Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 35 of 250
Found at i:10445636 original size:93 final size:93
Alignment explanation
Indices: 10445526--10445696 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10445516 GCCCCTAAGT
* * *
10445526 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
10445591 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
10445619 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
10445684 CGAGTTCGGATGC
66 CGAGTTCGGATGC
10445697 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:10445693 original size:46 final size:46
Alignment explanation
Indices: 10445521--10445693 Score: 199
Period size: 46 Copynumber: 3.7 Consensus size: 46
10445511 AACCCGCCCC
* * * *
10445521 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
10445567 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
10445615 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
*
10445660 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
10445694 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 59 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:10453040 original size:43 final size:43
Alignment explanation
Indices: 10452985--10453096 Score: 158
Period size: 43 Copynumber: 2.6 Consensus size: 43
10452975 AATGTACCTA
* *
10452985 ACGTGGTCTTACATGTA-ATCACATATCGATGCC-ACTATCCCAG
1 ACGTGGTCTTACACG-AGAACACATATCGATGCCAACT-TCCCAG
10453028 ACAG-GGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
1 AC-GTGGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
10453071 ACGTGGTCTTACACGAGAACACATAT
1 ACGTGGTCTTACACGAGAACACATAT
10453097 TGATAATCCT
Statistics
Matches: 63, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
42 2 0.03
43 57 0.90
44 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
ACGTGGTCTTACACGAGAACACATATCGATGCCAACTTCCCAG
Found at i:10457738 original size:85 final size:86
Alignment explanation
Indices: 10457636--10457889 Score: 255
Period size: 87 Copynumber: 3.0 Consensus size: 86
10457626 GTTTTTTAGA
* * * * * *
10457636 AAAAAAG-GCCGCTAAAGACCACGATCTTTAGCGGC-CTTTTTTATAACAGCGTCGCTGA-AGAC
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTTA-AAAAACGCCGCT-ATAGAC
10457698 CAGGACCTTTAGCGGCGC-TCTT
64 CAGGACCTTTAGCGGCGCTTCTT
* * * *
10457720 AAAAAAGCGCCGCCAAAGACCAGGACCTATAGCAGCGCTTTTTTAAAAAACGCCGCTATAGACCT
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTTAAAAAACGCCGCTATAGACCA
* * *
10457785 GTACTTTTAGCGGCGCTTTTTT
66 GGACCTTTAGCGGCGC-TTCTT
* * * * * * *
10457807 ACAAAAGCGCCGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGTAAAAAAAGCCGCTATAGACCT
1 AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTTAAAAAACGCCGCTATAGACCA
* *
10457872 GTACTTTTAGCGGCGCTT
66 GGACCTTTAGCGGCGCTT
10457890 TTGCAAAAAA
Statistics
Matches: 144, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
84 8 0.06
85 51 0.35
86 10 0.07
87 75 0.52
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (86 bp):
AAAAAAGCGCCGCTAAAGACCAAGACCTTTAGCAGCGCTTTTTTAAAAAACGCCGCTATAGACCA
GGACCTTTAGCGGCGCTTCTT
Found at i:10457783 original size:43 final size:43
Alignment explanation
Indices: 10457636--10457891 Score: 223
Period size: 43 Copynumber: 6.0 Consensus size: 43
10457626 GTTTTTTAGA
* * * *
10457636 AAAAAAGGCCGCTAAAGACCACGATCTTTAGCGGC-CTTTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
10457678 ATAACAGCGTCGCTGA-AGACCAGGACCTTTAGCGGCGC--TCTT
1 A-AAAAACGCCGCT-ATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
10457720 AAAAAAGCGCCGCCAAAGACCAGGACCTATAGCAGCGCTTTTTT
1 AAAAAA-CGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * *
10457764 AAAAAACGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * * * *
10457807 ACAAAAGCGCCGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGT
1 A-AAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
* * * *
10457851 AAAAAAAGCCGCTATAGACCTGTACTTTTAGCGGCGCTTTT
1 AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTT
10457892 GCAAAAAAAT
Statistics
Matches: 167, Mismatches: 39, Indels: 15
0.76 0.18 0.07
Matches are distributed among these distances:
41 4 0.02
42 30 0.18
43 88 0.53
44 45 0.27
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (43 bp):
AAAAAACGCCGCTATAGACCAGGACCTTTAGCGGCGCTTTTTT
Found at i:10457828 original size:87 final size:87
Alignment explanation
Indices: 10457705--10457891 Score: 270
Period size: 87 Copynumber: 2.2 Consensus size: 87
10457695 GACCAGGACC
* * * *
10457705 TTTAGCGGCGC--TCTTAAAAAAGCGCCGCCAAAGACCAGGACCTATAGCAGCGCTTTTTTAAAA
1 TTTAGCGGCGCTTTTTTAAAAAAGCGCCGCCAAAGACCAAGACCTATAGCAGCGCTTCTGTAAAA
*
10457768 AACGCCGCTATAGACCTGTACT
66 AAAGCCGCTATAGACCTGTACT
* * * * *
10457790 TTTAGCGGCGCTTTTTTACAAAAGCGCCGCTATAGACCAAGAGCTTTAGCAGCGCTTCTGTAAAA
1 TTTAGCGGCGCTTTTTTAAAAAAGCGCCGCCAAAGACCAAGACCTATAGCAGCGCTTCTGTAAAA
10457855 AAAGCCGCTATAGACCTGTACT
66 AAAGCCGCTATAGACCTGTACT
10457877 TTTAGCGGCGCTTTT
1 TTTAGCGGCGCTTTT
10457892 GCAAAAAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
85 11 0.12
87 79 0.88
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (87 bp):
TTTAGCGGCGCTTTTTTAAAAAAGCGCCGCCAAAGACCAAGACCTATAGCAGCGCTTCTGTAAAA
AAAGCCGCTATAGACCTGTACT
Found at i:10457898 original size:43 final size:43
Alignment explanation
Indices: 10457749--10457908 Score: 180
Period size: 43 Copynumber: 3.7 Consensus size: 43
10457739 CCAGGACCTA
* *
10457749 TAGCAGCGCTTTTTTAAAAAACGCCGCTATAGACCTGTACTTT
1 TAGCAGCGCTTTTGTAAAAAAAGCCGCTATAGACCTGTACTTT
* * ** *
10457792 TAGCGGCGCTTTTTTACAAAAGCGCCGCTATAGACCAAG-AGC-TT
1 TAGCAGCGCTTTTGTA-AAAAAAGCCGCTATAGACC-TGTA-CTTT
*
10457836 TAGCAGCGCTTCTGTAAAAAAAGCCGCTATAGACCTGTACTTT
1 TAGCAGCGCTTTTGTAAAAAAAGCCGCTATAGACCTGTACTTT
* *
10457879 TAGCGGCGCTTTTGCAAAAAAATGCCGCTA
1 TAGCAGCGCTTTTGTAAAAAAA-GCCGCTA
10457909 ATTTGCCCAG
Statistics
Matches: 99, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.02
43 54 0.55
44 41 0.41
45 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (43 bp):
TAGCAGCGCTTTTGTAAAAAAAGCCGCTATAGACCTGTACTTT
Found at i:10458839 original size:18 final size:18
Alignment explanation
Indices: 10458807--10458844 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
10458797 TACAATATAG
10458807 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
10458826 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
10458843 TA
1 TA
10458845 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:10474155 original size:15 final size:15
Alignment explanation
Indices: 10474135--10474165 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10474125 CAAATAATAA
*
10474135 TATATATATTTATCT
1 TATATACATTTATCT
10474150 TATATACATTTATCT
1 TATATACATTTATCT
10474165 T
1 T
10474166 CTAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TATATACATTTATCT
Found at i:10474228 original size:22 final size:22
Alignment explanation
Indices: 10474198--10474239 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10474188 ACTCTAAATT
10474198 TAAAACCCTAAACCTGAGACTC
1 TAAAACCCTAAACCTGAGACTC
* *
10474220 TAAACCCCTAAACCTTAGAC
1 TAAAACCCTAAACCTGAGAC
10474240 CACAAACACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.19
Consensus pattern (22 bp):
TAAAACCCTAAACCTGAGACTC
Found at i:10474569 original size:25 final size:25
Alignment explanation
Indices: 10474534--10474585 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
10474524 TTTCTAGCTA
10474534 ATAGTTAAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
*
10474559 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTAAACAAATGCTAATTCCAC
10474584 AT
1 AT
10474586 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (25 bp):
ATAGTTAAACAAATGCTAATTCCAC
Found at i:10474785 original size:36 final size:38
Alignment explanation
Indices: 10474744--10474819 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
10474734 CTTCAAATAC
* * *
10474744 TAGTTAACTCGTAAACC-G-TAAATCTTAAACCATATA
1 TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
10474780 TAGTTAACTCATAAACCTGCTTAAACCCTAAACCATATA
1 TAGTTAACTCATAAACCTGC-TAAACCCTAAACCATATA
10474819 T
1 T
10474820 CTTAAACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 16 0.47
37 1 0.03
39 17 0.50
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (38 bp):
TAGTTAACTCATAAACCTGCTAAACCCTAAACCATATA
Found at i:10475223 original size:41 final size:41
Alignment explanation
Indices: 10474997--10475272 Score: 317
Period size: 41 Copynumber: 6.8 Consensus size: 41
10474987 GGTTTATGAC
* *
10474997 TTTTAGCGGTGTTTTACCAAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
10475038 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATCTAGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
*** *
10475079 TTTTAGCATTGTTTTACCCAAAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* *
10475120 TTTTAGCAGCGTTTTACCTAAAGCCCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
** *
10475161 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATTCTCT-AT
1 TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
* ** *
10475201 TTTTAGCGGCGTTTTTTA-CTAAAACGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCTAAAGCGCCGCTAATGATCTGGT
* * *
10475242 TTTTAGTGGCATTTT-CCTTAAGACGCCGCTA
1 TTTTAGCGGCGTTTTACCTAAAG-CGCCGCTA
10475273 TTGCTCTGTA
Statistics
Matches: 205, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
39 8 0.04
40 19 0.09
41 173 0.84
42 5 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCTAAAGCGCCGCTAATGATCTGGT
Found at i:10498169 original size:20 final size:20
Alignment explanation
Indices: 10498133--10498171 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10498123 TTCACGTTGA
*
10498133 CCCATTTTCTCTATTTTTTG
1 CCCATTTTCGCTATTTTTTG
10498153 CCCATTTCTCGCT-TTTTTT
1 CCCATTT-TCGCTATTTTTT
10498172 ACACTCCTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.08, C:0.28, G:0.05, T:0.59
Consensus pattern (20 bp):
CCCATTTTCGCTATTTTTTG
Found at i:10508690 original size:31 final size:32
Alignment explanation
Indices: 10508647--10508708 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 32
10508637 ACGAGTCAAT
*
10508647 TCGAAACCAATTCATTCAATAAAATT-TTAAC
1 TCGAAACAAATTCATTCAATAAAATTATTAAC
10508678 TCGAAACAAATTCATTCAATAAAATTATTAA
1 TCGAAACAAATTCATTCAATAAAATTATTAA
10508709 AATAACTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.48, C:0.16, G:0.03, T:0.32
Consensus pattern (32 bp):
TCGAAACAAATTCATTCAATAAAATTATTAAC
Found at i:10509581 original size:14 final size:16
Alignment explanation
Indices: 10509549--10509583 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10509539 AGTACTTCAA
*
10509549 TTTTTAATACTTAATT
1 TTTTTAACACTTAATT
10509565 TTTTTAACACTT-ATT
1 TTTTTAACACTTAATT
10509580 TTTT
1 TTTT
10509584 CAGTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTTAACACTTAATT
Found at i:10510377 original size:21 final size:22
Alignment explanation
Indices: 10510353--10510398 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
10510343 TCATGATGCC
10510353 AAGTTATGATTA-TTTGATAAT
1 AAGTTATGATTATTTTGATAAT
* *
10510374 AAGTTATTATTATTTTGATATT
1 AAGTTATGATTATTTTGATAAT
10510396 AAG
1 AAG
10510399 AAATGTTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (22 bp):
AAGTTATGATTATTTTGATAAT
Found at i:10519620 original size:40 final size:40
Alignment explanation
Indices: 10519519--10519701 Score: 215
Period size: 40 Copynumber: 4.5 Consensus size: 40
10519509 AAATTCTCGT
* *
10519519 ACACTAAGTGCCAATACATAGCCGAAGCTATTTC-AATCTCGC
1 ACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAA--TCAC
* * * *
10519561 ACACTAAGTGACATTCATAGCCGAATCTATCTCGACTCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* ** *
10519601 GCACTAAGTGCCATACATAGTTGAAGCTATCTCGAATCGC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
*
10519641 ACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCAC
1 ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
* *
10519681 ACAATAAGTACCATACATAGC
1 ACACTAAGTGCCATACATAGC
10519702 TGAATTGTCG
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
40 89 0.75
41 18 0.15
42 12 0.10
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.23
Consensus pattern (40 bp):
ACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCAC
Found at i:10519660 original size:80 final size:80
Alignment explanation
Indices: 10519519--10519705 Score: 241
Period size: 80 Copynumber: 2.3 Consensus size: 80
10519509 AAATTCTCGT
* * *
10519519 ACACTAAGTGCCAATACATAGCCGAAGCTATTTCAATCTCGCACACTAAGTGACATTCATAGCCG
1 ACACTAAGTGCC-ATACATAGCTGAAGCTATCTCAA-CTCGCACACTAAGTGACATACATAGCCG
* *
10519584 AATCTATCTCGACTCAC
64 AAGCTATCTCGAATCAC
* * *
10519601 GCACTAAGTGCCATACATAGTTGAAGCTATCTCGAA-TCGCACACTAAGTGCCATACATAGCCGA
1 ACACTAAGTGCCATACATAGCTGAAGCTATCTC-AACTCGCACACTAAGTGACATACATAGCCGA
*
10519665 AGCTATCTTGAATCAC
65 AGCTATCTCGAATCAC
* *
10519681 ACAATAAGTACCATACATAGCTGAA
1 ACACTAAGTGCCATACATAGCTGAA
10519706 TTGTCGTCAA
Statistics
Matches: 91, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
80 60 0.66
81 18 0.20
82 13 0.14
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.24
Consensus pattern (80 bp):
ACACTAAGTGCCATACATAGCTGAAGCTATCTCAACTCGCACACTAAGTGACATACATAGCCGAA
GCTATCTCGAATCAC
Found at i:10526764 original size:40 final size:40
Alignment explanation
Indices: 10526592--10526779 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
10526582 CGAATTGTCG
* * *
10526592 CACACTAAGTGCCAATACATAGCTGAAGCTATTTC-AATCTTG
1 CACACTAAGTGCC-ATACATAGCCGAAGCTATCTCGAATC--A
** * *
10526634 CATTCTAAGTTCCATACATAGCCGAAGCTATCTCAAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
* * * *
10526674 CACACTAAGTTCCATACTTAGCCAAAGCTATCTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
*
10526714 CACACTAAGTGCCATACATAGCCGAAGCTATCTTGAATCA
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
* * *
10526754 CACACTAAGTGTCGTACATAGTCGAA
1 CACACTAAGTGCCATACATAGCCGAA
10526780 TTGTAGTAAA
Statistics
Matches: 125, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 92 0.74
41 19 0.15
42 14 0.11
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCGAATCA
Found at i:10539449 original size:18 final size:18
Alignment explanation
Indices: 10539426--10539525 Score: 112
Period size: 18 Copynumber: 5.6 Consensus size: 18
10539416 TAATAATTAG
* *
10539426 TTATTCAGTAACGGTCAT
1 TTATTCAGTAACAGTCAA
* *
10539444 TTATTCAATATCAGTCAA
1 TTATTCAGTAACAGTCAA
**
10539462 TTATTCAGTAGTAGTCAA
1 TTATTCAGTAACAGTCAA
10539480 TTATTCAGTAACAGTC-A
1 TTATTCAGTAACAGTCAA
* *
10539497 TTGATTCAATAACAGTCGA
1 TT-ATTCAGTAACAGTCAA
10539516 TTATTCAGTA
1 TTATTCAGTA
10539526 GCGATCAATT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
17 3 0.04
18 63 0.91
19 3 0.04
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:10539534 original size:54 final size:54
Alignment explanation
Indices: 10539426--10539535 Score: 159
Period size: 54 Copynumber: 2.0 Consensus size: 54
10539416 TAATAATTAG
* * * *
10539426 TTATTCAGTAACGGTCATTTATTCAATATCAGTCAATTATTCAGTAGTAGTCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGGAGTCAA
*
10539480 TTATTCAGTAACAGTCATTGATTCAATAACAGTCGATTATTCAGTAGCGA-TCAA
1 TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAG-GAGTCAA
10539534 TT
1 TT
10539536 TTTAGTACAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 49 0.98
55 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (54 bp):
TTATTCAGTAACAGTCATTGATTCAATAACAGTCAATTATTCAGTAGGAGTCAA
Found at i:10539770 original size:51 final size:53
Alignment explanation
Indices: 10539664--10539771 Score: 130
Period size: 51 Copynumber: 2.1 Consensus size: 53
10539654 CAATAATGGT
* * * * * *
10539664 AACAATAACAGTAGCAGTATGGTACACAGAGTACCTTATCGGAACGAATCTGG
1 AACAATAACAATAACAATAAGGTACACAGAGTACCTTATCGGAACAAATCCGG
* *
10539717 AACAATAACAATAACAATAAGGTACA-A-AGTACCTTTTTGGAACAAATCCGG
1 AACAATAACAATAACAATAAGGTACACAGAGTACCTTATCGGAACAAATCCGG
10539768 AACA
1 AACA
10539772 GTAATAGTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
51 24 0.51
52 1 0.02
53 22 0.47
ACGTcount: A:0.44, C:0.19, G:0.18, T:0.20
Consensus pattern (53 bp):
AACAATAACAATAACAATAAGGTACACAGAGTACCTTATCGGAACAAATCCGG
Found at i:10541099 original size:21 final size:22
Alignment explanation
Indices: 10541069--10541110 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
10541059 AATATAATTA
10541069 TTTAATTAATAAATATCTATTG
1 TTTAATTAATAAATATCTATTG
10541091 TTTAA-TAATAAATATCTATT
1 TTTAATTAATAAATATCTATT
10541111 AATAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (22 bp):
TTTAATTAATAAATATCTATTG
Found at i:10541122 original size:25 final size:22
Alignment explanation
Indices: 10541065--10541111 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
10541055 TTACAATATA
*
10541065 ATTATTTAATTAATAAATATCT
1 ATTATTTAAATAATAAATATCT
*
10541087 ATTGTTT-AATAATAAATATCT
1 ATTATTTAAATAATAAATATCT
10541108 ATTA
1 ATTA
10541112 ATAATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTATTTAAATAATAAATATCT
Found at i:10547896 original size:15 final size:15
Alignment explanation
Indices: 10547876--10547913 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
10547866 ATAAATAAAT
10547876 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
10547891 TGGGGCACACGGCCG
1 TGGGGCACACGGCCG
10547906 TGGGGCAC
1 TGGGGCAC
10547914 GCCCGTGTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.13, C:0.32, G:0.47, T:0.08
Consensus pattern (15 bp):
TGGGGCACACGGCCG
Found at i:10547919 original size:13 final size:14
Alignment explanation
Indices: 10547876--10547920 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
10547866 ATAAATAAAT
10547876 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
10547891 TGGGGCACACGGCCG
1 TGGGG-ACACGGCCG
*
10547906 TGGGG-CACGCCCG
1 TGGGGACACGGCCG
10547919 TG
1 TG
10547921 TGCCTTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 9 0.31
15 20 0.69
ACGTcount: A:0.11, C:0.33, G:0.47, T:0.09
Consensus pattern (14 bp):
TGGGGACACGGCCG
Found at i:10551457 original size:46 final size:46
Alignment explanation
Indices: 10551407--10551579 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
10551397 TGGTTGAGCA
10551407 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
10551453 TCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * *
10551498 CATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGCATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
10551546 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
10551580 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 59 0.57
47 27 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:10551563 original size:93 final size:93
Alignment explanation
Indices: 10551404--10551574 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
10551394 GGATGGTTGA
* * * *
10551404 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGCATGCGAACGCCCGAACTCGTTGAGT
*
10551469 TGAGTCTGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
10551497 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGCATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGCATGCGAACGCCCGAACTCGTTGAGT
10551562 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
10551575 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGCATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:10560274 original size:93 final size:93
Alignment explanation
Indices: 10560161--10560332 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
10560151 CCGCCATAAG
* *
10560161 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10560226 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
10560254 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
10560319 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
10560333 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:10560329 original size:46 final size:46
Alignment explanation
Indices: 10560155--10560329 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
10560145 TGTAACCCGC
* * * *
10560155 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
* *
10560201 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CTAGTT
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A-TT
*
10560246 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 -CA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
*
10560294 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
10560330 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 3 0.03
46 64 0.58
47 30 0.27
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
Found at i:10566049 original size:30 final size:30
Alignment explanation
Indices: 10566014--10566077 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 30
10566004 TATTTTTGTC
*
10566014 CACACGGACATGTGT-CTCAG-CAGTGTGCGA
1 CACACGGACATGT-TACACAGCCA-TGTGCGA
*
10566044 CACACGGTCATGTTACACAGCCATGTGCGA
1 CACACGGACATGTTACACAGCCATGTGCGA
10566074 CACA
1 CACA
10566078 TGGGCAAGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 1 0.03
30 27 0.90
31 2 0.07
ACGTcount: A:0.27, C:0.30, G:0.25, T:0.19
Consensus pattern (30 bp):
CACACGGACATGTTACACAGCCATGTGCGA
Found at i:10571338 original size:40 final size:40
Alignment explanation
Indices: 10571294--10571475 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 40
10571284 GCTACTCGTT
* * *
10571294 CAAATTCCTTCGGGACATAGCCCGGTTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
10571334 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* *
10571374 CCAATGCCTTCGGG-CTTAGCCCGG-AATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * * * *
10571413 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
*
10571454 CAAA-GCCTTTGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
10571476 AAACATCATT
Statistics
Matches: 119, Mismatches: 15, Indels: 16
0.79 0.10 0.11
Matches are distributed among these distances:
38 2 0.02
39 31 0.26
40 72 0.61
41 14 0.12
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:10571462 original size:79 final size:80
Alignment explanation
Indices: 10571300--10571475 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
10571290 CGTTCAAATT
* * * *
10571300 CCTTCGGGACATAGCCCGG-TTATAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* *
10571364 GTAACTCGCACCAATG
65 GTAACTAGCACCAAAG
** *
10571380 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATA
*
10571443 GTCACTTAGCA-CAAAG
65 GTAAC-TAGCACCAAAG
*
10571459 CCTTTGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
10571476 AAACATCATT
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
78 3 0.04
79 57 0.70
80 21 0.26
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTAGCACCAAAG
Found at i:10576569 original size:43 final size:43
Alignment explanation
Indices: 10576485--10576573 Score: 117
Period size: 43 Copynumber: 2.1 Consensus size: 43
10576475 TAAATATAAA
* * *
10576485 ACCATGTCTGGGACATTGGCATTGTATTGAGATTACGTGTAAG
1 ACCATGTCTGGGACATTGGCATCGTAATGAGATTACCTGTAAG
* *
10576528 ACCATGTCTGGGACATTGGCATCGTTAAT-CGATTTCCTGTAAG
1 ACCATGTCTGGGACATTGGCATCG-TAATGAGATTACCTGTAAG
10576571 ACC
1 ACC
10576574 CTATCTAAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
43 37 0.93
44 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (43 bp):
ACCATGTCTGGGACATTGGCATCGTAATGAGATTACCTGTAAG
Found at i:10588029 original size:27 final size:28
Alignment explanation
Indices: 10587956--10588038 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
10587946 GATGAGTCTA
*
10587956 AGTTTGATTATATAGCACTAAGTGTGCA
1 AGTTTGATTATATAGCACTAAGTGTGCG
*
10587984 AGTTTGATTATGTAGCACTAAGTGTGCG
1 AGTTTGATTATATAGCACTAAGTGTGCG
* *
10588012 AG-TTGATTATATATCACTGAGTGTGCG
1 AGTTTGATTATATAGCACTAAGTGTGCG
10588039 GACTTAATAT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 22 0.44
28 28 0.56
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (28 bp):
AGTTTGATTATATAGCACTAAGTGTGCG
Found at i:10596093 original size:28 final size:28
Alignment explanation
Indices: 10596025--10596178 Score: 211
Period size: 28 Copynumber: 5.5 Consensus size: 28
10596015 CATGAGATTG
* * * *
10596025 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
10596054 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
10596082 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
10596110 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
10596138 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* * *
10596165 TCATTGAGTGTGCG
1 GCACTAAGTGTGCG
10596179 GACTTAATAT
Statistics
Matches: 114, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
27 21 0.18
28 75 0.66
29 18 0.16
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:10599153 original size:23 final size:23
Alignment explanation
Indices: 10599096--10599157 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 23
10599086 TTTTTTCAGG
* *
10599096 GAATCTTCATTGTTCATGCCAAA
1 GAATCTTCACTATTCATGCCAAA
*
10599119 GAAT-TTCACTATTCATGCCAGA
1 GAATCTTCACTATTCATGCCAAA
*
10599141 GATTCTTCACTATTCAT
1 GAATCTTCACTATTCAT
10599158 TCATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (23 bp):
GAATCTTCACTATTCATGCCAAA
Found at i:10600395 original size:69 final size:70
Alignment explanation
Indices: 10600273--10600403 Score: 178
Period size: 69 Copynumber: 1.9 Consensus size: 70
10600263 TTTCATGTAG
* * *
10600273 ATATAATCATAGAAAACAATGAAAATAAAAATATAGATTACATAATATATATAATAATATTTCTT
1 ATATAATCACAGAAAACAATGAAAATAAAAATATAAATTACATAATATATATAACAATATTTCTT
10600338 GCAAA
66 GCAAA
**
10600343 ATATAA-CACAGAAAACAATGAATCTAACAATATATAAATTACAT-A-ATATATAACAATATTT
1 ATATAATCACAGAAAACAATGAAAATAA-AA-ATATAAATTACATAATATATATAACAATATTT
10600404 TATGGAAATA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
69 33 0.61
70 9 0.17
71 12 0.22
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.31
Consensus pattern (70 bp):
ATATAATCACAGAAAACAATGAAAATAAAAATATAAATTACATAATATATATAACAATATTTCTT
GCAAA
Found at i:10600929 original size:17 final size:17
Alignment explanation
Indices: 10600904--10600936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10600894 ATAGGGAATA
10600904 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
10600921 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
10600937 ATAAATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:10600966 original size:24 final size:22
Alignment explanation
Indices: 10600932--10600979 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 22
10600922 TATGTAATAA
10600932 AATATATAAATGAA-ATATAAAT
1 AATATATAAAT-AACATATAAAT
10600954 AATATGATAAAATAACATATAAAT
1 AATAT-AT-AAATAACATATAAAT
10600978 AA
1 AA
10600980 AAATAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 4 0.17
24 14 0.61
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
AATATATAAATAACATATAAAT
Found at i:10604117 original size:27 final size:26
Alignment explanation
Indices: 10604077--10604188 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
10604067 AGGAAGCATC
*
10604077 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCAC-ATTATCTGAT
*
10604104 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGAT
10604131 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTG-AT
* * *
10604159 CTGGTGACTCTGTCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGAT
10604185 CTGG
1 CTGG
10604189 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 7 0.09
27 52 0.68
28 17 0.22
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGAT
Found at i:10604181 original size:54 final size:54
Alignment explanation
Indices: 10604077--10604188 Score: 172
Period size: 54 Copynumber: 2.1 Consensus size: 54
10604067 AGGAAGCATC
*
10604077 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * *
10604131 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
10604185 CTGG
1 CTGG
10604189 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 35 0.66
55 18 0.34
ACGTcount: A:0.16, C:0.24, G:0.23, T:0.37
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:10605646 original size:12 final size:12
Alignment explanation
Indices: 10605629--10605670 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
10605619 GGTGGTCTAT
10605629 TTTGG-TGGTAAA
1 TTTGGTTGG-AAA
10605641 TTTGGTTGGAAA
1 TTTGGTTGGAAA
*
10605653 TTTGTTTGGAGAA
1 TTTGGTTGGA-AA
10605666 TTTGG
1 TTTGG
10605671 GTTTGCAACC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.45
Consensus pattern (12 bp):
TTTGGTTGGAAA
Found at i:10616214 original size:45 final size:43
Alignment explanation
Indices: 10616133--10616217 Score: 107
Period size: 45 Copynumber: 1.9 Consensus size: 43
10616123 ATCTTAGAAA
*** *
10616133 AAAGAATTTAAAAAAAGAAGAAGATAATTTTGGGTTGTTGAAT
1 AAAGAATTTAAAAAAAGAAGAAGATAAACATAGGTTGTTGAAT
*
10616176 AAAGAATTTAAAAAAAAAGGAGAAGATAAACATAGGTTGTTG
1 AAAGAATTT--AAAAAAAGAAGAAGATAAACATAGGTTGTTG
10616218 GATTTACCCT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 9 0.26
45 26 0.74
ACGTcount: A:0.52, C:0.01, G:0.21, T:0.26
Consensus pattern (43 bp):
AAAGAATTTAAAAAAAGAAGAAGATAAACATAGGTTGTTGAAT
Found at i:10630894 original size:31 final size:31
Alignment explanation
Indices: 10630848--10630915 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
10630838 GCCATGTGGG
*
10630848 CCACACGAGCTTGTGGGTCCACAAGGGTAAT
1 CCACACGAGCATGTGGGTCCACAAGGGTAAT
* * *
10630879 CCACACGGGCATGTGGGTCCACATGGGTAGT
1 CCACACGAGCATGTGGGTCCACAAGGGTAAT
10630910 CCACAC
1 CCACAC
10630916 AAGTGTGTGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.24, C:0.29, G:0.29, T:0.18
Consensus pattern (31 bp):
CCACACGAGCATGTGGGTCCACAAGGGTAAT
Found at i:10631027 original size:30 final size:31
Alignment explanation
Indices: 10630975--10631044 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 31
10630965 CAATCTAGGT
* * *
10630975 GTGTGGGCCACACGGGGCAAGCCACATGGGC
1 GTGTGGGCCACACGGAGCAAGCCACATAGAC
*
10631006 GTGTGGGCCATAC-GAGCAAGCCACATAGAC
1 GTGTGGGCCACACGGAGCAAGCCACATAGAC
10631036 GTGTGGGCC
1 GTGTGGGCC
10631045 TATTTAGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 23 0.66
31 12 0.34
ACGTcount: A:0.21, C:0.27, G:0.39, T:0.13
Consensus pattern (31 bp):
GTGTGGGCCACACGGAGCAAGCCACATAGAC
Found at i:10639934 original size:41 final size:40
Alignment explanation
Indices: 10639825--10640000 Score: 144
Period size: 41 Copynumber: 4.3 Consensus size: 40
10639815 GATATCTCGC
* * ** *
10639825 ACACTAAGTGCCAAAGCATAGCTAAAGCTATTACAATCTCGT
1 ACACTAAGTGCCATA-TATAGCCGAAGCTATT-CAATCACGT
* ** * *
10639867 ACACTAAGTGCC-TTTCATAGTTGAAGCTATATCAGTCCCGT
1 ACACTAAGTGCCATAT-ATAGCCGAAGCTAT-TCAATCACGT
10639908 ACACTAAGTGCCATATATAGCCGAAGCTATTCCGAATCAC--
1 ACACTAAGTGCCATATATAGCCGAAGCTATT-C-AATCACGT
** *
10639948 ACACTAAGTGCTTTATATAGCCGAAGCTATCTCAAT-ACGC
1 ACACTAAGTGCCATATATAGCCGAAGCTAT-TCAATCACGT
10639988 ACACTAAGTGCCA
1 ACACTAAGTGCCA
10640001 AACATAATCA
Statistics
Matches: 110, Mismatches: 16, Indels: 18
0.76 0.11 0.12
Matches are distributed among these distances:
38 2 0.02
39 3 0.03
40 41 0.37
41 45 0.41
42 19 0.17
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.26
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATTCAATCACGT
Found at i:10639965 original size:40 final size:40
Alignment explanation
Indices: 10639908--10640000 Score: 127
Period size: 40 Copynumber: 2.3 Consensus size: 40
10639898 TCAGTCCCGT
10639908 ACACTAAGTGCCATATATAGCCGAAGCTAT-TCCGAAT-CAC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCT-C-AATACAC
** *
10639948 ACACTAAGTGCTTTATATAGCCGAAGCTATCTCAATACGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACAC
10639988 ACACTAAGTGCCA
1 ACACTAAGTGCCA
10640001 AACATAATCA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.07
40 42 0.91
41 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCAATACAC
Found at i:10640448 original size:29 final size:28
Alignment explanation
Indices: 10640410--10640475 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
10640400 TTTTCATTTA
* *
10640410 TTTCACAATTTAACCCCTCAATTTACATT
1 TTTCTCAATTTAACCCCT-AATATACATT
* *
10640439 TTTCTCAATTTAATCCCTAATATGCATT
1 TTTCTCAATTTAACCCCTAATATACATT
10640467 TTTACTCAA
1 TTT-CTCAA
10640476 AATCACTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 11 0.34
29 21 0.66
ACGTcount: A:0.30, C:0.24, G:0.02, T:0.44
Consensus pattern (28 bp):
TTTCTCAATTTAACCCCTAATATACATT
Found at i:10642604 original size:22 final size:22
Alignment explanation
Indices: 10642576--10642637 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 22
10642566 ATTTAAAATA
*
10642576 TATATTTATCAATCAATTTAAT
1 TATATTTATCAATCAATTTAAG
*
10642598 TATATTTCAT-AATTAATTTAAG
1 TATATTT-ATCAATCAATTTAAG
* *
10642620 TA-ATATATCAAACAATTT
1 TATATTTATCAATCAATTT
10642638 TATAATTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
20 2 0.06
21 10 0.30
22 19 0.58
23 2 0.06
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.47
Consensus pattern (22 bp):
TATATTTATCAATCAATTTAAG
Found at i:10643655 original size:24 final size:24
Alignment explanation
Indices: 10643628--10643673 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
10643618 ATATATATTA
** *
10643628 AAAAATATGTAAATATCAAATAAT
1 AAAAATAAATAAATATAAAATAAT
*
10643652 AAAATTAAATAAATATAAAATA
1 AAAAATAAATAAATATAAAATA
10643674 TTCATCAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAAATAAATAAATATAAAATAAT
Found at i:10645226 original size:14 final size:14
Alignment explanation
Indices: 10645207--10645235 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
10645197 ATAGGTGAAG
10645207 TTAGAGTTTCAAGA
1 TTAGAGTTTCAAGA
10645221 TTAGAGTTTCAAGA
1 TTAGAGTTTCAAGA
10645235 T
1 T
10645236 CTTTAAAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.07, G:0.21, T:0.38
Consensus pattern (14 bp):
TTAGAGTTTCAAGA
Found at i:10650316 original size:25 final size:25
Alignment explanation
Indices: 10650287--10650364 Score: 77
Period size: 29 Copynumber: 2.9 Consensus size: 25
10650277 TTCCCTTACT
10650287 TTTATT-TATTTATTTATTTTTATTA
1 TTTATTATATTTATTTATTTTT-TTA
*
10650312 TTTATTATTTTTATTATATTATATTTTA
1 TTTATTATATTTATT-TATT-T-TTTTA
10650340 TTATATTATATTATATTTTATTTTT
1 TT-TATTATATT-TA-TTTATTTTT
10650365 CTTCTTACTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
25 6 0.14
26 7 0.16
27 4 0.09
28 8 0.18
29 11 0.25
30 6 0.14
31 2 0.05
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTATTATATTTATTTATTTTTTTA
Found at i:10650319 original size:3 final size:3
Alignment explanation
Indices: 10650300--10650418 Score: 51
Period size: 3 Copynumber: 41.7 Consensus size: 3
10650290 ATTTATTTAT
* *
10650300 TTA TTT TTA TTA TTTA TTA TTT TTA TTA -TA TTA -TA TT- TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
10650343 -TA TTA -TA TTA -TA TT- TTA TTT TTC TTC TTA CTT- TTA TTC TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* *
10650384 TTG TTA GTT- TTA TTA TTC TTA GTT- TTA TTA TTA TT
1 TTA TTA -TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT
10650419 TTTTGTTTTG
Statistics
Matches: 87, Mismatches: 15, Indels: 28
0.67 0.12 0.22
Matches are distributed among these distances:
2 20 0.23
3 58 0.67
4 9 0.10
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10650333 original size:5 final size:5
Alignment explanation
Indices: 10650310--10650361 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
10650300 TTATTTTTAT
* * *
10650310 TATT- TATTA T-TTT TATTA TATTA TATTT TATTA TATTA TATTA TATTT
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
10650358 TATT
1 TATT
10650362 TTTCTTCTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
4 7 0.17
5 34 0.83
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (5 bp):
TATTA
Found at i:10650348 original size:20 final size:20
Alignment explanation
Indices: 10650323--10650361 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10650313 TTATTATTTT
10650323 TATTATATTATATTTTATTA
1 TATTATATTATATTTTATTA
10650343 TATTATATTATATTTTATT
1 TATTATATTATATTTTATT
10650362 TTTCTTCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TATTATATTATATTTTATTA
Found at i:10650362 original size:5 final size:5
Alignment explanation
Indices: 10650286--10650420 Score: 52
Period size: 5 Copynumber: 26.8 Consensus size: 5
10650276 CTTCCCTTAC
* * *
10650286 TTTTA -TTTA -TTTA -TTTA TTTT- TATTA -TTTA TTAT- TTTTA TTATA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * * * *
10650330 TTATA TTTTA TTATA TTATA TTATA TTTTA TTTTTC TTCTTA CTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TT-TTA -TTTTA
*
10650378 TTCTCA TTGTTA GTTTTA --TTA TTCTTA GTTTTA TTATTA TTTT
1 TT-TTA TT-TTA -TTTTA TTTTA TT-TTA -TTTTA TT-TTA TTTT
10650421 TTGTTTTGTT
Statistics
Matches: 103, Mismatches: 13, Indels: 28
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.03
4 21 0.20
5 44 0.43
6 29 0.28
7 6 0.06
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.70
Consensus pattern (5 bp):
TTTTA
Found at i:10650407 original size:15 final size:15
Alignment explanation
Indices: 10650387--10650415 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10650377 ATTCTCATTG
10650387 TTAGTTTTATTATTC
1 TTAGTTTTATTATTC
10650402 TTAGTTTTATTATT
1 TTAGTTTTATTATT
10650416 ATTTTTTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.03, G:0.07, T:0.69
Consensus pattern (15 bp):
TTAGTTTTATTATTC
Found at i:10650545 original size:21 final size:21
Alignment explanation
Indices: 10650503--10650567 Score: 73
Period size: 21 Copynumber: 3.1 Consensus size: 21
10650493 TCGGATGTTC
*
10650503 ATTATT-CTCTT-TTAGTTATT
1 ATTATTACTCTTATTA-TTTTT
10650523 ATTATTACTCTTATTATTTTT
1 ATTATTACTCTTATTATTTTT
*
10650544 ATTTATTA-TTTTATTATTTTT
1 A-TTATTACTCTTATTATTTTT
10650565 ATT
1 ATT
10650568 GTCATTCTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.20
21 23 0.57
22 9 0.22
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (21 bp):
ATTATTACTCTTATTATTTTT
Found at i:10650683 original size:14 final size:14
Alignment explanation
Indices: 10650661--10650694 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10650651 TTTGGTTTTC
10650661 TATTATTATTATTT
1 TATTATTATTATTT
*
10650675 TATTGTTATTATTTT
1 TATTATTATTA-TTT
10650690 TATTA
1 TATTA
10650695 GTACTATCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:10653359 original size:25 final size:24
Alignment explanation
Indices: 10653331--10653379 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 24
10653321 CCCTTAACCT
10653331 AAGCCCCATTATAACCTCTTAAAGA
1 AAGCCCCATTATAACCT-TTAAAGA
10653356 AAGCCCCATTATAACCTTTAAAGA
1 AAGCCCCATTATAACCTTTAAAGA
10653380 CCTCTTGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.41, C:0.27, G:0.08, T:0.24
Consensus pattern (24 bp):
AAGCCCCATTATAACCTTTAAAGA
Found at i:10658267 original size:17 final size:17
Alignment explanation
Indices: 10658236--10658302 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
10658226 AAATGATAAT
10658236 AATAT-ATAG-ATAAAA
1 AATATAATAGTATAAAA
10658251 AATATAATAGTATAAAA
1 AATATAATAGTATAAAA
*
10658268 AATGACATAATAATATAAAA
1 AAT---ATAATAGTATAAAA
*
10658288 TATTATAATA-TATAA
1 -AATATAATAGTATAA
10658303 TACGAAAGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
15 5 0.11
16 4 0.09
17 14 0.32
18 6 0.14
20 13 0.30
21 2 0.05
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
AATATAATAGTATAAAA
Found at i:10658388 original size:11 final size:11
Alignment explanation
Indices: 10658368--10658486 Score: 51
Period size: 11 Copynumber: 10.8 Consensus size: 11
10658358 TAAATATAAG
10658368 TAAA-AATATA
1 TAAATAATATA
10658378 -ACAATAATATA
1 TA-AATAATATA
*
10658389 TAAATAATAATG
1 TAAATAAT-ATA
10658401 TAAAATAATA-A
1 T-AAATAATATA
* *
10658412 TAATTAGTGA-A
1 TAAATAAT-ATA
10658423 -AAATAATA-A
1 TAAATAATATA
10658432 TATAATAATATA
1 TA-AATAATATA
10658444 -AATATACATA-A
1 TAA-ATA-ATATA
10658455 TAGAATAACTATA
1 TA-AATAA-TATA
10658468 TAATATAA-ATA
1 TAA-ATAATATA
10658479 TAAA-AATA
1 TAAATAATA
10658487 GGGTTAAAAA
Statistics
Matches: 86, Mismatches: 6, Indels: 34
0.68 0.05 0.27
Matches are distributed among these distances:
9 5 0.06
10 16 0.19
11 34 0.40
12 16 0.19
13 15 0.17
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (11 bp):
TAAATAATATA
Found at i:10658411 original size:20 final size:20
Alignment explanation
Indices: 10658383--10658445 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 20
10658373 ATATAACAAT
10658383 AATATATAAATAATAATGTAA
1 AATA-ATAAATAATAATGTAA
* *
10658404 AATAAT-AATAATTAGTGAAA
1 AATAATAAATAA-TAATGTAA
*
10658424 AATAATAATATAATAATATAA
1 AATAATAA-ATAATAATGTAA
10658445 A
1 A
10658446 TATACATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
19 5 0.15
20 14 0.41
21 11 0.32
22 4 0.12
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AATAATAAATAATAATGTAA
Found at i:10658461 original size:14 final size:14
Alignment explanation
Indices: 10658380--10658486 Score: 55
Period size: 14 Copynumber: 7.5 Consensus size: 14
10658370 AAAATATAAC
10658380 AATAATATATAA-AT
1 AATAATATA-AATAT
*
10658394 AATAATGTAAA-AT
1 AATAATATAAATAT
*
10658407 AAT-A-ATAATTAGT
1 AATAATATAAATA-T
*
10658420 GAAAAATA-ATAATAT
1 -AATAATATA-AATAT
10658435 AATAATATAAATAT
1 AATAATATAAATAT
*
10658449 ACATAATA-GAATAACT
1 A-ATAATATAAAT-A-T
10658465 ATATAATATAAATAT
1 A-ATAATATAAATAT
*
10658480 AAAAATA
1 AATAATA
10658487 GGGTTAAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
11 3 0.04
12 2 0.03
13 8 0.11
14 30 0.42
15 13 0.18
16 13 0.18
17 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.32
Consensus pattern (14 bp):
AATAATATAAATAT
Found at i:10666721 original size:39 final size:41
Alignment explanation
Indices: 10666620--10666803 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
10666610 TTGAATGATG
* *
10666620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
10666660 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
10666700 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
10666739 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
10666778 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10666804 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:10666756 original size:79 final size:80
Alignment explanation
Indices: 10666620--10666803 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
10666610 TTGAATGATG
*
10666620 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
10666684 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
10666699 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
10666761 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
10666778 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10666804 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:10666826 original size:78 final size:79
Alignment explanation
Indices: 10666673--10666836 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
10666663 GGACTAAGAT
* **
10666673 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
10666738 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
10666752 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
10666814 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
10666830 CCGAAGG
1 CCGAAGG
10666837 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:10674671 original size:39 final size:41
Alignment explanation
Indices: 10674570--10674753 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
10674560 TTGAATGATG
* *
10674570 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
10674610 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
10674650 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
10674689 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
10674728 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10674754 AAGTAGCTAT
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:10674706 original size:79 final size:80
Alignment explanation
Indices: 10674570--10674753 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
10674560 TTGAATGATG
*
10674570 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
10674634 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
10674649 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
10674711 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
10674728 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10674754 AAGTAGCTAT
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:10680737 original size:14 final size:14
Alignment explanation
Indices: 10680714--10680743 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10680704 TTGAAAATAT
10680714 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
10680728 GTTGATTTGGATTG
1 GTTGAATTGGATTG
10680742 GT
1 GT
10680744 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:10698189 original size:39 final size:39
Alignment explanation
Indices: 10698135--10698257 Score: 219
Period size: 39 Copynumber: 3.2 Consensus size: 39
10698125 ACTCAGTGAT
* *
10698135 GAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
*
10698174 GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
10698213 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
10698252 GAATTA
1 GAATTA
10698258 CGTCTGGGCT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 80 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (39 bp):
GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
Found at i:10698278 original size:39 final size:39
Alignment explanation
Indices: 10698135--10698282 Score: 217
Period size: 39 Copynumber: 3.8 Consensus size: 39
10698125 ACTCAGTGAT
* * *
10698135 GAATTATATCCGGACTTAAGGTCCACAGGCTATATGCTG
1 GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
10698174 GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
*
10698213 GAATTATGTCCGGACTTAAGGTCCGCAGGCTATATGCTG
1 GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
* * *
10698252 GAATTACGTCTGGGC-TAAAGTCCCGCAGGCT
1 GAATTATGTCTGGACTTAAGGT-CCGCAGGCT
10698283 TCGAGCTGGT
Statistics
Matches: 100, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
38 5 0.05
39 95 0.95
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (39 bp):
GAATTATGTCTGGACTTAAGGTCCGCAGGCTATATGCTG
Found at i:10707481 original size:15 final size:17
Alignment explanation
Indices: 10707461--10707528 Score: 61
Period size: 20 Copynumber: 3.9 Consensus size: 17
10707451 AAATGATAAT
10707461 AATAT-ATAG-ATAAAA
1 AATATAATAGTATAAAA
10707476 AATATAATAGTATAAAA
1 AATATAATAGTATAAAA
*
10707493 AATGACATAATAATATAAAA
1 AAT---ATAATAGTATAAAA
10707513 TAATTATAATA-TATAA
1 -AA-TATAATAGTATAA
10707529 TACGAAAGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 11
0.79 0.02 0.19
Matches are distributed among these distances:
15 5 0.11
16 4 0.09
17 9 0.20
18 5 0.11
19 6 0.13
20 13 0.29
21 2 0.04
22 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (17 bp):
AATATAATAGTATAAAA
Found at i:10707625 original size:20 final size:22
Alignment explanation
Indices: 10707569--10707711 Score: 55
Period size: 24 Copynumber: 6.4 Consensus size: 22
10707559 AAGACAGATA
*
10707569 AATAATTAATAAACATATAATAT
1 AATAAATAAT-AACATATAATAT
*
10707592 AAGTAAAAATATAACA-ATAATAT
1 AA-TAAATA-ATAACATATAATAT
* *
10707615 -ATAAATAAT-A-ATGTAAAAT
1 AATAAATAATAACATATAATAT
* * *
10707634 AATAATTAGTGAAAAATAATAATAT
1 AATAAATAAT--AACAT-ATAATAT
* * *
10707659 AATAATATAAATAATACATAATAG
1 AATAA-AT-AATAACATATAATAT
* *
10707683 AATAACTATATAATATA-AATAT
1 AATAAATA-ATAACATATAATAT
10707705 AA-AAATA
1 AATAAATA
10707712 GGGTTAAAAA
Statistics
Matches: 90, Mismatches: 18, Indels: 26
0.67 0.13 0.19
Matches are distributed among these distances:
18 1 0.01
19 6 0.07
20 9 0.10
21 9 0.10
22 8 0.09
23 18 0.20
24 21 0.23
25 15 0.17
26 1 0.01
27 2 0.02
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (22 bp):
AATAAATAATAACATATAATAT
Found at i:10707633 original size:13 final size:14
Alignment explanation
Indices: 10707607--10707711 Score: 67
Period size: 17 Copynumber: 7.3 Consensus size: 14
10707597 AAAATATAAC
10707607 AATAATATATAAAT
1 AATAATATATAAAT
*
10707621 AATAATGTA-AAAT
1 AATAATATATAAAT
*
10707634 AATAATTAGTGAAAAAT
1 AATAA-TA-T-ATAAAT
10707651 AATAATATAATAATAT
1 AATAATAT-ATAA-AT
* *
10707667 AAATAATACATAATAG
1 -AATAATATATAA-AT
10707683 AATAACTATAT-AAT
1 AATAA-TATATAAAT
10707697 -ATAA-ATATAAA-
1 AATAATATATAAAT
10707708 AATA
1 AATA
10707712 GGGTTAAAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 20
0.73 0.08 0.20
Matches are distributed among these distances:
11 4 0.05
12 5 0.07
13 13 0.18
14 10 0.14
15 11 0.15
16 15 0.20
17 16 0.22
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (14 bp):
AATAATATATAAAT
Found at i:10707662 original size:8 final size:8
Alignment explanation
Indices: 10707649--10707700 Score: 54
Period size: 8 Copynumber: 6.5 Consensus size: 8
10707639 TTAGTGAAAA
10707649 ATAATAAT
1 ATAATAAT
10707657 ATAATAAT
1 ATAATAAT
10707665 ATAAATAAT
1 AT-AATAAT
*
10707674 A-CATAAT
1 ATAATAAT
*
10707681 AGAATAACT
1 ATAATAA-T
10707690 AT-ATAAT
1 ATAATAAT
10707697 ATAA
1 ATAA
10707701 ATATAAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 9 0.24
8 19 0.51
9 9 0.24
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (8 bp):
ATAATAAT
Found at i:10719996 original size:28 final size:28
Alignment explanation
Indices: 10719931--10720081 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
10719921 GAGATTGGCG
* * * *
10719931 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
10719960 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
10719988 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
10720016 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
10720044 CTAAGTGTACGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
10720071 CTGAGTGTGCG
1 CTAAGTGTGCG
10720082 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.20
28 75 0.66
29 15 0.13
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:10734129 original size:17 final size:17
Alignment explanation
Indices: 10734103--10734136 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10734093 CTAAATTTAT
* *
10734103 CAAACGTGTAACATCAA
1 CAAACATGTAAAATCAA
10734120 CAAACATGTAAAATCAA
1 CAAACATGTAAAATCAA
10734137 TACAAATAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (17 bp):
CAAACATGTAAAATCAA
Found at i:10735688 original size:21 final size:21
Alignment explanation
Indices: 10735648--10735689 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10735638 TTTTTTTCCA
* *
10735648 TTTTAGTATTAATTATTAAAT
1 TTTTAGTATTAAGTAGTAAAT
*
10735669 TTTTAGTATTTAGTAGTAAAT
1 TTTTAGTATTAAGTAGTAAAT
10735690 ATTAAAAGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (21 bp):
TTTTAGTATTAAGTAGTAAAT
Found at i:10736727 original size:37 final size:37
Alignment explanation
Indices: 10736677--10736748 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
10736667 TGACACGGCC
* *
10736677 TAAGCCTTGCCACACGGGCAGCTCACACGCTCGTGCT
1 TAAGCCTTGCCACACGAGCAGCTCACACGCCCGTGCT
*
10736714 TAAGCCTTGCCACACGAGTAGCTCACACGCCCGTG
1 TAAGCCTTGCCACACGAGCAGCTCACACGCCCGTG
10736749 TCTTTCGAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.21, C:0.38, G:0.24, T:0.18
Consensus pattern (37 bp):
TAAGCCTTGCCACACGAGCAGCTCACACGCCCGTGCT
Found at i:10737736 original size:13 final size:13
Alignment explanation
Indices: 10737718--10737742 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10737708 GTTTAATTAG
10737718 TTAATTAGTTTAT
1 TTAATTAGTTTAT
10737731 TTAATTAGTTTA
1 TTAATTAGTTTA
10737743 ATAACAACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAATTAGTTTAT
Found at i:10746011 original size:180 final size:180
Alignment explanation
Indices: 10745703--10746030 Score: 552
Period size: 180 Copynumber: 1.8 Consensus size: 180
10745693 TAAGATCCGT
* * *
10745703 TAATTTTCTCTGAAACTAGACTCATATATATTTTTACCATAAAATTTTCAGAATTTTTGGTTTAG
1 TAATTTTCTCTGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAG
10745768 CCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTATCCGACAGTTCCGACCTCTCT
66 CCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTATCCGACAGTTCCGACCTCTCT
10745833 TCACTAAAAATTATTTATTTTCTGGTACGAGACTCCAAATTGAGAACCAC
131 TCACTAAAAATTATTTATTTTCTGGTACGAGACTCCAAATTGAGAACCAC
10745883 TAATTTTCT-TAGAAACTAGACTCACATATATTATTACCATAAAACTTTT-AGAATTTTTAGTTT
1 TAATTTTCTCT-GAAACTAGACTCACATATATTATTACCATAAAA-TTTTCAGAATTTTTAGTTT
* * * * *
10745946 ATCCAATTAGTACAGTTTATTCATTAAATATACCCCTATTTCACTGTCTGACAGTTCCTACCTCT
64 AGCCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTATCCGACAGTTCCGACCTCT
10746011 CTTCACTAAAAATTATTTAT
129 CTTCACTAAAAATTATTTAT
10746031 CTCATGGTAC
Statistics
Matches: 138, Mismatches: 8, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
179 1 0.01
180 133 0.96
181 4 0.03
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.40
Consensus pattern (180 bp):
TAATTTTCTCTGAAACTAGACTCACATATATTATTACCATAAAATTTTCAGAATTTTTAGTTTAG
CCAATTAGTACAGTTTATTCATTAAAAATACCCCTATTTCACTATCCGACAGTTCCGACCTCTCT
TCACTAAAAATTATTTATTTTCTGGTACGAGACTCCAAATTGAGAACCAC
Found at i:10746386 original size:16 final size:16
Alignment explanation
Indices: 10746367--10746398 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
10746357 AATTGTTTTA
10746367 TTACAAAATTTCACTT
1 TTACAAAATTTCACTT
*
10746383 TTACATAATTTCACTT
1 TTACAAAATTTCACTT
10746399 ACTCCATTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.19, G:0.00, T:0.47
Consensus pattern (16 bp):
TTACAAAATTTCACTT
Found at i:10746680 original size:50 final size:50
Alignment explanation
Indices: 10746598--10746936 Score: 292
Period size: 50 Copynumber: 6.7 Consensus size: 50
10746588 ACCGCAACTC
* * **
10746598 TCTGGTACACATAGTAGCCTGCACCTAATACTACACATGTGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAA
* * * * *
10746648 TCTGGTACACGTAGTTGCCTACACTTAGTACTACACACATGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAA
* * ** *
10746698 TCTGATACACATAGCAGCCTGCACTTAGTACTACACACATGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGA-CCTA-TCAA
* * * ***
10746750 -CGGGTA-GCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAA
* * * * * *
10746798 TCCGGTACATATAGTAGCTTGCATTTAGGACTACACACATGACCTCA-CCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCT-ATCAA
* **
10746848 TCTGATACACATAGTAGCCTGCACTTAGTACTACACATGTGACCTA--AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAA
* * *
10746896 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
10746937 TGTGGTCTCA
Statistics
Matches: 228, Mismatches: 52, Indels: 16
0.77 0.18 0.05
Matches are distributed among these distances:
48 7 0.03
49 8 0.04
50 174 0.76
51 7 0.03
52 32 0.14
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTATCAA
Found at i:10746878 original size:150 final size:150
Alignment explanation
Indices: 10746607--10746884 Score: 414
Period size: 150 Copynumber: 1.9 Consensus size: 150
10746597 CTCTGGTACA
* * * * *
10746607 CATAGTAGCCTGCACCTAATACTACACATGTGACCTATCAATCTGGTACACGTAGTTGCCTACAC
1 CATAGTAGCCTACACCTAATACTACACATGCGACCTATCAATCCGGTACACATAGTAGCCTACAC
* *
10746672 TTAGTACTACACACATGACTTATCCATCTGATACACATAGCAGCCTGCACTTAGTACTACACACA
66 TTAGGACTACACACATGACTCATCCATCTGATACACATAGCAGCCTGCACTTAGTACTACACACA
10746737 TGATCGAAGTTAACGGGTAG
131 TGATCGAAGTTAACGGGTAG
* * * * * *
10746757 CATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCCGGTACATATAGTAGCTTGCAT
1 CATAGTAGCCTACACCTAATACTACACATGCGACCTATCAATCCGGTACACATAGTAGCCTACAC
*
10746822 TTAGGACTACACACATGACCTCA-CCATCTGATACACATAGTAGCCTGCACTTAGTACTACACA
66 TTAGGACTACACACATGA-CTCATCCATCTGATACACATAGCAGCCTGCACTTAGTACTACACA
10746885 TGTGACCTAA
Statistics
Matches: 113, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
150 110 0.97
151 3 0.03
ACGTcount: A:0.32, C:0.27, G:0.15, T:0.26
Consensus pattern (150 bp):
CATAGTAGCCTACACCTAATACTACACATGCGACCTATCAATCCGGTACACATAGTAGCCTACAC
TTAGGACTACACACATGACTCATCCATCTGATACACATAGCAGCCTGCACTTAGTACTACACACA
TGATCGAAGTTAACGGGTAG
Found at i:10747605 original size:30 final size:30
Alignment explanation
Indices: 10747561--10747619 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
10747551 CAAAAATCAT
* *
10747561 ACTTTTACAAATTTGCATTTTGACCCCTAA
1 ACTTTCACAAATTTGCACTTTGACCCCTAA
* *
10747591 ACTTTCACATATTTGCACTTTGGCCCCTA
1 ACTTTCACAAATTTGCACTTTGACCCCTA
10747620 GGCTCATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.27, G:0.08, T:0.39
Consensus pattern (30 bp):
ACTTTCACAAATTTGCACTTTGACCCCTAA
Found at i:10749557 original size:15 final size:15
Alignment explanation
Indices: 10749524--10749583 Score: 84
Period size: 15 Copynumber: 4.0 Consensus size: 15
10749514 TATAGATAAC
* * *
10749524 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
10749539 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
10749554 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
10749569 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
10749584 CAATATCATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 40 1.00
ACGTcount: A:0.57, C:0.13, G:0.17, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:10751817 original size:50 final size:50
Alignment explanation
Indices: 10751634--10752024 Score: 302
Period size: 50 Copynumber: 7.7 Consensus size: 50
10751624 ACCGAAGCTC
* * * ** * *
10751634 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGAGTTATCCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * * * * * * *
10751684 TCTGATACACGTAGTAGCCTACAGTTAGTACGACACATGCGATCAAAGTTAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA--CAA
* ** * * * * * * *
10751736 -CGGGTATGCATAGTAGCTTGGACTTAGTACTAGACATGCGACCTATCAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * * *
10751785 TCCGGTACACGTAGTGGCCTGCACTTAATACTACACACGTGACCTAACCA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* ** *
10751835 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAACTA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCTAACAA
* * * * * *
10751886 TCGGGGACGCATAGTAGCCTACACTTAGTACTACACATGTGACCTAACAA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
*
10751936 TCTGGAACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-AA
1 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
* * *
10751985 -CTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACGTAGTAGCCTGCACTTAGTACTACACA
10752025 TGTGGTCTCC
Statistics
Matches: 265, Mismatches: 68, Indels: 14
0.76 0.20 0.04
Matches are distributed among these distances:
48 3 0.01
49 4 0.02
50 156 0.59
51 72 0.27
52 30 0.11
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (50 bp):
TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:10751821 original size:101 final size:101
Alignment explanation
Indices: 10751637--10751821 Score: 235
Period size: 101 Copynumber: 1.8 Consensus size: 101
10751627 GAAGCTCTCT
* ** * *
10751637 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGAGTTATCCATCTGATACACGTAGTAGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGATACACGTAGTAGC
* *
10751702 CTACAGTTAGTACGACACATGCGATCAAAGTTAACG
66 CTACACTTAATACGACACATGCGATCAAAGTTAACG
* * * * * *
10751738 GGTATGCATAGTAGCTTGGACTTAGTACTAGACATGCGACCTATCAATCCGGTACACGTAGTGGC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGATACACGTAGTAGC
* *
10751803 CTGCACTTAATACTACACA
66 CTACACTTAATACGACACA
10751822 CGTGACCTAA
Statistics
Matches: 69, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (101 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCCGATACACGTAGTAGC
CTACACTTAATACGACACATGCGATCAAAGTTAACG
Found at i:10751871 original size:151 final size:151
Alignment explanation
Indices: 10751645--10752026 Score: 469
Period size: 151 Copynumber: 2.5 Consensus size: 151
10751635 CTGGTACGCA
* ** * * *
10751645 TAGTAGCCTGCACTTAGTACTACACATGTGAGTTATCCATCTGATACACGTAGTAGCCTACAGTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * * * * ** *
10751710 AGTACGACACATGCGATC-AAAGTTAACGGGTATGCATAGTAGCTTGGACTTAGTACTAGACATG
66 AGTACTACACATGCGATCGAAA-CTAACGGGGACGCATAGTAGCCTACACTTAGTACTACACATG
* *
10751774 CGACCTATCAATCCGGTACACG
130 CGACCTAACAATCCGGAACACG
* *
10751796 TAGTGGCCTGCACTTAATACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
* * * *
10751861 AGTACTACACACGTGATCGAAACTATCGGGGACGCATAGTAGCCTACACTTAGTACTACACATGT
66 AGTACTACACATGCGATCGAAACTAACGGGGACGCATAGTAGCCTACACTTAGTACTACACATGC
*
10751926 GACCTAACAATCTGGAACACG
131 GACCTAACAATCCGGAACACG
** * * *
10751947 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAAACTGTCTTAAACACATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACGTAGTAGCCTGCAC
*
10752012 ATAGTACTACACATG
64 TTAGTACTACACATG
10752027 TGGTCTCCCA
Statistics
Matches: 196, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
151 156 0.80
152 3 0.02
153 37 0.19
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (151 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCCTGCACTT
AGTACTACACATGCGATCGAAACTAACGGGGACGCATAGTAGCCTACACTTAGTACTACACATGC
GACCTAACAATCCGGAACACG
Found at i:10751920 original size:101 final size:101
Alignment explanation
Indices: 10751796--10751977 Score: 303
Period size: 101 Copynumber: 1.8 Consensus size: 101
10751786 CCGGTACACG
* * *
10751796 TAGTGGCCTGCACTTAATACTACACACGTGACCTAACCATCT-GATACACGTAGTAGCCTGCACT
1 TAGTAGCCTACACTTAATACTACACACGTGACCTAACAATCTGGA-ACACGTAGTAGCCTGCACT
10751860 TAGTACTACACACGTGATCGAAACTATCGGGGACGCA
65 TAGTACTACACACGTGATCGAAACTATCGGGGACGCA
* *
10751897 TAGTAGCCTACACTTAGTACTACACATGTGACCTAACAATCTGGAACACGTAGTAGCCTGCACTT
1 TAGTAGCCTACACTTAATACTACACACGTGACCTAACAATCTGGAACACGTAGTAGCCTGCACTT
10751962 AGTACTACACACGTGA
66 AGTACTACACACGTGA
10751978 CCTAAAACTG
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
101 73 0.97
102 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (101 bp):
TAGTAGCCTACACTTAATACTACACACGTGACCTAACAATCTGGAACACGTAGTAGCCTGCACTT
AGTACTACACACGTGATCGAAACTATCGGGGACGCA
Found at i:10752407 original size:19 final size:20
Alignment explanation
Indices: 10752379--10752425 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
10752369 AAGAACATGT
10752379 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
10752400 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
10752419 TATATAT
1 TATATAT
10752426 ACTTACAACT
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:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:10758540 original size:12 final size:12
Alignment explanation
Indices: 10758518--10758548 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10758508 TAGAATCTGC
10758518 TAAAA-TAAAAA
1 TAAAAGTAAAAA
10758529 TAAAAGTAAAAA
1 TAAAAGTAAAAA
10758541 TAAAAGTA
1 TAAAAGTA
10758549 GTTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.19
Consensus pattern (12 bp):
TAAAAGTAAAAA
Found at i:10760634 original size:55 final size:55
Alignment explanation
Indices: 10760558--10760662 Score: 147
Period size: 55 Copynumber: 1.9 Consensus size: 55
10760548 AATTTAATAG
* *
10760558 GTTCGACCACGGGTGTTCCACACGGGCGTGTCAAACGCCCGTGCTGTTTTAACAA
1 GTTCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAA
* * ** *
10760613 GTTCGCCCACGGTTCTTCCACACAGGCGTGTCGCACGCCCGTGTTGTTTT
1 GTTCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTT
10760663 GGCAGGCTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.15, C:0.31, G:0.27, T:0.27
Consensus pattern (55 bp):
GTTCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAA
Found at i:10760678 original size:55 final size:55
Alignment explanation
Indices: 10760560--10760679 Score: 141
Period size: 55 Copynumber: 2.2 Consensus size: 55
10760550 TTTAATAGGT
* * *
10760560 TCGACCACGGGTGTTCCACACGGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGT
1 TCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGC
* * ** * ** *
10760615 TCGCCCACGGTTCTTCCACACAGGCGTGTCGCACGCCCGTGTTGTTTTGGCAGGC
1 TCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGC
10760670 TCGACCACGG
1 TCGACCACGG
10760680 CCATATCGCA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.16, C:0.33, G:0.28, T:0.23
Consensus pattern (55 bp):
TCGACCACGGGTCTTCCACACAGGCGTGTCAAACGCCCGTGCTGTTTTAACAAGC
Found at i:10765295 original size:21 final size:21
Alignment explanation
Indices: 10765271--10765313 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
10765261 TTTGCAGTAG
*
10765271 GTGCGGTTCTGGGACAACGAA
1 GTGCGATTCTGGGACAACGAA
10765292 GTGCGATTCTGGGACAACGAA
1 GTGCGATTCTGGGACAACGAA
10765313 G
1 G
10765314 AGATAAGCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.19, G:0.37, T:0.19
Consensus pattern (21 bp):
GTGCGATTCTGGGACAACGAA
Found at i:10767911 original size:14 final size:15
Alignment explanation
Indices: 10767882--10767913 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10767872 TACTAACACG
10767882 CTCTCCCTTACTTTT
1 CTCTCCCTTACTTTT
10767897 CTCTCCCTT-CTTTT
1 CTCTCCCTTACTTTT
10767911 CTC
1 CTC
10767914 CCTCGTCACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.03, C:0.44, G:0.00, T:0.53
Consensus pattern (15 bp):
CTCTCCCTTACTTTT
Found at i:10770831 original size:29 final size:29
Alignment explanation
Indices: 10770799--10770858 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
10770789 TTATTTTATT
10770799 TTATTTGTATAATTTTCTCTTATTATTCA
1 TTATTTGTATAATTTTCTCTTATTATTCA
10770828 TTATTTGTATAATTTTCTCTTATTATTCA
1 TTATTTGTATAATTTTCTCTTATTATTCA
10770857 TT
1 TT
10770859 CATTCAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.63
Consensus pattern (29 bp):
TTATTTGTATAATTTTCTCTTATTATTCA
Found at i:10773964 original size:3 final size:3
Alignment explanation
Indices: 10773958--10773983 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10773948 GATTATGAGA
10773958 AGG AGG AGG AGG AGG AGG AGG AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AG
10773984 ACCCCGTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:10774528 original size:18 final size:17
Alignment explanation
Indices: 10774505--10774540 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
10774495 AGGTTAGTTT
*
10774505 AGTAAATTAGTAATTAAA
1 AGTAAATTA-AAATTAAA
10774523 AGTAAATTAAAATTAAA
1 AGTAAATTAAAATTAAA
10774540 A
1 A
10774541 CAAAGGTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.31
Consensus pattern (17 bp):
AGTAAATTAAAATTAAA
Found at i:10785709 original size:39 final size:39
Alignment explanation
Indices: 10785605--10785709 Score: 140
Period size: 40 Copynumber: 2.7 Consensus size: 39
10785595 TTGATGACAA
* * * *
10785605 TTCGGCTATGTATGACACTTAGTGTACGATTCGAGATAGC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTC-AAATAAC
10785645 TTCGGCTATGTATGGCACTTAGTGTGCGATT-AAATAAC
1 TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAATAAC
*
10785683 TTCGGCTATCTATTGGCACTTAGTGTG
1 TTCGGCTATGTA-TGGCACTTAGTGTG
10785710 TGAGAATTCA
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
38 16 0.27
39 14 0.24
40 29 0.49
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (39 bp):
TTCGGCTATGTATGGCACTTAGTGTGCGATTCAAATAAC
Found at i:10787347 original size:2 final size:2
Alignment explanation
Indices: 10787340--10787376 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10787330 TTTGGTATTA
10787340 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
10787377 TTTAGTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:10789671 original size:34 final size:34
Alignment explanation
Indices: 10789633--10789700 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
10789623 TAAGTCCAAG
10789633 ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
1 ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
* *
10789667 ATTATTCTAATCCCTTTTTTCTTTCGGTTTATTC
1 ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
10789701 GTGTTATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.18, C:0.18, G:0.06, T:0.59
Consensus pattern (34 bp):
ATTATTCTAATCCATTTTTTCTTTAGGTTTATTC
Found at i:10791337 original size:48 final size:46
Alignment explanation
Indices: 10791200--10791511 Score: 226
Period size: 44 Copynumber: 6.7 Consensus size: 46
10791190 AATTTGTGCT
* * *
10791200 CCAGTGTAAGACGTGTCTGGGACATGCATCGGCTA-AGAG-T-TGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-ACAGAGATGAGAG
* * ** * *
10791244 CTAGTGGAAGACATGTCTGGGACATGCATCAACACGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCA--CAGAGATGAGAG
* *
10791292 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGAGATGAGTG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCACAGAGATGAGAG
* * * *
10791340 CCAGAGTAAGACATG-CATGGGACATGCATCGGCCTCAACAGA-GATAG
1 CCAGTGTAAGACATGTC-TGGGACATGCATCGG-CAC-AGAGATGAGAG
* * * * *
10791387 CCAGTGTAAGACGTGTCTGGGACACGCATCGGC-TAG-GA-GTTGTG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATG-AGAG
* * * * *
10791431 CTAGTGTAAGACATGTCTGGGACATTCATCAGCAAGCATATATGAGAG
1 CCAGTGTAAGACATGTCTGGGACATGCATCGGC-A-CAGAGATGAGAG
10791479 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
10791512 ACAATATATC
Statistics
Matches: 207, Mismatches: 42, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
43 4 0.02
44 58 0.28
46 11 0.05
47 46 0.22
48 48 0.23
49 29 0.14
50 11 0.05
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.21
Consensus pattern (46 bp):
CCAGTGTAAGACATGTCTGGGACATGCATCGGCACAGAGATGAGAG
Found at i:10798747 original size:44 final size:44
Alignment explanation
Indices: 10798685--10798946 Score: 217
Period size: 44 Copynumber: 5.7 Consensus size: 44
10798675 TAATTTGTGC
* * *
10798685 GCCAGTGTAAGACGTGTCTGGGACACGTATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGT
* * * *
10798729 GCTAGTGTAAGACATGTCTGGTACATGCATCAGCACGCATAA-A-TGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-G---GC-TAAGAGT-TGT
* * *
10798777 GCCAGTGTAAGACCATGTCTAGGACATGGCATCAG-TACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-AGAG-T-TGT
* * *
10798825 GCCAGAGTAAGACATGTCTGGGACATGCATCGGCCTCAACAGAGAT-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--A-AGAGTTGT
*
10798872 GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCTAAGAGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGT
* *
10798916 GCTAGTGTAAGACATGTTTGGGACATGCATC
1 GCCAGTGTAAGACATGTCTGGGACATGCATC
10798947 AACACGCATA
Statistics
Matches: 176, Mismatches: 25, Indels: 34
0.75 0.11 0.14
Matches are distributed among these distances:
43 5 0.03
44 57 0.32
45 2 0.01
46 10 0.06
47 45 0.26
48 31 0.18
49 15 0.09
50 11 0.06
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTAAGAGTTGT
Found at i:10798786 original size:48 final size:48
Alignment explanation
Indices: 10798732--10798996 Score: 210
Period size: 47 Copynumber: 5.6 Consensus size: 48
10798722 GAGTTGTGCT
*
10798732 AGTGTAAGACATGTCTGGTACATGCATCAGCACGCATAAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
* * * * *
10798780 AGTGTAAGACCATGTCTAGGACATGGCATCAGTA--CAGAGATGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACGCATAAATGAGAGCC
* * * *
10798828 AGAGTAAGACATGTCTGGGACATGCATCGGC-CTCA-ACAGA-GATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATA-A-ATGAGAGCC
* * * *
10798875 AGTGTAAGACGTGTCTGGGACATGCATC-G---GC-TAAGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAA-ATG-AGAGCC
* * * *
10798919 AGTGTAAGACATGTTTGGGACATGCATCAACACGCATATATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
*
10798967 AGTGTAAGACCATGCCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
10798997 GACAATATAT
Statistics
Matches: 173, Mismatches: 28, Indels: 30
0.75 0.12 0.13
Matches are distributed among these distances:
43 4 0.02
44 30 0.17
46 8 0.05
47 46 0.27
48 45 0.26
49 27 0.16
50 13 0.08
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATAAATGAGAGCC
Found at i:10801414 original size:17 final size:17
Alignment explanation
Indices: 10801400--10801442 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
10801390 GACACATATT
10801400 CGTGTGGATCACATAGC
1 CGTGTGGATCACATAGC
10801417 CGTGTGGATCACATAGC
1 CGTGTGGATCACATAGC
*
10801434 CATGTGGAT
1 CGTGTGGAT
10801443 TGCCCTTGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.30, T:0.26
Consensus pattern (17 bp):
CGTGTGGATCACATAGC
Found at i:10807190 original size:53 final size:51
Alignment explanation
Indices: 10807110--10807264 Score: 148
Period size: 52 Copynumber: 3.0 Consensus size: 51
10807100 TACATATAAT
* * *
10807110 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCAC
1 ACCGATGCCATAACCCAGCTATGGTCTTATACGGAA-CAC-GTATCACATCAC
* * * * **
10807163 ACCGACGCCATAGCCCAGCTATGGTCTTATATGGGAACACGTATCACGTTGC
1 ACCGATGCCATAACCCAGCTATGGTCTTATA-CGGAACACGTATCACATCAC
* * ** *
10807215 ACCGATGCCATAACCCAGCCATGGTTTTATACAGGTGCACATATCACATC
1 ACCGATGCCATAACCCAGCTATGGTCTTATAC-GGAACACGTATCACATC
10807265 TTTTCCGTCA
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
52 47 0.57
53 31 0.38
54 4 0.05
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (51 bp):
ACCGATGCCATAACCCAGCTATGGTCTTATACGGAACACGTATCACATCAC
Found at i:10807232 original size:52 final size:53
Alignment explanation
Indices: 10807110--10807246 Score: 152
Period size: 52 Copynumber: 2.6 Consensus size: 53
10807100 TACATATAAT
* * *
10807110 ACCGATGCCATATCCCAGATATGGTCTTATACGGAATCACATTATCACATCAC
1 ACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACAGTATCACATCAC
* * * * **
10807163 ACCGACGCCATAGCCCAGCTATGGTCTTATATGGGAA-CAC-GTATCACGTTGC
1 ACCGATGCCATAACCCAGCTATGGTCTTATA-CGGAATCACAGTATCACATCAC
* *
10807215 ACCGATGCCATAACCCAGCCATGGTTTTATAC
1 ACCGATGCCATAACCCAGCTATGGTCTTATAC
10807247 AGGTGCACAT
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
52 35 0.50
53 31 0.44
54 4 0.06
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (53 bp):
ACCGATGCCATAACCCAGCTATGGTCTTATACGGAATCACAGTATCACATCAC
Found at i:10809941 original size:22 final size:23
Alignment explanation
Indices: 10809899--10809941 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
10809889 TAGTTAAAGA
*
10809899 AAAAAACATTTATTTTTATTTTT
1 AAAAAACATTTATTTTAATTTTT
10809922 AAAAAA-ATTGTA-TTTAATTT
1 AAAAAACATT-TATTTTAATTT
10809942 AATTTTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
AAAAAACATTTATTTTAATTTTT
Found at i:10813553 original size:14 final size:14
Alignment explanation
Indices: 10813533--10813568 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
10813523 GATGTATGTA
10813533 AAAGCATGAAAATT
1 AAAGCATGAAAATT
*
10813547 GAAGCATGAAAATT
1 AAAGCATGAAAATT
10813561 AAAGCATG
1 AAAGCATG
10813569 TGTATCTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.53, C:0.08, G:0.19, T:0.19
Consensus pattern (14 bp):
AAAGCATGAAAATT
Found at i:10814970 original size:30 final size:30
Alignment explanation
Indices: 10814930--10814988 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10814920 TTGAAGACGC
*
10814930 CAAAATAATAAAATAA-ATAATAAT-ATAACA
1 CAAAAAAATAAAA-AAGA-AATAATGATAACA
10814960 CAAAAAAATAAAAAAGAAATAATGATAAC
1 CAAAAAAATAAAAAAGAAATAATGATAAC
10814989 GATATAACAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.71, C:0.07, G:0.03, T:0.19
Consensus pattern (30 bp):
CAAAAAAATAAAAAAGAAATAATGATAACA
Found at i:10821832 original size:3 final size:3
Alignment explanation
Indices: 10821824--10822042 Score: 96
Period size: 3 Copynumber: 74.3 Consensus size: 3
10821814 TTCTAATACC
* *
10821824 ATT ATT ATT ACT ACTT CT- ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
10821869 ATT ATT ACT ATC CTT TTT ATGT -TT ATT TTT ATT AAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * ** *
10821914 A-T AAT CTT ATTT ATG ACT ATT ATC ATT -TT -TT AAAA ATT ATT GTT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * ** * * *
10821958 ACT ATT ATT CTT -TT ACC ATT -TA ATAC ATT ATT ATT ACT ATT -TT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT
* * *
10822001 ATT ATT ATT ATT ACT ATT -GT ATT ATT ACT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
10822043 CATTTTCTTT
Statistics
Matches: 155, Mismatches: 48, Indels: 26
0.68 0.21 0.11
Matches are distributed among these distances:
2 14 0.09
3 134 0.86
4 7 0.05
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:10822009 original size:20 final size:20
Alignment explanation
Indices: 10821984--10822038 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
10821974 CATTTAATAC
*
10821984 ATTATTATTACTATTTTATT
1 ATTATTATTACTATTGTATT
10822004 ATTATTATTACTATTGTATT
1 ATTATTATTACTATTGTATT
* *
10822024 ATTACTATTATTATT
1 ATTATTATTACTATT
10822039 ATTACATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTATTATTACTATTGTATT
Found at i:10822226 original size:3 final size:3
Alignment explanation
Indices: 10822205--10822416 Score: 136
Period size: 3 Copynumber: 71.7 Consensus size: 3
10822195 CAAACTTTAG
* * **
10822205 ATT ATTT ATT ATT -TGT ATT ATT -GT ATT ATT ACT ATTT ATT ATT ACC
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT
* * *
10822251 ATT ATT ATT ACT ATT ACT ATT ACTT -TT ACTT -TT ATTT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT A-TT ATT A-TT ATT ATT ATT
* * *
10822297 A-T ATT ATT TTT ATT -TT -TT ATT -TT A-T ATT ACT ATT ATC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * * **
10822340 ATT ACT AAT ATT AAT ATT CTT ATT ATC ACT ATT ATT ATT ACC ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
10822388 ATT ATT ATT GTT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10822417 CGTTCTCATT
Statistics
Matches: 158, Mismatches: 37, Indels: 28
0.71 0.17 0.13
Matches are distributed among these distances:
2 16 0.10
3 129 0.82
4 13 0.08
ACGTcount: A:0.30, C:0.08, G:0.01, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:10822294 original size:37 final size:37
Alignment explanation
Indices: 10822253--10822332 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
10822243 TTATTACCAT
10822253 TATTATTACTATTACTATTA-CTTTTACTTTTAT-TTAC
1 TATTATTA-TATTACTATTATCTTTTA-TTTTATATTAC
* * *
10822290 TATTATTATATTATTTTTATTTTTTATTTTATATTAC
1 TATTATTATATTACTATTATCTTTTATTTTATATTAC
10822327 TATTAT
1 TATTAT
10822333 CATTATTATT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 15 0.39
37 23 0.61
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (37 bp):
TATTATTATATTACTATTATCTTTTATTTTATATTAC
Found at i:10822297 original size:31 final size:29
Alignment explanation
Indices: 10822228--10822332 Score: 83
Period size: 31 Copynumber: 3.5 Consensus size: 29
10822218 TGTATTATTG
**
10822228 TATTATTACTATTTATTATTACCATTA-TTA
1 TATTATTACTA-TTATT-TTACTTTTATTTA
*
10822258 TTACTATTACTATTACTTTTACTTTTATTTA
1 -TATTATTACTATTA-TTTTACTTTTATTTA
*
10822289 CTATTATTA-TATTATTTTTATTTTTTATTT-
1 -TATTATTACTATTA-TTTTA-CTTTTATTTA
10822319 TA-TATTACTATTAT
1 TATTATTACTATTAT
10822333 CATTATTATT
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
28 6 0.10
29 7 0.11
30 20 0.32
31 30 0.48
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTATTACTATTATTTTACTTTTATTTA
Found at i:10834905 original size:37 final size:37
Alignment explanation
Indices: 10834855--10834933 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
10834845 TTATTACGAA
* * *
10834855 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
**
10834892 GTCTTACCCGGACAAAATCCCCACACGTTGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
10834929 GTCTT
1 GTCTT
10834934 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Done.