Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 152 of 433
Found at i:47342360 original size:23 final size:23
Alignment explanation
Indices: 47342334--47342408 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
47342324 TCTTTTTTCT
47342334 TTTTTTCCATATTTGATTCTCTA
1 TTTTTTCCATATTTGATTCTCTA
*
47342357 -TTTTT-CATATATGTTATTCTCT-
1 TTTTTTCCATAT-T-TGATTCTCTA
*
47342379 TTCATTTCCTATATTTGATTCTCTA
1 TT-TTTTCC-ATATTTGATTCTCTA
47342404 TTTTT
1 TTTTT
47342409 CATAAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
21 5 0.12
22 6 0.15
23 9 0.22
24 13 0.32
25 4 0.10
26 4 0.10
ACGTcount: A:0.17, C:0.16, G:0.04, T:0.63
Consensus pattern (23 bp):
TTTTTTCCATATTTGATTCTCTA
Found at i:47345290 original size:30 final size:30
Alignment explanation
Indices: 47345256--47345315 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
47345246 ATAGGTGGGT
47345256 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
1 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
*
47345286 AAGTTTAAAGAATTGATTTTTTATTCAAAC
1 AAGTTTAAAGAATTGATTTTTTAGTCAAAC
47345316 CCTTGTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.42
Consensus pattern (30 bp):
AAGTTTAAAGAATTGATTTTTTAGTCAAAC
Found at i:47354133 original size:27 final size:28
Alignment explanation
Indices: 47354077--47354146 Score: 133
Period size: 27 Copynumber: 2.5 Consensus size: 28
47354067 AAATTTGTAC
47354077 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
47354105 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
47354132 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
47354147 GACTCACTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 25 0.60
28 17 0.40
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:47355988 original size:29 final size:29
Alignment explanation
Indices: 47355955--47356012 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
47355945 TTTTAATACT
47355955 AGAACTCATTCATTACTTTATCATCAAAC
1 AGAACTCATTCATTACTTTATCATCAAAC
47355984 AGAACTCATTCATTACTTTATCATCAAAC
1 AGAACTCATTCATTACTTTATCATCAAAC
47356013 GTAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.34
Consensus pattern (29 bp):
AGAACTCATTCATTACTTTATCATCAAAC
Found at i:47361092 original size:67 final size:67
Alignment explanation
Indices: 47361019--47361148 Score: 192
Period size: 67 Copynumber: 1.9 Consensus size: 67
47361009 TCCTTTTCAA
* *
47361019 AGAGCACACT-CTCGCAAACCTCATTTCTTACAGC-AGGATTACTAGTCAAGGCTAAATCCCCTG
1 AGAGCACACTCCT-GCAAACCTCATTTCTTACAACGA-GATTACCAGTCAAGGCTAAATCCCCTG
47361082 TAAG
64 TAAG
* *
47361086 AGAGCACACTCCTGCAAACCTTATTTCTTACAACGAGATTACCAGTCCAGGCTAAATCCCCTG
1 AGAGCACACTCCTGCAAACCTCATTTCTTACAACGAGATTACCAGTCAAGGCTAAATCCCCTG
47361149 CAATGACAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
67 54 0.95
68 3 0.05
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (67 bp):
AGAGCACACTCCTGCAAACCTCATTTCTTACAACGAGATTACCAGTCAAGGCTAAATCCCCTGTA
AG
Found at i:47361311 original size:58 final size:58
Alignment explanation
Indices: 47361220--47361353 Score: 191
Period size: 58 Copynumber: 2.3 Consensus size: 58
47361210 CATGTACTTT
47361220 AGATCACCC-TCCGGGCTAAATCCATTTCACACATATTCTTCAGG-AGGGCTTATATCA
1 AGATCACCCGTCCGGGCTAAATCCATTTCACACATATTCTTC-GGAAGGGCTTATATCA
* * * * *
47361277 GGATCACCCGTTCGGGTTAGATCCTTTTCACACATATTCTTCGGAAGGGCTTATATCA
1 AGATCACCCGTCCGGGCTAAATCCATTTCACACATATTCTTCGGAAGGGCTTATATCA
*
47361335 AGATCACCCGTCCGAGCTA
1 AGATCACCCGTCCGGGCTA
47361354 GACGCTTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
57 10 0.15
58 56 0.85
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (58 bp):
AGATCACCCGTCCGGGCTAAATCCATTTCACACATATTCTTCGGAAGGGCTTATATCA
Found at i:47361654 original size:21 final size:22
Alignment explanation
Indices: 47361617--47361657 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
47361607 TTTGAAATAA
47361617 AACATTATATCATTTCTAATTC
1 AACATTATATCATTTCTAATTC
47361639 AACATT-TATCGA-TTCTAAT
1 AACATTATATC-ATTTCTAAT
47361658 CAGACATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.37, C:0.17, G:0.02, T:0.44
Consensus pattern (22 bp):
AACATTATATCATTTCTAATTC
Found at i:47364473 original size:30 final size:30
Alignment explanation
Indices: 47364437--47364501 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
47364427 GGTTGGTGAA
*
47364437 TTTTTTGA-AGCAAAGAGAGTTGCTGAAATT
1 TTTTTTGATAG-AAAGAGAGTTGCTGAAATG
*
47364467 TTTTTTGATTGAAAGAGAGTTGCTGAAATG
1 TTTTTTGATAGAAAGAGAGTTGCTGAAATG
47364497 TTTTT
1 TTTTT
47364502 GAATGAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 31 0.97
31 1 0.03
ACGTcount: A:0.29, C:0.05, G:0.23, T:0.43
Consensus pattern (30 bp):
TTTTTTGATAGAAAGAGAGTTGCTGAAATG
Found at i:47364552 original size:28 final size:28
Alignment explanation
Indices: 47364435--47364556 Score: 104
Period size: 28 Copynumber: 4.2 Consensus size: 28
47364425 AGGGTTGGTG
*
47364435 AATTTTTTGAA-GCAAAGAGAGTTGCTGA
1 AATTTTTTGAATG-AAAGAGAGTTGATGA
* *
47364463 AATTTTTTTTGATTGAAAGAGAGTTGCTGA
1 AA--TTTTTTGAATGAAAGAGAGTTGATGA
* * *
47364493 AATGTTTTTGAATGAAATAG-GATTCATCA
1 AAT-TTTTTGAATGAAAGAGAG-TTGATGA
* * *
47364522 AATTTTTTGAACGAAATAGAGTTAATGA
1 AATTTTTTGAATGAAAGAGAGTTGATGA
47364550 AATTTTT
1 AATTTTT
47364557 AAAGGATATT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
28 31 0.39
29 22 0.28
30 25 0.32
31 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (28 bp):
AATTTTTTGAATGAAAGAGAGTTGATGA
Found at i:47366917 original size:24 final size:22
Alignment explanation
Indices: 47366890--47366958 Score: 59
Period size: 24 Copynumber: 2.9 Consensus size: 22
47366880 TAAAACATAT
*
47366890 AAAGAAAGAAAGAAATAGAAATA
1 AAAGAAAGAAAGAAA-AGAAAGA
*
47366913 GAAAGAACA-AACGAAAAAGAAAGA
1 -AAAGAA-AGAAAG-AAAAGAAAGA
47366937 AACAGAAAGGAAAGAAAAGAAA
1 AA-AGAAA-GAAAGAAAAGAAA
47366959 AAGGGAAAGC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
23 3 0.08
24 27 0.73
25 7 0.19
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.03
Consensus pattern (22 bp):
AAAGAAAGAAAGAAAAGAAAGA
Found at i:47366949 original size:15 final size:14
Alignment explanation
Indices: 47366890--47366958 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 14
47366880 TAAAACATAT
47366890 AAAGAAA-GAAAGA
1 AAAGAAAGGAAAGA
*
47366903 AATAGAAATAGAAAGAA
1 AA-AGAAA-GGAAAG-A
*
47366920 CAAACGAAAAAGAAAGA
1 -AAA-G-AAAGGAAAGA
47366937 AACAGAAAGGAAAGA
1 AA-AGAAAGGAAAGA
47366952 AAAGAAA
1 AAAGAAA
47366959 AAGGGAAAGC
Statistics
Matches: 47, Mismatches: 1, Indels: 15
0.75 0.02 0.24
Matches are distributed among these distances:
13 2 0.04
14 10 0.21
15 11 0.23
16 8 0.17
17 4 0.09
18 9 0.19
19 3 0.06
ACGTcount: A:0.72, C:0.04, G:0.20, T:0.03
Consensus pattern (14 bp):
AAAGAAAGGAAAGA
Found at i:47367679 original size:15 final size:15
Alignment explanation
Indices: 47367659--47367706 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
47367649 TGATGAATTT
47367659 ATTGAATTTATATTG
1 ATTGAATTTATATTG
*
47367674 ATTGAATTGATATAT-
1 ATTGAATTTATAT-TG
*
47367689 ATTGAATATATATTG
1 ATTGAATTTATATTG
47367704 ATT
1 ATT
47367707 ATTTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:47367679 original size:24 final size:26
Alignment explanation
Indices: 47367625--47367682 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
47367615 GTGTTTTGCA
47367625 ATTGAATTGGATTGATTTAGTATGTG
1 ATTGAATTGGATTGATTTAGTATGTG
*
47367651 A-TGAATT-TATTGAATTTA-TAT-TG
1 ATTGAATTGGATTG-ATTTAGTATGTG
47367674 ATTGAATTG
1 ATTGAATTG
47367683 ATATATATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 11 0.39
26 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATTGAATTGGATTGATTTAGTATGTG
Found at i:47367901 original size:41 final size:38
Alignment explanation
Indices: 47367840--47367976 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 38
47367830 CTTCGATTCA
* * *
47367840 ATGAGACACTGGGTGTCAATTTACTACTTCGAATTAATTCG
1 ATGAGACACTAGGTGCCAA-TTA-TACTTCGAATT-ATCCG
* *
47367881 ATGAGACACTAGGTGCCAATT-TACTTCGATTTAGCCG
1 ATGAGACACTAGGTGCCAATTATACTTCGAATTATCCG
* * *
47367918 ATAAGACACTGGGTGTCAAATTATTACTTCGAATTATCCG
1 ATGAGACACTAGGTG-CCAATTA-TACTTCGAATTATCCG
*
47367958 ATGAGGCACTAGGTGCCAA
1 ATGAGACACTAGGTGCCAA
47367977 ACTGGTGTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
37 16 0.20
38 15 0.19
39 3 0.04
40 28 0.35
41 17 0.22
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (38 bp):
ATGAGACACTAGGTGCCAATTATACTTCGAATTATCCG
Found at i:47371715 original size:23 final size:23
Alignment explanation
Indices: 47371689--47371738 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
47371679 CCATGTACAG
*
47371689 ATATCATCATCTCAT-ATTTCCAT
1 ATATCAT-ATATCATCATTTCCAT
*
47371712 ATATCATATATCATCATTTTCAT
1 ATATCATATATCATCATTTCCAT
47371735 ATAT
1 ATAT
47371739 TTCAAGCAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.34, C:0.20, G:0.00, T:0.46
Consensus pattern (23 bp):
ATATCATATATCATCATTTCCAT
Found at i:47379835 original size:10 final size:9
Alignment explanation
Indices: 47379814--47379877 Score: 51
Period size: 10 Copynumber: 6.9 Consensus size: 9
47379804 TAAAACAAAT
47379814 AAAG-AAAG
1 AAAGAAAAG
47379822 AAAGAAATAG
1 AAAGAAA-AG
47379832 AAAGAAAA-
1 AAAGAAAAG
*
47379840 AACGAAAAAG
1 AAAG-AAAAG
*
47379850 AAAGGAACAG
1 AAA-GAAAAG
*
47379860 AAAGGAAAG
1 AAAGAAAAG
47379869 AAAAGAAAA
1 -AAAGAAAA
47379878 AGGGAAGGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
8 7 0.16
9 11 0.25
10 25 0.57
11 1 0.02
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (9 bp):
AAAGAAAAG
Found at i:47379835 original size:14 final size:13
Alignment explanation
Indices: 47379814--47379876 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 13
47379804 TAAAACAAAT
47379814 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
47379827 AATAGAAAGAAA-A
1 AA-AGAAAGAAAGA
*
47379840 AACGAAAAAGAAAGGA
1 AA--AGAAAGAAA-GA
*
47379856 ACAGAAAGGAAAGA
1 AAAGAAA-GAAAGA
47379870 AAAGAAA
1 AAAGAAA
47379877 AAGGGAAGGA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
13 5 0.12
14 29 0.73
15 4 0.10
16 2 0.05
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.02
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:47379868 original size:33 final size:33
Alignment explanation
Indices: 47379805--47379872 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
47379795 ATATTATAAT
47379805 AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
1 AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
* *
47379838 AAAACGAA-AAAGAAAGGAACAGAAA-GGAAAGAA
1 AAAACAAATAAAGAAA-GAA-AGAAATAGAAAGAA
47379871 AA
1 AA
47379873 GAAAAAGGGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 7 0.23
33 19 0.61
34 5 0.16
ACGTcount: A:0.74, C:0.04, G:0.19, T:0.03
Consensus pattern (33 bp):
AAAACAAATAAAGAAAGAAAGAAATAGAAAGAA
Found at i:47380584 original size:24 final size:26
Alignment explanation
Indices: 47380530--47380587 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 26
47380520 GTGTTTTGCA
47380530 ATTGAATTGGATTGATTTAGTATGTG
1 ATTGAATTGGATTGATTTAGTATGTG
*
47380556 A-TGAATT-TATTGAATTTA-TAT-TG
1 ATTGAATTGGATTG-ATTTAGTATGTG
47380579 ATTGAATTG
1 ATTGAATTG
47380588 ATATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 3 0.11
24 13 0.46
25 11 0.39
26 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (26 bp):
ATTGAATTGGATTGATTTAGTATGTG
Found at i:47380866 original size:40 final size:40
Alignment explanation
Indices: 47380745--47380884 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 40
47380735 GACTTTGAGT
* * * * *
47380745 CGATGTGACATTGGGTGTTAATTTACTACTTCGGATTAAC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
* * *
47380785 TCGATGAGACACTGGGTCTC-AA-T-TTACTTCGGTTTAGC
1 -CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
* * *
47380823 CGATGAAACACTGGGTGTCAAATTATTACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
*
47380863 CGATGAGGCACTGGGTGTCAAA
1 CGATGAGACACTGGGTGTCAAA
47380885 CTTGTGTGTT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
37 17 0.21
38 14 0.17
39 2 0.02
40 33 0.41
41 15 0.19
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTGGGTGTCAAATTATTACTTCGGATTAAC
Found at i:47384344 original size:27 final size:26
Alignment explanation
Indices: 47384307--47384421 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
47384297 AGCATGGCTG
* *
47384307 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
47384333 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
47384361 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
47384388 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
47384415 CCAGAAC
1 CCAGAAC
47384422 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:47384366 original size:54 final size:54
Alignment explanation
Indices: 47384307--47384421 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
47384297 AGCATGGCTG
*
47384307 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
47384361 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
47384415 CCAGAAC
1 CCAGAAC
47384422 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:47384856 original size:16 final size:15
Alignment explanation
Indices: 47384835--47384864 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47384825 AAAATACTGA
47384835 CTTTTCGGCATTTTGG
1 CTTTTCGGC-TTTTGG
47384851 CTTTTCGGCTTTTG
1 CTTTTCGGCTTTTG
47384865 CCAATCTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.03, C:0.20, G:0.23, T:0.53
Consensus pattern (15 bp):
CTTTTCGGCTTTTGG
Found at i:47386073 original size:20 final size:20
Alignment explanation
Indices: 47386048--47386087 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47386038 TTATCATGAA
47386048 ACATTTACCTAACCCATTAT
1 ACATTTACCTAACCCATTAT
*
47386068 ACATTTACCTAACCTATTAT
1 ACATTTACCTAACCCATTAT
47386088 CATGGAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (20 bp):
ACATTTACCTAACCCATTAT
Found at i:47386089 original size:46 final size:50
Alignment explanation
Indices: 47386038--47386141 Score: 144
Period size: 46 Copynumber: 2.1 Consensus size: 50
47386028 CATGAAATTC
47386038 TTATCATGAAACATTTACCTAACCCA-T-T-AT-ACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCATGACATTTACCTAACCTA
* *
47386084 TTATCATGGAACATTTACCTAACCTATTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCATTATCAT-G-ACATTTACCTAACCTA
47386136 TTATCA
1 TTATCA
47386142 ATTTGTATCA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
46 24 0.48
47 1 0.02
48 1 0.02
49 2 0.04
52 22 0.44
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (50 bp):
TTATCATGAAACATTTACCTAACCCATTATCATGACATTTACCTAACCTA
Found at i:47386098 original size:26 final size:26
Alignment explanation
Indices: 47386038--47386141 Score: 148
Period size: 26 Copynumber: 4.2 Consensus size: 26
47386028 CATGAAATTC
* *
47386038 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
47386064 -T-T-AT---ACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
47386084 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
47386110 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
47386136 TTATCA
1 TTATCA
47386142 ATTTGTATCA
Statistics
Matches: 71, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
20 15 0.21
21 1 0.01
22 1 0.01
23 4 0.06
24 1 0.01
25 1 0.01
26 48 0.68
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.36
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:47386893 original size:27 final size:27
Alignment explanation
Indices: 47386870--47386925 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
47386860 AATATATTTA
* * *
47386870 TATTTTCATTATATTTTATGATATGTT
1 TATTTTAAATATATTTTATAATATGTT
* *
47386897 TATTTTAAATGTATTTTATAATATATT
1 TATTTTAAATATATTTTATAATATGTT
47386924 TA
1 TA
47386926 AAATAAGTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (27 bp):
TATTTTAAATATATTTTATAATATGTT
Found at i:47397292 original size:13 final size:13
Alignment explanation
Indices: 47397274--47397339 Score: 51
Period size: 13 Copynumber: 5.1 Consensus size: 13
47397264 AGTTTAGCAT
*
47397274 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* *
47397287 TGCTTTTAAAAAA
1 TGCTTTTGAAAAG
* *
47397300 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
* * *
47397313 TGATTTAGAGAAG
1 TGCTTTTGAAAAG
*
47397326 TACTTTTGAAAAG
1 TGCTTTTGAAAAG
47397339 T
1 T
47397340 TTGGTTTAAG
Statistics
Matches: 38, Mismatches: 15, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:47407595 original size:15 final size:16
Alignment explanation
Indices: 47407563--47407595 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
47407553 AAATTTGCAC
47407563 TTGGAAGGGTTAAAGG
1 TTGGAAGGGTTAAAGG
47407579 TTGGAAGGGTT-AAGG
1 TTGGAAGGGTTAAAGG
47407594 TT
1 TT
47407596 CCCTAAAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.42, T:0.30
Consensus pattern (16 bp):
TTGGAAGGGTTAAAGG
Found at i:47411870 original size:18 final size:18
Alignment explanation
Indices: 47411847--47411882 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47411837 CCATTTCTAC
47411847 ACCAAATTCAGTAGCAAT
1 ACCAAATTCAGTAGCAAT
47411865 ACCAAATTCAGTAGCAAT
1 ACCAAATTCAGTAGCAAT
47411883 CTTTCATGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.22, G:0.11, T:0.22
Consensus pattern (18 bp):
ACCAAATTCAGTAGCAAT
Found at i:47412440 original size:18 final size:18
Alignment explanation
Indices: 47412419--47412455 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47412409 CCGTCCCCGA
47412419 CCACCTCCACCTCCGCCT
1 CCACCTCCACCTCCGCCT
* *
47412437 CCACGTCCACCTCTGCCT
1 CCACCTCCACCTCCGCCT
47412455 C
1 C
47412456 TAGAATTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.62, G:0.08, T:0.19
Consensus pattern (18 bp):
CCACCTCCACCTCCGCCT
Found at i:47414024 original size:22 final size:20
Alignment explanation
Indices: 47413999--47414040 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
47413989 GATGCATGGG
*
47413999 TTAGTTATTTAATATATATTTT
1 TTAGTTAATTAA-A-ATATTTT
47414021 TTAGTTAATTAAAATATTTT
1 TTAGTTAATTAAAATATTTT
47414041 AAATAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTAGTTAATTAAAATATTTT
Found at i:47415304 original size:126 final size:126
Alignment explanation
Indices: 47415071--47415452 Score: 550
Period size: 126 Copynumber: 3.0 Consensus size: 126
47415061 TTTCTGCAAG
* * *
47415071 AATAATTTTGAGCAGACGTTTCTGGAA-AAATAGTGTCGGAAAAGGCTTCAAGCAGGATGCACTG
1 AATAATTTTGAGTAGACGTTTCT-GAACAAATAGTG-CCGAAAACGCTTCAAGCAGGATGCACTG
* * * * * * ** *
47415135 TCAGTAAAATTTTTGGAAAAAGCCCCCACATAGACACAATTTTGCTACAGTAGTTAGTAGAAA
64 TCAGCAAAATTTCTAGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
* *
47415198 AATAATTCTGAGTAGACGTTTCTGAACAAATAATGCCGAAAACGCTTCAAGCAGGATGCACTGTC
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
*
47415263 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
* * * *
47415324 AATAATTTTGAGTAGACATTTCTAAACAAATAGTGCCGAAAACACTTCAAGCAGGATGCACTGTT
1 AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
**
47415389 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGATTCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
47415450 AAT
1 AAT
47415453 GAGGCTATAA
Statistics
Matches: 231, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
126 203 0.88
127 28 0.12
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (126 bp):
AATAATTTTGAGTAGACGTTTCTGAACAAATAGTGCCGAAAACGCTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGGACACTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:47421541 original size:17 final size:18
Alignment explanation
Indices: 47421519--47421554 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
47421509 GATACTTATT
47421519 AAATTT-TAACGATACCA
1 AAATTTATAACGATACCA
*
47421536 AAATTTATATCGATACCA
1 AAATTTATAACGATACCA
47421554 A
1 A
47421555 TTTTGCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (18 bp):
AAATTTATAACGATACCA
Found at i:47423435 original size:121 final size:121
Alignment explanation
Indices: 47423221--47423465 Score: 472
Period size: 121 Copynumber: 2.0 Consensus size: 121
47423211 AAGATTCAAT
47423221 AGAGATAACATGTCTTAAAAGAAAGAATAACTCAAACTTGAAGCTTCAAAAGAGAAGGAACCAAT
1 AGAGATAACATGTCTTAAAAGAAAGAATAACTCAAACTTGAAGCTTCAAAAGAGAAGGAACCAAT
47423286 AATATGCTACAAATGTAAGAAACCAGGACACATCAACTTTGATTGTCCCTAATGAA
66 AATATGCTACAAATGTAAGAAACCAGGACACATCAACTTTGATTGTCCCTAATGAA
*
47423342 AGAGATAACATGTCTTAAAAGAAAGAATAACTCAAACTTGAATCTTCAAAAGAGAAGGAACCAAT
1 AGAGATAACATGTCTTAAAAGAAAGAATAACTCAAACTTGAAGCTTCAAAAGAGAAGGAACCAAT
*
47423407 AATATGCTACAAATGTAAGAAACCAGGACACATCAAGTTTGATTGTCCCTAATGAA
66 AATATGCTACAAATGTAAGAAACCAGGACACATCAACTTTGATTGTCCCTAATGAA
47423463 AGA
1 AGA
47423466 AAAAGAGGTC
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.22
Consensus pattern (121 bp):
AGAGATAACATGTCTTAAAAGAAAGAATAACTCAAACTTGAAGCTTCAAAAGAGAAGGAACCAAT
AATATGCTACAAATGTAAGAAACCAGGACACATCAACTTTGATTGTCCCTAATGAA
Found at i:47423673 original size:180 final size:180
Alignment explanation
Indices: 47423371--47423709 Score: 579
Period size: 180 Copynumber: 1.9 Consensus size: 180
47423361 AGAAAGAATA
* *
47423371 ACTCAAACTTGAATCTTCAAAAGAGAAGGAACCAATAATATGCTACAAATGTAAGAAACCAGGAC
1 ACTCAAACTTGAATCTTCAAAAGAGAAGGAACCAATAATATGCTACAAATGCAAAAAACCAGGAC
*
47423436 ACATCAAGTTTGATTGTCCCTAATGAAAGAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTCAT
66 ACATCAAGTTTGATTGTCCCCAATGAAAGAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTCAT
47423501 GTTGCTACTTGGAATGATGAGGATTCATCCGATAATGATAATGACAAAGG
131 GTTGCTACTTGGAATGATGAGGATTCATCCGATAATGATAATGACAAAGG
* * * **
47423551 ACTCAAACTTGAATCTTTAAAGGAGAAGGAACCAATAATATGCTACGAATGCAAAAAATTAGGAC
1 ACTCAAACTTGAATCTTCAAAAGAGAAGGAACCAATAATATGCTACAAATGCAAAAAACCAGGAC
* *
47423616 ACATCAAGTTTGATTGTCCCCAATGGAAGAAAAATAGGTCAAGCAAACAAAAACTCAAGGCTCAT
66 ACATCAAGTTTGATTGTCCCCAATGAAAGAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTCAT
*
47423681 GTTGCTACTTGGAGTGATGAGGATTCATC
131 GTTGCTACTTGGAATGATGAGGATTCATC
47423710 TAATAATTAT
Statistics
Matches: 148, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
180 148 1.00
ACGTcount: A:0.42, C:0.17, G:0.19, T:0.22
Consensus pattern (180 bp):
ACTCAAACTTGAATCTTCAAAAGAGAAGGAACCAATAATATGCTACAAATGCAAAAAACCAGGAC
ACATCAAGTTTGATTGTCCCCAATGAAAGAAAAAGAGGTCAAGCAAACAAAAACTCAAGGCTCAT
GTTGCTACTTGGAATGATGAGGATTCATCCGATAATGATAATGACAAAGG
Found at i:47429377 original size:30 final size:30
Alignment explanation
Indices: 47429343--47429403 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
47429333 TCCTTAACTC
47429343 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
47429373 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
47429403 A
1 A
47429404 GGCTGGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:47434191 original size:21 final size:21
Alignment explanation
Indices: 47434155--47434208 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
47434145 CCAATACAAT
*
47434155 TTATTGATACTT-TTTAAAAA
1 TTATCGATACTTGTTTAAAAA
47434175 TTATCGATACTTGTTTAAAAA
1 TTATCGATACTTGTTTAAAAA
*
47434196 GTATCGATACTTG
1 TTATCGATACTTG
47434209 GGGGATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 11 0.35
21 20 0.65
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.44
Consensus pattern (21 bp):
TTATCGATACTTGTTTAAAAA
Found at i:47450809 original size:149 final size:149
Alignment explanation
Indices: 47450484--47450820 Score: 361
Period size: 149 Copynumber: 2.3 Consensus size: 149
47450474 AGGCTTTGTA
* * * * *
47450484 GAGGGGACATTATGGTGTTTGAGCATCAAGGTTAGAAATGGTGAAATGAAGGATTGGGCTGATGG
1 GAGGGGACATTATGGTGTTTGAGCATCAAGGTTAGAAATAGAGAAATGAAGGAATGGCCAGATGG
* * * * *
47450549 ATAGGAAAATGAAATTACTATTAAAATTCCGTAATCAAGTGTTGTTGAGTGCAAACTATGATGTA
66 ATAGGAAAATGAAATTACTATTAAAATTCCGCAATCAAGTGTTGCTAAGTACAAACTATGATATA
* * *
47450614 CGAAGCTTTGGGCCGTATG
131 CAAAGCTCTGGGCCGTACG
* * * * *
47450633 GAGGGGACAATGTGGT-TTTCAAACATCAAGGTTAGAAATAGAGAAATGGAGGAATGGCCAGATG
1 GAGGGGACATTATGGTGTTT-GAGCATCAAGGTTAGAAATAGAGAAATGAAGGAATGGCCAGATG
* ** * * ** * *
47450697 GATAGGGAAATGAAATTTTTGTTAAGATTTTGCAATCAAGTGTTGCTAAGTACAAACTGTTATAT
65 GATAGGAAAATGAAATTACTATTAAAATTCCGCAATCAAGTGTTGCTAAGTACAAACTATGATAT
* * *
47450762 GCAAAGCTCTGGGCCTTGCG
130 ACAAAGCTCTGGGCCGTACG
* * *
47450782 GATGGGACATTACGATGTTTGAGCATCAAGGTTAGAAAT
1 GAGGGGACATTATGGTGTTTGAGCATCAAGGTTAGAAAT
47450821 GTATTGGAAT
Statistics
Matches: 149, Mismatches: 37, Indels: 4
0.78 0.19 0.02
Matches are distributed among these distances:
148 3 0.02
149 143 0.96
150 3 0.02
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.28
Consensus pattern (149 bp):
GAGGGGACATTATGGTGTTTGAGCATCAAGGTTAGAAATAGAGAAATGAAGGAATGGCCAGATGG
ATAGGAAAATGAAATTACTATTAAAATTCCGCAATCAAGTGTTGCTAAGTACAAACTATGATATA
CAAAGCTCTGGGCCGTACG
Found at i:47452474 original size:33 final size:33
Alignment explanation
Indices: 47452389--47452476 Score: 101
Period size: 33 Copynumber: 2.7 Consensus size: 33
47452379 TATGTACACC
* **
47452389 TTGTGTGTA-CACTT-GAAAGGTTAGGTATACT
1 TTGTGTATACCACTTGGAAAGGAAAGGTATACT
*
47452420 TTGTGTATACCA-TATGAAAAGGAAAGGTATACT
1 TTGTGTATACCACT-TGGAAAGGAAAGGTATACT
*
47452453 TTGTGTCTACCACTTGGAAAGGAA
1 TTGTGTATACCACTTGGAAAGGAA
47452477 TGTACACCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.19
32 3 0.06
33 34 0.72
34 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.33
Consensus pattern (33 bp):
TTGTGTATACCACTTGGAAAGGAAAGGTATACT
Found at i:47458780 original size:13 final size:13
Alignment explanation
Indices: 47458762--47458787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47458752 GAATATTGCA
47458762 TGAAAATTTTTAT
1 TGAAAATTTTTAT
47458775 TGAAAATTTTTAT
1 TGAAAATTTTTAT
47458788 CAATAATGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
TGAAAATTTTTAT
Found at i:47460006 original size:31 final size:31
Alignment explanation
Indices: 47459971--47460093 Score: 79
Period size: 33 Copynumber: 3.9 Consensus size: 31
47459961 TACCATTTGA
* *
47459971 AAAGGTTATGTACACCTTGTGTGTACACTTG
1 AAAGGTAAGGTACACCTTGTGTGTACACTTG
* * * *
47460002 AAAGGTTAGGTATACTTTGTGTATAC-CATATG
1 AAAGGTAAGGTACACCTTGTGTGTACAC-T-TG
* * *
47460034 AAAAGGAAAGGTATACTTTGTGTGTACCACTTGG
1 -AAAGGTAAGGTACACCTTGTGTGTA-CACTT-G
* **
47460068 AAAGG-AATGTACACCTTAAGTGTACA
1 AAAGGTAAGGTACACCTTGTGTGTACA
47460094 ACTGGAAAAG
Statistics
Matches: 74, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
30 1 0.01
31 25 0.34
32 16 0.22
33 28 0.38
34 3 0.04
35 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.32
Consensus pattern (31 bp):
AAAGGTAAGGTACACCTTGTGTGTACACTTG
Found at i:47460072 original size:33 final size:33
Alignment explanation
Indices: 47459987--47460074 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 33
47459977 TATGTACACC
**
47459987 TTGTGTGTA-CACTT-GAAAGGTTAGGTATACT
1 TTGTGTGTACCACTTGGAAAGGAAAGGTATACT
* *
47460018 TTGTGTATACCA-TATGAAAAGGAAAGGTATACT
1 TTGTGTGTACCACT-TGGAAAGGAAAGGTATACT
47460051 TTGTGTGTACCACTTGGAAAGGAA
1 TTGTGTGTACCACTTGGAAAGGAA
47460075 TGTACACCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
31 9 0.19
32 3 0.06
33 34 0.72
34 1 0.02
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (33 bp):
TTGTGTGTACCACTTGGAAAGGAAAGGTATACT
Found at i:47464071 original size:46 final size:46
Alignment explanation
Indices: 47463894--47464101 Score: 140
Period size: 46 Copynumber: 4.5 Consensus size: 46
47463884 TTGTGCACTT
* * *
47463894 GTGTAAGACATGTTTGGGACATGCATCGGCCAC-ATTATGAGAGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGAGAGCCA
** * * *
47463940 GTGTAAGACAATGTCTGGGACATGGCATCAAC-ATTGAGACGAGAGCTA
1 GTGTAAGAC-ATGTCTGGGACAT-GCATCGGCTA-CGAGATGAGAGCCA
* * * * ** *
47463988 GTTTAAGACGTGTCTGGGATATGTAGGGGCCT-TGAGATGTA-AGCCA
1 GTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-AGAGCCA
* * **
47464034 GTGTAAGACATGTCTGGGACATGCATTGGCTACGAGAT--GTGTTA
1 GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCA
47464078 GTGTAAGACCATGTCTGGGACATG
1 GTGTAAGA-CATGTCTGGGACATG
47464102 GCATTAGCAC
Statistics
Matches: 125, Mismatches: 27, Indels: 21
0.72 0.16 0.12
Matches are distributed among these distances:
44 10 0.08
45 17 0.14
46 49 0.39
47 26 0.21
48 22 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.25
Consensus pattern (46 bp):
GTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAGAGCCA
Found at i:47464098 original size:45 final size:46
Alignment explanation
Indices: 47464032--47464145 Score: 144
Period size: 48 Copynumber: 2.5 Consensus size: 46
47464022 AGATGTAAGC
* *
47464032 CAGTGTAAGA-CATGTCTGGGACAT-GCATTGGCTAC-GAGATGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTAGC-ACTGAGAGGTGT
* *
47464076 TAGTGTAAGACCATGTCTGGGACATGGCATTAGCACTTATAGAGGTGT
1 CAGTGTAAGACCATGTCTGGGACATGGCATTAGCAC-T-GAGAGGTGT
47464124 CAGTGTAAGACCATGTCTGGGA
1 CAGTGTAAGACCATGTCTGGGA
47464146 TGTGGCATCG
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
44 9 0.15
45 16 0.27
46 7 0.12
48 28 0.47
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (46 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATTAGCACTGAGAGGTGT
Found at i:47472171 original size:25 final size:26
Alignment explanation
Indices: 47472143--47472191 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
47472133 GAACATCCCA
*
47472143 ATTAA-AGGTTCTTTGTGAACTTCTT
1 ATTAATAGGCTCTTTGTGAACTTCTT
* *
47472168 ATTAATTGGCTCTTTGTGAGCTTC
1 ATTAATAGGCTCTTTGTGAACTTC
47472192 CCGATAGTGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.20, C:0.14, G:0.18, T:0.47
Consensus pattern (26 bp):
ATTAATAGGCTCTTTGTGAACTTCTT
Found at i:47478041 original size:23 final size:23
Alignment explanation
Indices: 47478015--47478072 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
47478005 TTTTATATGC
**
47478015 GCAAGTGATAGTGGCACTATGGT
1 GCAAGTGATAGTGGCACTACAGT
47478038 GCAAGTG-TCAGTGGCACTACAGT
1 GCAAGTGAT-AGTGGCACTACAGT
47478061 GCAAGTGATAGT
1 GCAAGTGATAGT
47478073 AGCATTTCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.28, C:0.16, G:0.33, T:0.24
Consensus pattern (23 bp):
GCAAGTGATAGTGGCACTACAGT
Found at i:47478085 original size:23 final size:23
Alignment explanation
Indices: 47478015--47478087 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
47478005 TTTTATATGC
*
47478015 GCAAGTGATAGTGGCACTAT-GGT
1 GCAAGTGATAGTGGCA-TTTCGGT
* * *
47478038 GCAAGTG-TCAGTGGCACTACAGT
1 GCAAGTGAT-AGTGGCATTTCGGT
*
47478061 GCAAGTGATAGTAGCATTTCGGT
1 GCAAGTGATAGTGGCATTTCGGT
47478084 GCAA
1 GCAA
47478088 ATTATTGACT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
22 1 0.03
23 37 0.95
24 1 0.03
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTTCGGT
Found at i:47490347 original size:47 final size:47
Alignment explanation
Indices: 47490290--47490637 Score: 507
Period size: 47 Copynumber: 7.3 Consensus size: 47
47490280 GTATGAGATA
47490290 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
47490337 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
47490384 CATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGCGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * *
47490431 TATATATATGCGATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* *
47490480 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTG
1 --TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
47490529 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
47490576 TATATATGTGATAGGGCCGAGTGGCCAATGTGATGGATGTGGAAGTG
1 TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
*
47490623 TATAAATGTGATAAG
1 TATATATGTGATAAG
47490638 TCCCGAAGGG
Statistics
Matches: 277, Mismatches: 22, Indels: 4
0.91 0.07 0.01
Matches are distributed among these distances:
47 188 0.68
49 89 0.32
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:47493971 original size:40 final size:40
Alignment explanation
Indices: 47493927--47494005 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
47493917 CTTCCAAGCT
**
47493927 CAATTGTAAGTCCATTCTA-CCCTTTTTTTTAATGATTTTA
1 CAATTGTAAGTCCATTCTAGCCC-CGTTTTTAATGATTTTA
47493967 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTT
1 CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTT
47494006 TATGTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 33 0.92
41 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.10, T:0.47
Consensus pattern (40 bp):
CAATTGTAAGTCCATTCTAGCCCCGTTTTTAATGATTTTA
Found at i:47494943 original size:13 final size:13
Alignment explanation
Indices: 47494925--47494957 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
47494915 TTGGGACACG
47494925 CCCGTGTCCATCA
1 CCCGTGTCCATCA
47494938 CCCGTGTCCATCA
1 CCCGTGTCCATCA
47494951 CCCGTGT
1 CCCGTGT
47494958 TGAATCCAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.12, C:0.45, G:0.18, T:0.24
Consensus pattern (13 bp):
CCCGTGTCCATCA
Found at i:47502428 original size:40 final size:40
Alignment explanation
Indices: 47502354--47502499 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
47502344 CCGCACCAAG
* * * * * *
47502354 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
47502394 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
47502434 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
47502474 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
47502500 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:47502514 original size:40 final size:40
Alignment explanation
Indices: 47502386--47502537 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
47502376 ATCACGATTT
* * * * *
47502386 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
47502426 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
47502466 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
47502506 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
47502538 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:47510536 original size:40 final size:40
Alignment explanation
Indices: 47510462--47510607 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
47510452 CCGCACCAAG
* * * * * *
47510462 GCCTACGGGACTTAACCCGGATATCACGATTTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* *
47510502 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
* * * *
47510542 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
*
47510582 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
47510608 TTTTCAGCAT
Statistics
Matches: 90, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAAT
Found at i:47510622 original size:40 final size:40
Alignment explanation
Indices: 47510494--47510645 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
47510484 ATCACGATTT
* * * * *
47510494 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
47510534 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
* * **
47510574 GCACAATTGCCTTCGGGTCTTAACCCGGATATA-ATTTTCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACT-A
* * *
47510614 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
47510646 CATTCAATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 6
0.84 0.10 0.05
Matches are distributed among these distances:
39 4 0.04
40 91 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
Found at i:47513825 original size:40 final size:40
Alignment explanation
Indices: 47513711--47513923 Score: 322
Period size: 40 Copynumber: 5.3 Consensus size: 40
47513701 AATATAGATG
* *
47513711 ATATCCGGGCTAAGTCCCAAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
47513751 ATATCCGGGACTTAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGG-CTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
47513792 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
47513832 ATATCCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
47513872 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
47513912 ATATCC-GGCTAA
1 ATATCCGGGCTAA
47513924 TTCTTGAAGG
Statistics
Matches: 161, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 6 0.04
40 115 0.71
41 40 0.25
ACGTcount: A:0.23, C:0.24, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:47519036 original size:50 final size:50
Alignment explanation
Indices: 47518919--47519213 Score: 263
Period size: 50 Copynumber: 5.9 Consensus size: 50
47518909 ATTGTGAGAA
* * *** * *
47518919 CACATGTTTAGTACTATGTGCAGGCTACTATGTGTTTAAAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG--TTAGGT
* *
47518971 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * * *
47519021 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGA-TAGTT-AGGT
* * ** * *
47519072 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
* * * * *
47519122 CACTTGCGTAGTACTAAGTGAAGGATACTATGTGTACCAGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
** * *
47519171 TGCATGTGTAGTACTAAGTGTAGGCTAC-ATGCGTACCAGATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAG
47519214 CTTCAGTTAC
Statistics
Matches: 194, Mismatches: 46, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
48 13 0.07
49 26 0.13
50 81 0.42
51 38 0.20
52 36 0.19
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAGTTAGGT
Found at i:47519103 original size:101 final size:101
Alignment explanation
Indices: 47518970--47519159 Score: 272
Period size: 101 Copynumber: 1.9 Consensus size: 101
47518960 TGGTTTTAGG
* * * *
47518970 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGGTAGTTAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAGGTCACATGCGTAGTAC
* *
47519035 TAAGTGCAGGCTACTATGCGTACCCGACAACTTCAA
66 TAAGTGAAGGATACTATGCGTACCCGACAACTTCAA
* ** * *
47519071 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGATAGGTCACTTGCGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAGGTCACATGCGTAGTAC
*
47519136 TAAGTGAAGGATACTATGTGTACC
66 TAAGTGAAGGATACTATGCGTACC
47519160 AGATTGTTGG
Statistics
Matches: 77, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGATAGGTCACATGCGTAGTAC
TAAGTGAAGGATACTATGCGTACCCGACAACTTCAA
Found at i:47527491 original size:28 final size:27
Alignment explanation
Indices: 47527428--47527497 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47527418 ATAGTGAGTC
47527428 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
* *
47527455 CACACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47527483 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47527498 GTACAAGTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47538354 original size:46 final size:44
Alignment explanation
Indices: 47538211--47538354 Score: 98
Period size: 46 Copynumber: 3.1 Consensus size: 44
47538201 ACCGCCCATA
* * *
47538211 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCA---A-ATC-CT
* * * *
47538260 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTC--AGATGCCCAAATCC-T
47538303 AAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCC-AA-ATCCT
47538350 AGTGA
1 AGTGA
47538355 CATGTCACTT
Statistics
Matches: 74, Mismatches: 11, Indels: 23
0.69 0.10 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 5 0.07
46 31 0.42
47 26 0.35
48 4 0.05
49 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCCAAATCCT
Found at i:47542211 original size:46 final size:46
Alignment explanation
Indices: 47542156--47542336 Score: 233
Period size: 46 Copynumber: 3.9 Consensus size: 46
47542146 TAGGATGGTT
47542156 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* * *
47542202 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---C
*
47542248 TAGGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
* ** *
47542295 GAACGCCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47542337 GCGGGTTACA
Statistics
Matches: 116, Mismatches: 12, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.03
45 2 0.02
46 71 0.61
47 33 0.28
48 2 0.02
50 4 0.03
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC
Found at i:47542317 original size:93 final size:93
Alignment explanation
Indices: 47542158--47542328 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
47542148 GGATGGTTGA
* *
47542158 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47542223 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
47542251 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
47542316 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
47542329 ACTTATGGGC
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:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:47545283 original size:15 final size:15
Alignment explanation
Indices: 47545263--47545331 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
47545253 GTATCTTGGG
47545263 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
47545278 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
47545293 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
47545308 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
47545323 TTTCTTTAT
1 TTTCTTTAT
47545332 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:47545332 original size:30 final size:30
Alignment explanation
Indices: 47545254--47545341 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
47545244 CATAGTATCG
* * * *
47545254 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
47545284 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
47545314 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
47545342 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:47547765 original size:46 final size:47
Alignment explanation
Indices: 47547710--47547844 Score: 170
Period size: 46 Copynumber: 2.9 Consensus size: 47
47547700 TAGGATGGTT
47547710 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-C
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAC
* * *
47547756 GAGCGTCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAAC
1 GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG--AC
* *
47547802 TAGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 GA-GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
47547845 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
43 4 0.05
45 2 0.03
46 35 0.47
47 30 0.41
48 2 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (47 bp):
GAGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGAC
Found at i:47551528 original size:93 final size:93
Alignment explanation
Indices: 47551416--47551587 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
47551406 GCCCATAAGT
***
47551416 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
*
47551481 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCAGATGCCTAGTTACATCTCTC
* **
47551509 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
* *
47551574 GGAGTTCAGATGCC
66 CGAGCTCAGATGCC
47551588 CAAATATCCT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAAACTCAACTCAA
CGAGCTCAGATGCCTAGTTACATCTCTC
Found at i:47551580 original size:46 final size:44
Alignment explanation
Indices: 47551408--47551573 Score: 172
Period size: 46 Copynumber: 3.6 Consensus size: 44
47551398 TGTAACCCGC
*
47551408 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATTCGCAT
** *
47551454 CCATAAGTGAACTCAAACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGC-A--T
* *** *
47551500 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGG--ATTCGCAT
47551547 CCATAAGTGAACTCGGACTCAACTCAA
1 CCATAAGTGAACTCGGACTCAACTCAA
47551574 GGAGTTCAGA
Statistics
Matches: 97, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 56 0.58
47 30 0.31
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATTCGCAT
Found at i:47558623 original size:12 final size:13
Alignment explanation
Indices: 47558545--47558622 Score: 68
Period size: 13 Copynumber: 5.9 Consensus size: 13
47558535 ATGTTTAAAG
*
47558545 AATTTTATTTATT
1 AATTTTATTTTTT
*
47558558 ATTTTTATGTTTTT
1 AATTTTAT-TTTTT
*
47558572 ACTTTTATCTTTTT
1 AATTTTAT-TTTTT
*** *
47558586 AAAACTACTTTTT
1 AATTTTATTTTTT
47558599 -ATTTTATTTTTT
1 AATTTTATTTTTT
47558611 AATTTTATTTTT
1 AATTTTATTTTT
47558623 ACTGTATTCA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
12 8 0.16
13 23 0.46
14 19 0.38
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (13 bp):
AATTTTATTTTTT
Found at i:47565975 original size:22 final size:22
Alignment explanation
Indices: 47565950--47565993 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47565940 AGAAAACCAT
47565950 CAATTTTCATATTCAAGAGTTC
1 CAATTTTCATATTCAAGAGTTC
*
47565972 CAATTTTCTTATTCAAGAGTTC
1 CAATTTTCATATTCAAGAGTTC
47565994 TACTTGATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.43
Consensus pattern (22 bp):
CAATTTTCATATTCAAGAGTTC
Found at i:47572679 original size:29 final size:29
Alignment explanation
Indices: 47572654--47572711 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
47572644 CTACCACATG
*
47572654 GCCTACCACACAACCGTGTGACCCACACA
1 GCCTAACACACAACCGTGTGACCCACACA
***
47572683 GCCTAACACATGGCCGTGTGACCCACACA
1 GCCTAACACACAACCGTGTGACCCACACA
47572712 AGTTGCCACA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.29, C:0.41, G:0.17, T:0.12
Consensus pattern (29 bp):
GCCTAACACACAACCGTGTGACCCACACA
Found at i:47575887 original size:15 final size:16
Alignment explanation
Indices: 47575867--47575896 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47575857 ATTTCCTCCT
47575867 TTTTCTTTTT-TTTTG
1 TTTTCTTTTTCTTTTG
47575882 TTTTCTTTTTCTTTT
1 TTTTCTTTTTCTTTT
47575897 TCTCCCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTCTTTTTCTTTTG
Found at i:47584412 original size:40 final size:40
Alignment explanation
Indices: 47584335--47584555 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
47584325 AACCCAAGTA
* *
47584335 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
47584374 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47584414 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47584454 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAA-G
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
47584493 CCTTTGGGACTTAGCGCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47584533 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
47584556 CATCCGAATA
Statistics
Matches: 167, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
39 49 0.29
40 117 0.70
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47584536 original size:79 final size:79
Alignment explanation
Indices: 47584335--47584555 Score: 338
Period size: 79 Copynumber: 2.8 Consensus size: 79
47584325 AACCCAAGTA
* * *
47584335 CCTTCGGGAATTAGCCGGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
*
47584399 TCACTAGCGCAAATG
65 TCACTAGCACAAATG
*
47584414 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAG-CCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
47584479 TCACTAGCACAAA-G
65 TCACTAGCACAAATG
* *
47584493 CCTTTGGGACTTAGCGCGGATATAGTCACTAGCACAAAGGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGC-CGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
47584556 CATCCGAATA
Statistics
Matches: 131, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 72 0.55
80 57 0.44
81 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATG
Found at i:47584546 original size:119 final size:119
Alignment explanation
Indices: 47584335--47584555 Score: 347
Period size: 119 Copynumber: 1.9 Consensus size: 119
47584325 AACCCAAGTA
* *
47584335 CCTTCGGGAATTAGCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGAATTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
* *
47584400 CACTAGCGCAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
66 CACTAGCACAAAGGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
* * *
47584454 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAA-GCCTTTGGGACTTAGCGCGGATATA
1 CCTTCGGGAATTAG-CCGGATATAG-CAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
47584517 GTCACTAGCACAAAGGCCTTCGGGACTTAGCCCGGATAT
64 GTCACTAGCACAAAGGCCTTCGGGACTTAGCCCGGATAT
47584556 CATCCGAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
119 72 0.77
120 20 0.22
121 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.23
Consensus pattern (119 bp):
CCTTCGGGAATTAGCCGGATATAGCAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAAGGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
Found at i:47599154 original size:31 final size:31
Alignment explanation
Indices: 47599111--47599225 Score: 196
Period size: 31 Copynumber: 3.7 Consensus size: 31
47599101 TCAATCTCAG
**
47599111 CATAT-ACTGGGCCGAAGCCTTCACATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
47599141 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
47599172 CATATCACTGGGCCGAAGCCTTTTCATTATT
1 CATATCACTGGGCCGAAGCCTTTTCATTATT
*
47599203 CATATCACTGGGTCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
47599226 ACTGTAATGA
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 76 0.94
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATTATT
Found at i:47599669 original size:25 final size:25
Alignment explanation
Indices: 47599623--47599670 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
47599613 ATAATTAAAC
* ** *
47599623 CTTAGGGGTAAAATGGTTATTTTTA
1 CTTAGGGGCAAAACAGTCATTTTTA
47599648 CTTAGGGGCAAAACAGTCATTTT
1 CTTAGGGGCAAAACAGTCATTTT
47599671 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (25 bp):
CTTAGGGGCAAAACAGTCATTTTTA
Found at i:47600375 original size:24 final size:24
Alignment explanation
Indices: 47600347--47600396 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
47600337 CCAAATCGAT
47600347 ACCCCAAGCCTTGCTACTCCTCCA
1 ACCCCAAGCCTTGCTACTCCTCCA
47600371 ACCCCAAGCCTTGCTACTCCTCCA
1 ACCCCAAGCCTTGCTACTCCTCCA
47600395 AC
1 AC
47600397 GTTATCTACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.50, G:0.08, T:0.20
Consensus pattern (24 bp):
ACCCCAAGCCTTGCTACTCCTCCA
Found at i:47601825 original size:23 final size:22
Alignment explanation
Indices: 47601799--47601907 Score: 78
Period size: 23 Copynumber: 4.8 Consensus size: 22
47601789 CGGAATCAGG
47601799 AAGCTCTATTGAGCTGAAATGAT
1 AAGCTCTATTGAGCTGAAA-GAT
*
47601822 AAGCTCTATCGAGCTGAACAG-T
1 AAGCTCTATTGAGCTGAA-AGAT
* *
47601844 AAGCT-TATACGAGCTGAAACGGT
1 AAGCTCTAT-TGAGCTGAAA-GAT
* * * *
47601867 AAACTCCAATGAGCTGAAAACAGT
1 AAGCTCTATTGAGCTG-AAAGA-T
*
47601891 AAGCTCTTTTGAGCTGA
1 AAGCTCTATTGAGCTGA
47601908 TATATCGGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
21 4 0.06
22 16 0.24
23 30 0.44
24 18 0.26
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (22 bp):
AAGCTCTATTGAGCTGAAAGAT
Found at i:47606688 original size:4 final size:4
Alignment explanation
Indices: 47606679--47607255 Score: 266
Period size: 4 Copynumber: 146.8 Consensus size: 4
47606669 AAAAATATTG
* * * * * *
47606679 GAGA GAGA GAGA GAGG GGGG GAGG GGGA GAGA GAGA -AG- GAGA GAAA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
47606725 GAGG GAGA GAGA G-GG GA-A GAGA GAGA GAAA GAGG GGGA GAGG GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
47606771 GAGG GAGA GAG- GGGG GAGA GAGA GAGA GGGG GAGA GAGA GGGA GGGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
47606818 GGGA GGGT GAGA GAGG GAGA GAGTA -AGA GAGA GAGG GAGA GAGG GAGA
1 GAGA GAGA GAGA GAGA GAGA GAG-A GAGA GAGA GAGA GAGA GAGA GAGA
* * * * *
47606866 AAGA GAAA GAGA AAGA GAGA GAGA -ATGA GAGA GTGA GGGA GAGA GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA GAGA GAGA GAGA GAGA
* * * * * * * * * *
47606914 GAGA GAAA GGGA GGGA GGGA TAGA TAGG GAGA GAGA GGGA AAGG GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
47606962 GGGA GAGA GAGA GAGG GGGA GAGA AAGG GAGG GAGG GAGA GACG- GAG-
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GA-GA GAGA
* * * * * *
47607009 GAGA GAGG GAGA GAGA GA-A G-GA GGGA GGGG GAGA GGGA GAGG GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * *
47607055 GAAA GAGA GAGA GAGA GAGA GGGA GAGG GAGG GAGG GAGG GAGG GAGA
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * * * *
47607103 GAGG GAGT GGGA GAGG GAGA GAGG GAGA GGGA G-GA -AGG GAGG GAG-
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
* * * * * *
47607148 GACGG GAGA GGGA GGGA GAGA GGGA GAGA GAGC GAGA GAGA GA-A TGAGG
1 GA-GA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA -GAGA
* * * * * * *
47607197 GAGA GAGG GAGG GAGA AAGA GAGA GGGA GAGA GAGT GGGA GAGA GAGC
1 GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA GAGA
*
47607245 GAGG GAGA GAG
1 GAGA GAGA GAG
47607256 GAAGCGAGAT
Statistics
Matches: 434, Mismatches: 120, Indels: 38
0.73 0.20 0.06
Matches are distributed among these distances:
3 26 0.06
4 403 0.93
5 5 0.01
ACGTcount: A:0.39, C:0.01, G:0.59, T:0.02
Consensus pattern (4 bp):
GAGA
Found at i:47607252 original size:12 final size:12
Alignment explanation
Indices: 47606683--47607255 Score: 353
Period size: 12 Copynumber: 47.6 Consensus size: 12
47606673 ATATTGGAGA
47606683 GAGAGAGAGAGG
1 GAGAGAGAGAGG
* *
47606695 G-G-GGGAGGGG
1 GAGAGAGAGAGG
*
47606705 GAGAGAGAGAAG
1 GAGAGAGAGAGG
*
47606717 GAGAGAAAGAGG
1 GAGAGAGAGAGG
47606729 GAGAGAGAG-GG
1 GAGAGAGAGAGG
47606740 GA-AGAGAGA--
1 GAGAGAGAGAGG
* *
47606749 GAGAAAGAGGGG
1 GAGAGAGAGAGG
47606761 GAGAGGGAGAGAGG
1 GAGA--GAGAGAGG
* *
47606775 GAGAGAGGGGGG
1 GAGAGAGAGAGG
47606787 AGAGAGAGAGAGG
1 -GAGAGAGAGAGG
*
47606800 GGGAGAGAGAGG
1 GAGAGAGAGAGG
* *
47606812 GAGGGAGGGAGG
1 GAGAGAGAGAGG
*
47606824 GTGAGAGAG-GG
1 GAGAGAGAGAGG
*
47606835 AGAGAGTAAGAGAGA
1 -GAGAG--AGAGAGG
*
47606850 GAGGGAGAGAGG
1 GAGAGAGAGAGG
47606862 GAGA-A-AGA--
1 GAGAGAGAGAGG
**
47606870 GA-A-AGAGAAA
1 GAGAGAGAGAGG
**
47606880 GAGAGAGAGAAT
1 GAGAGAGAGAGG
*
47606892 GAGAGAGTGAGG
1 GAGAGAGAGAGG
*
47606904 GAGAGAGAGAGA
1 GAGAGAGAGAGG
* *
47606916 GAGAAAGGGAGG
1 GAGAGAGAGAGG
* * *
47606928 GAGGGATAGATAG
1 GAGAGAGAGA-GG
47606941 G-GAGAGAGAGG
1 GAGAGAGAGAGG
* *
47606952 GAAAGGGAGAGGG
1 GAGAGAGAGA-GG
47606965 AGAGAGAGAGAGGGG
1 -GAGAGAGAGA--GG
*
47606980 GAGAGAAAGGGAGG
1 GAGAG--AGAGAGG
* *
47606994 GAGGGAGAGACG
1 GAGAGAGAGAGG
47607006 GAG-GAGAGAGG
1 GAGAGAGAGAGG
*
47607017 GAGAGAGAGAAG
1 GAGAGAGAGAGG
*
47607029 GAG-G-GAGGGG
1 GAGAGAGAGAGG
*
47607039 GAGAGGGAGAGG
1 GAGAGAGAGAGG
47607051 GAGAGA-A-A--
1 GAGAGAGAGAGG
*
47607059 GAGAGAGAGAGA
1 GAGAGAGAGAGG
*
47607071 GAGAGGGAGAGG
1 GAGAGAGAGAGG
* *
47607083 GAGGGAGGGAGG
1 GAGAGAGAGAGG
*
47607095 GAGGGAGAGAGG
1 GAGAGAGAGAGG
* *
47607107 GAGTGGGAGAGG
1 GAGAGAGAGAGG
47607119 GAGAGAGGGAGAGG
1 GAGAGA--GAGAGG
*
47607133 GAG-GAAGGGAGG
1 GAGAG-AGAGAGG
*
47607145 GAGGACGGGAGAGG
1 GA-GA-GAGAGAGG
*
47607159 GAGGGAGAGAGG
1 GAGAGAGAGAGG
* *
47607171 GAGAGAGAGCGA
1 GAGAGAGAGAGG
47607183 GAGAGAGAATGAGG
1 GAGAGAG-A-GAGG
*
47607197 GAGAGAGGGAGG
1 GAGAGAGAGAGG
47607209 GAGAAAGAGAGAGG
1 GAG--AGAGAGAGG
*
47607223 GAGAGAGAGTGG
1 GAGAGAGAGAGG
47607235 GAGAGAGAGCGAGG
1 GAGAGAGA--GAGG
47607249 GAGAGAG
1 GAGAGAG
47607256 GAAGCGAGAT
Statistics
Matches: 434, Mismatches: 83, Indels: 86
0.72 0.14 0.14
Matches are distributed among these distances:
7 2 0.00
8 11 0.03
9 3 0.01
10 32 0.07
11 25 0.06
12 250 0.58
13 18 0.04
14 84 0.19
15 5 0.01
16 4 0.01
ACGTcount: A:0.39, C:0.01, G:0.59, T:0.02
Consensus pattern (12 bp):
GAGAGAGAGAGG
Found at i:47607264 original size:26 final size:25
Alignment explanation
Indices: 47606681--47607255 Score: 106
Period size: 26 Copynumber: 23.4 Consensus size: 25
47606671 AAATATTGGA
* *
47606681 GAGAGAGAGAGAGGG-G-G-GGAGG
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* * *
47606703 GGGAGAGAGAGAAGGAGAGA-AAGA
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* *
47606727 GGGAGAGAGAG-GGGAAGAGAGAGAGA
1 GAGAGAGAGAGAGGG-AGAGAGA-AGC
* * *
47606753 AAGAGGGGGAGAGGGAGAGAG--G-
1 GAGAGAGAGAGAGGGAGAGAGAAGC
*
47606775 GAGAGAG-G-G-GGGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGAGA-AGC
* * *
47606798 GGGGGAGAGAGAGGGAG-G-G-AGG
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* * *
47606820 GAGGGTGAGAGAGGGAGAGAGTAAGA
1 GAGAGAGAGAGAGGGAGAGAG-AAGC
*
47606846 GAGAGAGGGAGAGAGGGAGAAAGAGAAAGA
1 GAGAGA--GAGAGAGGGAG--AGAG-AAGC
** * *
47606876 GAAAGAGAGAGAGAATGAGAGAGTGAGG
1 G--AGAGAGAGAGAGGGAGAGAG-AAGC
* * * *
47606904 GAGAGAGAGAGAGAGAAAG-GGAGG
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* * *
47606928 GAGGGATAGATAGGGAGAGAG-AG-
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* * *
47606951 G-GAAAGGGAGAGGGAGAGAGAGAGA
1 GAGAGAGAGAGAGGGAGAGAGA-AGC
* * * *
47606976 GGGGGAGAGAAAGGGAGGGAGGGAGAGAC
1 GAGAGAGAGAGAGGGA--GAGAGA-AG-C
47607005 G-GAG-GAGAGAGGGAGAGAG-AG-
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* * * * *
47607026 AAG-GAGGGAGGGGGAGAGGGAGAGG
1 GAGAGAGAGAGAGGGAGAGAGA-AGC
* * *
47607051 GAGAGAAAGAGAGAGAGAGAGAGAGG
1 GAGAGAGAGAGAGGGAGAGAGA-AGC
* * *
47607077 GAGAGGGAGGGAGGGAG-G-G-AGG
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* * *
47607099 GAGAGAGGGAGTGGGAGAGGGAGAGAGG
1 GAGAGAGAGAGAGGGAGA--GAGA-AGC
* * *
47607127 GAGAGGGAG-GAAGGGAGGGAGGA-C
1 GAGAGAGAGAG-AGGGAGAGAGAAGC
*
47607151 G-G-GAGAGGGAGGGAGAGAG--G-
1 GAGAGAGAGAGAGGGAGAGAGAAGC
* *
47607171 GAGAGAGAGCGA--GAGAGAGAATGA
1 GAGAGAGAGAGAGGGAGAGAGAA-GC
* * * *
47607195 GGGAGAGAGGGAGGGAGAAAGAGAGA
1 GAGAGAGAGAGAGGGAGAGAGA-AGC
* *
47607221 GGGAGAGAGAGTGGGAGAGAG-AGC
1 GAGAGAGAGAGAGGGAGAGAGAAGC
*
47607245 GAGGGAGAGAG
1 GAGAGAGAGAG
47607256 GAAGCGAGAT
Statistics
Matches: 414, Mismatches: 83, Indels: 110
0.68 0.14 0.18
Matches are distributed among these distances:
19 9 0.02
20 9 0.02
21 3 0.01
22 99 0.24
23 16 0.04
24 69 0.17
25 15 0.04
26 113 0.27
27 14 0.03
28 43 0.10
29 1 0.00
30 18 0.04
32 5 0.01
ACGTcount: A:0.39, C:0.01, G:0.59, T:0.02
Consensus pattern (25 bp):
GAGAGAGAGAGAGGGAGAGAGAAGC
Found at i:47608871 original size:49 final size:50
Alignment explanation
Indices: 47608791--47609036 Score: 316
Period size: 49 Copynumber: 4.9 Consensus size: 50
47608781 AGCTATTGTG
*
47608791 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
47608841 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * * **
47608891 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* **
47608941 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * *
47608991 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
47609037 GCTTCGGCTA
Statistics
Matches: 167, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
49 82 0.49
50 47 0.28
51 38 0.23
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:47608928 original size:28 final size:28
Alignment explanation
Indices: 47608896--47608979 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
47608886 AACTTCGATC
47608896 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
47608924 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
47608946 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
47608974 ACGTGT
1 ACGTGT
47608980 ACTGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:47610328 original size:6 final size:6
Alignment explanation
Indices: 47610308--47610368 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
47610298 GAGGCGTTAA
* *
47610308 AGGGAG AGGGA- AAGGAG AAGGAG AGGGAG AGGGAG AGGGAG A--GAG
1 AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG AGGGAG
* *
47610353 AGGGGG AAGGAG AGGG
1 AGGGAG AGGGAG AGGG
47610369 GGAAAAAGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 38 0.83
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (6 bp):
AGGGAG
Found at i:47610355 original size:16 final size:16
Alignment explanation
Indices: 47610321--47610388 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
47610311 GAGAGGGAAA
47610321 GGAGAAGGAGAGGGAGAG
1 GGAGAAGGAGA--GAGAG
*
47610339 GGAGAGGGAGAGAGAG
1 GGAGAAGGAGAGAGAG
*
47610355 GGGGAAGGAGAG-G-G
1 GGAGAAGGAGAGAGAG
* *
47610369 GGAAAAAGAGAG-GAG
1 GGAGAAGGAGAGAGAG
47610384 GGAGA
1 GGAGA
47610389 GAGAGTGGGA
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
14 11 0.26
15 6 0.14
16 15 0.36
18 10 0.24
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (16 bp):
GGAGAAGGAGAGAGAG
Found at i:47610400 original size:12 final size:12
Alignment explanation
Indices: 47610328--47610400 Score: 58
Period size: 12 Copynumber: 5.8 Consensus size: 12
47610318 AAAGGAGAAG
*
47610328 GAGAGGGAGAGG
1 GAGAGGGAGAGA
47610340 GAGAGGGAGAGA
1 GAGAGGGAGAGA
*
47610352 GAGGGGGA-AGGA
1 GAGAGGGAGA-GA
* *
47610364 GAGGGGGAAAAAGA
1 GAGAGGG--AGAGA
47610378 GAGGAGGGAGAGA
1 GA-GAGGGAGAGA
*
47610391 GAGTGGGAGA
1 GAGAGGGAGA
47610401 AGGACGGTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.02
12 34 0.67
13 6 0.12
14 5 0.10
15 5 0.10
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.01
Consensus pattern (12 bp):
GAGAGGGAGAGA
Found at i:47612341 original size:40 final size:39
Alignment explanation
Indices: 47612275--47612425 Score: 153
Period size: 40 Copynumber: 3.8 Consensus size: 39
47612265 AAATTGAATG
* * *
47612275 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
* * ***
47612314 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GGTAATT
*
47612354 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCG-GTAATT
* *
47612394 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
47612426 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
39 16 0.17
40 74 0.80
41 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGGTAATT
Found at i:47612439 original size:40 final size:39
Alignment explanation
Indices: 47612312--47612441 Score: 161
Period size: 40 Copynumber: 3.3 Consensus size: 39
47612302 ATGCTGGAAA
* *
47612312 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCAAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-TGG
* * * **
47612352 CTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATGG
*
47612392 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGG
47612432 TTATATCCGG
1 TTATATCCGG
47612442 TTTTGTTCCG
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
39 1 0.01
40 72 0.97
41 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGG
Found at i:47614404 original size:40 final size:40
Alignment explanation
Indices: 47614302--47614485 Score: 172
Period size: 40 Copynumber: 4.6 Consensus size: 40
47614292 AAATTGAATG
* * * * * *
47614302 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
47614342 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
47614382 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
47614422 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
47614462 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
47614486 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
39 3 0.03
40 114 0.96
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:47614510 original size:80 final size:80
Alignment explanation
Indices: 47614342--47614530 Score: 184
Period size: 80 Copynumber: 2.4 Consensus size: 80
47614332 GCTGGAAATT
* * *
47614342 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTATATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
***
47614407 TTCGTGCAAGTTGTT
66 TTCGTGCAAGTTACC
* * * * *
47614422 A-AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGG
1 ATAA-CCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCT-ATATCCGGGCTAAGACCCGAAGG
* * **
47614485 CCTTGGTGCGGGTTACC
64 CATTCGTGCAAGTTACC
* * *
47614502 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
47614531 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
79 3 0.03
80 82 0.94
81 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.29, T:0.23
Consensus pattern (80 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATAGCTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTTACC
Found at i:47622480 original size:40 final size:39
Alignment explanation
Indices: 47622378--47622559 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 39
47622368 AAATTGAATG
* * * * * *
47622378 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAG-TAGT
* *
47622418 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAG-T
* *
47622458 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGT
* * * *
47622497 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
* * *
47622535 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
47622560 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
38 32 0.27
39 7 0.06
40 80 0.67
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGT
Found at i:47627890 original size:22 final size:23
Alignment explanation
Indices: 47627850--47627901 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
47627840 TGGACAAGCC
47627850 ACCACATAATTACCAATAAA-TG
1 ACCACATAATTACCAATAAACTG
*
47627872 ACCACATAATT-GCATATAAACTG
1 ACCACATAATTACCA-ATAAACTG
47627895 -CCACATA
1 ACCACATA
47627902 TCTTCCTCCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 23 0.85
23 2 0.07
ACGTcount: A:0.46, C:0.25, G:0.06, T:0.23
Consensus pattern (23 bp):
ACCACATAATTACCAATAAACTG
Found at i:47628172 original size:18 final size:19
Alignment explanation
Indices: 47628143--47628178 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
47628133 TTGCACAAGC
*
47628143 ATCACAATCACATAATATT
1 ATCACAATCACACAATATT
47628162 ATCAC-ATCACACAATAT
1 ATCACAATCACACAATAT
47628179 ACTTTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (19 bp):
ATCACAATCACACAATATT
Found at i:47631521 original size:24 final size:24
Alignment explanation
Indices: 47631494--47631539 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
47631484 ATGAATAATC
*
47631494 AGATTTAGATGTGGATACAGACGT
1 AGATTTAGATGTCGATACAGACGT
*
47631518 AGATTTAGATGTCGATGCAGAC
1 AGATTTAGATGTCGATACAGAC
47631540 ACAGATTCCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (24 bp):
AGATTTAGATGTCGATACAGACGT
Found at i:47631545 original size:24 final size:24
Alignment explanation
Indices: 47631493--47631546 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
47631483 AATGAATAAT
* *
47631493 CAGATTTAGATGTGGATACAGACG
1 CAGATTTAGATGTCGATACAGACA
* *
47631517 TAGATTTAGATGTCGATGCAGACA
1 CAGATTTAGATGTCGATACAGACA
47631541 CAGATT
1 CAGATT
47631547 CCGATACAGA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (24 bp):
CAGATTTAGATGTCGATACAGACA
Found at i:47643088 original size:23 final size:23
Alignment explanation
Indices: 47643038--47643100 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
47643028 TTTTATGTGC
47643038 GCAAGTGATAGTGGCATTACAAT
1 GCAAGTGATAGTGGCATTACAAT
* *
47643061 ACAAGTGATAGTGGCACTT-CACT
1 GCAAGTGATAGTGGCA-TTACAAT
* *
47643084 GCAAGTGACAGTAGCAT
1 GCAAGTGATAGTGGCAT
47643101 ACTTGTGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
22 1 0.03
23 31 0.91
24 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
GCAAGTGATAGTGGCATTACAAT
Found at i:47643630 original size:24 final size:24
Alignment explanation
Indices: 47643609--47643660 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
47643599 AATCAATGTC
*
47643609 AAATATATTATGCTAACAAATGCT
1 AAATATATTATACTAACAAATGCT
* *
47643633 AAATATATTATACTAATAAATACT
1 AAATATATTATACTAACAAATGCT
47643657 AAAT
1 AAAT
47643661 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATATATTATACTAACAAATGCT
Found at i:47643793 original size:29 final size:29
Alignment explanation
Indices: 47643751--47643809 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
47643741 TCCACCTTGA
* * *
47643751 CATGAATTCTCAATGATCAAGTTCTTCAC
1 CATGAACTCTCAATGAGCAAGTTCTCCAC
47643780 CATGAACTCTCAATGAGCAAGTTCTCCAC
1 CATGAACTCTCAATGAGCAAGTTCTCCAC
47643809 C
1 C
47643810 TATTCCATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (29 bp):
CATGAACTCTCAATGAGCAAGTTCTCCAC
Found at i:47651524 original size:24 final size:24
Alignment explanation
Indices: 47651492--47651538 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
47651482 ATTAATGTCA
47651492 AATATATTATGCGAATAAATACTG
1 AATATATTATGCGAATAAATACTG
*
47651516 AATATATTATGCTAATAAATACT
1 AATATATTATGCGAATAAATACT
47651539 AAATCTTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (24 bp):
AATATATTATGCGAATAAATACTG
Found at i:47652288 original size:17 final size:17
Alignment explanation
Indices: 47652266--47652299 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
47652256 TTCACTTAGG
47652266 GTAAAGGGTGCTACAGT
1 GTAAAGGGTGCTACAGT
47652283 GTAAAGGGTGCTACAGT
1 GTAAAGGGTGCTACAGT
47652300 TTATCTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (17 bp):
GTAAAGGGTGCTACAGT
Found at i:47652664 original size:41 final size:40
Alignment explanation
Indices: 47652619--47652707 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
47652609 AAAAATATCA
* * * *
47652619 ATATTAAAAAATACTAC-CATAAATATAATAAGTGTTTTATT
1 ATATTAAAAAA-AC-ACAAATAAATATAAGAAATATTTTATT
*
47652660 ATATTAAAAAAGCACAAATAAATATAAGAAATATTTTATT
1 ATATTAAAAAAACACAAATAAATATAAGAAATATTTTATT
47652700 ATATTAAA
1 ATATTAAA
47652708 TATAATATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
39 2 0.05
40 29 0.69
41 11 0.26
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (40 bp):
ATATTAAAAAAACACAAATAAATATAAGAAATATTTTATT
Found at i:47669283 original size:28 final size:27
Alignment explanation
Indices: 47669220--47669289 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
47669210 ATAGTGAGTC
*
47669220 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47669247 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47669275 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47669290 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47677174 original size:28 final size:27
Alignment explanation
Indices: 47677111--47677180 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
47677101 ATAGTGAGTC
47677111 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
47677138 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
47677166 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47677181 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:47681147 original size:40 final size:39
Alignment explanation
Indices: 47681103--47681295 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
47681093 GTTCAAAACA
* * ** * *
47681103 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
47681143 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
47681183 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47681222 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47681261 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
47681296 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:47681214 original size:39 final size:39
Alignment explanation
Indices: 47681133--47681295 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
47681123 TATGGTAACC
* *
47681133 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47681173 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47681212 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47681251 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47681290 CGCACA
1 CGCACA
47681296 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47689122 original size:40 final size:39
Alignment explanation
Indices: 47689078--47689270 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
47689068 GTTCAAAACA
* * ** * *
47689078 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
47689118 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
47689158 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47689197 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
47689236 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
47689271 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:47689189 original size:39 final size:39
Alignment explanation
Indices: 47689108--47689270 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
47689098 TATGGTAACC
* *
47689108 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47689148 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47689187 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47689226 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47689265 CGCACA
1 CGCACA
47689271 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47697171 original size:38 final size:39
Alignment explanation
Indices: 47697064--47697225 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
47697054 TATGGTAACC
** *
47697064 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
47697104 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47697143 CGCACAATTGCCTTC-GGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
47697181 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
47697220 CGCACA
1 CGCACA
47697226 TTCATTCACA
Statistics
Matches: 113, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
38 35 0.31
39 62 0.55
40 16 0.14
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:47697188 original size:77 final size:79
Alignment explanation
Indices: 47697064--47697214 Score: 252
Period size: 77 Copynumber: 1.9 Consensus size: 79
47697054 TATGGTAACC
47697064 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
47697129 CGGATATCATAGCT
66 CGGATATCATAGCT
** * *
47697143 CGCACAATTGCCTTC-GG-CTTAGCCCGGATATCACAATTCGCACAATTGCCTTCGGGCTTAGCC
1 CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
47697206 CGGATATCA
66 CGGATATCA
47697215 CAATTCGCAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
77 53 0.78
78 2 0.03
79 13 0.19
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (79 bp):
CGCACAAACGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCTTAGCC
CGGATATCATAGCT
Found at i:47707472 original size:16 final size:17
Alignment explanation
Indices: 47707440--47707473 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
47707430 TTTATTATTA
47707440 AATTTATAAAACATAAT
1 AATTTATAAAACATAAT
*
47707457 AATTTA-AAATCATAAT
1 AATTTATAAAACATAAT
47707473 A
1 A
47707474 TGTTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AATTTATAAAACATAAT
Found at i:47709886 original size:36 final size:38
Alignment explanation
Indices: 47709798--47709886 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 38
47709788 GAATTAACCT
*
47709798 TACAATCTCCCTTAAGATTTCTACCCAACATCTTAAGAC
1 TACAA-CTCCCTTAAGATTTCTACCCAACACCTTAAGAC
*
47709837 TACAACTCCCTTAAGGA-TTCTACCCAA-ACCTTATGA-
1 TACAACTCCCTTAA-GATTTCTACCCAACACCTTAAGAC
47709873 TACAAC-CCTCTTAA
1 TACAACTCC-CTTAA
47709887 AGAGATACAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
35 2 0.04
36 11 0.24
37 7 0.15
38 19 0.41
39 7 0.15
ACGTcount: A:0.34, C:0.31, G:0.06, T:0.29
Consensus pattern (38 bp):
TACAACTCCCTTAAGATTTCTACCCAACACCTTAAGAC
Found at i:47714701 original size:23 final size:23
Alignment explanation
Indices: 47714675--47714769 Score: 68
Period size: 23 Copynumber: 4.2 Consensus size: 23
47714665 TGGCGTATTT
*
47714675 TGTTTAGCTTTTGTGGCACATTC
1 TGTTTAGCTTGTGTGGCACATTC
* * *
47714698 TGTTTTGCTTGTGTGGCATATTT
1 TGTTTAGCTTGTGTGGCACATTC
* **
47714721 TGTTT-GCCTTGTATGGCGTATT-
1 TGTTTAG-CTTGTGTGGCACATTC
* * * *
47714743 TTTTTGGCCTATGTGGCACATTC
1 TGTTTAGCTTGTGTGGCACATTC
47714766 TGTT
1 TGTT
47714770 CAGCCTTTGT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
22 15 0.27
23 41 0.73
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.51
Consensus pattern (23 bp):
TGTTTAGCTTGTGTGGCACATTC
Found at i:47714759 original size:22 final size:21
Alignment explanation
Indices: 47714656--47714769 Score: 59
Period size: 23 Copynumber: 5.0 Consensus size: 21
47714646 ATTTTCAGTA
* *
47714656 TTGCCTTTATGGCGTATTTTGT
1 TTGCC-TTGTGGCATATTTTGT
* * *
47714678 TTAGCTTTTGTGGCACATTCTGTT
1 TT-GC-CTTGTGGCATATTTTG-T
*
47714702 TTGCTTGTGTGGCATATTTTGT
1 TTGCCT-TGTGGCATATTTTGT
*
47714724 TTGCCTTGTATGGCGTATTTT-T
1 TTGCCTTG--TGGCATATTTTGT
* *
47714746 TTGGCCTATGTGGCACATTCTGT
1 TT-GCCT-TGTGGCATATTTTGT
47714769 T
1 T
47714770 CAGCCTTTGT
Statistics
Matches: 71, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
21 2 0.03
22 21 0.30
23 43 0.61
24 5 0.07
ACGTcount: A:0.11, C:0.15, G:0.24, T:0.51
Consensus pattern (21 bp):
TTGCCTTGTGGCATATTTTGT
Found at i:47714788 original size:68 final size:68
Alignment explanation
Indices: 47714656--47714801 Score: 179
Period size: 68 Copynumber: 2.1 Consensus size: 68
47714646 ATTTTCAGTA
* * ** *
47714656 TTGCCTTTATGGCGTATTTTGTTTAGCTTTTGTGGCACATTCTGTTTTGCTTGTGTGGCATATTT
1 TTGCCTTTATGGCGTATTTTGTTTAGCCTATGTGGCACATTCTGTTCAGCTTGTGTGACATATTT
*
47714721 TGT
66 TAT
* *
47714724 TTGCCTTGTATGGCGTATTTT-TTTGGCCTATGTGGCACATTCTGTTCAGCCTT-TGTGACGTAT
1 TTGCCTT-TATGGCGTATTTTGTTTAGCCTATGTGGCACATTCTGTTCAG-CTTGTGTGACATAT
47714787 TTTAT
64 TTTAT
47714792 TTGGCCTTTA
1 TT-GCCTTTA
47714802 GGTATTCGGG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
68 46 0.69
69 21 0.31
ACGTcount: A:0.12, C:0.16, G:0.23, T:0.50
Consensus pattern (68 bp):
TTGCCTTTATGGCGTATTTTGTTTAGCCTATGTGGCACATTCTGTTCAGCTTGTGTGACATATTT
TAT
Found at i:47716208 original size:20 final size:18
Alignment explanation
Indices: 47716163--47716209 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
47716153 TTTAAAATAG
*
47716163 TTTTAACTTAATTGAAAA
1 TTTTAACTCAATTGAAAA
47716181 TGTTTAACTCAATTGAAACCA
1 T-TTTAACTCAATTGAAA--A
47716202 TTTTAACT
1 TTTTAACT
47716210 TTATTTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 15 0.60
20 7 0.28
21 2 0.08
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (18 bp):
TTTTAACTCAATTGAAAA
Found at i:47718824 original size:28 final size:28
Alignment explanation
Indices: 47718770--47718824 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
47718760 CAGTGCTGTC
* *
47718770 TGGGCCTTAGCCCTAAACGGAAACAGTG
1 TGGGCCTAAGCCCTAAACAGAAACAGTG
*
47718798 TGGGCCTAAGCCC-AATACAGAATCAGT
1 TGGGCCTAAGCCCTAA-ACAGAAACAGT
47718825 ACAGTGCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.09
28 21 0.91
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.18
Consensus pattern (28 bp):
TGGGCCTAAGCCCTAAACAGAAACAGTG
Found at i:47718977 original size:27 final size:27
Alignment explanation
Indices: 47718936--47719003 Score: 93
Period size: 27 Copynumber: 2.5 Consensus size: 27
47718926 AATATCGCAA
*
47718936 CAAAGCTACCAGTAACAGT-ATATGTGG
1 CAAAGCCACCAGTAACAGTAAT-TGTGG
*
47718963 CAAAGCCACCGGTAACAGTAATTGTGG
1 CAAAGCCACCAGTAACAGTAATTGTGG
*
47718990 CAGAGCCACCAGTA
1 CAAAGCCACCAGTA
47719004 CAATACTACC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
27 34 0.94
28 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.18
Consensus pattern (27 bp):
CAAAGCCACCAGTAACAGTAATTGTGG
Found at i:47728653 original size:13 final size:13
Alignment explanation
Indices: 47728635--47728660 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47728625 TAACACATAG
47728635 TTATGAATAATAA
1 TTATGAATAATAA
47728648 TTATGAATAATAA
1 TTATGAATAATAA
47728661 CAACTTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TTATGAATAATAA
Found at i:47730134 original size:27 final size:27
Alignment explanation
Indices: 47730104--47730155 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
47730094 AAAGCTGGCA
47730104 GTAACAGT-ATATGTGGCAAAGCCACCG
1 GTAACAGTAAT-TGTGGCAAAGCCACCG
*
47730131 GTAACAGTAATTGTGGCAGAGCCAC
1 GTAACAGTAATTGTGGCAAAGCCAC
47730156 TAGTACAGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.33, C:0.21, G:0.27, T:0.19
Consensus pattern (27 bp):
GTAACAGTAATTGTGGCAAAGCCACCG
Found at i:47736845 original size:18 final size:20
Alignment explanation
Indices: 47736809--47736855 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
47736799 AGTTGTAAGT
47736809 ATATATATGTGAATAATTTG
1 ATATATATGTGAATAATTTG
* *
47736829 ATAT-TATGTGATTATTTTG
1 ATATATATGTGAATAATTTG
47736848 ATGATATA
1 AT-ATATA
47736856 ACCTGTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
ATATATATGTGAATAATTTG
Done.