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 142 of 433
Found at i:43829091 original size:45 final size:46
Alignment explanation
Indices: 43829042--43829167 Score: 177
Period size: 45 Copynumber: 2.8 Consensus size: 46
43829032 ATCATTTCAT
* *
43829042 CGGCATTATAGCCTGCTAGACTCGAAA-GCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCCAAAGGCCCGAATAGTATCTCAC
* *
43829087 CGGCATTATAGCCTGCTAGGC-CCAAAGGACCGAATAGTGTCTCAC
1 CGGCATTATAGCCTGCTAGGCTCCAAAGGCCCGAATAGTATCTCAC
* *
43829132 CGGCATAATAGCCTGCTAGGCT-TAAAGGCCCGAATA
1 CGGCATTATAGCCTGCTAGGCTCCAAAGGCCCGAATA
43829168 TAATACCAGC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 4 0.06
45 68 0.94
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.21
Consensus pattern (46 bp):
CGGCATTATAGCCTGCTAGGCTCCAAAGGCCCGAATAGTATCTCAC
Found at i:43829208 original size:38 final size:38
Alignment explanation
Indices: 43829160--43829323 Score: 229
Period size: 38 Copynumber: 4.3 Consensus size: 38
43829150 GGCTTAAAGG
* * *
43829160 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* *
43829198 CCCGGATATAATACCAGCACGAAGCCTGCGGGAATTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* * *
43829236 CCCGGATACATTACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* *
43829274 CCCGGATATATTACCAGCACGAAGCCTGCAGGGTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
43829312 CTCGGATATAAT
1 CCCGGATATAAT
43829324 TCCAACATAT
Statistics
Matches: 113, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 113 1.00
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:43829735 original size:43 final size:44
Alignment explanation
Indices: 43829627--43829761 Score: 175
Period size: 43 Copynumber: 3.1 Consensus size: 44
43829617 ACATAACATT
* *
43829627 TCATTTCACCGGCATTATAGCCTACTAGGCTCAGAGGCTCGAATAA
1 TCATTTCACCGGCATTATAGCCTACTAGGCTCA-AAGCCCGAAT-A
* *
43829673 T-ATTTCACCGGCATCATAGCCTACTAAGCTCAAAGCCCG-ATA
1 TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGAATA
* * *
43829715 TCATTTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGAATA
1 TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGAATA
43829759 TCA
1 TCA
43829762 CATTTCGATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.03
43 35 0.45
44 11 0.14
45 29 0.37
46 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (44 bp):
TCATTTCACCGGCATTATAGCCTACTAGGCTCAAAGCCCGAATA
Found at i:43830646 original size:29 final size:28
Alignment explanation
Indices: 43830612--43830714 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
43830602 TACTCAATCA
*
43830612 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
43830641 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
43830670 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
43830699 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43830715 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:43837551 original size:29 final size:28
Alignment explanation
Indices: 43837517--43837619 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
43837507 TACTCAATCA
*
43837517 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
43837546 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
43837575 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
43837604 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43837620 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:43844229 original size:40 final size:40
Alignment explanation
Indices: 43844174--43844249 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
43844164 TTGAATGAAT
* * *
43844174 GCACATATATGCCCCTATTTGTGCTTCGGTACCCCTAAAC
1 GCACATACATGCCCCTAGTTGTACTTCGGTACCCCTAAAC
* *
43844214 GCACATACGTGCCCCTGGTTGTACTTCGGTACCCCT
1 GCACATACATGCCCCTAGTTGTACTTCGGTACCCCT
43844250 GACTACACAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.18, C:0.34, G:0.18, T:0.29
Consensus pattern (40 bp):
GCACATACATGCCCCTAGTTGTACTTCGGTACCCCTAAAC
Found at i:43844259 original size:40 final size:40
Alignment explanation
Indices: 43844183--43844283 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
43844173 TGCACATATA
* * *
43844183 TGCCCCTATTTGTGCTTCGGTACCCCTAAACGCACATACG
1 TGCCCCTGTTTGTACTTCGGTACCCCTAAACACACATACG
* * *
43844223 TGCCCCTGGTTGTACTTCGGTACCCCT-GACTACACATGCG
1 TGCCCCTGTTTGTACTTCGGTACCCCTAAAC-ACACATACG
* *
43844263 -GGCCCTGTTTGTACTTTGGTA
1 TGCCCCTGTTTGTACTTCGGTA
43844284 ATCCTGAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 20 0.39
40 31 0.61
ACGTcount: A:0.16, C:0.32, G:0.22, T:0.31
Consensus pattern (40 bp):
TGCCCCTGTTTGTACTTCGGTACCCCTAAACACACATACG
Found at i:43847384 original size:21 final size:21
Alignment explanation
Indices: 43847360--43847399 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
43847350 TAAAAATTTC
43847360 TAAGGCCCTTAACCATAGAAT
1 TAAGGCCCTTAACCATAGAAT
43847381 TAAGGCCCTTAACCATAGA
1 TAAGGCCCTTAACCATAGA
43847400 GGCAAGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (21 bp):
TAAGGCCCTTAACCATAGAAT
Found at i:43849270 original size:18 final size:18
Alignment explanation
Indices: 43849231--43849273 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
43849221 TATTTCAAAT
*
43849231 TTTTATAGTTATTAAGTA
1 TTTTATAGTTATTAAGGA
*
43849249 TTTTA-AGTTATTTAGGA
1 TTTTATAGTTATTAAGGA
43849266 GTTTTATA
1 -TTTTATA
43849274 TTAACAAGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 10 0.48
19 1 0.05
ACGTcount: A:0.30, C:0.00, G:0.14, T:0.56
Consensus pattern (18 bp):
TTTTATAGTTATTAAGGA
Found at i:43851924 original size:10 final size:10
Alignment explanation
Indices: 43851889--43851931 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
43851879 AATATTCTAA
43851889 CACATATCAAT
1 CACATAT-AAT
*
43851900 CACATATAAG
1 CACATATAAT
43851910 CACATATAAT
1 CACATATAAT
* *
43851920 TACATTTAAT
1 CACATATAAT
43851930 CA
1 CA
43851932 GATTTAGTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 20 0.74
11 7 0.26
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (10 bp):
CACATATAAT
Found at i:43859790 original size:34 final size:35
Alignment explanation
Indices: 43859751--43859826 Score: 109
Period size: 34 Copynumber: 2.2 Consensus size: 35
43859741 CAGCTTAAAC
43859751 ATCCTTAATTTAATCTATATTTTAT-AAGATTAGT
1 ATCCTTAATTTAATCTATATTTTATGAAGATTAGT
* * *
43859785 ATCCTTTATTTAATGTTTATTTTATGAAGATTAGT
1 ATCCTTAATTTAATCTATATTTTATGAAGATTAGT
*
43859820 ATTCTTA
1 ATCCTTA
43859827 TGTTTCGTAG
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
34 22 0.61
35 14 0.39
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (35 bp):
ATCCTTAATTTAATCTATATTTTATGAAGATTAGT
Found at i:43863411 original size:27 final size:28
Alignment explanation
Indices: 43863381--43863480 Score: 100
Period size: 27 Copynumber: 3.7 Consensus size: 28
43863371 TTTAGTTTAC
43863381 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* ** *
43863408 TAAAAATACTAAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
43863435 TAAAATTACTGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
43863462 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
43863481 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:43863440 original size:54 final size:54
Alignment explanation
Indices: 43863381--43863487 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
43863371 TTTAGTTTAC
* * *
43863381 TAAAATTACCGAAATACCCTTAG-TTTGTAAAAATACTAAAATACCCTCGATTTG
1 TAAAATTACCGAAATA-CCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
* * * *
43863435 TAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTT
43863488 ACAGAATTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 5 0.11
54 40 0.89
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTTAGACTTGTAAAAATACCAAAATACCCCCGATTTG
Found at i:43863495 original size:27 final size:27
Alignment explanation
Indices: 43863465--43863525 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
43863455 CGACTTGTAA
43863465 AATTACCAAAGTACCCCCGATTTACAG
1 AATTACCAAAGTACCCCCGATTTACAG
* **** *
43863492 AATTATCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAG
43863519 AATTACC
1 AATTACC
43863526 GTTTTACCCC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAG
Found at i:43863523 original size:81 final size:80
Alignment explanation
Indices: 43863422--43863724 Score: 216
Period size: 81 Copynumber: 3.8 Consensus size: 80
43863412 AATACTAAAA
** * *
43863422 TACCCTCGATTTGTAAAATTACTGAAATACCTTCGACTTGTAAAATTACCAAAGTACCCCCGATT
1 TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
43863487 TACAGAATTATCGTTT
66 TACAGAATTA-CGTTT
* * * *** * * * * *** *
43863503 TACCCCCGATTTACATAATTACCGTTTTACC-CCTAATT-TACATAATTATCGTTTTACCCTCGA
1 TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTA-A-AATTACCAAATTACCCCCGA
*
43863566 CTTACAGAATTACCGTTT
64 TTTACAGAATTA-CGTTT
* * *** * * * * ** **
43863584 TACCCTCGATTTACAGAATTACAGTTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
43863649 TACAGAATTACTGTTT
66 TACAGAATTAC-GTTT
* * *
43863665 TACCCTCGATTTACAAAATTACTAAAATACCCTTAG-TTTGTAAAATTACCAAAATACCCC
1 TACCCTCGATTTACAAAATTACTGAAATA-CCTTCGATTTGTAAAATTACCAAATTACCCC
43863725 TAGTTTGTAA
Statistics
Matches: 170, Mismatches: 46, Indels: 12
0.75 0.20 0.05
Matches are distributed among these distances:
79 2 0.01
80 6 0.04
81 152 0.89
82 8 0.05
83 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.36
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACTGAAATACCTTCGATTTGTAAAATTACCAAATTACCCCCGATT
TACAGAATTACGTTT
Found at i:43863528 original size:27 final size:27
Alignment explanation
Indices: 43863476--43863686 Score: 271
Period size: 27 Copynumber: 7.8 Consensus size: 27
43863466 ATTACCAAAG
* *
43863476 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43863503 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
43863530 TACCC-CTAATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
43863557 TACCCTCGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43863584 TACCCTCGATTTACAGAATTACAGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
43863611 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
43863638 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
43863665 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
43863687 TAAAATACCC
Statistics
Matches: 164, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
26 1 0.01
27 162 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:43863695 original size:27 final size:27
Alignment explanation
Indices: 43863584--43863915 Score: 108
Period size: 27 Copynumber: 12.2 Consensus size: 27
43863574 ATTACCGTTT
* ***
43863584 TACCCTCGATTTACAGAATTAC-AGTTT
1 TACCCTCGATTTACAAAATTACTA-AAA
* * ***
43863611 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTAAAA
* * ****
43863638 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTAAAA
43863665 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
43863692 TACCCT-TAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTACAAAATTACTAAAA
* **
43863719 TACCC-CTAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* **
43863746 TACCC-CTAGTTTGTAAAATTA-TCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAA
* * *** **
43863773 TACCCTTGGTTTGTGAAATTACCGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
* ** *
43863800 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAA
*
43863827 TACCC-CTGATTTACAAAGTTAC-AGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAA
*
43863854 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTCGA-TTTAC--AAAATTACTA-AAA
* * * *
43863883 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTCGATTTACAAAATTACTAAAA
43863910 TACCCT
1 TACCCT
43863916 TGGTTTGTAA
Statistics
Matches: 254, Mismatches: 36, Indels: 30
0.79 0.11 0.09
Matches are distributed among these distances:
26 3 0.01
27 224 0.88
28 8 0.03
29 19 0.07
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTAAAA
Found at i:43863723 original size:54 final size:54
Alignment explanation
Indices: 43863665--43863942 Score: 233
Period size: 54 Copynumber: 5.1 Consensus size: 54
43863655 ATTACTGTTT
43863665 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* ** * *
43863719 TACCC-CTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTAAAATTATCAAAA
1 TACCCTCGA-TTTACAAAATTACT-AAAATACCCTTAGTTTGTAAAATTACCAAAA
* * *** ** * *
43863773 TACCCTTGGTTTGTGAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
* * * *
43863827 TACCC-CTGATTTACAAAGTTAC-AGAAATACCCTTGACTTTCTAAAAATTA-TAGAAA
1 TACCCTC-GATTTACAAAATTACTA-AAATACCCTT-AGTTTGT-AAAATTACCA-AAA
* * * * * *
43863883 TACCATTGGTTTACAAAATTACTGAAATACCCTTGGTTTGTAAATTTACCAAAA
1 TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
*
43863937 CACCCT
1 TACCCT
43863943 TGTAGGATGA
Statistics
Matches: 174, Mismatches: 38, Indels: 24
0.74 0.16 0.10
Matches are distributed among these distances:
53 3 0.02
54 123 0.71
55 11 0.06
56 37 0.21
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAA
Found at i:43863861 original size:81 final size:80
Alignment explanation
Indices: 43863667--43863861 Score: 243
Period size: 81 Copynumber: 2.4 Consensus size: 80
43863657 TACTGTTTTA
* * *
43863667 CCCTCGATTTACAAAATTACTAAAATACCCTTAGTTTGTAAAATTACCAAAATACCCCTAGTTTG
1 CCCTAGATTTAC-AAATTAC-AAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTG
*
43863732 TAAAATTATCAAAATAC
64 TAAAATTACCAAAATAC
* * *
43863749 CCCTAGTTTGTA-AAATTATCAAAATACCCTTGGTTTGTGAAATTACCGAAATA-CCCTCAATTT
1 CCCTAGATT-TACAAATTA-CAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-AATTT
43863812 GTAAAATTACCAAAATAC
63 GTAAAATTACCAAAATAC
43863830 CCCT-GATTTACAAAGTTACAGAAATACCCTTG
1 CCCTAGATTTACAAA-TTACA-AAATACCCTTG
43863862 ACTTTCTAAA
Statistics
Matches: 99, Mismatches: 8, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
79 2 0.02
80 12 0.12
81 75 0.76
82 8 0.08
83 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (80 bp):
CCCTAGATTTACAAATTACAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTAATTTGTA
AAATTACCAAAATAC
Found at i:43863918 original size:27 final size:27
Alignment explanation
Indices: 43863678--43863944 Score: 166
Period size: 27 Copynumber: 9.8 Consensus size: 27
43863668 CCTCGATTTA
*
43863678 CAAAATTACTAAAATACCCTTAGTTTG
1 CAAAATTACTAAAATACCCTTGGTTTG
* * * *
43863705 TAAAATTACCAAAATACCCCTAGTTTG
1 CAAAATTACTAAAATACCCTTGGTTTG
* * *
43863732 TAAAATTA-TCAAAATACCCCTAGTTTG
1 CAAAATTACT-AAAATACCCTTGGTTTG
*
43863759 TAAAATTA-TCAAAATACCCTTGGTTTG
1 CAAAATTACT-AAAATACCCTTGGTTTG
** ** ***
43863786 TGAAATTACCGAAATACCCTCAATTTG
1 CAAAATTACTAAAATACCCTTGGTTTG
* * * * *
43863813 TAAAATTACCAAAATACCCCTGATTTA
1 CAAAATTACTAAAATACCCTTGGTTTG
* *
43863840 CAAAGTTAC-AGAAATACCCTTGACTTT-
1 CAAAATTACTA-AAATACCCTTG-GTTTG
* *
43863867 CTAAAAATTA-TAGAAATACCATTGGTTTA
1 C--AAAATTACTA-AAATACCCTTGGTTTG
*
43863896 CAAAATTACTGAAATACCCTTGGTTTG
1 CAAAATTACTAAAATACCCTTGGTTTG
* * * *
43863923 TAAATTTACCAAAACACCCTTG
1 CAAAATTACTAAAATACCCTTG
43863945 TAGGATGAAA
Statistics
Matches: 198, Mismatches: 33, Indels: 18
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.01
27 171 0.86
28 7 0.04
29 19 0.10
ACGTcount: A:0.40, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
CAAAATTACTAAAATACCCTTGGTTTG
Found at i:43864039 original size:27 final size:27
Alignment explanation
Indices: 43863962--43864039 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
43863952 AAATGACTAA
* *
43863962 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* *
43863989 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
43864016 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
43864040 GAATATGCCT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 1 0.02
27 40 0.95
28 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.21, T:0.22
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:43865225 original size:25 final size:25
Alignment explanation
Indices: 43865196--43865243 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
43865186 TTATAATATG
* *
43865196 AAAATGACCATTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
43865221 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
43865244 GTTTATGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:43865312 original size:20 final size:20
Alignment explanation
Indices: 43865287--43865345 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
43865277 TAAATATGGT
43865287 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
43865307 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
43865327 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
43865346 GGTAATCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:43865327 original size:11 final size:11
Alignment explanation
Indices: 43865291--43865345 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
43865281 TATGGTATGT
43865291 ATGATATGCAC
1 ATGATATGCAC
* *
43865302 ATGAAATG--T
1 ATGATATGCAC
43865311 ATGATATGCAC
1 ATGATATGCAC
*
43865322 ATGATATG--T
1 ATGATATGCAC
43865331 ATGATATGCAC
1 ATGATATGCAC
43865342 ATGA
1 ATGA
43865346 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43865423 original size:24 final size:24
Alignment explanation
Indices: 43865396--43865538 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
43865386 GAGGAAGTGA
43865396 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43865420 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
43865444 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
43865467 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
43865491 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
43865515 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43865539 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
23 22 0.20
24 76 0.70
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:43865489 original size:47 final size:47
Alignment explanation
Indices: 43865396--43865538 Score: 198
Period size: 47 Copynumber: 3.0 Consensus size: 47
43865386 GAGGAAGTGA
43865396 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
* *
43865444 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
43865491 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
43865539 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
47 42 0.49
48 34 0.40
49 10 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:43865512 original size:71 final size:72
Alignment explanation
Indices: 43865396--43865539 Score: 211
Period size: 71 Copynumber: 2.0 Consensus size: 72
43865386 GAGGAAGTGA
*
43865396 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
43865459 CCAGTTAT
65 CCAGTTAT
* ** * *
43865467 AAAAGGGCTTATGCCCTAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
43865532 CAGTTAT
66 CAGTTAT
43865539 A
1 A
43865540 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
71 53 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:43865765 original size:31 final size:31
Alignment explanation
Indices: 43865730--43865824 Score: 172
Period size: 31 Copynumber: 3.1 Consensus size: 31
43865720 CGTTTACAGT
*
43865730 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43865761 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
43865792 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43865823 AA
1 AA
43865825 TATGAAAAGG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43867202 original size:12 final size:13
Alignment explanation
Indices: 43867185--43867214 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
43867175 CAACTTGTCT
43867185 AAAAAA-CAAAAA
1 AAAAAACCAAAAA
43867197 AAAAAACCAAAAA
1 AAAAAACCAAAAA
43867210 AAAAA
1 AAAAA
43867215 GGTGTTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACCAAAAA
Found at i:43879768 original size:40 final size:40
Alignment explanation
Indices: 43879660--43879769 Score: 148
Period size: 40 Copynumber: 2.8 Consensus size: 40
43879650 ATTGAATGAT
* * * * *
43879660 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
* * *
43879700 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
43879740 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGC
43879770 AAATTGTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTAACTAC
Found at i:43879784 original size:40 final size:39
Alignment explanation
Indices: 43879660--43879809 Score: 133
Period size: 40 Copynumber: 3.8 Consensus size: 39
43879650 ATTGAATGAT
* * * * * * *
43879660 ATCCGGGCTAAGTCCCGAAGACATTTATGCTGGTAATTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGA-CAC
*
43879700 ATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTAC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGAC-AC
* *
43879740 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATTGTGA-A-
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC---TAGTGACAC
* *
43879780 ATCCGGGTTAAGTCCCGAAGGCCTTTGTGC
1 ATCCGGGTTAAGACCCGAAGGCATTTGTGC
43879810 GGGTTACCAT
Statistics
Matches: 92, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 86 0.93
41 1 0.01
43 5 0.05
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGACAC
Found at i:43882169 original size:40 final size:39
Alignment explanation
Indices: 43882057--43882175 Score: 159
Period size: 40 Copynumber: 3.0 Consensus size: 39
43882047 AGCTCGGTTA
**
43882057 TAGTAACTCGCACAGATGCCTTCGGGA-CTTAACCCGGATT
1 TAGTAACTCGCACA-ATGCCTTC-GGATCTTAGTCCGGATT
* *
43882097 TAGAAACTCACACAAATGCCTTCGGATCTTAGTCCGGATT
1 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCCGGATT
43882137 TAGTAACTCGCACGAATGCCTTCGGATCTTAGTCCGGAT
1 TAGTAACTCGCAC-AATGCCTTCGGATCTTAGTCCGGAT
43882176 ATAGCCACTT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.04
40 66 0.94
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (39 bp):
TAGTAACTCGCACAATGCCTTCGGATCTTAGTCCGGATT
Found at i:43882198 original size:40 final size:39
Alignment explanation
Indices: 43882010--43882214 Score: 141
Period size: 40 Copynumber: 5.1 Consensus size: 39
43882000 TGGAGTTTAA
* *
43882010 CCGGATATAGCTACTCG-ATCAAATGCCTTCGAGA-CATAG-
1 CCGGATATAGCAACTCGCA-CAAA-GCCTTCG-GATCTTAGT
* * * **
43882049 CTCGGTTATAGTAACTCGCACAGATGCCTTCGGGA-CTTAAC
1 C-CGGATATAGCAACTCGCACA-AAGCCTTC-GGATCTTAGT
* * *
43882090 CCGGATTTAGAAACTCACACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGCAACTCGCACAAA-GCCTTCGGATCTTAGT
* * *
43882130 CCGGATTTAGTAACTCGCACGAATGCCTTCGGATCTTAGT
1 CCGGATATAGCAACTCGCAC-AAAGCCTTCGGATCTTAGT
* * *
43882170 CCGGATATAGCCACTTGGCACAAAGCCTTCGGGA-CTTAGC
1 CCGGATATAGCAAC-TCGCACAAAGCCTTC-GGATCTTAGT
43882210 CCGGA
1 CCGGA
43882215 CATCATTCGA
Statistics
Matches: 134, Mismatches: 22, Indels: 19
0.77 0.13 0.11
Matches are distributed among these distances:
39 5 0.04
40 115 0.86
41 14 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAGCAACTCGCACAAAGCCTTCGGATCTTAGT
Found at i:43885717 original size:46 final size:46
Alignment explanation
Indices: 43885666--43885847 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
43885656 AGTTAAATAT
43885666 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
43885712 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
43885758 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
43885804 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
43885848 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:43885905 original size:47 final size:47
Alignment explanation
Indices: 43885851--43885961 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
43885841 ATGTATGAGA
* * *
43885851 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
43885898 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
43885945 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
43885962 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:43888574 original size:40 final size:40
Alignment explanation
Indices: 43888519--43888782 Score: 429
Period size: 40 Copynumber: 6.6 Consensus size: 40
43888509 CTCGACGATG
*
43888519 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
*
43888559 ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
43888599 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* **
43888639 ATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGACGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
43888679 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
43888719 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
* *
43888759 ATCCGGGCTAGGTCCCGAAGAGCA
1 ATCCGGGCTAAGTTCCGAAGAGCA
43888783 ATCATGCTGG
Statistics
Matches: 214, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 214 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
Found at i:43889510 original size:40 final size:40
Alignment explanation
Indices: 43889446--43889546 Score: 107
Period size: 40 Copynumber: 2.5 Consensus size: 40
43889436 AATGGTATCT
* ** * *
43889446 GGGCTAAGTCCCGAAGGCTTTTGTGCGAGTTACTA-AATCC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA-CC
*
43889486 GGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAACC
1 GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
*
43889526 GGGCT-ATGTCCCGAAGACAAT
1 GGGCTAAT-TCCCGAAGGCAAT
43889547 CGAGTGAGTC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
39 2 0.04
40 48 0.92
41 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
GGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACC
Found at i:43889562 original size:40 final size:40
Alignment explanation
Indices: 43889484--43889580 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
43889474 GTTACTAAAT
* * *
43889484 CCGGGCTAATTCCCGAAGGCAATTGTGTGAATCACTATAA
1 CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
* * *
43889524 CCGGGCT-ATGTCCCGAAGACAATCGAGTGAGTCGCTATAT
1 CCGGGCTAAT-TCCCGAAGACAATCGAGTGAATCACTATAA
* *
43889564 CC-GGTTAAATCCCGAAG
1 CCGGGCTAATTCCCGAAG
43889581 GTACGTGATT
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
39 13 0.28
40 34 0.72
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGGCTAATTCCCGAAGACAATCGAGTGAATCACTATAA
Found at i:43892298 original size:46 final size:46
Alignment explanation
Indices: 43892247--43892428 Score: 337
Period size: 46 Copynumber: 4.0 Consensus size: 46
43892237 AGTTAAATAT
43892247 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
43892293 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
*
43892339 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGAG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
* *
43892385 ATATATGTGTGGTAAAGCCAAATGGCTAGTATGAAACATGTATG
1 ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATG
43892429 AGATGTATAT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.34, C:0.07, G:0.27, T:0.31
Consensus pattern (46 bp):
ATATATGTGTGGTAAAGCCAAATGGCTAGTGTGAAATATGTATGTG
Found at i:43892486 original size:47 final size:47
Alignment explanation
Indices: 43892432--43892542 Score: 168
Period size: 47 Copynumber: 2.4 Consensus size: 47
43892422 ATGTATGAGA
* * *
43892432 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTCAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
* *
43892479 TGTATATAAGTGATAAGGCCGAATGGCCAATGCGATGAATATGAAAG
1 TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
*
43892526 TGTATAAATGTGATAAG
1 TGTATATATGTGATAAG
43892543 TCCCGAGGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.36, C:0.09, G:0.28, T:0.27
Consensus pattern (47 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGCGATGAATATCAAAG
Found at i:43896075 original size:43 final size:42
Alignment explanation
Indices: 43895952--43896106 Score: 127
Period size: 43 Copynumber: 3.6 Consensus size: 42
43895942 TGTTATCATC
* * * * *
43895952 TAAGACCATGTCTGGGAC-GTTGGCATTAATTTGTGATTTAAATG
1 TAAGACCCTGTCTGGGACAG-TGGCA-TCATATATGA-TTACATG
** * * *
43895996 TAAGACTATGTCTGGGACATTGGCATCATATATGATTTCGTG
1 TAAGACCCTGTCTGGGACAGTGGCATCATATATGATTACATG
* *
43896038 TAAGACCCTGTCTGGGACAGTGGCTTCGATATTTGATTACATG
1 TAAGACCCTGTCTGGGACAGTGGCATC-ATATATGATTACATG
43896081 TAAGACCAC-GTCTGGGAC-GTTGGCAT
1 TAAGACC-CTGTCTGGGACAG-TGGCAT
43896107 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.31
43 40 0.44
44 23 0.25
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TAAGACCCTGTCTGGGACAGTGGCATCATATATGATTACATG
Found at i:43907768 original size:39 final size:39
Alignment explanation
Indices: 43907693--43907887 Score: 295
Period size: 39 Copynumber: 5.0 Consensus size: 39
43907683 GATGTGTATG
*
43907693 AATGTGCGAATTGTGCTATCC-GGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43907731 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43907770 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43907809 ATTGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43907848 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
43907888 TTTGTGCGGG
Statistics
Matches: 145, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
38 20 0.14
39 115 0.79
40 10 0.07
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:43907954 original size:79 final size:78
Alignment explanation
Indices: 43907709--43907964 Score: 223
Period size: 78 Copynumber: 3.3 Consensus size: 78
43907699 CGAATTGTGC
* * * * * * *
43907709 TATCC-GGCTAAGCCCGAAGGCAAATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCAAA
1 TATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGA-TATCATAACCGGGCTAAGCCCGAAGGCGAT
** * *
43907772 TGTGCGAATTGTGA
65 TGAACGAGTAGTGA
* * *
43907786 TATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGCGATT
1 TATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGCGATT
** *
43907851 GTGCGAGTTGTGA
66 GAACGAGTAGTGA
* * * * * *
43907864 TATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGTCTATGTCCCGAAGGCGT
1 TATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAG-CCCGAAGGCGA
43907929 TTGAACGAGTAGCT-A
64 TTGAACGAGTAG-TGA
*
43907944 TATCC-GGTTAAACTCCGAAGG
1 TATCCGGGTTAAGC-CCGAAGG
43907965 TATGTGATTT
Statistics
Matches: 155, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
77 5 0.03
78 78 0.50
79 46 0.30
80 25 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
TATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGCGATT
GAACGAGTAGTGA
Found at i:43915832 original size:37 final size:39
Alignment explanation
Indices: 43915722--43915912 Score: 284
Period size: 39 Copynumber: 5.0 Consensus size: 39
43915712 GATGTGTATG
43915722 AATGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43915760 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43915799 AATGTGCGAATTGTGATAT-C-GGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43915836 ATTGTGCG-A-TATGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43915873 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
43915913 TTTGTGCGGG
Statistics
Matches: 140, Mismatches: 7, Indels: 10
0.89 0.04 0.06
Matches are distributed among these distances:
35 7 0.05
36 2 0.01
37 48 0.34
38 22 0.16
39 52 0.37
40 9 0.06
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:43915879 original size:74 final size:75
Alignment explanation
Indices: 43915721--43915952 Score: 295
Period size: 74 Copynumber: 3.0 Consensus size: 75
43915711 AGATGTGTAT
* *
43915721 GAATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCT
1 GAATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAATTGTGCG-A-TATGATATCCGGGCT
43915786 AAGCCCGAAGGC
64 AAGCCCGAAGGC
*
43915798 AAATGTGCGAATTGTGATAT-CGGCTAAGCCCGAAGGCAATTGTGCGATATGATATCCGGGCTAA
1 GAATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAATTGTGCGATATGATATCCGGGCTAA
43915862 GCCCGAAGGC
66 GCCCGAAGGC
* * * * * * *
43915872 GATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGG
1 GAATGTGCGAATTGTGATATCC-GGCTAAG-CCCGAAGGCAATTGTGC--GATATGATATCCGGG
*
43915937 CTATGTCCCGAAGGC
62 CTAAG-CCCGAAGGC
43915952 G
1 G
43915953 TTTGAACGAG
Statistics
Matches: 137, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
74 43 0.31
75 2 0.01
76 31 0.23
77 35 0.26
79 16 0.12
80 10 0.07
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (75 bp):
GAATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAATTGTGCGATATGATATCCGGGCTAA
GCCCGAAGGC
Found at i:43915972 original size:80 final size:75
Alignment explanation
Indices: 43915734--43915989 Score: 219
Period size: 74 Copynumber: 3.3 Consensus size: 75
43915724 TGTGCGAATT
* * * * * *
43915734 GTGATATCCGGCTAAGCCCGAAGGCAAATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 GTGATATCCGGTTAAGCCCGAAGGCAATTGTGCG-A-TATCATAACCGGGCTAAGCCCGAAGGCG
* ** * *
43915799 AATGTGCGAATT
64 ATTGAACGAGTA
* * *
43915811 GTGATAT-CGGCTAAGCCCGAAGGCAATTGTGCGATATGATATCCGGGCTAAGCCCGAAGGCGAT
1 GTGATATCCGGTTAAGCCCGAAGGCAATTGTGCGATATCATAACCGGGCTAAGCCCGAAGGCGAT
** *
43915875 TGTGCGAGTT
66 TGAACGAGTA
* * *
43915885 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAG
1 GTGATATCC-GGTTAAG-CCCGAAGGCAATTGTGC--GATATCATAACCGGGCTAAG-CCCGAAG
*
43915950 GCGTTTGAACGAGTA
61 GCGATTGAACGAGTA
*
43915965 GCT-ATATCCGGTTAAACTCCGAAGG
1 G-TGATATCCGGTTAAGC-CCGAAGG
43915990 TATGTGATTT
Statistics
Matches: 155, Mismatches: 16, Indels: 14
0.84 0.09 0.08
Matches are distributed among these distances:
74 43 0.28
75 2 0.01
76 31 0.20
77 23 0.15
78 1 0.01
79 29 0.19
80 25 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (75 bp):
GTGATATCCGGTTAAGCCCGAAGGCAATTGTGCGATATCATAACCGGGCTAAGCCCGAAGGCGAT
TGAACGAGTA
Found at i:43922422 original size:13 final size:13
Alignment explanation
Indices: 43922404--43922493 Score: 157
Period size: 13 Copynumber: 7.1 Consensus size: 13
43922394 GCTCGATAGG
43922404 GACACGCCCGTGT
1 GACACGCCCGTGT
43922417 GACACGCCCGTGT
1 GACACGCCCGTGT
*
43922430 GACACGCCAGTGT
1 GACACGCCCGTGT
43922443 GACACG-CCGT-T
1 GACACGCCCGTGT
43922454 GACACGCCCGTGT
1 GACACGCCCGTGT
43922467 GACACGCCCGTGT
1 GACACGCCCGTGT
43922480 GACACGCCCGTGT
1 GACACGCCCGTGT
43922493 G
1 G
43922494 CGATTGCTTA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
11 7 0.10
12 7 0.10
13 59 0.81
ACGTcount: A:0.17, C:0.37, G:0.31, T:0.16
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:43924556 original size:18 final size:19
Alignment explanation
Indices: 43924506--43924556 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
43924496 ATTGCAAAAG
*
43924506 GAGTTTTAGTTTTATTTAT
1 GAGTTTTAGTTTTATTTAA
* *
43924525 TA-TATTAGGTTTTA-TTAA
1 GAGTTTTA-GTTTTATTTAA
43924543 GAGTTTTAGTTTTA
1 GAGTTTTAGTTTTA
43924557 CTTATTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (19 bp):
GAGTTTTAGTTTTATTTAA
Found at i:43929071 original size:39 final size:39
Alignment explanation
Indices: 43928996--43929190 Score: 295
Period size: 39 Copynumber: 5.0 Consensus size: 39
43928986 GATGTGTATG
43928996 AATGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
43929034 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
*
43929073 AATGTGCGAATTGTGATATCCTGGCTAAGCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43929112 ATTGTGCGAGA-TATGATATCCGGGCTAAGCCCGAAGGCG
1 AATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGGCA
* * *
43929151 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCA
1 AATGTGCGAATTGTGATATCCGGGCTAAG-CCCGAAGGCA
43929191 TTTGTGCGGG
Statistics
Matches: 144, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
38 21 0.15
39 113 0.78
40 10 0.07
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.23
Consensus pattern (39 bp):
AATGTGCGAATTGTGATATCCGGGCTAAGCCCGAAGGCA
Found at i:43929129 original size:78 final size:77
Alignment explanation
Indices: 43928996--43929229 Score: 308
Period size: 78 Copynumber: 3.0 Consensus size: 77
43928986 GATGTGTATG
* *
43928996 AATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAAATGTGCGA-ATTGTGATATCCGGGCT
1 AATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAATTGTGCGAGA-TATGATATCCGGGCT
43929060 AAGCCCGAAGGCA
65 AAGCCCGAAGGCA
43929073 AATGTGCGAATTGTGATATCCTGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCT
1 AATGTGCGAATTGTGATATCC-GGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCT
*
43929138 AAGCCCGAAGGCG
65 AAGCCCGAAGGCA
* * * * * * * *
43929151 ATTGTGCGAGTTGTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGC
1 AATGTGCGAATTGTGATATCC-GGCTAAG-CCCGAAGGCAATTGTGCGAGATATGATATCCGGGC
*
43929216 TATGTCCCGAAGGC
64 TAAG-CCCGAAGGC
43929230 GTTTGAACGA
Statistics
Matches: 140, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
77 21 0.15
78 76 0.54
79 34 0.24
80 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.24
Consensus pattern (77 bp):
AATGTGCGAATTGTGATATCCGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCTA
AGCCCGAAGGCA
Found at i:43929256 original size:79 final size:78
Alignment explanation
Indices: 43929008--43929267 Score: 231
Period size: 78 Copynumber: 3.3 Consensus size: 78
43928998 TGTGCGAATT
* * * * *
43929008 GTGATATCC-GGCTAAGCCCGAAGGCAAATGTGCGA-ATTGTGATATCCGGGCTAAGCCCGAAGG
1 GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGA-TATCATAACCGGGCTAAGCCCGAAGG
* * ** * *
43929071 CAAATGTGCGAATT
65 CGATTGAACGAGTA
* * * *
43929085 GTGATATCCTGGCTAAGCCCGAAGGCAATTGTGCGAGATATGATATCCGGGCTAAGCCCGAAGGC
1 GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGC
** *
43929150 GATTGTGCGAGTT
66 GATTGAACGAGTA
* * * *
43929163 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTATCATAACCGGGCTATGTCCCGAAG
1 GTGATATCCGGGTTAAG-CCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAG-CCCGAAG
*
43929228 GCGTTTGAACGAGTA
64 GCGATTGAACGAGTA
*
43929243 GCT-ATATCC-GGTTAAACTCCGAAGG
1 G-TGATATCCGGGTTAAGC-CCGAAGG
43929268 TATGTGATTT
Statistics
Matches: 159, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
77 9 0.06
78 77 0.48
79 47 0.30
80 25 0.16
81 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.23
Consensus pattern (78 bp):
GTGATATCCGGGTTAAGCCCGAAGGCAATTGTGCGAGATATCATAACCGGGCTAAGCCCGAAGGC
GATTGAACGAGTA
Found at i:43935708 original size:13 final size:13
Alignment explanation
Indices: 43935690--43935768 Score: 149
Period size: 13 Copynumber: 6.1 Consensus size: 13
43935680 GCTCGATAGG
43935690 GACACGCCCGTGT
1 GACACGCCCGTGT
43935703 GACACGCCCGTGT
1 GACACGCCCGTGT
*
43935716 GACACGCCAGTGT
1 GACACGCCCGTGT
43935729 GACACGCCCGTGT
1 GACACGCCCGTGT
43935742 GACACGCCCGTGT
1 GACACGCCCGTGT
43935755 GACACGCCCGTGT
1 GACACGCCCGTGT
43935768 G
1 G
43935769 CGATTGCTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 64 1.00
ACGTcount: A:0.16, C:0.37, G:0.32, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:43937830 original size:18 final size:19
Alignment explanation
Indices: 43937780--43937830 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
43937770 ATTGCAAAAG
*
43937780 GAGTTTTAGTTTTATTTAT
1 GAGTTTTAGTTTTATTTAA
* *
43937799 TA-TATTAGGTTTTA-TTAA
1 GAGTTTTA-GTTTTATTTAA
43937817 GAGTTTTAGTTTTA
1 GAGTTTTAGTTTTA
43937831 CTTATTTTCT
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.25, C:0.00, G:0.16, T:0.59
Consensus pattern (19 bp):
GAGTTTTAGTTTTATTTAA
Found at i:43942505 original size:40 final size:39
Alignment explanation
Indices: 43942341--43942523 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
43942331 AAATTGAATG
* *
43942341 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
43942380 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
43942420 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
43942460 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
43942499 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
43942524 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 25, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 15 0.13
40 92 0.81
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:43942548 original size:80 final size:81
Alignment explanation
Indices: 43942380--43942568 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
43942370 GCTGGAAATT
* * * *
43942380 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
43942445 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
43942461 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
43942524 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
43942540 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
43942569 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:43946845 original size:29 final size:29
Alignment explanation
Indices: 43946704--43946833 Score: 165
Period size: 29 Copynumber: 4.5 Consensus size: 29
43946694 GACAAGATTG
* * * * *
43946704 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATA
* *
43946734 GCACTAAGTGTGCGAGTTTG--ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATATATA
43946762 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
43946791 GCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATA
43946820 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
43946834 GATTCACTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
27 2 0.02
28 20 0.22
29 51 0.57
30 15 0.17
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (29 bp):
GCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:43953940 original size:30 final size:30
Alignment explanation
Indices: 43953904--43954061 Score: 211
Period size: 29 Copynumber: 5.4 Consensus size: 30
43953894 GACAAGATTG
* * * *
43953904 GCACTAAGTGTGCGGGTTTAAAATTGTACT-
1 GCACTAAGTGTGCGAGCTGAAAATTATA-TA
*
43953934 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
43953962 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43953991 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43954021 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
43954050 GCACTAAGTGTG
1 GCACTAAGTGTG
43954062 TGGATTCACT
Statistics
Matches: 118, Mismatches: 4, Indels: 13
0.87 0.03 0.10
Matches are distributed among these distances:
27 3 0.03
28 21 0.18
29 47 0.40
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:43954031 original size:59 final size:57
Alignment explanation
Indices: 43953934--43954061 Score: 213
Period size: 59 Copynumber: 2.2 Consensus size: 57
43953924 AAATTGTACT
*
43953934 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
43953991 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTG---ATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
43954050 GCACTAAGTGTG
1 GCACTAAGTGTG
43954062 TGGATTCACT
Statistics
Matches: 67, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
56 2 0.03
57 16 0.24
59 49 0.73
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTCTGATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
Found at i:43959392 original size:34 final size:34
Alignment explanation
Indices: 43959352--43959421 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
43959342 GTTTAAAATT
*
43959352 TTTAATTAATTAAATTTATTTTATTAAAAATTTA
1 TTTAATTAATTAAATTTATTTCATTAAAAATTTA
43959386 TTTAATTAATTAAATTTATTTCATTAAAAATTTA
1 TTTAATTAATTAAATTTATTTCATTAAAAATTTA
43959420 TT
1 TT
43959422 CTCATCACGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (34 bp):
TTTAATTAATTAAATTTATTTCATTAAAAATTTA
Found at i:43959418 original size:16 final size:16
Alignment explanation
Indices: 43959363--43959426 Score: 83
Period size: 16 Copynumber: 3.8 Consensus size: 16
43959353 TTAATTAATT
*
43959363 AAATTTATTTTATTAA
1 AAATTTATTTCATTAA
*
43959379 AAATTTATTTAATTAA
1 AAATTTATTTCATTAA
43959395 TTAAATTTATTTCATTAA
1 --AAATTTATTTCATTAA
43959413 AAATTTATTCTCAT
1 AAATTTATT-TCAT
43959427 CACGTTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
16 24 0.56
17 4 0.09
18 15 0.35
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATTTATTTCATTAA
Found at i:43959583 original size:15 final size:15
Alignment explanation
Indices: 43959535--43959583 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
43959525 AAAATAATAT
43959535 TATAAATAATTAAAA
1 TATAAATAATTAAAA
*
43959550 TAT-AATATTTCAAAA
1 TATAAATAATT-AAAA
*
43959565 -ATAAATAACTAAAA
1 TATAAATAATTAAAA
43959579 TATAA
1 TATAA
43959584 TAAGGGCAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 12 0.43
15 16 0.57
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (15 bp):
TATAAATAATTAAAA
Found at i:43959585 original size:14 final size:14
Alignment explanation
Indices: 43959539--43959586 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
43959529 TAATATTATA
43959539 AATAATTAAAATAT
1 AATAATTAAAATAT
*
43959553 AATATTTCAAAA-AT
1 AATAATT-AAAATAT
*
43959567 AAATAACTAAAATAT
1 -AATAATTAAAATAT
43959582 AATAA
1 AATAA
43959587 GGGCAAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (14 bp):
AATAATTAAAATAT
Found at i:43960310 original size:19 final size:20
Alignment explanation
Indices: 43960286--43960334 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
43960276 CAGGTGTGTT
43960286 TTTTTTATATTAAAA-AATA
1 TTTTTTATATTAAAATAATA
* *
43960305 TTTTTTA-ACTAAAATATTA
1 TTTTTTATATTAAAATAATA
*
43960324 TTTTTTTTATT
1 TTTTTTATATT
43960335 GCTCCTATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.25
19 16 0.67
20 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTATATTAAAATAATA
Found at i:43960384 original size:27 final size:27
Alignment explanation
Indices: 43960346--43960407 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
43960336 CTCCTATTTT
* * *
43960346 AGAGGTGCGACTAGTTGAGCCTTTCTC
1 AGAGGCGCGACTAATTGAGCCTATCTC
*
43960373 AGAGGCGCGACTAATTGTGCCTATCTC
1 AGAGGCGCGACTAATTGAGCCTATCTC
*
43960400 AAAGGCGC
1 AGAGGCGC
43960408 AAATGGTGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (27 bp):
AGAGGCGCGACTAATTGAGCCTATCTC
Found at i:43961170 original size:26 final size:24
Alignment explanation
Indices: 43961141--43961212 Score: 83
Period size: 26 Copynumber: 2.9 Consensus size: 24
43961131 TATAAATTTA
43961141 AATATTTTTAATAAAAACAAAAAAAT
1 AATA-TTTTAATAAAAA-AAAAAAAT
*
43961167 AATATTTTATTTAAAAAACAAAAAAT
1 AATATTTTA-ATAAAAAA-AAAAAAT
*
43961193 -ATATTTTAATATAAAAAAAA
1 AATATTTTAATAAAAAAAAAA
43961213 GAGTCGTGCC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 4 0.10
24 6 0.15
25 14 0.34
26 17 0.41
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (24 bp):
AATATTTTAATAAAAAAAAAAAAT
Found at i:43961211 original size:27 final size:27
Alignment explanation
Indices: 43961141--43961211 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
43961131 TATAAATTTA
43961141 AATA-TTT-TTAATAAAAACAAAAAAAT
1 AATATTTTATTAA-AAAAACAAAAAAAT
*
43961167 AATATTTTATTTAAAAAAC-AAAAAAT
1 AATATTTTATTAAAAAAACAAAAAAAT
43961193 -ATATTTTAATATAAAAAAA
1 AATATTTT-AT-TAAAAAAA
43961212 AGAGTCGTGC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 7 0.18
26 13 0.33
27 16 0.41
28 3 0.08
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (27 bp):
AATATTTTATTAAAAAAACAAAAAAAT
Found at i:43962169 original size:22 final size:23
Alignment explanation
Indices: 43962128--43962172 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
43962118 GTATAGTTTT
43962128 TTTTGTTATATTTTTATTTAATA
1 TTTTGTTATATTTTTATTTAATA
* *
43962151 TTTTG-TATTTTTTTCTTTAATA
1 TTTTGTTATATTTTTATTTAATA
43962173 GGCGGAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.71
Consensus pattern (23 bp):
TTTTGTTATATTTTTATTTAATA
Found at i:43964278 original size:22 final size:21
Alignment explanation
Indices: 43964236--43964278 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
43964226 TTCATCGATG
** *
43964236 AAAAATATTTTTTTTTTAAAT
1 AAAAATATTTTTCATTAAAAT
43964257 AAAAATCATTTTTCATTAAAAT
1 AAAAAT-ATTTTTCATTAAAAT
43964279 TGGCCTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAAATATTTTTCATTAAAAT
Found at i:43971786 original size:34 final size:34
Alignment explanation
Indices: 43971748--43971815 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
43971738 TTTCAAAGTG
*
43971748 TTAAACTTTTAAGATATTATACCCTTTTTTCTTT
1 TTAAACTTTTAAGATATTACACCCTTTTTTCTTT
*
43971782 TTAAACTTTTAATATATTACACCCTTTTTTCTTT
1 TTAAACTTTTAAGATATTACACCCTTTTTTCTTT
43971816 CATTTTCTTC
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:0.26, C:0.16, G:0.01, T:0.56
Consensus pattern (34 bp):
TTAAACTTTTAAGATATTACACCCTTTTTTCTTT
Found at i:43975652 original size:39 final size:40
Alignment explanation
Indices: 43975542--43975669 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 40
43975532 TCGTTCAAAC
* * * ** * *
43975542 GCCTTCGAGACATAGCCCGGTTATGGTAACCCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
* *
43975582 GCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
43975622 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
43975661 GCCTTCGGG
1 GCCTTCGGG
43975670 TACCAGGTAC
Statistics
Matches: 77, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 37 0.48
40 40 0.52
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATCATAACTCGCACAATT
Found at i:43975695 original size:15 final size:15
Alignment explanation
Indices: 43975675--43975713 Score: 60
Period size: 17 Copynumber: 2.5 Consensus size: 15
43975665 TCGGGTACCA
43975675 GGTACCAATTGGAGT
1 GGTACCAATTGGAGT
43975690 GGTACCAAAATTGGAGT
1 GGTACC--AATTGGAGT
43975707 GGTACCA
1 GGTACCA
43975714 GGTACCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 7 0.32
17 15 0.68
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.23
Consensus pattern (15 bp):
GGTACCAATTGGAGT
Found at i:43975703 original size:17 final size:17
Alignment explanation
Indices: 43975681--43975713 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
43975671 ACCAGGTACC
43975681 AATTGGAGTGGTACCAA
1 AATTGGAGTGGTACCAA
43975698 AATTGGAGTGGTACCA
1 AATTGGAGTGGTACCA
43975714 GGTACCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.12, G:0.30, T:0.24
Consensus pattern (17 bp):
AATTGGAGTGGTACCAA
Found at i:43979179 original size:40 final size:39
Alignment explanation
Indices: 43979132--43979302 Score: 207
Period size: 39 Copynumber: 4.4 Consensus size: 39
43979122 CTTCAGGACA
* ** *
43979132 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTTCGGG-CT
* * *
43979172 TAACCCGGATATCACAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGCT
*
43979211 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGCT
* * * * * *
43979250 TAGCCCAGATGTCACAATTTGCACAATTGCCTTCGGGCT
1 TAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGCT
43979289 TAGCCCGGATATCA
1 TAGCCCGGATATCA
43979303 CTCGAACATT
Statistics
Matches: 115, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 85 0.74
40 30 0.26
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (39 bp):
TAGCCCGGATATCATAACTCGCACAAATGCCTTCGGGCT
Found at i:43979230 original size:39 final size:39
Alignment explanation
Indices: 43979151--43979303 Score: 234
Period size: 39 Copynumber: 3.9 Consensus size: 39
43979141 TATGGTAACC
* *
43979151 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
43979191 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* * *
43979230 CGCACAATTGCCTTCGGGCTTAGCCCAGATGTCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
43979269 TGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
43979304 TCGAACATTT
Statistics
Matches: 103, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 86 0.83
40 17 0.17
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:43979288 original size:78 final size:79
Alignment explanation
Indices: 43979132--43979302 Score: 245
Period size: 78 Copynumber: 2.2 Consensus size: 79
43979122 CTTCAGGACA
* ** *
43979132 TAGCCCGGTTATGGTAACCCGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACA
1 TAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCAGATATCACAACTCGCACA
43979197 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
* * * * * *
43979211 TAGCCCGGATATCATAACTCGCACAATTGCCTTCGGG-CTTAGCCCAGATGTCACAATTTGCACA
1 TAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCAGATATCACAACTCGCACA
43979275 ATTGCCTTCGGGCT
66 ATTGCCTTCGGGCT
43979289 TAGCCCGGATATCA
1 TAGCCCGGATATCA
43979303 CTCGAACATT
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
78 50 0.61
79 32 0.39
ACGTcount: A:0.24, C:0.30, G:0.21, T:0.25
Consensus pattern (79 bp):
TAGCCCGGATATCATAACCCGCACAAATGCCTTCGGGACTTAACCCAGATATCACAACTCGCACA
ATTGCCTTCGGGCT
Found at i:43983219 original size:29 final size:29
Alignment explanation
Indices: 43983187--43983243 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
43983177 GAAGCTTTAT
* *
43983187 CTAAAAATGG-CCTATTCCCGTAATTTTTC
1 CTAAAAATGGTCC-ATTCACATAATTTTTC
*
43983216 CTAAAATTGGTCCATTCACATAATTTTT
1 CTAAAAATGGTCCATTCACATAATTTTT
43983244 TTTAGCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (29 bp):
CTAAAAATGGTCCATTCACATAATTTTTC
Found at i:43983805 original size:9 final size:9
Alignment explanation
Indices: 43983793--43983836 Score: 61
Period size: 9 Copynumber: 4.8 Consensus size: 9
43983783 TTCACATCAT
43983793 TCTCTCAAC
1 TCTCTCAAC
43983802 TCTCTCAAAC
1 TCTCTC-AAC
* *
43983812 CCTCTCAAG
1 TCTCTCAAC
43983821 TCTCTCAAC
1 TCTCTCAAC
43983830 TCTCTCA
1 TCTCTCA
43983837 TTTCGATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.73
10 8 0.27
ACGTcount: A:0.23, C:0.43, G:0.02, T:0.32
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:43988556 original size:22 final size:22
Alignment explanation
Indices: 43988528--43988571 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
43988518 TGGTCCTATC
43988528 CAGCCATGACATATGAAATGTA
1 CAGCCATGACATATGAAATGTA
43988550 CAGCCATGACATATGAAATGTA
1 CAGCCATGACATATGAAATGTA
43988572 TGTGTGCTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (22 bp):
CAGCCATGACATATGAAATGTA
Found at i:43989754 original size:12 final size:12
Alignment explanation
Indices: 43989739--43989770 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
43989729 GGCCAAATTT
43989739 AAGGCTTCAACC
1 AAGGCTTCAACC
43989751 AAGGCTTCAACC
1 AAGGCTTCAACC
43989763 AAGGCTTC
1 AAGGCTTC
43989771 TGAAGTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.19
Consensus pattern (12 bp):
AAGGCTTCAACC
Found at i:43992186 original size:80 final size:78
Alignment explanation
Indices: 43992093--43992250 Score: 237
Period size: 80 Copynumber: 2.0 Consensus size: 78
43992083 TAAGAGTTAG
43992093 ATTGAAATCAAATTAAATTATTAATTATT-AGAGGATTAAAAGTACCATTACTCTATTTTATAAG
1 ATTGAAATCAAATTAAATTATTAATTATTGA-AGGATTAAAAGTACCATTACTCTATTTTATAAG
*
43992157 GGGCAAGCACTTTTA
65 GGCCAAGCA-TTTTA
* * **
43992172 ATTGCAAATTAAATTAAATTATTAATTATTGAAGGGTTAAAAGTGTCATTACTCTATTTTATAAG
1 ATTG-AAATCAAATTAAATTATTAATTATTGAAGGATTAAAAGTACCATTACTCTATTTTATAAG
43992237 GGCCAAGCATTTTA
65 GGCCAAGCATTTTA
43992251 CTTTCATCCA
Statistics
Matches: 72, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
79 9 0.12
80 62 0.86
81 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (78 bp):
ATTGAAATCAAATTAAATTATTAATTATTGAAGGATTAAAAGTACCATTACTCTATTTTATAAGG
GCCAAGCATTTTA
Found at i:43993584 original size:26 final size:26
Alignment explanation
Indices: 43993548--43993601 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
43993538 CTATAAGTTA
43993548 TTTATAAGATTGAAAGACATATTTTT
1 TTTATAAGATTGAAAGACATATTTTT
43993574 TTTATAAGATTGAAAGACATATTTTT
1 TTTATAAGATTGAAAGACATATTTTT
43993600 TT
1 TT
43993602 ATGTAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (26 bp):
TTTATAAGATTGAAAGACATATTTTT
Found at i:43994142 original size:2 final size:2
Alignment explanation
Indices: 43994135--43994165 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
43994125 AGACAAAATA
43994135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43994166 GGTTTTAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:43994195 original size:15 final size:16
Alignment explanation
Indices: 43994175--43994211 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
43994165 AGGTTTTAAG
43994175 ATAAATAAGAAT-AAA
1 ATAAATAAGAATGAAA
*
43994190 ATAAATAAGAATGAGA
1 ATAAATAAGAATGAAA
43994206 ATAAAT
1 ATAAAT
43994212 GATAGAACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.22
Consensus pattern (16 bp):
ATAAATAAGAATGAAA
Found at i:43994590 original size:43 final size:46
Alignment explanation
Indices: 43994528--43994615 Score: 119
Period size: 43 Copynumber: 2.0 Consensus size: 46
43994518 TGTCCAGTTG
43994528 TGGTTACTTCCACACTGC-T-TCTTTT-TTTGTTGTTTCTTGGTTA
1 TGGTTACTTCCACACTGCTTCTCTTTTATTTGTTGTTTCTTGGTTA
* * *
43994571 TGGTTGCTTCCACATTGCTTCCTCTTTTATTTTTTGTTTCTTGGT
1 TGGTTACTTCCACACTGCTT-CTCTTTTATTTGTTGTTTCTTGGT
43994616 AGCGTTTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 16 0.42
44 1 0.03
46 6 0.16
47 15 0.39
ACGTcount: A:0.08, C:0.19, G:0.16, T:0.57
Consensus pattern (46 bp):
TGGTTACTTCCACACTGCTTCTCTTTTATTTGTTGTTTCTTGGTTA
Found at i:43995629 original size:47 final size:46
Alignment explanation
Indices: 43995571--43995665 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 46
43995561 TTGTGAAAGC
*
43995571 TTAGTATGAGCTTTTTTAAAGTTTGCTCTTTGCTTAGTAATATTAGG
1 TTAGTAAGAGCTTTTTTAAAGTTTGCTCTTTGCTTAGTAATATT-GG
43995618 TTAGTAAGAGCTTTTTTAAAGTTTGCTCTTTGCTTAGTAATATTGG
1 TTAGTAAGAGCTTTTTTAAAGTTTGCTCTTTGCTTAGTAATATTGG
43995664 TT
1 TT
43995666 TTCCATATTT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 4 0.09
47 43 0.91
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.49
Consensus pattern (46 bp):
TTAGTAAGAGCTTTTTTAAAGTTTGCTCTTTGCTTAGTAATATTGG
Found at i:43995926 original size:29 final size:29
Alignment explanation
Indices: 43995884--43995943 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
43995874 AAATAGCTTC
*
43995884 TTCATTATTCGCAAATCATCGTAACCGTT
1 TTCATTATTCGCAAATCATCATAACCGTT
43995913 TTCATTATTCGCAAATCATCATAACCGTT
1 TTCATTATTCGCAAATCATCATAACCGTT
43995942 TT
1 TT
43995944 TACTTAGTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.40
Consensus pattern (29 bp):
TTCATTATTCGCAAATCATCATAACCGTT
Found at i:43996104 original size:17 final size:15
Alignment explanation
Indices: 43996082--43996119 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
43996072 GCAAATCAAA
43996082 TTATTTTTTGAAAATCG
1 TTATTTTTTGAAAA--G
43996099 TTA-TTTTTGAAAAG
1 TTATTTTTTGAAAAG
43996113 TTATTTT
1 TTATTTT
43996120 CAGAAAACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 3 0.15
16 10 0.50
17 3 0.15
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.58
Consensus pattern (15 bp):
TTATTTTTTGAAAAG
Found at i:43996115 original size:14 final size:15
Alignment explanation
Indices: 43996086--43996119 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
43996076 ATCAAATTAT
43996086 TTTTTGAAAATCGTTA
1 TTTTTGAAAA-CGTTA
43996102 TTTTTGAAAA-GTTA
1 TTTTTGAAAACGTTA
43996116 TTTT
1 TTTT
43996120 CAGAAAACCG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
16 10 0.56
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (15 bp):
TTTTTGAAAACGTTA
Found at i:43996844 original size:38 final size:38
Alignment explanation
Indices: 43996790--43996864 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
43996780 CAGATCATAC
43996790 ATACTGTATTTAATAATACTCATATTAATTTTATTTAT
1 ATACTGTATTTAATAATACTCATATTAATTTTATTTAT
*
43996828 ATACTGTATTTCATAATACTCATATTAATTTTATTTA
1 ATACTGTATTTAATAATACTCATATTAATTTTATTTA
43996865 CTTCTATTTC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.52
Consensus pattern (38 bp):
ATACTGTATTTAATAATACTCATATTAATTTTATTTAT
Found at i:43997069 original size:14 final size:12
Alignment explanation
Indices: 43997040--43997072 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
43997030 AGGTTCTGTG
43997040 TCACACACGACC
1 TCACACACGACC
43997052 TCACACACGACC
1 TCACACACGACC
43997064 -CATCACACG
1 TCA-CACACG
43997073 GGCGTGTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 18 0.90
ACGTcount: A:0.33, C:0.48, G:0.09, T:0.09
Consensus pattern (12 bp):
TCACACACGACC
Found at i:43999830 original size:27 final size:27
Alignment explanation
Indices: 43999798--43999849 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
43999788 TTATGGAGAG
43999798 CATAATAATTGAAGTATTACAAACCAA
1 CATAATAATTGAAGTATTACAAACCAA
*
43999825 CATAATAATTTAAGTATTACAAACC
1 CATAATAATTGAAGTATTACAAACC
43999850 TTACATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (27 bp):
CATAATAATTGAAGTATTACAAACCAA
Found at i:44008202 original size:25 final size:25
Alignment explanation
Indices: 44008178--44008225 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
44008168 ATGTGGAATA
*
44008178 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
44008202 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
44008226 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:44008236 original size:25 final size:24
Alignment explanation
Indices: 44008186--44008238 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
44008176 TAATGTATAG
**
44008186 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
44008210 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
44008235 AATA
1 AATA
44008239 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:44010142 original size:13 final size:13
Alignment explanation
Indices: 44010124--44010148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44010114 TTTGAAACAT
44010124 AGAAATTAAAAGC
1 AGAAATTAAAAGC
44010137 AGAAATTAAAAG
1 AGAAATTAAAAG
44010149 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:44010221 original size:68 final size:67
Alignment explanation
Indices: 44010139--44010403 Score: 390
Period size: 67 Copynumber: 3.9 Consensus size: 67
44010129 TTAAAAGCAG
* * * *
44010139 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTAAT-CTTTAAAAAGTAGATTTTGAAAA
44010204 ACGA
64 ACGA
*
44010208 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCTTTAAAAAGTAGATTTTGAAAAAC
44010273 GA
66 GA
*
44010275 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCTTTAAAAAGTAGATTTTGAAAAAC
44010340 GA
66 GA
* * * * *
44010342 AAATTAAAGGCTCAACTCGCCTTTCGCAATATGAATTAA-CTTTTGAAAA-TAGAATTTGAAAA
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATC-TTTAAAAAGTAGATTTTGAAAA
44010404 TACCTTAGCG
Statistics
Matches: 184, Mismatches: 11, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
66 13 0.07
67 133 0.72
68 33 0.18
69 5 0.03
ACGTcount: A:0.41, C:0.16, G:0.15, T:0.28
Consensus pattern (67 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTAATCTTTAAAAAGTAGATTTTGAAAAAC
GA
Found at i:44010284 original size:67 final size:67
Alignment explanation
Indices: 44010139--44010375 Score: 393
Period size: 67 Copynumber: 3.5 Consensus size: 67
44010129 TTAAAAGCAG
* * * * *
44010139 AAATTAAAAGGCTCAACTCACCTCTCGCAACATGAGTTAATAATTTGAAAAGTAGATTTTGAGAA
1 AAATT-AAAGGCTCAACTCACCTCTCGCAATATGAGTTGAT-CTTTAAAAAGTAGATTTTGAAAA
44010204 ACGA
64 ACGA
44010208 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
44010273 GA
66 GA
44010275 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
44010340 GA
66 GA
* *
44010342 AAATTAAAGGCTCAACTCGCCTTTCGCAATATGA
1 AAATTAAAGGCTCAACTCACCTCTCGCAATATGA
44010376 ATTAACTTTT
Statistics
Matches: 161, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
67 123 0.76
68 33 0.20
69 5 0.03
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (67 bp):
AAATTAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATCTTTAAAAAGTAGATTTTGAAAAAC
GA
Found at i:44010583 original size:71 final size:70
Alignment explanation
Indices: 44010349--44010599 Score: 270
Period size: 72 Copynumber: 3.5 Consensus size: 70
44010339 CGAAAATTAA
* * * * * * *
44010349 AGGCTCAACTCGCCTTTCGCAATATGAATTAACTTTTGAAAATAGAATTTGAAAATACCTTAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATA-AA-TTGAAATTACCTCAGCG
* *
44010414 TGCCGCA
64 TGCCCCG
* **
44010421 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAT-TTAATAGGAATTGAAATTACCTCAGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TGAAAATA--AATTGAAATTACCTCAGC
44010485 GTGCCCCG
63 GTGCCCCG
* * * *
44010493 AGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-ATAAATTGAAATTACCTCAGCGT
* **
44010558 GTCTTG
65 GCCCCG
44010564 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
44010600 CTTGGAAACA
Statistics
Matches: 152, Mismatches: 23, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
71 56 0.37
72 89 0.59
73 7 0.05
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.32
Consensus pattern (70 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAAATTGAAATTACCTCAGCGTG
CCCCG
Found at i:44010741 original size:71 final size:71
Alignment explanation
Indices: 44010625--44010918 Score: 228
Period size: 71 Copynumber: 3.9 Consensus size: 71
44010615 TAAAAAGCAG
* * *
44010625 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
44010690 AAACAT
66 AAACAT
* * *
44010696 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTCT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTT-T
44010761 TGGAAAACAT
64 T-G-AAACAT
* * ** * ** * * * * *
44010771 GAATTAAAAAGTAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATA
1 AAATTGAAAA-T---ACCTCAACGTGCC-CTGAG-G--CTCA-ACTC-A--C-C-TCTCGCAATA
*
44010836 TGAGTTGATTTTTGAAACAT
52 TGAGCTGATTTTTGAAACAT
* * *
44010856 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
1 AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTT
44010919 CTTGGAAAAC
Statistics
Matches: 167, Mismatches: 38, Indels: 36
0.69 0.16 0.15
Matches are distributed among these distances:
71 74 0.44
72 4 0.02
73 3 0.02
74 1 0.01
75 14 0.08
76 4 0.02
77 3 0.02
79 7 0.04
80 4 0.02
81 7 0.04
83 3 0.02
84 4 0.02
85 14 0.08
86 1 0.01
87 3 0.02
88 4 0.02
89 17 0.10
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.30
Consensus pattern (71 bp):
AAATTGAAAATACCTCAACGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTG
AAACAT
Found at i:44010859 original size:160 final size:160
Alignment explanation
Indices: 44010467--44011007 Score: 998
Period size: 160 Copynumber: 3.4 Consensus size: 160
44010457 ATTTAATAGG
* * * *
44010467 AATTGAAATTACCTCAGCGTGCCCCGAGGTTCAACTCACTTCTCGCGATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
*
44010532 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
* *
44010597 TTTCTTGG-AAACATGAACTAAAAAGCAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
44010626 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
44010691 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
44010756 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
44010786 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
44010851 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
66 AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
44010916 TTTCTTGGAAAACATGAATTAAAAAGTAGA
131 TTTCTTGGAAAACATGAATTAAAAAGTAGA
44010946 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCG--ATATGAGTTGATTTTTG
1 AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG
44011008 GAAAAAACAA
Statistics
Matches: 374, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
158 17 0.05
159 133 0.36
160 224 0.60
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (160 bp):
AATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGA
AACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGAT
TTTCTTGGAAAACATGAATTAAAAAGTAGA
Found at i:44024749 original size:15 final size:15
Alignment explanation
Indices: 44024729--44024797 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44024719 GTATCTTGGG
44024729 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44024744 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44024759 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44024774 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44024789 TTTCTTTAT
1 TTTCTTTAT
44024798 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:44024798 original size:30 final size:30
Alignment explanation
Indices: 44024720--44024807 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44024710 CATAGTATCG
* * * *
44024720 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44024750 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44024780 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44024808 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:44032079 original size:15 final size:15
Alignment explanation
Indices: 44032059--44032127 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
44032049 GTATCTTGGG
44032059 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
44032074 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
44032089 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
44032104 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
44032119 TTTCTTTAT
1 TTTCTTTAT
44032128 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:44032128 original size:30 final size:30
Alignment explanation
Indices: 44032050--44032137 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
44032040 CATAGTATCG
* * * *
44032050 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
44032080 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
44032110 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
44032138 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:44039871 original size:25 final size:25
Alignment explanation
Indices: 44039847--44039894 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
44039837 ATGTGGAATA
*
44039847 ATGTATAGAATACA-ATATTAAAAT
1 ATGTACAGAATACACATATTAAAAT
* *
44039871 ATTTACATAATACACATATTAAAA
1 ATGTACAGAATACACATATTAAAA
44039895 ATAACTAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTACAGAATACACATATTAAAAT
Found at i:44039905 original size:25 final size:24
Alignment explanation
Indices: 44039855--44039907 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
44039845 TAATGTATAG
**
44039855 AATACAATATTAAAATATTTACAT
1 AATACAATATTAAAATAACTACAT
44039879 AATACACATATTAAAAATAACTA-AT
1 AATACA-ATATT-AAAATAACTACAT
44039904 AATA
1 AATA
44039908 ATATTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 6 0.24
25 11 0.44
26 8 0.32
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.32
Consensus pattern (24 bp):
AATACAATATTAAAATAACTACAT
Found at i:44043364 original size:13 final size:13
Alignment explanation
Indices: 44043345--44043383 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
44043335 ATGGGCCCAC
44043345 ATGCCCGTGTGGG
1 ATGCCCGTGTGGG
* *
44043358 TTGCCCGTGTGGC
1 ATGCCCGTGTGGG
44043371 ATGCCCGTGTGGG
1 ATGCCCGTGTGGG
44043384 CTGACACGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.05, C:0.26, G:0.44, T:0.26
Consensus pattern (13 bp):
ATGCCCGTGTGGG
Found at i:44044221 original size:38 final size:38
Alignment explanation
Indices: 44044170--44044242 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
44044160 TCTGACAACC
*
44044170 GAACCAAAAATAACATTCTCTTGCTAACGCAGGGAACT
1 GAACCAAAAATAACATTCACTTGCTAACGCAGGGAACT
44044208 GAACCAAAAATAACATTCACTTGCTAACGCAGGGA
1 GAACCAAAAATAACATTCACTTGCTAACGCAGGGA
44044243 TTCGAACTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.19
Consensus pattern (38 bp):
GAACCAAAAATAACATTCACTTGCTAACGCAGGGAACT
Found at i:44047602 original size:17 final size:16
Alignment explanation
Indices: 44047564--44047602 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
44047554 ATTTAATTGG
*
44047564 TTGATTTTTAGTTTAA
1 TTGATTTTTAGGTTAA
44047580 TTGATTTTTAGGTTAA
1 TTGATTTTTAGGTTAA
44047596 TTAGATT
1 TT-GATT
44047603 AATTAATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (16 bp):
TTGATTTTTAGGTTAA
Found at i:44049185 original size:20 final size:20
Alignment explanation
Indices: 44049150--44049188 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44049140 ATTCAATTTA
**
44049150 AGATAATTAATTATTTAATT
1 AGATAATTAAGGATTTAATT
44049170 AGATAATTAAGGATTTAAT
1 AGATAATTAAGGATTTAAT
44049189 CGATCATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (20 bp):
AGATAATTAAGGATTTAATT
Found at i:44052376 original size:46 final size:46
Alignment explanation
Indices: 44052318--44052492 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
44052308 TGTAACCCGC
* *
44052318 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
44052364 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * *
44052414 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
44052457 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
44052493 ATGCTCAACC
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:44052454 original size:93 final size:93
Alignment explanation
Indices: 44052325--44052496 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
44052315 CGCCCATAAG
* * * *
44052325 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44052390 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
44052418 CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
44052483 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
44052497 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:44052512 original size:46 final size:46
Alignment explanation
Indices: 44052367--44052505 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 46
44052357 TTCGCATCCA
44052367 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * * *
44052415 TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G-GATGCTCAACCATC
44052460 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
44052506 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 3 0.04
46 26 0.36
47 28 0.38
48 3 0.04
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:44052948 original size:30 final size:30
Alignment explanation
Indices: 44052914--44052973 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44052904 ATTTAATACG
44052914 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44052944 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44052974 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44064518 original size:25 final size:25
Alignment explanation
Indices: 44064484--44064535 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
44064474 GTGTAGAAGA
44064484 GAATGTAGCTTAGACTTATGTTTGT
1 GAATGTAGCTTAGACTTATGTTTGT
44064509 GAATGTAGCTTAGACTTATGTTTGT
1 GAATGTAGCTTAGACTTATGTTTGT
44064534 GA
1 GA
44064536 CTTTTTAGGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.08, G:0.25, T:0.42
Consensus pattern (25 bp):
GAATGTAGCTTAGACTTATGTTTGT
Found at i:44070889 original size:13 final size:13
Alignment explanation
Indices: 44070871--44070896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44070861 TCCAACCCAG
44070871 AGCTTTGTGAAGT
1 AGCTTTGTGAAGT
44070884 AGCTTTGTGAAGT
1 AGCTTTGTGAAGT
44070897 TTCATCCAAA
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:0.23, C:0.08, G:0.31, T:0.38
Consensus pattern (13 bp):
AGCTTTGTGAAGT
Found at i:44078658 original size:19 final size:19
Alignment explanation
Indices: 44078634--44078691 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
44078624 AATTAAATTG
* *
44078634 TTGGAGTGACAATCACAGC
1 TTGGAGCGAAAATCACAGC
*
44078653 TTGGAGCGAAAATCATAGC
1 TTGGAGCGAAAATCACAGC
* *
44078672 TTGGAAC-AAAATCACCGC
1 TTGGAGCGAAAATCACAGC
44078690 TT
1 TT
44078692 CACCGTCTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 11 0.33
19 22 0.67
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.22
Consensus pattern (19 bp):
TTGGAGCGAAAATCACAGC
Found at i:44083596 original size:10 final size:10
Alignment explanation
Indices: 44083583--44083613 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
44083573 TTTATTTATG
44083583 ATTTTTTAAA
1 ATTTTTTAAA
44083593 A-TTTTTAAA
1 ATTTTTTAAA
44083602 ATTTTTTAAA
1 ATTTTTTAAA
44083612 AT
1 AT
44083614 ATTTCTTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:44086932 original size:18 final size:18
Alignment explanation
Indices: 44086909--44087000 Score: 107
Period size: 18 Copynumber: 5.2 Consensus size: 18
44086899 GAGGCTGTAC
*
44086909 ATATATATGTATATACAT
1 ATATATATATATATACAT
*
44086927 ATATATGTATATAT--AT
1 ATATATATATATATACAT
* *
44086943 GTATATACATATATACAT
1 ATATATATATATATACAT
* *
44086961 GTATATACATATATACAT
1 ATATATATATATATACAT
*
44086979 ATATACATATATATACAT
1 ATATATATATATATACAT
44086997 ATAT
1 ATAT
44087001 TTATTATAAA
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
16 13 0.20
18 51 0.80
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.42
Consensus pattern (18 bp):
ATATATATATATATACAT
Found at i:44086994 original size:26 final size:26
Alignment explanation
Indices: 44086906--44087000 Score: 122
Period size: 26 Copynumber: 3.7 Consensus size: 26
44086896 AGTGAGGCTG
*
44086906 TACATATATAT--GTATATACATATA
1 TACATATATATACATATATACATATA
** **
44086930 TATGTATATATATGTATATACATATA
1 TACATATATATACATATATACATATA
*
44086956 TACATGTATATACATATATACATATA
1 TACATATATATACATATATACATATA
44086982 TACATATATATACATATAT
1 TACATATATATACATATAT
44087001 TTATTATAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
24 9 0.15
26 52 0.85
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.42
Consensus pattern (26 bp):
TACATATATATACATATATACATATA
Found at i:44087000 original size:8 final size:8
Alignment explanation
Indices: 44086906--44086991 Score: 91
Period size: 8 Copynumber: 10.2 Consensus size: 8
44086896 AGTGAGGCTG
44086906 TACATATA
1 TACATATA
**
44086914 TATGTATA
1 TACATATA
44086922 TACATATA
1 TACATATA
*
44086930 TATGTATATA
1 TA--CATATA
**
44086940 TATGTATA
1 TACATATA
44086948 TACATATA
1 TACATATA
44086956 TACATGTATA
1 TACA--TATA
44086966 TACATATA
1 TACATATA
44086974 TACATATA
1 TACATATA
44086982 TACATATA
1 TACATATA
44086990 TA
1 TA
44086992 TACATATATT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
8 51 0.77
10 15 0.23
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (8 bp):
TACATATA
Done.