Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 46 of 235
Found at i:15123810 original size:22 final size:22
Alignment explanation
Indices: 15123771--15123842 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
15123761 GCCTATCCAA
*
15123771 TTTTTTCTTTTTTCTTTTTTCTC
1 TTTTTTCTTTTCT-TTTTTTCTC
15123794 TTTTTTC-TTTCTATTTTTTCTC
1 TTTTTTCTTTTCT-TTTTTTCTC
* *
15123816 -TTTTTCTTTTCTTTTTTTATT
1 TTTTTTCTTTTCTTTTTTTCTC
15123837 TTTTTT
1 TTTTTT
15123843 TGAAATAGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
21 13 0.30
22 23 0.53
23 7 0.16
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTTTTCTTTTCTTTTTTTCTC
Found at i:15129450 original size:22 final size:21
Alignment explanation
Indices: 15129420--15129485 Score: 64
Period size: 19 Copynumber: 3.2 Consensus size: 21
15129410 TACAAATTAA
15129420 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
15129442 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
* *
15129463 ATCT--AAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
15129482 ATCT
1 ATCT
15129486 AAGATTGTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
19 19 0.46
21 10 0.24
22 12 0.29
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.35
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:15129472 original size:19 final size:19
Alignment explanation
Indices: 15129437--15129534 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
15129427 AGATTACAAG
15129437 ATCATATCTTCAAGATTGCAT
1 ATCATATC-T-AAGATTGCAT
15129458 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
15129477 ATCATATCTAAGATTG--T
1 ATCATATCTAAGATTGCAT
*
15129494 ATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
15129513 ATCATATCTAAGATTGCAT
1 ATCATATCTAAGATTGCAT
15129532 ATC
1 ATC
15129535 CTTAAAGATT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
20 1 0.01
21 8 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (19 bp):
ATCATATCTAAGATTGCAT
Found at i:15129506 original size:36 final size:37
Alignment explanation
Indices: 15129437--15129534 Score: 144
Period size: 36 Copynumber: 2.6 Consensus size: 37
15129427 AGATTACAAG
15129437 ATCATATCTTCAAGATTGCATATCATATCTAAGATTGCAT
1 ATCATATC-T-AAGATTG-ATATCATATCTAAGATTGCAT
*
15129477 ATCATATCTAAGATTG-TATCATATTTAAGATTGCAT
1 ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
15129513 ATCATATCTAAGATTGCATATC
1 ATCATATCTAAGATTG-ATATC
15129535 CTTAAAGATT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
36 35 0.64
38 11 0.20
39 1 0.02
40 8 0.15
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
ATCATATCTAAGATTGATATCATATCTAAGATTGCAT
Found at i:15132992 original size:17 final size:17
Alignment explanation
Indices: 15132970--15133006 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
15132960 TTTAGGTATA
15132970 ATTGCAATTCAAAAATC
1 ATTGCAATTCAAAAATC
15132987 ATTGCAATTCAAAAATC
1 ATTGCAATTCAAAAATC
15133004 ATT
1 ATT
15133007 CTTGTGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.16, G:0.05, T:0.32
Consensus pattern (17 bp):
ATTGCAATTCAAAAATC
Found at i:15136671 original size:51 final size:51
Alignment explanation
Indices: 15136609--15136717 Score: 182
Period size: 51 Copynumber: 2.1 Consensus size: 51
15136599 GTTTCAATCC
*
15136609 TTTTCATAATTTCATGACATAGTTCATTCGAATACATACCTTTCCTTTCCT
1 TTTTCATAATTTCATGACATAGTTCATTCGAACACATACCTTTCCTTTCCT
* * *
15136660 TTTTTATAATTTCATGACATAGTTCATTTGAACACATACCTTTCTTTTCCT
1 TTTTCATAATTTCATGACATAGTTCATTCGAACACATACCTTTCCTTTCCT
15136711 TTTTCAT
1 TTTTCAT
15136718 GCCCGTTGAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.25, C:0.21, G:0.06, T:0.49
Consensus pattern (51 bp):
TTTTCATAATTTCATGACATAGTTCATTCGAACACATACCTTTCCTTTCCT
Found at i:15138575 original size:94 final size:94
Alignment explanation
Indices: 15138409--15138583 Score: 305
Period size: 94 Copynumber: 1.9 Consensus size: 94
15138399 TTAAATTATG
* *
15138409 TTTTAATTATTATTTATCTAAAACTCTTTTAAATAATAATTAAATTCTATTTCCTTATCTGATAA
1 TTTTAATTATTATTTATATAAAACTCTTTTAAATAATAATTAAATTCTATTTCCGTATCTGATAA
15138474 GGAATATATAAAATCCTTTTGATTTTGAA
66 GGAATATATAAAATCCTTTTGATTTTGAA
*
15138503 TTTTAATTATTATTTATATAGAACTCTTTTAAATAATAATTAAATTCTATTTCCGTATCTGATAA
1 TTTTAATTATTATTTATATAAAACTCTTTTAAATAATAATTAAATTCTATTTCCGTATCTGATAA
* *
15138568 GGGATATATCAAATCC
66 GGAATATATAAAATCC
15138584 CCTTTTTATC
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.46
Consensus pattern (94 bp):
TTTTAATTATTATTTATATAAAACTCTTTTAAATAATAATTAAATTCTATTTCCGTATCTGATAA
GGAATATATAAAATCCTTTTGATTTTGAA
Found at i:15142903 original size:24 final size:24
Alignment explanation
Indices: 15142876--15142923 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
15142866 AGAAAAAACA
15142876 TCGCTTTAGCTTTTCAATTTAGCT
1 TCGCTTTAGCTTTTCAATTTAGCT
*
15142900 TCGCTTTAGCTTTTTAATTTAGCT
1 TCGCTTTAGCTTTTCAATTTAGCT
15142924 AGATTCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.17, C:0.19, G:0.12, T:0.52
Consensus pattern (24 bp):
TCGCTTTAGCTTTTCAATTTAGCT
Found at i:15144023 original size:40 final size:40
Alignment explanation
Indices: 15143966--15144116 Score: 160
Period size: 40 Copynumber: 3.8 Consensus size: 40
15143956 AGCTTTAGTG
*
15143966 GCATTAGCGGCGTTTTTTGAAAAACGCCGCTATAGATCAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
* * * ** * * *
15144006 GCATTAGCGGTGCTTTTTTAAAAAATGCCAATATTGGTCGA
1 GCATTAGCGGCGC-TTTTTGAAAAACGCCGCTATAGATCAA
* * *
15144047 CCATTAGAGGCGCTTTATGAAAAACGCCGCTATAGATCGAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATC-AA
*
15144088 -CATTAGCGGCGCTTTTTGAAAAATGCCGC
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGC
15144117 AAAATCATTT
Statistics
Matches: 86, Mismatches: 23, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
40 55 0.64
41 31 0.36
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.28
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTATAGATCAA
Found at i:15144336 original size:13 final size:13
Alignment explanation
Indices: 15144318--15144350 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
15144308 ATATATTTAG
15144318 GGTTTATGGTGTA
1 GGTTTATGGTGTA
15144331 GGTTTATGGTGTA
1 GGTTTATGGTGTA
15144344 GGATTTA
1 GG-TTTA
15144351 GGATTTAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.18, C:0.00, G:0.36, T:0.45
Consensus pattern (13 bp):
GGTTTATGGTGTA
Found at i:15145005 original size:9 final size:8
Alignment explanation
Indices: 15144987--15145080 Score: 72
Period size: 7 Copynumber: 11.9 Consensus size: 8
15144977 TTTATATGTT
15144987 AATTTAAA
1 AATTTAAA
15144995 AATTATAAA
1 AATT-TAAA
15145004 AATCTTCAAAA
1 AAT-TT--AAA
15145015 AATTT-AA
1 AATTTAAA
15145022 AATTT-AA
1 AATTTAAA
*
15145029 AATCTAAA
1 AATTTAAA
15145037 AA-TTAAA
1 AATTTAAA
15145044 AA-TTAAA
1 AATTTAAA
*
15145051 TA-TTAAA
1 AATTTAAA
*
15145058 AATTAAAA
1 AATTTAAA
*
15145066 AACTTAAA
1 AATTTAAA
*
15145074 TATTTAA
1 AATTTAA
15145081 TATTTAATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
7 31 0.44
8 23 0.32
9 8 0.11
10 3 0.04
11 6 0.08
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (8 bp):
AATTTAAA
Found at i:15145025 original size:7 final size:7
Alignment explanation
Indices: 15145013--15145092 Score: 61
Period size: 7 Copynumber: 11.0 Consensus size: 7
15145003 AAATCTTCAA
15145013 AAAATTT
1 AAAATTT
15145020 AAAATTT
1 AAAATTT
*
15145027 AAAATCT
1 AAAATTT
*
15145034 AAAAATT
1 AAAATTT
*
15145041 AAAAATT
1 AAAATTT
*
15145048 AAATATTA
1 AAA-ATTT
*
15145056 AAAATTAA
1 AAAATT-T
*
15145064 AAAACTT
1 AAAATTT
15145071 AAATATTT
1 AAA-ATTT
*
15145079 AATATTT
1 AAAATTT
*
15145086 AATATTT
1 AAAATTT
15145093 TATTCCATAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
7 45 0.74
8 16 0.26
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.39
Consensus pattern (7 bp):
AAAATTT
Found at i:15145042 original size:21 final size:21
Alignment explanation
Indices: 15145012--15145077 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 21
15145002 AAAATCTTCA
*
15145012 AAAAATTTAAAATTTAAA-ATCT
1 AAAAA-TTAAAAATTAAATAT-T
15145034 AAAAATTAAAAATTAAATATT
1 AAAAATTAAAAATTAAATATT
15145055 AAAAATTAAAAAACTTAAATATT
1 AAAAATT-AAAAA-TTAAATATT
15145078 TAATATTTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
21 19 0.47
22 12 0.30
23 9 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAATTAAAAATTAAATATT
Found at i:15149809 original size:43 final size:42
Alignment explanation
Indices: 15149688--15149951 Score: 235
Period size: 43 Copynumber: 6.2 Consensus size: 42
15149678 TTACTTTTAA
* * * * *
15149688 ATGTTCTTTAGCGGCGTTTTTGAGAAAAGCGCTGCTAAAGGTCT
1 ATGTTCTTTAGCGGCATTTGTGGGAAAAACGC-GCTAAAGG-CC
* * * * * *
15149732 AT-AT-TATAGTGGCATTTGTGGCAAAAGCGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCATTTGTGGGAAAAACG-CGCTAAAGGCC
**
15149773 ATGTTCTTTAGCGGCATTTGTCAGAAAAACGTCGCTAAAGGCC
1 ATGTTCTTTAGCGGCATTTGTGGGAAAAACG-CGCTAAAGGCC
* * *
15149816 ATGTTCTTTAGCGGCTTTTGTGGGGAAAAGCGCCCTAAAGGCC
1 ATGTTCTTTAGCGGCATTTGT-GGGAAAAACGCGCTAAAGGCC
* **
15149859 ATGTTCTTTAGCAGCATTTGTGGGAAAAGGGCTGCTAAAGGCC
1 ATGTTCTTTAGCGGCATTTGTGGGAAAAACGC-GCTAAAGGCC
* ** * *
15149902 ATGTTCTTTAGCAGTGTTTTTGGGAAAAACGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCATTTGTGGGAAAAACG-CGCTAAAGGCC
15149945 ATGTTCT
1 ATGTTCT
15149952 ATAGTGTTGT
Statistics
Matches: 181, Mismatches: 33, Indels: 13
0.80 0.15 0.06
Matches are distributed among these distances:
41 2 0.01
42 38 0.21
43 131 0.72
44 10 0.06
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (42 bp):
ATGTTCTTTAGCGGCATTTGTGGGAAAAACGCGCTAAAGGCC
Found at i:15149876 original size:86 final size:87
Alignment explanation
Indices: 15149746--15149951 Score: 278
Period size: 86 Copynumber: 2.4 Consensus size: 87
15149736 TATAGTGGCA
* * *
15149746 TTTGTGGCAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCATTTGTCAGAAAAACGTC-GCTA
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCATTTGT-AGAAAAACGGCTGCTA
15149810 AAGGCCATGTTCTTTAGC-G-GCT
65 AAGGCCATGTTCTTTAGCAGTG-T
* * * *
15149832 TTTGTGGGGAAAAGCGCC-CTAAAGGCCATGTTCTTTAGCAGCATTTGTGGGAAAAGGGCTGCTA
1 TTTGT-GGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCATTTGTAGAAAAACGGCTGCTA
15149896 AAGGCCATGTTCTTTAGCAGTGT
65 AAGGCCATGTTCTTTAGCAGTGT
*
15149919 TTT-TGGGAAAAACGCCGCTAAAGGTCATGTTCT
1 TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCT
15149952 ATAGTGTTGT
Statistics
Matches: 106, Mismatches: 9, Indels: 10
0.85 0.07 0.08
Matches are distributed among these distances:
85 18 0.17
86 71 0.67
87 16 0.15
88 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (87 bp):
TTTGTGGGAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCAGCATTTGTAGAAAAACGGCTGCTAA
AGGCCATGTTCTTTAGCAGTGT
Found at i:15153858 original size:42 final size:42
Alignment explanation
Indices: 15153751--15153868 Score: 148
Period size: 43 Copynumber: 2.8 Consensus size: 42
15153741 GTACTAATGT
* * * *
15153751 CATATCCCAAATATGGTGTTACATGTAATCTTATATCGATGC
1 CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
* * *
15153793 CAATAGCCCAGCTATGATCTTACACG-AAGTCTCATATCGATGC
1 C-ATATCCCAGATATGGTCTTACACGTAA-TCTCATATCGATGC
15153836 CATATCCCAGATATGGTCTTACACGTAATCTCA
1 CATATCCCAGATATGGTCTTACACGTAATCTCA
15153869 ATGACCATAA
Statistics
Matches: 63, Mismatches: 10, Indels: 6
0.80 0.13 0.08
Matches are distributed among these distances:
42 29 0.46
43 34 0.54
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGTAATCTCATATCGATGC
Found at i:15157431 original size:39 final size:40
Alignment explanation
Indices: 15157386--15157532 Score: 210
Period size: 39 Copynumber: 3.7 Consensus size: 40
15157376 ACTACTTGCT
15157386 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
15157426 -GAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * * *
15157465 CAAATGCCTTTGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
15157504 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
15157533 CATCCGAATA
Statistics
Matches: 94, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
38 1 0.01
39 70 0.74
40 22 0.23
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:15170618 original size:29 final size:27
Alignment explanation
Indices: 15170537--15170650 Score: 106
Period size: 28 Copynumber: 4.1 Consensus size: 27
15170527 CATACATGTA
* *
15170537 TATG-GCCCACTAGGCCCAATCTC-TT
1 TATGAGCCCATTAGGCCCAATCACATT
*
15170562 TCATGTGGCCCATTAGGCCCAATCACATT
1 T-ATG-AGCCCATTAGGCCCAATCACATT
* *
15170591 TATGAAGCCCATTATGCCTAAATCACATT
1 TATG-AGCCCATTAGGCC-CAATCACATT
* * *
15170620 CATGCGGCCATTAGGCCCAATCACATT
1 TATGAGCCCATTAGGCCCAATCACATT
15170647 TATG
1 TATG
15170651 GTCATGCTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
25 1 0.01
26 3 0.04
27 12 0.17
28 41 0.57
29 15 0.21
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (27 bp):
TATGAGCCCATTAGGCCCAATCACATT
Found at i:15175692 original size:93 final size:93
Alignment explanation
Indices: 15175580--15175751 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
15175570 CGCCCATAAG
*
15175580 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
15175644 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
15175673 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
15175738 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
15175752 TCAACCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:15175746 original size:46 final size:46
Alignment explanation
Indices: 15175573--15175748 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
15175563 TGTAACCCGC
* *
15175573 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
15175619 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
15175669 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
15175712 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
15175749 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15182805 original size:93 final size:93
Alignment explanation
Indices: 15182698--15182868 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
15182688 GCCCCTAAGT
* *
15182698 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15182763 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
15182791 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15182856 CGAGTTCGGATGC
66 CGAGTTCGGATGC
15182869 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:15182865 original size:46 final size:46
Alignment explanation
Indices: 15182693--15182865 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
15182683 AACCCGCCCC
* * *
15182693 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
15182739 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
15182787 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
15182832 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
15182866 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 61 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:15183320 original size:30 final size:30
Alignment explanation
Indices: 15183286--15183345 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15183276 ATTTAATACG
15183286 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
15183316 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
15183346 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:15190337 original size:46 final size:46
Alignment explanation
Indices: 15190270--15190623 Score: 656
Period size: 46 Copynumber: 7.7 Consensus size: 46
15190260 TGTAACCCGC
* * *
15190270 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
15190316 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15190362 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15190408 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15190454 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15190500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
15190546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
15190592 CCATAAGTGAACTCGGACTCAACTCATCGAGT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGT
15190624 AGTACAAGTT
Statistics
Matches: 303, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
45 2 0.01
46 301 0.99
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:15201188 original size:43 final size:43
Alignment explanation
Indices: 15201127--15201331 Score: 323
Period size: 43 Copynumber: 4.9 Consensus size: 43
15201117 GAATATTCGG
*
15201127 ATGATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15201170 ATGATAACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
15201213 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
15201256 AT-AT--CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15201296 AT-AT--CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGT
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
15201332 AGCTATATCC
Statistics
Matches: 155, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
40 70 0.45
42 2 0.01
43 83 0.54
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (43 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:15201342 original size:80 final size:82
Alignment explanation
Indices: 15201127--15201357 Score: 326
Period size: 86 Copynumber: 2.8 Consensus size: 82
15201117 GAATATTCGG
* *
15201127 ATGATAACCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATGATAACCGGGTTAAGTCCCG
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT--CCGGGCTAAGTCCCG
*
15201192 AAGGCATTTGTGTGAGTTACT
62 AAGGCATTTGTGCGAGTTACT
15201213 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
1 ATGAT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAG
15201278 GCATTTGTGCGAGTTACT
65 GCATTTGTGCGAGTTACT
* * *
15201296 AT-AT-CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATATCC-GGCTAAATCCCGAAG
1 ATGATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAG
15201357 G
65 G
15201358 TACTTGGTTT
Statistics
Matches: 138, Mismatches: 6, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
79 17 0.12
80 37 0.27
82 2 0.01
83 36 0.26
85 2 0.01
86 44 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (82 bp):
ATGATACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGG
CATTTGTGCGAGTTACT
Found at i:15201357 original size:39 final size:40
Alignment explanation
Indices: 15201134--15201357 Score: 317
Period size: 40 Copynumber: 5.5 Consensus size: 40
15201124 CGGATGATAA
*
15201134 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATGAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
15201175 AACCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTATGAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
15201218 AACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 --CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
15201260 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
15201300 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
15201340 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
15201358 TACTTGGTTT
Statistics
Matches: 172, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
39 17 0.10
40 77 0.45
42 2 0.01
43 76 0.44
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:15216533 original size:43 final size:40
Alignment explanation
Indices: 15216461--15216688 Score: 289
Period size: 40 Copynumber: 5.6 Consensus size: 40
15216451 TATTCGGATG
*
15216461 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15216501 ATGTTAACTGGGCCAAGTCCCGAAGGCATTTGTGTGAGTTACT
1 A---TAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
15216544 ATGATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 AT-A-ACT-GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
15216587 ATATCTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
15216627 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCT
1 ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
* * *
15216667 ATATC-CGGCTAAATCCCGAAGG
1 ATAACTGGGCTAAGTCCCGAAGG
15216689 TACTTGGTTT
Statistics
Matches: 167, Mismatches: 14, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
39 17 0.10
40 74 0.44
41 2 0.01
42 3 0.02
43 71 0.43
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATAACTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:15216671 original size:80 final size:82
Alignment explanation
Indices: 15216458--15216688 Score: 326
Period size: 86 Copynumber: 2.8 Consensus size: 82
15216448 GAATATTCGG
* *
15216458 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATGTTAACTGGGCCAAGTCCCG
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA---TATCTGGGCTAAGTCCCG
*
15216523 AAGGCATTTGTGTGAGTTAC
63 AAGGCATTTGTGCGAGTTAC
*
15216543 TATGATAATCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAA
1 -ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAA
15216608 GGCATTTGTGCGAGTTAC
65 GGCATTTGTGCGAGTTAC
* * *
15216626 -T-ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC-CGGCTAAATCCCGAA
1 ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCTGGGCTAAGTCCCGAA
15216687 GG
65 GG
15216689 TACTTGGTTT
Statistics
Matches: 136, Mismatches: 8, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
79 17 0.12
80 40 0.29
81 1 0.01
83 35 0.26
86 43 0.32
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (82 bp):
ATGATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCTGGGCTAAGTCCCGAAG
GCATTTGTGCGAGTTAC
Found at i:15217889 original size:162 final size:163
Alignment explanation
Indices: 15217612--15217936 Score: 598
Period size: 162 Copynumber: 2.0 Consensus size: 163
15217602 GGAAATTCAT
15217612 TATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATTCCTTTTCGAGTCTAGT
1 TATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATTCCTTTTCGAGTCTAGT
* * *
15217677 TTCTTTAGAAACAAACGGCATAAGTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGTG
66 TTCTTTACAAACAAACGGAATAACTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGTG
15217742 CGAAGGTCAGAATGGTCGAACCCTGTAATAGGC
131 CGAAGGTCAGAATGGTCGAACCCTGTAATAGGC
* *
15217775 TATAAATTAACCAGAGATAATTAGAAGTCATGCCATATATTTATAGATTCCTTTT-GAGTCTAGT
1 TATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATTCCTTTTCGAGTCTAGT
15217839 TTCTTTACAAACAAACGGAATAACTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGTG
66 TTCTTTACAAACAAACGGAATAACTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGTG
15217904 CGAAGGTCAGAATGGTCGAACCCTGTAATAGGC
131 CGAAGGTCAGAATGGTCGAACCCTGTAATAGGC
15217937 GAGACTTTAA
Statistics
Matches: 157, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
162 104 0.66
163 53 0.34
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (163 bp):
TATAAATTAACCAGAGATAATTAGAAGTCATACCATATATGTATAGATTCCTTTTCGAGTCTAGT
TTCTTTACAAACAAACGGAATAACTATTGAAGCCCTGTACAGGGAGATATCCAAGTCGTAATGTG
CGAAGGTCAGAATGGTCGAACCCTGTAATAGGC
Found at i:15219060 original size:28 final size:28
Alignment explanation
Indices: 15219029--15219109 Score: 94
Period size: 28 Copynumber: 2.9 Consensus size: 28
15219019 TTTTCATATG
*
15219029 GCCCATTAAGCCCAATCACATTTATGTA-
1 GCCCATTAGGCCCAATCACATTTAT-TAC
* *
15219057 GCCCATTAGGTCCAAATCACATTCA-TAC
1 GCCCATTAGG-CCCAATCACATTTATTAC
*
15219085 GGCCATTAGGCCCAATCACATTTAT
1 GCCCATTAGGCCCAATCACATTTAT
15219110 AGTCATGCTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
27 14 0.32
28 18 0.41
29 12 0.27
ACGTcount: A:0.31, C:0.30, G:0.12, T:0.27
Consensus pattern (28 bp):
GCCCATTAGGCCCAATCACATTTATTAC
Found at i:15220170 original size:27 final size:27
Alignment explanation
Indices: 15220056--15220313 Score: 220
Period size: 27 Copynumber: 9.6 Consensus size: 27
15220046 TTAGTTTACC
*
15220056 AAATTACTGAAATACCCCCAA-TTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * * *
15220082 AAATTAC-CAAAGTACCCCCCCAGTTTATA
1 AAATTACTGAAA-TA--CCCTCAATTTGTA
* * * *
15220111 AAATTACCGAAATACCGTCGA-TTGCA
1 AAATTACTGAAATACCCTCAATTTGTA
15220137 AAATTACTGAAATACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* *
15220164 AAATTACTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
15220191 AAATTAC-CAAAGTACCCCCAATTTATA
1 AAATTACTGAAA-TACCCTCAATTTGTA
** * *
15220218 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
* * *
15220245 AAATTA-TCAAAATACCCTCAGTTTGCA
1 AAATTACT-GAAATACCCTCAATTTGTA
* *
15220272 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCAATTTGTA
*
15220299 AAATTATTGAAATAC
1 AAATTACTGAAATAC
15220314 TCCTGTAAGA
Statistics
Matches: 187, Mismatches: 35, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
25 3 0.02
26 33 0.18
27 124 0.66
28 11 0.06
29 13 0.07
30 3 0.02
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCAATTTGTA
Found at i:15220213 original size:54 final size:54
Alignment explanation
Indices: 15220056--15220304 Score: 270
Period size: 54 Copynumber: 4.6 Consensus size: 54
15220046 TTAGTTTACC
* * *
15220056 AAATTACTGAAATACCC-CCAATTGTAAAATTACCAAAGTACCCCCCCAGTTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTA--CCCCCAATTTATA
* * * * * *
15220111 AAATTACCGAAATACCGTCGA-TTGCAAAATTACTGAAA-TACCCTCAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTAC-CAAAGTACCCCCAATTTATA
*
15220164 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCAATTTATA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAATTTATA
** * * * * * **
15220218 AAATTACCCAAATATCCTCGATTTGTAAAATTATCAAAATACCCTCAGTTTGCA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAATTTATA
*
15220272 AAATTATTGAAATACCCTCGATTTGTAAAATTA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTA
15220305 TTGAAATACT
Statistics
Matches: 162, Mismatches: 28, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
53 32 0.20
54 97 0.60
55 28 0.17
56 5 0.03
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAGTACCCCCAATTTATA
Found at i:15220398 original size:27 final size:28
Alignment explanation
Indices: 15220368--15220430 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 28
15220358 ATCGTTTTCG
** *
15220368 AAATACCCTC-AATTTGTAAAATTACCA
1 AAATACCCTCTAATTTACAAAATTACAA
*
15220395 AAATACCC-CTGATTTACAAAATTACAA
1 AAATACCCTCTAATTTACAAAATTACAA
15220422 AAATACCCT
1 AAATACCCT
15220431 TGACTTTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.46, C:0.24, G:0.03, T:0.27
Consensus pattern (28 bp):
AAATACCCTCTAATTTACAAAATTACAA
Found at i:15220480 original size:27 final size:27
Alignment explanation
Indices: 15220441--15220492 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
15220431 TGACTTTCTA
15220441 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
15220468 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
15220493 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:15229794 original size:16 final size:16
Alignment explanation
Indices: 15229775--15229805 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15229765 CTTCTTCACT
15229775 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
15229791 TACTTACTTACTTAA
1 TACTCACTTACTTAA
15229806 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:15229811 original size:20 final size:20
Alignment explanation
Indices: 15229772--15229811 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
15229762 AAACTTCTTC
* *
15229772 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
15229792 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
15229812 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:15230126 original size:53 final size:54
Alignment explanation
Indices: 15229997--15230251 Score: 258
Period size: 55 Copynumber: 4.8 Consensus size: 54
15229987 ACACGGGTAC
* * * *
15229997 CTTACCATTGCCATGACTTGTCATGGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
15230046 CTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * *
15230099 CTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAA
1 CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* * * *
15230154 CTTATCAATGCCATGTCTTGAG-ATGGTCTTACATGATTTCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTG-GCATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
15230207 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACACGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
15230252 AAACCCTAAT
Statistics
Matches: 172, Mismatches: 21, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
49 37 0.22
50 1 0.01
52 2 0.01
53 49 0.28
54 11 0.06
55 69 0.40
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:15230188 original size:108 final size:110
Alignment explanation
Indices: 15230044--15230241 Score: 303
Period size: 108 Copynumber: 1.8 Consensus size: 110
15230034 ATCCTTTTGA
* *
15230044 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTAGCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTA-GAAACCTCACCAA
15230107 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
* * ** *
15230152 AACTTATCAATGCCATGTCTTGAGATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
15230217 TGCCATGCCTTGGCATGGTCTTACA
66 TGCCATGCCTTGGCATGGTCTTACA
15230242 CGGTATCCTT
Statistics
Matches: 80, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 47 0.59
109 7 0.09
110 25 0.31
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATAGCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:15241329 original size:24 final size:24
Alignment explanation
Indices: 15241284--15241330 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
15241274 ACACACCAAC
*
15241284 CTCCCCTATCTCCTCCTAAAATCT
1 CTCCCCTATCTCCTCCCAAAATCT
*
15241308 CTCCCCTTATCT-CTCCCCAAATC
1 CTCCCC-TATCTCCTCCCAAAATC
15241331 CCTCAAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.19, C:0.49, G:0.00, T:0.32
Consensus pattern (24 bp):
CTCCCCTATCTCCTCCCAAAATCT
Found at i:15243691 original size:17 final size:18
Alignment explanation
Indices: 15243669--15243703 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
15243659 GATATGATAC
*
15243669 TAAAAT-TATTAAAAAAT
1 TAAAATATATAAAAAAAT
15243686 TAAAATATATAAAAAAAT
1 TAAAATATATAAAAAAAT
15243704 CAGGGAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAAATATATAAAAAAAT
Found at i:15244000 original size:23 final size:22
Alignment explanation
Indices: 15243957--15244014 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
15243947 AAAAGGTATC
* *
15243957 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
15243978 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
15244001 TGCATATCATATCT
1 TACAAATCATATCT
15244015 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:15245774 original size:234 final size:234
Alignment explanation
Indices: 15245365--15245833 Score: 902
Period size: 234 Copynumber: 2.0 Consensus size: 234
15245355 TTGAGATTTT
15245365 TCTACCGTTCATTGTCAACTGGGTGGACTACGTAGAGGCCGACATCGGAAAGGTTGCGGCTTGGT
1 TCTACCGTTCATTGTCAACTGGGTGGACTACGTAGAGGCCGACATCGGAAAGGTTGCGGCTTGGT
* *
15245430 TCGATAGTGGTTCAGGATTCCCGTTGCCTAGGCGTCGCTGTCTACTCAGATTGAAGTTTCGGTAA
66 TCGATAGTGGTTCAAGATTCCCGTTCCCTAGGCGTCGCTGTCTACTCAGATTGAAGTTTCGGTAA
15245495 TTTCGAAACCTTTTATCACCCCGATTCATTCCTTACACATGGATCCATGGTTTGGATCACCGGAA
131 TTTCGAAACCTTTTATCACCCCGATTCATTCCTTACACATGGATCCATGGTTTGGATCACCGGAA
15245560 TGTTTTGAATTATTTTATTTTTCCGCTGCGCCATGGAGG
196 TGTTTTGAATTATTTTATTTTTCCGCTGCGCCATGGAGG
* *
15245599 TCTACCGTTCATTGTCAACTGGGTGGACTACGTAGAGGCCGACATTGGAAAGGTTGTGGCTTGGT
1 TCTACCGTTCATTGTCAACTGGGTGGACTACGTAGAGGCCGACATCGGAAAGGTTGCGGCTTGGT
15245664 TCGATAGTGGTTCAAGATTCCCGTTCCCTAGGCGTCGCTGTCTACTCAGATTGAAGTTTCGGTAA
66 TCGATAGTGGTTCAAGATTCCCGTTCCCTAGGCGTCGCTGTCTACTCAGATTGAAGTTTCGGTAA
15245729 TTTCGAAACCTTTTATCACCCCGATTCATTCCTTACACATGGATCCATGGTTTGGATCACCGGAA
131 TTTCGAAACCTTTTATCACCCCGATTCATTCCTTACACATGGATCCATGGTTTGGATCACCGGAA
15245794 TGTTTTGAATTATTTTATTTTTCCGCTGCGCCATGGAGG
196 TGTTTTGAATTATTTTATTTTTCCGCTGCGCCATGGAGG
15245833 T
1 T
15245834 ACCGGCGTTC
Statistics
Matches: 231, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
234 231 1.00
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.33
Consensus pattern (234 bp):
TCTACCGTTCATTGTCAACTGGGTGGACTACGTAGAGGCCGACATCGGAAAGGTTGCGGCTTGGT
TCGATAGTGGTTCAAGATTCCCGTTCCCTAGGCGTCGCTGTCTACTCAGATTGAAGTTTCGGTAA
TTTCGAAACCTTTTATCACCCCGATTCATTCCTTACACATGGATCCATGGTTTGGATCACCGGAA
TGTTTTGAATTATTTTATTTTTCCGCTGCGCCATGGAGG
Found at i:15253079 original size:37 final size:37
Alignment explanation
Indices: 15253026--15253128 Score: 188
Period size: 37 Copynumber: 2.8 Consensus size: 37
15253016 CGAATAGTCC
*
15253026 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
15253063 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
15253100 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
15253129 ATATATTTCC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:15253327 original size:48 final size:48
Alignment explanation
Indices: 15253269--15253525 Score: 397
Period size: 48 Copynumber: 5.3 Consensus size: 48
15253259 ATATACACAC
* *
15253269 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
**
15253317 ATCTCATACATATTTCACATTTTCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
**
15253365 ATCTCATACATATTTCACATTTTCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
15253413 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* * **
15253463 TTCTCATACATATTTCACATTAGCCATTCAGCTTTACTGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
15253511 ATCTCATATATATTT
1 ATCTCATACATATTT
15253526 ATCTTGTACA
Statistics
Matches: 195, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
48 151 0.77
50 44 0.23
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:15254468 original size:25 final size:25
Alignment explanation
Indices: 15254440--15254507 Score: 82
Period size: 25 Copynumber: 2.7 Consensus size: 25
15254430 CTCCATAGCA
*
15254440 TGTGAGAGCATACCGATTTATAACT
1 TGTGAGAGCATACCGATTTACAACT
* * *
15254465 TGTGAGAGCATACTGATCTACAGCT
1 TGTGAGAGCATACCGATTTACAACT
* *
15254490 TGAGTGAGCATACCGATT
1 TGTGAGAGCATACCGATT
15254508 CACAGCTCGT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (25 bp):
TGTGAGAGCATACCGATTTACAACT
Found at i:15267536 original size:285 final size:285
Alignment explanation
Indices: 15267026--15267596 Score: 1133
Period size: 285 Copynumber: 2.0 Consensus size: 285
15267016 CTTAAAAGTG
15267026 TCGAACTTGGGATGATTTACCTCGACTGTACCGAATGGGAAAATGCTAAGTACCGTAAGAGGGAT
1 TCGAACTTGGGATGATTTACCTCGACTGTACCGAATGGGAAAATGCTAAGTACCGTAAGAGGGAT
15267091 TTCTTCATTCAGTTTGGCAGTGATAATTTGAGGATTTGCGGCATCTAATAAAACTTTATCTCCAA
66 TTCTTCATTCAGTTTGGCAGTGATAATTTGAGGATTTGCGGCATCTAATAAAACTTTATCTCCAA
15267156 TCTTAAGTTGATTTGGAAAGGTATTGAGCTTGTTCTGGCATAGTTTTGGTTTATCGTGTGTTCTC
131 TCTTAAGTTGATTTGGAAAGGTATTGAGCTTGTTCTGGCATAGTTTTGGTTTATCGTGTGTTCTC
15267221 GGTTTATGTGTCCGCCATTCATCTAGCTCCTCAATTTGTAGCCTTCATTCTTCACGAATAGGTCC
196 GGTTTATGTGTCCGCCATTCATCTAGCTCCTCAATTTGTAGCCTTCATTCTTCACGAATAGGTCC
*
15267286 TTTACTGTTTCTTGAAAGTTGCTCA
261 TTTACTGTTGCTTGAAAGTTGCTCA
15267311 TCGAACTTGGGATGATTTACCTCGACTGTACCGAATGGGAAAATGCTAAGTACCGTAAGAGGGAT
1 TCGAACTTGGGATGATTTACCTCGACTGTACCGAATGGGAAAATGCTAAGTACCGTAAGAGGGAT
15267376 TTCTTCATTCAGTTTGGCAGTGATAATTTGAGGATTTGCGGCATCTAATAAAACTTTATCTCCAA
66 TTCTTCATTCAGTTTGGCAGTGATAATTTGAGGATTTGCGGCATCTAATAAAACTTTATCTCCAA
15267441 TCTTAAGTTGATTTGGAAAGGTATTGAGCTTGTTCTGGCATAGTTTTGGTTTATCGTGTGTTCTC
131 TCTTAAGTTGATTTGGAAAGGTATTGAGCTTGTTCTGGCATAGTTTTGGTTTATCGTGTGTTCTC
15267506 GGTTTATGTGTCCGCCATTCATCTAGCTCCTCAATTTGTAGCCTTCATTCTTCACGAATAGGTCC
196 GGTTTATGTGTCCGCCATTCATCTAGCTCCTCAATTTGTAGCCTTCATTCTTCACGAATAGGTCC
15267571 TTTACTGTTGCTTGAAAGTTGCTCA
261 TTTACTGTTGCTTGAAAGTTGCTCA
15267596 T
1 T
15267597 GTACTTCCTT
Statistics
Matches: 285, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
285 285 1.00
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (285 bp):
TCGAACTTGGGATGATTTACCTCGACTGTACCGAATGGGAAAATGCTAAGTACCGTAAGAGGGAT
TTCTTCATTCAGTTTGGCAGTGATAATTTGAGGATTTGCGGCATCTAATAAAACTTTATCTCCAA
TCTTAAGTTGATTTGGAAAGGTATTGAGCTTGTTCTGGCATAGTTTTGGTTTATCGTGTGTTCTC
GGTTTATGTGTCCGCCATTCATCTAGCTCCTCAATTTGTAGCCTTCATTCTTCACGAATAGGTCC
TTTACTGTTGCTTGAAAGTTGCTCA
Found at i:15269919 original size:19 final size:19
Alignment explanation
Indices: 15269882--15269919 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
15269872 ACCTACCAGA
*
15269882 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
15269901 AGAAAATAAAAT-AAAAATT
1 AGAAAAT-AAATGAAAAATT
15269920 TAAGTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:15279117 original size:46 final size:46
Alignment explanation
Indices: 15279067--15279242 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
15279057 TGATTGAGCA
15279067 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15279113 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
15279158 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15279206 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15279243 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15279223 original size:93 final size:93
Alignment explanation
Indices: 15279064--15279235 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
15279054 GGATGATTGA
* *
15279064 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15279129 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
15279157 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15279222 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
15279236 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15284138 original size:22 final size:22
Alignment explanation
Indices: 15284087--15284152 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
15284077 GGTATTTGGG
* *
15284087 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
15284108 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
15284130 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
15284153 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:15292249 original size:13 final size:13
Alignment explanation
Indices: 15292231--15292264 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
15292221 GCACCTAATT
15292231 GCATTTCAGTATA
1 GCATTTCAGTATA
15292244 GCATTTCAGTATA
1 GCATTTCAGTATA
*
15292257 ACATTTCA
1 GCATTTCA
15292265 TCCACTGATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (13 bp):
GCATTTCAGTATA
Found at i:15297199 original size:261 final size:261
Alignment explanation
Indices: 15296733--15297254 Score: 1017
Period size: 261 Copynumber: 2.0 Consensus size: 261
15296723 CGTTCACATC
15296733 CATAAGTGAACTCGGACTCAACTCAAAGAGTTCAGACGCCCAAATATCCGAATCTATTCCTAAGG
1 CATAAGTGAACTCGGACTCAACTCAAAGAGTTCAGACGCCCAAATATCCGAATCTATTCCTAAGG
15296798 TACAACGGGACTTTCCTCGTTCGTACTCCTTTACCATTCGCCTTGGAATACCCATGACGATACTT
66 TACAACGGGACTTTCCTCGTTCGTACTCCTTTACCATTCGCCTTGGAATACCCATGACGATACTT
*
15296863 CGGTAGTCTTTCAAATTTTTCACATAATTCATAAAATTTTTGCATGTTGTCCAACAATGACCACA
131 CGGTAGTCTTTCAAATTTTTCACATAATTCATAAAATTTTTGCATGTTCTCCAACAATGACCACA
* *
15296928 AAGTATAGAATTGCATGATAACAATCATAATATCGTATAAATAGCTTTAAATGATTTAAAATAAT
196 AAGCATAGAATTGCATGATAACAATCATAATATCGTATAAATAGCATTAAATGATTTAAAATAAT
15296993 A
261 A
15296994 CATAAGTGAACTCGGACTCAACTCAAAGAGTTCAGACGCCCAAATATCCGAATCTATTCCTAAGG
1 CATAAGTGAACTCGGACTCAACTCAAAGAGTTCAGACGCCCAAATATCCGAATCTATTCCTAAGG
15297059 TACAACGGGACTTTCCTCGTTCGTACTCCTTTACCATTCGCCTTGGAATACCCATGACGATACTT
66 TACAACGGGACTTTCCTCGTTCGTACTCCTTTACCATTCGCCTTGGAATACCCATGACGATACTT
15297124 CGGTAGTCTTTCAAATTTTTCACATAATTCATAAAATTTTTGCATGTTCTCCAACAATGACCACA
131 CGGTAGTCTTTCAAATTTTTCACATAATTCATAAAATTTTTGCATGTTCTCCAACAATGACCACA
15297189 AAGCATAGAATTGCATGATAACAATCATAATATCGTATAAATAGCATTAAATGATTTAAAATAAT
196 AAGCATAGAATTGCATGATAACAATCATAATATCGTATAAATAGCATTAAATGATTTAAAATAAT
15297254 A
261 A
15297255 ATTATATTAC
Statistics
Matches: 258, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
261 258 1.00
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.31
Consensus pattern (261 bp):
CATAAGTGAACTCGGACTCAACTCAAAGAGTTCAGACGCCCAAATATCCGAATCTATTCCTAAGG
TACAACGGGACTTTCCTCGTTCGTACTCCTTTACCATTCGCCTTGGAATACCCATGACGATACTT
CGGTAGTCTTTCAAATTTTTCACATAATTCATAAAATTTTTGCATGTTCTCCAACAATGACCACA
AAGCATAGAATTGCATGATAACAATCATAATATCGTATAAATAGCATTAAATGATTTAAAATAAT
A
Found at i:15303401 original size:29 final size:29
Alignment explanation
Indices: 15303359--15303476 Score: 125
Period size: 29 Copynumber: 4.1 Consensus size: 29
15303349 GTGAGCATGA
*
15303359 ATAT-AAGGTGATTTGGGCCTAACGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* *
15303387 ATATAAAGGTGATTTGGACCTGATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * *
15303416 ATATGAATGTGAATTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAATGGGCC
* * *
15303445 ATATAGATGAGA-TTGGGCC-AAGTGGGCC
1 ATATAAAGGTGATTTGGGCCTAA-TGGGCC
15303473 ATAT
1 ATAT
15303477 GCATGTATGT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 2 0.03
28 21 0.27
29 54 0.70
ACGTcount: A:0.28, C:0.14, G:0.31, T:0.26
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAATGGGCC
Found at i:15305372 original size:24 final size:24
Alignment explanation
Indices: 15305336--15305497 Score: 87
Period size: 24 Copynumber: 6.8 Consensus size: 24
15305326 GAGCCAACAT
* *
15305336 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGAATTTGAA
* * *
15305360 TGGCACTATGTGTGCGAAATCGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
15305384 TGGCACTATGTATGCTG-GTTTGAA
1 TGGCACTATGTGTGC-GAATTTGAA
* * ** * * *
15305408 TGTCAATAAATGAGTGAATTTCTAA
1 TGGCACTATGTGTGCGAATTT-GAA
* * * *
15305433 -AGCACTATATGTGCG-GTTTAGCA
1 TGGCACTATGTGTGCGAATTT-GAA
*
15305456 TGGCACTATGTGTGCGAATTTGAT
1 TGGCACTATGTGTGCGAATTTGAA
* *
15305480 TAGCACTATGTGTACGAA
1 TGGCACTATGTGTGCGAA
15305498 ATCGGTTGAG
Statistics
Matches: 97, Mismatches: 36, Indels: 10
0.68 0.25 0.07
Matches are distributed among these distances:
23 5 0.05
24 86 0.89
25 6 0.06
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGAATTTGAA
Found at i:15316682 original size:79 final size:81
Alignment explanation
Indices: 15316546--15316730 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
15316536 TTGAATGATG
*
15316546 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
15316610 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
15316625 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
15316687 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
15316705 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
15316731 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:15316744 original size:40 final size:40
Alignment explanation
Indices: 15316547--15316730 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
15316537 TGAATGATGT
* * * *
15316547 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
15316587 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
15316627 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15316665 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
15316706 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
15316731 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:15316752 original size:79 final size:79
Alignment explanation
Indices: 15316599--15316763 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
15316589 GGACTAAGAT
* **
15316599 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
15316664 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
15316678 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
15316741 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
15316757 CCGAAGG
1 CCGAAGG
15316764 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:15323647 original size:11 final size:10
Alignment explanation
Indices: 15323615--15323660 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
15323605 CATGAGATTT
15323615 TGATAT-ACA
1 TGATATGACA
*
15323624 TGATTTGACA
1 TGATATGACA
15323634 TGATATGCACA
1 TGATATG-ACA
*
15323645 TGATATG-TA
1 TGATATGACA
15323654 TGATATG
1 TGATATG
15323661 TGCATGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:15331458 original size:11 final size:10
Alignment explanation
Indices: 15331426--15331471 Score: 51
Period size: 9 Copynumber: 4.7 Consensus size: 10
15331416 CATGAGATTT
15331426 TGATAT-ACA
1 TGATATGACA
*
15331435 TGATTTGACA
1 TGATATGACA
15331445 TGATATGCACA
1 TGATATG-ACA
*
15331456 TGATATG-TA
1 TGATATGACA
15331465 TGATATG
1 TGATATG
15331472 CGCATGAGGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
9 13 0.41
10 9 0.28
11 10 0.31
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.37
Consensus pattern (10 bp):
TGATATGACA
Found at i:15334491 original size:93 final size:93
Alignment explanation
Indices: 15334379--15334550 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
15334369 GCCCATAAGT
* *
15334379 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
15334444 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
15334472 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
15334537 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
15334551 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:15334546 original size:46 final size:46
Alignment explanation
Indices: 15334371--15334546 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
15334361 TGTAACCCGC
* *
15334371 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
15334417 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
15334463 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
15334510 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
15334547 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:15345320 original size:10 final size:10
Alignment explanation
Indices: 15345305--15345331 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15345295 TGATCACACG
15345305 GGCGTGTCTA
1 GGCGTGTCTA
15345315 GGCGTGTCTA
1 GGCGTGTCTA
15345325 GGCGTGT
1 GGCGTGT
15345332 GTAAGACATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.19, G:0.44, T:0.30
Consensus pattern (10 bp):
GGCGTGTCTA
Found at i:15350085 original size:31 final size:31
Alignment explanation
Indices: 15350009--15350082 Score: 91
Period size: 31 Copynumber: 2.4 Consensus size: 31
15349999 TCAAGTTATC
15350009 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
*
15350041 TCAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
15350071 TTAAATATAAAA
1 TTAAATATAAAA
15350083 ATATCAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 10 0.27
31 15 0.41
32 12 0.32
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:15361709 original size:19 final size:20
Alignment explanation
Indices: 15361672--15361709 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
15361662 ATAAGGTGGT
15361672 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
15361692 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
15361710 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:15362970 original size:36 final size:36
Alignment explanation
Indices: 15362930--15363000 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
15362920 AAATAAAATA
15362930 AAACATACATATAACAAACAAATTGTTGGTCAGAAC
1 AAACATACATATAACAAACAAATTGTTGGTCAGAAC
* * *
15362966 AAACATATATGTAACAAATAAATTGTTGGTCAGAA
1 AAACATACATATAACAAACAAATTGTTGGTCAGAA
15363001 AAAGTTGTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (36 bp):
AAACATACATATAACAAACAAATTGTTGGTCAGAAC
Found at i:15365622 original size:16 final size:18
Alignment explanation
Indices: 15365601--15365633 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
15365591 CATACTAGCT
15365601 CCAAAAT-ATAG-TAGTA
1 CCAAAATGATAGATAGTA
15365617 CCAAAATGATAGATAGT
1 CCAAAATGATAGATAGT
15365634 GTGACGAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (18 bp):
CCAAAATGATAGATAGTA
Found at i:15366274 original size:45 final size:45
Alignment explanation
Indices: 15366163--15366382 Score: 286
Period size: 45 Copynumber: 5.0 Consensus size: 45
15366153 CCGAATTCAT
* *
15366163 TCACCGGCATT-TCGCCTGCTAGGCTCGAA-GCCCG-ATA-TCATT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-ATC
* * *
15366205 TCGCTGACATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* * * *
15366250 TCACTGGTATTATAGCCTGCTAGGCACGAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* *
15366295 TCACCGGCATTATAGCCTACTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
* *
15366340 TCACCAGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTA
15366383 CTATGCGATA
Statistics
Matches: 156, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
42 8 0.05
43 17 0.11
44 5 0.03
45 125 0.80
46 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGTATC
Found at i:15367039 original size:47 final size:47
Alignment explanation
Indices: 15366970--15367080 Score: 222
Period size: 47 Copynumber: 2.4 Consensus size: 47
15366960 TAACTCTCAN
15366970 GCAAATTTAACAAGCTTAACTAAGTAACTTATCCGAAAATATTAAGA
1 GCAAATTTAACAAGCTTAACTAAGTAACTTATCCGAAAATATTAAGA
15367017 GCAAATTTAACAAGCTTAACTAAGTAACTTATCCGAAAATATTAAGA
1 GCAAATTTAACAAGCTTAACTAAGTAACTTATCCGAAAATATTAAGA
15367064 GCAAATTTAACAAGCTT
1 GCAAATTTAACAAGCTT
15367081 TAAATTCAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (47 bp):
GCAAATTTAACAAGCTTAACTAAGTAACTTATCCGAAAATATTAAGA
Found at i:15368360 original size:20 final size:20
Alignment explanation
Indices: 15368337--15368384 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
15368327 TTGTATTTCA
15368337 TTTTTATTT-GTTATCAATG
1 TTTTTATTTAGTTATCAATG
*
15368356 TTTTTATTTATTTATCAATG
1 TTTTTATTTAGTTATCAATG
15368376 TTTTT-TTTA
1 TTTTTATTTA
15368385 AATTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (20 bp):
TTTTTATTTAGTTATCAATG
Found at i:15368820 original size:15 final size:15
Alignment explanation
Indices: 15368797--15368847 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
15368787 CTACCCATGG
*
15368797 CCATTAAACCTTAAA
1 CCATAAAACCTTAAA
*
15368812 CCATAAAACCCTAAA
1 CCATAAAACCTTAAA
* *
15368827 TCAT-AGACCTTAAA
1 CCATAAAACCTTAAA
*
15368841 CCTTAAA
1 CCATAAA
15368848 TATTAATCCC
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 10 0.37
15 17 0.63
ACGTcount: A:0.47, C:0.27, G:0.02, T:0.24
Consensus pattern (15 bp):
CCATAAAACCTTAAA
Found at i:15369038 original size:15 final size:16
Alignment explanation
Indices: 15369018--15369050 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15369008 TTAGGGTTTT
15369018 TTTA-GGTTTTAAGGG
1 TTTAGGGTTTTAAGGG
*
15369033 TTTAGGGTTTTAGGGG
1 TTTAGGGTTTTAAGGG
15369049 TT
1 TT
15369051 ATATAGACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.15, C:0.00, G:0.36, T:0.48
Consensus pattern (16 bp):
TTTAGGGTTTTAAGGG
Found at i:15369086 original size:57 final size:55
Alignment explanation
Indices: 15368978--15369096 Score: 148
Period size: 57 Copynumber: 2.1 Consensus size: 55
15368968 TTTTTGGGGT
* * * *
15368978 TTTAGGGTTTTAAGGGTTATAGATTAGTGTTTAGGGTTTTTTTAGGTTTTAAGGG
1 TTTAGGGTTTTAAGGGTTATAGACTAGTGTTTAGGATTTTTTTAGGGTTTAAGCG
* * * *
15369033 TTTAGGGTTTTAGGGGTTATATAGACTAGTGTTTATGATTTTTTTGGGGTTTAAGCT
1 TTTAGGGTTTTAAGGG-T-TATAGACTAGTGTTTAGGATTTTTTTAGGGTTTAAGCG
15369090 TTTAGGG
1 TTTAGGG
15369097 GTTATATGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
55 15 0.28
56 1 0.02
57 38 0.70
ACGTcount: A:0.19, C:0.02, G:0.30, T:0.49
Consensus pattern (55 bp):
TTTAGGGTTTTAAGGGTTATAGACTAGTGTTTAGGATTTTTTTAGGGTTTAAGCG
Found at i:15369185 original size:41 final size:40
Alignment explanation
Indices: 15369107--15369259 Score: 171
Period size: 41 Copynumber: 3.8 Consensus size: 40
15369097 GTTATATGAC
* * * * *
15369107 TTTTAGTGGCGTTTTACCAAAAATGTCACTATTGCTCTGT
1 TTTTAGCGGCGCTTTACCAAAAACGCCGCTATTGCTCTGT
* *
15369147 TTCTTAGCGGCGCTTTCCCAAAAACGCCGCTATCGCTCTGTT
1 TT-TTAGCGGCGCTTTACCAAAAACGCCGCTATTGCTCTG-T
** * * *
15369189 TTTTAGTAGCGCTTTGCCAAAAATGCAGCTATTGCTCTGT
1 TTTTAGCGGCGCTTTACCAAAAACGCCGCTATTGCTCTGT
*
15369229 TTTTAGCGGCGTTTTACCAAAAACGCCGCTA
1 TTTTAGCGGCGCTTTACCAAAAACGCCGCTA
15369260 AATCCCTATT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 28 0.30
41 61 0.66
42 3 0.03
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGCTTTACCAAAAACGCCGCTATTGCTCTGT
Found at i:15369225 original size:82 final size:81
Alignment explanation
Indices: 15369107--15369259 Score: 236
Period size: 82 Copynumber: 1.9 Consensus size: 81
15369097 GTTATATGAC
* * *
15369107 TTTTAGTGGCGTTTTACCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTCCCAAAAAC
1 TTTTAGTAGCGCTTTACCAAAAATGTCACTATTGCTCTGTTT-TTAGCGGCGCTTTACCAAAAAC
15369172 GCCGCTATCGCTCTGTT
65 GCCGCTATCGCTCTGTT
* *
15369189 TTTTAGTAGCGCTTTGCCAAAAATG-CAGCTATTGCTCTGTTTTTAGCGGCGTTTTACCAAAAAC
1 TTTTAGTAGCGCTTTACCAAAAATGTCA-CTATTGCTCTGTTTTTAGCGGCGCTTTACCAAAAAC
15369253 GCCGCTA
65 GCCGCTA
15369260 AATCCCTATT
Statistics
Matches: 65, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 29 0.45
82 36 0.55
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (81 bp):
TTTTAGTAGCGCTTTACCAAAAATGTCACTATTGCTCTGTTTTTAGCGGCGCTTTACCAAAAACG
CCGCTATCGCTCTGTT
Found at i:15369278 original size:81 final size:82
Alignment explanation
Indices: 15369123--15369280 Score: 216
Period size: 81 Copynumber: 1.9 Consensus size: 82
15369113 TGGCGTTTTA
* *
15369123 CCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTCCCAAAAACGCCGCTATCGCTCTGT
1 CCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTACCAAAAACGCCGCTATCGCTCTAT
**
15369188 TTTTTAGTAGCGCTTTG
66 TTTCCAGTAGCGCTTTG
*
15369205 CCAAAAATG-CAGCTATTGCTCTGTTT-TTAGCGGCGTTTTACCAAAAACGCCGCTAAATC-C-C
1 CCAAAAATGTCA-CTATTGCTCTGTTTCTTAGCGGCGCTTTACCAAAAACGCCGCT--ATCGCTC
15369266 TATTTTCCAGTAGCG
63 TATTTTCCAGTAGCG
15369281 TATGTTTGTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
81 41 0.60
82 24 0.35
83 3 0.04
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.33
Consensus pattern (82 bp):
CCAAAAATGTCACTATTGCTCTGTTTCTTAGCGGCGCTTTACCAAAAACGCCGCTATCGCTCTAT
TTTCCAGTAGCGCTTTG
Found at i:15372697 original size:21 final size:20
Alignment explanation
Indices: 15372663--15372703 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
15372653 TTTATGAGAA
15372663 CTATGATTATATATA-ATGG
1 CTATGATTATATATACATGG
15372682 CTATGATTAAATATATACATGG
1 CTATGATT--ATATATACATGG
15372704 TTTTTGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
21 7 0.37
22 4 0.21
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (20 bp):
CTATGATTATATATACATGG
Found at i:15378066 original size:30 final size:30
Alignment explanation
Indices: 15378032--15378121 Score: 135
Period size: 30 Copynumber: 3.0 Consensus size: 30
15378022 CGGGCAGAGT
*
15378032 CACGGGCGTGTGTCTCTGTTATGTGTGACA
1 CACGGGCGTGTGTCTCAGTTATGTGTGACA
*
15378062 CACGGGCGTGTGTCCCAGTTATGTGTGACA
1 CACGGGCGTGTGTCTCAGTTATGTGTGACA
* * *
15378092 CACGGGCATGTGTCTCAGCTGTGTGTGACA
1 CACGGGCGTGTGTCTCAGTTATGTGTGACA
15378122 TAATCAAGTA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.29
Consensus pattern (30 bp):
CACGGGCGTGTGTCTCAGTTATGTGTGACA
Found at i:15378404 original size:13 final size:13
Alignment explanation
Indices: 15378386--15378410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15378376 ATGTCTACAC
15378386 GGATTGGTCACAT
1 GGATTGGTCACAT
15378399 GGATTGGTCACA
1 GGATTGGTCACA
15378411 CGAGCATTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (13 bp):
GGATTGGTCACAT
Found at i:15378733 original size:26 final size:26
Alignment explanation
Indices: 15378697--15378750 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
15378687 AGCAAAAAAT
15378697 GTTCTGGTTGAATTAAGTTTTTGGAA
1 GTTCTGGTTGAATTAAGTTTTTGGAA
15378723 GTTCTGGTTGAATTAAGTTTTTGGAA
1 GTTCTGGTTGAATTAAGTTTTTGGAA
15378749 GT
1 GT
15378751 CATGAGCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.04, G:0.28, T:0.46
Consensus pattern (26 bp):
GTTCTGGTTGAATTAAGTTTTTGGAA
Found at i:15385236 original size:26 final size:27
Alignment explanation
Indices: 15385182--15385236 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
15385172 GTACATAGTA
* * *
15385182 CCTGCTAAATAAAACATCAGCATAGAG
1 CCTGCTAAATAAAACACCAGCACAAAG
*
15385209 CCTGCT-AATATAACACCAGCACAAAG
1 CCTGCTAAATAAAACACCAGCACAAAG
15385235 CC
1 CC
15385237 GACTACGCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (27 bp):
CCTGCTAAATAAAACACCAGCACAAAG
Found at i:15400783 original size:46 final size:46
Alignment explanation
Indices: 15400682--15400769 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
15400672 TGTAACCCAC
* * *
15400682 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
* *
15400728 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
15400770 AATCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCAT
Found at i:15404461 original size:65 final size:65
Alignment explanation
Indices: 15404357--15404485 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 65
15404347 AATTCCCTCT
*
15404357 ATGTCTAACTTTTGTCCATAACTTAAGAATGGGTCAAATTGATATTTAAGACCTCCTAATTAATC
1 ATGTCCAACTTTTGTCCATAACTTAAGAATGGGTCAAATTGATATTTAAGACCTCCTAATTAATC
*
15404422 ATGTCCAACTTTTGTCCATAACTTAAGAATGGGTCAAATTGCTATTTAAGACCTCCTAATTAAT
1 ATGTCCAACTTTTGTCCATAACTTAAGAATGGGTCAAATTGATATTTAAGACCTCCTAATTAAT
15404486 ATCCCAAAGC
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.36
Consensus pattern (65 bp):
ATGTCCAACTTTTGTCCATAACTTAAGAATGGGTCAAATTGATATTTAAGACCTCCTAATTAATC
Found at i:15414714 original size:45 final size:45
Alignment explanation
Indices: 15414664--15414753 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
15414654 TATAAGTGAT
15414664 GCAATTTTGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATG
1 GCAATTTTGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATG
*
15414709 GCAATTTTGAAGGAGTGTTATGACTATAAATGTGATTTTTGTATG
1 GCAATTTTGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATG
15414754 TGGCTATGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.30, C:0.04, G:0.23, T:0.42
Consensus pattern (45 bp):
GCAATTTTGAAAGAGTGTTATGACTATAAATGTGATTTTTGTATG
Found at i:15414966 original size:47 final size:47
Alignment explanation
Indices: 15414897--15415855 Score: 1668
Period size: 47 Copynumber: 21.0 Consensus size: 47
15414887 GCCCCGAGGA
*
15414897 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15414944 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATT--
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
*
15414989 -CA----TGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415031 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415078 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415125 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415172 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415219 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415266 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415313 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415360 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415407 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415454 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415501 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415548 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415595 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415642 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415689 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATT--
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
*
15415734 -CA----TGCTAGTGATATATCCGGGCTAAGTCCCGA-G-G-A----
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
*
15415769 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGAGCATTC-
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
* *
15415815 G---T--T-CTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCG
1 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
15415856 TGCTAGTAAT
Statistics
Matches: 886, Mismatches: 7, Indels: 44
0.95 0.01 0.05
Matches are distributed among these distances:
36 2 0.00
37 1 0.00
38 1 0.00
39 1 0.00
40 130 0.15
41 2 0.00
42 1 0.00
43 4 0.00
44 4 0.00
46 1 0.00
47 739 0.83
ACGTcount: A:0.20, C:0.23, G:0.31, T:0.26
Consensus pattern (47 bp):
GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGAGCATTCG
Found at i:15415889 original size:40 final size:40
Alignment explanation
Indices: 15415689--15415878 Score: 308
Period size: 40 Copynumber: 4.8 Consensus size: 40
15415679 GGAGCATTCG
*
15415689 GCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
*
15415729 GCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
15415769 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
* * * *
15415809 GCATTCGTTCTAGTGATGTATCCGGGCTAAGTTCCGAAGA
1 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
* *
15415849 GCATTCGTGCTAGTAATATATCCGTGCTAA
1 GCATTCGTGCTAGTGATATATCCGGGCTAA
15415879 ACCTCGAAGA
Statistics
Matches: 139, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAGGA
Found at i:15438813 original size:22 final size:22
Alignment explanation
Indices: 15438788--15438830 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
15438778 CGTATGCCAT
15438788 TCGTGCTCGTAAGGATGCGTCC
1 TCGTGCTCGTAAGGATGCGTCC
15438810 TCGTGCTCGTAAGGATGCGTC
1 TCGTGCTCGTAAGGATGCGTC
15438831 ATCTCCCGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.33, T:0.28
Consensus pattern (22 bp):
TCGTGCTCGTAAGGATGCGTCC
Found at i:15443721 original size:46 final size:46
Alignment explanation
Indices: 15443666--15443774 Score: 166
Period size: 46 Copynumber: 2.4 Consensus size: 46
15443656 ACATATCTCA
* **
15443666 CATTAGCCATTCGGCTTTA-CTTCATATCCATCTCATACACGTTTCG
1 CATTAGCCATTCGGCTTTACCTT-ATATCCATCTCATACACATTAAG
*
15443712 CATTAGCCATTCGGCTTTACCTTATATCCCTCTCATACACATTAAG
1 CATTAGCCATTCGGCTTTACCTTATATCCATCTCATACACATTAAG
15443758 CATTAGCCATTCGGCTT
1 CATTAGCCATTCGGCTT
15443775 CGCCACATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
46 55 0.95
47 3 0.05
ACGTcount: A:0.23, C:0.30, G:0.11, T:0.36
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCTTATATCCATCTCATACACATTAAG
Found at i:15443829 original size:47 final size:47
Alignment explanation
Indices: 15443798--15443949 Score: 234
Period size: 47 Copynumber: 3.2 Consensus size: 47
15443788 CACTTCCACG
* *
15443798 TTCATCACATTGGCCATTCTGCCTTATCACATATATGCATGTTCACA
1 TTCATCACATTGGCCATTCTGCCTTATCACACATATACATGTTCACA
* * * *
15443845 TTCATCACATTGGTCATTCGGCCTTATCACGCATATGCATGTTCACA
1 TTCATCACATTGGCCATTCTGCCTTATCACACATATACATGTTCACA
15443892 TTCATCACATTGGCCATT-TGGCCTTATCACACATATACATGTTCACA
1 TTCATCACATTGGCCATTCT-GCCTTATCACACATATACATGTTCACA
15443939 TTCATCACATT
1 TTCATCACATT
15443950 AAAATCCTAA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.36
Consensus pattern (47 bp):
TTCATCACATTGGCCATTCTGCCTTATCACACATATACATGTTCACA
Found at i:15465193 original size:46 final size:47
Alignment explanation
Indices: 15464994--15465256 Score: 201
Period size: 46 Copynumber: 5.6 Consensus size: 47
15464984 AGGCCAACGC
* * *
15464994 CATGTCCCAGACATGGTCCTACACTAGTTCTCACATATCCGT-GTCGATG
1 CATGTCCCAGACATGGTCTTACACTAG--CTTACATAT-CGTAGCCGATG
* * *
15465043 TAATGTCCCAGACATGGTCTTACA-TAGAC--ACCTCTATACGT-GCCGACG
1 -CATGTCCCAGACATGGTCTTACACTAG-CTTA-C-ATAT-CGTAGCCGATG
* * * *
15465091 CCATGTCCCAGACATGGTCTTACACTAAC--ACATTTCGTAGTCGGTG
1 -CATGTCCCAGACATGGTCTTACACTAGCTTACATATCGTAGCCGATG
* *
15465137 CAT-TCCCCAGACAT-GTCTTACACTAGCTTACATCTCG-AGGCCCATG
1 CATGT-CCCAGACATGGTCTTACACTAGCTTACATATCGTA-GCCGATG
*
15465183 CATGTCCCAGACATGGTCTTACACTGGCTCT-CATGAT-GTAGCCGATG
1 CATGTCCCAGACATGGTCTTACACTAGCT-TACAT-ATCGTAGCCGATG
15465230 CATGTCCCAGACAT-GTCTTACACTAGC
1 CATGTCCCAGACATGGTCTTACACTAGC
15465257 ACACAAATAA
Statistics
Matches: 176, Mismatches: 24, Indels: 30
0.77 0.10 0.13
Matches are distributed among these distances:
44 13 0.07
45 16 0.09
46 42 0.24
47 40 0.23
48 39 0.22
49 5 0.03
50 21 0.12
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
CATGTCCCAGACATGGTCTTACACTAGCTTACATATCGTAGCCGATG
Found at i:15468786 original size:12 final size:12
Alignment explanation
Indices: 15468769--15468798 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15468759 CTATACACAC
15468769 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
15468781 CCGTGTGCTAGG
1 CCGTGTGCCAGG
15468793 CCGTGT
1 CCGTGT
15468799 CAAACCTGTA
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:0.07, C:0.30, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:15470494 original size:64 final size:67
Alignment explanation
Indices: 15470389--15470542 Score: 179
Period size: 67 Copynumber: 2.3 Consensus size: 67
15470379 CATCATGTGT
* * * * *
15470389 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATAC-TATG-TGTACACC
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAATGAAGGACACC
15470451 ATGTAG
62 ATGTAG
* * *
15470457 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAATGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGATACAAATGAAGGACACCATGT
15470522 AG
66 AG
15470524 ACAAGAGAGCTACGAGATA
1 ACAAGAGAGCTACGAGATA
15470543 AACTGGTTAA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
64 20 0.27
65 6 0.08
66 5 0.07
67 30 0.41
68 13 0.18
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGATACAAATGAAGGACACCATGT
AG
Found at i:15478802 original size:42 final size:41
Alignment explanation
Indices: 15478707--15478850 Score: 137
Period size: 44 Copynumber: 3.4 Consensus size: 41
15478697 CCAACGTCCC
* * * * * *
15478707 AGACGTGGTCTTACATGTAACCAAATATTGATGCCACTATCCC
1 AGACATGGTCTTACACGAAATCAAATA-CGATGCCA-TATCCT
* *
15478750 AGGCAGGGTCTTACACGAAATCAAATACGATGCCGATATCCT
1 AGACATGGTCTTACACGAAATCAAATACGATGCC-ATATCCT
*
15478792 AGACATGGTCTTACACGCAAATCATAAGT-CGATGCCAATGTCCT
1 AGACATGGTCTTACACG-AAATCA-AA-TACGATGCC-ATATCCT
15478836 AGACATGGTCTTACA
1 AGACATGGTCTTACA
15478851 GGATAACACA
Statistics
Matches: 85, Mismatches: 12, Indels: 7
0.82 0.12 0.07
Matches are distributed among these distances:
42 26 0.31
43 28 0.33
44 30 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (41 bp):
AGACATGGTCTTACACGAAATCAAATACGATGCCATATCCT
Found at i:15478836 original size:44 final size:42
Alignment explanation
Indices: 15478689--15478850 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 42
15478679 CGGAAAACAC
* ** * * * * *
15478689 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAACCAA
1 ATACGATGCCAATATCCTAGACATGGTCTTACACGAAATCAA
* * * * *
15478731 ATATTGATGCCACTATCCCAGGCAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAATATCCTAGACATGGTCTTACACGAAATCAA
*
15478774 ATACGATGCCGATATCCTAGACATGGTCTTACACGCAAATCATA
1 ATACGATGCCAATATCCTAGACATGGTCTTACACG-AAATCA-A
*
15478818 AGT-CGATGCCAATGTCCTAGACATGGTCTTACA
1 A-TACGATGCCAATATCCTAGACATGGTCTTACA
15478851 GGATAACACA
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
42 29 0.30
43 37 0.38
44 30 0.31
45 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
ATACGATGCCAATATCCTAGACATGGTCTTACACGAAATCAA
Found at i:15483393 original size:20 final size:20
Alignment explanation
Indices: 15483345--15483396 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
15483335 ACTTTCCAGC
*
15483345 ACATCTATTCATAAAATTTT
1 ACATCTTTTCATAAAATTTT
* *
15483365 AGAAT-TTTTCATCAAATTTT
1 A-CATCTTTTCATAAAATTTT
15483385 ACATCTTTTCAT
1 ACATCTTTTCAT
15483397 TTTTGTCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (20 bp):
ACATCTTTTCATAAAATTTT
Found at i:15486732 original size:15 final size:15
Alignment explanation
Indices: 15486712--15486741 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
15486702 TCCTTCTTCT
15486712 TTACAAATAGAAGCA
1 TTACAAATAGAAGCA
15486727 TTACAAATAGAAGCA
1 TTACAAATAGAAGCA
15486742 GCGCACCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (15 bp):
TTACAAATAGAAGCA
Found at i:15493267 original size:55 final size:55
Alignment explanation
Indices: 15493180--15493436 Score: 252
Period size: 55 Copynumber: 4.8 Consensus size: 55
15493170 ATTAGGGTTT
* *
15493180 AAGGAGACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * * * * * *
15493235 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGATACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT-TTCTAAGGC
* *
15493290 AAAGG-T-CTCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-G-TTCATAAGGC
1 -AAGGATAC-CATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTC-TAAGGC
*
15493343 AAGGATACCATGTAAGACCATGTCAAGACATGGCAA-TGGTAA-GTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
* * *
15493392 AAGGATACCACGTAAGACCATGACAAGTCATGGCAA-TGGTAAGGT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGT
15493437 AGTTGTGTAT
Statistics
Matches: 170, Mismatches: 23, Indels: 23
0.79 0.11 0.11
Matches are distributed among these distances:
49 39 0.23
50 2 0.01
52 7 0.04
53 37 0.22
54 14 0.08
55 67 0.39
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (55 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGGTTTCTAAGGC
Found at i:15493523 original size:23 final size:24
Alignment explanation
Indices: 15493486--15493530 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
15493476 ATTGTAAGGT
**
15493486 AAGGTAAGATGAGTT-ATGCTAAA
1 AAGGTAAGACAAGTTCATGCTAAA
15493509 AAGGTAAGACAAGTTCATGCTA
1 AAGGTAAGACAAGTTCATGCTA
15493531 GAAGAGCAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (24 bp):
AAGGTAAGACAAGTTCATGCTAAA
Found at i:15493630 original size:16 final size:16
Alignment explanation
Indices: 15493609--15493639 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
15493599 ATAAATTTGA
15493609 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
15493625 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
15493640 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:15499421 original size:16 final size:18
Alignment explanation
Indices: 15499394--15499426 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15499384 TAGAATTCGG
15499394 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
15499411 TTGAG-AAATTAATTTA
1 TTGAGAAAATTAATTTA
15499427 GTTAGTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:15499498 original size:24 final size:23
Alignment explanation
Indices: 15499453--15499505 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
15499443 AAATTAATTG
* *
15499453 AATAAAAAATATTTATTTTTGGT
1 AATAAAAAATATATATTGTTGGT
*
15499476 AATAGAAAATATATATTAGTTGGT
1 AATAAAAAATATATATT-GTTGGT
15499500 -ATAAAA
1 AATAAAA
15499506 TTATAAAGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (23 bp):
AATAAAAAATATATATTGTTGGT
Found at i:15501334 original size:22 final size:22
Alignment explanation
Indices: 15501309--15501354 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
15501299 GTATAATTGA
15501309 TATAGAATCATTTGAAAATACT
1 TATAGAATCATTTGAAAATACT
15501331 TATAGAATCATTTGAAAATACT
1 TATAGAATCATTTGAAAATACT
15501353 TA
1 TA
15501355 CATTCCCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (22 bp):
TATAGAATCATTTGAAAATACT
Found at i:15504989 original size:46 final size:46
Alignment explanation
Indices: 15504864--15505080 Score: 153
Period size: 46 Copynumber: 4.7 Consensus size: 46
15504854 TTATTTGTGT
* * * *
15504864 GCCAGTGTAAGACATGTCTGGGACATGCATCGACCAT--ATTATG-AGA
1 GCCAGTGTAAGACATGTCTGCGACATGCATCG-GCATCGA-GACGTA-A
* * * *
15504910 GCCAATGTAAGACCATGTCTAG-GTCATGCATCGGTATTGAGACG-AGA
1 GCCAGTGTAAGA-CATGTCT-GCGACATGCATCGGCATCGAGACGTA-A
* * * *
15504957 GCTAGTGTAAGACATGTTTGCGACATGCATCGGCCTCGAGATGTAA
1 GCCAGTGTAAGACATGTCTGCGACATGCATCGGCATCGAGACGTAA
* *
15505003 GCCAGTGTAAGGCATGTCTGGGACATGCATCGGC-TACGAGACGT--
1 GCCAGTGTAAGACATGTCTGCGACATGCATCGGCAT-CGAGACGTAA
* *
15505047 GTCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 GCCAGTGTAAGA-CATGTCTGCGACAT-GCATCG
15505081 ACAAGACCAT
Statistics
Matches: 141, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
44 10 0.07
45 16 0.11
46 80 0.57
47 33 0.23
48 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGCGACATGCATCGGCATCGAGACGTAA
Found at i:15505095 original size:28 final size:28
Alignment explanation
Indices: 15505055--15505136 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
15505045 GTGTCAGTGT
15505055 AAGACCATGTCTGGGACATGGCATCGAC
1 AAGACCATGTCTGGGACATGGCATCGAC
* *
15505083 AAGACCATGTCTGGGACATGGGATCGAT
1 AAGACCATGTCTGGGACATGGCATCGAC
*
15505111 AAGACCATGTCTTGGACATGGCATCG
1 AAGACCATGTCTGGGACATGGCATCG
15505137 GCATGGATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.21
Consensus pattern (28 bp):
AAGACCATGTCTGGGACATGGCATCGAC
Found at i:15507904 original size:46 final size:46
Alignment explanation
Indices: 15507837--15507952 Score: 196
Period size: 46 Copynumber: 2.5 Consensus size: 46
15507827 CGCCCCTAAG
* *
15507837 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
*
15507883 TGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
*
15507929 TGAACTCGGACTCAAGTCAACGAG
1 TGAACTCGGACTCAACTCAACGAG
15507953 TTCAGATGCT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 66 1.00
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.20
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAA
Found at i:15519264 original size:40 final size:40
Alignment explanation
Indices: 15519202--15519419 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
15519192 AAGCCAAGTA
* * * *
15519202 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCCAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
15519241 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15519281 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
15519321 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
15519361 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
15519401 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
15519420 TTATCATCCA
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 13 0.08
40 154 0.92
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:15535176 original size:49 final size:50
Alignment explanation
Indices: 15535104--15535249 Score: 231
Period size: 50 Copynumber: 2.9 Consensus size: 50
15535094 TAGCCGAAGC
* *
15535104 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT
*
15535153 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT
* **
15535203 CATCTAATACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCT
15535250 CACAATAGAT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 43 0.48
50 46 0.52
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAAT
Found at i:15545023 original size:8 final size:8
Alignment explanation
Indices: 15545010--15545034 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15545000 TTAGAGTAGG
15545010 CCCATGAT
1 CCCATGAT
15545018 CCCATGAT
1 CCCATGAT
15545026 CCCATGAT
1 CCCATGAT
15545034 C
1 C
15545035 TTTTCCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (8 bp):
CCCATGAT
Found at i:15552634 original size:39 final size:40
Alignment explanation
Indices: 15552534--15552718 Score: 200
Period size: 40 Copynumber: 4.7 Consensus size: 40
15552524 TCGAATGATG
* * *
15552534 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
15552573 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* * * *
15552614 TCCAGGCTAAG-CCCGAAGGCATTGGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
15552653 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
15552692 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
15552719 GACTAGTAGC
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 34 0.28
40 78 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:15552671 original size:79 final size:81
Alignment explanation
Indices: 15552538--15552716 Score: 224
Period size: 79 Copynumber: 2.2 Consensus size: 81
15552528 ATGATGTCCG
* *
15552538 GGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTG
1 GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
*
15552602 CGAGTTACTA-ATTCCA
66 CGAGTTACTATA-ACCA
* * **
15552618 GGCTAAG-CCCGAAGGCATTGGTGC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGT
*
15552680 GCGAGTTACTATAACCG
65 GCGAGTTACTATAACCA
*
15552697 GGCTATGTCCCGAAGGCATT
1 GGCTAAGTCCCGAAGGCATT
15552717 TGGACTAGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
78 1 0.01
79 59 0.69
80 26 0.30
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTG
CGAGTTACTATAACCA
Found at i:15552749 original size:79 final size:79
Alignment explanation
Indices: 15552535--15552751 Score: 214
Period size: 79 Copynumber: 2.7 Consensus size: 79
15552525 CGAATGATGT
* *
15552535 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGT-GACCATATCCGGACTAAGA-TCCGAAGGCAT
1 CCGGGCTAAGTCCCGAAGGCATTTG-GCT-AGTAG-CTATATCCGGATTAA-ATTCCGAAGGCAT
*
15552597 TTGTGCGAGTTACTAATT
62 TTGTGCGAGTTACTAATA
* * * * * * *
15552615 CCAGGCTAAG-CCCGAAGGCATTGGTGCAAGTTA-CTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTG-GCTAG-TAGCTATATCCGGATTAAATTCCGAAGGCATTT
15552678 GTGCGAGTTACT-ATAA
64 GTGCGAGTTACTAAT-A
*
15552694 CCGGGCTATGTCCCGAAGGCATTTGGACTAGTAGCTATATCC-GATTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGG-CTAGTAGCTATATCCGGATTAAATTCCGAAGG
15552752 TACGTGATTC
Statistics
Matches: 111, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
78 2 0.02
79 70 0.63
80 39 0.35
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGGCTAGTAGCTATATCCGGATTAAATTCCGAAGGCATTTGT
GCGAGTTACTAATA
Found at i:15554779 original size:19 final size:19
Alignment explanation
Indices: 15554764--15554800 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
15554754 GACACGGGTG
15554764 TGTCAAGGGCACACGGGCA
1 TGTCAAGGGCACACGGGCA
*
15554783 TGTCGAGGGCACACGGGC
1 TGTCAAGGGCACACGGGC
15554801 CTATCTCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.41, T:0.11
Consensus pattern (19 bp):
TGTCAAGGGCACACGGGCA
Found at i:15565088 original size:16 final size:16
Alignment explanation
Indices: 15565067--15565098 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15565057 TGAGTAAGTG
15565067 GTAATCATGAGATTTA
1 GTAATCATGAGATTTA
15565083 GTAATCATGAGATTTA
1 GTAATCATGAGATTTA
15565099 ATGCAAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.38
Consensus pattern (16 bp):
GTAATCATGAGATTTA
Found at i:15566447 original size:27 final size:27
Alignment explanation
Indices: 15566417--15566549 Score: 95
Period size: 27 Copynumber: 4.9 Consensus size: 27
15566407 AATGCCCTCA
*
15566417 ATTTGTAAAATTACCAAAGTACCCCCG
1 ATTTGTAAAATTACCAAAATACCCCCG
* * **** **
15566444 ATTTATAGAATTACCGTTTTACCCTTG
1 ATTTGTAAAATTACCAAAATACCCCCG
* ** *
15566471 GTTTACAAAATTACCAAAATACCCTCG
1 ATTTGTAAAATTACCAAAATACCCCCG
* * * *
15566498 ATTAGGAAAATTACCAAAATAACCCTG
1 ATTTGTAAAATTACCAAAATACCCCCG
* *
15566525 GTTTGTAAAACTACCAAAATACCCC
1 ATTTGTAAAATTACCAAAATACCCC
15566550 TGTAGGGTAG
Statistics
Matches: 78, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
27 78 1.00
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.29
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCCCG
Found at i:15566571 original size:27 final size:27
Alignment explanation
Indices: 15566536--15566890 Score: 476
Period size: 27 Copynumber: 13.1 Consensus size: 27
15566526 TTTGTAAAAC
*
15566536 TACCAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
15566563 TACTGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
15566590 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
15566617 TATCGAAATACCCTTATAGGGTAGAAC
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
15566644 TACCGAAATACCCTTGTAGGTTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
15566671 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
15566698 TACCGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
15566725 TACCGAAATACCCCTGTAGGGTAAAAA
1 TACCGAAATACCCCTGTAGGGTAGAAT
*
15566752 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * *
15566779 TACTGAAATACCCTTGCAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* *
15566806 TACCGAAATACCTCTATAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
15566833 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
* * * *
15566860 TACCGAGATACCCTTGTGGGGTAAAAT
1 TACCGAAATACCCCTGTAGGGTAGAAT
15566887 TACC
1 TACC
15566891 ATTTTGCCCC
Statistics
Matches: 294, Mismatches: 34, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 294 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAT
Found at i:15575148 original size:27 final size:27
Alignment explanation
Indices: 15575118--15575295 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15575108 ATATTGAGTC
* * * *
15575118 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
15575145 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15575172 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
15575200 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15575227 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15575254 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15575281 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15575296 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:15575257 original size:82 final size:81
Alignment explanation
Indices: 15575139--15575294 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15575129 TGCTATATAA
* *
15575139 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15575204 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15575221 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15575285 CACTTAGTGC
65 CACTTAGTGC
15575295 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15589308 original size:24 final size:25
Alignment explanation
Indices: 15589281--15589381 Score: 75
Period size: 25 Copynumber: 4.1 Consensus size: 25
15589271 TCATTAGGGA
15589281 TTACCAATTGT-AGCTCATGA-GAGC
1 TTACCAATTGTCAGCTCAT-ACGAGC
* * *
15589305 TTACCGATTCTCAGATCATACGAGC
1 TTACCAATTGTCAGCTCATACGAGC
** * *
15589330 TTACTGATTG-CAGGTCGTGA-GAGC
1 TTACCAATTGTCAGCTCAT-ACGAGC
* *
15589354 TTACCAATTATCAGCTCATATGAGC
1 TTACCAATTGTCAGCTCATACGAGC
15589379 TTA
1 TTA
15589382 TCGATTTACA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
24 28 0.47
25 32 0.53
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.31
Consensus pattern (25 bp):
TTACCAATTGTCAGCTCATACGAGC
Found at i:15589393 original size:25 final size:25
Alignment explanation
Indices: 15589365--15589432 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
15589355 TACCAATTAT
* * *
15589365 CAGCTCATATGAGCTTATCGATTTA
1 CAGCTCATATGAGCATACCGATTCA
** **
15589390 CAGCTTGTAAAAGCATACCGATTCA
1 CAGCTCATATGAGCATACCGATTCA
15589415 CAGCTCATATGAGCATAC
1 CAGCTCATATGAGCATAC
15589433 ATGTACATGA
Statistics
Matches: 32, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (25 bp):
CAGCTCATATGAGCATACCGATTCA
Found at i:15590302 original size:24 final size:24
Alignment explanation
Indices: 15590270--15590318 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
15590260 GATTGATATG
15590270 AATAAAGTTTATACAAGCTTACTA
1 AATAAAGTTTATACAAGCTTACTA
15590294 AATAAAGTTTATACAAGCTTACTA
1 AATAAAGTTTATACAAGCTTACTA
15590318 A
1 A
15590319 GCATTCATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (24 bp):
AATAAAGTTTATACAAGCTTACTA
Done.