Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 151 of 163
Found at i:49920850 original size:11 final size:11
Alignment explanation
Indices: 49920775--49920851 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
49920765 AAACTAATCA
49920775 TCTCTCAAATT
1 TCTCTCAAATT
49920786 TCCTCTC-AATT
1 T-CTCTCAAATT
49920797 TC-CTCTAAATT
1 TCTCTC-AAATT
49920808 TC-CTCTAAATT
1 TCTCTC-AAATT
49920819 TGCTCTCAAATT
1 T-CTCTCAAATT
*
49920831 CCT-TCCAAATT
1 TCTCT-CAAATT
49920842 TCTCTCAAAT
1 TCTCTCAAAT
49920852 CCATATTTAA
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 37 0.65
12 12 0.21
13 3 0.05
ACGTcount: A:0.26, C:0.30, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:49921978 original size:21 final size:21
Alignment explanation
Indices: 49921952--49921992 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
49921942 ATGCTCGATT
*
49921952 ACCCTAACACTTAAGTTAAAA
1 ACCCTAACACTTAACTTAAAA
*
49921973 ACCCTAACCCTTAACTTAAA
1 ACCCTAACACTTAACTTAAA
49921993 TATAATTTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.24
Consensus pattern (21 bp):
ACCCTAACACTTAACTTAAAA
Found at i:49925419 original size:126 final size:126
Alignment explanation
Indices: 49925148--49925718 Score: 819
Period size: 127 Copynumber: 4.5 Consensus size: 126
49925138 CCCAAACATG
*
49925148 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACATATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * *
49925213 TAGAAGCG-TTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGACCC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAGGA--C
* *
49925275 CTACTGTAG-AAAAACGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
49925339 TTGAAGCGTTTTTTAAACTATTTGCTCCGAAACGTCAACTCAAAATTATTTCTTTCAGGAC
66 TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAGGAC
* * * *
49925400 CTATTGTAGCAAAAGCGCGTCCATGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
49925465 TTGAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGAC
66 TTGAAGCG-TTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAGGAC
* *
49925527 CTACTGTAGCAAAAGCGCGTCCACGATGGCGCGATTTCACAAATTCTTCTCATAA-AACATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
*
49925591 CTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGAC
65 CTTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAGGAC
* * * * * * * * *
49925652 CCACTGTAGCAAAAGCACGTACACGTGGGTGCGACTTCAGAAATCCTTCTGATAA-AGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
49925716 CTT
65 CTT
49925719 TGATTTTATC
Statistics
Matches: 402, Mismatches: 38, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
125 73 0.18
126 161 0.40
127 166 0.41
128 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (126 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TTGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCAGGAC
Found at i:49925662 original size:252 final size:251
Alignment explanation
Indices: 49925150--49925718 Score: 849
Period size: 252 Copynumber: 2.3 Consensus size: 251
49925140 CAAACATGCT
* * *
49925150 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACATATTCTTCTCAAATAGCATCCTGCTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTT
*
49925215 GAAGCGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGACCCCTACT
66 GAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGA-CCCTACT
* *
49925280 GTAGAAAAACGCGTCCATGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTTGAAG
130 GTAGAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGCTTGAAG
* * *
49925345 CGTTTTTTAAACTATTTGCTCCGAAACGTCAACTCAAAATTATTTCTTTCAGGACCT
195 CGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCC
* * *
49925402 ATTGTAGCAAAAGCGCGTCCATGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCTTGCTT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTT
49925467 GAAGCGTTTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGA-CCTAC
66 GAAGCG--TTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGACCCTAC
* *
49925531 TGTAGCAAAAGCGCGTCCACGATGGCGCGATTTCACAAATTCTTCTCATAA-AACATCCTGCTTG
129 TGTAG-AAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAACATCCTGCTTG
* *
49925595 AAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAGGACCC
192 AAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCC
* * * * * * *
49925654 ACTGTAGCAAAAGCACGTACACGTGGGTGCGACTTCAGAAATCCTTCTGATAA-AGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCA-AATAGCATCCTGCT
49925718 T
65 T
49925719 TGATTTTATC
Statistics
Matches: 286, Mismatches: 26, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
252 136 0.48
253 98 0.34
254 52 0.18
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.31
Consensus pattern (251 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGTGCGATTTCACAAATTCTTCTCAAATAGCATCCTGCTT
GAAGCGTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTATTCCTGGACCCTACTG
TAGAAAAACGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAACATCCTGCTTGAAGC
GTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAGGACCC
Found at i:49930399 original size:32 final size:32
Alignment explanation
Indices: 49930363--49930431 Score: 138
Period size: 32 Copynumber: 2.2 Consensus size: 32
49930353 TACGCCCCAT
49930363 ATGTTAGTAGGATGTCATTTATTCACCTATGA
1 ATGTTAGTAGGATGTCATTTATTCACCTATGA
49930395 ATGTTAGTAGGATGTCATTTATTCACCTATGA
1 ATGTTAGTAGGATGTCATTTATTCACCTATGA
49930427 ATGTT
1 ATGTT
49930432 TGTGTGCATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.42
Consensus pattern (32 bp):
ATGTTAGTAGGATGTCATTTATTCACCTATGA
Found at i:49932644 original size:2 final size:2
Alignment explanation
Indices: 49932631--49932667 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
49932621 CTCTCCGTCC
*
49932631 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
49932668 ACACACACAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:49932644 original size:10 final size:10
Alignment explanation
Indices: 49932616--49932665 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
49932606 CAGCAGGTTT
*
49932616 CCTCCCTCTC
1 CCTCTCTCTC
* *
49932626 CGTCCCTCTC
1 CCTCTCTCTC
49932636 CCTCTCTCTC
1 CCTCTCTCTC
*
49932646 TCTCTCTCTC
1 CCTCTCTCTC
*
49932656 TCTCTCTCTC
1 CCTCTCTCTC
49932666 TCACACACAC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 36 1.00
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (10 bp):
CCTCTCTCTC
Found at i:49936789 original size:22 final size:20
Alignment explanation
Indices: 49936756--49936795 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
49936746 TTCTTCTTCT
*
49936756 TGTTTTTTTTATTGTTTTGC
1 TGTTTTTTTTATTATTTTGC
49936776 TGTTATTTTCTTATTATTTT
1 TGTT-TTTT-TTATTATTTT
49936796 CTCAATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 4 0.24
22 9 0.53
ACGTcount: A:0.10, C:0.05, G:0.10, T:0.75
Consensus pattern (20 bp):
TGTTTTTTTTATTATTTTGC
Found at i:49939681 original size:23 final size:23
Alignment explanation
Indices: 49939650--49939745 Score: 122
Period size: 23 Copynumber: 4.2 Consensus size: 23
49939640 ATAAGTGCCA
*
49939650 CACTGATATGTAGCCGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
*
49939673 CACTAATATGTAGCCGTAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
* *
49939696 CACTGAA-ATGTAGTCGTAGCTAC
1 CACT-AATATGTAGCCGAAGCTAC
* *
49939719 CACTAAAATGTAGCTGAAGCTAC
1 CACTAATATGTAGCCGAAGCTAC
49939742 CACT
1 CACT
49939746 GATCAATAAC
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
22 2 0.03
23 61 0.94
24 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTAATATGTAGCCGAAGCTAC
Found at i:49939717 original size:46 final size:46
Alignment explanation
Indices: 49939650--49939747 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
49939640 ATAAGTGCCA
* * *
49939650 CACTGATATGTAGCCGAAGCTACCACTAATATGTAGCCGTAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTAAAATGTAGCCGAAGCTAC
* * *
49939696 CACTGAAATGTAGTCGTAGCTACCACTAAAATGTAGCTGAAGCTAC
1 CACTGAAATGTAGCCGAAGCTACCACTAAAATGTAGCCGAAGCTAC
49939742 CACTGA
1 CACTGA
49939748 TCAATAACAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (46 bp):
CACTGAAATGTAGCCGAAGCTACCACTAAAATGTAGCCGAAGCTAC
Found at i:49943641 original size:41 final size:41
Alignment explanation
Indices: 49943579--49943694 Score: 153
Period size: 41 Copynumber: 2.8 Consensus size: 41
49943569 TTTTGCAAGT
* *
49943579 TCAGGCTTTATGCCTAGCAGGCTTTATGCCGGTGAATTATA
1 TCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAAATATA
* * *
49943620 TCAGACTTTATGTCTAGCAGGCTTTGTGCCGGTGAAATGTA
1 TCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAAATATA
**
49943661 TC-GAGCTTGGTGCCTAGCAGGCTTTATGCCGGTG
1 TCAGA-CTTTATGCCTAGCAGGCTTTATGCCGGTG
49943695 TTATATACAA
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
40 2 0.03
41 63 0.97
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (41 bp):
TCAGACTTTATGCCTAGCAGGCTTTATGCCGGTGAAATATA
Found at i:49949665 original size:11 final size:11
Alignment explanation
Indices: 49949629--49949709 Score: 94
Period size: 11 Copynumber: 7.4 Consensus size: 11
49949619 TAAATCCTTT
*
49949629 CTCTC-AATTT
1 CTCTCAAATTC
49949639 CTCTCCAATATT-
1 CTCT-CAA-ATTC
49949651 CTCTCAAATTC
1 CTCTCAAATTC
49949662 CTCTCAAATTC
1 CTCTCAAATTC
*
49949673 CTCTCAAAATC
1 CTCTCAAATTC
* *
49949684 CTTTCAATTTC
1 CTCTCAAATTC
49949695 CTCTCAAATTC
1 CTCTCAAATTC
49949706 CTCT
1 CTCT
49949710 TAAAAAAGCT
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
10 7 0.11
11 46 0.75
12 5 0.08
13 3 0.05
ACGTcount: A:0.25, C:0.35, G:0.00, T:0.41
Consensus pattern (11 bp):
CTCTCAAATTC
Found at i:49949725 original size:22 final size:23
Alignment explanation
Indices: 49949700--49949746 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
49949690 ATTTCCTCTC
49949700 AAATTCCTCTT-AAAAAAGCTTT
1 AAATTCCTCTTAAAAAAAGCTTT
** *
49949722 AAATTTTTTTTAAAAAAAGCTTT
1 AAATTCCTCTTAAAAAAAGCTTT
49949745 AA
1 AA
49949747 TTTTATTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (23 bp):
AAATTCCTCTTAAAAAAAGCTTT
Found at i:49949748 original size:22 final size:24
Alignment explanation
Indices: 49949711--49949755 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
49949701 AATTCCTCTT
49949711 AAAAAAGCTTTAAATTTT-TTTTA
1 AAAAAAGCTTTAAATTTTATTTTA
49949734 AAAAAAGCTTT-AATTTTATTTT
1 AAAAAAGCTTTAAATTTTATTTT
49949756 TTTATTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (24 bp):
AAAAAAGCTTTAAATTTTATTTTA
Found at i:49949926 original size:21 final size:20
Alignment explanation
Indices: 49949901--49949966 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 20
49949891 ATTTTTTTGA
49949901 TTTATGTAATTTTAAATAATT
1 TTTAT-TAATTTTAAATAATT
*
49949922 TTTATT--TTATTATA-AATT
1 TTTATTAATT-TTAAATAATT
49949940 TCTTA-TAATTTCTAAATAATT
1 T-TTATTAATTT-TAAATAATT
49949961 TTTATT
1 TTTATT
49949967 TTATTATTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
18 8 0.22
19 8 0.22
20 9 0.25
21 11 0.31
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTATTAATTTTAAATAATT
Found at i:49951415 original size:126 final size:126
Alignment explanation
Indices: 49951186--49951482 Score: 488
Period size: 126 Copynumber: 2.4 Consensus size: 126
49951176 TCAAGCCAAA
* * *
49951186 CAGGAGCTACTGTAACAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTACTGACAAAGC
*
49951251 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTTAGAAACGTCTACTCAAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
* *
49951312 CAGGAGCTATTGTAGCAAAAGCGCGACCACGTGGGAGCTTCTTTTAGTACTTTTACTGACAAAGC
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTACTGACAAAGC
* *
49951377 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCGAAATTATTTTTT
66 ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
** *
49951438 CAGGAGCTACTGTAGCAAAAAAGCGTCCATGTGGGAGCTT-TTTTA
1 CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTA
49951483 AATTAACACT
Statistics
Matches: 158, Mismatches: 13, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
125 5 0.03
126 153 0.97
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (126 bp):
CAGGAGCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTTTACTGACAAAGC
ATCCTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTT
Found at i:49952281 original size:20 final size:20
Alignment explanation
Indices: 49952258--49952297 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
49952248 AATTTTAAAA
*
49952258 TATTTTTAAAATACTTTTTT
1 TATTTTTAAAATAATTTTTT
49952278 TATTTTTAAAATAATTTTTT
1 TATTTTTAAAATAATTTTTT
49952298 AGTGTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTTTTAAAATAATTTTTT
Found at i:49952305 original size:20 final size:20
Alignment explanation
Indices: 49952262--49952305 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
49952252 TTAAAATATT
* *
49952262 TTTAAAATACTTTTTTTATT
1 TTTAAAATACATTTTTTATG
49952282 TTTAAAATA-ATTTTTTAGTG
1 TTTAAAATACATTTTTTA-TG
49952302 TTTA
1 TTTA
49952306 TTAAAAAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTAAAATACATTTTTTATG
Found at i:49977047 original size:5 final size:5
Alignment explanation
Indices: 49977037--49977069 Score: 57
Period size: 5 Copynumber: 6.4 Consensus size: 5
49977027 TATTTAAATA
49977037 TATAT TATAT TATAT TATAT TATAT ATATAT TA
1 TATAT TATAT TATAT TATAT TATAT -TATAT TA
49977070 AAAATATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 22 0.81
6 5 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:49977392 original size:15 final size:16
Alignment explanation
Indices: 49977352--49977392 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
49977342 GTGGTTGAAC
49977352 AAAAATA-ATTTATATT
1 AAAAATATATTTATA-T
*
49977368 AAATATATATTTATA-
1 AAAAATATATTTATAT
49977383 AAAAATATAT
1 AAAAATATAT
49977393 CAACCAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 7 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AAAAATATATTTATAT
Found at i:49977793 original size:20 final size:20
Alignment explanation
Indices: 49977729--49977793 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
49977719 ATTAATAAAT
*
49977729 TCTTATAAATTTTGCT-TAA
1 TCTTATAAATTTTGGTATAA
*
49977748 TCATTATAAATTTTTGTATAA
1 TC-TTATAAATTTTGGTATAA
*
49977769 CCTTATAAATTTTGGTATAA
1 TCTTATAAATTTTGGTATAA
49977789 TCTTA
1 TCTTA
49977794 AGAATTCTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.05
20 33 0.85
21 4 0.10
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (20 bp):
TCTTATAAATTTTGGTATAA
Found at i:49977799 original size:20 final size:20
Alignment explanation
Indices: 49977729--49977809 Score: 78
Period size: 20 Copynumber: 4.0 Consensus size: 20
49977719 ATTAATAAAT
49977729 TCTTATAAATTTT-GCT-TAA
1 TCTTATAAATTTTAG-TATAA
*
49977748 TCATTATAAATTTTTGTATAA
1 TC-TTATAAATTTTAGTATAA
* *
49977769 CCTTATAAATTTTGGTATAA
1 TCTTATAAATTTTAGTATAA
*
49977789 TCTTA-AGAATTCTAGTATAA
1 TCTTATA-AATTTTAGTATAA
49977809 T
1 T
49977810 AAAATATTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
19 3 0.06
20 45 0.85
21 5 0.09
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (20 bp):
TCTTATAAATTTTAGTATAA
Found at i:49977807 original size:40 final size:40
Alignment explanation
Indices: 49977730--49977808 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
49977720 TTAATAAATT
* *
49977730 CTTATAAATTTTGCTTAATCATTATAAATTTTTGTATAAC
1 CTTATAAATTTTGCTTAATCATTATAAATTCTAGTATAAC
*
49977770 CTTATAAATTTTGGTATAATC-TTA-AGAATTCTAGTATAA
1 CTTATAAATTTTGCT-TAATCATTATA-AATTCTAGTATAA
49977809 TAAAATATTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
39 1 0.03
40 28 0.82
41 5 0.15
ACGTcount: A:0.37, C:0.09, G:0.08, T:0.47
Consensus pattern (40 bp):
CTTATAAATTTTGCTTAATCATTATAAATTCTAGTATAAC
Found at i:49980288 original size:2 final size:2
Alignment explanation
Indices: 49980281--49980307 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49980271 CTCAAACCCA
49980281 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 A
49980308 ACTTATAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49981291 original size:19 final size:19
Alignment explanation
Indices: 49981248--49981284 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
49981238 CTTATTTAGA
* *
49981248 AATTTTTTATCATACTTAT
1 AATTTTTTATAATAATTAT
49981267 AATTTTTTATAATAATTA
1 AATTTTTTATAATAATTA
49981285 ATATTTTACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTTTTTATAATAATTAT
Found at i:49983932 original size:14 final size:14
Alignment explanation
Indices: 49983913--49983942 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
49983903 CTTACACCAA
49983913 TGCCTAAGTATGTG
1 TGCCTAAGTATGTG
49983927 TGCCTAAGTATGTG
1 TGCCTAAGTATGTG
49983941 TG
1 TG
49983943 GGACAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (14 bp):
TGCCTAAGTATGTG
Found at i:49993195 original size:19 final size:20
Alignment explanation
Indices: 49993173--49993222 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
49993163 CTATCGCATG
*
49993173 TTTAATTTACTTT-TAATTT
1 TTTATTTTACTTTATAATTT
**
49993192 TTTATTTTA-TTTATCTTTT
1 TTTATTTTACTTTATAATTT
49993211 TTTATTTTACTT
1 TTTATTTTACTT
49993223 GTGAAAATAC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 3 0.12
19 21 0.81
20 2 0.08
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTATTTTACTTTATAATTT
Found at i:49993277 original size:3 final size:3
Alignment explanation
Indices: 49993269--49993305 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49993259 CTATCTGTAC
49993269 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
49993306 CTCAAATCTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:50006071 original size:31 final size:29
Alignment explanation
Indices: 50006009--50006072 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
50005999 CATAGCCCAA
* *
50006009 TGACTTAAATGAAATTTTGAATAGTTCAG
1 TGACTTAAATGAAAATTTAAATAGTTCAG
*
50006038 TGACTTAAATGAAAACATTTAAATAGTTTAG
1 TGACTTAAATG-AAA-ATTTAAATAGTTCAG
50006069 TGAC
1 TGAC
50006073 CAAATTGTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 11 0.37
30 3 0.10
31 16 0.53
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.36
Consensus pattern (29 bp):
TGACTTAAATGAAAATTTAAATAGTTCAG
Found at i:50006342 original size:29 final size:29
Alignment explanation
Indices: 50006305--50006378 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
50006295 AAAAATAAAA
50006305 ATTTACCAAAATAT-TACAACTTTTTTTTT
1 ATTTACCAAAATATATA-AACTTTTTTTTT
50006334 ATTTACCAAAATATATAAACTTTTTTTTT
1 ATTTACCAAAATATATAAACTTTTTTTTT
50006363 ATTTACCAAAATATAT
1 ATTTACCAAAATATAT
50006379 TAAAAAAAAC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
29 42 0.95
30 2 0.05
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (29 bp):
ATTTACCAAAATATATAAACTTTTTTTTT
Found at i:50006455 original size:27 final size:26
Alignment explanation
Indices: 50006417--50006473 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 26
50006407 CCTGATCACC
*
50006417 CCAATGCCATTGGCGGCACCAAAGGTG
1 CCAATGCCATTGACGGCACC-AAGGTG
*
50006444 CCAATGCCATTGACGGCACCAATGTG
1 CCAATGCCATTGACGGCACCAAGGTG
50006470 CCAA
1 CCAA
50006474 AGGACTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
26 9 0.32
27 19 0.68
ACGTcount: A:0.28, C:0.32, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAATGCCATTGACGGCACCAAGGTG
Found at i:50008646 original size:11 final size:11
Alignment explanation
Indices: 50008632--50008681 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
50008622 AATGACAGCA
*
50008632 AAATAGCAACG
1 AAATAACAACG
50008643 AAATAACAAC-
1 AAATAACAACG
50008653 AAATCAACAACG
1 AAAT-AACAACG
*
50008665 AAATAATAACG
1 AAATAACAACG
*
50008676 GAATAA
1 AAATAA
50008682 AAAATTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 4 0.12
11 26 0.76
12 4 0.12
ACGTcount: A:0.62, C:0.16, G:0.10, T:0.12
Consensus pattern (11 bp):
AAATAACAACG
Found at i:50009973 original size:17 final size:19
Alignment explanation
Indices: 50009931--50009975 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
50009921 ATCAAATTTG
*
50009931 ATTATATTTAACTTGGTAT
1 ATTATATTTAACATGGTAT
*
50009950 ATTATATTTAA-ATGTTAT
1 ATTATATTTAACATGGTAT
50009968 -TTATATTT
1 ATTATATTT
50009976 TTGAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 5 0.21
19 11 0.46
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTATATTTAACATGGTAT
Found at i:50011625 original size:17 final size:17
Alignment explanation
Indices: 50011603--50011636 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
50011593 ATTATTTTTT
*
50011603 TAAAATTTAATTTTAAA
1 TAAAATTTAATCTTAAA
50011620 TAAAATTTAATCTTAAA
1 TAAAATTTAATCTTAAA
50011637 AATTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (17 bp):
TAAAATTTAATCTTAAA
Found at i:50012281 original size:58 final size:58
Alignment explanation
Indices: 50012214--50012331 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
50012204 TTACCCTTGT
50012214 TTCAAAACTAAAATAGGTACGCCGAAAGAGACAGACATTTGCTTATTTATTTATGTAA
1 TTCAAAACTAAAATAGGTACGCCGAAAGAGACAGACATTTGCTTATTTATTTATGTAA
50012272 TTCAAAACTAAAATAGGTACGCCGAAAGAGACAGACATTTGCTTATTTATTTATGTAA
1 TTCAAAACTAAAATAGGTACGCCGAAAGAGACAGACATTTGCTTATTTATTTATGTAA
50012330 TT
1 TT
50012332 TATTATGATC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (58 bp):
TTCAAAACTAAAATAGGTACGCCGAAAGAGACAGACATTTGCTTATTTATTTATGTAA
Found at i:50017786 original size:16 final size:17
Alignment explanation
Indices: 50017767--50017803 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
50017757 AAAGTGATAG
50017767 AATAG-AAAAACTAAAA
1 AATAGCAAAAACTAAAA
*
50017783 AATAGCAAAAAGTAAAA
1 AATAGCAAAAACTAAAA
50017800 AATA
1 AATA
50017804 AAATTCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (17 bp):
AATAGCAAAAACTAAAA
Found at i:50021932 original size:96 final size:96
Alignment explanation
Indices: 50021785--50021978 Score: 280
Period size: 96 Copynumber: 2.0 Consensus size: 96
50021775 CCGTCAGAGC
* *
50021785 CAAGTTCCTTCTGTCCCTCAACGAGATGCTTACTATACTCCCCCTGCCCAAACTCAGGAGATTCC
1 CAAGTTCCTTCTGTCCCTCAACGAGATGCTTACTATACACCCCCTGCCCAAACTCAGGAGACTCC
* * * *
50021850 AAGTCAGCAATTCTCGATGCCTCCTACTCAG
66 AAGTCAACAATTCCCAATGCCTCCTACACAG
* * * * *
50021881 CAAGTTCCTTCTGTCCCTCAGCGAGATGCTTACTATCCACCGCCTGGCCAAACTCAGGAGGCTCC
1 CAAGTTCCTTCTGTCCCTCAACGAGATGCTTACTATACACCCCCTGCCCAAACTCAGGAGACTCC
*
50021946 AAGTCAACACTTCCCAATGCCTCCTACACAG
66 AAGTCAACAATTCCCAATGCCTCCTACACAG
50021977 CA
1 CA
50021979 GCAACATCCC
Statistics
Matches: 86, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.24, C:0.37, G:0.15, T:0.24
Consensus pattern (96 bp):
CAAGTTCCTTCTGTCCCTCAACGAGATGCTTACTATACACCCCCTGCCCAAACTCAGGAGACTCC
AAGTCAACAATTCCCAATGCCTCCTACACAG
Found at i:50026866 original size:21 final size:21
Alignment explanation
Indices: 50026842--50026896 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
50026832 ACAGCGGTGG
*
50026842 CGGTGAGATTAGTTACTGTAA
1 CGGTGAGATTAGATACTGTAA
* *
50026863 CGGTGAGATTGGATACTGTAG
1 CGGTGAGATTAGATACTGTAA
*
50026884 CAGTGAGATTAGA
1 CGGTGAGATTAGA
50026897 AACAGCAGTG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (21 bp):
CGGTGAGATTAGATACTGTAA
Found at i:50027569 original size:11 final size:12
Alignment explanation
Indices: 50027540--50027572 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
50027530 TTCAGCTAGG
*
50027540 ATGCTGGTCTGC
1 ATGCTGGTTTGC
50027552 ATGCTGGTTTGC
1 ATGCTGGTTTGC
50027564 -TGCTGGTTT
1 ATGCTGGTTT
50027573 CCTGTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:50035845 original size:136 final size:136
Alignment explanation
Indices: 50035601--50035875 Score: 523
Period size: 136 Copynumber: 2.0 Consensus size: 136
50035591 ATATCCAGAC
50035601 AGAAGAAAAATTAGCATGCAGCATCTCCCAAGAAGTTGCGTCAGATGATGGGGAACCTAAGAATT
1 AGAAGAAAAATTAGCATGCAGCATCTCCCAAGAAGTTGCGTCAGATGATGGGGAACCTAAGAATT
50035666 CTGATGTAAAGAGTTTTGTAAAGCATAAGTATTTAGCTGAAGTTTCAGAGCATAGTCCATCTCCA
66 CTGATGTAAAGAGTTTTGTAAAGCATAAGTATTTAGCTGAAGTTTCAGAGCATAGTCCATCTCCA
50035731 ACATCT
131 ACATCT
*
50035737 AGAAGAAAAATTAGCATGCAGCATCTCCCAAGAAGTTGCGTCAGATGATGGGGAATCTAAGAATT
1 AGAAGAAAAATTAGCATGCAGCATCTCCCAAGAAGTTGCGTCAGATGATGGGGAACCTAAGAATT
**
50035802 CTGATGTAAAGAGTTTTGTGGAGCATAAGTATTTAGCTGAAGTTTCAGAGCATAGTCCATCTCCA
66 CTGATGTAAAGAGTTTTGTAAAGCATAAGTATTTAGCTGAAGTTTCAGAGCATAGTCCATCTCCA
50035867 ACATCT
131 ACATCT
50035873 AGA
1 AGA
50035876 GTGAAAGCGT
Statistics
Matches: 136, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.27
Consensus pattern (136 bp):
AGAAGAAAAATTAGCATGCAGCATCTCCCAAGAAGTTGCGTCAGATGATGGGGAACCTAAGAATT
CTGATGTAAAGAGTTTTGTAAAGCATAAGTATTTAGCTGAAGTTTCAGAGCATAGTCCATCTCCA
ACATCT
Found at i:50036222 original size:35 final size:35
Alignment explanation
Indices: 50036176--50036245 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
50036166 CCATCTCAAT
*
50036176 AGACTTGTATGAGTTAGTTCTTGAAGAAGACCAAC
1 AGACTTGTATGAGTTAGCTCTTGAAGAAGACCAAC
50036211 AGACTTGTATGAGTTAGCTCTTGAAGAAGACCAAC
1 AGACTTGTATGAGTTAGCTCTTGAAGAAGACCAAC
50036246 TTGATTTACT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (35 bp):
AGACTTGTATGAGTTAGCTCTTGAAGAAGACCAAC
Found at i:50039982 original size:5 final size:6
Alignment explanation
Indices: 50039967--50039991 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50039957 ATTAATATAA
50039967 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
50039992 TTTAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:50045849 original size:13 final size:13
Alignment explanation
Indices: 50045828--50045873 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
50045818 TTTTATTATT
*
50045828 TTTATATAAAATA
1 TTTAAATAAAATA
50045841 TTTAAATAAAATAA
1 TTTAAATAAAAT-A
*
50045855 TTAAAATAAAATA
1 TTTAAATAAAATA
*
50045868 TCTAAA
1 TTTAAA
50045874 CATTATAACC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 16 0.57
14 12 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (13 bp):
TTTAAATAAAATA
Found at i:50045873 original size:14 final size:13
Alignment explanation
Indices: 50045833--50045873 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
50045823 TTATTTTTAT
*
50045833 ATAAAATATTTAA
1 ATAAAATATTAAA
50045846 ATAAAATAATTAAA
1 ATAAAAT-ATTAAA
50045860 ATAAAATATCTAAA
1 ATAAAATAT-TAAA
50045874 CATTATAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (13 bp):
ATAAAATATTAAA
Found at i:50046187 original size:181 final size:182
Alignment explanation
Indices: 50045869--50046234 Score: 725
Period size: 181 Copynumber: 2.0 Consensus size: 182
50045859 AATAAAATAT
50045869 CTAAACATTATAACCATTCCACTATTGTACTTATAATCAATTGTTAATTTCTAAAAAAATATATA
1 CTAAACATTATAACCATTCCACTATTGTACTTATAATCAATTGTTAATTTCTAAAAAAATATATA
50045934 ATTATATTAATTCATTACTTATGTATAAAATTCTACATTCACAATTCATCAAATATTAAACCTAA
66 ATTATATTAATTCATTACTTATGTATAAAATTCTACATTCACAATTCATCAAATATTAAACCTAA
50045999 AATAAATATATCATTGATGAAAGTAAAGATAAGTTTAAACATATAAGAGGAG
131 AATAAATATATCATTGATGAAAGTAAAGATAAGTTTAAACATATAAGAGGAG
50046051 CTAAACATTATAA-CATTCCACTATTGTACTTATAATCAATTGTTAATTTCTAAAAAAATATATA
1 CTAAACATTATAACCATTCCACTATTGTACTTATAATCAATTGTTAATTTCTAAAAAAATATATA
50046115 ATTATATTAATTCATTACTTATGTATAAAATTCTACATTCACAATTCATCAAATATTAAACCTAA
66 ATTATATTAATTCATTACTTATGTATAAAATTCTACATTCACAATTCATCAAATATTAAACCTAA
50046180 AATAAATATATCATTGATGAAAGTAAAGATAAGTTTAAACATATAAGAGGAG
131 AATAAATATATCATTGATGAAAGTAAAGATAAGTTTAAACATATAAGAGGAG
50046232 CTA
1 CTA
50046235 GAATCATAAT
Statistics
Matches: 184, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
181 171 0.93
182 13 0.07
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.36
Consensus pattern (182 bp):
CTAAACATTATAACCATTCCACTATTGTACTTATAATCAATTGTTAATTTCTAAAAAAATATATA
ATTATATTAATTCATTACTTATGTATAAAATTCTACATTCACAATTCATCAAATATTAAACCTAA
AATAAATATATCATTGATGAAAGTAAAGATAAGTTTAAACATATAAGAGGAG
Found at i:50065270 original size:98 final size:99
Alignment explanation
Indices: 50065100--50065297 Score: 389
Period size: 98 Copynumber: 2.0 Consensus size: 99
50065090 ATACAAACAT
50065100 GCTTAAAACATGCAAGTTTTTTTTCTTTTTGAAATTTTCACACAGATTTTAGACGCAAATATAAC
1 GCTTAAAACATGCAAGTTTTTTTTCTTTTTGAAATTTTCACACAGATTTTAGACGCAAATATAAC
50065165 AAGCTCAACACTGACCGTGAAATCATCTGCACAG
66 AAGCTCAACACTGACCGTGAAATCATCTGCACAG
50065199 GCTTAAAACATGCAAGTTTTTTTTCTTTTTGAAA-TTTCACACAGATTTTAGACGCAAATATAAC
1 GCTTAAAACATGCAAGTTTTTTTTCTTTTTGAAATTTTCACACAGATTTTAGACGCAAATATAAC
50065263 AAGCTCAACACTGACCGTGAAATCATCTGCACAG
66 AAGCTCAACACTGACCGTGAAATCATCTGCACAG
50065297 G
1 G
50065298 TTGCTATCTT
Statistics
Matches: 99, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
98 65 0.66
99 34 0.34
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (99 bp):
GCTTAAAACATGCAAGTTTTTTTTCTTTTTGAAATTTTCACACAGATTTTAGACGCAAATATAAC
AAGCTCAACACTGACCGTGAAATCATCTGCACAG
Found at i:50072495 original size:23 final size:25
Alignment explanation
Indices: 50072463--50072514 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
50072453 TATATTAAAT
*
50072463 ATATA-TTTTTTA-TTTTTAATCAA
1 ATATACTTTTTAACTTTTTAATCAA
50072486 ATATACTTTTTAACTTTTTAATCAA
1 ATATACTTTTTAACTTTTTAATCAA
50072511 ATAT
1 ATAT
50072515 GTATATTTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 5 0.19
24 6 0.23
25 15 0.58
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.56
Consensus pattern (25 bp):
ATATACTTTTTAACTTTTTAATCAA
Found at i:50077362 original size:150 final size:150
Alignment explanation
Indices: 50077087--50077422 Score: 399
Period size: 150 Copynumber: 2.2 Consensus size: 150
50077077 ATATGGCAAA
* * * * * * *
50077087 ACACTATTATGATTCAAGCAAGATGAAATCTGAATTGACGGGAAAGATTTTGGCAGTGGCAAGCA
1 ACACTATTATGATTCAAGTAAGGTAAAATCTGAATCGACGGGAAAGATTCTGACACTGGCAAGCA
* * *
50077152 AATCTTCCTTCAAACATCCCATTGATGACCATAAGAGTTCCAATTCCACTGCTTCATTGGAATAC
66 AATCTTCCTTCAAACATCCCATCGATGACCATAAAACTTCCAATTCCACTGCTTCATTGGAATAC
* *
50077217 GAACAAA-CTGTATCTGGTGT
131 GAA-AAACCTGTACCTGGTGC
* * **
50077237 ACACTATTATGATTCTAGTAAGGTAAAATCCGAATCGGTGGGAAAGATTCTGACAACT-GCAAGC
1 ACACTATTATGATTCAAGTAAGGTAAAATCTGAATCGACGGGAAAGATTCTGAC-ACTGGCAAGC
* * ** * *
50077301 AAGTCTTCC-TCAAAGCATCCCATCGATGATCATAAAACTTCTGATTCCATTGCTTCGTTGGAAT
65 AAATCTTCCTTCAAA-CATCCCATCGATGACCATAAAACTTCCAATTCCACTGCTTCATTGGAAT
* *
50077365 ATGAAAAACCTGTGCCTGGTGC
129 ACGAAAAACCTGTACCTGGTGC
*
50077387 ACACTATTATGATTCGAGTAAGGTAAAATCTGAATC
1 ACACTATTATGATTCAAGTAAGGTAAAATCTGAATC
50077423 AGTGAGAAGC
Statistics
Matches: 157, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
149 8 0.05
150 147 0.94
151 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (150 bp):
ACACTATTATGATTCAAGTAAGGTAAAATCTGAATCGACGGGAAAGATTCTGACACTGGCAAGCA
AATCTTCCTTCAAACATCCCATCGATGACCATAAAACTTCCAATTCCACTGCTTCATTGGAATAC
GAAAAACCTGTACCTGGTGC
Found at i:50077534 original size:132 final size:132
Alignment explanation
Indices: 50077297--50077554 Score: 349
Period size: 132 Copynumber: 2.0 Consensus size: 132
50077287 TGACAACTGC
* * * * *
50077297 AAGCAAGTCTTCCTCAAAGCATCCCATCGATGATCATAAAACTTCTGATTCCATTGCTTCGTTGG
1 AAGCAAATCTTCCTCAAAGCATCCCATCGATGATCATAAAACTTCTAACTCCATTGCTTCATTGC
* * *
50077362 AATATGAAAAACCTGTGCCTGGTGCACACTATTATGATTCGAGTAAGGTAAAATCTGAATCAGTG
66 AATATGAAAAAACTGTGCCTGGTGCACACTATTATGATTCGAGCAAGGTAAAATCCGAATCAGTG
50077427 AG
131 AG
* * * *
50077429 AAGCAAATCTTCCTTCAAA-CATCCCATTGATGATCATAAGAGTTCTAACTCC-TTTCGTTCATT
1 AAGCAAATCTTCC-TCAAAGCATCCCATCGATGATCATAAAACTTCTAACTCCATTGC-TTCATT
* * *
50077492 GCAATCTGAAAAAACTGTGCCTGGTGTACACTATTATGATTCGAGCAAGGTGAAATCCGAATC
64 GCAATATGAAAAAACTGTGCCTGGTGCACACTATTATGATTCGAGCAAGGTAAAATCCGAATC
50077555 GGTGGGAAAG
Statistics
Matches: 109, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
131 3 0.03
132 101 0.93
133 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.29
Consensus pattern (132 bp):
AAGCAAATCTTCCTCAAAGCATCCCATCGATGATCATAAAACTTCTAACTCCATTGCTTCATTGC
AATATGAAAAAACTGTGCCTGGTGCACACTATTATGATTCGAGCAAGGTAAAATCCGAATCAGTG
AG
Found at i:50088714 original size:22 final size:23
Alignment explanation
Indices: 50088689--50088731 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
50088679 AAAAAGTTAC
50088689 AAAATTATCATTGAA-TTATTTA
1 AAAATTATCATTGAAGTTATTTA
* *
50088711 AAAATTTTCATTTAAGTTATT
1 AAAATTATCATTGAAGTTATT
50088732 GAATTATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.49
Consensus pattern (23 bp):
AAAATTATCATTGAAGTTATTTA
Found at i:50088733 original size:31 final size:31
Alignment explanation
Indices: 50088698--50088763 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
50088688 CAAAATTATC
*
50088698 ATTGAATTATTTAAAAATTTTCATTTAAGTT
1 ATTGAATTATTTAAAAATTTTCATTTAAGTG
* ** *
50088729 ATTGAATTATTTGAAGGTTTTTATTTAAGTG
1 ATTGAATTATTTAAAAATTTTCATTTAAGTG
50088760 ATTG
1 ATTG
50088764 GGTTATTAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.52
Consensus pattern (31 bp):
ATTGAATTATTTAAAAATTTTCATTTAAGTG
Found at i:50088770 original size:31 final size:29
Alignment explanation
Indices: 50088715--50088779 Score: 76
Period size: 31 Copynumber: 2.2 Consensus size: 29
50088705 TATTTAAAAA
* *
50088715 TTTTCATTTAAGTTATTGAATTATTTGAAGG
1 TTTTTATTTAAGTGATTGAATTA-TT-AAGG
**
50088746 TTTTTATTTAAGTGATTGGGTTATTAAGG
1 TTTTTATTTAAGTGATTGAATTATTAAGG
50088775 TTTTT
1 TTTTT
50088780 TTTTCTTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 9 0.30
30 2 0.07
31 19 0.63
ACGTcount: A:0.25, C:0.02, G:0.18, T:0.55
Consensus pattern (29 bp):
TTTTTATTTAAGTGATTGAATTATTAAGG
Found at i:50093735 original size:12 final size:12
Alignment explanation
Indices: 50093718--50093766 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
50093708 ACACTCATCT
*
50093718 TAATAATAATAA
1 TAATAATAATAC
50093730 TAATAATAATAC
1 TAATAATAATAC
* *
50093742 TATTACTAATAC
1 TAATAATAATAC
*
50093754 TAATATTAATAC
1 TAATAATAATAC
50093766 T
1 T
50093767 TACCTCACAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (12 bp):
TAATAATAATAC
Found at i:50103889 original size:3 final size:3
Alignment explanation
Indices: 50103881--50103932 Score: 95
Period size: 3 Copynumber: 17.3 Consensus size: 3
50103871 TATAGTTTTA
*
50103881 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATA
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
50103929 ATG A
1 ATG A
50103933 GATTGGTAAT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.37, C:0.00, G:0.31, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:50107648 original size:331 final size:331
Alignment explanation
Indices: 50107046--50107702 Score: 1163
Period size: 331 Copynumber: 2.0 Consensus size: 331
50107036 ATCCAAACTC
* *
50107046 ACTCTAAAAAAGAAATGGGTTTGCGCTTAAATTGAAGTGATGAGGTCGCAAAGAGGGAAGTAGGG
1 ACTCTAAAAAAGAAATGAGTTTGCGCTTAAATTAAAGTGATGAGGTCGCAAAGAGGGAAGTAGGG
*
50107111 CTCCTATTGACTGAAGGTTGGTTTTTAGGTCTCCTTTAGAATGAAAGTAGCTATGAAGCCCCTAC
66 CTCCTATTGACTGAAGATTGGTTTTTAGGTCTCCTTTAGAATGAAAGTAGCTATGAAGCCCCTAC
* * *
50107176 TACTTACTTTGTTTGATTCAAAATGCGAACAACCCCCAATAAAGATATCCTCATAGTCAATTTAT
131 TACTTACTTTGTTTGATTCAAAAGGCGAACAACCCCCAATAAAGATATCCCCATAGTCAATCTAT
50107241 TAACTTAGATTGGTATCCCAATAGGAAAAGCATCAATAAGAAAGGGTGAATCACCAATAAAAGCT
196 TAACTTAGATTGGTATCCCAATAGGAAAAGCATCAATAAGAAAGGGTGAATCACCAATAAAAGCT
*
50107306 GTGGAAGTAGGGGTTTAAGCGAAGAATGG-TCCTGCGGAGTTAAGTTGAGAAGTAATAAGCAACT
261 ATGGAAGTAGGGGTTTAAGCGAAGAATGGCT-CTGCGGAGTTAAGTTGAGAAGTAATAAGCAACT
50107370 TAAATTG
325 TAAATTG
50107377 ACTCTAAAAAAGAAATGAGTTTGCGCTTAAATTAAAGTGATGAGGTCGCAAAGAGGGAAGTAGGG
1 ACTCTAAAAAAGAAATGAGTTTGCGCTTAAATTAAAGTGATGAGGTCGCAAAGAGGGAAGTAGGG
* *
50107442 CTCCTATTGACTGAAGATTGGTTTTTAGGTTTCCTTTAGAATGAAAGTAGCTATGAAGCCCCTAT
66 CTCCTATTGACTGAAGATTGGTTTTTAGGTCTCCTTTAGAATGAAAGTAGCTATGAAGCCCCTAC
* * *
50107507 TACTTACTTTGTTTGATTCAAAAGGCGAATAGCCCCGAATAAAGATATCCCCATAGTCAATCTAT
131 TACTTACTTTGTTTGATTCAAAAGGCGAACAACCCCCAATAAAGATATCCCCATAGTCAATCTAT
*
50107572 TAACTTAGATTGGTATCCCAATAGGAAAAGCATCAATAAGAAAGGGTGAATCACCCATAAAAGCT
196 TAACTTAGATTGGTATCCCAATAGGAAAAGCATCAATAAGAAAGGGTGAATCACCAATAAAAGCT
* *
50107637 ATGGAAGTAGGGGTTTAAGCGAAGAATTGCTCTGCGGAGTTAAGTTGAGAAGTAATAAGCAGCTT
261 ATGGAAGTAGGGGTTTAAGCGAAGAATGGCTCTGCGGAGTTAAGTTGAGAAGTAATAAGCAACTT
50107702 A
326 A
50107703 GAAAGCTTCC
Statistics
Matches: 310, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
331 309 1.00
332 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.27
Consensus pattern (331 bp):
ACTCTAAAAAAGAAATGAGTTTGCGCTTAAATTAAAGTGATGAGGTCGCAAAGAGGGAAGTAGGG
CTCCTATTGACTGAAGATTGGTTTTTAGGTCTCCTTTAGAATGAAAGTAGCTATGAAGCCCCTAC
TACTTACTTTGTTTGATTCAAAAGGCGAACAACCCCCAATAAAGATATCCCCATAGTCAATCTAT
TAACTTAGATTGGTATCCCAATAGGAAAAGCATCAATAAGAAAGGGTGAATCACCAATAAAAGCT
ATGGAAGTAGGGGTTTAAGCGAAGAATGGCTCTGCGGAGTTAAGTTGAGAAGTAATAAGCAACTT
AAATTG
Found at i:50109117 original size:19 final size:19
Alignment explanation
Indices: 50109090--50109132 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
50109080 TGCGATTGTT
*
50109090 AAAAGAAATATAAATATAA
1 AAAATAAATATAAATATAA
* **
50109109 AAAATAAATTTATTTATAA
1 AAAATAAATATAAATATAA
50109128 AAAAT
1 AAAAT
50109133 CAATCATTCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATAAATATAAATATAA
Found at i:50110324 original size:49 final size:50
Alignment explanation
Indices: 50110229--50110342 Score: 198
Period size: 49 Copynumber: 2.3 Consensus size: 50
50110219 TCTGAGTTGA
*
50110229 GTAACAAATACT--TAATAATTAGCTAAAAACTTTCAAGACAAATATGTT
1 GTAACCAATACTAATAATAATTAGCTAAAAACTTTCAAGACAAATATGTT
50110277 GTAACCAATACTAATAATAATTAGCTAAAAA-TTTCAAGACAAATATGTT
1 GTAACCAATACTAATAATAATTAGCTAAAAACTTTCAAGACAAATATGTT
50110326 GTAACCAATACTAATAA
1 GTAACCAATACTAATAA
50110343 GGGCAAACTA
Statistics
Matches: 63, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
48 11 0.17
49 35 0.56
50 17 0.27
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (50 bp):
GTAACCAATACTAATAATAATTAGCTAAAAACTTTCAAGACAAATATGTT
Found at i:50115531 original size:19 final size:19
Alignment explanation
Indices: 50115495--50115533 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50115485 TATTATTAAT
**
50115495 ATATTTATAATTGTAATAA
1 ATATTTATAATTAAAATAA
*
50115514 ATATTTATCATTAAAATAA
1 ATATTTATAATTAAAATAA
50115533 A
1 A
50115534 ACTGAAATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:50115651 original size:22 final size:22
Alignment explanation
Indices: 50115626--50115670 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
50115616 ATGTTTAATA
50115626 ATATTGAAAATTAT-AATATTTT
1 ATATT-AAAATTATAAATATTTT
* *
50115648 ATATTAATATTTTAAATATTTT
1 ATATTAAAATTATAAATATTTT
50115670 A
1 A
50115671 AAAATAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
ATATTAAAATTATAAATATTTT
Found at i:50119313 original size:964 final size:964
Alignment explanation
Indices: 50117447--50119380 Score: 3859
Period size: 964 Copynumber: 2.0 Consensus size: 964
50117437 AATATTTATA
50117447 CTTAATAACACTAATATAATTGTAACTTAGCAAACAAATAATTCAAAAATAGTAGTAAAATTAAT
1 CTTAATAACACTAATATAATTGTAACTTAGCAAACAAATAATTCAAAAATAGTAGTAAAATTAAT
50117512 AATAAAATAAGAGTTATACAATATCTAGATAATAATAACAAAATAATCGTAATATATAATAGCAA
66 AATAAAATAAGAGTTATACAATATCTAGATAATAATAACAAAATAATCGTAATATATAATAGCAA
50117577 AATAGTAGCAAAACAACAACAAAGCAACACCAAACAATAGTAGAAAAGAAGTTTGCGTTTCAAGC
131 AATAGTAGCAAAACAACAACAAAGCAACACCAAACAATAGTAGAAAAGAAGTTTGCGTTTCAAGC
50117642 AAAGTCGGGCCAAGCCTAAGTCAAAAAAATTCTTATCCAAGGCCCGATCCTTTTAAAAAGTAAAT
196 AAAGTCGGGCCAAGCCTAAGTCAAAAAAATTCTTATCCAAGGCCCGATCCTTTTAAAAAGTAAAT
50117707 CTTATTTTTCGTTTAAGCTCGTTTTTCGACTCATATTTTTATTTAAATGCTCTCACTTTTTGAGC
261 CTTATTTTTCGTTTAAGCTCGTTTTTCGACTCATATTTTTATTTAAATGCTCTCACTTTTTGAGC
50117772 AAGCCTTTGAACCTGTACAGGTGAACTAACCCATGATCAAGTCTAATTGAAATTTGACGACTTGT
326 AAGCCTTTGAACCTGTACAGGTGAACTAACCCATGATCAAGTCTAATTGAAATTTGACGACTTGT
50117837 ATTGAATTATGTATTCCAAATACATATATTTAATTTTATTTAAAATCTTTATGTACATTAAGAGT
391 ATTGAATTATGTATTCCAAATACATATATTTAATTTTATTTAAAATCTTTATGTACATTAAGAGT
50117902 GGTTAAAAAATTGTTAAATATGTGCGAAACATAAATATCAAATATAATATTAAAAAAAATGTTGC
456 GGTTAAAAAATTGTTAAATATGTGCGAAACATAAATATCAAATATAATATTAAAAAAAATGTTGC
50117967 AGACATCATCAAAATCTGAAACACTTATCTTTTTTTTTCCCTGAACTTCCTTTATAGCTAAACTA
521 AGACATCATCAAAATCTGAAACACTTATCTTTTTTTTTCCCTGAACTTCCTTTATAGCTAAACTA
50118032 AAAAGATTTTAAGAAAGAAACTATGTTCAATTGCCTATTTCCCAAGAAGGAAAGAATTTATCTTC
586 AAAAGATTTTAAGAAAGAAACTATGTTCAATTGCCTATTTCCCAAGAAGGAAAGAATTTATCTTC
50118097 CACTTGAACAAAGCTATCCCATGAAAGAAATGAATCCACACCATCAACCCAATATTCTTCTTCAA
651 CACTTGAACAAAGCTATCCCATGAAAGAAATGAATCCACACCATCAACCCAATATTCTTCTTCAA
50118162 CACATGCTGTTTCACCCATTGAAACATTGTTGGATTCCTTCAACCAATCTAAATCAGAGCTTCCA
716 CACATGCTGTTTCACCCATTGAAACATTGTTGGATTCCTTCAACCAATCTAAATCAGAGCTTCCA
50118227 CATAACATCTGGTAGTTGTTCAATGGATCATTTGTTTCATCCACAGATGCTTTCATTTCTTCTGG
781 CATAACATCTGGTAGTTGTTCAATGGATCATTTGTTTCATCCACAGATGCTTTCATTTCTTCTGG
50118292 TTTTTCAGCTTTTTTTGGACAAATTTTCATGCCATGATCATCCTCAGGCCTTGATTCTAAGCTAA
846 TTTTTCAGCTTTTTTTGGACAAATTTTCATGCCATGATCATCCTCAGGCCTTGATTCTAAGCTAA
50118357 TTGCTTCTTGGTTATTTGATGAACTAGAGTCTGAATTCATGTTGTTTTTATTAC
911 TTGCTTCTTGGTTATTTGATGAACTAGAGTCTGAATTCATGTTGTTTTTATTAC
50118411 CTTAATAACACTAATATAATTGTAACTTAGCAAACAAATAATTCAAAAATAGTAGTAAAATTAAT
1 CTTAATAACACTAATATAATTGTAACTTAGCAAACAAATAATTCAAAAATAGTAGTAAAATTAAT
50118476 AATAAAATAAGAGTTATACAATATCTAGATAATAATAACAAAATAATCGTAATATATAATAGCAA
66 AATAAAATAAGAGTTATACAATATCTAGATAATAATAACAAAATAATCGTAATATATAATAGCAA
50118541 AATAGTAGCAAAACAACAACAAAGCAACACCAAACAATAGTAGAAAAGAAGTTTGCGTTTCAAGC
131 AATAGTAGCAAAACAACAACAAAGCAACACCAAACAATAGTAGAAAAGAAGTTTGCGTTTCAAGC
50118606 AAAGTCGGGCCAAGCCTAAGTCAAAAAAATTCTTATCCAAGGCCCGATCCTTTTAAAAAGTAAAT
196 AAAGTCGGGCCAAGCCTAAGTCAAAAAAATTCTTATCCAAGGCCCGATCCTTTTAAAAAGTAAAT
50118671 CTTATTTTTCGTTTAAGCTCGTTTTTCGACTCATATTTTTATTTAAATGCTCTCACTTTTTGAGC
261 CTTATTTTTCGTTTAAGCTCGTTTTTCGACTCATATTTTTATTTAAATGCTCTCACTTTTTGAGC
50118736 AAGCCTTTGAACCTGTACAGGTGAACTAACCCATGATCAAGTCTAATTGAAATTTGACGACTTGT
326 AAGCCTTTGAACCTGTACAGGTGAACTAACCCATGATCAAGTCTAATTGAAATTTGACGACTTGT
50118801 ATTGAATTATGTATTCCAAATACATATATTTAATTTTATTTAAAATCTTTATGTACATTAAGAGT
391 ATTGAATTATGTATTCCAAATACATATATTTAATTTTATTTAAAATCTTTATGTACATTAAGAGT
50118866 GGTTAAAAAATTGTTAAATATGTGCGAAACATAAATATCAAATATAATATTAAAAAAAATGTTGC
456 GGTTAAAAAATTGTTAAATATGTGCGAAACATAAATATCAAATATAATATTAAAAAAAATGTTGC
50118931 AGACATCATCAAAATCTGAAACACTTATCTTTTTTTTTCCCTGAACTTCCTTTATAGCTAAACTA
521 AGACATCATCAAAATCTGAAACACTTATCTTTTTTTTTCCCTGAACTTCCTTTATAGCTAAACTA
50118996 AAAAGATTTTAAGAAAGAAACTATGTTCAATTGCCTATTTCCCAAGAAGGAAAGAATTTATCTTC
586 AAAAGATTTTAAGAAAGAAACTATGTTCAATTGCCTATTTCCCAAGAAGGAAAGAATTTATCTTC
50119061 CACTTGAACAAAGCTATCCCATGAAAGAAATGAATCCACACCATCAACCCAATATTCTTCTTCAA
651 CACTTGAACAAAGCTATCCCATGAAAGAAATGAATCCACACCATCAACCCAATATTCTTCTTCAA
50119126 CACATGCTGTTTCACCCATTGAAACATTGTTGGATTCCTTCAACCAATCTAAATCAGAGCTTCCA
716 CACATGCTGTTTCACCCATTGAAACATTGTTGGATTCCTTCAACCAATCTAAATCAGAGCTTCCA
50119191 CATAACATCTGGTAGTTGTTCAATGGATCATTTGTTTCATCCACAGATGCTTTCATTTCTTCTGG
781 CATAACATCTGGTAGTTGTTCAATGGATCATTTGTTTCATCCACAGATGCTTTCATTTCTTCTGG
50119256 TTTTTCAGCTTTTTTTGGACAAATTTTCATGCCATGATCATCCTCAGGCCTTGATTCTAAGCTAA
846 TTTTTCAGCTTTTTTTGGACAAATTTTCATGCCATGATCATCCTCAGGCCTTGATTCTAAGCTAA
50119321 TTGCTTCTTGGTTATTTGATGAACTAGAGTCTGAATTCATGTTGTTTTTATTAC
911 TTGCTTCTTGGTTATTTGATGAACTAGAGTCTGAATTCATGTTGTTTTTATTAC
*
50119375 CATAAT
1 CTTAAT
50119381 TTTTCTGGGA
Statistics
Matches: 969, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
964 969 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (964 bp):
CTTAATAACACTAATATAATTGTAACTTAGCAAACAAATAATTCAAAAATAGTAGTAAAATTAAT
AATAAAATAAGAGTTATACAATATCTAGATAATAATAACAAAATAATCGTAATATATAATAGCAA
AATAGTAGCAAAACAACAACAAAGCAACACCAAACAATAGTAGAAAAGAAGTTTGCGTTTCAAGC
AAAGTCGGGCCAAGCCTAAGTCAAAAAAATTCTTATCCAAGGCCCGATCCTTTTAAAAAGTAAAT
CTTATTTTTCGTTTAAGCTCGTTTTTCGACTCATATTTTTATTTAAATGCTCTCACTTTTTGAGC
AAGCCTTTGAACCTGTACAGGTGAACTAACCCATGATCAAGTCTAATTGAAATTTGACGACTTGT
ATTGAATTATGTATTCCAAATACATATATTTAATTTTATTTAAAATCTTTATGTACATTAAGAGT
GGTTAAAAAATTGTTAAATATGTGCGAAACATAAATATCAAATATAATATTAAAAAAAATGTTGC
AGACATCATCAAAATCTGAAACACTTATCTTTTTTTTTCCCTGAACTTCCTTTATAGCTAAACTA
AAAAGATTTTAAGAAAGAAACTATGTTCAATTGCCTATTTCCCAAGAAGGAAAGAATTTATCTTC
CACTTGAACAAAGCTATCCCATGAAAGAAATGAATCCACACCATCAACCCAATATTCTTCTTCAA
CACATGCTGTTTCACCCATTGAAACATTGTTGGATTCCTTCAACCAATCTAAATCAGAGCTTCCA
CATAACATCTGGTAGTTGTTCAATGGATCATTTGTTTCATCCACAGATGCTTTCATTTCTTCTGG
TTTTTCAGCTTTTTTTGGACAAATTTTCATGCCATGATCATCCTCAGGCCTTGATTCTAAGCTAA
TTGCTTCTTGGTTATTTGATGAACTAGAGTCTGAATTCATGTTGTTTTTATTAC
Found at i:50134844 original size:27 final size:27
Alignment explanation
Indices: 50134796--50134878 Score: 78
Period size: 27 Copynumber: 3.1 Consensus size: 27
50134786 ATAAAAAGTA
* * *
50134796 GTGGCGCCTATCTCAGAAGCGCCAATG
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* * *
50134823 GTGGTGCCTATCTGACAGGCGCCATTA
1 GTGGTGCCTATCTGAGAGGCGCCAATG
* *
50134850 ATGGTGCC-ATGTTGAGAGGCGCCAATG
1 GTGGTGCCTAT-CTGAGAGGCGCCAATG
50134877 GT
1 GT
50134879 CTTATTTTTC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.23
Consensus pattern (27 bp):
GTGGTGCCTATCTGAGAGGCGCCAATG
Found at i:50146172 original size:17 final size:15
Alignment explanation
Indices: 50146146--50146185 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
50146136 ATTAATTTAA
50146146 TATTTA-TTTTAAATT
1 TATTTATTTTTAAA-T
50146161 TATTATATTTTTAAAT
1 TATT-TATTTTTAAAT
50146177 TATTTATTT
1 TATTTATTT
50146186 ATTTTATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 9 0.39
16 7 0.30
17 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTATTTTTAAAT
Found at i:50146254 original size:19 final size:21
Alignment explanation
Indices: 50146231--50146282 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 21
50146221 TATTGTCAAC
*
50146231 AATATTTTTTTCATTT-TTAT
1 AATATTTTTTTAATTTATTAT
*
50146251 -ATA-TTTTTAAATTTATTAT
1 AATATTTTTTTAATTTATTAT
50146270 AATATTTTTTTAA
1 AATATTTTTTTAA
50146283 AAAATATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
18 9 0.35
19 7 0.27
20 3 0.12
21 7 0.27
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (21 bp):
AATATTTTTTTAATTTATTAT
Found at i:50146279 original size:22 final size:21
Alignment explanation
Indices: 50146231--50146283 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
50146221 TATTGTCAAC
*
50146231 AATATTTTTTT-CATTTTTAT
1 AATATTTTTTTAAATTTTTAT
50146251 -ATA--TTTTTAAATTTATTAT
1 AATATTTTTTTAAATTT-TTAT
50146270 AATATTTTTTTAAA
1 AATATTTTTTTAAA
50146284 AAATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 7 0.26
20 3 0.11
22 8 0.30
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (21 bp):
AATATTTTTTTAAATTTTTAT
Found at i:50146705 original size:21 final size:19
Alignment explanation
Indices: 50146681--50146732 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
50146671 ATTATAATTT
50146681 TAAAAAATTCAAAAATATATA
1 TAAAAAATTC-AAAATAT-TA
*
50146702 TAAATACATTTCAAAATATTA
1 TAAA-A-AATTCAAAATATTA
50146723 TAATAAAATT
1 TAA-AAAATT
50146733 ATGATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
20 3 0.12
21 10 0.38
22 9 0.35
23 4 0.15
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAATTCAAAATATTA
Found at i:50150146 original size:19 final size:19
Alignment explanation
Indices: 50150099--50150155 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
50150089 TTTAAATTTT
* *
50150099 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
50150119 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
50150138 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
50150156 ATTATAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:50150168 original size:27 final size:27
Alignment explanation
Indices: 50150126--50150178 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
50150116 TTTTTTTATG
*
50150126 AATATTGTAATGTTGTATGAATATTGT
1 AATATTATAATGTTGTATGAATATTGT
*
50150153 AATATTATAATTTTGTATGAATATTG
1 AATATTATAATGTTGTATGAATATTG
50150179 AATGTCGGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (27 bp):
AATATTATAATGTTGTATGAATATTGT
Found at i:50150213 original size:46 final size:47
Alignment explanation
Indices: 50150106--50150228 Score: 175
Period size: 46 Copynumber: 2.7 Consensus size: 47
50150096 TTTTTGTATG
*
50150106 AATATTATAATTTTTT-TATGAATATTGTAATGTTGTATGAATATTGT
1 AATATTATAATTTTTTGTATGAATATTGTAATGTGGTAT-AATATTGT
50150153 AATATTATAA--TTTTGTATGAATATTG-AATGTCGGTAT-ATATTGT
1 AATATTATAATTTTTTGTATGAATATTGTAATGT-GGTATAATATTGT
*
50150197 AATATTGTAATTTTTTGTATGAATATTGTAAT
1 AATATTATAATTTTTTGTATGAATATTGTAAT
50150229 TATTTTATAA
Statistics
Matches: 69, Mismatches: 2, Indels: 10
0.85 0.02 0.12
Matches are distributed among these distances:
44 16 0.23
45 9 0.13
46 31 0.45
47 13 0.19
ACGTcount: A:0.34, C:0.01, G:0.14, T:0.51
Consensus pattern (47 bp):
AATATTATAATTTTTTGTATGAATATTGTAATGTGGTATAATATTGT
Found at i:50150328 original size:22 final size:21
Alignment explanation
Indices: 50150075--50150155 Score: 96
Period size: 22 Copynumber: 4.0 Consensus size: 21
50150065 TAGATTAGAA
*
50150075 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTAT-AATT
50150097 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTATAATT
*
50150118 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTATAATT
* *
50150136 TGTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTATAAT
50150156 ATTATAATTT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.06
19 14 0.26
20 13 0.24
21 8 0.15
22 16 0.30
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (21 bp):
TTTTGTATGAATATTATAATT
Found at i:50150338 original size:52 final size:52
Alignment explanation
Indices: 50150282--50150386 Score: 165
Period size: 52 Copynumber: 2.0 Consensus size: 52
50150272 TTTTTGTATG
* *
50150282 AATATTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAAT
1 AATATTATAATTTTGTATGAATATTACAAATTTTTTGTATGAATATTGTAAT
* * *
50150334 AATATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAAT
1 AATATTATAATTTTGTATGAATATTACAAATTTTTTGTATGAATATTGTAAT
50150386 A
1 A
50150387 TTNNNNNNNN
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.35, C:0.01, G:0.12, T:0.51
Consensus pattern (52 bp):
AATATTATAATTTTGTATGAATATTACAAATTTTTTGTATGAATATTGTAAT
Found at i:50153232 original size:6 final size:6
Alignment explanation
Indices: 50153223--50153279 Score: 114
Period size: 6 Copynumber: 9.5 Consensus size: 6
50153213 ATCATGCACA
50153223 AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC
1 AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC AGAGCC
50153271 AGAGCC AGA
1 AGAGCC AGA
50153280 ACTACATTCT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.35, C:0.32, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAGCC
Found at i:50156601 original size:27 final size:27
Alignment explanation
Indices: 50156552--50156654 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
50156542 AAAATCACAG
**
50156552 CATTGGCGCCTTTCAG-TATGGCACCAC
1 CATTGGCGCCTCCCAGATA-GGCACCAC
50156579 CATTGGCGCCTCCCAGATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
50156606 CATTGGCGCCTCCCAAATAGGCACCAC
1 CATTGGCGCCTCCCAGATAGGCACCAC
*
50156633 CATTGGCGCCTTCCAGATAGGC
1 CATTGGCGCCTCCCAGATAGGC
50156655 GCCAATACTA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 68 0.97
28 2 0.03
ACGTcount: A:0.21, C:0.37, G:0.22, T:0.19
Consensus pattern (27 bp):
CATTGGCGCCTCCCAGATAGGCACCAC
Found at i:50159891 original size:26 final size:26
Alignment explanation
Indices: 50159855--50159913 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
50159845 AAACTCGTTT
50159855 ATGGCTTCTCCTTTGCTGCTTGTCTA
1 ATGGCTTCTCCTTTGCTGCTTGTCTA
50159881 ATGGCTTCTCCTTTGCTGCTTGTCTA
1 ATGGCTTCTCCTTTGCTGCTTGTCTA
50159907 ATGGCTT
1 ATGGCTT
50159914 TCTTTCTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.08, C:0.25, G:0.20, T:0.46
Consensus pattern (26 bp):
ATGGCTTCTCCTTTGCTGCTTGTCTA
Found at i:50169458 original size:22 final size:23
Alignment explanation
Indices: 50169430--50169472 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
50169420 GCAATCGCAG
50169430 ATATGA-TATGTAATCTTAGAAA
1 ATATGATTATGTAATCTTAGAAA
*
50169452 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGTAATCTTAGA
50169473 GATTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (23 bp):
ATATGATTATGTAATCTTAGAAA
Found at i:50174600 original size:22 final size:23
Alignment explanation
Indices: 50174572--50174614 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
50174562 GCAATCGTAG
50174572 ATATGA-TATGTAATCTTAGAAA
1 ATATGATTATGTAATCTTAGAAA
*
50174594 ATATGATTTTGTAATCTTAGA
1 ATATGATTATGTAATCTTAGA
50174615 GATTTGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (23 bp):
ATATGATTATGTAATCTTAGAAA
Found at i:50176187 original size:12 final size:12
Alignment explanation
Indices: 50176146--50176187 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
50176136 AACTAAATGA
50176146 ATAAAT-ATTTT
1 ATAAATAATTTT
*
50176157 ATAAATACTTTT
1 ATAAATAATTTT
*
50176169 A-ATATAATTTT
1 ATAAATAATTTT
50176180 ATAAATAA
1 ATAAATAA
50176188 GTAATGTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
11 15 0.60
12 10 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (12 bp):
ATAAATAATTTT
Found at i:50193060 original size:110 final size:111
Alignment explanation
Indices: 50192920--50193140 Score: 435
Period size: 110 Copynumber: 2.0 Consensus size: 111
50192910 TTATTTTAAT
50192920 GTTTTTGGTCTATTTGATGTATTATCTTTTTTAAAATTATTTTTATATAAATATAATCTAAAAAT
1 GTTTTTGGTCTATTTGATGTATTATCTTTTTTAAAATTATTTTTATATAAATATAATCTAAAAAT
50192985 TTAATACGAATGAGCTGGACCAAGCTTAAATTTACACTAATACAAC
66 TTAATACGAATGAGCTGGACCAAGCTTAAATTTACACTAATACAAC
50193031 GTTTTTGGTC-ATTTGATGTATTATCTTTTTTAAAATTATTTTTATATAAATATAATCTAAAAAT
1 GTTTTTGGTCTATTTGATGTATTATCTTTTTTAAAATTATTTTTATATAAATATAATCTAAAAAT
50193095 TTAATACGAATGAGCTGGACCAAGCTTAAATTTACACTAATACAAC
66 TTAATACGAATGAGCTGGACCAAGCTTAAATTTACACTAATACAAC
50193141 TCGACCCATG
Statistics
Matches: 110, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
110 100 0.91
111 10 0.09
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (111 bp):
GTTTTTGGTCTATTTGATGTATTATCTTTTTTAAAATTATTTTTATATAAATATAATCTAAAAAT
TTAATACGAATGAGCTGGACCAAGCTTAAATTTACACTAATACAAC
Found at i:50195563 original size:5 final size:6
Alignment explanation
Indices: 50195544--50195568 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
50195534 CTTCTTCTTC
50195544 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
50195569 AATTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:50200389 original size:23 final size:23
Alignment explanation
Indices: 50200363--50200408 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
50200353 CATGTCAATC
*
50200363 GAGATAACACTTAGTAAAATAAG
1 GAGATAACACTTACTAAAATAAG
50200386 GAGATAACACTTACTAAAATAAG
1 GAGATAACACTTACTAAAATAAG
50200409 AAATTAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.52, C:0.11, G:0.15, T:0.22
Consensus pattern (23 bp):
GAGATAACACTTACTAAAATAAG
Found at i:50204384 original size:25 final size:24
Alignment explanation
Indices: 50204350--50204397 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
50204340 TGGTCATGCA
*
50204350 TTGGGCTTATATATAATATAATATG
1 TTGGGCTTATAAAT-ATATAATATG
50204375 TTGGGCTTATAAATATATAATAT
1 TTGGGCTTATAAATATATAATAT
50204398 ATAATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.38, C:0.04, G:0.15, T:0.44
Consensus pattern (24 bp):
TTGGGCTTATAAATATATAATATG
Found at i:50208028 original size:21 final size:21
Alignment explanation
Indices: 50208004--50208069 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
50207994 ATTCATATGA
50208004 GTTTCAGTTTAACCTTATTGG
1 GTTTCAGTTTAACCTTATTGG
* * *
50208025 GTTTCCGTTTAGCTCTT-TTGA
1 GTTTCAGTTTAAC-CTTATTGG
* *
50208046 GCTTCAGCTTAACCCTTA-TGG
1 GTTTCAGTTTAA-CCTTATTGG
50208067 GTT
1 GTT
50208070 CTGTTCAGCT
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
21 29 0.88
22 4 0.12
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.45
Consensus pattern (21 bp):
GTTTCAGTTTAACCTTATTGG
Found at i:50208068 original size:42 final size:41
Alignment explanation
Indices: 50207999--50208120 Score: 149
Period size: 41 Copynumber: 2.9 Consensus size: 41
50207989 AGTTAATTCA
* *
50207999 TATGAGTTTCAGTTTAA-CCTTATTGGGTTTCCGTTTAGCTCT
1 TATGAGCTTCAG-TTAACCCTTA-TGGGTTTCTGTTTAGCTCT
* *
50208041 TTTGAGCTTCAGCTTAACCCTTATGGG-TTCTGTTCAGCTCT
1 TATGAGCTTCAG-TTAACCCTTATGGGTTTCTGTTTAGCTCT
*
50208082 TATGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGC
1 TATGAGCTTCAGTT-AACCCTTATGGGTTTCTGTTTAGC
50208121 ACTTGTGTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
40 2 0.03
41 34 0.49
42 28 0.41
43 5 0.07
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (41 bp):
TATGAGCTTCAGTTAACCCTTATGGGTTTCTGTTTAGCTCT
Found at i:50208104 original size:21 final size:21
Alignment explanation
Indices: 50208043--50208106 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
50208033 TTAGCTCTTT
50208043 TGAGCTTCAGCTT-AACCCTTA
1 TGAGCTTCAG-TTCAACCCTTA
* * * *
50208064 TG-GGTTCTGTTCAGCTCTTA
1 TGAGCTTCAGTTCAACCCTTA
*
50208084 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCAGTTCAACCCTTA
50208105 TG
1 TG
50208107 GGTTTCTGTT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
19 2 0.06
20 13 0.39
21 18 0.55
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.38
Consensus pattern (21 bp):
TGAGCTTCAGTTCAACCCTTA
Found at i:50209794 original size:20 final size:22
Alignment explanation
Indices: 50209762--50209802 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
50209752 CATAATAATT
50209762 TTATAATTCAAATTT-ATGTTG
1 TTATAATTCAAATTTCATGTTG
50209783 TTATAA-TCAAATTTCATGTT
1 TTATAATTCAAATTTCATGTT
50209803 AAAATAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.51
Consensus pattern (22 bp):
TTATAATTCAAATTTCATGTTG
Found at i:50209924 original size:14 final size:14
Alignment explanation
Indices: 50209899--50209931 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
50209889 AATAATTGTG
50209899 TTAAATTTTTAGTAT
1 TTAAATTTTTAGT-T
50209914 TTAAA-TTTTAGTT
1 TTAAATTTTTAGTT
50209927 TTAAA
1 TTAAA
50209932 GCTGATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 7 0.39
15 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (14 bp):
TTAAATTTTTAGTT
Found at i:50221859 original size:17 final size:19
Alignment explanation
Indices: 50221837--50221871 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
50221827 GACAAAGAAG
50221837 ACACA-TGAAT-AACAAAA
1 ACACATTGAATCAACAAAA
50221854 ACACATTGAATCAACAAA
1 ACACATTGAATCAACAAA
50221872 CAGAGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.60, C:0.20, G:0.06, T:0.14
Consensus pattern (19 bp):
ACACATTGAATCAACAAAA
Found at i:50222472 original size:19 final size:20
Alignment explanation
Indices: 50222436--50222474 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
50222426 CCATTTAGGT
50222436 TTAATTTGTAATTATATATA
1 TTAATTTGTAATTATATATA
*
50222456 TTAATTT-TAATTTTATATA
1 TTAATTTGTAATTATATATA
50222475 ATTTTACACT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (20 bp):
TTAATTTGTAATTATATATA
Found at i:50222884 original size:16 final size:17
Alignment explanation
Indices: 50222865--50222902 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
50222855 TTTTTTAAAA
50222865 ATAA-ACATTTTCTTAC
1 ATAAGACATTTTCTTAC
*
50222881 ATAAAGAGATTTTCTTAC
1 AT-AAGACATTTTCTTAC
50222899 ATAA
1 ATAA
50222903 TAAATTAGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 2 0.11
17 4 0.21
18 13 0.68
ACGTcount: A:0.42, C:0.13, G:0.05, T:0.39
Consensus pattern (17 bp):
ATAAGACATTTTCTTAC
Found at i:50230345 original size:20 final size:19
Alignment explanation
Indices: 50230304--50230359 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
50230294 TTCAACTATT
* *
50230304 ATACTTAATTTTGAAATTGA
1 ATACTTTATTTT-AATTTGA
50230324 ATACTTTATTTTAATTTGGA
1 ATACTTTATTTTAATTT-GA
* *
50230344 AT-GTTTTTTTTAATTT
1 ATACTTTATTTTAATTT
50230360 CATAACTTCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.30, C:0.04, G:0.09, T:0.57
Consensus pattern (19 bp):
ATACTTTATTTTAATTTGA
Found at i:50230840 original size:15 final size:14
Alignment explanation
Indices: 50230820--50230847 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
50230810 NNNNNNNNNN
50230820 TTTTTTTAGTTTTC
1 TTTTTTTAGTTTTC
50230834 TTTTTTTAGTTTTC
1 TTTTTTTAGTTTTC
50230848 AACACTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (14 bp):
TTTTTTTAGTTTTC
Found at i:50232516 original size:18 final size:17
Alignment explanation
Indices: 50232493--50232531 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
50232483 AATATCTTTT
50232493 TTATAAACATTATATATA
1 TTATAAACATTAT-TATA
**
50232511 TTATAAATTTTATTATA
1 TTATAAACATTATTATA
50232528 TTAT
1 TTAT
50232532 TTTTATCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (17 bp):
TTATAAACATTATTATA
Found at i:50240110 original size:1 final size:1
Alignment explanation
Indices: 50240106--50240165 Score: 93
Period size: 1 Copynumber: 60.0 Consensus size: 1
50240096 TTTTTTTCCC
***
50240106 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50240166 CTATTTTCCA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:50240111 original size:12 final size:12
Alignment explanation
Indices: 50240096--50240148 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
50240086 GCTTTCTTGC
50240096 TTTTTTTCCCTT
1 TTTTTTTCCCTT
*
50240108 TTTTTTT--TTT
1 TTTTTTTCCCTT
***
50240118 TTTTTTTTTTTT
1 TTTTTTTCCCTT
50240130 TTTTTTTCCCTT
1 TTTTTTTCCCTT
50240142 TTTTTTT
1 TTTTTTT
50240149 TTTTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.26
12 26 0.74
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTCCCTT
Found at i:50240136 original size:34 final size:34
Alignment explanation
Indices: 50240096--50240179 Score: 141
Period size: 34 Copynumber: 2.4 Consensus size: 34
50240086 GCTTTCTTGC
50240096 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTT
50240130 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTT
*
50240164 TTCTATTTTCCATTTT
1 TT-T-TTTTCCCTTTT
50240180 CTGCCCCATC
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
34 36 0.77
35 1 0.02
36 10 0.21
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (34 bp):
TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTT
Found at i:50240143 original size:29 final size:29
Alignment explanation
Indices: 50240111--50240166 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
50240101 TTCCCTTTTT
50240111 TTTTTTTTTTTTTTTTTTTTTTTTTTCCC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTCCC
50240140 TTTTTTTTTTTTTTTTTTTTTTTTTTC
1 TTTTTTTTTTTTTTTTTTTTTTTTTTC
50240167 TATTTTCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (29 bp):
TTTTTTTTTTTTTTTTTTTTTTTTTTCCC
Found at i:50240145 original size:35 final size:35
Alignment explanation
Indices: 50240096--50240179 Score: 134
Period size: 35 Copynumber: 2.4 Consensus size: 35
50240086 GCTTTCTTGC
50240096 TTTTTTTCCC-TTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTTT
50240130 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTTT
* *
50240165 TCTATTTTCCATTTT
1 T-TTTTTTCCCTTTT
50240180 CTGCCCCATC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 10 0.22
35 25 0.54
36 11 0.24
ACGTcount: A:0.02, C:0.11, G:0.00, T:0.87
Consensus pattern (35 bp):
TTTTTTTCCCTTTTTTTTTTTTTTTTTTTTTTTTT
Found at i:50240179 original size:29 final size:29
Alignment explanation
Indices: 50240118--50240179 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
50240108 TTTTTTTTTT
* ***
50240118 TTTTTTTTTTTTTTTTTTTCCCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTCCATTTTCCA
*
50240147 TTTTTTTTTTTTTTTTTTTCTATTTTCCA
1 TTTTTTTTTTTTTTTTTTTCCATTTTCCA
50240176 TTTT
1 TTTT
50240180 CTGCCCCATC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.03, C:0.10, G:0.00, T:0.87
Consensus pattern (29 bp):
TTTTTTTTTTTTTTTTTTTCCATTTTCCA
Found at i:50243356 original size:30 final size:31
Alignment explanation
Indices: 50243322--50243381 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
50243312 CATATTATGG
*
50243322 AAAGTCAAAGATATAGGTATC-AAATATTGA
1 AAAGTCAAAAATATAGGTATCGAAATATTGA
* *
50243352 AAAGTTAAAAATATGGGTATCGAAATATTG
1 AAAGTCAAAAATATAGGTATCGAAATATTG
50243382 GCATAAGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.48, C:0.05, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCAAAAATATAGGTATCGAAATATTGA
Found at i:50246585 original size:25 final size:25
Alignment explanation
Indices: 50246500--50246658 Score: 190
Period size: 25 Copynumber: 6.6 Consensus size: 25
50246490 TTGTTATGCA
*
50246500 CTAATGAA-CAGAGAGCACTGAAGTG
1 CTAAT-AATCAGAGAGCACTGATGTG
*
50246525 CT-AT-A-CAGAGAGCACAT-TTGTG
1 CTAATAATCAGAGAGCAC-TGATGTG
*
50246547 CT-A-AA-CGGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTGATGTG
* *
50246569 CTAGTAATCAGAGAGCACTGACGTG
1 CTAATAATCAGAGAGCACTGATGTG
*
50246594 CTAATAATCAAAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTGATGTG
50246619 CTAATAATCAGAGAGCACTGATGTG
1 CTAATAATCAGAGAGCACTGATGTG
50246644 CTAATAATCAGAGAG
1 CTAATAATCAGAGAG
50246659 TGCGCTAAAG
Statistics
Matches: 117, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
21 1 0.01
22 33 0.28
23 1 0.01
24 4 0.03
25 78 0.67
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (25 bp):
CTAATAATCAGAGAGCACTGATGTG
Found at i:50247642 original size:8 final size:8
Alignment explanation
Indices: 50247607--50247632 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
50247597 CTTATTTTAT
50247607 TAATATAA
1 TAATATAA
50247615 TAATATAA
1 TAATATAA
50247623 TAATATAA
1 TAATATAA
50247631 TA
1 TA
50247633 TAACAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TAATATAA
Found at i:50250264 original size:16 final size:16
Alignment explanation
Indices: 50250245--50250294 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
50250235 TCATCCATAT
50250245 TATGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
** *
50250261 TATGGGTA-TC-AATA
1 TATGGAAAGTCAAAGA
50250275 T-TGGAAAGTCAAAGA
1 TATGGAAAGTCAAAGA
50250290 TATGG
1 TATGG
50250295 GTATCGAAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
13 4 0.16
14 6 0.24
15 6 0.24
16 9 0.36
ACGTcount: A:0.42, C:0.06, G:0.26, T:0.26
Consensus pattern (16 bp):
TATGGAAAGTCAAAGA
Found at i:50250285 original size:29 final size:30
Alignment explanation
Indices: 50250247--50250309 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
50250237 ATCCATATTA
50250247 TGGAAAGTCAAAGATATGGGTATC-AATAT
1 TGGAAAGTCAAAGATATGGGTATCAAATAT
50250276 TGGAAAGTCAAAGATATGGGTATCGAAATAT
1 TGGAAAGTCAAAGATATGGGTATC-AAATAT
50250307 TGG
1 TGG
50250310 CATAAGAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 24 0.75
31 8 0.25
ACGTcount: A:0.40, C:0.06, G:0.27, T:0.27
Consensus pattern (30 bp):
TGGAAAGTCAAAGATATGGGTATCAAATAT
Found at i:50256114 original size:44 final size:43
Alignment explanation
Indices: 50256066--50256196 Score: 116
Period size: 39 Copynumber: 3.1 Consensus size: 43
50256056 TTCATATCAC
50256066 ATATCATGCATCAACTACATCATACTATTTTCTACTTCATCCCA
1 ATATCATGCATCAACTACATCATACTATTTTCTA-TTCATCCCA
* * * * *
50256110 ATATCA--CAT-AGC-ACGGTTCATTCTATATTC-A-T-ATCAC-
1 ATATCATGCATCAACTAC--ATCATACTATTTTCTATTCATCCCA
*
50256147 ATATCATGCATCAACTATATCATACTATTTTCTATTTCATCCCA
1 ATATCATGCATCAACTACATCATACTATTTTCTA-TTCATCCCA
50256191 ATATCA
1 ATATCA
50256197 CATAGCATGG
Statistics
Matches: 65, Mismatches: 11, Indels: 22
0.66 0.11 0.22
Matches are distributed among these distances:
37 6 0.09
38 4 0.06
39 15 0.23
40 5 0.08
41 4 0.06
42 15 0.23
43 4 0.06
44 12 0.18
ACGTcount: A:0.33, C:0.26, G:0.04, T:0.37
Consensus pattern (43 bp):
ATATCATGCATCAACTACATCATACTATTTTCTATTCATCCCA
Found at i:50256128 original size:81 final size:81
Alignment explanation
Indices: 50256025--50256266 Score: 412
Period size: 81 Copynumber: 3.0 Consensus size: 81
50256015 TTCATATATC
* *
50256025 CCCAATATCACATAGCATGGTTCATGCTATATTCATATCACATATCATGCATCAACTACATCATA
1 CCCAATATCACATAGCATGGTTCATTCTATATTCATATCACATATCATGCATCAACTATATCATA
*
50256090 CTATTTTCTACTTCAT
66 CTATTTTCTAATTCAT
*
50256106 CCCAATATCACATAGCACGGTTCATTCTATATTCATATCACATATCATGCATCAACTATATCATA
1 CCCAATATCACATAGCATGGTTCATTCTATATTCATATCACATATCATGCATCAACTATATCATA
*
50256171 CTATTTTCTATTTCAT
66 CTATTTTCTAATTCAT
* * *
50256187 CCCAATATCACATAGCATGGTTCATTTTAGATTCATATCACATATCATGCATTAACTATATCATA
1 CCCAATATCACATAGCATGGTTCATTCTATATTCATATCACATATCATGCATCAACTATATCATA
50256252 CTATTTTCTAATTCA
66 CTATTTTCTAATTCA
50256267 CTCAGTTTAG
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 152 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.38
Consensus pattern (81 bp):
CCCAATATCACATAGCATGGTTCATTCTATATTCATATCACATATCATGCATCAACTATATCATA
CTATTTTCTAATTCAT
Found at i:50280340 original size:51 final size:51
Alignment explanation
Indices: 50280252--50280372 Score: 197
Period size: 51 Copynumber: 2.4 Consensus size: 51
50280242 TTTGAGTACT
*
50280252 TCTGATCAGTGACAAGTGACAAGTAATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTAATAAGTGATAGCTTTAGCTACACTAA
* * * *
50280303 TTTGATCAGTGACAAGTGACAAGTGATGAGTGGTAGCTTTAGCTACACTAA
1 TCTGATCAGTGACAAGTGACAAGTAATAAGTGATAGCTTTAGCTACACTAA
50280354 TCTGATCAGTGACAAGTGA
1 TCTGATCAGTGACAAGTGA
50280373 TAAATGTGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 64 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGACAAGTAATAAGTGATAGCTTTAGCTACACTAA
Found at i:50281032 original size:13 final size:13
Alignment explanation
Indices: 50281014--50281056 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
50281004 GGGGTGTTAC
*
50281014 AGCACTTCTCAAA
1 AGCACTTTTCAAA
* *
50281027 AGCACTTTTCCAT
1 AGCACTTTTCAAA
*
50281040 AGCATTTTTCAAA
1 AGCACTTTTCAAA
50281053 AGCA
1 AGCA
50281057 ATGAAGAACT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.30
Consensus pattern (13 bp):
AGCACTTTTCAAA
Found at i:50281518 original size:123 final size:120
Alignment explanation
Indices: 50281346--50281587 Score: 358
Period size: 123 Copynumber: 2.0 Consensus size: 120
50281336 GTACTAGACT
* ** * *
50281346 TGTAACACCCCTAACCTATATCCATCGTCAGAATAGGGTTATAGGGCATTACCGGAGTTTACAAA
1 TGTAACACCCCTAACCCATATCCATCCCCAAAATAGGGTTATAGAGCATTACCGGAGTTTACAAA
*
50281411 TTAATTTACAAACATTTCATTATTTCATCAAGCATTCATATTTATAACCAATCAAAAA
66 TTAATTTACAAACATTTC---ATTTCATCAAACATTCATATTTATAACCAATCAAAAA
* *
50281469 TGTAACACCCCTAACCCGTATCCTTCCCCAAAATAGGGTTATAGAGCATTACCGGAGTTTACAAA
1 TGTAACACCCCTAACCCATATCCATCCCCAAAATAGGGTTATAGAGCATTACCGGAGTTTACAAA
* * *
50281534 TTCATTTTCAGACATTTCATTTCATCAAACATTCATATTTATAACCAATCAAAA
66 TTAATTTACAAACATTTCATTTCATCAAACATTCATATTTATAACCAATCAAAA
50281588 TCAAAACATT
Statistics
Matches: 108, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
120 35 0.32
123 73 0.68
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (120 bp):
TGTAACACCCCTAACCCATATCCATCCCCAAAATAGGGTTATAGAGCATTACCGGAGTTTACAAA
TTAATTTACAAACATTTCATTTCATCAAACATTCATATTTATAACCAATCAAAAA
Found at i:50281918 original size:23 final size:24
Alignment explanation
Indices: 50281878--50281928 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
50281868 ATTCGGGCTC
50281878 GAATTTCCACCCAATCTTGATCTA
1 GAATTTCCACCCAATCTTGATCTA
50281902 GAATTTCCA-CCAATCTTGATCTA
1 GAATTTCCACCCAATCTTGATCTA
50281925 -AATT
1 GAATT
50281929 AATATTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 4 0.15
23 14 0.52
24 9 0.33
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.35
Consensus pattern (24 bp):
GAATTTCCACCCAATCTTGATCTA
Found at i:50283290 original size:11 final size:13
Alignment explanation
Indices: 50283270--50283301 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
50283260 AATAAATTAA
50283270 TAAAATATCAT-T
1 TAAAATATCATAT
50283282 TAAAA-ATCATAT
1 TAAAATATCATAT
50283294 TAAAATAT
1 TAAAATAT
50283302 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:50285179 original size:33 final size:34
Alignment explanation
Indices: 50285127--50285194 Score: 129
Period size: 33 Copynumber: 2.0 Consensus size: 34
50285117 GGTGAAAGGA
50285127 CCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTT
1 CCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTT
50285161 CCAAATTGT-AAGAAAGTAAAACTTTCTTTCTTT
1 CCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTT
50285194 C
1 C
50285195 TCTCTTCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 25 0.74
34 9 0.26
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.38
Consensus pattern (34 bp):
CCAAATTGTAAAGAAAGTAAAACTTTCTTTCTTT
Found at i:50285298 original size:23 final size:21
Alignment explanation
Indices: 50285268--50285316 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 21
50285258 TTCTACATAT
50285268 ATATACTAAATAAA-ATAATAAA
1 ATATACTAAA-AAATA-AATAAA
50285290 ATATCACTAAAAAATCAAATAAA
1 ATAT-ACTAAAAAAT-AAATAAA
50285313 ATAT
1 ATAT
50285317 TATAAACTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
22 7 0.29
23 16 0.67
24 1 0.04
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (21 bp):
ATATACTAAAAAATAAATAAA
Found at i:50286627 original size:26 final size:25
Alignment explanation
Indices: 50286590--50286653 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
50286580 AAATATTAAG
*
50286590 ATAAATATTATTTATCTTCATAATA
1 ATAAATAATATTTATCTTCATAATA
* * *
50286615 ATTAAATAATATTTATTTTTATTATA
1 A-TAAATAATATTTATCTTCATAATA
50286641 ATAAATAAGTATT
1 ATAAATAA-TATT
50286654 AAATTTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 8 0.24
26 25 0.76
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (25 bp):
ATAAATAATATTTATCTTCATAATA
Found at i:50286664 original size:26 final size:26
Alignment explanation
Indices: 50286612--50286665 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
50286602 TATCTTCATA
* * *
50286612 ATAATTAAATAATATTTATTTTTATT
1 ATAATTAAATAATATTAAATTTAATT
50286638 ATAA-TAAATAAGTATTAAATTTAATT
1 ATAATTAAATAA-TATTAAATTTAATT
50286664 AT
1 AT
50286666 CAAAACTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
ATAATTAAATAATATTAAATTTAATT
Found at i:50292905 original size:14 final size:13
Alignment explanation
Indices: 50292883--50292916 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
50292873 AAAGTATTTT
*
50292883 AAAATTAAAAATTA
1 AAAAATAAAAA-TA
50292897 AAAAATAAAAATA
1 AAAAATAAAAATA
50292910 AAAAATA
1 AAAAATA
50292917 TATATTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAATAAAAATA
Found at i:50296902 original size:16 final size:16
Alignment explanation
Indices: 50296881--50296913 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
50296871 AAAAGATTTT
50296881 AGCTTTTGAGAAATAA
1 AGCTTTTGAGAAATAA
50296897 AGCTTTTGAGAAATAA
1 AGCTTTTGAGAAATAA
50296913 A
1 A
50296914 ATATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (16 bp):
AGCTTTTGAGAAATAA
Found at i:50298504 original size:30 final size:30
Alignment explanation
Indices: 50298468--50298524 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
50298458 TATTCTCATT
50298468 ATTAATAAGATACGAGATTAAATTACTCTC
1 ATTAATAAGATACGAGATTAAATTACTCTC
50298498 ATTAATAAGATACGAGATTAAATTACT
1 ATTAATAAGATACGAGATTAAATTACT
50298525 AAACAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.33
Consensus pattern (30 bp):
ATTAATAAGATACGAGATTAAATTACTCTC
Found at i:50299942 original size:2 final size:2
Alignment explanation
Indices: 50299935--50299960 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
50299925 TTGAGAGTTC
50299935 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
50299961 TCATATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50304028 original size:52 final size:51
Alignment explanation
Indices: 50303930--50304034 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
50303920 NNNNNNNNNN
* * *
50303930 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
* * * *
50303981 TATACATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATA
50304033 TA
1 TA
50304035 ATATAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.56
52 20 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
Found at i:50304322 original size:15 final size:13
Alignment explanation
Indices: 50304302--50304355 Score: 51
Period size: 12 Copynumber: 4.2 Consensus size: 13
50304292 TATATGTAGG
50304302 TATAATAATATATAA
1 TATAATAATA-A-AA
50304317 TATAATAATAAAA
1 TATAATAATAAAA
50304330 -ATAATAATAGAAA
1 TATAATAATA-AAA
*
50304343 -A-ATTAATAAAA
1 TATAATAATAAAA
50304354 TA
1 TA
50304356 GACTAAAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
11 3 0.08
12 16 0.44
13 6 0.17
14 1 0.03
15 10 0.28
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (13 bp):
TATAATAATAAAA
Found at i:50304600 original size:19 final size:21
Alignment explanation
Indices: 50304562--50304600 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
50304552 CTTTTTTTAA
*
50304562 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
50304583 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
50304601 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Done.