
49 2 0.00
50 31 0.06
51 8 0.02
53 4 0.01
55 58 0.12
56 334 0.68
57 56 0.11
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTAAGTGGCACCTTTTC
Found at i:2924290 original size:84 final size:84
Alignment explanation
Indices: 2924062--2924680 Score: 543
Period size: 84 Copynumber: 7.4 Consensus size: 84
2924052 CTAGAACATT
* * * * * *
2924062 CATCTCTTGAAAGCCCATAGGTCAGTGGCATGC-TTTCAAAGTCCACAAGTTAGTGGCATCCTTT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCCCTT
2924126 CAAAGCCCACAAGTCAGTGG
65 CAAAGCCCACAAGTCAGTGG
* * * * *
2924146 CATC-CTTCAAAG--CTC--G-CAGTGGCACCTCTTCAGAGCCCACAAGTTAATGGCATCCTTTC
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCCTTC
* *
2924205 AAAGTCCACAAGTTAGTGG
66 AAAGCCCACAAGTCAGTGG
* * * * *
2924224 CACCTCTTCACAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCATAAGTTAGTGGCATCTCTTC
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCCTTC
* * *
2924289 AAAGCCCATAGGTTAGTGG
66 AAAGCCCACAAGTCAGTGG
* * * * * **
2924308 TATCTCTTCAAATCCCATAGGTTAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCATCTTTT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCCCTT
2924372 CAAAGCCCACAAGTCAGTGG
65 CAAAGCCCACAAGTCAGTGG
* * * * **
2924392 CATCTTTTCAAAGCCCACAAGTAAGTGGCACCCTTTTCAAAGCTCACAAGTCAGTGGCATCTTTT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCCCTT
* *
2924457 CAAAGCCTATAAGTCAGTGG
65 CAAAGCCCACAAGTCAGTGG
* * * * *
2924477 AATCTTTTCAAAGCCTACAAG-CAAGTGGCACCCTTTT-TAAGCCCACAAG-TCGATGGCA-CCC
1 CATCTCTTCAAAGCCCACAAGTC-AGTGGCA-CCTTTTCAAAGCCCACAAGTTAG-TGGCATCCC
2924538 TTCTAAAGCCCACAAG-CAAGTGG
63 TTC-AAAGCCCACAAGTC-AGTGG
** * * * * *
2924561 CATC-CTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGTAAGTGGTA-CCCTTT
1 CATCTCTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCC-TT
** *
2924624 TTAAGCCCACAAGTCGGTGG
65 CAAAGCCCACAAGTCAGTGG
*
2924644 CA-CCCTTCCAAAGCCCACAAG-CAAGTGGCACCCTTTT
1 CATCTCTT-CAAAGCCCACAAGTC-AGTGGCA-CCTTTT
2924681 TAAGCTCATA
Statistics
Matches: 435, Mismatches: 78, Indels: 43
0.78 0.14 0.08
Matches are distributed among these distances:
77 1 0.00
78 56 0.13
79 8 0.02
81 3 0.01
82 5 0.01
83 71 0.16
84 206 0.47
85 85 0.20
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.25
Consensus pattern (84 bp):
CATCTCTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTTAGTGGCATCCCTTC
AAAGCCCACAAGTCAGTGG
Found at i:2924707 original size:56 final size:56
Alignment explanation
Indices: 2924331--2924763 Score: 410
Period size: 56 Copynumber: 7.6 Consensus size: 56
2924321 CCCATAGGTT
* ** ** * * *
2924331 AGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAGCCCACAAGTC-
1 AGTGGCACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAG-CA
* * ** * *
2924387 AGTGGCA-TCTTTTCAAAGCCCACAAGTAAGTGGCACCCTTTTCAAAGCTCACAAGTC-
1 AGTGGCACCCTTTT-TAAGCCCACAAGTCGGTGGCACCC-TTCCAAAGCCCACAAG-CA
* * * * * * * * * *
2924444 AGTGGCA-TCTTTTCAAAGCCTATAAGTCAGTGGAATCTTTTCAAAGCCTACAAGCA
1 AGTGGCACCCTTTT-TAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCA
* *
2924500 AGTGGCACCCTTTTTAAGCCCACAAGTCGATGGCACCCTTCTAAAGCCCACAAGCA
1 AGTGGCACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCA
* *
2924556 AGTGGCATCC-TTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGTA
1 AGTGGCACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCA
*
2924611 AGTGGTACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCA
1 AGTGGCACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCA
* * * *
2924667 AGTGGCACCCTTTTTAAGCTCATAAGTCGGTGGCACCCTTCTAAAGTCCACACAGGTC-
1 AGTGGCACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAG-CC-CACAAG-CA
* *
2924725 GGTGGCAACCTTTTTCAAGCCTACACAAGTCGGTGGCAC
1 AGTGGCACCCTTTTT-AAGCC--CACAAGTCGGTGGCAC
2924764 TTATTTTTAA
Statistics
Matches: 324, Mismatches: 42, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
55 55 0.17
56 175 0.54
57 56 0.17
58 18 0.06
59 5 0.02
61 15 0.05
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (56 bp):
AGTGGCACCCTTTTTAAGCCCACAAGTCGGTGGCACCCTTCCAAAGCCCACAAGCA
Found at i:2924757 original size:31 final size:31
Alignment explanation
Indices: 2924367--2924803 Score: 128
Period size: 28 Copynumber: 15.2 Consensus size: 31
2924357 TTAGTGGCAT
* * *
2924367 CTTTTCAAAGCC--CACAAGTCAGTGGC-AT
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* ** *
2924395 CTTTTCAAAGCC--CACAAGTAAGTGGCACC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* * *
2924424 CTTTTCAAAG-CT-CACAAGTCAGTGGC-AT
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* * * *
2924452 CTTTTCAAAGCCT--ATAAGTCAGTGG-AAT
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* * *
2924480 CTTTTCAAAGCCT--ACAAG-CAAGTGGCACC
1 CTTTTTAAAGCCTACACAAGTC-GGTGGCAAC
*
2924509 CTTTTT-AAGCC--CACAAGTCGATGGC-AC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* * * *
2924536 CCTTCTAAAGCC--CACAAG-CAAGTGGCATC
1 CTTTTTAAAGCCTACACAAGTC-GGTGGCAAC
2924565 C-TTTT-AAGCC--CACAAGTCGGTGGC-AC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* ** ** * *
2924591 CCTTCCAAAGCC--CACAAGTAAGTGGTACC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
2924620 CTTTTT-AAGCC--CACAAGTCGGTGGC-AC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* ** * *
2924647 CCTTCCAAAGCC--CACAAG-CAAGTGGCACC
1 CTTTTTAAAGCCTACACAAGTC-GGTGGCAAC
*
2924676 CTTTTT-AAG-CT-CATAAGTCGGTGGC-AC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* * *
2924703 CCTTCTAAAGTCC-ACACAGGTCGGTGGCAAC
1 CTTTTTAAAG-CCTACACAAGTCGGTGGCAAC
*
2924734 CTTTTTCAAGCCTACACAAGTCGGTGGC-AC
1 CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
* * **
2924764 TTATTTTTAAAGGCTCACACAAGTTAGTGGCAAC
1 --CTTTTTAAAGCCT-ACACAAGTCGGTGGCAAC
*
2924798 CCTTTT
1 CTTTTT
2924804 CAAAACACCA
Statistics
Matches: 318, Mismatches: 61, Indels: 56
0.73 0.14 0.13
Matches are distributed among these distances:
26 2 0.01
27 36 0.11
28 168 0.53
29 43 0.14
30 17 0.05
31 23 0.07
32 14 0.04
33 13 0.04
34 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (31 bp):
CTTTTTAAAGCCTACACAAGTCGGTGGCAAC
Found at i:2925646 original size:20 final size:20
Alignment explanation
Indices: 2925621--2925697 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
2925611 TTTTACCCAG
2925621 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
* *
2925641 ATGTATCGATACA-TGTACGA
1 ATGTATCGATACATTCTTC-A
*
2925661 ATGTATCGATACATTCTTTA
1 ATGTATCGATACATTCTTCA
*
2925681 ATGTATCGATATATTCT
1 ATGTATCGATACATTCT
2925698 ATCGTTTTAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 3 0.06
20 44 0.90
21 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2930011 original size:32 final size:32
Alignment explanation
Indices: 2929965--2930026 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
2929955 ACAGTAAATG
*
2929965 TATCGATACATAAGTTTTGTATCAATACAATA
1 TATCAATACATAAGTTTTGTATCAATACAATA
2929997 TATCAATACATAAGTTTTGTATCAATACAA
1 TATCAATACATAAGTTTTGTATCAATACAA
2930027 AACTACATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.42, C:0.13, G:0.08, T:0.37
Consensus pattern (32 bp):
TATCAATACATAAGTTTTGTATCAATACAATA
Found at i:2930021 original size:19 final size:19
Alignment explanation
Indices: 2929963--2930025 Score: 66
Period size: 19 Copynumber: 3.6 Consensus size: 19
2929953 AAACAGTAAA
*
2929963 TGTATCGATACATAAGTTT
1 TGTATCAATACATAAGTTT
2929982 TGTATCAATAC--AA----
1 TGTATCAATACATAAGTTT
*
2929995 TATATCAATACATAAGTTT
1 TGTATCAATACATAAGTTT
2930014 TGTATCAATACA
1 TGTATCAATACA
2930026 AAACTACATT
Statistics
Matches: 35, Mismatches: 3, Indels: 12
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.29
15 2 0.06
17 2 0.06
19 21 0.60
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.38
Consensus pattern (19 bp):
TGTATCAATACATAAGTTT
Found at i:2936692 original size:15 final size:16
Alignment explanation
Indices: 2936666--2936706 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
2936656 AGTTAAAAGC
2936666 AAAAGCACAAAAAATG-
1 AAAAGCA-AAAAAATGT
2936682 AAAAG-AAAAAAATGT
1 AAAAGCAAAAAAATGT
2936697 AAAAGCAAAA
1 AAAAGCAAAA
2936707 TCAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
16 9 0.39
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAGCAAAAAAATGT
Found at i:2937028 original size:56 final size:56
Alignment explanation
Indices: 2936944--2937064 Score: 179
Period size: 56 Copynumber: 2.1 Consensus size: 56
2936934 AACAACACAA
*
2936944 AAAACAAAAACCTCAGTGAAACATAAGCTTTAAGACTCACCCAATCCTGGTCACCAC
1 AAAA-AAAAACCTCAGTGAAACATAAGCTTCAAGACTCACCCAATCCTGGTCACCAC
* * * * *
2937001 AAAAAAAAACCTCTGTGAGACATAAGCTTCGAGACTCACCCAATCTTGGTCACCAT
1 AAAAAAAAACCTCAGTGAAACATAAGCTTCAAGACTCACCCAATCCTGGTCACCAC
2937057 AAAAAAAA
1 AAAAAAAA
2937065 CCTAAATTTC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 54 0.93
57 4 0.07
ACGTcount: A:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (56 bp):
AAAAAAAAACCTCAGTGAAACATAAGCTTCAAGACTCACCCAATCCTGGTCACCAC
Found at i:2938081 original size:34 final size:32
Alignment explanation
Indices: 2938038--2938305 Score: 299
Period size: 34 Copynumber: 8.0 Consensus size: 32
2938028 CTATGGCACC
*
2938038 CTTTTAAGTCCACAACTTCATGGCACCTTTTT
1 CTTTTAAGTCCACAACTTCGTGGCACCTTTTT
* *
2938070 CTTTTCAAAGTCCACAACTCCGTGGCACTTTTTTT
1 CTTTT--AAGTCCACAACTTCGTGGCAC-CTTTTT
*
2938105 CCTTTTAAGTCCACAACTTTGTGGCACCTTTTT
1 -CTTTTAAGTCCACAACTTCGTGGCACCTTTTT
2938138 CGTTTTAAGTCCA-AGAC-TCTGTGGCACCTTTTT
1 C-TTTTAAGTCCACA-ACTTC-GTGGCACCTTTTT
*
2938171 CTTTTCAAAGTCCACAACTCCGTGGCACCTTTTTT
1 CTTTT--AAGTCCACAACTTCGTGGCACC-TTTTT
2938206 CTTTTTAAGTCCACAAC-TCTGTGGCACCTTTTT
1 C-TTTTAAGTCCACAACTTC-GTGGCACCTTTTT
* * *
2938239 CTTTTCAAAGCCCACAACTCCATGGCACCTTTTTT
1 CTTTT--AAGTCCACAACTTCGTGGCACC-TTTTT
2938274 CCTTTTAAGTCCACAACTTCGTGGCACCTTTT
1 -CTTTTAAGTCCACAACTTCGTGGCACCTTTT
2938306 CCTTGTAAAG
Statistics
Matches: 202, Mismatches: 15, Indels: 37
0.80 0.06 0.15
Matches are distributed among these distances:
32 16 0.08
33 43 0.21
34 110 0.54
35 19 0.09
36 14 0.07
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (32 bp):
CTTTTAAGTCCACAACTTCGTGGCACCTTTTT
Found at i:2938214 original size:101 final size:101
Alignment explanation
Indices: 2938038--2938305 Score: 375
Period size: 101 Copynumber: 2.7 Consensus size: 101
2938028 CTATGGCACC
* * *
2938038 CTTTT-AAGTCCACAACTTCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTTT
1 CTTTTAAAGCCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
*
2938102 TTTCCTTTTAAGTCCACAACTTTGTGGCACCTTTTT
66 TTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* **
2938138 CGTTTT-AAGTCCA-AGACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCT
1 C-TTTTAAAGCCCACA-ACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCT
*
2938201 TTTTTCTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
64 TTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
*
2938239 CTTTTCAAAGCCCACAACTCCATGGCACCTTTTTTCCTTTT--AAGTCCACAACTTCGTGGCACC
1 CTTTT-AAAGCCCACAACTCCATGGCACC-TTTTT-CTTTTCAAAGTCCACAACTCCGTGGCACC
2938302 TTTT
63 TTTT
2938306 CCTTGTAAAG
Statistics
Matches: 151, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
100 6 0.04
101 92 0.61
102 42 0.28
103 6 0.04
104 5 0.03
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (101 bp):
CTTTTAAAGCCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
TTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
Found at i:2938355 original size:32 final size:32
Alignment explanation
Indices: 2938312--2938623 Score: 332
Period size: 32 Copynumber: 9.7 Consensus size: 32
2938302 TTTTCCTTGT
*
2938312 AAAGCCTACACAAG-CTGGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTC-GGTGGCAACCCTTCTC
*
2938344 AAAGCCCACACAAGTCGATGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* ** *
2938376 AAAGCCCGCACAAGTTAGTGGCAA-CCTTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* * *
2938407 TAAAGCCCACACAAG-CTAGTGGTAACCTTTCTC
1 -AAAGCCCACACAAGTC-GGTGGCAACCCTTCTC
* *
2938440 AAAGCCCATACAAGTCGGTGGTAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
**
2938472 AAAGTTCACACAAGTCGGTGGCAACCTCTTCT-
1 AAAGCCCACACAAGTCGGTGGCAACC-CTTCTC
*
2938504 AAAGCCCACACAAG-CTAGTGGCAACCCCTTCT-
1 AAAGCCCACACAAGTC-GGTGGCAA-CCCTTCTC
* *
2938536 AGAGCCCACACAAGTCGGTGGCAACCCCTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* *
2938568 TAAAGCCCACACAAGTCGGTGGCAATCC-TCTTA
1 -AAAGCCCACACAAGTCGGTGGCAACCCTTC-TC
*
2938601 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
2938624 TCTTCTTCTG
Statistics
Matches: 239, Mismatches: 29, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
31 13 0.05
32 185 0.77
33 41 0.17
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:2938441 original size:96 final size:96
Alignment explanation
Indices: 2938311--2938623 Score: 423
Period size: 96 Copynumber: 3.2 Consensus size: 96
2938301 CTTTTCCTTG
* * *
2938311 TAAAGCCTACACAAGCTGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTC
1 TAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* ** *
2938376 AAAGCCCGCACAAGTTAGTGGCAACCTTTTC
66 AAAGCCCACACAAGTCGGTGGCAACCTCTTC
* * * *
2938407 TAAAGCCCACACAAGCTAGTGGTAACCTTTCTCAAAGCCCATACAAGTCGGTGGTAACCCTTCTC
1 TAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
**
2938472 AAAGTTCACACAAGTCGGTGGCAACCTCTTC
66 AAAGCCCACACAAGTCGGTGGCAACCTCTTC
* *
2938503 TAAAGCCCACACAAGCTAGTGGCAACCCCTTCT-AGAGCCCACACAAGTCGGTGGCAACCCCTCT
1 TAAAGCCCACACAAGCTAGTGGCAA-CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
2938567 CTAAAGCCCACACAAGTCGGTGGCAATCCTCTT-
65 C-AAAGCCCACACAAGTCGGTGGCAA-CCTCTTC
* * *
2938600 AAAAGCCCACACAAGTTGGTGGCA
1 TAAAGCCCACACAAGCTAGTGGCA
2938624 TCTTCTTCTG
Statistics
Matches: 190, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
96 135 0.71
97 49 0.26
98 6 0.03
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (96 bp):
TAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
AAAGCCCACACAAGTCGGTGGCAACCTCTTC
Found at i:2938763 original size:52 final size:53
Alignment explanation
Indices: 2938685--2938929 Score: 234
Period size: 52 Copynumber: 4.7 Consensus size: 53
2938675 TCAAACCATT
* *
2938685 CTTTC-TAAGTCGAATGTCATTGGCCTTGAATCAGCATATTGGCACCTTTTG-
1 CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* *
2938736 CTTTCTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCA-CTTTTGA
1 CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* * ** * * *
2938788 C-ATCTTTAAATCTGATATCATTGGTCTTGAATCAGCATATTGGCATC-TTTAA
1 CTTTC-TTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* * *** ** *
2938840 CATTCTTAAGCCCAATATTGCTGGCCTTGAATCAGCACGTTGGCACC-TTTGT
1 CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* *
2938892 CATTT-TTAAGTCCAATATCATTGGGCGTGAATCAGCAT
1 C-TTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCAT
2938930 CTTTAAGTCC
Statistics
Matches: 154, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
51 13 0.08
52 136 0.88
53 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
Found at i:2938822 original size:104 final size:104
Alignment explanation
Indices: 2938701--2938929 Score: 287
Period size: 104 Copynumber: 2.2 Consensus size: 104
2938691 AAGTCGAATG
** * *
2938701 TCATTGGCCTTGAATCAGCATATTGGCACCTTTTGCTTTCTTAAGTCCAATATCACTAGCCTTGA
1 TCATTGGCCTTGAATCAGCATATTGGCACCTTTAACATTCTTAAGCCCAATATCACTAGCCTTGA
* * **
2938766 ATCAGCATATTGGCACTTTTGACATCTTTAAATCTGATA
66 ATCAGCACATTGGCACCTTTGACATCTTTAAATCCAATA
* * ** *
2938805 TCATTGGTCTTGAATCAGCATATTGGCATCTTTAACATTCTTAAGCCCAATATTGCTGGCCTTGA
1 TCATTGGCCTTGAATCAGCATATTGGCACCTTTAACATTCTTAAGCCCAATATCACTAGCCTTGA
* * * *
2938870 ATCAGCACGTTGGCACCTTTGTCATTTTTAAGTCCAATA
66 ATCAGCACATTGGCACCTTTGACATCTTTAAATCCAATA
* *
2938909 TCATTGGGCGTGAATCAGCAT
1 TCATTGGCCTTGAATCAGCAT
2938930 CTTTAAGTCC
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (104 bp):
TCATTGGCCTTGAATCAGCATATTGGCACCTTTAACATTCTTAAGCCCAATATCACTAGCCTTGA
ATCAGCACATTGGCACCTTTGACATCTTTAAATCCAATA
Found at i:2938985 original size:52 final size:52
Alignment explanation
Indices: 2938927--2939249 Score: 231
Period size: 52 Copynumber: 6.1 Consensus size: 52
2938917 CGTGAATCAG
* * *
2938927 CATCTTTAAGTCCAATATCGTTGGCCGTGAATCAATACATTGGCACCTATGT
1 CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTTGT
* * * * * * *
2938979 CATCTTTAAG-CCTAATATCGCTGGCCTTGAATTAGCATATTAGTATCTTTATCATTCCTTT
1 CATCTTTAAGTCC-AATATCGTTGGCCTTGAATCAACACATT-G--GC---A-CCTT--TGT
* * * ** * *
2939040 CATCTTTAAGTCCAATGTC-CTAGCCTTGAATCAACACATTGTTACTTTTTT
1 CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTTGT
* * * * * **
2939091 C-TTTCTTAAGTCCAATATCCTTGGACTTGAATCAGCATATTGGTGCCTTTGT
1 CATCT-TTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTTGT
* * *
2939143 CATCTTTAACTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTGT
1 CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTTGT
* * * *
2939195 CATCTTTAAG-CCTAATATCGTTAGCCTTGAATCAGCATATTGGCACCTTTAT
1 CATCTTTAAGTCC-AATATCGTTGGCCTTGAATCAACACATTGGCACCTTTGT
2939247 CAT
1 CAT
2939250 TCTTCTCATC
Statistics
Matches: 215, Mismatches: 41, Indels: 30
0.75 0.14 0.10
Matches are distributed among these distances:
50 2 0.01
51 21 0.10
52 143 0.67
53 6 0.03
54 1 0.00
55 1 0.00
57 1 0.00
58 1 0.00
59 3 0.01
60 17 0.08
61 17 0.08
62 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (52 bp):
CATCTTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTTGT
Found at i:2939010 original size:87 final size:87
Alignment explanation
Indices: 2938845--2939016 Score: 202
Period size: 87 Copynumber: 2.0 Consensus size: 87
2938835 TTTAACATTC
* * * * * *
2938845 TTAAGCCCAATATTGCTGGCCTTGAATCAGCACGTTGGCACCTTTGTCATTTTTAAGTCCAATAT
1 TTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTATGTCATCTTTAAGTCCAATAT
* *
2938910 CATTGGGCGTGAATCAGCATCT
66 CACTGGCCGTGAATCAGCATCT
* * *
2938932 TTAAGTCCAATATCGTTGGCCGTGAATCAATACATTGGCACCTATGTCATCTTTAAG-CCTAATA
1 TTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTATGTCATCTTTAAGTCC-AATA
* * *
2938996 TCGCTGGCCTTGAATTAGCAT
65 TCACTGGCCGTGAATCAGCAT
2939017 ATTAGTATCT
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
86 2 0.03
87 68 0.97
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (87 bp):
TTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTATGTCATCTTTAAGTCCAATAT
CACTGGCCGTGAATCAGCATCT
Found at i:2939289 original size:61 final size:61
Alignment explanation
Indices: 2939194--2939320 Score: 191
Period size: 61 Copynumber: 2.1 Consensus size: 61
2939184 GGCACCTTTG
* * * *
2939194 TCATCTTTAAGCCTAATATCGTTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTCAAGCCTAATATCGCTAGCCGTAAATCAGCATATTGGCACCTTTATCATTCTTC
* *
2939255 TCATCTTCAAGCCTGATATCGCTAGCCGTAAATCAGCATATTGGCACTTTTATCATTCTTC
1 TCATCTTCAAGCCTAATATCGCTAGCCGTAAATCAGCATATTGGCACCTTTATCATTCTTC
*
2939316 GCATC
1 TCATC
2939321 CTTAAGTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (61 bp):
TCATCTTCAAGCCTAATATCGCTAGCCGTAAATCAGCATATTGGCACCTTTATCATTCTTC
Found at i:2939362 original size:60 final size:60
Alignment explanation
Indices: 2939209--2939390 Score: 199
Period size: 60 Copynumber: 3.0 Consensus size: 60
2939199 TTTAAGCCTA
* *
2939209 ATATCGTTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCAT-CTTCAAG-CC
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTT-AAGTCC
* * *
2939268 TGATATCGCTAGCCGTAAATCAGCATATTGGCACTTTTATCATTCTTCGCATCCTTAAGTCC
1 --ATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTTAAGTCC
* * * * * * *
2939330 ATGTCG-TTGACCTTGAATCAGCATATTAGCACTCTTCTCATTCTTATCATCTTTAAGTCC
1 ATATCGCTAG-CCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTTAAGTCC
2939390 A
1 A
2939391 GTGCTGCAGG
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
59 2 0.02
60 48 0.47
61 48 0.47
62 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (60 bp):
ATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTTAAGTCC
Found at i:2941451 original size:13 final size:13
Alignment explanation
Indices: 2941433--2941458 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2941423 TACAGCAAGT
2941433 ATGTATCGATACA
1 ATGTATCGATACA
2941446 ATGTATCGATACA
1 ATGTATCGATACA
2941459 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2943686 original size:21 final size:21
Alignment explanation
Indices: 2943653--2943697 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2943643 TTGCAAGTTG
*
2943653 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2943675 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2943695 AAA
1 AAA
2943698 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2945521 original size:15 final size:15
Alignment explanation
Indices: 2945501--2945531 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2945491 TAAAAATGTC
*
2945501 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2945516 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2945531 C
1 C
2945532 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2947628 original size:13 final size:13
Alignment explanation
Indices: 2947610--2947648 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2947600 ACATTTTTCT
2947610 TTGTATCGATACA
1 TTGTATCGATACA
*
2947623 TTGTATCCATACA
1 TTGTATCGATACA
*
2947636 CTGTATCGATACA
1 TTGTATCGATACA
2947649 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2949529 original size:14 final size:14
Alignment explanation
Indices: 2949510--2949553 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
2949500 AAATAAATTT
2949510 TTGATATGAATTAC
1 TTGATATGAATTAC
*
2949524 TTGATA--AATT-T
1 TTGATATGAATTAC
2949535 TTGATATGAATTAC
1 TTGATATGAATTAC
2949549 TTGAT
1 TTGAT
2949554 TAAGGGGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.24
12 4 0.16
13 4 0.16
14 11 0.44
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (14 bp):
TTGATATGAATTAC
Found at i:2949536 original size:25 final size:25
Alignment explanation
Indices: 2949502--2949553 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2949492 ATATGTGCAA
2949502 ATAAATTTTTGATATGAATTACTTG
1 ATAAATTTTTGATATGAATTACTTG
2949527 ATAAATTTTTGATATGAATTACTTG
1 ATAAATTTTTGATATGAATTACTTG
2949552 AT
1 AT
2949554 TAAGGGGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
ATAAATTTTTGATATGAATTACTTG
Found at i:2950301 original size:13 final size:13
Alignment explanation
Indices: 2950283--2950308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2950273 TACAGCAAGT
2950283 ATGTATCGATACA
1 ATGTATCGATACA
2950296 ATGTATCGATACA
1 ATGTATCGATACA
2950309 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2952557 original size:22 final size:22
Alignment explanation
Indices: 2952500--2952566 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
2952490 TTACTATTTT
*
2952500 ATGTATCGATAAAAATCACTGTTC
1 ATGTATCGAT--ACATCACTGTTC
*
2952524 A--TA-CTATACATCACTGTTC
1 ATGTATCGATACATCACTGTTC
*
2952543 ATGTATCGATACATCACTATTC
1 ATGTATCGATACATCACTGTTC
2952565 AT
1 AT
2952567 CATTGTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 12 0.33
21 5 0.14
22 18 0.50
24 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (22 bp):
ATGTATCGATACATCACTGTTC
Found at i:2952643 original size:26 final size:25
Alignment explanation
Indices: 2952606--2952665 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 25
2952596 TTTCACTGTT
* *
2952606 CATCACTATTCATCATAGTATCGATA
1 CATCACTGTTCATCAT-GTATCCATA
2952632 CATCACTG-T--TCATGTATCCATA
1 CATCACTGTTCATCATGTATCCATA
2952654 CATCACTGTTCA
1 CATCACTGTTCA
2952666 GACAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 16 0.55
23 5 0.17
25 1 0.03
26 7 0.24
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (25 bp):
CATCACTGTTCATCATGTATCCATA
Found at i:2952648 original size:22 final size:23
Alignment explanation
Indices: 2952618--2952665 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
2952608 TCACTATTCA
*
2952618 TCATAGTATCGATACATCACTGT
1 TCATAGTATCCATACATCACTGT
2952641 TCAT-GTATCCATACATCACTGT
1 TCATAGTATCCATACATCACTGT
2952663 TCA
1 TCA
2952666 GACAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (23 bp):
TCATAGTATCCATACATCACTGT
Found at i:2955585 original size:15 final size:16
Alignment explanation
Indices: 2955559--2955599 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
2955549 AGTTAAAAGC
2955559 AAAAGCACAAAAAATG-
1 AAAAGCA-AAAAAATGT
2955575 AAAAG-AAAAAAATGT
1 AAAAGCAAAAAAATGT
2955590 AAAAGCAAAA
1 AAAAGCAAAA
2955600 TCAAAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 8 0.35
15 6 0.26
16 9 0.39
ACGTcount: A:0.73, C:0.07, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAGCAAAAAAATGT
Found at i:2955921 original size:56 final size:56
Alignment explanation
Indices: 2955837--2955957 Score: 172
Period size: 56 Copynumber: 2.1 Consensus size: 56
2955827 AACAACACAA
*
2955837 AAAACAAAAACCTCAGTGAAACATAAGCTTTAAGACTCACCCAATCCTGGTCACCAC
1 AAAA-AAAAACCTCAGTGAAACATAAGCTTCAAGACTCACCCAATCCTGGTCACCAC
* * * *
2955894 AAAAAAAAACCTCTA-TGAGACATAAGCTTCGAGACTCACCCAATCTTGGTCACCAT
1 AAAAAAAAACCTC-AGTGAAACATAAGCTTCAAGACTCACCCAATCCTGGTCACCAC
2955950 AAAAAAAA
1 AAAAAAAA
2955958 CCTAAATTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
56 53 0.91
57 5 0.09
ACGTcount: A:0.45, C:0.26, G:0.11, T:0.18
Consensus pattern (56 bp):
AAAAAAAAACCTCAGTGAAACATAAGCTTCAAGACTCACCCAATCCTGGTCACCAC
Found at i:2956974 original size:34 final size:32
Alignment explanation
Indices: 2956931--2957198 Score: 299
Period size: 34 Copynumber: 8.0 Consensus size: 32
2956921 CTATGGCACC
*
2956931 CTTTTAAGTCCACAACTTCATGGCACCTTTTT
1 CTTTTAAGTCCACAACTTCGTGGCACCTTTTT
* *
2956963 CTTTTCAAAGTCCACAACTCCGTGGCACTTTTTTT
1 CTTTT--AAGTCCACAACTTCGTGGCAC-CTTTTT
*
2956998 CCTTTTAAGTCCACAACTTTGTGGCACCTTTTT
1 -CTTTTAAGTCCACAACTTCGTGGCACCTTTTT
2957031 CGTTTTAAGTCCA-AGAC-TCTGTGGCACCTTTTT
1 C-TTTTAAGTCCACA-ACTTC-GTGGCACCTTTTT
*
2957064 CTTTTCAAAGTCCACAACTCCGTGGCACCTTTTTT
1 CTTTT--AAGTCCACAACTTCGTGGCACC-TTTTT
2957099 CTTTTTAAGTCCACAAC-TCTGTGGCACCTTTTT
1 C-TTTTAAGTCCACAACTTC-GTGGCACCTTTTT
* * *
2957132 CTTTTCAAAGCCCACAACTCCATGGCACCTTTTTT
1 CTTTT--AAGTCCACAACTTCGTGGCACC-TTTTT
2957167 CCTTTTAAGTCCACAACTTCGTGGCACCTTTT
1 -CTTTTAAGTCCACAACTTCGTGGCACCTTTT
2957199 CCTTGTAAAG
Statistics
Matches: 202, Mismatches: 15, Indels: 37
0.80 0.06 0.15
Matches are distributed among these distances:
32 16 0.08
33 43 0.21
34 110 0.54
35 19 0.09
36 14 0.07
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (32 bp):
CTTTTAAGTCCACAACTTCGTGGCACCTTTTT
Found at i:2957107 original size:101 final size:101
Alignment explanation
Indices: 2956931--2957198 Score: 375
Period size: 101 Copynumber: 2.7 Consensus size: 101
2956921 CTATGGCACC
* * *
2956931 CTTTT-AAGTCCACAACTTCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACTTTT
1 CTTTTAAAGCCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
*
2956995 TTTCCTTTTAAGTCCACAACTTTGTGGCACCTTTTT
66 TTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* **
2957031 CGTTTT-AAGTCCA-AGACTCTGTGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCT
1 C-TTTTAAAGCCCACA-ACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCT
*
2957094 TTTTTCTTTTTAAGTCCACAACTCTGTGGCACCTTTTT
64 TTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
*
2957132 CTTTTCAAAGCCCACAACTCCATGGCACCTTTTTTCCTTTT--AAGTCCACAACTTCGTGGCACC
1 CTTTT-AAAGCCCACAACTCCATGGCACC-TTTTT-CTTTTCAAAGTCCACAACTCCGTGGCACC
2957195 TTTT
63 TTTT
2957199 CCTTGTAAAG
Statistics
Matches: 151, Mismatches: 10, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
100 6 0.04
101 92 0.61
102 42 0.28
103 6 0.04
104 5 0.03
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (101 bp):
CTTTTAAAGCCCACAACTCCATGGCACCTTTTTCTTTTCAAAGTCCACAACTCCGTGGCACCTTT
TTTCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
Found at i:2957248 original size:32 final size:32
Alignment explanation
Indices: 2957205--2957516 Score: 332
Period size: 32 Copynumber: 9.7 Consensus size: 32
2957195 TTTTCCTTGT
*
2957205 AAAGCCTACACAAG-CTGGTGGCAACCCTTCTC
1 AAAGCCCACACAAGTC-GGTGGCAACCCTTCTC
*
2957237 AAAGCCCACACAAGTCGATGGCAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* ** *
2957269 AAAGCCCGCACAAGTTAGTGGCAA-CCTTTTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* * *
2957300 TAAAGCCCACACAAG-CTAGTGGTAACCTTTCTC
1 -AAAGCCCACACAAGTC-GGTGGCAACCCTTCTC
* *
2957333 AAAGCCCATACAAGTCGGTGGTAACCCTTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
**
2957365 AAAGTTCACACAAGTCGGTGGCAACCTCTTCT-
1 AAAGCCCACACAAGTCGGTGGCAACC-CTTCTC
*
2957397 AAAGCCCACACAAG-CTAGTGGCAACCCCTTCT-
1 AAAGCCCACACAAGTC-GGTGGCAA-CCCTTCTC
* *
2957429 AGAGCCCACACAAGTCGGTGGCAACCCCTCTC
1 AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* *
2957461 TAAAGCCCACACAAGTCGGTGGCAATCC-TCTTA
1 -AAAGCCCACACAAGTCGGTGGCAACCCTTC-TC
*
2957494 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
2957517 TCTTCTTCTG
Statistics
Matches: 239, Mismatches: 29, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
31 13 0.05
32 185 0.77
33 41 0.17
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTTCTC
Found at i:2957334 original size:96 final size:96
Alignment explanation
Indices: 2957204--2957516 Score: 423
Period size: 96 Copynumber: 3.2 Consensus size: 96
2957194 CTTTTCCTTG
* * *
2957204 TAAAGCCTACACAAGCTGGTGGCAACCCTTCTCAAAGCCCACACAAGTCGATGGCAACCCTTCTC
1 TAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
* ** *
2957269 AAAGCCCGCACAAGTTAGTGGCAACCTTTTC
66 AAAGCCCACACAAGTCGGTGGCAACCTCTTC
* * * *
2957300 TAAAGCCCACACAAGCTAGTGGTAACCTTTCTCAAAGCCCATACAAGTCGGTGGTAACCCTTCTC
1 TAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
**
2957365 AAAGTTCACACAAGTCGGTGGCAACCTCTTC
66 AAAGCCCACACAAGTCGGTGGCAACCTCTTC
* *
2957396 TAAAGCCCACACAAGCTAGTGGCAACCCCTTCT-AGAGCCCACACAAGTCGGTGGCAACCCCTCT
1 TAAAGCCCACACAAGCTAGTGGCAA-CCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCT
2957460 CTAAAGCCCACACAAGTCGGTGGCAATCCTCTT-
65 C-AAAGCCCACACAAGTCGGTGGCAA-CCTCTTC
* * *
2957493 AAAAGCCCACACAAGTTGGTGGCA
1 TAAAGCCCACACAAGCTAGTGGCA
2957517 TCTTCTTCTG
Statistics
Matches: 190, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
96 135 0.71
97 49 0.26
98 6 0.03
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (96 bp):
TAAAGCCCACACAAGCTAGTGGCAACCCTTCTCAAAGCCCACACAAGTCGGTGGCAACCCTTCTC
AAAGCCCACACAAGTCGGTGGCAACCTCTTC
Found at i:2957656 original size:52 final size:53
Alignment explanation
Indices: 2957578--2957822 Score: 234
Period size: 52 Copynumber: 4.7 Consensus size: 53
2957568 TCAAACCATT
* *
2957578 CTTTC-TAAGTCGAATGTCATTGGCCTTGAATCAGCATATTGGCACCTTTTG-
1 CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* *
2957629 CTTTCTTAAGTCCAATATCACTAGCCTTGAATCAGCATATTGGCA-CTTTTGA
1 CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* * ** * * *
2957681 C-ATCTTTAAATCTGATATCATTGGTCTTGAATCAGCATATTGGCATC-TTTAA
1 CTTTC-TTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* * *** ** *
2957733 CATTCTTAAGCCCAATATTGCTGGCCTTGAATCAGCACGTTGGCACC-TTTGT
1 CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
* *
2957785 CATTT-TTAAGTCCAATATCATTGGGCGTGAATCAGCAT
1 C-TTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCAT
2957823 CTTTAAGTCC
Statistics
Matches: 154, Mismatches: 34, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
51 13 0.08
52 136 0.88
53 5 0.03
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTTCTTAAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCACCTTTTGA
Found at i:2957715 original size:104 final size:104
Alignment explanation
Indices: 2957594--2957822 Score: 287
Period size: 104 Copynumber: 2.2 Consensus size: 104
2957584 AAGTCGAATG
** * *
2957594 TCATTGGCCTTGAATCAGCATATTGGCACCTTTTGCTTTCTTAAGTCCAATATCACTAGCCTTGA
1 TCATTGGCCTTGAATCAGCATATTGGCACCTTTAACATTCTTAAGCCCAATATCACTAGCCTTGA
* * **
2957659 ATCAGCATATTGGCACTTTTGACATCTTTAAATCTGATA
66 ATCAGCACATTGGCACCTTTGACATCTTTAAATCCAATA
* * ** *
2957698 TCATTGGTCTTGAATCAGCATATTGGCATCTTTAACATTCTTAAGCCCAATATTGCTGGCCTTGA
1 TCATTGGCCTTGAATCAGCATATTGGCACCTTTAACATTCTTAAGCCCAATATCACTAGCCTTGA
* * * *
2957763 ATCAGCACGTTGGCACCTTTGTCATTTTTAAGTCCAATA
66 ATCAGCACATTGGCACCTTTGACATCTTTAAATCCAATA
* *
2957802 TCATTGGGCGTGAATCAGCAT
1 TCATTGGCCTTGAATCAGCAT
2957823 CTTTAAGTCC
Statistics
Matches: 106, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 106 1.00
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (104 bp):
TCATTGGCCTTGAATCAGCATATTGGCACCTTTAACATTCTTAAGCCCAATATCACTAGCCTTGA
ATCAGCACATTGGCACCTTTGACATCTTTAAATCCAATA
Found at i:2957889 original size:87 final size:87
Alignment explanation
Indices: 2957738--2957909 Score: 211
Period size: 87 Copynumber: 2.0 Consensus size: 87
2957728 TTTAACATTC
* * * * * *
2957738 TTAAGCCCAATATTGCTGGCCTTGAATCAGCACGTTGGCACCTTTGTCATTTTTAAGTCCAATAT
1 TTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTATGTCATCTTTAAGTCCAATAT
* *
2957803 CATTGGGCGTGAATCAGCATCT
66 CACTGGCCGTGAATCAGCATCT
* * *
2957825 TTAAGTCCAATATCGTTGGCCGTGAATCAATACATTGGCACCTATGTCATCTTTAAG-CCTAATA
1 TTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTATGTCATCTTTAAGTCC-AATA
* *
2957889 TCACTGGCCTTGAATTAGCAT
65 TCACTGGCCGTGAATCAGCAT
2957910 ATTAGTATCT
Statistics
Matches: 71, Mismatches: 13, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
86 2 0.03
87 69 0.97
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (87 bp):
TTAAGCCCAATATCGCTGGCCGTGAATCAACACATTGGCACCTATGTCATCTTTAAGTCCAATAT
CACTGGCCGTGAATCAGCATCT
Found at i:2958050 original size:52 final size:52
Alignment explanation
Indices: 2957989--2958142 Score: 202
Period size: 52 Copynumber: 3.0 Consensus size: 52
2957979 TTTTTCTTTC
* * * **
2957989 TTAAGTCCAATATCCTTGGACTTGAATCAGCATATTGGTGCCTTTGTCATCT
1 TTAACTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT
* *
2958041 TTAACTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCT
1 TTAACTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT
* * *
2958093 TTAAGC-CTAATATCGTTAGCCTTGAATCAGCATATTGGCACCTTTATCAT
1 TTAA-CTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCAT
2958143 TCTTCTCATC
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 88 0.99
53 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.36
Consensus pattern (52 bp):
TTAACTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT
Found at i:2958117 original size:104 final size:103
Alignment explanation
Indices: 2957932--2958130 Score: 249
Period size: 104 Copynumber: 1.9 Consensus size: 103
2957922 ATCATTCCTC
* ** * * *
2957932 TCATCTTTAAGTCCAATGTCCTAGCCTTGAATCAACACATTGTTACTTTTTTCTTTCTTAAGTCC
1 TCATCTTTAACTCCAATGTCCTAGCCTTGAATCAACACATTGGCACCTTTGTCTCTCTTAAGTCC
*
2957997 AATATCCTTGGACTTGAATCAGCATATTGGTGCCTTTG
66 AATATCCTTAGACTTGAATCAGCATATTGGTGCCTTTG
* * *
2958035 TCATCTTTAACTCCAATGTCGTTGGCCTTGAATCAGCACATTGGCACCTTTGTCATCT-TTAAG-
1 TCATCTTTAACTCCAATGTC-CTAGCCTTGAATCAACACATTGGCACCTTTGTC-TCTCTTAAGT
* *
2958098 CCTAATATCGTTAGCCTTGAATCAGCATATTGG
64 CC-AATATCCTTAGACTTGAATCAGCATATTGG
2958131 CACCTTTATC
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
103 21 0.26
104 58 0.72
105 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (103 bp):
TCATCTTTAACTCCAATGTCCTAGCCTTGAATCAACACATTGGCACCTTTGTCTCTCTTAAGTCC
AATATCCTTAGACTTGAATCAGCATATTGGTGCCTTTG
Found at i:2958182 original size:61 final size:61
Alignment explanation
Indices: 2958087--2958213 Score: 191
Period size: 61 Copynumber: 2.1 Consensus size: 61
2958077 GGCACCTTTG
* * * *
2958087 TCATCTTTAAGCCTAATATCGTTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTC
1 TCATCTTCAAGCCTAATATCGCTAGCCGTAAATCAGCATATTGGCACCTTTATCATTCTTC
* *
2958148 TCATCTTCAAGCCTGATATCGCTAGCCGTAAATCAGCATATTGGCACTTTTATCATTCTTC
1 TCATCTTCAAGCCTAATATCGCTAGCCGTAAATCAGCATATTGGCACCTTTATCATTCTTC
*
2958209 GCATC
1 TCATC
2958214 CTTAAGTCCA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 59 1.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (61 bp):
TCATCTTCAAGCCTAATATCGCTAGCCGTAAATCAGCATATTGGCACCTTTATCATTCTTC
Found at i:2958255 original size:60 final size:60
Alignment explanation
Indices: 2958102--2958283 Score: 199
Period size: 60 Copynumber: 3.0 Consensus size: 60
2958092 TTTAAGCCTA
* *
2958102 ATATCGTTAGCCTTGAATCAGCATATTGGCACCTTTATCATTCTTCTCAT-CTTCAAG-CC
1 ATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTT-AAGTCC
* * *
2958161 TGATATCGCTAGCCGTAAATCAGCATATTGGCACTTTTATCATTCTTCGCATCCTTAAGTCC
1 --ATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTTAAGTCC
* * * * * * *
2958223 ATGTCG-TTGACCTTGAATCAGCATATTAGCACTCTTCTCATTCTTATCATCTTTAAGTCC
1 ATATCGCTAG-CCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTTAAGTCC
2958283 A
1 A
2958284 GTGCTGCAGG
Statistics
Matches: 103, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
59 2 0.02
60 48 0.47
61 48 0.47
62 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (60 bp):
ATATCGCTAGCCTTGAATCAGCATATTGGCACTTTTATCATTCTTCTCATCCTTAAGTCC
Found at i:2960258 original size:20 final size:21
Alignment explanation
Indices: 2960235--2960287 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
2960225 ACAATTCAAA
** *
2960235 GTATCGATACATGTTACA-AT
1 GTATCGATACATGAAAAAGAT
2960255 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGAAAAAGAT
2960276 GTATCGATACAT
1 GTATCGATACAT
2960288 TTCTTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (21 bp):
GTATCGATACATGAAAAAGAT
Found at i:2960344 original size:13 final size:13
Alignment explanation
Indices: 2960326--2960351 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2960316 TACAGCAAGT
2960326 ATGTATCGATACA
1 ATGTATCGATACA
2960339 ATGTATCGATACA
1 ATGTATCGATACA
2960352 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2962578 original size:21 final size:21
Alignment explanation
Indices: 2962545--2962589 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
2962535 TTGCAAGTTG
*
2962545 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
2962567 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
2962587 AAA
1 AAA
2962590 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:2964413 original size:15 final size:15
Alignment explanation
Indices: 2964393--2964423 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2964383 TAAAAATGTC
*
2964393 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2964408 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
2964423 C
1 C
2964424 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2966520 original size:13 final size:13
Alignment explanation
Indices: 2966502--2966540 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
2966492 ACATTTTTCT
2966502 TTGTATCGATACA
1 TTGTATCGATACA
*
2966515 TTGTATCCATACA
1 TTGTATCGATACA
*
2966528 CTGTATCGATACA
1 TTGTATCGATACA
2966541 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2968421 original size:14 final size:14
Alignment explanation
Indices: 2968402--2968445 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
2968392 AAATAAATTT
2968402 TTGATATGAATTAC
1 TTGATATGAATTAC
*
2968416 TTGATA--AATT-T
1 TTGATATGAATTAC
2968427 TTGATATGAATTAC
1 TTGATATGAATTAC
2968441 TTGAT
1 TTGAT
2968446 TAAGGGGGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
11 6 0.24
12 4 0.16
13 4 0.16
14 11 0.44
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.48
Consensus pattern (14 bp):
TTGATATGAATTAC
Found at i:2968428 original size:25 final size:25
Alignment explanation
Indices: 2968394--2968445 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
2968384 ATATGTGCAA
2968394 ATAAATTTTTGATATGAATTACTTG
1 ATAAATTTTTGATATGAATTACTTG
2968419 ATAAATTTTTGATATGAATTACTTG
1 ATAAATTTTTGATATGAATTACTTG
2968444 AT
1 AT
2968446 TAAGGGGGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.37, C:0.04, G:0.12, T:0.48
Consensus pattern (25 bp):
ATAAATTTTTGATATGAATTACTTG
Found at i:2969193 original size:13 final size:13
Alignment explanation
Indices: 2969175--2969200 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2969165 TACAGCAAGT
2969175 ATGTATCGATACA
1 ATGTATCGATACA
2969188 ATGTATCGATACA
1 ATGTATCGATACA
2969201 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2971449 original size:22 final size:22
Alignment explanation
Indices: 2971392--2971458 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
2971382 TTACTATTTT
*
2971392 ATGTATCGATAAAAATCACTGTTC
1 ATGTATCGAT--ACATCACTGTTC
*
2971416 A--TA-CTATACATCACTGTTC
1 ATGTATCGATACATCACTGTTC
*
2971435 ATGTATCGATACATCACTATTC
1 ATGTATCGATACATCACTGTTC
2971457 AT
1 AT
2971459 CATTGTACAT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
19 12 0.33
21 5 0.14
22 18 0.50
24 1 0.03
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (22 bp):
ATGTATCGATACATCACTGTTC
Found at i:2971535 original size:26 final size:25
Alignment explanation
Indices: 2971498--2971557 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 25
2971488 TTTCACTGTT
* *
2971498 CATCACTATTCATCATAGTATCGATA
1 CATCACTGTTCATCAT-GTATCCATA
2971524 CATCACTG-T--TCATGTATCCATA
1 CATCACTGTTCATCATGTATCCATA
2971546 CATCACTGTTCA
1 CATCACTGTTCA
2971558 GACAATTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
22 16 0.55
23 5 0.17
25 1 0.03
26 7 0.24
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (25 bp):
CATCACTGTTCATCATGTATCCATA
Found at i:2971540 original size:22 final size:23
Alignment explanation
Indices: 2971510--2971557 Score: 80
Period size: 22 Copynumber: 2.1 Consensus size: 23
2971500 TCACTATTCA
*
2971510 TCATAGTATCGATACATCACTGT
1 TCATAGTATCCATACATCACTGT
2971533 TCAT-GTATCCATACATCACTGT
1 TCATAGTATCCATACATCACTGT
2971555 TCA
1 TCA
2971558 GACAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.35
Consensus pattern (23 bp):
TCATAGTATCCATACATCACTGT
Found at i:2976572 original size:20 final size:19
Alignment explanation
Indices: 2976544--2976601 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
2976534 TTAATACAAC
2976544 AAGTCAATGTATCGATACAT
1 AAGTCAATGTATCGATAC-T
*
2976564 AAGTGAATGTATCGATACT
1 AAGTCAATGTATCGATACT
*
2976583 AAGTCTTATTGTATCGATA
1 AAGTC--AATGTATCGATA
2976602 GTGGACCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.15
20 17 0.52
21 11 0.33
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.34
Consensus pattern (19 bp):
AAGTCAATGTATCGATACT
Found at i:2980645 original size:19 final size:19
Alignment explanation
Indices: 2980621--2980659 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
2980611 ACGGAATGGG
*
2980621 TGTAATGGTTAGTGGGCTA
1 TGTAATGGTTAATGGGCTA
2980640 TGTAATGGTTAATGGGCTA
1 TGTAATGGTTAATGGGCTA
2980659 T
1 T
2980660 CTCCTTGTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.33, T:0.38
Consensus pattern (19 bp):
TGTAATGGTTAATGGGCTA
Found at i:2982847 original size:79 final size:80
Alignment explanation
Indices: 2982666--2982838 Score: 231
Period size: 79 Copynumber: 2.2 Consensus size: 80
2982656 AACGGGGCTG
* * * *
2982666 GAGTGTCCCTAATTATAGAAAATCAGTGTTCTGAAAATAAAAATCGAGGTTGGAGCATCCCCTCG
1 GAGTATCCCTGATTATATAAAATCAGTGTTCTGAAAATAAAAATCGAGGTTGAAGCATCCCCTCG
* *
2982731 GAAATAACAGGGTTG
66 AAAATAACAGGGTTA
* * * **
2982746 GAGTATCTCTGATTATATAAAATTAGTGTTTTGAAAAT-AAAATCGAGGTTGAAGTGTCCCCTCG
1 GAGTATCCCTGATTATATAAAATCAGTGTTCTGAAAATAAAAATCGAGGTTGAAGCATCCCCTCG
*
2982810 AAAATAACGGGGTTA
66 AAAATAACAGGGTTA
2982825 GAGTATCCCTGATT
1 GAGTATCCCTGATT
2982839 GTGAAAAATC
Statistics
Matches: 80, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
79 48 0.60
80 32 0.40
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (80 bp):
GAGTATCCCTGATTATATAAAATCAGTGTTCTGAAAATAAAAATCGAGGTTGAAGCATCCCCTCG
AAAATAACAGGGTTA
Found at i:2983097 original size:28 final size:26
Alignment explanation
Indices: 2983037--2983102 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 26
2983027 GCCGGATTTG
2983037 GAGTATCCCCTCAGAAATAACAGGGTT
1 GAGTAT-CCCTCAGAAATAACAGGGTT
* *
2983064 GAAGTATCCCTGATGAAATAACGGGGTT
1 G-AGTATCCCTCA-GAAATAACAGGGTT
2983092 AGAGTA-CCCTC
1 -GAGTATCCCTC
2983103 GATTGTGAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 10 0.30
28 22 0.67
29 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (26 bp):
GAGTATCCCTCAGAAATAACAGGGTT
Found at i:2983191 original size:110 final size:106
Alignment explanation
Indices: 2982868--2983180 Score: 405
Period size: 110 Copynumber: 2.9 Consensus size: 106
2982858 GAAATAAGGC
* * * * * * **
2982868 CGGGGTTGGAGTATCCCCAATTGTGAGAAATTAATATTTTAGAAATAAAGCCAAGATCAGAGTAT
1 CGGGGTTGGAGTACCCCCGATTGTGAAAAATCAATATTTTAGATATAAAGCC-GGATTTGAGTAT
* *
2982933 CCCCTCGAGAATAACGAGGTTGAAGTATCCCTGATGAAATAA
65 CCCCTCGAAAATAACGGGGTTGAAGTATCCCTGATGAAATAA
2982975 CGGGGTTGGAGTACCCCCCGATTGTGAAAAAAATCAATATTTTAGATATAAAGCCGGATTTGGAG
1 CGGGGTTGGAGTA-CCCCCGATTGTG--AAAAATCAATATTTTAGATATAAAGCCGGATTT-GAG
*
2983040 TATCCCCTC-AGAAATAACAGGGTTGAAGTATCCCTGATGAAATAA
62 TATCCCCTCGA-AAATAACGGGGTTGAAGTATCCCTGATGAAATAA
* * *
2983085 CGGGGTTAGAGTACCCTCGATTGTGAAAAATCAATATTTTAGATATAAAGCCGGGGTTTGAGTAT
1 CGGGGTTGGAGTACCCCCGATTGTGAAAAATCAATATTTTAGATATAAAGCC-GGATTTGAGTAT
*
2983150 CCTCTCGAAAATAACGGGGTT-AGAGTATCCC
65 CCCCTCGAAAATAACGGGGTTGA-AGTATCCC
2983181 CAATTGTGAA
Statistics
Matches: 182, Mismatches: 16, Indels: 16
0.85 0.07 0.07
Matches are distributed among these distances:
106 1 0.01
107 71 0.39
108 16 0.09
109 15 0.08
110 79 0.43
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (106 bp):
CGGGGTTGGAGTACCCCCGATTGTGAAAAATCAATATTTTAGATATAAAGCCGGATTTGAGTATC
CCCTCGAAAATAACGGGGTTGAAGTATCCCTGATGAAATAA
Found at i:2985631 original size:13 final size:13
Alignment explanation
Indices: 2985613--2985642 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2985603 GTAAACTCAA
2985613 AATGTATCGATAC
1 AATGTATCGATAC
2985626 AATGTATCGATAC
1 AATGTATCGATAC
2985639 AATG
1 AATG
2985643 AACCATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2985652 original size:20 final size:20
Alignment explanation
Indices: 2985624--2985678 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
2985614 ATGTATCGAT
2985624 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
2985644 ACCATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
* *
2985664 AGAATGTATTGATAC
1 ACAATGTATCGATAC
2985679 GTCTGGGTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:2986409 original size:41 final size:40
Alignment explanation
Indices: 2986319--2986415 Score: 119
Period size: 39 Copynumber: 2.5 Consensus size: 40
2986309 GTCCCAAATT
*
2986319 TTGAGGACAAAGG-AAAAGAGAATGAAATGGGTCTTGCTC
1 TTGAGGACAAAGGAAAAAGAGAAAGAAATGGGTCTTGCTC
* *
2986358 -TGAGGACAAAGGAAGAAAGA-AAAGGAATGTGTCTTGCTTC
1 TTGAGGACAAAGGAA-AAAGAGAAAGAAATGGGTCTTGC-TC
*
2986398 TTGAGGACAAAGCAAAAA
1 TTGAGGACAAAGGAAAAA
2986416 AGAGTACGTC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
38 12 0.24
39 15 0.30
40 10 0.20
41 13 0.26
ACGTcount: A:0.42, C:0.10, G:0.29, T:0.19
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAGAAAGAAATGGGTCTTGCTC
Found at i:2986418 original size:41 final size:40
Alignment explanation
Indices: 2986319--2986418 Score: 123
Period size: 41 Copynumber: 2.5 Consensus size: 40
2986309 GTCCCAAATT
* *
2986319 TTGAGGACAAAGGAAAAGAG-AATGAAATGGGTCTTGCTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAATGGGTCTTGCTC
* * *
2986358 -TGAGGACAAAGGAAGAAAGAAAAGGAATGTGTCTTGCTTC
1 TTGAGGACAAAGGAAAAAAGAAAAGAAATGGGTCTTGC-TC
*
2986398 TTGAGGACAAAGCAAAAAAGA
1 TTGAGGACAAAGGAAAAAAGA
2986419 GTACGTCCTA
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
38 17 0.33
39 14 0.27
40 2 0.04
41 18 0.35
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAAGAAAAGAAATGGGTCTTGCTC
Found at i:2986491 original size:40 final size:40
Alignment explanation
Indices: 2986446--2986521 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
2986436 AGGACAAAGG
* *
2986446 AAAAAAGGAAAACAAAATGCGTCCTGCTCTTTGAGGGTAA
1 AAAAAAAGAAAACAAAATGCGTCCTACTCTTTGAGGGTAA
* **
2986486 AAAAAAAGAAAATAATGTGCGTCCTACTCTTTGAGG
1 AAAAAAAGAAAACAAAATGCGTCCTACTCTTTGAGG
2986522 ACAAAAGGGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.22
Consensus pattern (40 bp):
AAAAAAAGAAAACAAAATGCGTCCTACTCTTTGAGGGTAA
Found at i:2986608 original size:129 final size:125
Alignment explanation
Indices: 2986438--2986743 Score: 337
Period size: 129 Copynumber: 2.4 Consensus size: 125
2986428 ACTTTTCGAG
* * * **
2986438 GACAAAGGAAAAAAGGAAAACAAAATGCGTCCTGCTCTTTGAGGGTAA-AAAAAAAGAAAAT-AA
1 GACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAGAAAAAAAGAAAATGAA
* *
2986501 TGTGCGTCCTACTCTTTGAGGACAAAAGGGGAAAATAAGGAAATGGAACATGTACTGCTCTTTGA
66 CGT--GTCCTACTCTTTGAGGAC-AAA--GGAAAA-AAGGAAATGGAACATGTACTGCACTTTGA
2986566 A
125 A
* * * **
2986567 GACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGTTTTTTGAGGACAAGGGGAAAAGAAGGGAAT
1 GACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAA---GAAAAAAAGAAAAT
* * * * *
2986632 GGAACGTGTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATGGAACGTGTCCTGCACTTTGAG
63 -GAACGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGGAACATGTACTGCACTTTGAA
* *
2986696 GACAAAAGAGAAAAGGAAAATAAAGTGTGTCCTGCTCTTTGAGGACAA
1 GACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAA
2986744 AAGGGAAAAT
Statistics
Matches: 150, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
129 111 0.74
130 5 0.03
132 3 0.02
133 27 0.18
135 4 0.03
ACGTcount: A:0.41, C:0.13, G:0.27, T:0.20
Consensus pattern (125 bp):
GACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAGAAAAAAAGAAAATGAA
CGTGTCCTACTCTTTGAGGACAAAGGAAAAAAGGAAATGGAACATGTACTGCACTTTGAA
Found at i:2986622 original size:42 final size:42
Alignment explanation
Indices: 2986435--2986786 Score: 233
Period size: 42 Copynumber: 8.1 Consensus size: 42
2986425 CCTACTTTTC
* * *
2986435 GAGGACAAAGGAAAAAAGGAAAACAAAATGCGTCCTGCTCTTT
1 GAGGACAAAGGAGAAAAGGAAAATAAAGTG-GTCCTGCTCTTT
** * * *
2986478 GAGGGTAAA--A-AAAAAGAAAATAATGTGCGTCCTACTCTTT
1 GAGGACAAAGGAGAAAAGGAAAATAAAGTG-GTCCTGCTCTTT
* *
2986518 GAGGACAAAAGGGGAAAATAAGG-AAATGGAACA-T-GTACTGCTCTTT
1 GAGGAC-AAA--GGAGAA-AAGGAAAAT--AA-AGTGGTCCTGCTCTTT
* * *
2986564 GAAGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGTTTTTT
1 GAGGACAAAGGAGAAAAGGAAAATAAAGTG-GTCCTGCTCTTT
* *
2986607 GAGGAC-AAGGGGAAAA-GAAGGGAATGGAACGT-GTCCTGCTCTTT
1 GAGGACAAAGGAGAAAAGGAA---AAT--AAAGTGGTCCTGCTCTTT
* *
2986651 GAGGACAAAGGAGAAAAGG-AAATGGAACGT-GTCCTGCACTTT
1 GAGGACAAAGGAGAAAAGGAAAAT--AAAGTGGTCCTGCTCTTT
*
2986693 GAGGACAAAAGAGAAAAGGAAAATAAAGTGTGTCCTGCTCTTT
1 GAGGACAAAGGAGAAAAGGAAAATAAAGTG-GTCCTGCTCTTT
* * *
2986736 GAGGACAAAAGGGAAAATAAGG-AAATGAAGTGCGTCCTGCCCTTT
1 GAGGAC-AAA-GGAGAA-AAGGAAAATAAAGTG-GTCCTGCTCTTT
2986781 GAGGAC
1 GAGGAC
2986787 TAAGAGGTGC
Statistics
Matches: 249, Mismatches: 33, Indels: 52
0.75 0.10 0.16
Matches are distributed among these distances:
40 30 0.12
41 14 0.06
42 52 0.21
43 51 0.20
44 22 0.09
45 44 0.18
46 30 0.12
47 3 0.01
48 3 0.01
ACGTcount: A:0.40, C:0.13, G:0.28, T:0.19
Consensus pattern (42 bp):
GAGGACAAAGGAGAAAAGGAAAATAAAGTGGTCCTGCTCTTT
Found at i:2986709 original size:87 final size:85
Alignment explanation
Indices: 2986466--2986786 Score: 271
Period size: 87 Copynumber: 3.7 Consensus size: 85
2986456 AACAAAATGC
** * * * *
2986466 GTCCTGCTCTTTGAGGGTAAA--AAAAAAGAAAAT-AATGTGCGTCCTACTCTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATGAA-GT-CGTCCTGCACTTTGAGGACAAAA
* *
2986528 GGGGAAAATAAGGAAATGGAACAT
64 -GGGAAAAGAAGG-AATGGAACGT
* * * *** *
2986552 GTACTGCTCTTTGAAGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGTTTTTTGAGGAC-AAG
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGG-AAATGAAGT-CGTCCTGCACTTTGAGGACAAAA
2986616 GGGAAAAGAAGGGAATGGAACGT
64 GGGAAAAGAA-GGAATGGAACGT
2986639 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATGGAACGT-GTCCTGCACTTTGAGGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAT-GAA-GTCGTCCTGCACTTTGAGGACAAAA
* * *
2986703 GAGAAAAGGAA--AAT-AAAGTGT
64 GGGAAAA-GAAGGAATGGAA-CGT
* *
2986724 GTCCTGCTCTTTGAGGACAAAAGGGAAAATAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC-AAA-GGAGAA-AAGGAAATGAAGT-CGTCCTGCACTTTGAGGAC
2986787 TAAGAGGTGC
Statistics
Matches: 196, Mismatches: 24, Indels: 28
0.79 0.10 0.11
Matches are distributed among these distances:
84 2 0.01
85 23 0.12
86 41 0.21
87 65 0.33
88 40 0.20
89 23 0.12
90 2 0.01
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (85 bp):
GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAATGAAGTCGTCCTGCACTTTGAGGACAAAAGG
GAAAAGAAGGAATGGAACGT
Found at i:2986909 original size:46 final size:45
Alignment explanation
Indices: 2986830--2987024 Score: 227
Period size: 45 Copynumber: 4.4 Consensus size: 45
2986820 AAAGAAGGCC
* *
2986830 CCTGCTCTATGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGCGT
1 CCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGTGT
* * *
2986875 CATGTTCTTTGAGGACAAAAGGGGAAAAGAAGGAAATGGAA-TGTGT
1 CCTGCTCTTTGAGGACAAAA-GGGAAAAGAAGG-AATTGAAGTGTGT
** *
2986921 CCTGCTCTTTGAGGACAAGGGGGAAAAGGAA--AA-TAAAGTGTGT
1 CCTGCTCTTTGAGGACAAAAGGGAAAA-GAAGGAATTGAAGTGTGT
* * *
2986964 CCTGCTCTTTGAGGACAAAAAGGAAATGAAGGAAATGAAGTGTGT
1 CCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGTGT
*
2987009 CCTGCCCTTTGAGGAC
1 CCTGCTCTTTGAGGAC
2987025 TAGGAGGTGC
Statistics
Matches: 126, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.04
43 30 0.24
44 2 0.02
45 48 0.38
46 35 0.28
47 6 0.05
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (45 bp):
CCTGCTCTTTGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGTGT
Found at i:2987034 original size:238 final size:235
Alignment explanation
Indices: 2986606--2987129 Score: 734
Period size: 238 Copynumber: 2.2 Consensus size: 235
2986596 TCCTGTTTTT
* * *
2986606 TGAGGAC-AAGGGGAAAAGAAGGGAATGGAACGT--GTCCTGCTCTTTGAGGACAAAGGAGAAAA
1 TGAGGACAAAAGGGAAAAGAA-GGAATTGAA-GTGCGTCCTGCTCTTTGAGGACAAAGGAAAAAA
2986668 GGAAATGGAACGTGTCCTGCACTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGTGTCCTGCTC
64 GGAAATGGAACGTGTCCTGCACTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGTGTCCTGCTC
* *
2986733 TTTGAGGACAAAAGGGAAAATAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAAGAGGTGCT
129 TTTGAGGACAAAAAGGAAAATAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAAGAGGTGCC
*
2986798 ACCAACTTGTGTGGGCTTTGAAAAAGAAGGC-CCCTGCTCTA
194 ACCAACTTGTGTGGGCTTTGAAAAAGAAGGCACCCTACTCTA
* *
2986839 TGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGCGTCATGTTCTTTGAGGACAAAAGGGGAAAAG
1 TGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGCGTCCTGCTCTTTGAGGAC-AAA--GGAAAA-
* * ** *
2986904 AAGGAAATGGAATGTGTCCTGCTCTTTGAGGACAAGGGGGAAAAGGAAAATAAAGTGTGTCCTGC
62 AAGGAAATGGAACGTGTCCTGCACTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGTGTCCTGC
* *
2986969 TCTTTGAGGACAAAAAGG-AAATGAAGGAAATGAAGTGTGTCCTGCCCTTTGAGGACTAGGAGGT
127 TCTTTGAGGACAAAAAGGAAAAT-AAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAAGAGGT
* ** * *
2987033 GCCATCAACTTGTGTGGGCTTTGAAGGAGAAGGCATCCTACTCTT
191 GCCACCAACTTGTGTGGGCTTTGAAAAAGAAGGCACCCTACTCTA
* * * *
2987078 TGAAGATAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGAC
1 TGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGCGTCCTGCTCTTTGAGGAC
2987130 TAGGAGGTGC
Statistics
Matches: 256, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
232 2 0.01
233 15 0.06
234 28 0.11
235 3 0.01
237 9 0.04
238 146 0.57
239 53 0.21
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.21
Consensus pattern (235 bp):
TGAGGACAAAAGGGAAAAGAAGGAATTGAAGTGCGTCCTGCTCTTTGAGGACAAAGGAAAAAAGG
AAATGGAACGTGTCCTGCACTTTGAGGACAAAAGAGAAAAGGAAAATAAAGTGTGTCCTGCTCTT
TGAGGACAAAAAGGAAAATAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTAAGAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAAAGAAGGCACCCTACTCTA
Found at i:2987150 original size:105 final size:106
Alignment explanation
Indices: 2986963--2987218 Score: 367
Period size: 105 Copynumber: 2.4 Consensus size: 106
2986953 ATAAAGTGTG
* * * * *
2986963 TCCTGCTCTTTGAGGACAAAAAGGAAATGAAGGAAATGAAGTGTGTCCTGCCCTTTGAGGACTAG
1 TCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACCCTTTGAGGACTAG
*
2987028 GAGGTGCCATCAACTTGTGT-GGGCTTTGAAGGAGAAGGCA
66 GAGGTGCCACCAACTTGTGTAGGGCTTTGAAGGAGAAGGCA
* * *
2987068 TCCTACTCTTTGAAGATAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACTCTTTGAGGACTAG
1 TCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACCCTTTGAGGACTAG
**
2987133 GAGGTGCCACCAACTTGTGTAGGGCTTTGAAGGAGAAGGTG
66 GAGGTGCCACCAACTTGTGTAGGGCTTTGAAGGAGAAGGCA
*
2987174 TCCTGCTCTTTGAGGACT---AGGGAAAAGAAAGAAATGAAGTGCGTC
1 TCCTGCTCTTTGAGGA-TAAAAGGGAAAAGAAGGAAATGAAGTGCGTC
2987219 ATGTTCTTTA
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
104 26 0.19
105 76 0.56
106 32 0.24
107 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (106 bp):
TCCTGCTCTTTGAGGATAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTACCCTTTGAGGACTAG
GAGGTGCCACCAACTTGTGTAGGGCTTTGAAGGAGAAGGCA
Found at i:2987272 original size:45 final size:45
Alignment explanation
Indices: 2987167--2987365 Score: 144
Period size: 45 Copynumber: 4.6 Consensus size: 45
2987157 CTTTGAAGGA
*
2987167 GAAG-GTGTCCTGCTCTTTGAGGAC--TAGGGAAAAGAAAGAAAT
1 GAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAAT
* * * * * * *
2987209 GAAGTGCGTCATGTTCTTTAAGGACAAAAGGGAAAATAAGGGAATT
1 GAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAA-AGAAAT
* * *
2987255 GAA-TGTGTCCTGCTCTTTGAGGAC-AATGGGGAAAG-GA-AAAT
1 GAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAAT
* ** * * *
2987296 AAAGTGCATCCTACTCTTTGAGGATAAAAGGGAAAAGAAGGAAAT
1 GAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAAT
* **
2987341 GAGGTACGTCCTGC-CTTTTGAGGAC
1 GAAGTGTGTCCTGCTC-TTTGAGGAC
2987366 TAAGAGGTGC
Statistics
Matches: 115, Mismatches: 33, Indels: 15
0.71 0.20 0.09
Matches are distributed among these distances:
41 5 0.04
42 21 0.18
43 25 0.22
44 9 0.08
45 48 0.42
46 7 0.06
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (45 bp):
GAAGTGTGTCCTGCTCTTTGAGGACAAAAGGGAAAAGAAAGAAAT
Found at i:2987352 original size:87 final size:88
Alignment explanation
Indices: 2987167--2987365 Score: 210
Period size: 87 Copynumber: 2.3 Consensus size: 88
2987157 CTTTGAAGGA
* * * **
2987167 GAAGGTGTCCTGCTCTTTGAGGACTAGGGAAAAGAAAGAAATGAAGTGCGTCATGTTCTTTAAGG
1 GAAGGTGTCCTGCTCTTTGAGGACAAGGGAAAAGAAAGAAATAAAGTGCATCATACTCTTTAAGG
* *
2987232 ACAAAAGGGAAAATAAGGGAATT
66 ACAAAAGGGAAAAGAAGGGAAAT
* * * * *
2987255 GAATGTGTCCTGCTCTTTGAGGACAATGGGGAAAG-GA-AAATAAAGTGCATCCTACTCTTTGAG
1 GAAGGTGTCCTGCTCTTTGAGGACAA-GGGAAAAGAAAGAAATAAAGTGCATCATACTCTTTAAG
*
2987318 GATAAAAGGGAAAAGAA-GGAAAT
65 GACAAAAGGGAAAAGAAGGGAAAT
2987341 G-AGGTACGTCCTGC-CTTTTGAGGAC
1 GAAGGT--GTCCTGCTC-TTTGAGGAC
2987366 TAAGAGGTGC
Statistics
Matches: 93, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
85 3 0.03
86 7 0.08
87 51 0.55
88 25 0.27
89 7 0.08
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (88 bp):
GAAGGTGTCCTGCTCTTTGAGGACAAGGGAAAAGAAAGAAATAAAGTGCATCATACTCTTTAAGG
ACAAAAGGGAAAAGAAGGGAAAT
Found at i:2987434 original size:60 final size:60
Alignment explanation
Indices: 2987347--2987472 Score: 175
Period size: 60 Copynumber: 2.1 Consensus size: 60
2987337 AAATGAGGTA
* ** *
2987347 CGTCCTGCCTTTTGAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTTGAAGGAGAAGG
1 CGTCCTGCCTTTTAAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAAAAGG
*
2987407 TGTCCTG-CTCTTTAAGGACT-AGAAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAAAAGG
1 CGTCCTGCCT-TTTAAGGACTAAG-AGGTGCCACCAACTTGTGTGGGCTTAAAAGGAAAAGG
2987467 CGTCCT
1 CGTCCT
2987473 ACTTTTTGAG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 4 0.07
60 54 0.93
ACGTcount: A:0.24, C:0.21, G:0.30, T:0.25
Consensus pattern (60 bp):
CGTCCTGCCTTTTAAGGACTAAGAGGTGCCACCAACTTGTGTGGGCTTAAAAGGAAAAGG
Found at i:2987516 original size:45 final size:44
Alignment explanation
Indices: 2987440--2987527 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 44
2987430 AGGTGCCACC
* *
2987440 AACTTGTGTGGGCTTAAAAGGAAAAGGCGTCCTACTTTTTGAGA
1 AACTTGTGTGGGCTTAAAAGGAAAAGACGTCCTACTCTTTGAGA
*
2987484 AACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGAG
1 AACTTGTGTGGGC-TTAAAAGGAAAAGACGTCCTACTCTTTGAG
2987528 GACTAGAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 13 0.32
45 27 0.68
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (44 bp):
AACTTGTGTGGGCTTAAAAGGAAAAGACGTCCTACTCTTTGAGA
Found at i:2987686 original size:61 final size:61
Alignment explanation
Indices: 2987484--2988363 Score: 1111
Period size: 61 Copynumber: 14.5 Consensus size: 61
2987474 CTTTTTGAGA
*
2987484 AACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACC
* *
2987546 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCCTTGAGGACTAGAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACC
* * * * * *
2987608 AACTTGTATGGGCTTTAAAAGGAAAAGACATCCTACTCCTTGAGGATTGAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
** *
2987669 AACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTGCTCTTTGAGGACT-AGAAGGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACC
* * * * *
2987730 AACTTGTGTGGGCTTCAAAAGGAAAATGCGTCCTGCTCTCTAAGGACTG-AAGGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
* * *
2987790 AGCTTATGTGGGCTTT-----G-AAAGGCGTCCTACTCTTTGAGGACTGGAAAA-TGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACC
* * *
2987845 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCACTTTAAGGACTGAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
* * *
2987906 AACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACTATAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACC
* * *
2987968 AACTTGTGTGGGCTTTAAAAGGAAAAGGCATTCTGCTCTTTGAGGACT-AGAAGGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACC
* * *
2988029 AACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACC
* * * *
2988091 AACTTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGC-CCTTGAAGACTGGAAAAGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACC
* * * *
2988152 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGTTCTTTGAGGACT-AGAAGGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACC
* * * * * **
2988213 AACTCGTGTGGGCTTGAAAAGAAAAAGGCATCCTGCTCTTTGAAGACT-ACAGGGTGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACC
* * * *
2988274 AACTTGTGTGGGCTTTAAAAGTAAAAGGCATCCTACTCTTTGAGGACTGAAAAATGCCACC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
2988335 AACTTGTGTGGGCTTTGAAAAGGAAAAGG
1 AACTTGTGTGGGCTTT-AAAAGGAAAAGG
2988364 ATGCCATTGA
Statistics
Matches: 711, Mismatches: 88, Indels: 38
0.85 0.11 0.05
Matches are distributed among these distances:
54 21 0.03
55 23 0.03
56 2 0.00
60 33 0.05
61 412 0.58
62 219 0.31
63 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (61 bp):
AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACC
Found at i:2987704 original size:123 final size:123
Alignment explanation
Indices: 2987484--2988363 Score: 1167
Period size: 123 Copynumber: 7.2 Consensus size: 123
2987474 CTTTTTGAGA
*
2987484 AACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAAC
* *
2987549 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCCTTGAGGACTAGAAAAGTGCCACC
65 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
* * * * * *
2987608 AACTTGTATGGGCTTTAAAAGGAAAAGACATCCTACTCCTTGAGGATTGAAAAGTGCCACCAACT
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
* * *
2987673 TGTGTGGGCTTTAAAAGGAAAAGGTATCCTGCTCTTTGAGGACTAG-AAGGTGCCACC
66 TGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
* * * * * *
2987730 AACTTGTGTGGGCTTCAAAAGGAAAATGCGTCCTGCTCTCTAAGGACTG-AAGGTGCCACCAGCT
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
* * *
2987794 TATGTGGGCTTT-----G-AAAGGCGTCCTACTCTTTGAGGACTGGAAAA-TGCCACC
66 TGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
* * *
2987845 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCACTTTAAGGACTGAAAAGTGCCACCAACT
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
** *
2987910 TGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACTATAAAAGTGCCACC
66 TGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
* * *
2987968 AACTTGTGTGGGCTTTAAAAGGAAAAGGCATTCTGCTCTTTGAGGACT-AGAAGGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAAC
*
2988032 TTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
65 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
* * * *
2988091 AACTTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGC-CCTTGAAGACTGGAAAAGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAAC
* ** *
2988155 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCTTGTTCTTTGAGGACTAG-AAGGTGCCACC
65 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
* * * * * **
2988213 AACTCGTGTGGGCTTGAAAAGAAAAAGGCATCCTGCTCTTTGAAGACT-ACAGGGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAAC
* ** *
2988277 TTGTGTGGGCTTTAAAAGTAAAAGGCATCCTACTCTTTGAGGACT-GAAAAATGCCACC
65 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
2988335 AACTTGTGTGGGCTTTGAAAAGGAAAAGG
1 AACTTGTGTGGGCTTT-AAAAGGAAAAGG
2988364 ATGCCATTGA
Statistics
Matches: 661, Mismatches: 79, Indels: 33
0.86 0.10 0.04
Matches are distributed among these distances:
115 74 0.11
116 27 0.04
121 27 0.04
122 201 0.30
123 288 0.44
124 44 0.07
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (123 bp):
AACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
TGTGTGGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACC
Found at i:2988049 original size:184 final size:184
Alignment explanation
Indices: 2987484--2988363 Score: 1138
Period size: 184 Copynumber: 4.8 Consensus size: 184
2987474 CTTTTTGAGA
**
2987484 AACTTGTGTGGGCTTTAAAAGGAAAAGACGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAAC
* *
2987549 TTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCCTTGAGGACTAGAAAAGTGCCACCAACTTG
65 TTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTG
* * * *
2987614 TATGGGCTTTAAAAGGAAAAGACATCCTACTCCTTGAGGA-TTGAAAAGTGCCACC
130 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAG-AAAGTGCCACC
* *
2987669 AACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTGCTCTTTGAGGACT-AGAAGGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAAC
* * * * * * *
2987733 TTGTGTGGGCTTCAAAAGGAAAATGCGTCCTGCTCTCTAAGGACT-G-AAGGTGCCACCAGCTTA
65 TTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTG
* * *
2987796 TGTGGGCTTT-----G-AAAGGCGTCCTACTCTTTGAGGACTGGAAAATGCCACC
130 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAGTGCCACC
* *
2987845 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCACTTTAAGGACTGAAAAGTGCCACCAACT
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
* * *
2987910 TGTGTGGGCTTTAAAAGGAAAAGACGTCCTACTCTTTGAGGACTATAAAAGTGCCACCAACTTGT
66 TGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGT
* * *
2987975 GTGGGCTTTAAAAGGAAAAGGCATTCTGCTCTTTGAGGACTAGAAGGTGCCACC
131 GTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAGTGCCACC
* *
2988029 AACTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAAC
* * * * *
2988094 TTGTATGGGCTTTAAAAGGAGAAGGCGTCCTGC-CCTTGAAGACTGGAAAAGTGCCACCAACTTG
65 TTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTG
** * ** *
2988158 TGTGGGCTTTAAAAGGAAAAGGTGTCTTGTTCTTTGAGGACTAGAAGGTGCCACC
130 TGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAGTGCCACC
* * * ** * **
2988213 AACTCGTGTGGGCTTGAAAAGAAAAAGGCATCCTGCTCTTTGAAGACT-ACAGGGTGCCACCAAC
1 AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGA-AAAGTGCCACCAAC
* * * *
2988277 TTGTGTGGGCTTTAAAAGTAAAAGGCATCCTACTCTTTGAGGACT-GAAAAATGCCACCAACTTG
65 TTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTG
2988341 TGTGGGCTTTGAAAAGGAAAAGG
130 TGTGGGCTTT-AAAAGGAAAAGG
2988364 ATGCCATTGA
Statistics
Matches: 606, Mismatches: 74, Indels: 31
0.85 0.10 0.04
Matches are distributed among these distances:
176 127 0.21
177 4 0.01
178 24 0.04
182 24 0.04
183 71 0.12
184 266 0.44
185 90 0.15
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (184 bp):
AACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACT
TGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGT
GTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGACTAGAAAGTGCCACC
Found at i:2988465 original size:34 final size:32
Alignment explanation
Indices: 2988357--2988487 Score: 120
Period size: 34 Copynumber: 4.0 Consensus size: 32
2988347 CTTTGAAAAG
* * *
2988357 GAAAAGGATGCCATTGAGTCAGTGGACTTGGAA
1 GAAAAAGATGCCACTGAGT-TGTGGACTTGGAA
* * * * **
2988390 GAACAAGATGGCGACTAAGCTGTGGACTTATAA
1 GAAAAAGAT-GCCACTGAGTTGTGGACTTGGAA
2988423 -AAAAAGATGCCACTGAGTTGTGGACTTTGGAA
1 GAAAAAGATGCCACTGAGTTGTGGAC-TTGGAA
* *
2988455 GGAAAAAGATGCCACTGAGTCGTGGTCTTGGAA
1 -GAAAAAGATGCCACTGAGTTGTGGACTTGGAA
2988488 AAAGATTTGA
Statistics
Matches: 77, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
31 14 0.18
32 11 0.14
33 23 0.30
34 29 0.38
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.22
Consensus pattern (32 bp):
GAAAAAGATGCCACTGAGTTGTGGACTTGGAA
Found at i:2991856 original size:17 final size:17
Alignment explanation
Indices: 2991830--2991865 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
2991820 CCTTTTTGCC
*
2991830 CTTTCTTGCTCCAATTG
1 CTTTCCTGCTCCAATTG
*
2991847 CTTTCCTGCTCCATTTG
1 CTTTCCTGCTCCAATTG
2991864 CT
1 CT
2991866 CAACAAGGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.08, C:0.33, G:0.11, T:0.47
Consensus pattern (17 bp):
CTTTCCTGCTCCAATTG
Found at i:2994858 original size:79 final size:80
Alignment explanation
Indices: 2994704--2994859 Score: 185
Period size: 79 Copynumber: 2.0 Consensus size: 80
2994694 TGGAAAATCG
* * *
2994704 GTGTTATGAAAATAAAAATCGAGGTTGGAGCATCCCCTCAGAAATAACAGGGTTAGAGTATCCCT
1 GTGTTATGAAAATAAAAATCGAGGTTGGAGCATCCCCTCAGAAATAACAGGGGTAGAATATCCCC
2994769 GATTATAAAAAATTA
66 GATTATAAAAAATTA
* ** * *
2994784 GTGTTTTGAAAAT-AAAATC-AGGGTTGGAGTGTCCCCTC-GAAAATAA-TGGGGTGGAATATCC
1 GTGTTATGAAAATAAAAATCGA-GGTTGGAGCATCCCCTCAG-AAATAACAGGGGTAGAATATCC
*
2994845 CCGATTATGAAAAAT
64 CCGATTATAAAAAAT
2994860 CGATGCTGTA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 26 0.40
79 27 0.42
80 12 0.18
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.27
Consensus pattern (80 bp):
GTGTTATGAAAATAAAAATCGAGGTTGGAGCATCCCCTCAGAAATAACAGGGGTAGAATATCCCC
GATTATAAAAAATTA
Found at i:2994914 original size:28 final size:28
Alignment explanation
Indices: 2994881--2994949 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
2994871 AAATAAGGCT
*
2994881 GGGGTTGGAGTATCCTCGCGAAAATAAC
1 GGGGTTGGAGTATCCTCGCGAAAATAAA
2994909 GGGGTTGGAGTATCCTCGCGAAAATAAA
1 GGGGTTGGAGTATCCTCGCGAAAATAAA
*
2994937 GGAGTTGGAGTAT
1 GGGGTTGGAGTAT
2994950 TCCTAATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.29, C:0.13, G:0.35, T:0.23
Consensus pattern (28 bp):
GGGGTTGGAGTATCCTCGCGAAAATAAA
Found at i:2994999 original size:107 final size:106
Alignment explanation
Indices: 2994868--2995207 Score: 292
Period size: 107 Copynumber: 3.2 Consensus size: 106
2994858 ATCGATGCTG
* * ** * *
2994868 TAGAAATAAGGCTGGGGTTGGAGTA-TCCTCGCGAAAATAACGGGGTTGGAGTATCCTC-GCGAA
1 TAGAAATAAAGCCGGGGTCAGAGTACTCCTCG-G-AAATAACGGGGTTGCAGTATCC-CAACG-A
** * *
2994931 AATAAAGGAGTTGGAGTATTCCTAATTGTG-AGAAATTAATATTT
62 AATAAAGGAGTTGGAGTACCCCTAATTGTGAAAAAATCAATATTT
* * *
2994975 TAGAAATAAAGCCGGGGTCAGAGTATCTCCTCGGAAATAACTGGGTTGCTGTATCCCAATGAAAT
1 TAGAAATAAAGCCGGGGTCAGAGTA-CTCCTCGGAAATAACGGGGTTGCAGTATCCCAACGAAAT
* * *
2995040 AACGGGGTTGGAGTACCCCTGATTGTGAAAAAATCAATATTT
65 AAAGGAGTTGGAGTACCCCTAATTGTGAAAAAATCAATATTT
* * ** * * * * * *
2995082 TAGATATAAAGCCAGATTTAGAGTATCCCCTCGGAAATAACAAGGGTCGAAGTATCCCCAATGAA
1 TAGAAATAAAGCCGGGGTCAGAGTA-CTCCTCGGAAATAAC-GGGGTTGCAGTAT-CCCAACGAA
* * **
2995147 ATAACGGGGTTGGAGTACCCCCGATTGTG-AAAAATCAATATTT
63 ATAAAGGAGTTGGAGTACCCCTAATTGTGAAAAAATCAATATTT
* *
2995190 TAGATATAAAGTCGGGGT
1 TAGAAATAAAGCCGGGGT
2995208 TGGAGTATCC
Statistics
Matches: 196, Mismatches: 31, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
106 27 0.14
107 88 0.45
108 38 0.19
109 43 0.22
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (106 bp):
TAGAAATAAAGCCGGGGTCAGAGTACTCCTCGGAAATAACGGGGTTGCAGTATCCCAACGAAATA
AAGGAGTTGGAGTACCCCTAATTGTGAAAAAATCAATATTT
Found at i:2995178 original size:109 final size:106
Alignment explanation
Indices: 2994955--2995200 Score: 348
Period size: 107 Copynumber: 2.3 Consensus size: 106
2994945 AGTATTCCTA
* * * * * * *
2994955 ATTGTGAGAAATTAATATTTTAGAAATAAAGCCGGGGTCAGAGTATCTCCTCGGAAATAACTGGG
1 ATTGTGAAAAATCAATATTTTAGATATAAAGCCAGAGTCAGAGTATCCCCTCGGAAATAACAGGG
* ** *
2995020 TTGCTGTATCCCAATGAAATAACGGGGTTGGAGTACCCCTG
66 TCGAAGTATCCCAATGAAATAACGGGGTTGGAGTACCCCCG
* *
2995061 ATTGTGAAAAAATCAATATTTTAGATATAAAGCCAGATTTAGAGTATCCCCTCGGAAATAACAAG
1 ATTGTG-AAAAATCAATATTTTAGATATAAAGCCAGAGTCAGAGTATCCCCTCGGAAATAAC-AG
2995126 GGTCGAAGTATCCCCAATGAAATAACGGGGTTGGAGTACCCCCG
64 GGTCGAAGTAT-CCCAATGAAATAACGGGGTTGGAGTACCCCCG
2995170 ATTGTGAAAAATCAATATTTTAGATATAAAG
1 ATTGTGAAAAATCAATATTTTAGATATAAAG
2995201 TCGGGGTTGG
Statistics
Matches: 124, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
106 6 0.05
107 47 0.38
108 34 0.27
109 37 0.30
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (106 bp):
ATTGTGAAAAATCAATATTTTAGATATAAAGCCAGAGTCAGAGTATCCCCTCGGAAATAACAGGG
TCGAAGTATCCCAATGAAATAACGGGGTTGGAGTACCCCCG
Found at i:2995227 original size:51 final size:50
Alignment explanation
Indices: 2995144--2995321 Score: 198
Period size: 51 Copynumber: 3.5 Consensus size: 50
2995134 TATCCCCAAT
* * * *
2995144 GAAAT-AA-CGGGGTTGGAGTACCCCCGATTGTGAAAAATCAATATTTTA
1 GAAATAAATCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTG
* * * *
2995192 GATATAAAGTCGGGGTTGGAGTATCCCTAATTGTGAAAAATTGGTATTTTG
1 GAAATAAA-TCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTG
* * *
2995243 GAAATAAAATCGGAGTTGGAGTATCCCCAATTGCGAAAAATCGATGTTTTG
1 GAAAT-AAATCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTG
* *
2995294 GAAATAAAACTGGGATTGGAGTATCCCC
1 GAAATAAATC-GGGGTTGGAGTATCCCC
2995322 GAGATGAAAA
Statistics
Matches: 107, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
48 4 0.04
49 2 0.02
50 4 0.04
51 94 0.88
52 3 0.03
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.29
Consensus pattern (50 bp):
GAAATAAATCGGGGTTGGAGTATCCCCAATTGTGAAAAATCGATATTTTG
Found at i:2997685 original size:13 final size:13
Alignment explanation
Indices: 2997669--2997698 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
2997659 GTAAATTCAG
2997669 AATGTATCGATAC
1 AATGTATCGATAC
2997682 AATGTATCGATAC
1 AATGTATCGATAC
2997695 AATG
1 AATG
2997699 AACCATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:2997725 original size:62 final size:63
Alignment explanation
Indices: 2997622--2997744 Score: 160
Period size: 62 Copynumber: 2.0 Consensus size: 63
2997612 AATGCCTGAT
* * ** *
2997622 TGTATCGATACATTGAAAAATGTATCGATACATCTGTGT-AAATTCAGAATGTATCGATACAA
1 TGTATCGATACAATGAAAAATGTATCGATACAGCTGTGTAAAACCCAAAATGTATCGATACAA
**
2997684 TGTATCGATACAATGAACCATGTATCGATACAGCTAG-GTAAAACCCAAAATGTATCGATAC
1 TGTATCGATACAATGAAAAATGTATCGATACAGCT-GTGTAAAACCCAAAATGTATCGATAC
2997745 TGAATAATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
62 33 0.63
63 19 0.37
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.28
Consensus pattern (63 bp):
TGTATCGATACAATGAAAAATGTATCGATACAGCTGTGTAAAACCCAAAATGTATCGATACAA
Found at i:3011414 original size:77 final size:77
Alignment explanation
Indices: 3011309--3011483 Score: 217
Period size: 77 Copynumber: 2.2 Consensus size: 77
3011299 ACATGTTTTC
* * * * * * *
3011309 CTTCTTTTTCTTTCATCTTCAAGTAGCAGGACGTATTTCATTTCCTTTTTTCCTTTTATCCTT-A
1 CTTCTTTTCCTTT-GTCCTCAAGGAGCAGGACGCACTTCATTTCCCTTTTTCCTTTTAT-CTTCA
3011373 AAGAGTAGGACACA
64 AAGAGTAGGACACA
* *
3011387 CTTCTTTTCCTTTGTCCTCAAGGAGCAGGATGCACTTCATTTCCCTTTTTCCTTTTGTCTTCAAA
1 CTTCTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCCTTTTTCCTTTTATCTTCAAA
**
3011452 GAGTAGGATGCA
66 GAGTAGGACACA
3011464 CTTCTTTTCCCTTTGTCCTC
1 CTTCTTTT-CCTTTGTCCTC
3011484 GAAGAATAGG
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
76 3 0.04
77 58 0.69
78 23 0.27
ACGTcount: A:0.18, C:0.25, G:0.13, T:0.44
Consensus pattern (77 bp):
CTTCTTTTCCTTTGTCCTCAAGGAGCAGGACGCACTTCATTTCCCTTTTTCCTTTTATCTTCAAA
GAGTAGGACACA
Found at i:3011460 original size:43 final size:43
Alignment explanation
Indices: 3011391--3011482 Score: 132
Period size: 43 Copynumber: 2.2 Consensus size: 43
3011381 GACACACTTC
*
3011391 TTTTCC-TTTGTCCTCAAGGAGCAGGATGCACTTCATTTCCCT
1 TTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTCATTTCCCT
* * *
3011433 TTTTCCTTTTGTCTTCAAAGAGTAGGATGCACTTCTTTTCCCT
1 TTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTCATTTCCCT
*
3011476 TTGTCCT
1 TTTTCCT
3011483 CGAAGAATAG
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 6 0.14
43 38 0.86
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (43 bp):
TTTTCCTTTTGTCCTCAAAGAGCAGGATGCACTTCATTTCCCT
Done.