Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 22 of 167
Found at i:6632697 original size:25 final size:22
Alignment explanation
Indices: 6632635--6632714 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 22
6632625 TTTTCTTCTC
*
6632635 TGTTTGTTTCTTCTTTGTTTTTT
1 TGTTT-TTTCTTCTTTCTTTTTT
*
6632658 TGCTTTTTGTTTTCTGCTTCTTTTTT
1 TG-TTTTT-TCTTCT--TTCTTTTTT
*
6632684 TGTTTTTTCCTTCTTTGTTTTTT
1 TGTTTTTT-CTTCTTTCTTTTTT
*
6632707 TGTATTTT
1 TGTTTTTT
6632715 GCGTGTCTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
23 19 0.40
24 9 0.19
25 9 0.19
26 10 0.21
ACGTcount: A:0.01, C:0.11, G:0.11, T:0.76
Consensus pattern (22 bp):
TGTTTTTTCTTCTTTCTTTTTT
Found at i:6633015 original size:11 final size:11
Alignment explanation
Indices: 6632999--6633037 Score: 51
Period size: 11 Copynumber: 3.3 Consensus size: 11
6632989 TATTTTGGAT
6632999 TTTATTTTTGG
1 TTTATTTTTGG
6633010 TTTATTAGTTTGGG
1 TTTATT--TTT-GG
6633024 TTTATTTTTGG
1 TTTATTTTTGG
6633035 TTT
1 TTT
6633038 GTTGGTCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.44
12 3 0.12
13 3 0.12
14 8 0.32
ACGTcount: A:0.10, C:0.00, G:0.21, T:0.69
Consensus pattern (11 bp):
TTTATTTTTGG
Found at i:6633995 original size:26 final size:25
Alignment explanation
Indices: 6633970--6634020 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
6633960 GTTTACATTA
6633970 ATTT-ATTAATCAAGTTGTTAAAATT
1 ATTTAATTAATCAAGTT-TTAAAATT
*
6633995 ATTTAAATTATTCAAGTTTTAAAATT
1 ATTT-AATTAATCAAGTTTTAAAATT
6634021 CAACTCGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 4 0.17
26 8 0.35
27 11 0.48
ACGTcount: A:0.41, C:0.04, G:0.06, T:0.49
Consensus pattern (25 bp):
ATTTAATTAATCAAGTTTTAAAATT
Found at i:6636887 original size:26 final size:26
Alignment explanation
Indices: 6636851--6636901 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
6636841 AATCAGTTAA
* *
6636851 TCATCTGTTTTTTTATTGGGTTGTTC
1 TCATATGTTTTCTTATTGGGTTGTTC
*
6636877 TCATATGTTTTCTTGTTGGGTTGTT
1 TCATATGTTTTCTTATTGGGTTGTT
6636902 ATGTTCTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.08, C:0.10, G:0.22, T:0.61
Consensus pattern (26 bp):
TCATATGTTTTCTTATTGGGTTGTTC
Found at i:6639835 original size:21 final size:21
Alignment explanation
Indices: 6639811--6639852 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6639801 TTGTTAGTTA
*
6639811 CTATTAATCATTTATT-ATTAT
1 CTATCAATCATTT-TTCATTAT
*
6639832 CTATCAATTATTTTTCATTAT
1 CTATCAATCATTTTTCATTAT
6639853 GTTGCTTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.31, C:0.12, G:0.00, T:0.57
Consensus pattern (21 bp):
CTATCAATCATTTTTCATTAT
Found at i:6640982 original size:23 final size:23
Alignment explanation
Indices: 6640954--6641000 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6640944 TAATAGAAGG
6640954 AATCAGTTCTGTTCTTAATAAGA
1 AATCAGTTCTGTTCTTAATAAGA
6640977 AATCAGTTCTGTTCTTAATAAGA
1 AATCAGTTCTGTTCTTAATAAGA
6641000 A
1 A
6641001 GAAAGAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (23 bp):
AATCAGTTCTGTTCTTAATAAGA
Found at i:6641002 original size:26 final size:25
Alignment explanation
Indices: 6640943--6641004 Score: 92
Period size: 23 Copynumber: 2.5 Consensus size: 25
6640933 GATTCAGGGA
*
6640943 TTAATAGAAGGAATCAGTTCTGTTC
1 TTAATAGAAGAAATCAGTTCTGTTC
6640968 TTAAT--AAGAAATCAGTTCTGTTC
1 TTAATAGAAGAAATCAGTTCTGTTC
6640991 TTAATAAGAAGAAA
1 TTAAT-AGAAGAAA
6641005 GAAGATGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
23 22 0.67
25 5 0.15
26 6 0.18
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (25 bp):
TTAATAGAAGAAATCAGTTCTGTTC
Found at i:6649495 original size:23 final size:23
Alignment explanation
Indices: 6649469--6649513 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6649459 TGGGTATGTG
*
6649469 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
6649492 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
6649514 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:6651809 original size:19 final size:19
Alignment explanation
Indices: 6651785--6651821 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
6651775 TCCAAACATC
6651785 AGAAAAGTAAATCATTTTT
1 AGAAAAGTAAATCATTTTT
6651804 AGAAAAGTAAATCATTTT
1 AGAAAAGTAAATCATTTT
6651822 CCGTAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (19 bp):
AGAAAAGTAAATCATTTTT
Found at i:6653998 original size:13 final size:13
Alignment explanation
Indices: 6653982--6654006 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6653972 CTTTGCATAC
6653982 TGTCTTCAACAGG
1 TGTCTTCAACAGG
6653995 TGTCTTCAACAG
1 TGTCTTCAACAG
6654007 CTCGCACTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (13 bp):
TGTCTTCAACAGG
Found at i:6655041 original size:17 final size:17
Alignment explanation
Indices: 6655016--6655049 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6655006 AGCATCCCCT
*
6655016 TACTTTCTTGCCGAAAC
1 TACTCTCTTGCCGAAAC
6655033 TACTCTCTTGCCGAAAC
1 TACTCTCTTGCCGAAAC
6655050 GACCTACTCA
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:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (17 bp):
TACTCTCTTGCCGAAAC
Found at i:6657575 original size:29 final size:29
Alignment explanation
Indices: 6657512--6657575 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 29
6657502 TAAATTTGAT
*
6657512 TTTTTTAAAATCATAATTTAGCATTTTTA
1 TTTTTTAAAATCATAATTTAGAATTTTTA
* *
6657541 TATTTTAAAAT-AT-TTTTAGTAATTTTTAA
1 TTTTTTAAAATCATAATTTAG-AATTTTT-A
6657570 TTTTTT
1 TTTTTT
6657576 GAATATATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 5 0.17
28 8 0.28
29 16 0.55
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (29 bp):
TTTTTTAAAATCATAATTTAGAATTTTTA
Found at i:6671569 original size:16 final size:16
Alignment explanation
Indices: 6671545--6671576 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6671535 ATCCACAAGA
*
6671545 CTTATGTGCATGAATT
1 CTTACGTGCATGAATT
6671561 CTTACGTGCATGAATT
1 CTTACGTGCATGAATT
6671577 TCTCTTTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.19, T:0.41
Consensus pattern (16 bp):
CTTACGTGCATGAATT
Found at i:6672073 original size:23 final size:23
Alignment explanation
Indices: 6672043--6672094 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
6672033 TGCAACTTGG
6672043 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
6672066 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
6672089 TTTCAT
1 TTTCAT
6672095 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:6676526 original size:23 final size:23
Alignment explanation
Indices: 6676496--6676547 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
6676486 TGCAACTTGG
6676496 TTTCATAATAATAGCTA-ATATGC
1 TTTCATAATAATAGCTATA-ATGC
*
6676519 TTTCATAATGATAGCTATAATGC
1 TTTCATAATAATAGCTATAATGC
6676542 TTTCAT
1 TTTCAT
6676548 CTTTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (23 bp):
TTTCATAATAATAGCTATAATGC
Found at i:6682831 original size:24 final size:24
Alignment explanation
Indices: 6682802--6682854 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
6682792 TAGAATACAT
*
6682802 GTTTTGGGGTCTGAACTCAATATG
1 GTTTTGGGGTCTAAACTCAATATG
* *
6682826 GTTTTGGGGTTTAAACTCAGTATG
1 GTTTTGGGGTCTAAACTCAATATG
6682850 GTTTT
1 GTTTT
6682855 TTGTATTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.09, G:0.28, T:0.43
Consensus pattern (24 bp):
GTTTTGGGGTCTAAACTCAATATG
Found at i:6683553 original size:20 final size:20
Alignment explanation
Indices: 6683530--6683579 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
6683520 AAATCCAAAT
6683530 TAAAATACTAAAATTCAGGA
1 TAAAATACTAAAATTCAGGA
* * *
6683550 TAAAATCCTGAAATTCAGTA
1 TAAAATACTAAAATTCAGGA
6683570 TAAGAATACT
1 TAA-AATACT
6683580 GATGTGGCAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
20 20 0.80
21 5 0.20
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
TAAAATACTAAAATTCAGGA
Found at i:6686430 original size:23 final size:23
Alignment explanation
Indices: 6686400--6686446 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
6686390 ATGCATGCAC
6686400 ATAAGTGTCATGCCCATAGCTAG
1 ATAAGTGTCATGCCCATAGCTAG
6686423 ATAAGTGTCATGCCCATAGCTAG
1 ATAAGTGTCATGCCCATAGCTAG
6686446 A
1 A
6686447 CAAACTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (23 bp):
ATAAGTGTCATGCCCATAGCTAG
Found at i:6687686 original size:12 final size:12
Alignment explanation
Indices: 6687669--6687693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6687659 CCTAACTTAA
6687669 AAATATTTTATT
1 AAATATTTTATT
6687681 AAATATTTTATT
1 AAATATTTTATT
6687693 A
1 A
6687694 CACCCATTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATATTTTATT
Found at i:6689915 original size:28 final size:28
Alignment explanation
Indices: 6689866--6689959 Score: 93
Period size: 28 Copynumber: 3.4 Consensus size: 28
6689856 GTTTAGCTTT
* * *
6689866 ATATATGGTCGGCTCTGCCACTT-AAGTG
1 ATATATGGTCAGCTCTGACACTTGAA-TA
*
6689894 ATATATGGTCAGCTTTGACACTTGAATA
1 ATATATGGTCAGCTCTGACACTTGAATA
** *
6689922 ATATATGGTCA-CTTCTTCCACCTGAATA
1 ATATATGGTCAGC-TCTGACACTTGAATA
6689950 ATATATGGTC
1 ATATATGGTC
6689960 GGCCCTACCG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
27 1 0.02
28 53 0.95
29 2 0.04
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (28 bp):
ATATATGGTCAGCTCTGACACTTGAATA
Found at i:6702809 original size:15 final size:15
Alignment explanation
Indices: 6702791--6702824 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
6702781 TGATAAATTG
6702791 AAATAAAGTAAAAGA
1 AAATAAAGTAAAAGA
* *
6702806 AAATAAATTGAAAGA
1 AAATAAAGTAAAAGA
6702821 AAAT
1 AAAT
6702825 TCATTTTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (15 bp):
AAATAAAGTAAAAGA
Found at i:6705447 original size:80 final size:80
Alignment explanation
Indices: 6705314--6705475 Score: 306
Period size: 80 Copynumber: 2.0 Consensus size: 80
6705304 CCATTTGTGT
*
6705314 TTAAAATATTAAAGATTTTACCAATTTGCTTACATTTTAAAAATCCAAGGATTTAATTGCTACGT
1 TTAAAATATTAAAGATTTTACCAATTTGCTTACATTTTAAAAATCCAAGGATTTAATTGCTACAT
6705379 TTTTAGTAGAGGGAC
66 TTTTAGTAGAGGGAC
*
6705394 TTAAAATATTAAAGATTTTACCAATTTGCTTACATTTTAAAAATCCAGGGATTTAATTGCTACAT
1 TTAAAATATTAAAGATTTTACCAATTTGCTTACATTTTAAAAATCCAAGGATTTAATTGCTACAT
6705459 TTTTAGTAGAGGGAC
66 TTTTAGTAGAGGGAC
6705474 TT
1 TT
6705476 GTAGCTCTCT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.40
Consensus pattern (80 bp):
TTAAAATATTAAAGATTTTACCAATTTGCTTACATTTTAAAAATCCAAGGATTTAATTGCTACAT
TTTTAGTAGAGGGAC
Found at i:6705819 original size:9 final size:9
Alignment explanation
Indices: 6705801--6705847 Score: 85
Period size: 9 Copynumber: 5.2 Consensus size: 9
6705791 TTGAGTTTTT
6705801 TAATTCGAA
1 TAATTCGAA
*
6705810 TAACTCGAA
1 TAATTCGAA
6705819 TAATTCGAA
1 TAATTCGAA
6705828 TAATTCGAA
1 TAATTCGAA
6705837 TAATTCGAA
1 TAATTCGAA
6705846 TA
1 TA
6705848 TCAAACTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 36 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (9 bp):
TAATTCGAA
Found at i:6707036 original size:18 final size:19
Alignment explanation
Indices: 6706993--6707039 Score: 53
Period size: 18 Copynumber: 2.5 Consensus size: 19
6706983 GTCAGGCTAT
*
6706993 TGTTCTTCTTCTTCCTCTC
1 TGTTTTTCTTCTTCCTCTC
*
6707012 TCG-TTTTCTTC-TCCTTTC
1 T-GTTTTTCTTCTTCCTCTC
6707030 TGTTTTTCTT
1 TGTTTTTCTT
6707040 TCCCTTTCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
17 1 0.04
18 14 0.58
19 8 0.33
20 1 0.04
ACGTcount: A:0.00, C:0.30, G:0.06, T:0.64
Consensus pattern (19 bp):
TGTTTTTCTTCTTCCTCTC
Found at i:6709227 original size:2 final size:2
Alignment explanation
Indices: 6709220--6709253 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6709210 AACGTTTTAT
6709220 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6709254 GTTTTAATGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:6716600 original size:16 final size:16
Alignment explanation
Indices: 6716537--6716609 Score: 58
Period size: 16 Copynumber: 4.4 Consensus size: 16
6716527 AGGAAATGTA
6716537 ATTAAAAATATTTAATT
1 ATTAAAAATATTTAA-T
* *
6716554 AATTTAAAATAGATT-AT
1 -ATTAAAAATA-TTTAAT
* * *
6716571 ATCAATATTATTTAAT
1 ATTAAAAATATTTAAT
*
6716587 TTTAAAAATATTTAAT
1 ATTAAAAATATTTAAT
6716603 ATTAAAA
1 ATTAAAA
6716610 TAATACAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
15 2 0.05
16 26 0.63
17 1 0.02
18 10 0.24
19 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (16 bp):
ATTAAAAATATTTAAT
Found at i:6720424 original size:19 final size:20
Alignment explanation
Indices: 6720388--6720429 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
6720378 TAGAAATTTG
6720388 ATTGATTAATTGTATTAAAA
1 ATTGATTAATTGTATTAAAA
*
6720408 ATTGATT-ATTTTATTAAAA
1 ATTGATTAATTGTATTAAAA
6720427 ATT
1 ATT
6720430 TTGATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (20 bp):
ATTGATTAATTGTATTAAAA
Found at i:6725230 original size:14 final size:13
Alignment explanation
Indices: 6725177--6725269 Score: 57
Period size: 14 Copynumber: 6.5 Consensus size: 13
6725167 TATTTCTATT
6725177 TCTATTTCTATTTA
1 TCTATTT-TATTTA
6725191 T-T-TTGTTATTCTGA
1 TCTATT-TTATT-T-A
6725205 TACTATTATTATTTA
1 T-CTATT-TTATTTA
6725220 TCTAATTTTATTTA
1 TCT-ATTTTATTTA
*
6725234 TCTATTTATATTTC
1 TCTATTT-TATTTA
6725248 TACTATTATTATATT-
1 T-CTATT-TTAT-TTA
6725263 TCTATTT
1 TCTATTT
6725270 ATTATATTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 23
0.73 0.02 0.25
Matches are distributed among these distances:
12 6 0.09
13 8 0.12
14 26 0.39
15 14 0.21
16 5 0.08
17 7 0.11
ACGTcount: A:0.25, C:0.10, G:0.02, T:0.63
Consensus pattern (13 bp):
TCTATTTTATTTA
Found at i:6725242 original size:29 final size:30
Alignment explanation
Indices: 6725210--6725274 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
6725200 TCTGATACTA
6725210 TTATTATTTAT-CTAATT-TTAT-TTATCTAT
1 TTATTATTTATACT-ATTATTATATT-TCTAT
*
6725239 TTA-TATTTCTACTATTATTATATTTCTAT
1 TTATTATTTATACTATTATTATATTTCTAT
6725268 TTATTAT
1 TTATTAT
6725275 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
28 9 0.29
29 17 0.55
30 5 0.16
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.65
Consensus pattern (30 bp):
TTATTATTTATACTATTATTATATTTCTAT
Found at i:6725271 original size:15 final size:15
Alignment explanation
Indices: 6725239--6725284 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
6725229 ATTTATCTAT
6725239 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
6725256 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
6725271 TTATATTTTTATTT
1 TTATATTTCTATTT
6725285 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:6725277 original size:23 final size:23
Alignment explanation
Indices: 6725251--6725317 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 23
6725241 ATATTTCTAC
6725251 TATTATTATATTTCTATTTATTA
1 TATTATTATATTTCTATTTATTA
6725274 TATT-TT-TATTTCTATTTATATA
1 TATTATTATATTTCTATTTAT-TA
*
6725296 CTAATATTAT-TTTC-A-TTATTA
1 -TATTATTATATTTCTATTTATTA
6725317 T
1 T
6725318 TTTTCTTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
20 1 0.03
21 15 0.38
22 8 0.21
23 8 0.21
24 6 0.15
25 1 0.03
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (23 bp):
TATTATTATATTTCTATTTATTA
Found at i:6732374 original size:177 final size:177
Alignment explanation
Indices: 6731868--6732375 Score: 651
Period size: 177 Copynumber: 2.9 Consensus size: 177
6731858 GACATCGGTG
* * *
6731868 AAAATTACAGATCTTATCTCTATGTATCGGCTATGAAGCAGATAAAAAATGGCAAGTCTTATCTC
1 AAAATTACAGATATTATCTCTATGTATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTC
* *
6731933 CATGTATCGGTTATGGAGCAGATTTAAGCCACCGGCCTTATCTCTCTGAGATAGCAAGAGAATAG
66 CATGTATCGGCTATGGAGCAGATTTAAGCCACCGGCCTTATCTCTCTGAGATAGCAAGAGAACAG
* * * ** * * *
6731998 GTTGAAGATACGCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTA
131 GTTGAAGATACGAGTCTTATCTTCCTAAGCAGCAAGGTAACAGACTA
* * * *
6732045 AAAATTACAGATTTTATCTCTATGTATCGGCTATGGAGCAAATAAAAAATGACGAGTCTTATCTT
1 AAAATTACAGATATTATCTCTATGTATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTC
* * * * * *
6732110 CATGTATCGACTATGGAGTAGATTTAAGCCACCGGTCTTATCTCTCTGAGGTAGTAGGAGAACAG
66 CATGTATCGGCTATGGAGCAGATTTAAGCCACCGGCCTTATCTCTCTGAGATAGCAAGAGAACAG
* *
6732175 GTTGAAGATACGAGTCTTATCTTCCTAAGGTAGCAAGG-AAGCAGACTG
131 GTTGAAGATACGAGTCTTATCTTCCTAA-GCAGCAAGGTAA-CAGACTA
* * * * * *
6732223 CAAATTATAGATATTATCTCCATGTAT-GGCTATGGAGCAGATCAGAAATGGCGAGTCTTATATC
1 AAAATTACAGATATTATCTCTATGTATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTC
* * * * *
6732287 CATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGATAGCAAGAGAGCAA
66 CATGTATCGGCTATGGAGCAGATTTAAGCCACCGGCCTTATCTCTCTGAGATAGCAAGAGAACAG
*
6732352 GTTGAAGATACGAGTTTTATCTTC
131 GTTGAAGATACGAGTCTTATCTTC
6732376 ATATATCGGC
Statistics
Matches: 283, Mismatches: 46, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
177 249 0.88
178 34 0.12
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (177 bp):
AAAATTACAGATATTATCTCTATGTATCGGCTATGGAGCAGATAAAAAATGGCGAGTCTTATCTC
CATGTATCGGCTATGGAGCAGATTTAAGCCACCGGCCTTATCTCTCTGAGATAGCAAGAGAACAG
GTTGAAGATACGAGTCTTATCTTCCTAAGCAGCAAGGTAACAGACTA
Found at i:6732384 original size:88 final size:88
Alignment explanation
Indices: 6732276--6732463 Score: 286
Period size: 88 Copynumber: 2.1 Consensus size: 88
6732266 AGAAATGGCG
* * * *
6732276 AGTCTTATATCCATATATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGATAG
1 AGTCTTATCTTCATATATCGGCTATGGAGCAAATTTTACCCACCAGCCTTATCTCTCTGAGATAG
* *
6732341 CAAGAGAGCAAGTTGAAGATACG
66 CAAGAGAGCAAGTTGAAAATACA
* * * *
6732364 AGTTTTATCTTCATATATCGGCTATGGAGTAAATTTTACCCACGAGCCTTATCTCTCTGAGGTAG
1 AGTCTTATCTTCATATATCGGCTATGGAGCAAATTTTACCCACCAGCCTTATCTCTCTGAGATAG
6732429 CAAGAGAGCAAGTTGAAAATACA
66 CAAGAGAGCAAGTTGAAAATACA
6732452 AGTCTTATCTTC
1 AGTCTTATCTTC
6732464 TTGAGGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (88 bp):
AGTCTTATCTTCATATATCGGCTATGGAGCAAATTTTACCCACCAGCCTTATCTCTCTGAGATAG
CAAGAGAGCAAGTTGAAAATACA
Found at i:6732490 original size:44 final size:46
Alignment explanation
Indices: 6732411--6732506 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 46
6732401 ACCCACGAGC
*
6732411 CTTATC-TCTCTGAGGTAGCAAGAGAGCAAGTTGAAAA-TACA-AGT
1 CTTATCTTCTCTGAGGTAGCAAGAGAGCAAGCTGAAAATTACAGA-T
6732455 CTTATCTTCT-TGAGGTAGCAAG-GAAGC-AGACTGAAAATTACAGAT
1 CTTATCTTCTCTGAGGTAGCAAGAG-AGCAAG-CTGAAAATTACAGAT
6732500 CTTATCT
1 CTTATCT
6732507 CTATATATCG
Statistics
Matches: 46, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
43 3 0.07
44 27 0.59
45 15 0.33
46 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (46 bp):
CTTATCTTCTCTGAGGTAGCAAGAGAGCAAGCTGAAAATTACAGAT
Found at i:6732592 original size:178 final size:178
Alignment explanation
Indices: 6732362--6732984 Score: 901
Period size: 178 Copynumber: 3.5 Consensus size: 178
6732352 GTTGAAGATA
* * * * * * *
6732362 CGAGTTTTATCTTCATATATCGGCTATGGAGTAAATTTTACCCACGAGCCTTATCTCTCTGAGGT
1 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
* *
6732427 AGCAAGAGAGCAAGTTGAAAATACAAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAAA
66 AGCAAGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAA
* * * * * *
6732492 TTACAGATCTTATCTCTATATATCGACTATGGAGCAGGT-TGAAGATGG
131 TTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAA-ATGG
* * * *
6732540 TGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAACCATCAGCCTTATCTTTCTGAGGT
1 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
* * * *
6732605 AGTAAGAGAGCAAATTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGCAAA
66 AGCAAGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAA
* *
6732670 TTATAGATCTTATATCCATGTATCGGCTATAGAGCAGATCAGAAATGG
131 TTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
6732718 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
1 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
* *
6732783 AGCAAGATAGC-AGATTGAAGATACAAGTCTTATCTTCCTAAGGTAGCAAGGAAGCAGACT-ACA
66 AGCAAGAGAGCAAG-TTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGA-A
*
6732846 AATTATAGATCTTATCTCCATGTATCGGCTATGGAGTAGATCAGAAATGG
129 AATTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
* * *
6732896 CGAGCCTTATCTCCGTGTATCTGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
1 CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
* *
6732961 AGCAGGAGAGTAAGTTGAAGATAC
66 AGCAAGAGAGCAAGTTGAAGATAC
6732985 GAGCCTTAAC
Statistics
Matches: 398, Mismatches: 43, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
177 1 0.00
178 392 0.98
179 5 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (178 bp):
CGAGTCTTATCTCCATGTATCGGCTATGGAGCAGATTTTAGCCACCAGCCTTATCTCTCTGAGGT
AGCAAGAGAGCAAGTTGAAGATACAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAAA
TTATAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGG
Found at i:6733978 original size:14 final size:15
Alignment explanation
Indices: 6733957--6734079 Score: 50
Period size: 14 Copynumber: 8.5 Consensus size: 15
6733947 ATATTATTGC
6733957 TATTATTTTTATATT
1 TATTATTTTTATATT
6733972 T-TTA--TTTATATT
1 TATTATTTTTATATT
*
6733984 TATT-TTTTTAT-TC
1 TATTATTTTTATATT
* * *
6733997 TAATACTATTATTATT
1 TATTATTTTTA-TATT
*
6734013 TATCTA-ATTT-TATT
1 TAT-TATTTTTATATT
*
6734027 TATCTATTTATAT-TT
1 TAT-TATTTTTATATT
* *
6734042 CTACTATTATTATATT
1 -TATTATTTTTATATT
*
6734058 T-CTATTTATTATATT
1 TATTATTT-TTATATT
6734073 T-TTATTT
1 TATTATTT
6734080 CTATTTATAT
Statistics
Matches: 81, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
12 9 0.11
13 6 0.07
14 27 0.33
15 27 0.33
16 10 0.12
17 2 0.02
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTATTTTTATATT
Found at i:6733985 original size:18 final size:18
Alignment explanation
Indices: 6733959--6734089 Score: 69
Period size: 18 Copynumber: 7.3 Consensus size: 18
6733949 ATTATTGCTA
*
6733959 TTATTTTTATATTTTTAT
1 TTATATTTATATTTTTAT
*
6733977 TTATATTTATTTTTTTAT
1 TTATATTTATATTTTTAT
*
6733995 TCTAATACTATTAT-TATTTAT
1 T-T-ATA-T-TTATATTTTTAT
*
6734016 CTA-ATTT-TATTTATCTAT
1 TTATATTTATATTT-T-TAT
* * *
6734034 TTATATTTCTACTATTA-
1 TTATATTTATATTTTTAT
*
6734051 TTATATTTCTA--TTTA-
1 TTATATTTATATTTTTAT
* *
6734066 TTATATTTTTATTTCTAT
1 TTATATTTATATTTTTAT
6734084 TTATAT
1 TTATAT
6734090 ACTAATATTA
Statistics
Matches: 90, Mismatches: 11, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
15 14 0.16
16 4 0.04
17 16 0.18
18 31 0.34
19 7 0.08
20 7 0.08
21 7 0.08
22 4 0.04
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (18 bp):
TTATATTTATATTTTTAT
Found at i:6734037 original size:29 final size:30
Alignment explanation
Indices: 6733960--6734069 Score: 79
Period size: 29 Copynumber: 3.8 Consensus size: 30
6733950 TTATTGCTAT
* * **
6733960 TATTTTTATATTTTTATTTA-TATTTATTT
1 TATTATTATATTTCTATTTATTATTTATAC
* * * *
6733989 TTTTATTCTAATACTA-TTATTATTTAT-C
1 TATTATTATATTTCTATTTATTATTTATAC
*
6734017 TAATT-TTAT-TTATCTATTTA-TATTTCTAC
1 T-ATTATTATATT-TCTATTTATTATTTATAC
6734046 TATTATTATATTTCTATTTATTAT
1 TATTATTATATTTCTATTTATTAT
6734070 ATTTTTATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 15
0.69 0.14 0.17
Matches are distributed among these distances:
27 1 0.02
28 19 0.31
29 36 0.59
30 5 0.08
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.66
Consensus pattern (30 bp):
TATTATTATATTTCTATTTATTATTTATAC
Found at i:6734066 original size:15 final size:15
Alignment explanation
Indices: 6734034--6734079 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
6734024 ATTTATCTAT
6734034 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
6734051 TTATATTTCTATTTA
1 TTATATTTCTATTTA
*
6734066 TTATATTTTTATTT
1 TTATATTTCTATTT
6734080 CTATTTATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:6734195 original size:24 final size:24
Alignment explanation
Indices: 6734154--6734207 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
6734144 TAACATTCTA
* *
6734154 TTTATTTATTTATTTATTTTACATTT
1 TTTA-TTATTTATCTATTTTA-ACTT
6734180 TTTATTA-TTATCTATTTTAACTT
1 TTTATTATTTATCTATTTTAACTT
6734203 TTTAT
1 TTTAT
6734208 ACAACGCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 8 0.31
24 11 0.42
25 3 0.12
26 4 0.15
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTATTATTTATCTATTTTAACTT
Found at i:6737068 original size:13 final size:13
Alignment explanation
Indices: 6737052--6737080 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
6737042 AGATATTGCC
6737052 CAAAGATGATCCA
1 CAAAGATGATCCA
6737065 CAAAGATGATCCA
1 CAAAGATGATCCA
6737078 CAA
1 CAA
6737081 CTAGAGGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.24, G:0.14, T:0.14
Consensus pattern (13 bp):
CAAAGATGATCCA
Found at i:6737251 original size:12 final size:12
Alignment explanation
Indices: 6737234--6737266 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6737224 CGACCCATCC
6737234 ATATTAATTTTT
1 ATATTAATTTTT
6737246 ATATT-ATTTTT
1 ATATTAATTTTT
6737257 ATA-TAATTTT
1 ATATTAATTTT
6737267 AAAAATATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:6737461 original size:11 final size:11
Alignment explanation
Indices: 6737447--6737505 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
6737437 ATATCCAAAC
*
6737447 AATAATAATAA
1 AATAATAGTAA
*
6737458 AATAGTAGTAA
1 AATAATAGTAA
*
6737469 CATAATAGTAA
1 AATAATAGTAA
*
6737480 CATAATAGTAA
1 AATAATAGTAA
*
6737491 AATAGTAGTAA
1 AATAATAGTAA
6737502 AATA
1 AATA
6737506 GGGAGAAAAC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 42 1.00
ACGTcount: A:0.59, C:0.03, G:0.10, T:0.27
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:6739210 original size:12 final size:12
Alignment explanation
Indices: 6739167--6739211 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
6739157 CTCTCTCTCT
6739167 ATTTTTTA--TA
1 ATTTTTTATTTA
*
6739177 ATTTTTTTTTTA
1 ATTTTTTATTTA
*
6739189 ATTTTATATTTA
1 ATTTTTTATTTA
6739201 ATTTTTTATTT
1 ATTTTTTATTT
6739212 TTAACATGTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 7 0.24
12 22 0.76
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
ATTTTTTATTTA
Found at i:6739709 original size:42 final size:42
Alignment explanation
Indices: 6739630--6739714 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
6739620 AATAAAGAGC
* *
6739630 TTAAGATTTATTCAAGGAAAGAACAGCTATAATGCAACAAAA
1 TTAAGATTTATTCAAGGAAAGAACAGCGATAACGCAACAAAA
* ***
6739672 TTAAGATTTATTTAAGGAAAGAGTTGCGATAACGCAACAAAA
1 TTAAGATTTATTCAAGGAAAGAACAGCGATAACGCAACAAAA
6739714 T
1 T
6739715 CTTTATTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (42 bp):
TTAAGATTTATTCAAGGAAAGAACAGCGATAACGCAACAAAA
Found at i:6744001 original size:19 final size:19
Alignment explanation
Indices: 6743956--6744016 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
6743946 ATCTAATTAC
6743956 AAATATTTAATTATTATATTT
1 AAATATTTAATTA-TA-ATTT
*
6743977 AAATATTTAAATATAATTT
1 AAATATTTAATTATAATTT
*
6743996 ATATATTCTAATTA-AATTT
1 AAATATT-TAATTATAATTT
6744015 AA
1 AA
6744017 TAAATAATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 7 0.20
21 12 0.34
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
AAATATTTAATTATAATTT
Found at i:6748402 original size:18 final size:18
Alignment explanation
Indices: 6748379--6748431 Score: 106
Period size: 18 Copynumber: 2.9 Consensus size: 18
6748369 AATACTTGTA
6748379 AAGGTTGCTTCCAATCTG
1 AAGGTTGCTTCCAATCTG
6748397 AAGGTTGCTTCCAATCTG
1 AAGGTTGCTTCCAATCTG
6748415 AAGGTTGCTTCCAATCT
1 AAGGTTGCTTCCAATCT
6748432 TCAGAAATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.34
Consensus pattern (18 bp):
AAGGTTGCTTCCAATCTG
Found at i:6751738 original size:19 final size:20
Alignment explanation
Indices: 6751716--6751761 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6751706 TTAAAATATC
6751716 TATAAAAAAT-TAAAAATTA
1 TATAAAAAATCTAAAAATTA
* *
6751735 TAT-AAAACTCTAAATATTA
1 TATAAAAAATCTAAAAATTA
6751754 TATAAAAA
1 TATAAAAA
6751762 TGTTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 14 0.61
20 4 0.17
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (20 bp):
TATAAAAAATCTAAAAATTA
Found at i:6751741 original size:17 final size:18
Alignment explanation
Indices: 6751706--6751760 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
6751696 CTTCAAAATT
*
6751706 TTAAAATATCTATA-AAAAA
1 TTAAAA-AT-TATATAAAAC
6751725 TTAAAAATTATATAAAAC
1 TTAAAAATTATATAAAAC
*
6751743 TCTAAATATTATATAAAA
1 T-TAAAAATTATATAAAA
6751761 ATGTTAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 4 0.12
18 7 0.22
19 21 0.66
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAATTATATAAAAC
Found at i:6753698 original size:37 final size:37
Alignment explanation
Indices: 6753648--6753725 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
6753638 AGTGATATAC
*
6753648 TATTGAAAATTTTAAGTACCAAACTATTGCAAAAAAT
1 TATTGAAAATTTTAAGTAACAAACTATTGCAAAAAAT
*
6753685 TATTGAAAATTTTAAGTAACAAATTATTGCAAAAAAT
1 TATTGAAAATTTTAAGTAACAAACTATTGCAAAAAAT
6753722 TATT
1 TATT
6753726 TAAGTACCAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (37 bp):
TATTGAAAATTTTAAGTAACAAACTATTGCAAAAAAT
Found at i:6759726 original size:18 final size:18
Alignment explanation
Indices: 6759703--6759737 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
6759693 ATAAGTTAGC
6759703 AATCTAAATTCATTTAAA
1 AATCTAAATTCATTTAAA
6759721 AATCTAAATTCATTTAA
1 AATCTAAATTCATTTAA
6759738 TTTATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (18 bp):
AATCTAAATTCATTTAAA
Found at i:6762646 original size:17 final size:17
Alignment explanation
Indices: 6762619--6762674 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 17
6762609 TATTATTTTG
6762619 AAATT-AAAATATATAT
1 AAATTAAAAATATATAT
6762635 AAATTAAAAATAAAATATAT
1 AAATTAAAAAT---ATATAT
*
6762655 AAATTAATAAA-AAATAT
1 AAATTAA-AAATATATAT
6762672 AAA
1 AAA
6762675 AAATTTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
16 5 0.15
17 13 0.38
20 13 0.38
21 3 0.09
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAATTAAAAATATATAT
Found at i:6762654 original size:20 final size:19
Alignment explanation
Indices: 6762624--6762672 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
6762614 TTTTGAAATT
*
6762624 AAAATATATATAAATTAAA
1 AAAAAATATATAAATTAAA
*
6762643 AATAAAATATATAAATTAAT
1 AA-AAAATATATAAATTAAA
6762663 AAAAAATATA
1 AAAAAATATA
6762673 AAAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAAATATATAAATTAAA
Found at i:6762667 original size:24 final size:22
Alignment explanation
Indices: 6762623--6762670 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
6762613 ATTTTGAAAT
*
6762623 TAAAATATATATAAATTAAAAA
1 TAAAATATATATAAATAAAAAA
*
6762645 TAAAATATATAAATTAATAAAAAA
1 TAAAATATAT--ATAAATAAAAAA
6762669 TA
1 TA
6762671 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 10 0.45
24 12 0.55
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATATATATAAATAAAAAA
Found at i:6762678 original size:20 final size:20
Alignment explanation
Indices: 6762624--6762693 Score: 70
Period size: 20 Copynumber: 3.3 Consensus size: 20
6762614 TTTTGAAATT
*
6762624 AAAATATATATAAATTAAAAA
1 AAAATATA-ATAAATTAATAA
6762645 TAAAATAT-ATAAATTAATAA
1 -AAAATATAATAAATTAATAA
*
6762665 AAAATATAAAAAATTTTATATAA
1 AAAATATAATAAA--TTA-ATAA
6762688 AAAATA
1 AAAATA
6762694 ATCCTAGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
19 7 0.17
20 15 0.36
22 10 0.24
23 10 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAATATAATAAATTAATAA
Found at i:6766352 original size:27 final size:27
Alignment explanation
Indices: 6766293--6766351 Score: 93
Period size: 26 Copynumber: 2.2 Consensus size: 27
6766283 ATTTGTATAT
*
6766293 ACTTTTATAAGTTTTTAATTTTTTTTA
1 ACTTTTATAACTTTTTAATTTTTTTTA
*
6766320 ACTTTTATAACTTTTT-ATTTTTTTTT
1 ACTTTTATAACTTTTTAATTTTTTTTA
6766346 ACTTTT
1 ACTTTT
6766352 TTAATTTATA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
26 15 0.50
27 15 0.50
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.69
Consensus pattern (27 bp):
ACTTTTATAACTTTTTAATTTTTTTTA
Found at i:6766365 original size:27 final size:28
Alignment explanation
Indices: 6766276--6766365 Score: 89
Period size: 27 Copynumber: 3.4 Consensus size: 28
6766266 CCTTAGTTAT
* * * *
6766276 TTTATATATTTGTATATACTTTTATAAG
1 TTTATATATTTTTTTTTACTTTTATAAC
* *
6766304 TTTTTA-ATTTTTTTTAACTTTTATAAC
1 TTTATATATTTTTTTTTACTTTTATAAC
*
6766331 TTT-T-TATTTTTTTTTACTTTTTTAA-
1 TTTATATATTTTTTTTTACTTTTATAAC
6766356 TTTATATATT
1 TTTATATATT
6766366 ATATATTATA
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
25 3 0.06
26 20 0.39
27 23 0.45
28 5 0.10
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.68
Consensus pattern (28 bp):
TTTATATATTTTTTTTTACTTTTATAAC
Found at i:6766451 original size:16 final size:16
Alignment explanation
Indices: 6766356--6766453 Score: 51
Period size: 16 Copynumber: 6.1 Consensus size: 16
6766346 ACTTTTTTAA
*
6766356 TTTATATATTATATAT
1 TTTATATATTTTATAT
* ** *
6766372 TATA-ATATTAAACAT
1 TTTATATATTTTATAT
*
6766387 TTTTTATAATTTT-TAT
1 TTTATAT-ATTTTATAT
*
6766403 TTGTATGTATTTTTATAT
1 TT-TATATA-TTTTATAT
*
6766421 TTT-TATAATTCTATAT
1 TTTATAT-ATTTTATAT
6766437 TTTATAT-TTTATATAT
1 TTTATATATTT-TATAT
6766453 T
1 T
6766454 GAAAATAATA
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
15 13 0.21
16 28 0.46
17 15 0.25
18 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (16 bp):
TTTATATATTTTATAT
Found at i:6767313 original size:14 final size:14
Alignment explanation
Indices: 6767294--6767327 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6767284 TTGTTTCACT
*
6767294 GAAAATTACTTCTG
1 GAAAATGACTTCTG
*
6767308 GAAAATGATTTCTG
1 GAAAATGACTTCTG
6767322 GAAAAT
1 GAAAAT
6767328 AATTTATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (14 bp):
GAAAATGACTTCTG
Found at i:6767332 original size:14 final size:14
Alignment explanation
Indices: 6767303--6767332 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6767293 TGAAAATTAC
*
6767303 TTCTGGAAAATGAT
1 TTCTGGAAAATAAT
6767317 TTCTGGAAAATAAT
1 TTCTGGAAAATAAT
6767331 TT
1 TT
6767333 ATATTTTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.40
Consensus pattern (14 bp):
TTCTGGAAAATAAT
Found at i:6767848 original size:16 final size:17
Alignment explanation
Indices: 6767829--6767865 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
6767819 TTGTGAATAA
6767829 TATTATTTAAAA-TTAT
1 TATTATTTAAAATTTAT
6767845 TATT-TTTAAAATTTAT
1 TATTATTTAAAATTTAT
6767861 TATTA
1 TATTA
6767866 AATAAAATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATTTAAAATTTAT
Found at i:6768546 original size:34 final size:34
Alignment explanation
Indices: 6768508--6768701 Score: 151
Period size: 34 Copynumber: 5.5 Consensus size: 34
6768498 CTGTTAGGCA
* * *
6768508 AACCCTCATGTTATGTAGTATGATATAGTATGCG
1 AACCCTCATGTTATATAGAATGACATAGTATGCG
*
6768542 AACCCAACCCTCATGTTATATAGAATGACATAGTATGTGTG
1 -----AACCCTCATGTTATATAGAATGACATAGTA--TGCG
* * *
6768583 AACCC-CGTGATATATA-ATATGACATAGAATGCG
1 AACCCTCATGTTATATAGA-ATGACATAGTATGCG
* * *
6768616 AACCCCCACGTTATATAGAATGACATAGTATGCA
1 AACCCTCATGTTATATAGAATGACATAGTATGCG
* ** * *
6768650 AACCCTCATGTTCTATTCAATGACATAATACGCG
1 AACCCTCATGTTATATAGAATGACATAGTATGCG
6768684 AACACC-CATGTTATATAG
1 AAC-CCTCATGTTATATAG
6768702 TATGTGAATT
Statistics
Matches: 125, Mismatches: 24, Indels: 17
0.75 0.14 0.10
Matches are distributed among these distances:
33 8 0.06
34 60 0.48
35 22 0.18
36 5 0.04
39 27 0.22
41 3 0.02
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (34 bp):
AACCCTCATGTTATATAGAATGACATAGTATGCG
Found at i:6768803 original size:8 final size:8
Alignment explanation
Indices: 6768790--6768862 Score: 51
Period size: 8 Copynumber: 8.8 Consensus size: 8
6768780 ATTTTTTTTA
6768790 TTTATATT
1 TTTATATT
6768798 TTTATATCAAT
1 TTTATAT---T
6768809 TTTAATATT
1 TTT-ATATT
*
6768818 TTTA-ATA
1 TTTATATT
*
6768825 ATTAT-TT
1 TTTATATT
6768832 TTTATGATT
1 TTTAT-ATT
*
6768841 TTAATATT
1 TTTATATT
*
6768849 TTTATACT
1 TTTATATT
6768857 TTTATA
1 TTTATA
6768863 AAATTTTAAT
Statistics
Matches: 51, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 10 0.20
8 23 0.45
9 10 0.20
11 4 0.08
12 4 0.08
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (8 bp):
TTTATATT
Found at i:6768868 original size:27 final size:26
Alignment explanation
Indices: 6768838--6768934 Score: 113
Period size: 27 Copynumber: 3.5 Consensus size: 26
6768828 ATTTTTTATG
6768838 ATTTTAATATTTTTATACTTTTATAAA
1 ATTTTAATA-TTTTATACTTTTATAAA
** *
6768865 ATTTTAATATTTTATGGTTTTTATAAT
1 ATTTTAATATTTTAT-ACTTTTATAAA
*
6768892 TTTTTAATATTTTATACGTTTTAATAAA
1 ATTTTAATATTTTATAC-TTTT-ATAAA
6768920 ATTTTAAATATTTTA
1 ATTTT-AATATTTTA
6768935 AAAATACTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
26 6 0.10
27 35 0.60
28 8 0.14
29 9 0.16
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (26 bp):
ATTTTAATATTTTATACTTTTATAAA
Found at i:6768877 original size:35 final size:35
Alignment explanation
Indices: 6768838--6768905 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
6768828 ATTTTTTATG
*
6768838 ATTTTAAT-ATTTTTATACTTTTATAAAATTTTAAT
1 ATTTT-ATGATTTTTATAATTTTATAAAATTTTAAT
* * *
6768873 ATTTTATGGTTTTTATAATTTTTTAATATTTTA
1 ATTTTATGATTTTTATAATTTTATAAAATTTTA
6768906 TACGTTTTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
34 2 0.07
35 26 0.93
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.63
Consensus pattern (35 bp):
ATTTTATGATTTTTATAATTTTATAAAATTTTAAT
Found at i:6769007 original size:17 final size:17
Alignment explanation
Indices: 6768982--6769064 Score: 55
Period size: 17 Copynumber: 4.8 Consensus size: 17
6768972 AATAATATTG
*
6768982 ATAAGTTTTTATATTTT
1 ATAATTTTTTATATTTT
*
6768999 ATAATTTTTTCA-AGTTT
1 ATAATTTTTT-ATATTTT
*
6769016 AT-ATTTTTTTTATTTT
1 ATAATTTTTTATATTTT
*
6769032 TTAATATTATTT-TGATTTT
1 ATAAT-TT-TTTAT-ATTTT
*
6769051 TTAATATTTTTATA
1 ATAAT-TTTTTATA
6769065 AAAAATATTA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
16 12 0.22
17 17 0.31
18 8 0.15
19 17 0.31
ACGTcount: A:0.28, C:0.01, G:0.04, T:0.67
Consensus pattern (17 bp):
ATAATTTTTTATATTTT
Found at i:6769038 original size:19 final size:19
Alignment explanation
Indices: 6769016--6769061 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
6769006 TTTCAAGTTT
*
6769016 ATATTTTTTTTATTTTTTA
1 ATATTTTTTTGATTTTTTA
*
6769035 ATATTATTTTGATTTTTTA
1 ATATTTTTTTGATTTTTTA
6769054 ATATTTTT
1 ATATTTTT
6769062 ATAAAAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
ATATTTTTTTGATTTTTTA
Found at i:6769371 original size:23 final size:23
Alignment explanation
Indices: 6769347--6769389 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6769337 TATACTAAAT
6769347 ATATTT-T-TTTTATTTTTAATC
1 ATATTTATATTTTATTTTTAATC
6769368 ATATTTATATTTTATTTTTAAT
1 ATATTTATATTTTATTTTTAAT
6769390 TTTAATATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
23 13 0.65
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATATTTATATTTTATTTTTAATC
Found at i:6769386 original size:29 final size:27
Alignment explanation
Indices: 6769345--6769408 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 27
6769335 TATATACTAA
* *
6769345 ATATATTTTTTTTATTTTTAATCATATTT
1 ATAT-TTTTTTTTAATTTTAAT-ATAATT
6769374 ATATTTTATTTTTAATTTTAATATAATT
1 ATATTTT-TTTTTAATTTTAATATAATT
6769402 A-ATTTTT
1 ATATTTTT
6769409 ATTATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.03
27 5 0.16
28 9 0.28
29 17 0.53
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (27 bp):
ATATTTTTTTTTAATTTTAATATAATT
Found at i:6778551 original size:89 final size:91
Alignment explanation
Indices: 6778390--6778562 Score: 224
Period size: 89 Copynumber: 1.9 Consensus size: 91
6778380 AGTTTTTCAT
* * ** *
6778390 TAAAATAAAAAAGATTAAAGTATCCTTAAATAATATTAACTTAGTTTAATTACAAAAAAGCATTT
1 TAAAATAAAAAAGATTAAAGTACCCGTAAATAATATTAACTTAGTTTAAAGACAAAAAAACATTT
6778455 CTATAATTTTCCTAATCAAATACCTG
66 CTATAATTTTCCTAATCAAATACCTG
* * * **
6778481 TAAAAT-AAAAATATTAAAGTACCCGTAGATAATA-TAATTTAGTTTAAAGGGAAAAAAACATTT
1 TAAAATAAAAAAGATTAAAGTACCCGTAAATAATATTAACTTAGTTTAAAGACAAAAAAACATTT
* *
6778544 TTATAATTTTCTTAATCAA
66 CTATAATTTTCCTAATCAA
6778563 TTTAAGGTCG
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
89 40 0.57
90 24 0.34
91 6 0.09
ACGTcount: A:0.48, C:0.10, G:0.07, T:0.35
Consensus pattern (91 bp):
TAAAATAAAAAAGATTAAAGTACCCGTAAATAATATTAACTTAGTTTAAAGACAAAAAAACATTT
CTATAATTTTCCTAATCAAATACCTG
Found at i:6779100 original size:21 final size:22
Alignment explanation
Indices: 6779059--6779100 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6779049 CATGTGCGTG
* *
6779059 TGGATTTTGTCTGGTTTCTTTT
1 TGGATTTTGCCTAGTTTCTTTT
6779081 TGGATTTTGCCTAG-TTCTTT
1 TGGATTTTGCCTAGTTTCTTT
6779101 GTTCATTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.07, C:0.12, G:0.21, T:0.60
Consensus pattern (22 bp):
TGGATTTTGCCTAGTTTCTTTT
Found at i:6780360 original size:28 final size:28
Alignment explanation
Indices: 6780294--6780360 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
6780284 TATTATAATC
*
6780294 TAAACATTAAAAAATTAATATAAAAAAT
1 TAAATATTAAAAAATTAATATAAAAAAT
* * *
6780322 TAAGTAATAAAGAAA-T-ATATAAAACTAT
1 TAAATATTAAA-AAATTAATATAAAA-AAT
6780350 TAAATATTAAA
1 TAAATATTAAA
6780361 TTAAACTAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
27 8 0.26
28 20 0.65
29 3 0.10
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (28 bp):
TAAATATTAAAAAATTAATATAAAAAAT
Found at i:6784652 original size:20 final size:20
Alignment explanation
Indices: 6784627--6784680 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
6784617 ATATATAGAC
6784627 TAAATAAAATAATAAAATAT
1 TAAATAAAATAATAAAATAT
*** *
6784647 TAAATATCTTATTAAAATAT
1 TAAATAAAATAATAAAATAT
6784667 TAAAT-AAATAATAA
1 TAAATAAAATAATAA
6784681 TTATAAAATA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAATAAAATAATAAAATAT
Found at i:6784928 original size:31 final size:30
Alignment explanation
Indices: 6784890--6784948 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
6784880 CACCCTTAAA
* * *
6784890 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACT-TTAATCCCTCAAATTTTTC
6784921 ATATTTACACTTTAATCCCTCAAATTTT
1 ATATTTACACTTTAATCCCTCAAATTTT
6784949 GAGTATTTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.29, C:0.22, G:0.02, T:0.47
Consensus pattern (30 bp):
ATATTTACACTTTAATCCCTCAAATTTTTC
Found at i:6784958 original size:30 final size:31
Alignment explanation
Indices: 6784890--6784958 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
6784880 CACCCTTAAA
* * *
6784890 ATATTTACACTATTAGTCCTTCAACTTTTTC
1 ATATTTACACTATTAATCCCTCAACATTTTC
*
6784921 ATATTTACACT-TTAATCCCTCAA-ATTTTG
1 ATATTTACACTATTAATCCCTCAACATTTTC
6784950 AGTATTTAC
1 A-TATTTAC
6784959 TCTTGGGCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 5 0.15
30 17 0.52
31 11 0.33
ACGTcount: A:0.29, C:0.20, G:0.04, T:0.46
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAACATTTTC
Found at i:6787360 original size:103 final size:104
Alignment explanation
Indices: 6787116--6787381 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
6787106 GTTGTACATA
** *
6787116 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
6787181 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
6787220 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
6787285 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
6787323 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
6787382 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:6794852 original size:103 final size:104
Alignment explanation
Indices: 6794608--6794873 Score: 426
Period size: 103 Copynumber: 2.6 Consensus size: 104
6794598 GTTGTACATA
** *
6794608 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
6794673 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* *
6794712 GAGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
6794777 CTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
6794815 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
6794874 AATAACGGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
103 83 0.56
104 66 0.44
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:6798908 original size:176 final size:177
Alignment explanation
Indices: 6798614--6798967 Score: 593
Period size: 176 Copynumber: 2.0 Consensus size: 177
6798604 CTCTAGAGCT
* *
6798614 TTTTTAGATTGTTAATGGTAGCCAGTGGTTTTATTGTTAAGTAGTCATTCGTCACCCATATCGTT
1 TTTTTAGATTGTTAATGGTAGCCAGTGGTTTTATCGTTAAGTAGTCATTCGTCACCCATATCGCT
* * * *
6798679 GTTTATGCTCTAGAGCTTCTCTTTTGCTAGCAATTGGTTTTTTTTTTTGGCAAGACAAGACAAGA
66 GGTTATGCTCTAGAGCTTCTCTTTTACTAGCAATTGGTTATTTATTTTGGCAAGACAAGACAAGA
6798744 TCTTTTAAAATAATAAG-TTTTTTGGCCTTTATTTGGCCTCACATGA
131 TCTTTTAAAATAATAAGTTTTTTTGGCCTTTATTTGGCCTCACATGA
* * *
6798790 TTTTTAGATTGTTAATGGTAGCCGGTGGTTTTATCGTTGAGTAGTCATTTGTCACCCATATCGCT
1 TTTTTAGATTGTTAATGGTAGCCAGTGGTTTTATCGTTAAGTAGTCATTCGTCACCCATATCGCT
* *
6798855 GGTTATGCTCTAGAGCTTCTTTTTTACTAGCAATTGGTTATTTATTTTGGCAAGACAAGACATGA
66 GGTTATGCTCTAGAGCTTCTCTTTTACTAGCAATTGGTTATTTATTTTGGCAAGACAAGACAAGA
*
6798920 TCTTTTGAAATAATAAGTTTTTTTGGCCTTTATTTGGCCTCACATGA
131 TCTTTTAAAATAATAAGTTTTTTTGGCCTTTATTTGGCCTCACATGA
6798967 T
1 T
6798968 GATGACATGT
Statistics
Matches: 165, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
176 135 0.82
177 30 0.18
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.44
Consensus pattern (177 bp):
TTTTTAGATTGTTAATGGTAGCCAGTGGTTTTATCGTTAAGTAGTCATTCGTCACCCATATCGCT
GGTTATGCTCTAGAGCTTCTCTTTTACTAGCAATTGGTTATTTATTTTGGCAAGACAAGACAAGA
TCTTTTAAAATAATAAGTTTTTTTGGCCTTTATTTGGCCTCACATGA
Found at i:6802527 original size:3 final size:3
Alignment explanation
Indices: 6802519--6802556 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
6802509 ATGGAAAGTT
6802519 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
6802557 GTGGTGAGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:6806038 original size:22 final size:21
Alignment explanation
Indices: 6806013--6806085 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 21
6806003 TTTCTCCTGC
*
6806013 TGTTTTTTTGCTACCATTTTGT
1 TGTTATTTTGCTA-CATTTTGT
*
6806035 TGTTATTTTGCTGACATTTTGC
1 TGTTATTTTGCT-ACATTTTGT
* * *
6806057 TATTATATTGCTAATATTTTGT
1 TGTTATTTTGCT-ACATTTTGT
6806079 TGTTATT
1 TGTTATT
6806086 CTTTTAGATA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
22 40 0.98
23 1 0.02
ACGTcount: A:0.16, C:0.10, G:0.14, T:0.60
Consensus pattern (21 bp):
TGTTATTTTGCTACATTTTGT
Found at i:6812462 original size:11 final size:12
Alignment explanation
Indices: 6812433--6812466 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
6812423 TTTTTATATT
6812433 AATAAAATTAGA
1 AATAAAATTAGA
*
6812445 AAAAAAATTA-A
1 AATAAAATTAGA
6812456 AATAAAATTAG
1 AATAAAATTAG
6812467 TTTACATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (12 bp):
AATAAAATTAGA
Found at i:6814468 original size:48 final size:48
Alignment explanation
Indices: 6814397--6814489 Score: 150
Period size: 48 Copynumber: 1.9 Consensus size: 48
6814387 ACTCAGGAAT
* *
6814397 CTCGCACTCTAAGTGCTAATATCATGGCCCGAAGCCAAATCAATGAAG
1 CTCGCACTCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAG
* *
6814445 CTCGCACTCGAAGTGCCGATATCATGGCCCGAAGCCAAATTAATG
1 CTCGCACTCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATG
6814490 TATCCCCTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 41 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (48 bp):
CTCGCACTCGAAGTGCCAATATCATGGCCCGAAGCCAAATCAATGAAG
Found at i:6815546 original size:21 final size:21
Alignment explanation
Indices: 6815522--6815577 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
6815512 ATAACTTTTA
*
6815522 AATAATATATAAT-TAATATGT
1 AATAATAAATAATATAA-ATGT
*
6815543 AATAAAAAATAATATAAATGT
1 AATAATAAATAATATAAATGT
*
6815564 AAAAATAAA-AATAT
1 AATAATAAATAATAT
6815578 TTGTTTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 5 0.17
21 22 0.73
22 3 0.10
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (21 bp):
AATAATAAATAATATAAATGT
Found at i:6817345 original size:24 final size:24
Alignment explanation
Indices: 6817318--6817369 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6817308 TTAGTAAGTC
*
6817318 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6817342 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6817366 AAAT
1 AAAT
6817370 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6819316 original size:24 final size:24
Alignment explanation
Indices: 6819288--6819339 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
6819278 TTAGTAAGTC
*
6819288 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
6819312 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
6819336 AAAT
1 AAAT
6819340 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:6824143 original size:12 final size:12
Alignment explanation
Indices: 6824128--6824153 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6824118 TTAAGTATTA
6824128 TTAACATAATAT
1 TTAACATAATAT
6824140 TTAACATAATAT
1 TTAACATAATAT
6824152 TT
1 TT
6824154 CACAATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAACATAATAT
Found at i:6829101 original size:27 final size:27
Alignment explanation
Indices: 6829071--6829138 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
6829061 AGTTTCAGGT
* * *
6829071 TCGGGTCCCTTGGAAAGAGGGTTTATG
1 TCGGGTCCCATCGAAAGAGGGTTCATG
* *
6829098 TCGGGTCCGATCGAGAGAGGGTTCATG
1 TCGGGTCCCATCGAAAGAGGGTTCATG
*
6829125 TCGGGTCCCCTCGA
1 TCGGGTCCCATCGA
6829139 TAATGTTAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.22, G:0.37, T:0.25
Consensus pattern (27 bp):
TCGGGTCCCATCGAAAGAGGGTTCATG
Found at i:6832911 original size:3 final size:3
Alignment explanation
Indices: 6832903--6832934 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
6832893 ATGCAGAGCA
*
6832903 AAG AAG AAG AAG AAG AAG AAG AAG ATG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
6832935 TGAACTGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.31, T:0.03
Consensus pattern (3 bp):
AAG
Found at i:6838685 original size:36 final size:36
Alignment explanation
Indices: 6838638--6838710 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
6838628 GATGCCAAGA
6838638 TAGCATGAAATCCATATCAAGTTATGTTTATCTGCT
1 TAGCATGAAATCCATATCAAGTTATGTTTATCTGCT
*
6838674 TAGCATGAAATCCATATCAAGTTATGTTTATTTGCT
1 TAGCATGAAATCCATATCAAGTTATGTTTATCTGCT
6838710 T
1 T
6838711 GCTGGAGGAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (36 bp):
TAGCATGAAATCCATATCAAGTTATGTTTATCTGCT
Found at i:6839864 original size:105 final size:101
Alignment explanation
Indices: 6839656--6839872 Score: 238
Period size: 105 Copynumber: 2.1 Consensus size: 101
6839646 AATTTACGGA
6839656 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAACTGGGCAATGACATTCCAG
1 TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAACTGGGCAATGACATTCCAG
* * * *** *
6839721 TGAAAAGATCATAACTGGGTTATGGCATCGTGATTG
66 TGAAAAGACCATAACTAGGTTATGACATCACAAGTG
* * * ** *
6839757 TAAGACCATGGTTGGACCATGGTAGTGTATGTATAAGTGTAAGACCATAGTTGGGCTATGACA-T
1 TAAGACCATGGTTGGACCATGGCA--ATAT-T-TAAATGTAAGACCATAACTGGGCAATGACATT
* * *
6839821 CCTGATGATAAGACCATAACTAGGTTATGACATTACAAGTG
62 CCAG-TGAAAAGACCATAACTAGGTTATGACATCACAAGTG
6839862 TAAGACCATGG
1 TAAGACCATGG
6839873 CAGGGCCATG
Statistics
Matches: 95, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
101 23 0.24
103 3 0.03
104 5 0.05
105 64 0.67
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAATATTTAAATGTAAGACCATAACTGGGCAATGACATTCCAG
TGAAAAGACCATAACTAGGTTATGACATCACAAGTG
Found at i:6842173 original size:88 final size:88
Alignment explanation
Indices: 6842024--6842522 Score: 599
Period size: 88 Copynumber: 5.6 Consensus size: 88
6842014 TGGAGATAAG
* * * * * * * *
6842024 GCTTAGGGAGATAAGGATTACCGTCTGCTATCTGTTCCACTACTACTTAGGGATATAAGATCTGT
1 GCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* *
6842089 AATTTTCAGCCTGTTTCTCTACT
66 AATTTTCAGCCTATTTCCCTACT
* * *
6842112 GCTTAGGGAGATAAGGCTCA-CGCTCTTCGATATGCTCCACTACTACTTAGGGAGATAAGATCTG
1 GCTTAGGGGGATAAGGCTCACCG-TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTG
* *
6842176 TAA-CTTCTAGCCTGTTTCCCTACT
65 TAATTTTC-AGCCTATTTCCCTACT
* * *
6842200 GTTTAGGGGGATAAGGCTCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGT
1 GCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
6842265 AATTTTCAGCCTATTTCCCTACT
66 AATTTTCAGCCTATTTCCCTACT
* * * * * *
6842288 GCTTAGGGGGATAAGGCTCACCGTCTTCAACCTACTCCATTACTGCTTAGGGAGATAGGGTGGTC
1 GCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA---AGATC
* * *
6842353 TATCATTTTCAGCCT-CTTCCCTACT
63 TGTAATTTTCAGCCTATTTCCCTACT
* *
6842378 GCTTAGGGGGATAAGGCTTACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGT
1 GCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
6842443 AATTTTCAGCCTATTTCCCTACT
66 AATTTTCAGCCTATTTCCCTACT
* * * * * * * *
6842466 GCTTAGGGGGATAAGGCTTACTGTCCTCAACCTACTCCACTGCTGCTTAGAGAGATA
1 GCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATA
6842523 GGATGGTCTG
Statistics
Matches: 360, Mismatches: 43, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
87 21 0.06
88 257 0.71
89 5 0.01
90 62 0.17
91 15 0.04
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (88 bp):
GCTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AATTTTCAGCCTATTTCCCTACT
Found at i:6842432 original size:178 final size:179
Alignment explanation
Indices: 6842024--6842543 Score: 690
Period size: 178 Copynumber: 2.9 Consensus size: 179
6842014 TGGAGATAAG
* * * * * * *
6842024 GCTTAGGGAGATAAGGATTACCGTCTGCTATCTGTTCCACTACTACTTAGGGATATAAGATCTGT
1 GCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * * ** *
6842089 AATTTTCAGCCTGTTTCTCTACTGCTTAGGGAGATAAGGCTCA-CGCTCTTCGATATGCTCCACT
66 AATTTTCAGCCTATTTCCCTACTGCTTAGGGGGATAAGGCTCACCG-TCTTCAACCTACTCCACT
* * * * * * *
6842153 ACTACTTAGGGAGATAAGAT-CTGTAAC-TTCT-AGCCTGTTTCCCTACT
130 ACTGCTTAGGGAGATAGGATGGTCTATCATTTTCAGCCTGCTTCCCTACT
* * * *
6842200 GTTTAGGGGGATAAGGCTCATCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATTTGT
1 GCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
*
6842265 AATTTTCAGCCTATTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCAACCTACTCCATTA
66 AATTTTCAGCCTATTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCAACCTACTCCACTA
*
6842330 CTGCTTAGGGAGATAGGGTGGTCTATCATTTTCAGCCT-CTTCCCTACT
131 CTGCTTAGGGAGATAGGATGGTCTATCATTTTCAGCCTGCTTCCCTACT
*
6842378 GCTTAGGGGGATAAGGCTTACCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGT
1 GCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
* * * *
6842443 AATTTTCAGCCTATTTCCCTACTGCTTAGGGGGATAAGGCTTACTGTCCTCAACCTACTCCACTG
66 AATTTTCAGCCTATTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCAACCTACTCCACTA
* *
6842508 CTGCTTAGAGAGATAGGATGGTCTGTCATTTTCAGC
131 CTGCTTAGGGAGATAGGATGGTCTATCATTTTCAGC
6842544 TTGTTCGTTA
Statistics
Matches: 300, Mismatches: 40, Indels: 6
0.87 0.12 0.02
Matches are distributed among these distances:
176 124 0.41
177 6 0.02
178 165 0.55
179 5 0.02
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (179 bp):
GCTTAGGGGGATAAGGCTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGT
AATTTTCAGCCTATTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCAACCTACTCCACTA
CTGCTTAGGGAGATAGGATGGTCTATCATTTTCAGCCTGCTTCCCTACT
Found at i:6842465 original size:44 final size:44
Alignment explanation
Indices: 6842058--6842480 Score: 178
Period size: 44 Copynumber: 9.6 Consensus size: 44
6842048 CTGCTATCTG
* * * *
6842058 TTCCACTACTACTTAGGGATATAAGATCTGTAATTTTCAGCCTGT
1 TTCCACTACTGCTTAGGGAGATAAG-TCTGTAATCTTCAGCCTAT
* * * * *
6842103 TT-CTCTACTGCTTAGGGAGATAAGGCT-CACGCTCTTC-G-ATAT
1 TTCCACTACTGCTTAGGGAGATAAGTCTGTA--ATCTTCAGCCTAT
* * *
6842145 GCTCCACTACTACTTAGGGAGATAAGATCTGTAA-CTTCTAGCCTGT
1 -TTCCACTACTGCTTAGGGAGATAAG-TCTGTAATCTTC-AGCCTAT
* * * * ** * *
6842191 TTCC-CTACTGTTTAGGGGGATAAGGCTCATCGTCTTC-GATCT-G
1 TTCCACTACTGCTTAGGGAGATAAGTCT-GTAATCTTCAG-CCTAT
* * *
6842234 CTCCACTACTGCTTAGGGAGATAAGATTTGTAATTTTCAGCCTAT
1 TTCCACTACTGCTTAGGGAGATAAG-TCTGTAATCTTCAGCCTAT
* * * * *
6842279 TTCC-CTACTGCTTAGGGGGATAAGGCT-CACCGTCTTCAACCTA-
1 TTCCACTACTGCTTAGGGAGATAAGTCTGTA--ATCTTCAGCCTAT
* * * * * * *
6842322 CTCCATTACTGCTTAGGGAGATAGGGTGGTCTATCATTTTCAGCCT-C
1 TTCCACTACTGCTTAGGGAGATA----AGTCTGTAATCTTCAGCCTAT
* * * *
6842369 TTCC-CTACTGCTTAGGGGGATAAGGCT-TACCGTCTTC-GATCTA-
1 TTCCACTACTGCTTAGGGAGATAAGTCTGTA--ATCTTCAG-CCTAT
* *
6842412 CTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTAT
1 TTCCACTACTGCTTAGGGAGATAAG-TCTGTAATCTTCAGCCTAT
*
6842457 TTCC-CTACTGCTTAGGGGGATAAG
1 TTCCACTACTGCTTAGGGAGATAAG
6842481 GCTTACTGTC
Statistics
Matches: 271, Mismatches: 73, Indels: 69
0.66 0.18 0.17
Matches are distributed among these distances:
41 1 0.00
42 8 0.03
43 27 0.10
44 177 0.65
45 23 0.08
46 21 0.08
47 11 0.04
48 3 0.01
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.33
Consensus pattern (44 bp):
TTCCACTACTGCTTAGGGAGATAAGTCTGTAATCTTCAGCCTAT
Found at i:6842512 original size:44 final size:44
Alignment explanation
Indices: 6842195--6842515 Score: 196
Period size: 44 Copynumber: 7.2 Consensus size: 44
6842185 GCCTGTTTCC
* * * * *
6842195 CTACTGTTTAGGGGGATAAGGCTCA-TCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGGGATAAGGCTTACT-GTCTTCAACCTACTCCA
* ** * * *
6842239 CTACTGCTTAGGGAGATAAGATTTGTAAT-T-TTCAGCCTATTTCC-
1 CTACTGCTTAGGGGGATAAG-GCT-TACTGTCTTCAACCTA-CTCCA
* *
6842283 CTACTGCTTAGGGGGATAAGGCTCACCGTCTTCAACCTACTCCA
1 CTACTGCTTAGGGGGATAAGGCTTACTGTCTTCAACCTACTCCA
* * * * *
6842327 TTACTGCTTAGGGAGAT-AGGGTGGT-CTATCATTTTCAGCCT-CTTCC-
1 CTACTGCTTAGGGGGATAAGGCT--TACTGTC---TTCAACCTAC-TCCA
* * *
6842373 CTACTGCTTAGGGGGATAAGGCTTACCGTCTTCGATCTACTCCA
1 CTACTGCTTAGGGGGATAAGGCTTACTGTCTTCAACCTACTCCA
* * * * *
6842417 CTACTGCTTAGGGAGATAAGATCTGTAAT-T-TTCAGCCTATTTCC-
1 CTACTGCTTAGGGGGATAAG-GCT-TACTGTCTTCAACCTA-CTCCA
*
6842461 CTACTGCTTAGGGGGATAAGGCTTACTGTCCTCAACCTACTCCA
1 CTACTGCTTAGGGGGATAAGGCTTACTGTCTTCAACCTACTCCA
*
6842505 CTGCTGCTTAG
1 CTACTGCTTAG
6842516 AGAGATAGGA
Statistics
Matches: 206, Mismatches: 48, Indels: 46
0.69 0.16 0.15
Matches are distributed among these distances:
42 4 0.02
43 23 0.11
44 130 0.63
45 12 0.06
46 22 0.11
47 15 0.07
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGGGGATAAGGCTTACTGTCTTCAACCTACTCCA
Found at i:6843023 original size:21 final size:21
Alignment explanation
Indices: 6842997--6843036 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6842987 AGTTAGTATC
*
6842997 TTTGACAGAAAATTATCTTTT
1 TTTGACAGAAAATCATCTTTT
6843018 TTTGACAGAAAATCATCTT
1 TTTGACAGAAAATCATCTT
6843037 CTTTATCCCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.42
Consensus pattern (21 bp):
TTTGACAGAAAATCATCTTTT
Found at i:6849413 original size:23 final size:21
Alignment explanation
Indices: 6849371--6849430 Score: 61
Period size: 23 Copynumber: 2.8 Consensus size: 21
6849361 AACATATATA
*
6849371 AGAAAAATAAT-AAT-GAAAAT
1 AGAAATATAATAAATAG-AAAT
*
6849391 AGTAATAGTATATAAATAGAAAT
1 AGAAATA-TA-ATAAATAGAAAT
6849414 AGAAATATAATAAATAG
1 AGAAATATAATAAATAG
6849431 TTGAAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 10 0.30
22 4 0.12
23 13 0.39
24 1 0.03
ACGTcount: A:0.63, C:0.00, G:0.12, T:0.25
Consensus pattern (21 bp):
AGAAATATAATAAATAGAAAT
Found at i:6849423 original size:18 final size:18
Alignment explanation
Indices: 6849387--6849446 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
6849377 ATAATAATGA
* *
6849387 AAATAGTAATAG-TATAT
1 AAATAGAAATAGAAATAT
6849404 AAATAGAAATAGAAATAT
1 AAATAGAAATAGAAATAT
*
6849422 -AATA-AATAGTTGAAATAT
1 AAATAGAA-A-TAGAAATAT
6849440 AAATAGA
1 AAATAGA
6849447 TAAATAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 2 0.06
17 16 0.46
18 12 0.34
19 4 0.11
20 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (18 bp):
AAATAGAAATAGAAATAT
Found at i:6849444 original size:30 final size:29
Alignment explanation
Indices: 6849404--6849460 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 29
6849394 AATAGTATAT
6849404 AAATAGAAATAGA-AATATAATAAATAGTTG
1 AAATAGAAATAGATAA-ATAAT-AATAGTTG
*
6849434 AAATATAAATAGATAAATAATAATAGT
1 AAATAGAAATAGATAAATAATAATAGT
6849461 GTTAGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 6 0.24
30 17 0.68
31 2 0.08
ACGTcount: A:0.61, C:0.00, G:0.11, T:0.28
Consensus pattern (29 bp):
AAATAGAAATAGATAAATAATAATAGTTG
Found at i:6849456 original size:15 final size:15
Alignment explanation
Indices: 6849410--6849456 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
6849400 ATATAAATAG
6849410 AAATAGA-AATATAAT
1 AAATAGATAA-ATAAT
*
6849425 AAATAGTTGAAAT-AT
1 AAATAGAT-AAATAAT
6849440 AAATAGATAAATAAT
1 AAATAGATAAATAAT
6849455 AA
1 AA
6849457 TAGTGTTAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
14 4 0.15
15 19 0.70
16 2 0.07
17 2 0.07
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATAGATAAATAAT
Found at i:6853544 original size:34 final size:34
Alignment explanation
Indices: 6853506--6853573 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
6853496 TGCTAAAATT
6853506 ATATATGATTGTTAAAGGATAATTGAGTTTATAC
1 ATATATGATTGTTAAAGGATAATTGAGTTTATAC
6853540 ATATATGATTGTTAAAGGATAATTGAGTTTATAC
1 ATATATGATTGTTAAAGGATAATTGAGTTTATAC
6853574 TAAGATTTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (34 bp):
ATATATGATTGTTAAAGGATAATTGAGTTTATAC
Found at i:6856764 original size:5 final size:6
Alignment explanation
Indices: 6856749--6856774 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
6856739 ATGATTAAAT
6856749 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
6856775 AAATTATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:6859638 original size:21 final size:21
Alignment explanation
Indices: 6859604--6859644 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6859594 AATTAATTAC
*
6859604 TTTTAGATTATTTATTTTAAT
1 TTTTAGATTATTTAATTTAAT
6859625 TTTTA-ATTATTTTAATTTAA
1 TTTTAGATTA-TTTAATTTAA
6859645 AAATGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTAGATTATTTAATTTAAT
Found at i:6867617 original size:12 final size:13
Alignment explanation
Indices: 6867587--6867620 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
6867577 CCTCGAACTC
6867587 TAAAAATAGACCA
1 TAAAAATAGACCA
6867600 TAAAAATAGA-CA
1 TAAAAATAGACCA
6867612 TGAAAAATA
1 T-AAAAATA
6867621 AAAAAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 3 0.15
13 17 0.85
ACGTcount: A:0.65, C:0.09, G:0.09, T:0.18
Consensus pattern (13 bp):
TAAAAATAGACCA
Found at i:6871120 original size:21 final size:21
Alignment explanation
Indices: 6871096--6871137 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6871086 CATACTTCAT
6871096 AATTAAAATTAATTATTTTTA
1 AATTAAAATTAATTATTTTTA
6871117 AATTAAAATTAATTATTTTTA
1 AATTAAAATTAATTATTTTTA
6871138 TACTCATGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTAAAATTAATTATTTTTA
Found at i:6874893 original size:29 final size:30
Alignment explanation
Indices: 6874831--6874899 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 30
6874821 ATAAGAATGG
* *
6874831 TTAAATTTCAATTTAATCTCTATATTTTAT
1 TTAAATTTGAATTTAATCTCTATATTATAT
6874861 TTAAATTTGAGATTTAA-C-CTATA-TATAT
1 TTAAATTTGA-ATTTAATCTCTATATTATAT
*
6874889 ATTAATTTTGA
1 -TTAAATTTGA
6874900 CATAATTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.12
29 14 0.41
30 10 0.29
31 6 0.18
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.52
Consensus pattern (30 bp):
TTAAATTTGAATTTAATCTCTATATTATAT
Found at i:6879274 original size:3 final size:3
Alignment explanation
Indices: 6879266--6879342 Score: 52
Period size: 3 Copynumber: 26.0 Consensus size: 3
6879256 TTAATGTTAT
** *
6879266 TTA TTA TTA -TA TTTA TTA TTA TCG TTA TTA TTA TTA TTA TTA GTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
** **
6879311 -TA TCT- TTA CCA TTA TTA GAA TTA TTA TTA TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6879343 GTTTCAATTA
Statistics
Matches: 56, Mismatches: 13, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
2 5 0.09
3 48 0.86
4 3 0.05
ACGTcount: A:0.32, C:0.05, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:6879278 original size:12 final size:12
Alignment explanation
Indices: 6879263--6879313 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
6879253 TTTTTAATGT
6879263 TATTTATTATTA
1 TATTTATTATTA
6879275 TATTTATTATTA
1 TATTTATTATTA
**
6879287 TCGTTATTATTA
1 TATTTATTATTA
*
6879299 T-TATTATTAGTA
1 TAT-TTATTATTA
6879311 TAT
1 TAT
6879314 CTTTACCATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
12 32 0.97
13 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (12 bp):
TATTTATTATTA
Found at i:6879566 original size:21 final size:20
Alignment explanation
Indices: 6879525--6879574 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
6879515 ATATTTGTTA
*
6879525 TTAATAT-TA-GTATATGTT
1 TTAATATATATGTATATATT
*
6879543 TTATTATATATGTATATATCT
1 TTAATATATATGTATATAT-T
6879564 TTAATATATAT
1 TTAATATATAT
6879575 ATATGTCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 7 0.27
21 11 0.42
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.56
Consensus pattern (20 bp):
TTAATATATATGTATATATT
Found at i:6879692 original size:24 final size:23
Alignment explanation
Indices: 6879639--6879695 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 23
6879629 TTCTAATATG
6879639 TATATATTATGTAAATATTTTAA
1 TATATATTATGTAAATATTTTAA
*
6879662 TACTATATTATGTATACAT-TTTTTA
1 TA-TATATTATGTA-A-ATATTTTAA
6879687 TATATATTA
1 TATATATTA
6879696 CTTATATATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 18 0.60
25 8 0.27
26 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
TATATATTATGTAAATATTTTAA
Found at i:6879732 original size:11 final size:11
Alignment explanation
Indices: 6879639--6879771 Score: 52
Period size: 13 Copynumber: 10.6 Consensus size: 11
6879629 TTCTAATATG
* *
6879639 TATATATTATG
1 TATATATTTTA
*
6879650 TAAATATTTTAA
1 TATATATTTT-A
6879662 TACTATATTATGTA
1 TA-TATATT-T-TA
* *
6879676 TACATTTTTTA
1 TATATATTTTA
6879687 TATATATTACTTA
1 TATATATT--TTA
6879700 TATATATCGATTTAA
1 TATATAT---TTT-A
6879715 TATTATATTTTA
1 TA-TATATTTTA
*
6879727 TATATATCATGTA
1 TATATAT--TTTA
6879740 TATAT-TTTTAA
1 TATATATTTT-A
6879751 TACTATATTATTTA
1 TA-TATA-T-TTTA
6879765 TATATAT
1 TATATAT
6879772 ATTAAACATA
Statistics
Matches: 94, Mismatches: 10, Indels: 35
0.68 0.07 0.25
Matches are distributed among these distances:
10 2 0.02
11 24 0.26
12 11 0.12
13 34 0.36
14 10 0.11
15 7 0.07
16 6 0.06
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (11 bp):
TATATATTTTA
Found at i:6879757 original size:29 final size:28
Alignment explanation
Indices: 6879725--6879843 Score: 92
Period size: 26 Copynumber: 4.4 Consensus size: 28
6879715 TATTATATTT
6879725 TATATATATCATGTATATATTTTTAATAC
1 TATATATAT-ATGTATATATTTTTAATAC
*
6879754 TATAT-TAT-T-TATATATATATTAA-AC
1 TATATATATATGTATATAT-TTTTAATAC
*
6879779 -ATATTATTTTATGTATATATTTTTAATA-
1 TATA-TA-TATATGTATATATTTTTAATAC
* *
6879807 -ACTATAT-TATGTACATATTTATAATAC
1 TA-TATATATATGTATATATTTTTAATAC
*
6879834 TATGTATATA
1 TATATATATA
6879844 CCTTTTATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 23
0.72 0.06 0.23
Matches are distributed among these distances:
24 3 0.04
25 10 0.14
26 23 0.32
27 7 0.10
28 15 0.21
29 15 0.21
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.52
Consensus pattern (28 bp):
TATATATATATGTATATATTTTTAATAC
Found at i:6879789 original size:25 final size:26
Alignment explanation
Indices: 6879683--6879836 Score: 81
Period size: 25 Copynumber: 5.8 Consensus size: 26
6879673 GTATACATTT
*
6879683 TTTATATATATTACTT-ATA-TATATCGA
1 TTTATATATA-TA-TTAATACTATAT-TA
* *
6879710 TTTA-ATATTATATTTTATA-TATATCA
1 TTTATATA-TATA-TTAATACTATATTA
* *
6879736 TGTATATAT-TTTTAATACTATATTA
1 TTTATATATATATTAATACTATATTA
6879761 TTTATATATATATTAA-AC-ATATTA
1 TTTATATATATATTAATACTATATTA
*
6879785 TTTTATGTATATATTTTTAATAACTATATTA
1 -TTTA--TATATA-TATTAAT-ACTATATTA
* * *
6879816 TGTACATATTTA-TAATACTAT
1 TTTATATATATATTAATACTAT
6879837 GTATATACCT
Statistics
Matches: 102, Mismatches: 13, Indels: 26
0.72 0.09 0.18
Matches are distributed among these distances:
24 11 0.11
25 26 0.25
26 21 0.21
27 24 0.24
28 9 0.09
30 5 0.05
31 6 0.06
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (26 bp):
TTTATATATATATTAATACTATATTA
Found at i:6892252 original size:75 final size:75
Alignment explanation
Indices: 6892060--6892471 Score: 574
Period size: 75 Copynumber: 5.5 Consensus size: 75
6892050 TTATTCCAAT
* * * * * * *
6892060 AATCAACTCGTATTACGAGAGGTGACTTGAGCCTCAGGATACACCGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTG-
*
6892125 TTTTTTAAAAAAA
65 -TTTTT-CAAAAA
* *
6892138 AATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTTTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGT
6892203 TTTTCAAAAA
66 TTTTCAAAAA
* *
6892213 AATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAGGACACGCTGGGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGT
6892278 TTTTCAAAAA
66 TTTTCAAAAA
* ** * *
6892288 AATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGTTCACGCTTAGGTATTTTTAATTTCTAT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGT
6892353 TTTTCAAAAA
66 TTTTCAAAAA
* *** *
6892363 AATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCAATTCACACTGAGGTATTTTTAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGT
6892428 TTTTC-AAAA
66 TTTTCAAAAA
**
6892437 AATCAACTCATATTGTAAGAGGTGAGTTGAGCCTC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
6892472 GGGTCACACG
Statistics
Matches: 308, Mismatches: 26, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
74 36 0.12
75 208 0.68
76 5 0.02
78 59 0.19
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.35
Consensus pattern (75 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTCTGT
TTTTCAAAAA
Found at i:6892509 original size:14 final size:14
Alignment explanation
Indices: 6892490--6892518 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6892480 CGGTGAAGTA
6892490 TTTCAATTCATGTT
1 TTTCAATTCATGTT
6892504 TTTCAATTCATGTT
1 TTTCAATTCATGTT
6892518 T
1 T
6892519 CAACAATCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.07, T:0.59
Consensus pattern (14 bp):
TTTCAATTCATGTT
Found at i:6892624 original size:88 final size:85
Alignment explanation
Indices: 6892414--6892655 Score: 235
Period size: 86 Copynumber: 2.8 Consensus size: 85
6892404 CACTGAGGTA
* * * *
6892414 TTTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGTAAGAGGTGAGTTGAGCCTCGGGTCAC
1 TTTTTAATTTATGTTTTTC--AAAATCAACTCATATTAT-AGAGGTGAGTTGAACCCCGGGTCAC
6892479 ACGGTGAAGTATTTCAATTCATG
63 ACGGTGAAGTATTTCAATTCATG
*
6892502 TTTTTCAATTCATG--TTTCAACAATCAACTCATATTATGAGAGGTGAGTTGAACCCCGGGCTC-
1 TTTTT-AATTTATGTTTTTCAA-AATCAACTCATATTAT-AGAGGTGAGTTGAACCCCGGG-TCA
* *
6892564 CATGCG-GAGGTATTTTCAAAATTC-TG
62 CACG-GTGAAGTA-TTTC--AATTCATG
* * *
6892590 -TTTTAATTTTTGTTTTTCAAAAGTCAACTCATATTACTAGAGGTGAGTTGAGCCTCGGGTCACA
1 TTTTTAATTTATGTTTTTCAAAA-TCAACTCATATTA-TAGAGGTGAGTTGAACCCCGGGTCACA
6892654 CG
64 CG
6892656 CCGAGGACAA
Statistics
Matches: 129, Mismatches: 13, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
85 2 0.02
86 48 0.37
87 19 0.15
88 48 0.37
89 12 0.09
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.36
Consensus pattern (85 bp):
TTTTTAATTTATGTTTTTCAAAATCAACTCATATTATAGAGGTGAGTTGAACCCCGGGTCACACG
GTGAAGTATTTCAATTCATG
Found at i:6894240 original size:3 final size:3
Alignment explanation
Indices: 6894218--6894309 Score: 64
Period size: 3 Copynumber: 30.7 Consensus size: 3
6894208 TCACTATTTT
* * **
6894218 TTA TTT TTA ATA TTA TTTA TTA TTA -TA TTTA TTA TTA TCG TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* * **
6894264 TTA TTA TTA TTA TTA GTA -TA TCT- TTA CTA TTA TTA GAA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA
6894308 TT
1 TT
6894310 TTTAGTTTCA
Statistics
Matches: 68, Mismatches: 15, Indels: 12
0.72 0.16 0.13
Matches are distributed among these distances:
2 5 0.07
3 57 0.84
4 6 0.09
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:6894437 original size:24 final size:26
Alignment explanation
Indices: 6894407--6894464 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
6894397 CTAAGATGTA
*
6894407 TATATTATGTA-A-ATATTTTAATAC
1 TATATTATGTATACATATTTAAATAC
6894431 TATATTATGTATACATATTTAAATAC
1 TATATTATGTATACATATTTAAATAC
6894457 TATATTAT
1 TATATTAT
6894465 ACCCATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 11 0.35
25 1 0.03
26 19 0.61
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.50
Consensus pattern (26 bp):
TATATTATGTATACATATTTAAATAC
Found at i:6894554 original size:21 final size:21
Alignment explanation
Indices: 6894530--6894592 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 21
6894520 ATTATATTTG
6894530 TTATTA-ATAT-TAGTATATGCT
1 TTATTATATATGTA-TATAT-CT
6894551 TTATTATATATGTATATATCT
1 TTATTATATATGTATATATCT
*
6894572 TTAATAAATATATGTATATAT
1 TT-AT-TATATATGTATATAT
6894593 TTATGTAGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
21 10 0.27
22 11 0.30
23 16 0.43
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.52
Consensus pattern (21 bp):
TTATTATATATGTATATATCT
Found at i:6894688 original size:24 final size:24
Alignment explanation
Indices: 6894645--6894707 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
6894635 TTCTAATATG
6894645 TATATATTATGTA-A-ATATTTTAA
1 TATATATTATGTATACAT-TTTTAA
*
6894668 TACTATATTATGTATACATTTTTTA
1 TA-TATATTATGTATACATTTTTAA
*
6894693 TATATATTACGTATA
1 TATATATTATGTATA
6894708 TATACCTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 8 0.23
26 2 0.06
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (24 bp):
TATATATTATGTATACATTTTTAA
Found at i:6900056 original size:47 final size:47
Alignment explanation
Indices: 6899947--6900057 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
6899937 CCGGGATAAG
*
6899947 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
6899994 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
6900041 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
6900058 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Done.