Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 64140413
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 820884 characters in sequence are not A, C, G, or T
File 59 of 208
Found at i:16858085 original size:29 final size:29
Alignment explanation
Indices: 16858050--16858117 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 29
16858040 ATCAACGAAT
*
16858050 GAAAAGGGATAGCTTTAGCTATCGAATAC
1 GAAAAGGGATAGCTTCAGCTATCGAATAC
* * * *
16858079 GGAAAGGGATATCTTCAGCTATCGATTAT
1 GAAAAGGGATAGCTTCAGCTATCGAATAC
16858108 GAAAAGGGAT
1 GAAAAGGGAT
16858118 GGTGACGACC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (29 bp):
GAAAAGGGATAGCTTCAGCTATCGAATAC
Found at i:16858138 original size:29 final size:29
Alignment explanation
Indices: 16858106--16858177 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
16858096 GCTATCGATT
*
16858106 ATGAAAAGGGATGGTGACGACCGTCAATA-
1 ATGAAAAGGGATGGTGACGACCATCAA-AC
*
16858135 ATGAAAAGGCATGGTGACGACCATCAAAC
1 ATGAAAAGGGATGGTGACGACCATCAAAC
16858164 TATG-AAAGGGATGG
1 -ATGAAAAGGGATGG
16858178 CTTCGGCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 1 0.03
29 34 0.89
30 3 0.08
ACGTcount: A:0.39, C:0.14, G:0.31, T:0.17
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCAAAC
Found at i:16858253 original size:30 final size:30
Alignment explanation
Indices: 16858103--16858295 Score: 164
Period size: 30 Copynumber: 6.5 Consensus size: 30
16858093 TCAGCTATCG
* *
16858103 ATTATGAAAAGGGATGGTGACGACCGTC-A
1 ATTATGAAAAGGGATGCTGACGACCATCAA
* * *
16858132 ATAATGAAAAGGCATGGTGACGACCATCAA
1 ATTATGAAAAGGGATGCTGACGACCATCAA
* * * * *
16858162 ACTATG-AAAGGGATGGCT-TCGGCTATCGA
1 ATTATGAAAAGGGAT-GCTGACGACCATCAA
* * * *
16858191 TTTATGAAAAAGGATAGCT-TC-AGCTAAT-AA
1 ATTATGAAAAGGGAT-GCTGACGA-C-CATCAA
*
16858221 ATTATGAAAAGGGATTCTGACGACCATCAA
1 ATTATGAAAAGGGATGCTGACGACCATCAA
*
16858251 ATTATGAAAAGGGATGCTGACGACTATCAA
1 ATTATGAAAAGGGATGCTGACGACCATCAA
16858281 ATTATGAAAAGGGAT
1 ATTATGAAAAGGGAT
16858296 AACTTTGGTT
Statistics
Matches: 131, Mismatches: 25, Indels: 15
0.77 0.15 0.09
Matches are distributed among these distances:
29 47 0.36
30 81 0.62
31 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
ATTATGAAAAGGGATGCTGACGACCATCAA
Found at i:16858325 original size:90 final size:89
Alignment explanation
Indices: 16858135--16858300 Score: 217
Period size: 90 Copynumber: 1.9 Consensus size: 89
16858125 ACCGTCAATA
* * * * * *
16858135 ATGAAAAGGCATGGTGACGACCATCAAACTATGAAAGGGATGGCTTCGGCTATCGATTTATGAAA
1 ATGAAAAGGGATGCTGACGACCATCAAACTATGAAAGGGATGGCTACGACTATCAAATTATGAAA
*
16858200 AAGGATAGCTTCAGCTAATAAATT
66 AAGGATAACTTCAGCTAATAAATT
* *
16858224 ATGAAAAGGGATTCTGACGACCATCAAATTATGAAAAGGGAT-GCTGACGACTATCAAATTATGA
1 ATGAAAAGGGATGCTGACGACCATCAAACTATG-AAAGGGATGGCT-ACGACTATCAAATTATGA
*
16858288 AAAGGGATAACTT
64 AAAAGGATAACTT
16858301 TGGTTATTGA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
89 32 0.49
90 33 0.51
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.24
Consensus pattern (89 bp):
ATGAAAAGGGATGCTGACGACCATCAAACTATGAAAGGGATGGCTACGACTATCAAATTATGAAA
AAGGATAACTTCAGCTAATAAATT
Found at i:16862288 original size:21 final size:20
Alignment explanation
Indices: 16862262--16862325 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 20
16862252 TCAATTTCAG
16862262 CAACTTCCTATTCTTTAGCAA
1 CAACTTCCT-TTCTTTAGCAA
*
16862283 CAACTT-C-TTCTTCAGCAA
1 CAACTTCCTTTCTTTAGCAA
16862301 CAACTTCC--TCTTCT-GCAA
1 CAACTTCCTTTCTT-TAGCAA
16862319 CAACTTC
1 CAACTTC
16862326 TGCTTTTGCA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
18 31 0.79
19 1 0.03
20 1 0.03
21 6 0.15
ACGTcount: A:0.27, C:0.34, G:0.05, T:0.34
Consensus pattern (20 bp):
CAACTTCCTTTCTTTAGCAA
Found at i:16862293 original size:18 final size:18
Alignment explanation
Indices: 16862272--16862331 Score: 77
Period size: 18 Copynumber: 3.3 Consensus size: 18
16862262 CAACTTCCTA
16862272 TTCTTTAGCAACAACTTC
1 TTCTTTAGCAACAACTTC
*
16862290 TTCTTCAGCAACAACTTC
1 TTCTTTAGCAACAACTTC
*
16862308 CTCTTCT-GCAACAACTTC
1 TTCTT-TAGCAACAACTTC
*
16862326 TGCTTT
1 TTCTTT
16862332 TGCAGCATCA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.03
18 35 0.97
ACGTcount: A:0.23, C:0.32, G:0.07, T:0.38
Consensus pattern (18 bp):
TTCTTTAGCAACAACTTC
Found at i:16862356 original size:36 final size:35
Alignment explanation
Indices: 16862279--16862357 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
16862269 CTATTCTTTA
16862279 GCAACAACTTCTTCTTCAGCAACAACTTCCTCTTCT
1 GCAACAACTTCTTCTTCAGCAACAACTT-CTCTTCT
* *
16862315 GCAACAACTTCTGCTTTTGCAGCATCAACTT-TCTTCT
1 GCAACAACTTCT--TCTT-CAGCAACAACTTCTCTTCT
16862352 -CAACAA
1 GCAACAA
16862358 TAGTGTCTTC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
36 18 0.47
37 6 0.16
38 3 0.08
39 11 0.29
ACGTcount: A:0.27, C:0.33, G:0.08, T:0.33
Consensus pattern (35 bp):
GCAACAACTTCTTCTTCAGCAACAACTTCTCTTCT
Found at i:16866215 original size:51 final size:50
Alignment explanation
Indices: 16866139--16866332 Score: 187
Period size: 51 Copynumber: 3.8 Consensus size: 50
16866129 TATAAACACG
*
16866139 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAA-AGAT-ATGGTCACA
* * * * *
16866190 TGTGTAGTACTATGTGCAGACTACTATGTGTATCGGAAGGCTTTGGTCA-A
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAAGATATGGTCACA
* * * * * *
16866240 GTGTGTAGTACTATGTGCAGGCTACTACGTG-AACCAAAAAGTTTGATCACG
1 -TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAGA-TATGGTCACA
* * *
16866291 TGTGTAGTACTATGTGAAGGCTACAACGTGTATCGAATGATA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAGATA
16866333 ATAATTACAC
Statistics
Matches: 115, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 70 0.61
52 2 0.02
53 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAAGATATGGTCACA
Found at i:16872353 original size:296 final size:296
Alignment explanation
Indices: 16871830--16872410 Score: 921
Period size: 296 Copynumber: 2.0 Consensus size: 296
16871820 CTTGATTGGT
* *
16871830 TGTTTAACGTCACAACAATAATGTGCAAGCATATACTGTCAGTGCAAGTATAGTAGGCAGATGTG
1 TGTTTAACGTCACAACAAAAATGTGCAAGCATACACTGTCAGTGCAAGTATAGTAGGCAGATGTG
*
16871895 AGTTTGTCAGATATCGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCGATGCAATAACT
66 AGTTTGTCAGATAACGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCGATGCAATAACT
* *
16871960 TGATAATAACGATATAAATTGCGACAATAGTTGTCGATGTAATAACTTGAGAACAATAAAATAAA
131 TGATAATAACGATATAAATTGCGACAATAGTTGTCGATGCAATAACCTGAGAACAATAAAATAAA
* * * *
16872025 ATATGATAATGATAAACCGGAATTCCCAACATGAATCTTCAGTAGAATACTAAGTGCTTATGAGG
196 ATATGATAATGATAAACCGGAATCCCCAACATGAATCTTCAGCAGAATACTAAGTGCTCACGAGG
16872090 TATAAAAGTATAGGTGATTGTCGATACTTGATCAGC
261 TATAAAAGTATAGGTGATTGTCGATACTTGATCAGC
** * *
16872126 TGTTTAACGTCACAGTAAAAATGTGCAAGCGTACACTGTCAGTGCAAGTATAGTAGGTAGATGTG
1 TGTTTAACGTCACAACAAAAATGTGCAAGCATACACTGTCAGTGCAAGTATAGTAGGCAGATGTG
* **
16872191 AGTTTGTC-GAATAACGATCCCACAGGGATGGGTGTCTTTTGTCTATTAATGTCGATGCAATAAC
66 AGTTTGTCAG-ATAACGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCGATGCAATAAC
* * ** * *
16872255 TTGATAGTAACGATATAAATTGTGAGGATAGTTGTTGATGCAATAACCTGAGAAGAATAAAATAA
130 TTGATAATAACGATATAAATTGCGACAATAGTTGTCGATGCAATAACCTGAGAACAATAAAATAA
** *
16872320 AATATGATAATGATAAATTGGGATCCCCAACATGAATCTTCAGCAGAATACTAAGTGCTCACGAG
195 AATATGATAATGATAAACCGGAATCCCCAACATGAATCTTCAGCAGAATACTAAGTGCTCACGAG
16872385 GTATAAAAGTATAGGTGATTGTCGAT
260 GTATAAAAGTATAGGTGATTGTCGAT
16872411 GCAATAAAAT
Statistics
Matches: 259, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
295 1 0.00
296 258 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.29
Consensus pattern (296 bp):
TGTTTAACGTCACAACAAAAATGTGCAAGCATACACTGTCAGTGCAAGTATAGTAGGCAGATGTG
AGTTTGTCAGATAACGATCCCACAGAGATGGGAATCTTTTGTCTATTAATGTCGATGCAATAACT
TGATAATAACGATATAAATTGCGACAATAGTTGTCGATGCAATAACCTGAGAACAATAAAATAAA
ATATGATAATGATAAACCGGAATCCCCAACATGAATCTTCAGCAGAATACTAAGTGCTCACGAGG
TATAAAAGTATAGGTGATTGTCGATACTTGATCAGC
Found at i:16881416 original size:42 final size:43
Alignment explanation
Indices: 16881278--16881439 Score: 118
Period size: 42 Copynumber: 3.8 Consensus size: 43
16881268 AGCTCGTACA
** * * * *
16881278 ATGCCAACGTCTTAGACTTGATCTTACATGTAATCACATAT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAA-CACAAATACG
* * * *
16881321 ATGCC-ACTATCCTAGATAGGGTCTTACACG-AA-ACAAATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAACACAAATACG
* * * *
16881362 ATGTCAATGTCCCAGACATGGTTTTACACGTAACACAAGT-CG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAACACAAATACG
**
16881404 ATGCCAACGTCCCAGATGTGGTCTTACACGATAACA
1 ATGCCAACGTCCCAGACATGGTCTTACACG-TAACA
16881440 TATATCAGAA
Statistics
Matches: 92, Mismatches: 21, Indels: 12
0.74 0.17 0.10
Matches are distributed among these distances:
40 5 0.05
41 23 0.25
42 34 0.37
43 30 0.33
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAACACAAATACG
Found at i:16881645 original size:26 final size:26
Alignment explanation
Indices: 16881609--16881700 Score: 78
Period size: 26 Copynumber: 3.4 Consensus size: 26
16881599 TCACCATGTA
16881609 ACATTTATATATTATCAAATTTAATG
1 ACATTTATATATTATCAAATTTAATG
** * *
16881635 ACATTTATATAAAATTC-CATTCATCATG
1 ACATTTATATATTA-TCAAATT--TAATG
* *
16881663 TAACATTGATATATTATCAAATTTAACG
1 --ACATTTATATATTATCAAATTTAATG
16881691 ACATTTATAT
1 ACATTTATAT
16881701 GCTTATAGAC
Statistics
Matches: 49, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
26 24 0.49
27 2 0.04
28 7 0.14
29 2 0.04
30 14 0.29
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.42
Consensus pattern (26 bp):
ACATTTATATATTATCAAATTTAATG
Found at i:16881669 original size:30 final size:30
Alignment explanation
Indices: 16881589--16881675 Score: 76
Period size: 26 Copynumber: 3.0 Consensus size: 30
16881579 TATATTCACA
*
16881589 AAAATTCCATTCACCATGTAACATTTATAT
1 AAAATTCCATTCATCATGTAACATTTATAT
** * *
16881619 ATTA-TCAAATT--TAATG--ACATTTATAT
1 AAAATTC-CATTCATCATGTAACATTTATAT
*
16881645 AAAATTCCATTCATCATGTAACATTGATAT
1 AAAATTCCATTCATCATGTAACATTTATAT
16881675 A
1 A
16881676 TTATCAAATT
Statistics
Matches: 41, Mismatches: 10, Indels: 12
0.65 0.16 0.19
Matches are distributed among these distances:
26 15 0.37
27 2 0.05
28 7 0.17
29 2 0.05
30 15 0.37
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (30 bp):
AAAATTCCATTCATCATGTAACATTTATAT
Found at i:16881675 original size:56 final size:56
Alignment explanation
Indices: 16881589--16881700 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
16881579 TATATTCACA
* *
16881589 AAAATTCCATTCACCATGTAACATTTATATATTATCAAATTTAATGACATTTATAT
1 AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
*
16881645 AAAATTCCATTCATCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
1 AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
16881701 GCTTATAGAC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.41, C:0.14, G:0.04, T:0.40
Consensus pattern (56 bp):
AAAATTCCATTCACCATGTAACATTGATATATTATCAAATTTAACGACATTTATAT
Found at i:16885697 original size:42 final size:40
Alignment explanation
Indices: 16885547--16885710 Score: 127
Period size: 42 Copynumber: 3.9 Consensus size: 40
16885537 GAAGCTCGTA
* *
16885547 CAATGCCAACGTCCTGGACGTGGTCTTACATGTAATCACATAT
1 CAATGCCAACGTCC-AGACGTGGTCTTACACGTAA-CACA-AT
** *
16885590 TGATGCC-ACTGTTCCAGACAG-GGTCTTACACGAAACA-AAT
1 CAATGCCAAC-G-TCCAGAC-GTGGTCTTACACGTAACACAAT
* * **
16885630 ACAATGCCAATGTCCCAAAAATGGTCTTACACGTAACACAAGT
1 -CAATGCCAACGT-CCAGACGTGGTCTTACACGTAACACAA-T
16885673 CAATGCCAACGTACCAGACGTGGTCTTACACGATAACA
1 CAATGCCAACGT-CCAGACGTGGTCTTACACG-TAACA
16885711 TATATTAGAA
Statistics
Matches: 94, Mismatches: 17, Indels: 20
0.72 0.13 0.15
Matches are distributed among these distances:
40 3 0.03
41 26 0.28
42 34 0.36
43 27 0.29
44 4 0.04
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
CAATGCCAACGTCCAGACGTGGTCTTACACGTAACACAAT
Found at i:16890684 original size:27 final size:27
Alignment explanation
Indices: 16890643--16890878 Score: 207
Period size: 27 Copynumber: 8.7 Consensus size: 27
16890633 CAGAAAGGTT
*
16890643 GTAAAATTAGT-GAAATACCCTCGACAG
1 GTAAAATTA-TCGAAATACCCTCGATAG
* *
16890670 GTAAAATTATCGAAACACCCCCGA-AGG
1 GTAAAATTATCGAAATACCCTCGATA-G
* * *
16890697 GTAAAATTACCGAAATACCCTTGATGG
1 GTAAAATTATCGAAATACCCTCGATAG
* *
16890724 GTAAAATTACCAAAATACCCTCGATAG
1 GTAAAATTATCGAAATACCCTCGATAG
*
16890751 GTTAAATTATCGAAATACCC-CTGA-AG
1 GTAAAATTATCGAAATACCCTC-GATAG
* *
16890777 TGTAAAATTATCAAAATAACCC-C-AAAGG
1 -GTAAAATTATCGAAAT-ACCCTCGATA-G
** * * *
16890805 GTAAAGCTATCGAAATTCCCTTGAAAG
1 GTAAAATTATCGAAATACCCTCGATAG
*
16890832 GTAAAATTA-CTGAAATACCCTCGATGG
1 GTAAAATTATC-GAAATACCCTCGATAG
16890859 GTAAAATTATCGAAATACCC
1 GTAAAATTATCGAAATACCC
16890879 CCGTAAGGTA
Statistics
Matches: 171, Mismatches: 26, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
26 10 0.06
27 151 0.88
28 10 0.06
ACGTcount: A:0.41, C:0.20, G:0.16, T:0.23
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATAG
Found at i:16890807 original size:81 final size:81
Alignment explanation
Indices: 16890655--16890880 Score: 233
Period size: 81 Copynumber: 2.8 Consensus size: 81
16890645 AAAATTAGTG
* * * * *
16890655 AAATACCCTCGACAGGTAAAATTATCGAAACACCCCCGAAGGGTAAAATTACCGAAAT-ACCCTT
1 AAATACCCTCGAAAGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATCGAAATAACCC-C
* * *
16890719 GATGGGTAAAATTACCA
65 AAAGGGTAAAACTACCA
* * * *
16890736 AAATACCCTCGATAGGTTAAATTATCGAAATACCCCTGAAGTGTAAAATTATCAAAATAACCCCA
1 AAATACCCTCGAAAGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATCGAAATAACCCCA
* * *
16890801 AAGGGTAAAGCTATCG
66 AAGGGTAAAACTACCA
* * * *
16890817 AAATTCCCTTGAAAGGTAAAATTA-CTGAAATA-CCCTCGATGGGTAAAATTATCGAAATACCCC
1 AAATACCCTCGAAAGGTAAAATTATC-GAAATACCCCT-GAAGGGTAAAATTATCGAAATAACCC
16890880 C
64 C
16890881 GTAAGGTACA
Statistics
Matches: 120, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 5 0.04
81 111 0.93
82 4 0.03
ACGTcount: A:0.41, C:0.22, G:0.15, T:0.23
Consensus pattern (81 bp):
AAATACCCTCGAAAGGTAAAATTATCGAAATACCCCTGAAGGGTAAAATTATCGAAATAACCCCA
AAGGGTAAAACTACCA
Found at i:16891944 original size:16 final size:17
Alignment explanation
Indices: 16891912--16891944 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
16891902 TTTCAAGAAG
16891912 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
16891930 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
16891945 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:16892279 original size:21 final size:21
Alignment explanation
Indices: 16892255--16892302 Score: 66
Period size: 19 Copynumber: 2.4 Consensus size: 21
16892245 TATTTCATTC
16892255 ATTAAAACATATCATATATAT
1 ATTAAAACATATCATATATAT
*
16892276 ATT-AAA-GTATCATATATAT
1 ATTAAAACATATCATATATAT
16892295 A-TAAAACA
1 ATTAAAACA
16892303 ACCATCAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 1 0.04
19 16 0.70
20 3 0.13
21 3 0.13
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.35
Consensus pattern (21 bp):
ATTAAAACATATCATATATAT
Found at i:16915878 original size:27 final size:27
Alignment explanation
Indices: 16915846--16915901 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
16915836 TAAATGGTTC
* * *
16915846 AACGAGTATGAAAAGGGAAGGAATGGT
1 AACGAGAATGAAAAGGGAAAGAACGGT
16915873 AACGAGAATGAAAAGGGAAAGAACGGT
1 AACGAGAATGAAAAGGGAAAGAACGGT
16915900 AA
1 AA
16915902 GTATTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.50, C:0.05, G:0.34, T:0.11
Consensus pattern (27 bp):
AACGAGAATGAAAAGGGAAAGAACGGT
Found at i:16927211 original size:20 final size:20
Alignment explanation
Indices: 16927168--16927215 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
16927158 TCGGTCTACA
* *
16927168 GTGCCCCTGTTTGCACATTT
1 GTGCTCCTGTTTGCACATTG
16927188 GTGCTCCTGTTTGCAC-TCTG
1 GTGCTCCTGTTTGCACAT-TG
16927208 GTGCTCCT
1 GTGCTCCT
16927216 ATTATGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.06, C:0.31, G:0.23, T:0.40
Consensus pattern (20 bp):
GTGCTCCTGTTTGCACATTG
Found at i:16933047 original size:20 final size:20
Alignment explanation
Indices: 16933022--16933083 Score: 97
Period size: 20 Copynumber: 3.1 Consensus size: 20
16933012 TTGTACGGGA
16933022 TTTTCACTTTGGTGCCCCTG
1 TTTTCACTTTGGTGCCCCTG
16933042 TTTTCACTTTGGTGCCCCTG
1 TTTTCACTTTGGTGCCCCTG
* * *
16933062 TATACACTTTGGTGTCCCTG
1 TTTTCACTTTGGTGCCCCTG
16933082 TT
1 TT
16933084 CGCACTACGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.08, C:0.27, G:0.19, T:0.45
Consensus pattern (20 bp):
TTTTCACTTTGGTGCCCCTG
Found at i:16934765 original size:34 final size:33
Alignment explanation
Indices: 16934698--16934785 Score: 117
Period size: 34 Copynumber: 2.6 Consensus size: 33
16934688 GTATATTTTT
16934698 TATATATTGCCGAATTGA-TT-TATATGTAGATA
1 TATATATTG-CGAATTGATTTGTATATGTAGATA
* *
16934730 TATACATTGTCGAATTGATTTGTATATGTATATA
1 TATATATTG-CGAATTGATTTGTATATGTAGATA
16934764 TATATATTGCTGAATTGATTTG
1 TATATATTGC-GAATTGATTTG
16934786 AGATTCCGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 16 0.33
33 3 0.06
34 30 0.61
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.47
Consensus pattern (33 bp):
TATATATTGCGAATTGATTTGTATATGTAGATA
Found at i:16934877 original size:92 final size:90
Alignment explanation
Indices: 16934780--16935005 Score: 294
Period size: 92 Copynumber: 2.5 Consensus size: 90
16934770 TTGCTGAATT
*
16934780 GATTTGAGATTCCGTATAAGACCATACCTGAGATATGGCATTGGCATCGATTTGAGATCCCGTAT
1 GATTTGAGATTCCGTATAAGACCATACCTGAGATATGGCATCGGCATCGATTTGAGATCCCGTAT
* *
16934845 AAGATCATATATTGGATATGGCATCAC
66 AAGACCATATATGGGATATGGCAT--C
* * *
16934872 GATTTGAGATCCCGTATAAGACCATATCT-AGGATATGACATCGGCATCGATTTGAGATCCCGTA
1 GATTTGAGATTCCGTATAAGACCATACCTGA-GATATGGCATCGGCATCGATTTGAGATCCCGTA
*
16934936 TAAGACCATATCTGGGATATGGCATC
65 TAAGACCATATATGGGATATGGCATC
* * * *
16934962 GATATGAGACTT-CGTCTAAGACCATAGCTGAGCTATTGGCATCG
1 GATTTGAGA-TTCCGTATAAGACCATACCTGAGATA-TGGCATCG
16935006 ATATGAGATT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
90 27 0.23
91 10 0.09
92 80 0.68
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.29
Consensus pattern (90 bp):
GATTTGAGATTCCGTATAAGACCATACCTGAGATATGGCATCGGCATCGATTTGAGATCCCGTAT
AAGACCATATATGGGATATGGCATC
Found at i:16934962 original size:48 final size:48
Alignment explanation
Indices: 16934780--16934962 Score: 257
Period size: 48 Copynumber: 3.9 Consensus size: 48
16934770 TTGCTGAATT
* * * *
16934780 GATTTGAGATTCCGTATAAGACCATACCTGAGATATGGCATTGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
* * *
16934828 GATTTGAGATCCCGTATAAGATCATATATTGGATATGGCAT---CA-C
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
* *
16934872 GATTTGAGATCCCGTATAAGACCATATCTAGGATATGACATCGGCATC
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
16934920 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCG
1 GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCG
16934963 ATATGAGACT
Statistics
Matches: 119, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
44 38 0.32
45 2 0.02
47 2 0.02
48 77 0.65
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (48 bp):
GATTTGAGATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATC
Found at i:16934982 original size:42 final size:43
Alignment explanation
Indices: 16934784--16935031 Score: 173
Period size: 48 Copynumber: 5.5 Consensus size: 43
16934774 TGAATTGATT
* * *
16934784 TGAGATTCCGTATAAGACCATACCTGAGATATGGCATTGGCATCGATT
1 TGAGATCCCGTATAAGACCATAGCTGAG--AT---ATTGGCATCGATA
* ** *
16934832 TGAGATCCCGTATAAGATCATATATTG-GATA-TGGCATCACGATT
1 TGAGATCCCGTATAAGACCATA-GCTGAGATATTGGCAT--CGATA
* *
16934876 TGAGATCCCGTATAAGACCATATCT-AGGATATGACATCGGCATCGATT
1 TGAGATCCCGTATAAGACCATAGCTGA-GATAT----T-GGCATCGATA
* *
16934924 TGAGATCCCGTATAAGACCATATCTGGGATA-TGGCATCGATA
1 TGAGATCCCGTATAAGACCATAGCTGAGATATTGGCATCGATA
* * *
16934966 TGAGA-CTTCGTCTAAGACCATAGCTGAGCTATTGGCATCGATA
1 TGAGATC-CCGTATAAGACCATAGCTGAGATATTGGCATCGATA
* *
16935009 TGAGATTCCCATGTAAGACCATA
1 TGAGA-TCCCGTATAAGACCATA
16935032 TCTAGGACAT
Statistics
Matches: 167, Mismatches: 17, Indels: 36
0.76 0.08 0.16
Matches are distributed among these distances:
41 1 0.01
42 39 0.23
43 19 0.11
44 42 0.25
45 1 0.01
46 2 0.01
48 55 0.33
49 3 0.02
50 5 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
TGAGATCCCGTATAAGACCATAGCTGAGATATTGGCATCGATA
Found at i:16938548 original size:3 final size:3
Alignment explanation
Indices: 16938540--16938579 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
16938530 CCTACTTATT
16938540 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
16938580 CGAAAGAACG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:16947516 original size:19 final size:20
Alignment explanation
Indices: 16947494--16947540 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
16947484 CTTTTTTTCT
16947494 TTTTTTTTTGCGCTTTTTG-
1 TTTTTTTTTGCGCTTTTTGC
**
16947513 TTTTTTTTTGTTCTTTTTGC
1 TTTTTTTTTGCGCTTTTTGC
16947533 TTTTTTTT
1 TTTTTTTT
16947541 AAAGAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.81
Consensus pattern (20 bp):
TTTTTTTTTGCGCTTTTTGC
Found at i:16947516 original size:20 final size:20
Alignment explanation
Indices: 16947487--16947540 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 20
16947477 TAGGCAACTT
*
16947487 TTTTTCTTTTTTTTTTGCGC
1 TTTTTGTTTTTTTTTTGCGC
**
16947507 TTTTTG-TTTTTTTTTGTTC
1 TTTTTGTTTTTTTTTTGCGC
16947526 TTTTTGCTTTTTTTT
1 TTTTTG-TTTTTTTT
16947541 AAAGAATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 17 0.59
20 5 0.17
21 7 0.24
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.81
Consensus pattern (20 bp):
TTTTTGTTTTTTTTTTGCGC
Found at i:16948116 original size:34 final size:34
Alignment explanation
Indices: 16948073--16948141 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
16948063 TATAGGCAAA
16948073 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
1 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
16948107 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
1 ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
16948141 A
1 A
16948142 AAATTATCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (34 bp):
ATACAAGAGTAATTGAACCCTAATAAAACTCTTT
Found at i:16948789 original size:4 final size:4
Alignment explanation
Indices: 16948780--16948815 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
16948770 CGATTTAGTC
16948780 TTTA TTTA TTTA -TTA TTTA -TTA TTTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
16948816 TTATTAAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 9 0.31
4 20 0.69
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:16948795 original size:7 final size:7
Alignment explanation
Indices: 16948780--16948821 Score: 68
Period size: 7 Copynumber: 6.0 Consensus size: 7
16948770 CGATTTAGTC
16948780 TTTATTTA
1 TTTA-TTA
16948788 TTTATTA
1 TTTATTA
16948795 TTTATTA
1 TTTATTA
16948802 TTTATTA
1 TTTATTA
16948809 TTTATT-
1 TTTATTA
16948815 TTTATTA
1 TTTATTA
16948822 AATTTGATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.18
7 23 0.70
8 4 0.12
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TTTATTA
Found at i:16951141 original size:9 final size:9
Alignment explanation
Indices: 16951114--16951151 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
16951104 TTAAATCAGA
*
16951114 ATATTTTAT
1 ATATTTAAT
*
16951123 -TATTTTAT
1 ATATTTAAT
16951131 ATATTTAAT
1 ATATTTAAT
16951140 ATATTTAAT
1 ATATTTAAT
16951149 ATA
1 ATA
16951152 AATTTATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 8 0.30
9 19 0.70
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATATTTAAT
Found at i:16962910 original size:12 final size:13
Alignment explanation
Indices: 16962886--16962914 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16962876 GGGTTATAAC
16962886 TATTGCATTTATT
1 TATTGCATTTATT
16962899 TATTGC-TTTATT
1 TATTGCATTTATT
16962911 TATT
1 TATT
16962915 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:16968773 original size:17 final size:17
Alignment explanation
Indices: 16968753--16968786 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16968743 TCGATAGCAG
*
16968753 ATCAGATTACTAATTGT
1 ATCAAATTACTAATTGT
*
16968770 ATCAAATTACTCATTGT
1 ATCAAATTACTAATTGT
16968787 CGAGGCATCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (17 bp):
ATCAAATTACTAATTGT
Found at i:16969063 original size:27 final size:27
Alignment explanation
Indices: 16969033--16969131 Score: 94
Period size: 27 Copynumber: 3.7 Consensus size: 27
16969023 CTTCCAAGCG
*
16969033 ATCTATAAAAAGGAAGCCTTTATGGCA
1 ATCTATGAAAAGGAAGCCTTTATGGCA
* ** *
16969060 ATCTATGAAAGGGAAAACTCTATGGCA
1 ATCTATGAAAAGGAAGCCTTTATGGCA
* *
16969087 ATCTGA-GAAAAGGAATCCTTTA-GGCT
1 ATCT-ATGAAAAGGAAGCCTTTATGGCA
* *
16969113 ACCTATGAAATGGAAGCCT
1 ATCTATGAAAAGGAAGCCT
16969132 ACGTGGCAGA
Statistics
Matches: 57, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
25 1 0.02
26 17 0.30
27 38 0.67
28 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (27 bp):
ATCTATGAAAAGGAAGCCTTTATGGCA
Found at i:16970632 original size:15 final size:17
Alignment explanation
Indices: 16970612--16970644 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16970602 TTTTTGTCTC
16970612 AATAAT-AAT-GTTTTA
1 AATAATAAATAGTTTTA
16970627 AATAATAAATAGTTTTA
1 AATAATAAATAGTTTTA
16970644 A
1 A
16970645 GCATCATCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 3 0.19
17 7 0.44
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (17 bp):
AATAATAAATAGTTTTA
Found at i:16970709 original size:2 final size:2
Alignment explanation
Indices: 16970702--16970726 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16970692 ACAAATAACA
16970702 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 A
16970727 ATTGCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16988059 original size:25 final size:20
Alignment explanation
Indices: 16987999--16988068 Score: 122
Period size: 20 Copynumber: 3.5 Consensus size: 20
16987989 TGAACCACTC
*
16987999 CATTTACTTACTTACCATTT
1 CATTTACTTACTTTCCATTT
16988019 CATTTACTTACTTTCCATTT
1 CATTTACTTACTTTCCATTT
*
16988039 CATTTACTTACTTTCCATTC
1 CATTTACTTACTTTCCATTT
16988059 CATTTACTTA
1 CATTTACTTA
16988069 TCATAAGCTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (20 bp):
CATTTACTTACTTTCCATTT
Found at i:16989553 original size:12 final size:12
Alignment explanation
Indices: 16989538--16989563 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16989528 ACATTTCCTT
16989538 ACCATCAACTTA
1 ACCATCAACTTA
16989550 ACCATCAACTTA
1 ACCATCAACTTA
16989562 AC
1 AC
16989564 TAACACAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (12 bp):
ACCATCAACTTA
Found at i:17001356 original size:5 final size:5
Alignment explanation
Indices: 17001348--17001384 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
17001338 ATTTATGTAT
17001348 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TA
17001385 ATGAATGGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:17004403 original size:17 final size:14
Alignment explanation
Indices: 17004364--17004400 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
17004354 CATTCCGGTA
17004364 CACGTAGTATCCCG
1 CACGTAGTATCCCG
17004378 CACGTAGTATCCCG
1 CACGTAGTATCCCG
*
17004392 CACATAGTA
1 CACGTAGTA
17004401 GTACACACGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.22
Consensus pattern (14 bp):
CACGTAGTATCCCG
Found at i:17010010 original size:51 final size:50
Alignment explanation
Indices: 17009952--17010087 Score: 193
Period size: 50 Copynumber: 2.7 Consensus size: 50
17009942 TCGGTTCACA
*
17009952 TAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACC--TATCATTCCGATACACG
* *
17010003 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCATTCCGGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGATACACG
* * *
17010053 TAGTATCCCGCACATAGTACTACACACGTGACCTA
1 TAGTAGCCTGCACATAGTACTACACATGTGACCTA
17010088 GCAACTTCAC
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
49 4 0.05
50 41 0.53
51 32 0.42
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCTATCATTCCGATACACG
Found at i:17012018 original size:26 final size:26
Alignment explanation
Indices: 17011982--17012031 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
17011972 TTGAATTTTC
17011982 TCAAAATTTTA-TCAGGGGTAAAATCA
1 TCAAAATTTTACT-AGGGGTAAAATCA
*
17012008 TCAAATTTTTACTAGGGGTAAAAT
1 TCAAAATTTTACTAGGGGTAAAAT
17012032 TGGGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (26 bp):
TCAAAATTTTACTAGGGGTAAAATCA
Found at i:17013477 original size:27 final size:27
Alignment explanation
Indices: 17013422--17013529 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 27
17013412 AGGCGTTCCA
* **
17013422 TTCAGAATTTGCCACAAAGGCAT-CCCT
1 TTCAGAGTTTGCCACAAAGG-ATATTCT
17013449 TTCAGAGTTTGCCACAAAGGATATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
* ** *
17013476 TTCAAAGTTCACCACAAAGGTTATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
* * *
17013503 TTCAGAGTTTGCTATAAAGGCTATTCT
1 TTCAGAGTTTGCCACAAAGGATATTCT
17013530 CAGTTGTTGT
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
26 2 0.03
27 65 0.97
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (27 bp):
TTCAGAGTTTGCCACAAAGGATATTCT
Found at i:17015869 original size:247 final size:247
Alignment explanation
Indices: 17015431--17015915 Score: 686
Period size: 247 Copynumber: 2.0 Consensus size: 247
17015421 TATTTGAAAG
* * * *
17015431 GATTGAGTATATATTGTTGGATGCTTAAATTTATTTGAAATTAGATGTTTGAACTTGATTAAACA
1 GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATGAGATGTGTGAAATTGATTAAACA
* * *
17015496 TACTTGAAATTAATTAATTAAGTGAGTAAAAACTTATGGTTTGATTGATGATTTGAATGTGAATT
66 TACTTGAAATTAATTAATTAAGTGAGTAAAAACTCATGGTTTAATTAATGATTTGAATGTGAATT
* * * * *
17015561 AGTAGATCTTTTGTTTAAAGTAGAAATGTTATGTTTTGTGCCTATATTTGTTAGCTAAATGGCAT
131 AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAG
* * *
17015626 GTTTTGGAGGTGTCTAACGTAACTATTTGAAGGATATTAAGTTAAATGGTAA
196 GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTTAAATGGTAA
* * *
17015678 GATTGAGTATATATTGTTGGATGGTTAAGTTGGTTTGAAATCGA-ATGTGTGAAATTGATTAAAC
1 GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAAT-GAGATGTGTGAAATTGATTAAAC
* * * * * *
17015742 ATGA-TTGAAGTTGATTAATTAGGTTAGTAAACACTCATGGTTTAATTAATGATTTGGATGTGAA
65 AT-ACTTGAAATTAATTAATTAAGTGAGTAAAAACTCATGGTTTAATTAATGATTTGAATGTGAA
* * *
17015806 TTAGTAGATCTTTTGTTCGAAGTAGAAATGGTATGTTTTGTACTTATATTTGTGAGTTAAATGGC
129 TTAGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGC
*
17015871 AGGTTTTAGAGGTGTTTAAAGTAACCATTTGAAGGATATTAAGTT
194 AGGTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTT
17015916 TGGGCATGAA
Statistics
Matches: 208, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
247 206 0.99
248 2 0.01
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (247 bp):
GATTGAGTATATATTGTTGGATGCTTAAATTGATTTGAAATGAGATGTGTGAAATTGATTAAACA
TACTTGAAATTAATTAATTAAGTGAGTAAAAACTCATGGTTTAATTAATGATTTGAATGTGAATT
AGTAGATCTTTTGTTCAAAGTAGAAATGGTATGTTTTGTACCTATATTTGTGAGCTAAATGGCAG
GTTTTAGAGGTGTCTAAAGTAACCATTTGAAGGATATTAAGTTAAATGGTAA
Found at i:17018488 original size:16 final size:16
Alignment explanation
Indices: 17018449--17018489 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
17018439 TCATTTGCTA
17018449 TTATATTTTATTTTTG
1 TTATATTTTATTTTTG
*
17018465 TT-TAATTTATTTTTTG
1 TTATATTTTA-TTTTTG
17018481 TTATATTTT
1 TTATATTTT
17018490 CTACGTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 6 0.29
16 10 0.48
17 5 0.24
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (16 bp):
TTATATTTTATTTTTG
Found at i:17042540 original size:20 final size:20
Alignment explanation
Indices: 17042502--17042540 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
17042492 GCATCCATCA
* *
17042502 ATCATTCCTCATTCACTCTC
1 ATCATTCATCAATCACTCTC
*
17042522 ATCATTCATCAATCTCTCT
1 ATCATTCATCAATCACTCT
17042541 TTTATCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.36, G:0.00, T:0.41
Consensus pattern (20 bp):
ATCATTCATCAATCACTCTC
Found at i:17044830 original size:35 final size:35
Alignment explanation
Indices: 17044779--17044849 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
17044769 AATGAGTGAG
17044779 TATCATTCCCACGAGGATCGGGTTAAGGCACTTGA
1 TATCATTCCCACGAGGATCGGGTTAAGGCACTTGA
*
17044814 TATCATTCCCATGAGGATCGGGTTAAGGCACTTGA
1 TATCATTCCCACGAGGATCGGGTTAAGGCACTTGA
17044849 T
1 T
17044850 CGGCTGTTTA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (35 bp):
TATCATTCCCACGAGGATCGGGTTAAGGCACTTGA
Found at i:17045594 original size:12 final size:12
Alignment explanation
Indices: 17045577--17045601 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17045567 GGGGAAAACT
17045577 AAATGCATGCTA
1 AAATGCATGCTA
17045589 AAATGCATGCTA
1 AAATGCATGCTA
17045601 A
1 A
17045602 GGATAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (12 bp):
AAATGCATGCTA
Found at i:17046516 original size:17 final size:17
Alignment explanation
Indices: 17046494--17046527 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17046484 CACTAACATG
* *
17046494 AAAATGTAATGACAATA
1 AAAATGCAAAGACAATA
17046511 AAAATGCAAAGACAATA
1 AAAATGCAAAGACAATA
17046528 TATACTTAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAAAGACAATA
Found at i:17054152 original size:17 final size:17
Alignment explanation
Indices: 17054130--17054162 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17054120 CACTAACATT
17054130 AAAATGCAATGACAATA
1 AAAATGCAATGACAATA
17054147 AAAATGCAATGACAAT
1 AAAATGCAATGACAAT
17054163 GTGCACTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAATGCAATGACAATA
Found at i:17058083 original size:21 final size:21
Alignment explanation
Indices: 17058054--17058094 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
17058044 TGTGTCTAAT
*
17058054 TTTGGTGTGGATGCATCTGAC
1 TTTGGTGTGGATCCATCTGAC
*
17058075 TTTGTTGTGGATCCATCTGA
1 TTTGGTGTGGATCCATCTGA
17058095 GTGTGCCTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.15, G:0.29, T:0.41
Consensus pattern (21 bp):
TTTGGTGTGGATCCATCTGAC
Found at i:17065405 original size:45 final size:45
Alignment explanation
Indices: 17065352--17065470 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 45
17065342 ATTAATAAAA
* *
17065352 ATAAAGGTGGTTGCTATGTGTTGATTTCATCAGATACCAATG-GTT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAATGAG-T
* * * * *
17065397 ATATAGGTGGTTGCTATGTGCAGATTTCACCCGGTACCATTGAGT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAATGAGT
*
17065442 ATAAAGGTGGTTGCTATCTGCTGATTTCA
1 ATAAAGGTGGTTGCTATGTGCTGATTTCA
17065471 GCGAGTACTA
Statistics
Matches: 63, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
45 62 0.98
46 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.25, T:0.36
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAATGAGT
Found at i:17065490 original size:45 final size:45
Alignment explanation
Indices: 17065352--17065497 Score: 143
Period size: 45 Copynumber: 3.2 Consensus size: 45
17065342 ATTAATAAAA
* * * **
17065352 ATAAAGGTGGTTGCTATGTGTTGATTTCATC-AGATACCAATGGTT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAG-TACCATTGACT
* * *
17065397 ATATAGGTGGTTGCTATGTGCAGATTTCACCCG-GTACCATTGAGT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCA-CCGAGTACCATTGACT
* * * *
17065442 ATAAAGGTGGTTGCTATCTGCTGATTTCAGCGAGTACTATTAACT
1 ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGACT
*
17065487 ATAAGGGTGGT
1 ATAAAGGTGGT
17065498 GTTGTGTGTT
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
44 2 0.02
45 79 0.95
46 2 0.02
ACGTcount: A:0.25, C:0.14, G:0.26, T:0.35
Consensus pattern (45 bp):
ATAAAGGTGGTTGCTATGTGCTGATTTCACCGAGTACCATTGACT
Found at i:17080278 original size:23 final size:23
Alignment explanation
Indices: 17080248--17080328 Score: 81
Period size: 25 Copynumber: 3.3 Consensus size: 23
17080238 ACCCACAGCT
17080248 CATGTGAGCATACCAATTTATAG
1 CATGTGAGCATACCAATTTATAG
*
17080271 CATGTGAGATCATACCAATCTATAG
1 CATGTGAG--CATACCAATTTATAG
* * *
17080296 CTTGAGTAAGCATACCGATTTATAG
1 CAT--GTGAGCATACCAATTTATAG
*
17080321 CTTGTGAG
1 CATGTGAG
17080329 AGTATATCGA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 12 0.25
25 32 0.67
27 4 0.08
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (23 bp):
CATGTGAGCATACCAATTTATAG
Found at i:17080329 original size:50 final size:50
Alignment explanation
Indices: 17080254--17080375 Score: 138
Period size: 50 Copynumber: 2.4 Consensus size: 50
17080244 AGCTCATGTG
* * ** *
17080254 AGCATACCAATTTATAGCATGTGAGA-TCATACCAATCTATAGCTTGAGTA
1 AGCATACCGATTTATAGCTTGTGAGAGT-ATACCAATCTATAGCTCAAATA
* * *
17080304 AGCATACCGATTTATAGCTTGTGAGAGTATATCGATCTATAGCTCAAATG
1 AGCATACCGATTTATAGCTTGTGAGAGTATACCAATCTATAGCTCAAATA
* *
17080354 AGCATATCGATTCATAGCTTGT
1 AGCATACCGATTTATAGCTTGT
17080376 ATGAGCATAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
50 60 0.98
51 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Consensus pattern (50 bp):
AGCATACCGATTTATAGCTTGTGAGAGTATACCAATCTATAGCTCAAATA
Found at i:17080339 original size:25 final size:25
Alignment explanation
Indices: 17080257--17080347 Score: 78
Period size: 25 Copynumber: 3.6 Consensus size: 25
17080247 TCATGTGAGC
* * *
17080257 ATACCAATTTATAGCATGTGAGA-T
1 ATACCGATCTATAGCTTGTGAGAGT
* * *
17080281 CATACCAATCTATAGCTTGAGTA-AGC
1 -ATACCGATCTATAGCTTGTG-AGAGT
*
17080307 ATACCGATTTATAGCTTGTGAGAGT
1 ATACCGATCTATAGCTTGTGAGAGT
*
17080332 ATATCGATCTATAGCT
1 ATACCGATCTATAGCT
17080348 CAAATGAGCA
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 1 0.02
25 51 0.96
26 1 0.02
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (25 bp):
ATACCGATCTATAGCTTGTGAGAGT
Found at i:17080379 original size:25 final size:25
Alignment explanation
Indices: 17080304--17080384 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
17080294 AGCTTGAGTA
* *
17080304 AGCATACCGATTTATAGCTTGTGA-G
1 AGCATATCGATTCATAGCTTGT-ATG
* ***
17080329 AGTATATCGA-TCTATAGCTCAAATG
1 AGCATATCGATTC-ATAGCTTGTATG
17080354 AGCATATCGATTCATAGCTTGTATG
1 AGCATATCGATTCATAGCTTGTATG
17080379 AGCATA
1 AGCATA
17080385 AATGTGCATG
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
24 2 0.05
25 39 0.91
26 2 0.05
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (25 bp):
AGCATATCGATTCATAGCTTGTATG
Found at i:17082975 original size:50 final size:49
Alignment explanation
Indices: 17082861--17083048 Score: 225
Period size: 50 Copynumber: 3.8 Consensus size: 49
17082851 CATGCCAAAT
* ** * **
17082861 CCATGTCCCAGAAATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATT
1 CCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTG-CCACG
* *
17082912 CCATGTCCAAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCC-ACG
*
17082962 CCATG-CCCTAGACATGGTCTTACATGGGACCTCTCGTCTCGGTGCTCACG
1 CCATGTCCC-AGACATGGTCTTACATGGGACCTCTCATCTCGGTGC-CACG
* *
17083012 CCATGTCCCAAACATGGTCTTACATGGGACCTTTCAT
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT
17083049 GATCTCAAGG
Statistics
Matches: 119, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
49 4 0.03
50 85 0.71
51 30 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (49 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCACG
Found at i:17083077 original size:56 final size:51
Alignment explanation
Indices: 17082861--17083077 Score: 196
Period size: 50 Copynumber: 4.2 Consensus size: 51
17082851 CATGCCAAAT
** * * * **
17082861 CCATGTCCCAGAA-ATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATT
1 CCATGTCCCA-AACATGGTCTTACATGGGACCTTCTGATCTCGGTGCCAACG
* *
17082912 CCATGT-CCAAGACATGGTCTTACAGGGGACC-TCTCATCTCGGTGCCAACG
1 CCATGTCCCAA-ACATGGTCTTACATGGGACCTTCTGATCTCGGTGCCAACG
*
17082962 CCATG-CCCTAGACATGGTCTTACATGGGACC-TCTCG-TCTCGGTGCTC-ACG
1 CCATGTCCC-AAACATGGTCTTACATGGGACCTTCT-GATCTCGGTGC-CAACG
*
17083012 CCATGTCCCAAACATGGTCTTACATGGGACCTTTCATGATCTCAAGGATGCCAATG
1 CCATGTCCCAAACATGGTCTTACATGGGACC-TTC-TGATCTC--GG-TGCCAACG
17083068 CCATGTCCCA
1 CCATGTCCCA
17083078 TCTTACATGG
Statistics
Matches: 139, Mismatches: 12, Indels: 25
0.79 0.07 0.14
Matches are distributed among these distances:
49 1 0.01
50 86 0.62
51 26 0.19
52 3 0.02
53 5 0.04
55 3 0.02
56 15 0.11
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (51 bp):
CCATGTCCCAAACATGGTCTTACATGGGACCTTCTGATCTCGGTGCCAACG
Found at i:17089824 original size:56 final size:50
Alignment explanation
Indices: 17089601--17089848 Score: 327
Period size: 50 Copynumber: 4.8 Consensus size: 50
17089591 GATCATAACA
* * *
17089601 TGCCAAAGCCATGTCCCAGACATGGTCTTACA-GGGGCCGTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACC-TCTCGTCTCGG
* * * *
17089651 TGCTAATGCCATGTCCCAGACATGGTCTTAAATGGGGCCTCTCGTCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
*
17089701 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
17089751 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATCTCAAGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC--G-TCTC--GG
* * *
17089806 ATTCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17089849 TTACCCAAAT
Statistics
Matches: 178, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
50 127 0.71
51 6 0.03
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.22
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
Found at i:17091119 original size:12 final size:12
Alignment explanation
Indices: 17091102--17091131 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17091092 TCAGGCTGTT
17091102 ACACGGCCTAGC
1 ACACGGCCTAGC
*
17091114 ACACGGCCTGGC
1 ACACGGCCTAGC
17091126 ACACGG
1 ACACGG
17091132 GTGTTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:17097570 original size:25 final size:25
Alignment explanation
Indices: 17097542--17097607 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
17097532 GTTCCGACCA
* *
17097542 ATAGCTCGTGTGAGCTTACCGATTT
1 ATAGCTCGTGTGAGCATACCGATCT
* *
17097567 ATAGCTCGTGAGAGCATACTGATCT
1 ATAGCTCGTGTGAGCATACCGATCT
* *
17097592 ATAGCTTGAGTGAGCA
1 ATAGCTCGTGTGAGCA
17097608 CACTGATTCA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (25 bp):
ATAGCTCGTGTGAGCATACCGATCT
Found at i:17120944 original size:29 final size:29
Alignment explanation
Indices: 17120842--17120945 Score: 156
Period size: 29 Copynumber: 3.6 Consensus size: 29
17120832 AAAAATAAAA
17120842 ATTTACCAAAATAT-TACAACTTTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTTTT
* *
17120871 ATTTACCAAAATATCACAAAATTTTTTTTT
1 ATTTACCAAAATAT-ATAAACTTTTTTTTT
*
17120901 ATTTACCAAAATATATAAACTTTTTTATT
1 ATTTACCAAAATATATAAACTTTTTTTTT
17120930 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
17120946 CCAAAAAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
29 42 0.62
30 25 0.37
31 1 0.01
ACGTcount: A:0.40, C:0.12, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTTACCAAAATATATAAACTTTTTTTTT
Found at i:17121033 original size:27 final size:27
Alignment explanation
Indices: 17121012--17121078 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
17121002 CGCCAATGGT
*
17121012 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAAAGGTGCCAATACC
*
17121039 ATTGGCGGCACCAATGGTGCCAATACC
1 ATTGGCGGCACCAAAGGTGCCAATACC
17121066 ATTGGCGGCACCA
1 ATTGGCGGCACCA
17121079 GTTGGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.15
Consensus pattern (27 bp):
ATTGGCGGCACCAAAGGTGCCAATACC
Found at i:17121165 original size:23 final size:21
Alignment explanation
Indices: 17121122--17121184 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
17121112 CAGAAGAGAA
*
17121122 AAAAGGAAAGAAAG-AAGAAG
1 AAAAGGAAAGAAAGAAAAAAG
17121142 AAAAGGAGAAGAGAAGAAAAAAG
1 AAAAGGA-AAGA-AAGAAAAAAG
*
17121165 -AAA-GAAAGAAGGAAAGAAAG
1 AAAAGGAAAGAAAGAAA-AAAG
17121185 GGAAATGAGA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
19 5 0.14
20 15 0.41
21 6 0.16
22 6 0.16
23 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (21 bp):
AAAAGGAAAGAAAGAAAAAAG
Found at i:17121172 original size:8 final size:8
Alignment explanation
Indices: 17121113--17121184 Score: 53
Period size: 8 Copynumber: 8.8 Consensus size: 8
17121103 TGGTGGGGGC
17121113 AGAAGAGAA
1 AGAA-AGAA
17121122 A-AAAGGAA
1 AGAAA-GAA
17121130 AGAAAG-A
1 AGAAAGAA
17121137 AG-AAGAAA
1 AGAAAG-AA
17121145 AGGAGAAGAGA
1 A-GA-AAGA-A
17121156 AGAAA-AA
1 AGAAAGAA
17121163 AGAAAGAA
1 AGAAAGAA
*
17121171 AGAAGGAA
1 AGAAAGAA
17121179 AGAAAG
1 AGAAAG
17121185 GGAAATGAGA
Statistics
Matches: 52, Mismatches: 2, Indels: 19
0.71 0.03 0.26
Matches are distributed among these distances:
6 3 0.06
7 10 0.19
8 24 0.46
9 7 0.13
10 3 0.06
11 5 0.10
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (8 bp):
AGAAAGAA
Found at i:17121182 original size:39 final size:37
Alignment explanation
Indices: 17121118--17121207 Score: 112
Period size: 39 Copynumber: 2.4 Consensus size: 37
17121108 GGGGCAGAAG
17121118 AGAAAAAAGGAAAGAAAGAAGAAGAAAAGGAGAA-GAGA
1 AGAAAAAA-GAAAGAAAGAAGAAGAAAAGGA-AATGAGA
*
17121156 AGAAAAAAGAAAGAAAGAAGGAAAGAAAGGGAAATGAGA
1 AGAAAAAAGAAAGAAAGAA-G-AAGAAAAGGAAATGAGA
17121195 AGAGAAAAA-AAAG
1 AGA-AAAAAGAAAG
17121208 NNNNNNNNNN
Statistics
Matches: 47, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
37 11 0.23
38 11 0.23
39 20 0.43
40 5 0.11
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (37 bp):
AGAAAAAAGAAAGAAAGAAGAAGAAAAGGAAATGAGA
Found at i:17127649 original size:19 final size:19
Alignment explanation
Indices: 17127622--17127658 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17127612 ATTTTCGTAA
*
17127622 ATAAAAATAATAAGTAACC
1 ATAAAAATAATAACTAACC
*
17127641 ATAATAATAATAACTAAC
1 ATAAAAATAATAACTAAC
17127659 AACAACAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.24
Consensus pattern (19 bp):
ATAAAAATAATAACTAACC
Found at i:17127662 original size:3 final size:3
Alignment explanation
Indices: 17127656--17127696 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
17127646 AATAATAACT
17127656 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
17127697 TAATAATAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:17127799 original size:19 final size:21
Alignment explanation
Indices: 17127775--17127813 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
17127765 ACTACAACAA
*
17127775 AAAAT-ATTACAA-AATATAC
1 AAAATAATAACAATAATATAC
17127794 AAAATAATAACAATAATATA
1 AAAATAATAACAATAATATA
17127814 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATAATAACAATAATATAC
Found at i:17127993 original size:27 final size:27
Alignment explanation
Indices: 17127955--17128057 Score: 152
Period size: 27 Copynumber: 3.8 Consensus size: 27
17127945 ATAATACGAG
17127955 TGGTGCCGCCAATGGCATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
*
17127982 TGGTGCCGCCAATGGTATTGGCACCAT
1 TGGTGCCGCCAATGGCATTGGCACCAT
** *
17128009 TGGTGCCGCCAATGGTTTTGGCACCTT
1 TGGTGCCGCCAATGGCATTGGCACCAT
**
17128036 TGGTGCCGCCAATACCATTGGC
1 TGGTGCCGCCAATGGCATTGGC
17128058 GTGACCAGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 69 1.00
ACGTcount: A:0.17, C:0.28, G:0.29, T:0.26
Consensus pattern (27 bp):
TGGTGCCGCCAATGGCATTGGCACCAT
Found at i:17128187 original size:28 final size:28
Alignment explanation
Indices: 17128127--17128224 Score: 146
Period size: 27 Copynumber: 3.5 Consensus size: 28
17128117 TTTTTTTGAT
*
17128127 ATATTTCGGTAAATAATAAAAAAGTT-TA
1 ATATTTTGGTAAATAA-AAAAAAGTTGTA
17128155 TATATTTTGGTAAATAAAAAAAAGTTGTA
1 -ATATTTTGGTAAATAAAAAAAAGTTGTA
*
17128184 ATATTTTGATAAAT-AAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
17128211 ATATTTTGGTAAAT
1 ATATTTTGGTAAAT
17128225 TTTTATTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
27 26 0.40
28 22 0.34
29 17 0.26
ACGTcount: A:0.48, C:0.01, G:0.12, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:17130903 original size:47 final size:47
Alignment explanation
Indices: 17130817--17130917 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
17130807 ATTTATCTGT
* * *
17130817 TCGACCAATGGTTTATCCAAAAAGTATTTTAGTCGGTAGTCATCTAC
1 TCGACCAAAGGTTTATCCAAAAAGTATTTTAATCAGTAGTCATCTAC
* * * * *
17130864 TCGATCAAAGGTTTATCCACAACGTATTTTAATTAGTAGTTATCTGA-
1 TCGACCAAAGGTTTATCCAAAAAGTATTTTAATCAGTAGTCATCT-AC
17130911 TCGACCA
1 TCGACCA
17130918 GTGTTTCATC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (47 bp):
TCGACCAAAGGTTTATCCAAAAAGTATTTTAATCAGTAGTCATCTAC
Found at i:17133383 original size:41 final size:41
Alignment explanation
Indices: 17133320--17133601 Score: 282
Period size: 41 Copynumber: 6.8 Consensus size: 41
17133310 CTTTGAATGT
* * **
17133320 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCATTGATCAAA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATGTAA
* *
17133361 AAGGGGTTACTATGTGCTGATTCCCCGTATCATTGAT-TATA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATGTA-A
* * * * * *
17133402 AAGTGGTTGTTAAGTGCTAATTCCACTGTATCCTTGATTGTGA
1 AAGGGGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-TGTAA
* *
17133445 AAGGGGTTGCTATGTGCTGATTCCCCGTATCATTGAT-TAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATGTAA
* *
17133485 AAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTTA
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCATTGA-TGTAA
* * * *
17133529 AAGGGGTTGCTATGTGCTGATTCCCTGTTTCATTGAT-TAT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATGTAA
*
17133569 AAGGTGATTGCTAAGTGCTGATTCCACCGTATC
1 AAGG-GGTTGCTAAGTGCTGATTCC-CCGTATC
17133602 CTCGATTGTG
Statistics
Matches: 196, Mismatches: 35, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
40 11 0.06
41 92 0.47
42 45 0.23
43 42 0.21
44 6 0.03
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGTATCATTGATGTAA
Found at i:17133463 original size:84 final size:84
Alignment explanation
Indices: 17133319--17133614 Score: 427
Period size: 84 Copynumber: 3.6 Consensus size: 84
17133309 TCTTTGAATG
* * * *** *
17133319 TAAGG-GGTTGCTAAGTGCAGATTCC-CCGAATCATTGA-TCAAAAAGGGGTTACTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
17133381 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
* * * *
17133400 TAAAGTGGTTGTTAAGTGCTAATTCCACTGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
17133465 TTCCCCGTATCATTGATTA
66 TTCCCCGTATCATTGATTA
*
17133484 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTTAAAGGGGTTGCTATGTGCTGA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
* *
17133549 TTCCCTGTTTCATTGATTA
66 TTCCCCGTATCATTGATTA
* *
17133568 TAAGGTGATTGCTAAGTGCTGATTCCACCGTATCCTCGATTGTGAAA
1 TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAA
17133615 CGTTGCTAGT
Statistics
Matches: 191, Mismatches: 21, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
81 4 0.02
82 17 0.09
83 9 0.05
84 161 0.84
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (84 bp):
TAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTGATTGTGAAAGGGGTTGCTATGTGCTGA
TTCCCCGTATCATTGATTA
Found at i:17138588 original size:36 final size:38
Alignment explanation
Indices: 17138548--17138634 Score: 97
Period size: 36 Copynumber: 2.3 Consensus size: 38
17138538 TTCTTTCTCA
* * *
17138548 TTTTCAACAACATCTTCTTCTTCAG-TGAT-AACTTCC
1 TTTTCAACAACAACTTCTACTTCAGATCATAAACTTCC
* *
17138584 TTTTCTACAACAACTTCTACTTCTGTATCATAAACTTCC
1 TTTTCAACAACAACTTCTACTTCAG-ATCATAAACTTCC
*
17138623 TTATCAACAACA
1 TTTTCAACAACA
17138635 GTGTCTTCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
36 21 0.51
38 3 0.07
39 17 0.41
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.39
Consensus pattern (38 bp):
TTTTCAACAACAACTTCTACTTCAGATCATAAACTTCC
Found at i:17140385 original size:5 final size:5
Alignment explanation
Indices: 17140375--17140399 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
17140365 AACAAAACCT
17140375 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
17140400 CAATCATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:17143932 original size:43 final size:43
Alignment explanation
Indices: 17143655--17143956 Score: 225
Period size: 43 Copynumber: 7.1 Consensus size: 43
17143645 GATCATGACT
* * * * * * *
17143655 TTTAGCGGTGCTTCTATACAAAATGCCGCTAAAGGTCGTAGTC
1 TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
* * * * * * *
17143698 TTTAGTGGCGCTTCATTAT--AGAACACCGCGAAAGGTCCTAGTC
1 TTTAGCGGCGCTT--TTATAAAAAATACCGCTATAGGTCATGGTC
* ** *
17143741 TTTAGCGGCGCTTTAATATTAAACACCGCTATAGGTCATGGTC
1 TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
* * * * * *
17143784 TTTAGCGGTGCCTTAATATAAAATGCCGCTATAGGTCATGATC
1 TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
* * * * * *
17143827 GTTAGTGGTGCTTTTGTAGAAAACACCGCTATAGGTCATGGTC
1 TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
* * * * *
17143870 -TT-GCGGCGCTATTGTAAAAAATGCCGCTATAAGTCAAGGTC
1 TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
* *
17143911 TTTAGCGGCGCTTTTATAAAAAATACTGCTATAAGTCATGGTC
1 TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
17143954 TTT
1 TTT
17143957 TGCAGCACTT
Statistics
Matches: 209, Mismatches: 44, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
41 34 0.16
42 4 0.02
43 168 0.80
45 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (43 bp):
TTTAGCGGCGCTTTTATAAAAAATACCGCTATAGGTCATGGTC
Found at i:17143942 original size:84 final size:85
Alignment explanation
Indices: 17143738--17143955 Score: 242
Period size: 84 Copynumber: 2.6 Consensus size: 85
17143728 AAAGGTCCTA
* ** * *
17143738 GTCTTTAGCGGCGCTTTAATATTAAACACCGCTATAGGTCATGGTCTTTAGCGGTGCCTTAATAT
1 GTCTTTAGCGGCGCTTTTATAAAAAACACCGCTATAGGTCATGGTC-TTAGCGGCGCCTTAATAA
* *
17143803 AAAATGCCGCTATAGGTCATG
65 AAAATGCCGCTATAAGTCAAG
* * * * * * **
17143824 ATCGTTAGTGGTGCTTTTGTAGAAAACACCGCTATAGGTCATGGTCTT-GCGGCG-CTATTGTAA
1 GTCTTTAGCGGCGCTTTTATAAAAAACACCGCTATAGGTCATGGTCTTAGCGGCGCCT-TAATAA
17143887 AAAATGCCGCTATAAGTCAAG
65 AAAATGCCGCTATAAGTCAAG
* * *
17143908 GTCTTTAGCGGCGCTTTTATAAAAAATACTGCTATAAGTCATGGTCTT
1 GTCTTTAGCGGCGCTTTTATAAAAAACACCGCTATAGGTCATGGTCTT
17143956 TTGCAGCACT
Statistics
Matches: 108, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
83 2 0.02
84 66 0.61
85 2 0.02
86 38 0.35
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (85 bp):
GTCTTTAGCGGCGCTTTTATAAAAAACACCGCTATAGGTCATGGTCTTAGCGGCGCCTTAATAAA
AAATGCCGCTATAAGTCAAG
Found at i:17147108 original size:115 final size:115
Alignment explanation
Indices: 17146906--17147319 Score: 594
Period size: 115 Copynumber: 3.6 Consensus size: 115
17146896 GAATGCATCC
* * ** * * * * *
17146906 TTGCGGCGTTTTTATGGAAGCGCCGCTAATTCTAAGTCTATACCAGCGTTTTGATAGAAGCACCG
1 TTGCGGCATTTTTATGCAAGCGCCGCTAATTCTCGGTCTATAGCGGCGTTTTGACATAAGCGCCG
* * *
17146971 CTAATGCCACTAAAAGCTCAAGATAAAACGATTCGTTTTGATTAACACTT
66 CTAACGCCACTAAAAGCTCAAGATAAAATGATGCGTTTTGATTAACACTT
** * *
17147021 TTGCGGCATTTTTATAAAAGCGCTGCTAATTCTCGGTCTATAGCGGCGTTTTGACATAAGCGTCG
1 TTGCGGCATTTTTATGCAAGCGCCGCTAATTCTCGGTCTATAGCGGCGTTTTGACATAAGCGCCG
*
17147086 CTAACGCCACTAAAAGCTCAAGATAAAATGATGAGTTTTGATTAACACTT
66 CTAACGCCACTAAAAGCTCAAGATAAAATGATGCGTTTTGATTAACACTT
* * *
17147136 TTGTGGCATTTTTATGCAAGCGCCGCTAATTCTCGGTCTATAGTGGCATTTTGACATAAGCGCCG
1 TTGCGGCATTTTTATGCAAGCGCCGCTAATTCTCGGTCTATAGCGGCGTTTTGACATAAGCGCCG
*
17147201 CTAACGCCACTAAAAGCTCAAGATAAAATGATGCGTTTTGGTTAACACTT
66 CTAACGCCACTAAAAGCTCAAGATAAAATGATGCGTTTTGATTAACACTT
* * * * *
17147251 TTGCGGCGTTTTTATGCAAGCGCCGCTAATTCTTGTTCTATAGCGGCTTTTTGACATAAGCGCCT
1 TTGCGGCATTTTTATGCAAGCGCCGCTAATTCTCGGTCTATAGCGGCGTTTTGACATAAGCGCCG
17147316 CTAA
66 CTAA
17147320 TGCTCGAGCA
Statistics
Matches: 267, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
115 267 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (115 bp):
TTGCGGCATTTTTATGCAAGCGCCGCTAATTCTCGGTCTATAGCGGCGTTTTGACATAAGCGCCG
CTAACGCCACTAAAAGCTCAAGATAAAATGATGCGTTTTGATTAACACTT
Found at i:17154690 original size:15 final size:13
Alignment explanation
Indices: 17154654--17154683 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
17154644 ACAAATAGGA
17154654 TTTTCTTCTCTTT
1 TTTTCTTCTCTTT
17154667 TTTTCTTCTCTTT
1 TTTTCTTCTCTTT
17154680 TTTT
1 TTTT
17154684 TCTTTCTTAT
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:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTTCTTCTCTTT
Found at i:17154691 original size:13 final size:13
Alignment explanation
Indices: 17154654--17154691 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
17154644 ACAAATAGGA
17154654 TTTTC-TTCTCTTT
1 TTTTCTTTCT-TTT
17154667 TTTTCTTCTCTTTT
1 TTTTCTT-TCTTTT
17154681 TTTTCTTTCTT
1 TTTTCTTTCTT
17154692 ATTTATTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 11 0.48
15 3 0.13
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTCTTTCTTTT
Found at i:17159656 original size:19 final size:19
Alignment explanation
Indices: 17159632--17159696 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 19
17159622 TATAATTTTG
*
17159632 AAATTTAAAAAATGTATAA
1 AAATTTAAAAAATATATAA
* *
17159651 AAATTT--TAAATATATAT
1 AAATTTAAAAAATATATAA
*
17159668 AAATTAATAAAATAATATAAAA
1 AAATT--TAAAA-AATATATAA
17159690 AAATTTA
1 AAATTTA
17159697 CATTAAGAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
17 13 0.37
19 7 0.20
20 2 0.06
21 1 0.03
22 12 0.34
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAATTTAAAAAATATATAA
Found at i:17159838 original size:25 final size:26
Alignment explanation
Indices: 17159793--17159847 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
17159783 TTAGTTCTTC
*
17159793 TTTTATATTTATATATATTTAT-TAGT
1 TTTTATATTTATAAATATTTATATA-T
17159819 TTTTATA-TTATAAA-ATTTTATATAT
1 TTTTATATTTATAAATA-TTTATATAT
17159844 TTTT
1 TTTT
17159848 CAAATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 1 0.04
25 16 0.62
26 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (26 bp):
TTTTATATTTATAAATATTTATATAT
Found at i:17159902 original size:16 final size:16
Alignment explanation
Indices: 17159864--17159907 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
17159854 TTATAGACTT
17159864 TTTTATATATTTTTAA
1 TTTTATATATTTTTAA
**
17159880 TAGTATATATTTTGT-A
1 TTTTATATATTTT-TAA
17159896 TTTTATATATTT
1 TTTTATATATTT
17159908 GTAAAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 22 0.96
17 1 0.04
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
TTTTATATATTTTTAA
Found at i:17168415 original size:21 final size:22
Alignment explanation
Indices: 17168378--17168418 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
17168368 CACAGTTCCA
17168378 TAATTGAAATAAATAATAATAG
1 TAATTGAAATAAATAATAATAG
*
17168400 TAATTG-AATTAATAATAAT
1 TAATTGAAATAAATAATAAT
17168419 CTTAAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (22 bp):
TAATTGAAATAAATAATAATAG
Found at i:17172381 original size:35 final size:36
Alignment explanation
Indices: 17172342--17172416 Score: 89
Period size: 38 Copynumber: 2.1 Consensus size: 36
17172332 AATATTTGAA
* *
17172342 CTCTTGTAT-TGGGATCCATTTTGTTAAAGTAGTTG
1 CTCTTGTATCTGGGATCCATTTTGGTAAAGTAATTG
* *
17172377 CTCTTTTTTCCCTGGGATCCATTTTGGTAAAGTAATTG
1 CTCTTGTAT--CTGGGATCCATTTTGGTAAAGTAATTG
17172415 CT
1 CT
17172417 TTTTTTTCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 7 0.21
38 26 0.79
ACGTcount: A:0.19, C:0.16, G:0.20, T:0.45
Consensus pattern (36 bp):
CTCTTGTATCTGGGATCCATTTTGGTAAAGTAATTG
Found at i:17172393 original size:38 final size:38
Alignment explanation
Indices: 17172351--17172427 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
17172341 ACTCTTGTAT
* *
17172351 TGGGATCCATTTTGTTAAAGTAGTTGCTCTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
*
17172389 TGGGATCCATTTTGGTAAAGTAATTGCTTTTTTTTCCC
1 TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
17172427 T
1 T
17172428 TTCCTCAACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.48
Consensus pattern (38 bp):
TGGGATCCATTTTGGTAAAGTAATTGCTCTTTTTTCCC
Found at i:17173732 original size:10 final size:10
Alignment explanation
Indices: 17173713--17173744 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
17173703 AATAAAGTAG
17173713 ATTATATATT
1 ATTATATATT
*
17173723 ATTTTATATT
1 ATTATATATT
17173733 ATTATATATT
1 ATTATATATT
17173743 AT
1 AT
17173745 GATTTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATATATT
Found at i:17173807 original size:18 final size:18
Alignment explanation
Indices: 17173784--17173818 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17173774 ATATTAAGAA
*
17173784 TTTTATTAAATTATATTT
1 TTTTATTAAATAATATTT
17173802 TTTTATTAAATAATATT
1 TTTTATTAAATAATATT
17173819 AAATAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATTAAATAATATTT
Found at i:17174071 original size:16 final size:16
Alignment explanation
Indices: 17174050--17174105 Score: 78
Period size: 16 Copynumber: 3.5 Consensus size: 16
17174040 TTGAGTTACT
17174050 ATTACAG-TTCTATTCC
1 ATTACAGCTT-TATTCC
* *
17174066 ATTACAGCATTATTCA
1 ATTACAGCTTTATTCC
17174082 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
17174098 ATTACAGC
1 ATTACAGC
17174106 GAACCAAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
16 34 0.97
17 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:17174325 original size:19 final size:18
Alignment explanation
Indices: 17174276--17174345 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 18
17174266 TAATTTTAAA
*
17174276 TAAATAAAATTTAAAATCT
1 TAAAT-AAATTTAAAAACT
*
17174295 TAATTAACATTTAAAAGACT
1 TAAATAA-ATTTAAAA-ACT
*
17174315 TAAATAAATTTTGAAAAATT
1 TAAATAAA-TTT-AAAAACT
*
17174335 TAAGTAAATTT
1 TAAATAAATTT
17174346 TTTATGAGAG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 2 0.05
19 16 0.38
20 20 0.48
21 4 0.10
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (18 bp):
TAAATAAATTTAAAAACT
Found at i:17174415 original size:18 final size:19
Alignment explanation
Indices: 17174367--17174417 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
17174357 AAATAAAAAT
17174367 ATATAAA-ATTATCATAAAA
1 ATATAAATATTATCAT-AAA
*
17174386 ATAAACAATATTATCAT-AA
1 ATATA-AATATTATCATAAA
17174405 ATATAAATATTAT
1 ATATAAATATTAT
17174418 TTGATTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 8 0.29
19 10 0.36
20 2 0.07
21 8 0.29
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
ATATAAATATTATCATAAA
Found at i:17174418 original size:21 final size:21
Alignment explanation
Indices: 17174359--17174411 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
17174349 ATGAGAGAAA
* * *
17174359 ATAAAAATATATAAAATTATC
1 ATAAAAATAAACAATATTATC
17174380 ATAAAAATAAACAATATTATC
1 ATAAAAATAAACAATATTATC
*
17174401 ATAAATATAAA
1 ATAAAAATAAA
17174412 TATTATTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (21 bp):
ATAAAAATAAACAATATTATC
Found at i:17176007 original size:6 final size:6
Alignment explanation
Indices: 17175996--17176032 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
17175986 TTGTTGTCTC
*
17175996 TATTTT TATTTT TATTTT T-CTTT TATTTT TATTTT TA
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT TA
17176033 AAAACTATAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 24 0.86
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TATTTT
Found at i:17176019 original size:11 final size:11
Alignment explanation
Indices: 17175996--17176030 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
17175986 TTGTTGTCTC
17175996 TATTTTTATTTT
1 TATTTTTA-TTT
*
17176008 TATTTTTCTTT
1 TATTTTTATTT
17176019 TATTTTTATTT
1 TATTTTTATTT
17176030 T
1 T
17176031 TAAAAACTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (11 bp):
TATTTTTATTT
Found at i:17176021 original size:17 final size:17
Alignment explanation
Indices: 17175999--17176031 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
17175989 TTGTCTCTAT
17175999 TTTTATTTTTATTTTTC
1 TTTTATTTTTATTTTTC
17176016 TTTTATTTTTATTTTT
1 TTTTATTTTTATTTTT
17176032 AAAAACTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTATTTTTATTTTTC
Found at i:17176662 original size:3 final size:3
Alignment explanation
Indices: 17176633--17176702 Score: 72
Period size: 3 Copynumber: 23.3 Consensus size: 3
17176623 TGTAGCATTT
* *
17176633 TTA TTA TT- TTG TTCA TTA TT- CTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
17176677 TTA TTA TTTA ATA TTA TTG TTA TTA T
1 TTA TTA -TTA TTA TTA TTA TTA TTA T
17176703 CATCGTATTT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 3 0.05
3 48 0.86
4 5 0.09
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17177130 original size:2 final size:2
Alignment explanation
Indices: 17177026--17177122 Score: 60
Period size: 2 Copynumber: 49.0 Consensus size: 2
17177016 TTTATGAATC
* *
17177026 AT AT AT AT CT AC AT AT AT AT AT AT AT AT AT -T AT AT -T AT GAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
* * * *
17177067 AGT -T AC AT AT GT AT AT AG GT AT AT ACT -T ACT -T AT AT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT
*
17177107 AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT
17177123 TTTATATAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 18
0.69 0.13 0.17
Matches are distributed among these distances:
1 5 0.07
2 62 0.86
3 5 0.07
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.46
Consensus pattern (2 bp):
AT
Found at i:17177639 original size:111 final size:111
Alignment explanation
Indices: 17177440--17177767 Score: 477
Period size: 111 Copynumber: 3.0 Consensus size: 111
17177430 CTTCAAAAGG
*
17177440 AAAATTTTCAAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAATTTTTAAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
17177505 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTTAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * *
17177551 AAAATTTTTTAAAATAAGGCAAGGTTTCGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
1 AAAATTTTTAAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
*
17177616 TGGGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
* * * * * *
17177662 AAAA-ATTTCAAAATAAGGCAATGTTTTGCGTTT-GGAAATTTGAG-GAACGTACCCTAAGGTGC
1 AAAATTTTTAAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
* * * *
17177724 TGGGTTTCGA--TTTCTCGTTTAACCAAATAGCCAAATATCCTTTT
66 TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
17177768 GAATTTCAAT
Statistics
Matches: 198, Mismatches: 19, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
106 30 0.15
108 24 0.12
109 10 0.05
110 25 0.13
111 109 0.55
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (111 bp):
AAAATTTTTAAAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGAAAACATGCCCTAAGGTGC
TGGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTT
Found at i:17181118 original size:8 final size:8
Alignment explanation
Indices: 17181105--17181161 Score: 69
Period size: 8 Copynumber: 6.8 Consensus size: 8
17181095 GACTCGAAAG
17181105 AAAAATAA
1 AAAAATAA
17181113 AAAAATAAA
1 AAAAAT-AA
*
17181122 AAAAATCA
1 AAAAATAA
17181130 AAAAATAAA
1 AAAAAT-AA
*
17181139 AAAAAAATA
1 AAAAATA-A
17181148 AAAAATAA
1 AAAAATAA
17181156 AAAAAT
1 AAAAAT
17181162 CAATGTCAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
8 21 0.50
9 21 0.50
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:17181127 original size:17 final size:17
Alignment explanation
Indices: 17181105--17181160 Score: 85
Period size: 17 Copynumber: 3.2 Consensus size: 17
17181095 GACTCGAAAG
17181105 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
*
17181122 AAAAATCAAAAAATAAA
1 AAAAATAAAAAAATAAA
*
17181139 AAAAAAATAAAAAATAAA
1 AAAAATA-AAAAAATAAA
17181157 AAAA
1 AAAA
17181161 TCAATGTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
17 21 0.60
18 14 0.40
ACGTcount: A:0.88, C:0.02, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:17181187 original size:6 final size:6
Alignment explanation
Indices: 17181178--17181216 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
17181168 CAAAAATAGG
17181178 AGAAAA AGAAAGA AGAAAA A-AGAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAA-A AGAAAA AGA-AAA AGAAAA AGAAAA AG
17181217 GAGAAGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 1 0.03
6 22 0.73
7 7 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:17182240 original size:9 final size:9
Alignment explanation
Indices: 17182209--17182261 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
17182199 ACAAAAAAAC
17182209 AAAAGAAAG
1 AAAAGAAAG
*
17182218 -AAAGAAAA
1 AAAAGAAAG
17182226 AAAAGAAAG
1 AAAAGAAAG
*
17182235 AGAAGAAAG
1 AAAAGAAAG
**
17182244 AGGAGAAGAG
1 AAAAGAA-AG
17182254 AAAAGAAA
1 AAAAGAAA
17182262 AGGAAAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
8 7 0.19
9 22 0.61
10 7 0.19
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
AAAAGAAAG
Found at i:17182414 original size:43 final size:44
Alignment explanation
Indices: 17182344--17182460 Score: 132
Period size: 43 Copynumber: 2.7 Consensus size: 44
17182334 CCCAAAAAGG
* *
17182344 GCGACTCAAATTTTGGAACAAAATGGGGCA-CGAAGTGATCAGA
1 GCGACTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGA
* * **
17182387 GCGACTTAAATTTTGGATCAAATTGGGGCATGGTGGTGATCAGA
1 GCGACTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGA
* *
17182431 G-TAGCTCAAATTTT-GATCAGATTGGGGCAT
1 GCGA-CTCAAATTTTGGATCAAATTGGGGCAT
17182461 ATGATGATCT
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
43 43 0.68
44 20 0.32
ACGTcount: A:0.31, C:0.14, G:0.29, T:0.26
Consensus pattern (44 bp):
GCGACTCAAATTTTGGATCAAATTGGGGCATCGAAGTGATCAGA
Found at i:17183709 original size:50 final size:50
Alignment explanation
Indices: 17183585--17185385 Score: 870
Period size: 50 Copynumber: 36.1 Consensus size: 50
17183575 AAAACCATAG
* * ** * * * *
17183585 ATTGCAATTCAAAAGATTGAAGCCACAACGGTAAATCTCACCTCCCTGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
** * * * *
17183635 GA-TGC-AGCGAAATAGATCGAAGCTACAATGGTGAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAA-AGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
17183685 ATTGTAATTTAAAAGATTGAAGCTACAACAGCGAATCTCACCTCCCTGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
17183735 GA-TGCAGTGGAACAGATTGAAGCTACAACAGTGAATCTTACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
17183785 ATTGCAATTCAAAAGATTGAAG-TCACAACGACAAATCTCA-TTTCCCTAGC
1 ATTGCAATTGAAAAGATTGAAGCT-ACAACGGCGAATCTTACTTCCCCGA-C
*** * *
17183835 GA-TGCAGCAGAATAGATTGAAGCTACAACAGCGAATCTTACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
** * * * * * * *
17183885 ATTTTAATTTAAAAGATCGAAGCCACAATGGTGAATCTTATTTCCCATG-C
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-CGAC
* * * * * * *
17183935 AGTGCAGTTGAACAGATTGAAGCTACAACAGAGGATCTTACTTCCTCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * * *
17183985 ATTGCAATTTAAAAGATCGAAGCCACAACGGTGAGTCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * *
17184035 AGTGCAGTTGAACAGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * * *
17184085 ATTGCAATTTAAAAGATCGAAGCCACAACGGTGAGTCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * * *
17184135 AGTACAGTTGAATAGATTGAAGCTACAACAGCGGATCTTGCTTCCTCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * ** * * *
17184185 ATTGCAATTTAAAAGATCGAAGCCACAATGGTAAATCTTATTTCCCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
** * * * *
17184235 GA-TGCAACAGAACAGATTGAAGCTACGACGGCGAATATCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * *
17184285 ATTGCAATTCG-AAAGATTGAAGCCACAACGACGAATCTTACTTCCCAGGC
1 ATTGCAATT-GAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * * * * *
17184335 GA-TGCAGCAGAACAGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
** * * * * * *
17184385 GA-TGCAACGGAACATATTGAAGCTACGACGACGAATCTCACTTTCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * * * *
17184435 ATTACATTTTTAAAAGATTGAATCCACAACGGTGAATCTTACTTCTCAGGC
1 ATTGCA-ATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * * * *
17184486 GA-TGCAGCGGAAAAGATTGAAGCTACGATGGCAAATCTCACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * **
17184536 ATTGCAACTT-AAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGTG
1 ATTGCAA-TTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-CGAC
* *** * * * * * *
17184587 A-TGTAGCGGAACATATTGAAGCTACGACGGCGAATCTCACATCCCCTAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * **
17184636 ATTGCAATTTAAAAGAATGAAGCCACAACGGCGAATCTTACTTCCCAGGTG
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-CGAC
*** * * ** * *
17184687 A-TGCAGCGGAACAGATTGATGCTATGACGGC-AGATCTCACTTCGCCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGA-ATCTTACTTCCCCGAC
* * * * * *
17184736 AGTGCAATTAAAAAGATTGAAGC-A-AACGACGAATCTTACCTT-TCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTA-CTTCCCCGAC
*** * * **
17184784 GA-TGCAGCGGAATAGATTGAAGCTACAATGGCGAATCACACTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
17184834 ATTGCAATTAAAAATATTGAAGCTACAACGGTGAATCTTACCTT-TCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTA-CTTCCCCGAC
** *** * * * *
17184884 GGTGCAGCGGAATAGATTGAAGATACAACGGCGAATCCTACTTCCCTGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * *
17184934 ACTGCAATTTAAAAGATTGAGGCCACAACGACGAATCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
** * * ** * *
17184983 GA-TGCAACGGAACAGATTGAAGCTATAATAGCGAATCATGCTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * *
17185033 ATTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* *** * * * *
17185082 AATGCAGCGGAACAGATTGAAGCTACAACGACGAATCATGCTTCCCCGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * * * * *
17185132 ACTGCAATTTAAAATATTGAGGCCACAATGGTGAATCTTACTT-CCAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
** * * * *
17185181 GA-TGCAACGGAACAGATTGAAGCTACAACAGCGAATCCTGCTTCCCCGAC
1 -ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * ** ** *
17185231 ATTGCAATTAAAAAGATTGAGGCCACAACGATGAATCTTACTT-CAAGGC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
*** * * * * *
17185280 GA-TGCAGCAGAACAA-ATTGAAGCTACAACAGTGAATCCTGCTTCCCCAAC
1 -ATTGCAATTGAA-AAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
* * * * * *
17185330 ATTGCAATTTAATAGATTGAAGCTACGACGACAAATCTTACTTCCCTGAC
1 ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
17185380 ATTGCA
1 ATTGCA
17185386 GTTAAACAGA
Statistics
Matches: 1234, Mismatches: 466, Indels: 101
0.69 0.26 0.06
Matches are distributed among these distances:
48 28 0.02
49 174 0.14
50 976 0.79
51 55 0.04
52 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (50 bp):
ATTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCCGAC
Found at i:17184673 original size:251 final size:251
Alignment explanation
Indices: 17184192--17184678 Score: 609
Period size: 251 Copynumber: 1.9 Consensus size: 251
17184182 GACATTGCAA
* * *
17184192 TTTAAAAGATCGAAGCCACAATGGTAAATCTTATTTCCCAGGCGATGCAACAGAACAGATTGAAG
1 TTTAAAAGATCGAAGCCACAACGGTAAATCTTACTTCCCAGGCGATGCAACAGAAAAGATTGAAG
* *
17184257 CTACGACGGCGAATATCACTTCCCCGACATTGCAATTCGAAAGATTGAAGCCACAACGACGAATC
66 CTACGACGGCAAATATCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGACGAATC
* * *
17184322 TTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGCGA
131 TTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCCACAACGGCAAATCTCACATCCCAGACGA
* * * * *
17184387 TGCAACGGAACATATTGAAGCTACGACGACGAATCTCACTTTCCCGACATTACATT
196 TGCAACGGAAAAGAATGAAGCCACAACGACGAATCTCACTTTCCCGACATTACATT
* * * * * *
17184443 TTTAAAAGATTGAATCCACAACGGTGAATCTTACTTCTCAGGCGATGCAGCGGAAAAGATTGAAG
1 TTTAAAAGATCGAAGCCACAACGGTAAATCTTACTTCCCAGGCGATGCAACAGAAAAGATTGAAG
* * **
17184508 CTACGATGGCAAATCTCACTTCCCCGACATTGCAACTT-AAAAGATTGAAGCCACAACGGTGAAT
66 CTACGACGGCAAATATCACTTCCCCGACATTGCAA-TTCAAAAGATTGAAGCCACAACGACGAAT
* * * * * * * **
17184572 CTTACTTCCCAGGTGATGTAGCGGAACATATTGAAGCTACGACGGCGAATCTCACATCCCCTAC-
130 CTTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCCACAACGGCAAATCTCACATCCCAGACG
*** * *
17184636 ATTGCAATTTAAAAGAATGAAGCCACAACGGCGAATCTTACTT
195 A-TGCAACGGAAAAGAATGAAGCCACAACGACGAATCTCACTT
17184679 CCCAGGTGAT
Statistics
Matches: 197, Mismatches: 37, Indels: 4
0.83 0.16 0.02
Matches are distributed among these distances:
250 1 0.01
251 194 0.98
252 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (251 bp):
TTTAAAAGATCGAAGCCACAACGGTAAATCTTACTTCCCAGGCGATGCAACAGAAAAGATTGAAG
CTACGACGGCAAATATCACTTCCCCGACATTGCAATTCAAAAGATTGAAGCCACAACGACGAATC
TTACTTCCCAGGCGATGCAGCAGAACAGATTGAAGCCACAACGGCAAATCTCACATCCCAGACGA
TGCAACGGAAAAGAATGAAGCCACAACGACGAATCTCACTTTCCCGACATTACATT
Found at i:17184757 original size:351 final size:349
Alignment explanation
Indices: 17184092--17184771 Score: 853
Period size: 351 Copynumber: 1.9 Consensus size: 349
17184082 GACATTGCAA
* * ** *
17184092 TTTAAAAGATCGAAGCCACAACGGTGAGTCTTATTTCCCAGGCAGTACAGTTGAATAGATTGAAG
1 TTTAAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCAGTACAGCGGAAAAGATTGAAG
** ** * * *
17184157 CTACAACAGCGGATCTTGCTTCCTCGACATTGCAATTTAAAAGATCGAAGCCACAATGGTAAATC
66 CTACAACAGCAAATCTCACTTCCCCGACATTGCAACTTAAAAGATCGAAGCCACAACGGTAAATC
* *
17184222 TTATTTCCCAGGCGATGCAACAGAACAGATTGAAGCTACGACGGCGAATATCACTTCCCCGACAT
131 TTACTTCCCAGGCGATGCAACAGAACAGATTGAAGCTACGACGGCGAATATCACATCCCCGACAT
* *
17184287 TGCAATTCGAAAGATTGAAGCCACAACGACGAATCTTACTTCCCAGGCGATGCAGCAGAACAGAT
196 TGCAATTCAAAAGAATGAAGCCACAACGACGAATCTTACTTCCCAGGCGATGCAGCAGAACAGAT
* * * * * *
17184352 TGAAGCCACAACGGCAAATCTTACTTCCCAGGCGATGCAACGGAACATATTGAAGCTACGACGAC
261 TGAAGCCACAACGGCAAATCTCACTTCCCAGACGATGCAACGAAAAAGATTGAAGC-A-AACGAC
17184417 GAATCTCACTTTCCCGACATTACATT
324 GAATCTCACTTTCCCGACATTACATT
* * * *
17184443 TTTAAAAGATTGAATCCACAACGGTGAATCTTACTTCTCAGGC-GATGCAGCGGAAAAGATTGAA
1 TTTAAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCAG-TACAGCGGAAAAGATTGAA
* ** * *
17184507 GCTACGATGGCAAATCTCACTTCCCCGACATTGCAACTTAAAAGATTGAAGCCACAACGGTGAAT
65 GCTACAACAGCAAATCTCACTTCCCCGACATTGCAACTTAAAAGATCGAAGCCACAACGGTAAAT
* * * * * * *
17184572 CTTACTTCCCAGGTGATGTAGCGGAACATATTGAAGCTACGACGGCGAATCTCACATCCCCTACA
130 CTTACTTCCCAGGCGATGCAACAGAACAGATTGAAGCTACGACGGCGAATATCACATCCCCGACA
* * * *
17184637 TTGCAATTTAAAAGAATGAAGCCACAACGGCGAATCTTACTTCCCAGGTGATGCAGCGGAACAGA
195 TTGCAATTCAAAAGAATGAAGCCACAACGACGAATCTTACTTCCCAGGCGATGCAGCAGAACAGA
* * ** * **
17184702 TTGATGCTATGACGGCAGATCTCACTTCGCC-GAC-AGTGCAATTAAAAAGATTGAAGCAAACGA
260 TTGAAGCCACAACGGCAAATCTCACTTC-CCAGACGA-TGCAACGAAAAAGATTGAAGCAAACGA
17184765 CGAATCT
323 CGAATCT
17184772 TACCTTTCAG
Statistics
Matches: 277, Mismatches: 49, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
349 11 0.04
350 3 0.01
351 261 0.94
352 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (349 bp):
TTTAAAAGATCGAAGCCACAACGGTGAATCTTACTTCCCAGGCAGTACAGCGGAAAAGATTGAAG
CTACAACAGCAAATCTCACTTCCCCGACATTGCAACTTAAAAGATCGAAGCCACAACGGTAAATC
TTACTTCCCAGGCGATGCAACAGAACAGATTGAAGCTACGACGGCGAATATCACATCCCCGACAT
TGCAATTCAAAAGAATGAAGCCACAACGACGAATCTTACTTCCCAGGCGATGCAGCAGAACAGAT
TGAAGCCACAACGGCAAATCTCACTTCCCAGACGATGCAACGAAAAAGATTGAAGCAAACGACGA
ATCTCACTTTCCCGACATTACATT
Found at i:17185039 original size:99 final size:98
Alignment explanation
Indices: 17184348--17185374 Score: 1142
Period size: 99 Copynumber: 10.3 Consensus size: 98
17184338 GCAGCAGAAC
* * * *
17184348 AGATTGAAGCCACAACGGCAAATCTTACTTCCCAGGCGATGCAACGGAACATATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* * * *
17184413 CGACGAATCTCACTTTCCCGACATTACATTTTTAAA
65 CGGCGAATCT-ACTTCCCCGACATTGCA-ATTTAAA
* * * *
17184449 AGATTGAATCCACAACGGTGAATCTTACTTCTCAGGCGATGCAGCGGAAAAGATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTTC-CAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* * *
17184514 TGGCAAATCTCACTTCCCCGACATTGCAACTTAAA
65 CGGCGAATCT-ACTTCCCCGACATTGCAATTTAAA
* * * * *
17184549 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGTGATGTAGCGGAACATATTGAAGCTACGA
1 AGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* *
17184614 CGGCGAATCTCACATCCCCTACATTGCAATTTAAA
65 CGGCGAATCT-ACTTCCCCGACATTGCAATTTAAA
* * * **
17184649 AGAATGAAGCCACAACGGCGAATCTTACTTCCCAGGTGATGCAGCGGAACAGATTGATGCTATGA
1 AGATTGAAGCCACAACGGCGAATCTTACTT-CCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* * *
17184714 CGGC-AGATCTCACTTCGCCGACAGTGCAATTAAAA
65 CGGCGA-ATCT-ACTTCCCCGACATTGCAATTTAAA
* * *
17184749 AGATTGAAG-CA-AACGACGAATCTTACCTTTCAGGCGATGCAGCGGAATAGATTGAAGCTACAA
1 AGATTGAAGCCACAACGGCGAATCTTA-CTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* * *
17184812 TGGCGAATCACACTTCCCCGACATTGCAATTAAAA
65 CGGCGAATC-TACTTCCCCGACATTGCAATTTAAA
* * * * * * *
17184847 ATATTGAAGCTACAACGGTGAATCTTACCTTTCAGGCGGTGCAGCGGAATAGATTGAAGATACAA
1 AGATTGAAGCCACAACGGCGAATCTTA-CTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAA
* *
17184912 CGGCGAATCCTACTTCCCTGACACTGCAATTTAAA
65 CGGCGAAT-CTACTTCCCCGACATTGCAATTTAAA
* * * * *
17184947 AGATTGAGGCCACAACGACGAATCTTACTTCCAGGCGATGCAACGGAACAGATTGAAGCTATAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * *
17185012 AGCGAATCATGCTTCCCCGACATTGCAATTAAAA
66 GGCGAATC-TACTTCCCCGACATTGCAATTTAAA
* *
17185046 AGATTGAGGCCACAACGGCGAATCTTACTTCCAGGCAATGCAGCGGAACAGATTGAAGCTACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * *
17185111 GACGAATCATGCTTCCCCGACACTGCAATTTAAA
66 GGCGAATC-TACTTCCCCGACATTGCAATTTAAA
* * * * *
17185145 ATATTGAGGCCACAATGGTGAATCTTACTTCCAGGCGATGCAACGGAACAGATTGAAGCTACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * *
17185210 AGCGAATCCTGCTTCCCCGACATTGCAATTAAAA
66 GGCGAAT-CTACTTCCCCGACATTGCAATTTAAA
* ** * * *
17185244 AGATTGAGGCCACAACGATGAATCTTACTTCAAGGCGATGCAGCAGAACAAATTGAAGCTACAAC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
* * * * *
17185309 AGTGAATCCTGCTTCCCCAACATTGCAATTTAAT
66 GGCGAAT-CTACTTCCCCGACATTGCAATTTAAA
* * * *
17185343 AGATTGAAGCTACGACGACAAATCTTACTTCC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCC
17185375 CTGACATTGC
Statistics
Matches: 806, Mismatches: 109, Indels: 24
0.86 0.12 0.03
Matches are distributed among these distances:
98 78 0.10
99 358 0.44
100 288 0.36
101 82 0.10
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (98 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAAC
GGCGAATCTACTTCCCCGACATTGCAATTTAAA
Found at i:17185611 original size:95 final size:95
Alignment explanation
Indices: 17185476--17185671 Score: 304
Period size: 95 Copynumber: 2.1 Consensus size: 95
17185466 CCTAAGTGGA
* *
17185476 GAAGATCGAAGATGGCAGATTTTACCTCCCTGAGGCTACAGTGGAGTACATTGAAGCC-GATAAT
1 GAAGATCGAAGATGACAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCAG-TAAT
* *
17185540 TCTATTTCCCTGGTTGGCAGTGGAATAGATT
65 TCTATCTCCCTGGTTGGCAGTGCAATAGATT
* *
17185571 GAAGATCGAAGATGACAGATTTTACCTCCCTGTGACTACAGTGGAGTATATTGAAGCCAGTAATT
1 GAAGATCGAAGATGACAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCAGTAATT
**
17185636 CTATCTCTTTGGTTGGCAGTGCAATAGATT
66 CTATCTCCCTGGTTGGCAGTGCAATAGATT
17185666 GAAGAT
1 GAAGAT
17185672 TTCAGATCTT
Statistics
Matches: 92, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 91 0.99
96 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (95 bp):
GAAGATCGAAGATGACAGATTTTACCTCCCTGAGACTACAGTGGAGTACATTGAAGCCAGTAATT
CTATCTCCCTGGTTGGCAGTGCAATAGATT
Found at i:17187211 original size:3 final size:3
Alignment explanation
Indices: 17187182--17187242 Score: 54
Period size: 3 Copynumber: 20.3 Consensus size: 3
17187172 TGTAGCATTT
* *
17187182 TTA TTA TT- TTG TTCA TTA TT- CTA TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
17187227 ATA TTA TTG TTA TTA T
1 TTA TTA TTA TTA TTA T
17187243 CATCGTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
2 3 0.06
3 39 0.83
4 5 0.11
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:17187211 original size:23 final size:22
Alignment explanation
Indices: 17187178--17187242 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
17187168 CCTTTGTAGC
*
17187178 ATTT-TTATTATT-TTGTTCATT
1 ATTTATTATTATTATTATT-ATT
17187199 ATTCTATTATTATTATTATTATT
1 ATT-TATTATTATTATTATTATT
* *
17187222 ATTTAATATTATTGTTATTAT
1 ATTTATTATTATTATTATTAT
17187243 CATCGTATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 17 0.45
23 14 0.37
24 4 0.11
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (22 bp):
ATTTATTATTATTATTATTATT
Found at i:17187675 original size:2 final size:2
Alignment explanation
Indices: 17187569--17187667 Score: 55
Period size: 2 Copynumber: 50.0 Consensus size: 2
17187559 TTTATGAATC
* * *
17187569 AT AT AT AT CT AC AT AT AT AT AT AT AT -T TT AT AT -T AT GAT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT A-T
* * * *
17187611 -T AC AT AT GT AT AT AG GT AT AT ACT -T ACT -T AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT A-T AT AT AT AT AT AT AT
*
17187652 AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT
17187668 TTTATATAAT
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
1 5 0.07
2 63 0.86
3 5 0.07
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.47
Consensus pattern (2 bp):
AT
Found at i:17187704 original size:73 final size:73
Alignment explanation
Indices: 17187569--17187704 Score: 166
Period size: 73 Copynumber: 1.9 Consensus size: 73
17187559 TTTATGAATC
* * * * * * **
17187569 ATATATATCTACATATATATATATATTTTATATTATGATAGTTACATATGTATATAGGTATATAC
1 ATATATATATACATATACATATATATTTTATATAATAATAGTTAAATATGTACATACATATATAC
17187634 TTACTTAT
66 TTACTTAT
* *
17187642 ATATATATATATATATACATATATATTTTATATAATAAT-TTTAAAATATGTACATACATATAT
1 ATATATATATACATATACATATATATTTTATATAATAATAGTT-AAATATGTACATACATATAT
17187705 CTTTCATATT
Statistics
Matches: 52, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
72 2 0.04
73 50 0.96
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (73 bp):
ATATATATATACATATACATATATATTTTATATAATAATAGTTAAATATGTACATACATATATAC
TTACTTAT
Found at i:17187875 original size:17 final size:18
Alignment explanation
Indices: 17187840--17187878 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
17187830 TCATATGTCC
17187840 ATTTTTATGTTTTAGTTT
1 ATTTTTATGTTTTAGTTT
17187858 ATTTTTAT-TATTTA-TTT
1 ATTTTTATGT-TTTAGTTT
17187875 ATTT
1 ATTT
17187879 GCTATGGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (18 bp):
ATTTTTATGTTTTAGTTT
Found at i:17191511 original size:32 final size:32
Alignment explanation
Indices: 17191475--17191632 Score: 183
Period size: 32 Copynumber: 5.0 Consensus size: 32
17191465 GCCATAAGTT
* * * ** *
17191475 TAGTAATATGATTGGCATAAAGCCATCAGCAG
1 TAGTAATATGATCGACACAAAGCCATCAATAA
* * * * *
17191507 TAGTAATACGATCGTCACACATCCATCAGTAA
1 TAGTAATATGATCGACACAAAGCCATCAATAA
*
17191539 TAGTAATATGATCGACACAAAGCCATCAATAG
1 TAGTAATATGATCGACACAAAGCCATCAATAA
*
17191571 TAGTAATATGATCGACACAAA-CTATCAATAA
1 TAGTAATATGATCGACACAAAGCCATCAATAA
*
17191602 TAGTAATATGATCGGCACAAAGCCATCAATA
1 TAGTAATATGATCGACACAAAGCCATCAATA
17191633 GCATCGCAGC
Statistics
Matches: 107, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
31 28 0.26
32 79 0.74
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (32 bp):
TAGTAATATGATCGACACAAAGCCATCAATAA
Found at i:17191624 original size:63 final size:64
Alignment explanation
Indices: 17191475--17191633 Score: 221
Period size: 64 Copynumber: 2.5 Consensus size: 64
17191465 GCCATAAGTT
* * ** * * *
17191475 TAGTAATATGATTGGCATAAAGCCATCAGCAGTAGTAATACGATCGTCACACATCCATCAGTAA
1 TAGTAATATGATCGGCACAAAGCCATCAATAGTAGTAATACGATCGACACACAACCATCAATAA
* * *
17191539 TAGTAATATGATCGACACAAAGCCATCAATAGTAGTAATATGATCGACACA-AACTATCAATAA
1 TAGTAATATGATCGGCACAAAGCCATCAATAGTAGTAATACGATCGACACACAACCATCAATAA
17191602 TAGTAATATGATCGGCACAAAGCCATCAATAG
1 TAGTAATATGATCGGCACAAAGCCATCAATAG
17191634 CATCGCAGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
63 40 0.48
64 44 0.52
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (64 bp):
TAGTAATATGATCGGCACAAAGCCATCAATAGTAGTAATACGATCGACACACAACCATCAATAA
Found at i:17191659 original size:26 final size:26
Alignment explanation
Indices: 17191623--17191672 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
17191613 TCGGCACAAA
*
17191623 GCCATCAATAGCATCGCAGCAAAGCT
1 GCCAACAATAGCATCGCAGCAAAGCT
*
17191649 GCCAACAATAGTATCGCAGCAAAG
1 GCCAACAATAGCATCGCAGCAAAG
17191673 TTGCTAGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.38, C:0.28, G:0.20, T:0.14
Consensus pattern (26 bp):
GCCAACAATAGCATCGCAGCAAAGCT
Found at i:17191707 original size:27 final size:27
Alignment explanation
Indices: 17191676--17191740 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
17191666 AGCAAAGTTG
* *
17191676 CTAGTAACAGT-ATATGTTGCCAAGCCA
1 CTAGTAACAGTGAT-TGTGGCAAAGCCA
17191703 CTAGTAACAGTGATTGTGGCAAAGCCA
1 CTAGTAACAGTGATTGTGGCAAAGCCA
*
17191730 CCAGT-ACAGTG
1 CTAGTAACAGTG
17191741 CTTCCTCCAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.18
27 26 0.76
28 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (27 bp):
CTAGTAACAGTGATTGTGGCAAAGCCA
Done.