Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 29 of 125
Found at i:8297478 original size:112 final size:111
Alignment explanation
Indices: 8297283--8297521 Score: 288
Period size: 112 Copynumber: 2.1 Consensus size: 111
8297273 CTTTATCGTG
* ** * * *
8297283 TTTATTCCAACCTTTTTAAGATTGTTTTAGACATGTTTATCCCAACCTTTTTTAAAGGTTGTCTT
1 TTTATCCCAACCTTTTTAAGATTACTTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTCTCTT
* *
8297348 AGATTAAGTCTATTCCAACCTTTTTTAAA-GGATGCCTTAGA-AAAA
66 AGATCAAGTCTATTCCAACC-TTTTTAAATAGATGCCTTAGACAAAA
* *
8297393 TTTATCCCAACCTTTTTAAAAGATTACTTTAGACGGGTCTATCCCAATCTTTTTTAAAGGTTC-C
1 TTTATCCCAACCTTTTT--AAGATTACTTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTCTC
* *
8297457 TTTAGA-CAAGGTCTATTCCAACCTTTTTAAATAGTTGCCTTAGACAAGA
64 -TTAGATCAA-GTCTATTCCAACCTTTTTAAATAGATGCCTTAGACAAAA
*
8297506 TCTATCCCAACCTTTT
1 TTTATCCCAACCTTTT
8297522 AAAGGTTGTT
Statistics
Matches: 110, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
110 16 0.15
111 11 0.10
112 65 0.59
113 18 0.16
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (111 bp):
TTTATCCCAACCTTTTTAAGATTACTTTAGACAGGTCTATCCCAACCTTTTTTAAAGGTTCTCTT
AGATCAAGTCTATTCCAACCTTTTTAAATAGATGCCTTAGACAAAA
Found at i:8297540 original size:16 final size:16
Alignment explanation
Indices: 8297519--8297551 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8297509 ATCCCAACCT
8297519 TTTAAAGGTTGTTTTA
1 TTTAAAGGTTGTTTTA
8297535 TTTAAAGGTTGTTTTA
1 TTTAAAGGTTGTTTTA
8297551 T
1 T
8297552 ACATGTCTAT
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:0.24, C:0.00, G:0.18, T:0.58
Consensus pattern (16 bp):
TTTAAAGGTTGTTTTA
Found at i:8297577 original size:127 final size:125
Alignment explanation
Indices: 8297429--8297655 Score: 309
Period size: 127 Copynumber: 1.8 Consensus size: 125
8297419 CTTTAGACGG
* *
8297429 GTCTATCCCAATCTTTTTTAAAGGTT-CCTTTAGACAAGGTCTAT-TCCAACCTTTTTAAATAGT
1 GTCTATCCCAACCTTTTTTAAAGGTTGCC-TTAGACAAGGTATATCT-CAACCTTTTT-AA-AGT
8297492 TGCCTTAGACAA-GATCTATCCCAAC-CTTTTAAAGGTTGTTTTATTTAAAGGTTGTTTTATACA
62 TGCCTTAGACAACG-TCTATCCCAACTCTTTTAAA-GTTGTTTTATTTAAAGGTTGTTTTATACA
8297555 T
125 T
* *
8297556 GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGATAAGGTATATCTCAACCTTTTTAAGGTTGCC
1 GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTATATCTCAACCTTTTTAAAGTTGCC
* * *
8297621 TTAGATAACGTCTATCCTAACTTTTTTAAAGTTGT
66 TTAGACAACGTCTATCCCAACTCTTTTAAAGTTGT
8297656 CTTAGACGGG
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
125 28 0.31
126 10 0.11
127 48 0.54
128 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (125 bp):
GTCTATCCCAACCTTTTTTAAAGGTTGCCTTAGACAAGGTATATCTCAACCTTTTTAAAGTTGCC
TTAGACAACGTCTATCCCAACTCTTTTAAAGTTGTTTTATTTAAAGGTTGTTTTATACAT
Found at i:8297621 original size:36 final size:35
Alignment explanation
Indices: 8297563--8297661 Score: 117
Period size: 36 Copynumber: 2.7 Consensus size: 35
8297553 CATGTCTATC
*
8297563 CCAACCTTTTTTAAAGGTTGCCTTAGATAAGGTATAT
1 CCAACC-TTTTT-AAGGTTGCCTTAGATAACGTATAT
*
8297600 CTCAACCTTTTTAAGGTTGCCTTAGATAACGTCTAT
1 C-CAACCTTTTTAAGGTTGCCTTAGATAACGTATAT
* * *
8297636 CCTAACTTTTTTAAAGTTGTCTTAGA
1 CC-AACCTTTTTAAGGTTGCCTTAGA
8297662 CGGGTCTATC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
35 1 0.02
36 43 0.78
37 6 0.11
38 5 0.09
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.40
Consensus pattern (35 bp):
CCAACCTTTTTAAGGTTGCCTTAGATAACGTATAT
Found at i:8298469 original size:23 final size:23
Alignment explanation
Indices: 8298443--8298487 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8298433 TTTTAAAAAA
8298443 ATTAAAATATAATTTTATTATTT
1 ATTAAAATATAATTTTATTATTT
**
8298466 ATTAATTTATAATTTTATTATT
1 ATTAAAATATAATTTTATTATT
8298488 CTAAAGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTAAAATATAATTTTATTATTT
Found at i:8304152 original size:26 final size:26
Alignment explanation
Indices: 8304122--8304172 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
8304112 TGATTGAACA
* * *
8304122 ATTTAAAATATTTATGTAAAAATTAT
1 ATTTAAAAAAATTATATAAAAATTAT
8304148 ATTTAAAAAAATTATATAAAAATTA
1 ATTTAAAAAAATTATATAAAAATTA
8304173 AATGATGATA
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:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (26 bp):
ATTTAAAAAAATTATATAAAAATTAT
Found at i:8311890 original size:17 final size:17
Alignment explanation
Indices: 8311868--8311906 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
8311858 CTCCACCTTG
* *
8311868 ACAAGAATTCTCTACGA
1 ACAAGAACTCTCAACGA
*
8311885 ACAAGAACTCTCAATGA
1 ACAAGAACTCTCAACGA
8311902 ACAAG
1 ACAAG
8311907 TTCTCCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.13, T:0.18
Consensus pattern (17 bp):
ACAAGAACTCTCAACGA
Found at i:8316283 original size:18 final size:17
Alignment explanation
Indices: 8316260--8316298 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
8316250 ACTTTACTTT
*
8316260 AATTTTATTTTACCAATG
1 AATTTTATTTTAACAA-G
8316278 AATTTTATTTTAACAAG
1 AATTTTATTTTAACAAG
8316295 AATT
1 AATT
8316299 CTAATCACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (17 bp):
AATTTTATTTTAACAAG
Found at i:8319166 original size:27 final size:26
Alignment explanation
Indices: 8319136--8319220 Score: 125
Period size: 27 Copynumber: 3.2 Consensus size: 26
8319126 ACTGTCACTA
8319136 TCCCTATCTCCCTCTAGAACAGCTTCC
1 TCCCTATCTCCCTCT-GAACAGCTTCC
*
8319163 TCCCTATCTCCCTCTGAAACAGCTTTC
1 TCCCTATCTCCCTCTG-AACAGCTTCC
*
8319190 TCCCTATCTCCCTCTGGAACAGCGTCC
1 TCCCTATCTCCCTCT-GAACAGCTTCC
8319217 TCCC
1 TCCC
8319221 CTCCCTTTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
26 1 0.02
27 51 0.96
28 1 0.02
ACGTcount: A:0.16, C:0.45, G:0.09, T:0.29
Consensus pattern (26 bp):
TCCCTATCTCCCTCTGAACAGCTTCC
Found at i:8320502 original size:6 final size:6
Alignment explanation
Indices: 8320477--8320515 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
8320467 ATAATTCATA
* * *
8320477 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
8320516 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:8325710 original size:6 final size:6
Alignment explanation
Indices: 8325685--8325723 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
8325675 ACAATTCATA
* * *
8325685 TCACTT TCAATT CCAATT TCACTT TCACTT TCACTT TCA
1 TCACTT TCACTT TCACTT TCACTT TCACTT TCACTT TCA
8325724 ATTTTGATCA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (6 bp):
TCACTT
Found at i:8327847 original size:21 final size:21
Alignment explanation
Indices: 8327818--8327864 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
8327808 TTGAATTTTG
*
8327818 AAATGTTACTTTGCTTCATAC
1 AAATTTTACTTTGCTTCATAC
*
8327839 AAATTTTACTTTTCTTCATAC
1 AAATTTTACTTTGCTTCATAC
8327860 AAATT
1 AAATT
8327865 ATTTTCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (21 bp):
AAATTTTACTTTGCTTCATAC
Found at i:8327871 original size:18 final size:20
Alignment explanation
Indices: 8327818--8327881 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 20
8327808 TTGAATTTTG
*
8327818 AAATGTTACTTTGCTTCATAC
1 AAAT-TTACTTTTCTTCATAC
8327839 AAATTTTACTTTTCTTCATAC
1 AAA-TTTACTTTTCTTCATAC
8327860 AAA-TTA-TTTTCTTC-T-C
1 AAATTTACTTTTCTTCATAC
8327876 AAATTT
1 AAATTT
8327882 TAAACTAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
16 4 0.10
17 3 0.08
18 8 0.20
19 3 0.08
21 21 0.52
22 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.03, T:0.50
Consensus pattern (20 bp):
AAATTTACTTTTCTTCATAC
Found at i:8327874 original size:21 final size:20
Alignment explanation
Indices: 8327831--8327883 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 20
8327821 TGTTACTTTG
8327831 CTTCATACAAATTTTACTTTT
1 CTTCATACAAATTTTA-TTTT
8327852 CTTCATACAAA--TTATTTT
1 CTTCATACAAATTTTATTTT
8327870 CTTC-T-CAAATTTTA
1 CTTCATACAAATTTTA
8327884 AACTAAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.13
17 1 0.03
18 11 0.37
19 3 0.10
21 11 0.37
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (20 bp):
CTTCATACAAATTTTATTTT
Found at i:8329382 original size:217 final size:217
Alignment explanation
Indices: 8329007--8329445 Score: 869
Period size: 217 Copynumber: 2.0 Consensus size: 217
8328997 ATAAACAGCG
8329007 TTAATGCTAGGTGCCAGAATGTGTAACGGAATTAAACTTCAGGTACCACTTTGGACATTTTGAAA
1 TTAATGCTAGGTGCCAGAATGTGTAACGGAATTAAACTTCAGGTACCACTTTGGACATTTTGAAA
8329072 CTTACCCCTTAAATTGATACTTTTAATTTTATTAAAGAGGATCAAAGTATAATTTTCTTACTTAC
66 CTTACCCCTTAAATTGATACTTTTAATTTTATTAAAGAGGATCAAAGTATAATTTTCTTACTTAC
8329137 CCTTTAAATTTCCCTTCAACTATTAGGTAATCATTATAACCTACCTTGTTTCGTCGACATGTTTT
131 CCTTTAAATTTCCCTTCAACTATTAGGTAATCATTATAACCTACCTTGTTTCGTCGACATGTTTT
*
8329202 GATAAAAACAATTTGTAGCTTT
196 AATAAAAACAATTTGTAGCTTT
8329224 TTAATGCTAGGTGCCAGAATGTGTAACGGAATTAAACTTCAGGTACCACTTTGGACATTTTGAAA
1 TTAATGCTAGGTGCCAGAATGTGTAACGGAATTAAACTTCAGGTACCACTTTGGACATTTTGAAA
8329289 CTTACCCCTTAAATTGATACTTTTAATTTTATTAAAGAGGATCAAAGTATAATTTTCTTACTTAC
66 CTTACCCCTTAAATTGATACTTTTAATTTTATTAAAGAGGATCAAAGTATAATTTTCTTACTTAC
8329354 CCTTTAAATTTCCCTTCAACTATTAGGTAATCATTATAACCTACCTTGTTTCGTCGACATGTTTT
131 CCTTTAAATTTCCCTTCAACTATTAGGTAATCATTATAACCTACCTTGTTTCGTCGACATGTTTT
8329419 AATAAAAACAATTTGTAGCTTT
196 AATAAAAACAATTTGTAGCTTT
8329441 TTAAT
1 TTAAT
8329446 AGCCCATTAA
Statistics
Matches: 221, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
217 221 1.00
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.39
Consensus pattern (217 bp):
TTAATGCTAGGTGCCAGAATGTGTAACGGAATTAAACTTCAGGTACCACTTTGGACATTTTGAAA
CTTACCCCTTAAATTGATACTTTTAATTTTATTAAAGAGGATCAAAGTATAATTTTCTTACTTAC
CCTTTAAATTTCCCTTCAACTATTAGGTAATCATTATAACCTACCTTGTTTCGTCGACATGTTTT
AATAAAAACAATTTGTAGCTTT
Found at i:8330115 original size:34 final size:34
Alignment explanation
Indices: 8330077--8330183 Score: 101
Period size: 34 Copynumber: 3.1 Consensus size: 34
8330067 AGCATGTTTT
8330077 TTGCTATCGAATTGATCTAGTATAAGCATATTAA
1 TTGCTATCGAATTGATCTAGTATAAGCATATTAA
* * * *
8330111 TTGCTA-CCATATCGATCTATTATAAGCATATAAA
1 TTGCTATCGA-ATTGATCTAGTATAAGCATATTAA
* * * *
8330145 TTTCTATCGTATTGATAT-GTTATAAGCATGTTATA
1 TTGCTATCGAATTGATCTAG-TATAAGCATATTA-A
8330180 TTGC
1 TTGC
8330184 ATTGCATAGG
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
33 2 0.04
34 49 0.88
35 5 0.09
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (34 bp):
TTGCTATCGAATTGATCTAGTATAAGCATATTAA
Found at i:8332688 original size:16 final size:16
Alignment explanation
Indices: 8332669--8332706 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
8332659 ATCATTCTAT
8332669 TTTTCTA-CTCTTTCAA
1 TTTTCTATCT-TTTCAA
*
8332685 TTTTCCATCTTTTCAA
1 TTTTCTATCTTTTCAA
8332701 TTTTCT
1 TTTTCT
8332707 TTCCACTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTCTATCTTTTCAA
Found at i:8338506 original size:6 final size:6
Alignment explanation
Indices: 8338483--8338574 Score: 84
Period size: 6 Copynumber: 15.5 Consensus size: 6
8338473 TTTTGAATAG
* *
8338483 ATTTAA ATTT-A TTGTTAA ATTTAA ATTT-A TTTTAA ATTTAA ATGTTTAA
1 ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA ATTTAA ATTTAA A--TTTAA
* * *
8338532 ATTTAA ATTT-G CTTTAA ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
8338575 AATATTAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
5 13 0.19
6 48 0.70
7 2 0.03
8 6 0.09
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:8338519 original size:17 final size:17
Alignment explanation
Indices: 8338483--8338574 Score: 109
Period size: 17 Copynumber: 5.5 Consensus size: 17
8338473 TTTTGAATAG
8338483 ATTTAAATTTATTGTTAA
1 ATTTAAATTTATT-TTAA
8338501 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
*
8338518 ATTTAAA--T-GTTTAA
1 ATTTAAATTTATTTTAA
**
8338532 ATTTAAATTTGCTTTAA
1 ATTTAAATTTATTTTAA
* *
8338549 ATTTAAATTTAATTAAA
1 ATTTAAATTTATTTTAA
8338566 ATTTAAATT
1 ATTTAAATT
8338575 AATATTAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.18
15 1 0.02
16 1 0.02
17 39 0.59
18 13 0.20
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:8338562 original size:11 final size:12
Alignment explanation
Indices: 8338483--8338574 Score: 84
Period size: 11 Copynumber: 7.8 Consensus size: 12
8338473 TTTTGAATAG
8338483 ATTTAAATTT-A
1 ATTTAAATTTAA
*
8338494 TTGTTAAATTTAA
1 AT-TTAAATTTAA
*
8338507 ATTT-ATTTTAA
1 ATTTAAATTTAA
8338518 ATTTAAATGTTTAA
1 ATTTAAA--TTTAA
*
8338532 ATTTAAATTT-G
1 ATTTAAATTTAA
*
8338543 CTTTAAATTTAA
1 ATTTAAATTTAA
*
8338555 ATTT-AATTAAA
1 ATTTAAATTTAA
8338566 ATTTAAATT
1 ATTTAAATT
8338575 AATATTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
11 30 0.46
12 21 0.32
13 2 0.03
14 12 0.18
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.53
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:8340569 original size:29 final size:30
Alignment explanation
Indices: 8340479--8340725 Score: 226
Period size: 29 Copynumber: 8.4 Consensus size: 30
8340469 GAAGGTCCCT
* *
8340479 AAACTGTCCAAATATTATA-TTTTGACCCTCG
1 AAACT-TCCAAAAATTACATTTTTGACCC-CG
* * *
8340510 -AACTTCTATAAAATTAAATTTTTGACTCCG
1 AAACTTCCA-AAAATTACATTTTTGACCCCG
* *
8340540 AAACTTCC-AAAATTACATTTTCGCCCCCG
1 AAACTTCCAAAAATTACATTTTTGACCCCG
* *
8340569 -AACTTCCAAAAATTCCA-TTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTGACCCCG
* * **
8340597 AAACATCCTAAAATTATGTTTTT-ACCCCG
1 AAACTTCCAAAAATTACATTTTTGACCCCG
* **
8340626 AAACTTCCAAAAATTCCATTTTTGACCCAA
1 AAACTTCCAAAAATTACATTTTTGACCCCG
8340656 AAACTTCCAAAAATTACATTTTTGACCCCG
1 AAACTTCCAAAAATTACATTTTTGACCCCG
*
8340686 AAAC-TCCCAAAATTACCA-TTTT-ACCCCG
1 AAACTTCCAAAAATTA-CATTTTTGACCCCG
*
8340714 -AACGTCCAAAAA
1 AAACTTCCAAAAA
8340726 ATCCCATTTT
Statistics
Matches: 176, Mismatches: 31, Indels: 21
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.02
28 28 0.16
29 77 0.44
30 54 0.31
31 14 0.08
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCCCG
Found at i:8340573 original size:59 final size:57
Alignment explanation
Indices: 8340479--8340707 Score: 221
Period size: 59 Copynumber: 3.9 Consensus size: 57
8340469 GAAGGTCCCT
* * * **
8340479 AAACTGTCCAAATATTATATTTTGACCCTCGAACTTCTATAAAATTAAATTTTTGACTCCG
1 AAACT-TCCAAAAATTACATTTTGACCC-CGAACTTCCA-AAAATTCCATTTTTGAC-CCG
*
8340540 AAACTTCC-AAAATTACATTTTCGCCCCCGAACTTCCAAAAATTCCA-TTTTGACCTCG
1 AAACTTCCAAAAATTACATTTT-GACCCCGAACTTCCAAAAATTCCATTTTTGACC-CG
* * ** * *
8340597 AAACATCCTAAAATTATGTTTTTACCCCGAAACTTCCAAAAATTCCATTTTTGACCCAA
1 AAACTTCCAAAAATTACATTTTGACCCCG-AACTTCCAAAAATTCCATTTTTGACCC-G
*
8340656 AAACTTCCAAAAATTACATTTTTGACCCCGAAAC-TCCCAAAATTACCATTTT
1 AAACTTCCAAAAATTACA-TTTTGACCCCG-AACTTCCAAAAATT-CCATTTT
8340708 ACCCCGAACG
Statistics
Matches: 142, Mismatches: 18, Indels: 17
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
57 21 0.15
58 36 0.25
59 51 0.36
60 28 0.20
61 5 0.04
ACGTcount: A:0.35, C:0.26, G:0.06, T:0.33
Consensus pattern (57 bp):
AAACTTCCAAAAATTACATTTTGACCCCGAACTTCCAAAAATTCCATTTTTGACCCG
Found at i:8340698 original size:88 final size:87
Alignment explanation
Indices: 8340479--8340736 Score: 238
Period size: 88 Copynumber: 2.9 Consensus size: 87
8340469 GAAGGTCCCT
* * * ** *
8340479 AAACTGTCCAAATATTATATTTTGACCCTCG-AACTTCTATAAAATTAAATTTTTGACTCCGAAA
1 AAACT-TCCAAAAATTACATTTTGACCC-CGAAACATC-CCAAAATTAAATTTTT-ACCCCGAAA
* * **
8340543 CTTCC-AAAATTACATTTTCGCCCCC
62 CTTCCAAAAATTCCATTTTTGCCCAA
* * * * **
8340568 GAACTTCCAAAAATTCCATTTTGACCTCGAAACATCCTAAAATTATGTTTTTACCCCGAAACTTC
1 AAACTTCCAAAAATTACATTTTGACCCCGAAACATCCCAAAATTAAATTTTTACCCCGAAACTTC
8340633 CAAAAATTCCATTTTTGACCCAA
66 CAAAAATTCCATTTTTG-CCCAA
* *
8340656 AAACTTCCAAAAATTACATTTTTGACCCCGAAAC-TCCCAAAATTACCA-TTTTACCCCG-AACG
1 AAACTTCCAAAAATTACA-TTTTGACCCCGAAACATCCCAAAATTA-AATTTTTACCCCGAAACT
*
8340718 TCCAAAAAATCCCATTTTT
64 TCC-AAAAATTCCATTTTT
8340737 TTATCCCTAT
Statistics
Matches: 141, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
86 13 0.09
87 34 0.24
88 76 0.54
89 18 0.13
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (87 bp):
AAACTTCCAAAAATTACATTTTGACCCCGAAACATCCCAAAATTAAATTTTTACCCCGAAACTTC
CAAAAATTCCATTTTTGCCCAA
Found at i:8340846 original size:28 final size:28
Alignment explanation
Indices: 8340813--8340881 Score: 120
Period size: 28 Copynumber: 2.5 Consensus size: 28
8340803 AATTTTCCCG
**
8340813 AAATTACCATTTTGCCCCTTAGAGTCCA
1 AAATTACCATTTTGCCCCCGAGAGTCCA
8340841 AAATTACCATTTTGCCCCCGAGAGTCCA
1 AAATTACCATTTTGCCCCCGAGAGTCCA
8340869 AAATTACCATTTT
1 AAATTACCATTTT
8340882 ATCCCCGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (28 bp):
AAATTACCATTTTGCCCCCGAGAGTCCA
Found at i:8342192 original size:30 final size:30
Alignment explanation
Indices: 8342111--8342519 Score: 264
Period size: 29 Copynumber: 14.0 Consensus size: 30
8342101 GAAGGTCCCT
* *
8342111 AAACTGTCCAAAAATTATA-CTTTGACCTC-
1 AAACT-TCCAAAAATTACATTTTTGACCTCA
* * * *
8342140 GAACTTCTCTAAATTTGA-ATTTTTGACCACA
1 AAACTTC-CAAAAATT-ACATTTTTGACCTCA
*
8342171 AAACTTCTAAAAATTACATTTTT-ACCCTCA
1 AAACTTCCAAAAATTACATTTTTGA-CCTCA
* * *
8342201 AAACTTCTAAAAATTACATTTTT-ACCCCC
1 AAACTTCCAAAAATTACATTTTTGACCTCA
* * * * *
8342230 GAACTTCCAAAGATTCCA-TTTTGACCCCG
1 AAACTTCCAAAAATTACATTTTTGACCTCA
* * *
8342259 AAACTTCCTAAAACTACATTTTT-ACCCTCG
1 AAACTTCCAAAAATTACATTTTTGA-CCTCA
* * *
8342289 AAACTACC-AAAATTACATTTTT-ACTTCT
1 AAACTTCCAAAAATTACATTTTTGACCTCA
* *
8342317 AAACTTCTAAAAATT-C-TATTTTGACCTCG
1 AAACTTCCAAAAATTACAT-TTTTGACCTCA
*
8342346 AAACTTTCC-AAAATTACATTTTT-ACCTCG
1 AAAC-TTCCAAAAATTACATTTTTGACCTCA
* * * *
8342375 AAACTACCAAAAATT-CTAGTTTTGCCCCCA
1 AAACTTCCAAAAATTAC-ATTTTTGACCTCA
* * * *
8342405 AAAATTCCAAAAATTCCA-TTTTGCCCT-T
1 AAACTTCCAAAAATTACATTTTTGACCTCA
* *
8342433 GAACTT-CAAAAATTCCATTTTT-ACCCTC-
1 AAACTTCCAAAAATTACATTTTTGA-CCTCA
* *
8342461 GAACTTCCAAAAATTCCATTTTTGACC-CAA
1 AAACTTCCAAAAATTACATTTTTGACCTC-A
8342491 AAACTTCCAAAAATTACATTTTTGACCTC
1 AAACTTCCAAAAATTACATTTTTGACCTC
8342520 GAAATTACCA
Statistics
Matches: 307, Mismatches: 46, Indels: 52
0.76 0.11 0.13
Matches are distributed among these distances:
27 12 0.04
28 42 0.14
29 130 0.42
30 114 0.37
31 9 0.03
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCTCA
Found at i:8342348 original size:87 final size:87
Alignment explanation
Indices: 8342160--8342523 Score: 346
Period size: 87 Copynumber: 4.2 Consensus size: 87
8342150 AAATTTGAAT
* * * *
8342160 TTTTGACCACAAAACTT-CTAAAAATTACATTTTTACCCTCAAAACTTCTAAAAATTACATTTTT
1 TTTTGACCACGAAACTTCCT-AAAATTACATTTTTACCCTCGAAACTAC-CAAAATTACATTTTT
* *
8342224 ACCCCCGAACTTCCAAAGATTCCA
64 ACCCCCAAACTTCCAAAAATTCCA
* *
8342248 TTTTGACCCCGAAACTTCCTAAAACTACATTTTTACCCTCGAAACTACCAAAATTACATTTTTAC
1 TTTTGACCACGAAACTTCCTAAAATTACATTTTTACCCTCGAAACTACCAAAATTACATTTTTAC
** * * *
8342313 TTCTAAACTTCTAAAAATTCTA
66 CCCCAAACTTCCAAAAATTCCA
* *
8342335 TTTTGACCTCGAAACTTTCC-AAAATTACATTTTTA-CCTCGAAACTACCAAAAATT-CTAGTTT
1 TTTTGACCACGAAAC-TTCCTAAAATTACATTTTTACCCTCGAAACTACC-AAAATTAC-ATTTT
* *
8342397 TGCCCCCAAAAATTCCAAAAATTCCA
63 TACCCCC-AAACTTCCAAAAATTCCA
* ** * * * *
8342423 TTTTGCCCTTG-AACTT-CAAAAATTCCATTTTTACCCTCG-AACTTCCAAAAATTCCATTTTTG
1 TTTTGACCACGAAACTTCCTAAAATTACATTTTTACCCTCGAAACTACC-AAAATTACATTTTT-
** *
8342485 ACCCAAAAACTTCCAAAAATTACA
64 ACCCCCAAACTTCCAAAAATTCCA
*
8342509 TTTTTGACCTCGAAA
1 -TTTTGACCACGAAA
8342524 TTACCATTTT
Statistics
Matches: 230, Mismatches: 35, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
85 1 0.00
86 64 0.28
87 93 0.40
88 70 0.30
89 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (87 bp):
TTTTGACCACGAAACTTCCTAAAATTACATTTTTACCCTCGAAACTACCAAAATTACATTTTTAC
CCCCAAACTTCCAAAAATTCCA
Found at i:8342668 original size:28 final size:28
Alignment explanation
Indices: 8342635--8342706 Score: 126
Period size: 28 Copynumber: 2.6 Consensus size: 28
8342625 CCAAATTTTC
* *
8342635 CCAAAATTACCATTTTGGCCCCTAGAGT
1 CCAAAATTACCATTTTGCCCCCGAGAGT
8342663 CCAAAATTACCATTTTGCCCCCGAGAGT
1 CCAAAATTACCATTTTGCCCCCGAGAGT
8342691 CCAAAATTACCATTTT
1 CCAAAATTACCATTTT
8342707 ATCTTCGGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 42 1.00
ACGTcount: A:0.31, C:0.29, G:0.11, T:0.29
Consensus pattern (28 bp):
CCAAAATTACCATTTTGCCCCCGAGAGT
Found at i:8346780 original size:17 final size:17
Alignment explanation
Indices: 8346758--8346802 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
8346748 CCTTGTTGCA
8346758 TGCATTTCATGTGCATC
1 TGCATTTCATGTGCATC
8346775 TGCATTTCATGTGCATC
1 TGCATTTCATGTGCATC
8346792 TGCATTTCATG
1 TGCATTTCATG
8346803 CATTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (17 bp):
TGCATTTCATGTGCATC
Found at i:8349884 original size:50 final size:49
Alignment explanation
Indices: 8349723--8349894 Score: 141
Period size: 50 Copynumber: 3.4 Consensus size: 49
8349713 AAGACACAAG
* * *
8349723 GGAAAGATCTAAGCCGCAACGGTGGATCCAGTACCGCAAAAATACAAAAA
1 GGAAAGATCTAAGCCGCAACGGTAGATCCAGTACCTCAAAGATA-AAAAA
* * * * * ** **
8349773 GGAAAGGTCTAAGTCGCAACAG-CGA-CTCACGTACCTCAGAAGACACGACG
1 GGAAAGATCTAAGCCGCAACGGTAGATC-CA-GTACCTCA-AAGATAAAAAA
* *
8349823 GGAAATATCTAAGACCGCAACGGTAGATCCAGTACCTCAAAGATATAAAA
1 GGAAAGATCTAAG-CCGCAACGGTAGATCCAGTACCTCAAAGATAAAAAA
* *
8349873 GGAAAGGTCTAAGTCGCAACGG
1 GGAAAGATCTAAGCCGCAACGG
8349895 CGGACTGTGT
Statistics
Matches: 92, Mismatches: 24, Indels: 13
0.71 0.19 0.10
Matches are distributed among these distances:
48 1 0.01
49 12 0.13
50 55 0.60
51 19 0.21
52 4 0.04
53 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.24, T:0.14
Consensus pattern (49 bp):
GGAAAGATCTAAGCCGCAACGGTAGATCCAGTACCTCAAAGATAAAAAA
Found at i:8349907 original size:100 final size:100
Alignment explanation
Indices: 8349713--8349940 Score: 293
Period size: 100 Copynumber: 2.3 Consensus size: 100
8349703 ATACCACACA
* * *
8349713 AAGACACAAGGGAAAGATCTAAG-CCGCAACGGTGGATCCAGTACCGCAAAAATACAAAAAGGAA
1 AAGACACGAGGGAAAAATCTAAGACCGCAACGGTAGATCCAGTACCGCAAAAATACAAAAAGGAA
8349777 AGGTCTAAGTCGCAACAGCGACTCACGTACCTCAG
66 AGGTCTAAGTCGCAACAGCGACTCACGTACCTCAG
* * * *
8349812 AAGACACGACGGGAAATATCTAAGACCGCAACGGTAGATCCAGTACCTCAAAGATA-TAAAAGGA
1 AAGACACGA-GGGAAAAATCTAAGACCGCAACGGTAGATCCAGTACCGCAAAAATACAAAAAGGA
* **
8349876 AAGGTCTAAGTCGCAACGGCGGACT-GTGTACCTCAG
65 AAGGTCTAAGTCGCAACAGC-GACTCACGTACCTCAG
* * *
8349912 AAG-CATGAAGAAAAAATCTAAGACCGCAA
1 AAGACACGAGGGAAAAATCTAAGACCGCAA
8349941 TGGCGGATCC
Statistics
Matches: 113, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
98 18 0.16
99 12 0.11
100 51 0.45
101 32 0.28
ACGTcount: A:0.41, C:0.22, G:0.23, T:0.14
Consensus pattern (100 bp):
AAGACACGAGGGAAAAATCTAAGACCGCAACGGTAGATCCAGTACCGCAAAAATACAAAAAGGAA
AGGTCTAAGTCGCAACAGCGACTCACGTACCTCAG
Found at i:8350289 original size:92 final size:92
Alignment explanation
Indices: 8350123--8350383 Score: 479
Period size: 92 Copynumber: 2.8 Consensus size: 92
8350113 GGATCAGATC
*
8350123 AACATCA-TCCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
*
8350187 TTGTAGTAAGATCTAGATGAAGCATCA
66 TTGTAGTAAGAGCTAGATGAAGCATCA
*
8350214 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTAAAG
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
8350279 TTGTAGTAAGAGCTAGATGAAGCATCA
66 TTGTAGTAAGAGCTAGATGAAGCATCA
*
8350306 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGATGGATAGCAAGTCTTTATCTCTCTGAAG
1 AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
8350371 TTGTAGTAAGAGC
66 TTGTAGTAAGAGC
8350384 AAAATAAAAC
Statistics
Matches: 164, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
91 7 0.04
92 157 0.96
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (92 bp):
AACATCATTTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCTGAAG
TTGTAGTAAGAGCTAGATGAAGCATCA
Found at i:8351016 original size:6 final size:6
Alignment explanation
Indices: 8350993--8351084 Score: 84
Period size: 6 Copynumber: 15.5 Consensus size: 6
8350983 TTTTCAATAT
* *
8350993 ATTTAA ATTT-A TTATTAA ATTTAA ATTT-A TTTTAA ATTTAA ATGTTTAA
1 ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA ATTTAA ATTTAA A--TTTAA
* * *
8351042 ATTTAA ATTT-G CTTTAA ATTTAA ATTT-A ATTAAA ATTTAA ATT
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATT
8351085 AATATTAAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
5 13 0.19
6 48 0.70
7 2 0.03
8 6 0.09
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (6 bp):
ATTTAA
Found at i:8351029 original size:17 final size:17
Alignment explanation
Indices: 8350993--8351084 Score: 109
Period size: 17 Copynumber: 5.5 Consensus size: 17
8350983 TTTTCAATAT
8350993 ATTTAAATTTATTATTAA
1 ATTTAAATTTATT-TTAA
8351011 ATTTAAATTTATTTTAA
1 ATTTAAATTTATTTTAA
*
8351028 ATTTAAA--T-GTTTAA
1 ATTTAAATTTATTTTAA
**
8351042 ATTTAAATTTGCTTTAA
1 ATTTAAATTTATTTTAA
* *
8351059 ATTTAAATTTAATTAAA
1 ATTTAAATTTATTTTAA
8351076 ATTTAAATT
1 ATTTAAATT
8351085 AATATTAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
14 12 0.18
15 1 0.02
16 1 0.02
17 39 0.59
18 13 0.20
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTTAAATTTATTTTAA
Found at i:8351072 original size:11 final size:12
Alignment explanation
Indices: 8350993--8351084 Score: 84
Period size: 11 Copynumber: 7.8 Consensus size: 12
8350983 TTTTCAATAT
8350993 ATTTAAATTT-A
1 ATTTAAATTTAA
*
8351004 TTATTAAATTTAA
1 AT-TTAAATTTAA
*
8351017 ATTT-ATTTTAA
1 ATTTAAATTTAA
8351028 ATTTAAATGTTTAA
1 ATTTAAA--TTTAA
*
8351042 ATTTAAATTT-G
1 ATTTAAATTTAA
*
8351053 CTTTAAATTTAA
1 ATTTAAATTTAA
*
8351065 ATTT-AATTAAA
1 ATTTAAATTTAA
8351076 ATTTAAATT
1 ATTTAAATT
8351085 AATATTAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
11 30 0.46
12 21 0.32
13 2 0.03
14 12 0.18
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:8353152 original size:29 final size:29
Alignment explanation
Indices: 8353070--8353505 Score: 313
Period size: 29 Copynumber: 15.0 Consensus size: 29
8353060 GAAGGTCCCT
* * *
8353070 AAACTGTCCAAAAATTATATTTTAACCCCC
1 AAACT-TCCAAAAATTACATTTTTACCCCG
* *
8353100 AAAATTCTCCAAAATTGA-ATTTTTGACCCCG
1 AAACTTC-CAAAAATT-ACATTTTT-ACCCCG
* *
8353131 AAACATT-CAAAAATTACATTTTTTCCCCCA
1 AAAC-TTCCAAAAATTACA-TTTTTACCCCG
8353161 AAACTTCCAAAAATTACATTTTTACCCC-
1 AAACTTCCAAAAATTACATTTTTACCCCG
* * * **
8353189 AGAACTTCTAAAAATTCCATTTTGACATCG
1 A-AACTTCCAAAAATTACATTTTTACCCCG
* ** *
8353219 AAACTTCCTAAAATTATGTTTTTACTCTC-
1 AAACTTCCAAAAATTACATTTTTAC-CCCG
* * **
8353248 AAACTTTCAAAAATTCCATTTTTAACCCTA
1 AAACTTCCAAAAATTACATTTTT-ACCCCG
* *
8353278 AAACTTCC-AAAATTACGTTTTTGCCCTCG
1 AAACTTCCAAAAATTACATTTTTACCC-CG
* * *
8353307 -AACTTCCAAAAATTCCATTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTACCCCG
* * *
8353335 AAACATCCCAAAATT--ATGTTTACCCCG
1 AAACTTCCAAAAATTACATTTTTACCCCG
*
8353362 AAACTTTCAAAAATTACATTTTTACCCTCG
1 AAACTTCCAAAAATTACATTTTTACCC-CG
8353392 -AACTTCCAAAAATT-CTATTTTTACCCTCG
1 AAACTTCCAAAAATTAC-ATTTTTACCC-CG
* **
8353421 -AACTTCCAAAAATTCCATTTTTGACCCAA
1 AAACTTCCAAAAATTACATTTTT-ACCCCG
* * *
8353450 AAATTTCCAAAAATTACATTTTTAGCCCA
1 AAACTTCCAAAAATTACATTTTTACCCCG
**
8353479 AAAC-TCCCTAAATTATCA-TTTTACCCC
1 AAACTTCCAAAAATTA-CATTTTTACCCC
8353506 CGGATGTCCA
Statistics
Matches: 324, Mismatches: 59, Indels: 48
0.75 0.14 0.11
Matches are distributed among these distances:
27 21 0.06
28 31 0.10
29 174 0.54
30 82 0.25
31 14 0.04
32 2 0.01
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCCCG
Found at i:8353318 original size:116 final size:114
Alignment explanation
Indices: 8353125--8353441 Score: 426
Period size: 114 Copynumber: 2.8 Consensus size: 114
8353115 TGAATTTTTG
* * *
8353125 ACCCCGAAACATTCAAAAATTACATTTTTTCCCCCAAAACTTCCAAAAATTACATTTTTACCC-C
1 ACCCCGAAACTTTCAAAAATTACA-TTTTTACCCTAAAACTTCCAAAAATTACATTTTTACCCTC
* * *
8353189 AGAACTTCTAAAAATTCCATTTTGACATCGAAACTTCCTAAAATTATGTTTTT
65 -GAACTTCCAAAAATTCCATTTTGACATCGAAACATCCCAAAATTATG--TTT
* * * *
8353242 ACTCTC-AAACTTTCAAAAATTCCATTTTTAACCCTAAAACTTCC-AAAATTACGTTTTTGCCCT
1 AC-CCCGAAACTTTCAAAAATTACATTTTT-ACCCTAAAACTTCCAAAAATTACATTTTTACCCT
*
8353305 CGAACTTCCAAAAATTCCATTTTGACCTCGAAACATCCCAAAATTATGTTT
64 CGAACTTCCAAAAATTCCATTTTGACATCGAAACATCCCAAAATTATGTTT
**
8353356 ACCCCGAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATT-CTATTTTTACCCTC
1 ACCCCGAAACTTTCAAAAATTACATTTTTACCCTAAAACTTCCAAAAATTAC-ATTTTTACCCTC
8353420 GAACTTCCAAAAATTCCATTTT
65 GAACTTCCAAAAATTCCATTTT
8353442 TGACCCAAAA
Statistics
Matches: 177, Mismatches: 17, Indels: 15
0.85 0.08 0.07
Matches are distributed among these distances:
113 15 0.08
114 65 0.37
116 64 0.36
117 31 0.18
118 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.04, T:0.34
Consensus pattern (114 bp):
ACCCCGAAACTTTCAAAAATTACATTTTTACCCTAAAACTTCCAAAAATTACATTTTTACCCTCG
AACTTCCAAAAATTCCATTTTGACATCGAAACATCCCAAAATTATGTTT
Found at i:8353391 original size:85 final size:86
Alignment explanation
Indices: 8353255--8353473 Score: 248
Period size: 85 Copynumber: 2.5 Consensus size: 86
8353245 CTCAAACTTT
* * * * *
8353255 CAAAAATTCCATTTTTAACCCTAAAAC-TTCCAAAATTACGTTTTTGCCCTCGAACTTCCAAAAA
1 CAAAAATT-CATGTTTGACCC-AAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAA
8353319 TTCCATTTTGA-CCTCGAAACATC
64 TTCCATTTTGACCCTCG-AACATC
* *
8353342 CCAAAATT-ATGTTT-ACCCCGAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAAT
1 CAAAAATTCATGTTTGA-CCCAAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAAT
* * *
8353405 TCTATTTTTACCCTCGAACTTC
65 TCCATTTTGACCCTCGAACATC
* *
8353427 CAAAAATTCCATTTTTGACCCAAAAATTTCCAAAAATTACATTTTTA
1 CAAAAATT-CATGTTTGACCCAAAACTTT-CAAAAATTACATTTTTA
8353474 GCCCAAAACT
Statistics
Matches: 112, Mismatches: 13, Indels: 13
0.81 0.09 0.09
Matches are distributed among these distances:
84 5 0.04
85 63 0.56
86 5 0.04
87 21 0.19
88 18 0.16
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.34
Consensus pattern (86 bp):
CAAAAATTCATGTTTGACCCAAAACTTTCAAAAATTACATTTTTACCCTCGAACTTCCAAAAATT
CCATTTTGACCCTCGAACATC
Found at i:8353578 original size:145 final size:144
Alignment explanation
Indices: 8353410--8353798 Score: 390
Period size: 145 Copynumber: 2.7 Consensus size: 144
8353400 AAAATTCTAT
* * * * * *
8353410 TTTTACCCTCGAACTTCCAAAA-ATTCCATTTTTGACCCAAAAATTTCCAAAAATTA-CATTTTT
1 TTTTACCCTCGATCATCTAAAATA-T-CATTTTTAACCC-AAATTTTCCAAAAATTACCATTTTG
* * * * * *
8353473 AGCCCAAAACTCCCTAAATTATCATTTTACCCCCGGATGTCCAAAAA-TCCCATTTTTTATCTCG
63 ACCCCAAAACT-CCAAAATTACCATTTTACCCCCGGATATCCAAAAAGTCCC-GTTTTGATCTCG
*
8353537 ATT-TTTCTAAAAATTACCG
126 ATTCTTTC-AAAAACTACCG
** * * *
8353556 TTTTACCCTCGATTGTCTAAAATGTCATTTTTAAACCCAAATTTTCCTAAAATTACCATTTTGCC
1 TTTTACCCTCGATCATCTAAAATATCATTTTT-AACCCAAATTTTCCAAAAATTACCATTTTGAC
* * * * *
8353621 CCCGAGAGTCCAAAATTACCATTTTACCCCCGGGTATCCAAAAAGTCTCGTTTTGATCTCGATTC
65 CCCAAAACTCCAAAATTACCATTTTACCCCCGGATATCCAAAAAGTCCCGTTTTGATCTCGATTC
*
8353686 TTTCGAAAACTACCG
130 TTTCAAAAACTACCG
* * *
8353701 TTTTACCCTCGATCATCTAAAATATCATTTTTAACCCCCAAATTTTCCCAAAATTGCCATTTTGC
1 TTTTACCCTCGATCATCTAAAATATCATTTTTAA--CCCAAATTTTCCAAAAATTACCATTTTGA
* * * *
8353766 CCCCGAGAGTCTAAAATTACCATTTTACCCCCG
64 CCCCAAAACTCCAAAATTACCATTTTACCCCCG
8353799 AGCATCCAAA
Statistics
Matches: 207, Mismatches: 29, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
144 2 0.01
145 104 0.50
146 101 0.49
ACGTcount: A:0.30, C:0.27, G:0.08, T:0.35
Consensus pattern (144 bp):
TTTTACCCTCGATCATCTAAAATATCATTTTTAACCCAAATTTTCCAAAAATTACCATTTTGACC
CCAAAACTCCAAAATTACCATTTTACCCCCGGATATCCAAAAAGTCCCGTTTTGATCTCGATTCT
TTCAAAAACTACCG
Found at i:8353798 original size:146 final size:145
Alignment explanation
Indices: 8353488--8353808 Score: 448
Period size: 145 Copynumber: 2.2 Consensus size: 145
8353478 AAAACTCCCT
* * * * * *
8353488 AAATTATCATTTTACCCCCGGATGTCCAAAAATCCCATTTTTTATCTCGATTTTTCTAAAAATTA
1 AAATTACCATTTTACCCCCGGGTATCCAAAAATCCCAGTTTTGATCTCGATTTTTCTAAAAACTA
** * *
8353553 CCGTTTTACCCTCGATTGTCTAAAATGTCATTTTTAAACCCAAATTTTCCTAAAATTACCATTTT
66 CCGTTTTACCCTCGATCATCTAAAATATCATTTTTAAACCCAAATTTTCCCAAAATTACCATTTT
8353618 GCCCCCGAGAGTCCA
131 GCCCCCGAGAGTCCA
* *
8353633 AAATTACCATTTTACCCCCGGGTATCCAAAAAGTCTC-GTTTTGATCTCGATTCTTTC-GAAAAC
1 AAATTACCATTTTACCCCCGGGTATCCAAAAA-TCCCAGTTTTGATCTCGATT-TTTCTAAAAAC
* *
8353696 TACCGTTTTACCCTCGATCATCTAAAATATCATTTTTAACCCCCAAATTTTCCCAAAATTGCCAT
64 TACCGTTTTACCCTCGATCATCTAAAATATCATTTTTAA-ACCCAAATTTTCCCAAAATTACCAT
*
8353761 TTTGCCCCCGAGAGTCTA
128 TTTGCCCCCGAGAGTCCA
* *
8353779 AAATTACCATTTTACCCCCGAGCATCCAAA
1 AAATTACCATTTTACCCCCGGGTATCCAAA
8353809 GTCTCATTTT
Statistics
Matches: 156, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
145 82 0.53
146 74 0.47
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (145 bp):
AAATTACCATTTTACCCCCGGGTATCCAAAAATCCCAGTTTTGATCTCGATTTTTCTAAAAACTA
CCGTTTTACCCTCGATCATCTAAAATATCATTTTTAAACCCAAATTTTCCCAAAATTACCATTTT
GCCCCCGAGAGTCCA
Found at i:8354135 original size:97 final size:97
Alignment explanation
Indices: 8354029--8354210 Score: 242
Period size: 97 Copynumber: 1.9 Consensus size: 97
8354019 AAAACTTTAA
* * *
8354029 AATCGAGGCAATA-TTCTTTTAT-TTTGAGTTTCGAAATTTTGGCGCCTTAACTTACTAGGTGCA
1 AATCGAGGCAATATTTC-CTTATCTTCGA-TTTCGAAATTTTGGCACCTTAACTTACTAGGTGCA
**
8354092 ATTTTTCTTCAAATCGAAATAAACGAATATCCTT
64 ACCTTTCTTCAAATCGAAATAAACGAATATCCTT
* * *
8354126 AATCGAGGCAATGTTTCCTTATCTTCGATTTTGAAATTTTTGCACCTTAACTTACTAGGTGCAAC
1 AATCGAGGCAATATTTCCTTATCTTCGATTTCGAAATTTTGGCACCTTAACTTACTAGGTGCAAC
* *
8354191 CTTTCTTTAAATCGAGATAA
66 CTTTCTTCAAATCGAAATAA
8354211 TCTAACACCC
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
97 66 0.90
98 7 0.10
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (97 bp):
AATCGAGGCAATATTTCCTTATCTTCGATTTCGAAATTTTGGCACCTTAACTTACTAGGTGCAAC
CTTTCTTCAAATCGAAATAAACGAATATCCTT
Found at i:8356987 original size:26 final size:25
Alignment explanation
Indices: 8356933--8357004 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
8356923 AGCATCCAAT
8356933 AAATATTATTC-AAATAAT--TAAAC
1 AAAT-TTATTCAAAATAATAATAAAC
*
8356956 ACATTTATTCAAAAATAATAATAAAC
1 AAATTTATTC-AAAATAATAATAAAC
*
8356982 AAATTTATTCAATATAATAATAA
1 AAATTTATTCAAAATAATAATAA
8357005 GTGTTTTTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 6 0.14
23 3 0.07
24 7 0.17
25 12 0.29
26 14 0.33
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATTTATTCAAAATAATAATAAAC
Found at i:8360391 original size:23 final size:23
Alignment explanation
Indices: 8360348--8360396 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
8360338 CTTTAGAATG
**
8360348 TTAATTTTATTATTTATTAAAAA
1 TTAATTTTATTATAAATTAAAAA
*
8360371 TTAATTTTATT-TAAATCTAAATA
1 TTAATTTTATTATAAAT-TAAAAA
8360394 TTA
1 TTA
8360397 GAAAATGAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TTAATTTTATTATAAATTAAAAA
Found at i:8360469 original size:7 final size:8
Alignment explanation
Indices: 8360440--8360472 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
8360430 TAGCAATCGC
8360440 AATTTTGTT
1 AATTTT-TT
8360449 -ATTTTTT
1 AATTTTTT
8360456 AATTTTTT
1 AATTTTTT
8360464 AATTTTTT
1 AATTTTTT
8360472 A
1 A
8360473 GCCTAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.09
8 21 0.91
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (8 bp):
AATTTTTT
Found at i:8360520 original size:3 final size:3
Alignment explanation
Indices: 8360512--8360561 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
8360502 GAAAAAGACA
8360512 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
8360560 AA
1 AA
8360562 CAACGTGTCA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8361078 original size:15 final size:16
Alignment explanation
Indices: 8361051--8361091 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
8361041 GGCCCGACCC
8361051 ATTTTTA-ATTTATAAT
1 ATTTTTATA-TTATAAT
*
8361067 A-TTTTATATTATATT
1 ATTTTTATATTATAAT
8361082 ATTTTTATAT
1 ATTTTTATAT
8361092 ATTATGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 12 0.55
16 10 0.45
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTTTTATATTATAAT
Found at i:8363124 original size:23 final size:22
Alignment explanation
Indices: 8363067--8363124 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
8363057 AAAAAAATTC
*
8363067 TATATTTTTTATTATTTGATATT
1 TATAATTTTT-TTATTTGATATT
* *
8363090 TTTAGTTATTTTTATTTGATATT
1 TATAATT-TTTTTATTTGATATT
8363113 TAATAATTTTTT
1 T-ATAATTTTTT
8363125 ATTATATCTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (22 bp):
TATAATTTTTTTATTTGATATT
Found at i:8374553 original size:21 final size:21
Alignment explanation
Indices: 8374529--8374576 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
8374519 TAACTTCTAT
8374529 CGATACAAGTATTTAAACTAC
1 CGATACAAGTATTTAAACTAC
8374550 CGATACAAGTATTTAAACTAC
1 CGATACAAGTATTTAAACTAC
*
8374571 TGATAC
1 CGATAC
8374577 CTCAATGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.10, T:0.29
Consensus pattern (21 bp):
CGATACAAGTATTTAAACTAC
Found at i:8374727 original size:102 final size:102
Alignment explanation
Indices: 8374546--8374745 Score: 319
Period size: 102 Copynumber: 2.0 Consensus size: 102
8374536 AGTATTTAAA
* * * *
8374546 CTACCGATACAAGTATTTAAACTACTGATACCTCAATGTACAGAACTACCGATACCTGTTATACA
1 CTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAGAACAACCGATACCTATTATACA
*
8374611 ACTACCAAAACAACTCAAGTCAGAGAACAACCTACTT
66 ACTACCAAAACAACTCAAGTCAAAGAACAACCTACTT
* * *
8374648 CTACTGATACAAGCATTTAAACTACCGATACCTCAATGTACAGAACAACTGATACCTATTATATA
1 CTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAGAACAACCGATACCTATTATACA
*
8374713 ACTACCGAAACAACTCAAGTCAAAGAACAACCT
66 ACTACCAAAACAACTCAAGTCAAAGAACAACCT
8374746 CTCTCCTACC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
102 89 1.00
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (102 bp):
CTACCGATACAAGCATTTAAACTACCGATACCTCAATGTACAGAACAACCGATACCTATTATACA
ACTACCAAAACAACTCAAGTCAAAGAACAACCTACTT
Found at i:8376318 original size:26 final size:25
Alignment explanation
Indices: 8376283--8376341 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
8376273 TTAATTAGTA
*
8376283 AAAATATTAACAATTTAAAATAAATT
1 AAAATATTAACAAATT-AAATAAATT
* *
8376309 AAAATGTTAATAAATTAAATAAATT
1 AAAATATTAACAAATTAAATAAATT
8376334 AAAA-ATTA
1 AAAATATTA
8376342 GAAGATCAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 3 0.10
25 13 0.45
26 13 0.45
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (25 bp):
AAAATATTAACAAATTAAATAAATT
Found at i:8385341 original size:19 final size:20
Alignment explanation
Indices: 8385274--8385345 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
8385264 TGCCTGTATG
*
8385274 CACTTCGGTGCCCCTG-TAT
1 CACTTTGGTGCCCCTGTTAT
* * * *
8385293 GTATTTTGGTGCCCTTGTTAG
1 -CACTTTGGTGCCCCTGTTAT
*
8385314 CACTCTGGTGCCCCTGTT-T
1 CACTTTGGTGCCCCTGTTAT
8385333 CACTTTGGTGCCC
1 CACTTTGGTGCCC
8385346 TTGAAAATAA
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
19 12 0.30
20 26 0.65
21 2 0.05
ACGTcount: A:0.08, C:0.31, G:0.24, T:0.38
Consensus pattern (20 bp):
CACTTTGGTGCCCCTGTTAT
Found at i:8386827 original size:16 final size:15
Alignment explanation
Indices: 8386779--8386831 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
8386769 GTTCATAATT
8386779 GGGTACCCGCAATTTC
1 GGGTACCCG-AATTTC
* * *
8386795 GAGTACCCAAAAATTC
1 GGGTACCC-GAATTTC
8386811 GGGTACCCGAATTTTC
1 GGGTACCCGAA-TTTC
8386827 GGGTA
1 GGGTA
8386832 TTAAAAATGT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
15 2 0.07
16 27 0.93
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (15 bp):
GGGTACCCGAATTTC
Found at i:8386925 original size:17 final size:17
Alignment explanation
Indices: 8386870--8386925 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 17
8386860 TTGAATACAA
*
8386870 GGTA-CCGTAATAATCG
1 GGTACCCGTAATAATTG
*
8386886 GGTACCC--AAAAATTCG
1 GGTACCCGTAATAATT-G
*
8386902 AGTACCCGTAATAATTG
1 GGTACCCGTAATAATTG
8386919 GGTACCC
1 GGTACCC
8386926 ATATTTTCGG
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
15 5 0.16
16 11 0.35
17 9 0.29
18 6 0.19
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (17 bp):
GGTACCCGTAATAATTG
Found at i:8387421 original size:25 final size:23
Alignment explanation
Indices: 8387380--8387425 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
8387370 TCAATTAGAG
8387380 AATTATTATTTAGATTTAATTAC
1 AATTATTATTTAGATTTAATTAC
*
8387403 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TATTTAG-ATTTAATT
8387426 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (23 bp):
AATTATTATTTAGATTTAATTAC
Found at i:8388542 original size:36 final size:36
Alignment explanation
Indices: 8388494--8388572 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
8388484 TCAAAATGAC
* * *
8388494 AAAC-TTAAAAATCCAAACTAGATAAATCCAAATATA
1 AAACTTTAGAAATCCAAACTACAT-AATCCAAAGATA
* *
8388530 AAA-TTTAGAAATCCAAATTACATAATTCAAAGATA
1 AAACTTTAGAAATCCAAACTACATAATCCAAAGATA
8388565 AAACTTTA
1 AAACTTTA
8388573 AAAAAATACA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 13 0.36
36 23 0.64
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.27
Consensus pattern (36 bp):
AAACTTTAGAAATCCAAACTACATAATCCAAAGATA
Found at i:8391831 original size:6 final size:6
Alignment explanation
Indices: 8391820--8391854 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
8391810 ATAAGAAAAA
*
8391820 GGGAAG GGGAAG GGGAAG GGGAAG GGGGAG GGGAA
1 GGGAAG GGGAAG GGGAAG GGGAAG GGGAAG GGGAA
8391855 CAGAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (6 bp):
GGGAAG
Found at i:8391923 original size:20 final size:22
Alignment explanation
Indices: 8391898--8391939 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
8391888 TGATAATTTT
8391898 AATAATTTT-AT-ATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
8391918 AATAATTTTAATAATTTTAAAA
1 AATAATTTTAATAATTTTAAAA
8391940 TCATTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 9 0.45
21 2 0.10
22 9 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AATAATTTTAATAATTTTAAAA
Found at i:8391940 original size:20 final size:19
Alignment explanation
Indices: 8391890--8391945 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
8391880 AAGGATGATG
8391890 ATAATTTT--AATAATTTT
1 ATAATTTTAAAATAATTTT
8391907 AT-ATTTTAAAAAATAATTTT
1 ATAATTTT--AAAATAATTTT
*
8391927 AATAATTTTAAAATCATTT
1 -ATAATTTTAAAATAATTT
8391946 GTTGACGTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
16 5 0.16
17 2 0.06
20 18 0.56
21 2 0.06
22 5 0.16
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
ATAATTTTAAAATAATTTT
Found at i:8393980 original size:41 final size:40
Alignment explanation
Indices: 8393935--8394033 Score: 128
Period size: 41 Copynumber: 2.5 Consensus size: 40
8393925 AATTTATTTT
*
8393935 TAATTTATTAAATTTATTCAAAATTCTTTATTCTATCTAC-A
1 TAATTTATTAAATTTATTCAAAATTCTCTATT-TATCT-CGA
** *
8393976 TAATTTATTAAATTTATTTGAAATTCTCTATTTATCTCGT
1 TAATTTATTAAATTTATTCAAAATTCTCTATTTATCTCGA
*
8394016 TAAATTATTAAATTTATT
1 TAATTTATTAAATTTATT
8394034 TGAAATTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
39 1 0.02
40 22 0.42
41 29 0.56
ACGTcount: A:0.35, C:0.09, G:0.02, T:0.54
Consensus pattern (40 bp):
TAATTTATTAAATTTATTCAAAATTCTCTATTTATCTCGA
Found at i:8394024 original size:40 final size:41
Alignment explanation
Indices: 8393934--8394040 Score: 146
Period size: 40 Copynumber: 2.6 Consensus size: 41
8393924 CAATTTATTT
** *
8393934 TTAATTTATTAAATTTATTCAAAATTCTTTATTCTATCTAC
1 TTAATTTATTAAATTTATTTGAAATTCTCTATTCTATCTAC
*
8393975 ATAATTTATTAAATTTATTTGAAATTCTCTATT-TATCT-C
1 TTAATTTATTAAATTTATTTGAAATTCTCTATTCTATCTAC
*
8394014 GTTAAATTATTAAATTTATTTGAAATT
1 -TTAATTTATTAAATTTATTTGAAATT
8394041 ATTTAGTCCT
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 1 0.02
40 29 0.49
41 29 0.49
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (41 bp):
TTAATTTATTAAATTTATTTGAAATTCTCTATTCTATCTAC
Found at i:8396670 original size:27 final size:27
Alignment explanation
Indices: 8396622--8396695 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
8396612 TTCAGGTCTG
*
8396622 AATT-GCTCACACAAGTTATAACATATT
1 AATTAGCTCACACAAGTTGTAACATA-T
* *
8396649 ATTTA-CTCACACAAGCTGTAACATAT
1 AATTAGCTCACACAAGTTGTAACATAT
8396675 AATTAGCTCACACAAGTTGTA
1 AATTAGCTCACACAAGTTGTA
8396696 TAATTCAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 5 0.12
27 35 0.88
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTAGCTCACACAAGTTGTAACATAT
Found at i:8397933 original size:39 final size:39
Alignment explanation
Indices: 8397879--8397953 Score: 150
Period size: 39 Copynumber: 1.9 Consensus size: 39
8397869 CTTGACCTCT
8397879 CTTCAATGGTGGAATCGACTGAGGAAGAAAATAAAATGA
1 CTTCAATGGTGGAATCGACTGAGGAAGAAAATAAAATGA
8397918 CTTCAATGGTGGAATCGACTGAGGAAGAAAATAAAA
1 CTTCAATGGTGGAATCGACTGAGGAAGAAAATAAAA
8397954 ATGAAGATAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.44, C:0.11, G:0.25, T:0.20
Consensus pattern (39 bp):
CTTCAATGGTGGAATCGACTGAGGAAGAAAATAAAATGA
Found at i:8401597 original size:21 final size:21
Alignment explanation
Indices: 8401567--8401606 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
8401557 TGGGCTTGCG
*
8401567 GGAGATAAAGG-ATTTGATTGA
1 GGAGACAAAGGTA-TTGATTGA
8401588 GGAGACAAAGGTATTGATT
1 GGAGACAAAGGTATTGATT
8401607 TACGTAACTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.38, C:0.03, G:0.33, T:0.28
Consensus pattern (21 bp):
GGAGACAAAGGTATTGATTGA
Found at i:8413486 original size:21 final size:21
Alignment explanation
Indices: 8413462--8413512 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
8413452 AGATGTGATT
*
8413462 GACTGGATTGATAGTACTTCA
1 GACTGGATCGATAGTACTTCA
8413483 GACTGGATCGATAGTACTTCA
1 GACTGGATCGATAGTACTTCA
8413504 GACTGGATC
1 GACTGGATC
8413513 TAAGAAGAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (21 bp):
GACTGGATCGATAGTACTTCA
Found at i:8415016 original size:30 final size:29
Alignment explanation
Indices: 8414982--8415046 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
8414972 TAAATGAATT
8414982 TAAAATTATTAAAATTATTTTTTTGAAATA
1 TAAAATTATT-AAATTATTTTTTTGAAATA
* *
8415012 TAAAACTATTATATTATTTTTTTGAAATA
1 TAAAATTATTAAATTATTTTTTTGAAATA
8415041 TAAAAT
1 TAAAAT
8415047 AATTGTTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAATTATTTTTTTGAAATA
Found at i:8415926 original size:38 final size:38
Alignment explanation
Indices: 8415884--8415957 Score: 114
Period size: 38 Copynumber: 1.9 Consensus size: 38
8415874 AAGAAGACAA
8415884 AATAATTTTATATTTTAAAAAAATA-TTATAATAATTAT
1 AATAATTTTATA-TTTAAAAAAATAGTTATAATAATTAT
* *
8415922 AATAATTTTATATTTCAAAAAATAGTTTTAATAATT
1 AATAATTTTATATTTAAAAAAATAGTTATAATAATT
8415958 TTAAAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 11 0.33
38 22 0.67
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (38 bp):
AATAATTTTATATTTAAAAAAATAGTTATAATAATTAT
Found at i:8417491 original size:17 final size:18
Alignment explanation
Indices: 8417465--8417498 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
8417455 TTTTTTCCCT
*
8417465 TTCCCTTTCC-CTTTCCA
1 TTCCCATTCCTCTTTCCA
8417482 TTCCCATTCCTCTTTCC
1 TTCCCATTCCTCTTTCC
8417499 TTTTCCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.06, C:0.47, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCCCATTCCTCTTTCCA
Found at i:8417501 original size:5 final size:6
Alignment explanation
Indices: 8417458--8417515 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
8417448 TTTTTTCTTT
* * *
8417458 TTTCCC TTTCCC TTTCCC TTT-CC ATTCCC ATTCCTC TTTCCT TTTCCC
1 TTTCCC TTTCCC TTTCCC TTTCCC TTTCCC TTTCC-C TTTCCC TTTCCC
*
8417506 TTTCCA TTTC
1 TTTCCC TTTC
8417516 ACGTTTTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 4 0.09
6 36 0.80
7 5 0.11
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.52
Consensus pattern (6 bp):
TTTCCC
Found at i:8418729 original size:3 final size:3
Alignment explanation
Indices: 8418721--8418748 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8418711 CTTAAGTACC
8418721 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8418749 TACGGTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:8425910 original size:19 final size:19
Alignment explanation
Indices: 8425877--8425915 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
8425867 TTCAAAATAT
*
8425877 TAAAATTTATAAAAAGTTA
1 TAAAATTTATAAAAAATTA
8425896 TAAAA-TTATAAAAAAATTA
1 TAAAATTTAT-AAAAAATTA
8425915 T
1 T
8425916 TTATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
TAAAATTTATAAAAAATTA
Found at i:8425990 original size:18 final size:18
Alignment explanation
Indices: 8425965--8426018 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 18
8425955 TAATCACAAA
8425965 ATTAAAAATTAAAAATATT
1 ATTAAAAATTAAAAA-ATT
*
8425984 A-TAAAAACTAAAACAATT
1 ATTAAAAATTAAAA-AATT
8426002 ATTTAAAAATTATAAAA
1 A-TTAAAAATTA-AAAA
8426019 GAAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 9 0.31
21 3 0.10
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (18 bp):
ATTAAAAATTAAAAAATT
Found at i:8426385 original size:3 final size:3
Alignment explanation
Indices: 8426377--8426438 Score: 115
Period size: 3 Copynumber: 20.7 Consensus size: 3
8426367 CATTTAACCC
8426377 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
8426425 TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TA
8426439 ACAACAAGTA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8428641 original size:12 final size:12
Alignment explanation
Indices: 8428624--8428667 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
8428614 GGCACATTTT
8428624 CTTGCATGTTTA
1 CTTGCATGTTTA
8428636 CTTGCATGCTTAATA
1 CTTGCATG-TT--TA
8428651 C-TGCATGTTTA
1 CTTGCATGTTTA
8428662 CTTGCA
1 CTTGCA
8428668 GTAAACTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.11
12 12 0.43
13 4 0.14
14 6 0.21
15 3 0.11
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (12 bp):
CTTGCATGTTTA
Found at i:8430210 original size:46 final size:44
Alignment explanation
Indices: 8430130--8430215 Score: 109
Period size: 46 Copynumber: 1.9 Consensus size: 44
8430120 ATCATTACAT
*
8430130 TCAACCAAACATAAAAATACTATTACAATTCTATTCCATTCCAA
1 TCAACCAAACATAAAAATACTATTACAATCCTATTCCATTCCAA
** * *
8430174 TCAACCAAACAATTGAATTACTGATTACAGTCCTATTCCATT
1 TCAACCAAAC-ATAAAAATACT-ATTACAATCCTATTCCATT
8430216 ACAGCTCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 10 0.29
45 8 0.23
46 17 0.49
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.31
Consensus pattern (44 bp):
TCAACCAAACATAAAAATACTATTACAATCCTATTCCATTCCAA
Found at i:8430218 original size:16 final size:16
Alignment explanation
Indices: 8430197--8430248 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
8430187 TGAATTACTG
8430197 ATTACAGTCCTATTCC
1 ATTACAGTCCTATTCC
8430213 ATTACAG-CTCTATTCC
1 ATTACAGTC-CTATTCC
* *
8430229 ATTACATTCCTATTTC
1 ATTACAGTCCTATTCC
8430245 ATTA
1 ATTA
8430249 TAACGAACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 1 0.03
16 30 0.94
17 1 0.03
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAGTCCTATTCC
Found at i:8435531 original size:17 final size:17
Alignment explanation
Indices: 8435481--8435536 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
8435471 AAGAATATTA
* *
8435481 AAATGGTAAAAAATTAT
1 AAATAGTAAAAAAATAT
* *
8435498 AAATAATTATTAAAAATAT
1 AAAT-AGTA-AAAAAATAT
8435517 AAATAGTAAAAAAATAT
1 AAATAGTAAAAAAATAT
8435534 AAA
1 AAA
8435537 ATCCTTAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 15 0.48
18 5 0.16
19 11 0.35
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AAATAGTAAAAAAATAT
Found at i:8436344 original size:19 final size:20
Alignment explanation
Indices: 8436320--8436359 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
8436310 GGACAATCTT
8436320 TTGTCCAGGTTCATTC-AGA
1 TTGTCCAGGTTCATTCTAGA
8436339 TTGTCCAGGTTCATTCTAGA
1 TTGTCCAGGTTCATTCTAGA
8436359 T
1 T
8436360 GTAAATGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGTCCAGGTTCATTCTAGA
Found at i:8437732 original size:31 final size:30
Alignment explanation
Indices: 8437693--8437767 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 30
8437683 TAATTTTGTA
*
8437693 TTTA-GGACTAAATTAGAATTTTTTATGAA-
1 TTTAGGGACTAAATTAGAA-ATTTTATGAAG
* *
8437722 TCTTAGGGACTAATTTGGAAATTTTATGAAG
1 T-TTAGGGACTAAATTAGAAATTTTATGAAG
*
8437753 TTTAGGGACTTAATT
1 TTTAGGGACTAAATT
8437768 GAGCTTTGAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
29 1 0.03
30 24 0.63
31 13 0.34
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (30 bp):
TTTAGGGACTAAATTAGAAATTTTATGAAG
Found at i:8440422 original size:18 final size:19
Alignment explanation
Indices: 8440374--8440424 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
8440364 TACAAAATAA
8440374 TCAAAATAATTT-TAAAAAG
1 TCAAAAT-ATTTATAAAAAG
*
8440393 TCAAAATATTTATAAAAAT
1 TCAAAATATTTATAAAAAG
*
8440412 TCCAAAT-TTTATA
1 TCAAAATATTTATA
8440425 TTTTATAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.37
Consensus pattern (19 bp):
TCAAAATATTTATAAAAAG
Found at i:8445756 original size:17 final size:17
Alignment explanation
Indices: 8445703--8445762 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
8445693 TTAGTCACTC
*
8445703 TAATATTAAATT-AATA
1 TAATATTAAATTAAATT
8445719 TAATACTT--ATTAAGA-T
1 TAATA-TTAAATTAA-ATT
*
8445735 AAATATTAAATTAAATT
1 TAATATTAAATTAAATT
8445752 TAATATTAAAT
1 TAATATTAAAT
8445763 CTTATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 11
0.71 0.06 0.22
Matches are distributed among these distances:
15 5 0.14
16 11 0.31
17 19 0.54
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TAATATTAAATTAAATT
Found at i:8445812 original size:61 final size:59
Alignment explanation
Indices: 8445706--8445821 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 59
8445696 GTCACTCTAA
* * *
8445706 TATTAAATTAATATAATACTTATTAAGATAAATATTAAATTAAATTTAATATTAAATCT
1 TATTAAATTAATAGAATACTTATTAAAATAAACATTAAATTAAATTTAATATTAAATCT
8445765 TATTAAATTAATAGAATA-TTATCTACAAAGTAAACATTAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATACTTAT-TA-AAA-TAAACATTAAATTAAATTTAATATTAA
8445822 TATAATCACT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 4 0.08
59 19 0.37
60 2 0.04
61 26 0.51
ACGTcount: A:0.52, C:0.04, G:0.03, T:0.41
Consensus pattern (59 bp):
TATTAAATTAATAGAATACTTATTAAAATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:8457544 original size:5 final size:5
Alignment explanation
Indices: 8457534--8457566 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
8457524 AAGGTCATAA
8457534 CAATG CAATG CAATG CAATG CAATG CAATG CAA
1 CAATG CAATG CAATG CAATG CAATG CAATG CAA
8457567 ATGTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.18
Consensus pattern (5 bp):
CAATG
Found at i:8462084 original size:13 final size:13
Alignment explanation
Indices: 8462061--8462085 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8462051 GATAATATAG
8462061 ACTGAAAATACAC
1 ACTGAAAATACAC
8462074 ACTGAAAATACA
1 ACTGAAAATACA
8462086 GAGTGCAAGA
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:0.56, C:0.20, G:0.08, T:0.16
Consensus pattern (13 bp):
ACTGAAAATACAC
Found at i:8464716 original size:41 final size:41
Alignment explanation
Indices: 8464641--8464718 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
8464631 GCTTATTATA
* *
8464641 TTTTCAATTTGTTTGTTATTTTACGAATTGTTTTAATTTCG
1 TTTTCAATTTGTTTGTTATTTTAAGAATTATTTTAATTTCG
* * * *
8464682 TTTTTAATTTGTTTGTTGTTTTAATATTTATTTTAAT
1 TTTTCAATTTGTTTGTTATTTTAAGAATTATTTTAAT
8464719 ATTTTTAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.21, C:0.04, G:0.10, T:0.65
Consensus pattern (41 bp):
TTTTCAATTTGTTTGTTATTTTAAGAATTATTTTAATTTCG
Found at i:8470843 original size:20 final size:19
Alignment explanation
Indices: 8470817--8470868 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
8470807 TTGTTATATA
8470817 TATAATTTTTAGAATTTTT
1 TATAATTTTTAGAATTTTT
* *
8470836 TAATAATTATTAATAATTTTT
1 T-ATAATT-TTTAGAATTTTT
8470857 TATAATCTTTTA
1 TATAAT-TTTTA
8470869 CAGTTTTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 12 0.44
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TATAATTTTTAGAATTTTT
Found at i:8470861 original size:10 final size:10
Alignment explanation
Indices: 8470817--8470868 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
8470807 TTGTTATATA
8470817 TATAA-TTTT
1 TATAATTTTT
*
8470826 TAGAATTTTT
1 TATAATTTTT
*
8470836 TAATAATTATT
1 T-ATAATTTTT
*
8470847 AATAATTTTT
1 TATAATTTTT
*
8470857 TATAATCTTT
1 TATAATTTTT
8470867 TA
1 TA
8470869 CAGTTTTGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 4 0.12
10 23 0.68
11 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
TATAATTTTT
Found at i:8473529 original size:19 final size:20
Alignment explanation
Indices: 8473486--8473529 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
8473476 TTGGAAAATG
* *
8473486 ATTTTTGTAAAATAATTTAT
1 ATTTTTGGAAAATAATTAAT
*
8473506 TTTTTTGGAAAA-AATTAAT
1 ATTTTTGGAAAATAATTAAT
8473525 ATTTT
1 ATTTT
8473530 CTGATGTTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.55
Consensus pattern (20 bp):
ATTTTTGGAAAATAATTAAT
Found at i:8477714 original size:18 final size:18
Alignment explanation
Indices: 8477691--8477729 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8477681 TGAAAAAGAT
*
8477691 AAAGAAGGATTAAAT-TGA
1 AAAGAA-GATAAAATCTGA
8477709 AAAGAAGATAAAATCTGA
1 AAAGAAGATAAAATCTGA
8477727 AAA
1 AAA
8477730 AAAAATATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (18 bp):
AAAGAAGATAAAATCTGA
Found at i:8478193 original size:42 final size:41
Alignment explanation
Indices: 8478147--8478228 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 41
8478137 TAAAGTTGAC
* * *
8478147 GTGATTAAATTATTAGGAGTAATATTAAAATTTAAAGAAATA
1 GTGATTAAATTATAAGAAATAATATTAAAATTTAAA-AAATA
** *
8478189 GTGATTTGATTATAAGAAATAATATTAGAATTTAAAAAAT
1 GTGATTAAATTATAAGAAATAATATTAAAATTTAAAAAAT
8478229 GGTAAAGTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (41 bp):
GTGATTAAATTATAAGAAATAATATTAAAATTTAAAAAATA
Found at i:8480476 original size:79 final size:79
Alignment explanation
Indices: 8480345--8480503 Score: 318
Period size: 79 Copynumber: 2.0 Consensus size: 79
8480335 AATAATAACA
8480345 TGGTTCTACCTTCTAGTTCTCAAATAGAGAATGATGAAATAGACTCAACACCAATAGGAATGAAA
1 TGGTTCTACCTTCTAGTTCTCAAATAGAGAATGATGAAATAGACTCAACACCAATAGGAATGAAA
8480410 ACAGTTCATATTCT
66 ACAGTTCATATTCT
8480424 TGGTTCTACCTTCTAGTTCTCAAATAGAGAATGATGAAATAGACTCAACACCAATAGGAATGAAA
1 TGGTTCTACCTTCTAGTTCTCAAATAGAGAATGATGAAATAGACTCAACACCAATAGGAATGAAA
8480489 ACAGTTCATATTCT
66 ACAGTTCATATTCT
8480503 T
1 T
8480504 ATATTTCCTA
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 80 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.30
Consensus pattern (79 bp):
TGGTTCTACCTTCTAGTTCTCAAATAGAGAATGATGAAATAGACTCAACACCAATAGGAATGAAA
ACAGTTCATATTCT
Found at i:8502675 original size:82 final size:82
Alignment explanation
Indices: 8502538--8502692 Score: 310
Period size: 82 Copynumber: 1.9 Consensus size: 82
8502528 CGGATGCCTC
8502538 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
1 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
8502603 TAAGCATGAATTTTTAT
66 TAAGCATGAATTTTTAT
8502620 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
1 CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
8502685 TAAGCATG
66 TAAGCATG
8502693 GATATTGTCA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 73 1.00
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.39
Consensus pattern (82 bp):
CAGATAACTCTGCCATCACTTCATTTTGTTGAAGTCTGACACCTGGCAATGCTTTTCTTTGTTGA
TAAGCATGAATTTTTAT
Found at i:8511210 original size:82 final size:83
Alignment explanation
Indices: 8511059--8511274 Score: 260
Period size: 82 Copynumber: 2.6 Consensus size: 83
8511049 ACTTGATGTA
* *
8511059 TAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGAGTCGAA
1 TAAA-GGAAGACTCATGTCTCGGAATGAGCATGAGATTATATGAAAGGAAGACTCGTGAGTCGAA
8511124 ATGAGCATGAAATTATA-T
65 ATGAGCATGAAATTATATT
**
8511142 TAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATATGAAAGGAAGACTCGTGTA-TC-AG
1 TAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATATGAAAGGAAGACTCGTG-AGTCGA-
* *
8511205 GATGAGCATGAGATTATATT
64 AATGAGCATGAAATTATATT
* * * * * * *
8511225 TAAAGGAAGACTTATGACTCGGTA-GAGCATAAGATTGTTTAAAAGGAAGA
1 TAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATATGAAAGGAAGA
8511275 TCTACGACTC
Statistics
Matches: 116, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
81 1 0.01
82 89 0.77
83 26 0.22
ACGTcount: A:0.38, C:0.10, G:0.26, T:0.26
Consensus pattern (83 bp):
TAAAGGAAGACTCATGTCTCGGAATGAGCATGAGATTATATGAAAGGAAGACTCGTGAGTCGAAA
TGAGCATGAAATTATATT
Found at i:8511253 original size:41 final size:41
Alignment explanation
Indices: 8511059--8511287 Score: 216
Period size: 41 Copynumber: 5.6 Consensus size: 41
8511049 ACTTGATGTA
* **
8511059 TAAATGGAAGACTCATGTCTCGAAATGAGCATGAGATTATAT
1 TAAA-GGAAGACTCATGACTCGGTATGAGCATGAGATTATAT
* * ** *
8511101 TAAAGGAAGACTCGTGAGTCGAAATGAGCATGAAATTATAT
1 TAAAGGAAGACTCATGACTCGGTATGAGCATGAGATTATAT
* **
8511142 TAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGACTCGGTATGAGCATGAGATTATAT
* *
8511183 GAAAGGAAGACTCGTGTA-TCAGG-ATGAGCATGAGATTATATT
1 TAAAGGAAGACTCATG-ACTC-GGTATGAGCATGAGATTATA-T
* * *
8511225 TAAAGGAAGACTTATGACTCGGTA-GAGCATAAGATTGT-T
1 TAAAGGAAGACTCATGACTCGGTATGAGCATGAGATTATAT
*
8511264 TAAAAGGAAGA-TCTACGACTCGGT
1 T-AAAGGAAGACTC-ATGACTCGGT
8511288 TGTTAAATGT
Statistics
Matches: 158, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.02
40 18 0.11
41 114 0.72
42 23 0.15
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (41 bp):
TAAAGGAAGACTCATGACTCGGTATGAGCATGAGATTATAT
Found at i:8511284 original size:40 final size:41
Alignment explanation
Indices: 8511208--8511287 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
8511198 GTATCAGGAT
* * *
8511208 GAGCATGAGATTATATTTAAAGGAAGACTTATGACTCGGTA
1 GAGCATAAGATTATATTAAAAGGAAGACTTACGACTCGGTA
*
8511249 GAGCATAAGATTGT-TTAAAAGGAAGA-TCTACGACTCGGT
1 GAGCATAAGATTATATTAAAAGGAAGACT-TACGACTCGGT
8511288 TGTTAAATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.03
40 21 0.62
41 12 0.35
ACGTcount: A:0.36, C:0.11, G:0.25, T:0.28
Consensus pattern (41 bp):
GAGCATAAGATTATATTAAAAGGAAGACTTACGACTCGGTA
Found at i:8515486 original size:24 final size:24
Alignment explanation
Indices: 8515450--8515555 Score: 117
Period size: 23 Copynumber: 4.5 Consensus size: 24
8515440 TTTAGTTAAC
* *
8515450 ATAAATGACCATGTTCGCGAACAT
1 ATAAACGAACATGTTCGCGAACAT
* *
8515474 ATAAACGAACATGTTCACAAACAT
1 ATAAACGAACATGTTCGCGAACAT
* * *
8515498 -TAAACAAACATGTTCGTGAACGT
1 ATAAACGAACATGTTCGCGAACAT
*
8515521 -TAAACAAACATGTTCGCGAACAT
1 ATAAACGAACATGTTCGCGAACAT
*
8515544 ATAAATGAACAT
1 ATAAACGAACAT
8515556 TAACTGAACA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 39 0.57
24 29 0.43
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (24 bp):
ATAAACGAACATGTTCGCGAACAT
Found at i:8515555 original size:58 final size:58
Alignment explanation
Indices: 8515493--8515613 Score: 172
Period size: 58 Copynumber: 2.1 Consensus size: 58
8515483 CATGTTCACA
** * * *
8515493 AACATTAAAC-AAACATGTTCGTGAACGTTAAACAAACATGTTCGCGAACATATAAATG
1 AACATT-AACTAAACATGTTCGCAAACATTAAACAAACATGTTCACGAACATATAAACG
*
8515551 AACATTAACTGAACATGTTCGCAAACATTAAACAAACATGTTCACGAACATATAAACG
1 AACATTAACTAAACATGTTCGCAAACATTAAACAAACATGTTCACGAACATATAAACG
8515609 AACAT
1 AACAT
8515614 GTTCGCGAAC
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 3 0.05
58 53 0.95
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (58 bp):
AACATTAACTAAACATGTTCGCAAACATTAAACAAACATGTTCACGAACATATAAACG
Found at i:8515638 original size:23 final size:23
Alignment explanation
Indices: 8515550--8515656 Score: 110
Period size: 23 Copynumber: 4.6 Consensus size: 23
8515540 ACATATAAAT
8515550 GAACATT-AACTGAACATGTTCGC
1 GAACATTAAAC-GAACATGTTCGC
* * *
8515573 AAACATTAAACAAACATGTTCAC
1 GAACATTAAACGAACATGTTCGC
8515596 GAACATATAAACGAACATGTTCGC
1 GAACAT-TAAACGAACATGTTCGC
* * * *
8515620 GAACATTACACGAATATGTTTGT
1 GAACATTAAACGAACATGTTCGC
8515643 GAACGA-TAAACGAA
1 GAAC-ATTAAACGAA
8515657 TGAGCACGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
23 45 0.64
24 25 0.36
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.23
Consensus pattern (23 bp):
GAACATTAAACGAACATGTTCGC
Found at i:8517999 original size:29 final size:29
Alignment explanation
Indices: 8517959--8518017 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
8517949 TTGTGGAAGA
* * *
8517959 GGTGGAGAACTTGTTTGTTGAGAGTTCGT
1 GGTGAAGAACTTGTTCGTAGAGAGTTCGT
*
8517988 GGTGAAGAACTTGTTCGTAGAGATTTCGT
1 GGTGAAGAACTTGTTCGTAGAGAGTTCGT
8518017 G
1 G
8518018 TCAAGGTGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.20, C:0.08, G:0.36, T:0.36
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCGTAGAGAGTTCGT
Found at i:8529605 original size:19 final size:19
Alignment explanation
Indices: 8529581--8529624 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
8529571 CAGGCCTAAA
8529581 TCAACATTCATCAACCAAT
1 TCAACATTCATCAACCAAT
8529600 TCAACATTCATCAACCAAT
1 TCAACATTCATCAACCAAT
8529619 TCAACA
1 TCAACA
8529625 ACAATCCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.43, C:0.32, G:0.00, T:0.25
Consensus pattern (19 bp):
TCAACATTCATCAACCAAT
Found at i:8531677 original size:29 final size:28
Alignment explanation
Indices: 8531607--8531938 Score: 240
Period size: 29 Copynumber: 11.4 Consensus size: 28
8531597 GGTTAAAACA
* *
8531607 TAATTTTAGAAAGTTTTAGGGGTAAAAATG
1 TAATTTTTGAAAG--TTCGGGGTAAAAATG
* ** *
8531637 TCACTTTGGGAAAGCTCGGGGTAAAAATG
1 T-AATTTTTGAAAGTTCGGGGTAAAAATG
* * * *
8531666 TAATTTTTGGAAGTTCAAGGATAAAAATA
1 TAATTTTTGAAAGTTC-GGGGTAAAAATG
* **
8531695 TAATTTTTGGAAATTTATGGGTAAAAATG
1 TAATTTTT-GAAAGTTCGGGGTAAAAATG
* *
8531724 TAATTTTTGAGAGTTTAGGGGTAAAAATG
1 TAATTTTTGAAAG-TTCGGGGTAAAAATG
* *
8531753 TAATTTTT-AGAAGTTTGAGTGT-AAAATG
1 TAATTTTTGA-AAGTTCG-GGGTAAAAATG
* * *
8531781 TAAATTTTTGGAAGTTTAGGGGTCAAAATG
1 T-AATTTTTGAAAG-TTCGGGGTAAAAATG
* * *
8531811 TGATTTTTGAAAGCTTTGGGGTAAAAATA
1 TAATTTTTGAAAG-TTCGGGGTAAAAATG
* * *
8531840 TAATTTTTGAAAATTCGAGAG-CAAAATG
1 TAATTTTTGAAAGTTCG-GGGTAAAAATG
*
8531868 TAAGTTTTGAGAAGTTCGGGGGTAAAAATG
1 TAATTTTTGA-AAGTTC-GGGGTAAAAATG
8531898 TAATTTTTGAGAAGTTCGAGGGT-AAAATG
1 TAATTTTTGA-AAGTTCG-GGGTAAAAATG
*
8531927 TAATTTTAGAAA
1 TAATTTTTGAAA
8531939 AGTTTAGAGG
Statistics
Matches: 241, Mismatches: 46, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
28 43 0.18
29 146 0.61
30 43 0.18
31 9 0.04
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (28 bp):
TAATTTTTGAAAGTTCGGGGTAAAAATG
Found at i:8531993 original size:30 final size:28
Alignment explanation
Indices: 8531573--8531985 Score: 146
Period size: 29 Copynumber: 14.2 Consensus size: 28
8531563 AACGACGTCG
* * *
8531573 AAAATG-AAGTTTCGAAGAGTTTAGGGTT
1 AAAATGTAATTTTAGAAAAGTTTAGGG-T
**
8531601 AAAACATAATTTTAG-AAAGTTTTAGGGGT
1 AAAATGTAATTTTAGAAAAG-TTTA-GGGT
* * * * * **
8531630 AAAAATGTCACTTTGGGAAAGCTCGGGGT
1 -AAAATGTAATTTTAGAAAAGTTTAGGGT
* * * *
8531659 AAAAATGTAATTTTTG-GAAGTTCAAGGAT
1 -AAAATGTAATTTTAGAAAAGTT-TAGGGT
* * *
8531688 AAAAATATAATTTTTGGAAA-TTTATGGGT
1 -AAAATGTAATTTTAGAAAAGTTTA-GGGT
* *
8531717 AAAAATGTAATTTTTG-AGAGTTTAGGGGT
1 -AAAATGTAATTTTAGAAAAGTTTA-GGGT
*
8531746 AAAAATGTAATTTTTAG--AAGTTTGAGTGT
1 -AAAATGTAA-TTTTAGAAAAGTTT-AGGGT
* *
8531775 AAAATGTAAATTTTTG-GAAGTTTAGGGGT
1 AAAATGT-AATTTTAGAAAAGTTTA-GGGT
* * *
8531804 CAAAATGTGATTTTTG-AAAGCTTTGGGGT
1 -AAAATGTAATTTTAGAAAAG-TTTAGGGT
* * * * *
8531833 AAAAATATAATTTTTGAAAA-TTCGAGAGC
1 -AAAATGTAATTTTAGAAAAGTT-TAGGGT
* **
8531862 AAAATGTAAGTTTT-GAGAAGTTCGGGGGT
1 AAAATGTAA-TTTTAGAAAAGTT-TAGGGT
* * *
8531891 AAAAATGTAATTTTTGAGAAGTTCGAGGGT
1 -AAAATGTAATTTTAGAAAAGTT-TAGGGT
8531921 AAAATGTAATTTTAGAAAAGTTTAGAGGTT
1 AAAATGTAATTTTAGAAAAGTTTAG-GG-T
* *
8531951 AAAATGCAATTTTGGAAAAGTTTAAGGGT
1 AAAATGTAATTTTAGAAAAGTTT-AGGGT
8531980 CAAAAT
1 -AAAAT
8531986 ATGATTTTTA
Statistics
Matches: 305, Mismatches: 54, Indels: 50
0.75 0.13 0.12
Matches are distributed among these distances:
28 43 0.14
29 169 0.55
30 87 0.29
31 6 0.02
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (28 bp):
AAAATGTAATTTTAGAAAAGTTTAGGGT
Found at i:8533306 original size:10 final size:10
Alignment explanation
Indices: 8533291--8533315 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
8533281 GTTTCAGAAT
8533291 AATAACAATA
1 AATAACAATA
8533301 AATAACAATA
1 AATAACAATA
8533311 AATAA
1 AATAA
8533316 AACTTATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (10 bp):
AATAACAATA
Found at i:8537815 original size:60 final size:59
Alignment explanation
Indices: 8537742--8537892 Score: 169
Period size: 60 Copynumber: 2.5 Consensus size: 59
8537732 TTTAAATTTA
* ** * *
8537742 ATTTTTTTATTAATTTGGTATCTAAATTTTTTGGGATTCAACTTGATACTTGAATTTGAT
1 ATTTTTTTATTAATTTGGTATCTAAATTTTTT-GGATCCAACTTGATAAATAAACTTGAT
* * *
8537802 ATTTTTTTTTTAATTTGGAATCTAAACTTTTTTGGATCCAATTTGATAAATAAACTTGAT
1 ATTTTTTTATTAATTTGGTATCTAAA-TTTTTTGGATCCAACTTGATAAATAAACTTGAT
** * *
8537862 A-TTTTTTCCTAATTTGGTATATAAGTTTTTT
1 ATTTTTTTATTAATTTGGTATCTAAATTTTTT
8537893 TTAGATTTAA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 6 0.08
59 19 0.25
60 46 0.60
61 6 0.08
ACGTcount: A:0.28, C:0.07, G:0.11, T:0.54
Consensus pattern (59 bp):
ATTTTTTTATTAATTTGGTATCTAAATTTTTTGGATCCAACTTGATAAATAAACTTGAT
Found at i:8538170 original size:32 final size:31
Alignment explanation
Indices: 8538125--8538213 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 31
8538115 TCCCAAAATT
*
8538125 TTTAAGTACCAAATTAAAAAAAAAGTGTTAAG
1 TTTAAGTACCAAATTAAAAAAAAA-TGTCAAG
* * *
8538157 TTTAAATATCAAATTAGGAAAAAAATGTCAAG
1 TTTAAGTACCAAATTA-AAAAAAAATGTCAAG
*
8538189 TTTGAGTACCAAATTGAAAAAAAAA
1 TTTAAGTACCAAATT-AAAAAAAAA
8538214 ATATCAAATT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
32 39 0.83
33 8 0.17
ACGTcount: A:0.54, C:0.07, G:0.12, T:0.27
Consensus pattern (31 bp):
TTTAAGTACCAAATTAAAAAAAAATGTCAAG
Found at i:8538232 original size:18 final size:18
Alignment explanation
Indices: 8538209--8538243 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8538199 AAATTGAAAA
8538209 AAAAAATATCAAATTAAG
1 AAAAAATATCAAATTAAG
* *
8538227 AAAAAATGTGAAATTAA
1 AAAAAATATCAAATTAA
8538244 AGTAACAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.23
Consensus pattern (18 bp):
AAAAAATATCAAATTAAG
Found at i:8540385 original size:24 final size:25
Alignment explanation
Indices: 8540272--8540382 Score: 75
Period size: 25 Copynumber: 4.3 Consensus size: 25
8540262 TTCAAAGGCA
*
8540272 AAAAGGATT-AATT-TAAAAAGGAAT
1 AAAAGGATTAAATTCT-AAAAGAAAT
* * *
8540296 AAAAGGATTTAATTAC-AAAAAAAAC
1 AAAAGGATTAAATT-CTAAAAGAAAT
* *
8540321 AAAAGGATTAAAATATAAAAGAAAT
1 AAAAGGATTAAATTCTAAAAGAAAT
* *
8540346 AGAATAAAAGAGTAAATTCTAAAAGAAAT
1 ---A-AAAGGATTAAATTCTAAAAGAAAT
8540375 AAAAGGAT
1 AAAAGGAT
8540383 AAACAAACTA
Statistics
Matches: 65, Mismatches: 14, Indels: 15
0.69 0.15 0.16
Matches are distributed among these distances:
24 9 0.14
25 34 0.52
26 1 0.02
28 1 0.02
29 20 0.31
ACGTcount: A:0.63, C:0.03, G:0.14, T:0.21
Consensus pattern (25 bp):
AAAAGGATTAAATTCTAAAAGAAAT
Found at i:8541371 original size:14 final size:15
Alignment explanation
Indices: 8541347--8541380 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8541337 TTTACATTTC
8541347 TTGTCTTTCTTCTAT
1 TTGTCTTTCTTCTAT
*
8541362 TTGT-TTTCTTCTCT
1 TTGTCTTTCTTCTAT
8541376 TTGTC
1 TTGTC
8541381 GTCTTTTTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.03, C:0.21, G:0.09, T:0.68
Consensus pattern (15 bp):
TTGTCTTTCTTCTAT
Found at i:8542716 original size:23 final size:23
Alignment explanation
Indices: 8542690--8542738 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
8542680 ATGAGTGAGA
* *
8542690 TTTGATT-GTTTACTTGTAATTTG
1 TTTGATTAG-TTAATTGTAAATTG
*
8542713 TTTGTTTAGTTAATTGTAAATTG
1 TTTGATTAGTTAATTGTAAATTG
8542736 TTT
1 TTT
8542739 TTTATTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (23 bp):
TTTGATTAGTTAATTGTAAATTG
Found at i:8560422 original size:36 final size:36
Alignment explanation
Indices: 8560375--8560455 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
8560365 AAGGAAGAAT
8560375 CAATTGCATTGCCCCTCCTCTAACCTTCTTGTGTAC
1 CAATTGCATTGCCCCTCCTCTAACCTTCTTGTGTAC
*
8560411 CAATTGCATTGCCCCTCCTCTAATCTTCTTGTGTAC
1 CAATTGCATTGCCCCTCCTCTAACCTTCTTGTGTAC
8560447 CAATTGCAT
1 CAATTGCAT
8560456 CCTCTTCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.19, C:0.33, G:0.11, T:0.37
Consensus pattern (36 bp):
CAATTGCATTGCCCCTCCTCTAACCTTCTTGTGTAC
Found at i:8567767 original size:28 final size:28
Alignment explanation
Indices: 8567726--8567782 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
8567716 TAATGTAATA
8567726 ATTGGTACCAGAGTTTAAAATAAATCTC
1 ATTGGTACCAGAGTTTAAAATAAATCTC
*
8567754 ATTGGTACCGGAGTTTAAAATAAATCTC
1 ATTGGTACCAGAGTTTAAAATAAATCTC
8567782 A
1 A
8567783 ACTTTAATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (28 bp):
ATTGGTACCAGAGTTTAAAATAAATCTC
Found at i:8569291 original size:23 final size:23
Alignment explanation
Indices: 8569261--8569322 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
8569251 CAACGATCAA
* *
8569261 CAATCAAAGTCAACGGTTC-AGTT
1 CAATCAAAGTCAACGATGCGA-TT
8569284 CAATCAAAGTCAACGATGCGATT
1 CAATCAAAGTCAACGATGCGATT
*
8569307 CAATCAAAGTTAACGA
1 CAATCAAAGTCAACGA
8569323 GTCAGGCTAG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
23 34 0.97
24 1 0.03
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (23 bp):
CAATCAAAGTCAACGATGCGATT
Found at i:8570641 original size:16 final size:15
Alignment explanation
Indices: 8570622--8570651 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
8570612 AATGTATTCG
8570622 AATCTAAATCAAAATA
1 AATCTAAA-CAAAATA
8570638 AATCTAAACAAAAT
1 AATCTAAACAAAAT
8570652 CCACAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (15 bp):
AATCTAAACAAAATA
Found at i:8570652 original size:21 final size:22
Alignment explanation
Indices: 8570627--8570684 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
8570617 ATTCGAATCT
8570627 AAATCAAAATAAATCTAAAC-A
1 AAATCAAAATAAATCTAAACTA
*
8570648 AAATCCACAAAT-AAT-TAAACTT
1 AAAT-CA-AAATAAATCTAAACTA
*
8570670 AAACCAAAATAAATC
1 AAATCAAAATAAATC
8570685 ACAAAAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
20 4 0.13
21 14 0.47
22 8 0.27
23 4 0.13
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATCAAAATAAATCTAAACTA
Found at i:8573387 original size:20 final size:21
Alignment explanation
Indices: 8573358--8573411 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
8573348 AAATTCTTAA
* *
8573358 AAATATTTTTTATA-ATTTTT
1 AAATAATTTTAATATATTTTT
8573378 AAATAATTTTAATATATTTTT
1 AAATAATTTTAATATATTTTT
*
8573399 AAA-ATTTTTAATA
1 AAATAATTTTAATA
8573412 GTTTTATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 21 0.70
21 9 0.30
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATAATTTTAATATATTTTT
Found at i:8573391 original size:29 final size:29
Alignment explanation
Indices: 8573359--8573417 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
8573349 AATTCTTAAA
*
8573359 AATAT-TTTTTATAATTTTTAAATAATTTT
1 AATATATTTTTAAAATTTTT-AATAATTTT
*
8573388 AATATATTTTTAAAATTTTTAATAGTTTT
1 AATATATTTTTAAAATTTTTAATAATTTT
8573417 A
1 A
8573418 TTTTTAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 14 0.52
30 13 0.48
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (29 bp):
AATATATTTTTAAAATTTTTAATAATTTT
Found at i:8573409 original size:9 final size:10
Alignment explanation
Indices: 8573358--8573409 Score: 54
Period size: 10 Copynumber: 5.2 Consensus size: 10
8573348 AAATTCTTAA
8573358 AAATATTTTT
1 AAATATTTTT
*
8573368 -TATAATTTTT
1 AAAT-ATTTTT
*
8573378 AAATAATTTT
1 AAATATTTTT
8573388 AATATATTTTT
1 AA-ATATTTTT
8573399 AAA-ATTTTT
1 AAATATTTTT
8573408 AA
1 AA
8573410 TAGTTTTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 10 0.29
10 14 0.40
11 11 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
AAATATTTTT
Found at i:8573431 original size:15 final size:16
Alignment explanation
Indices: 8573401--8573438 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
8573391 ATATTTTTAA
8573401 AATTTTTAATAGTTTT
1 AATTTTTAATAGTTTT
**
8573417 -ATTTTTAATTTTTTT
1 AATTTTTAATAGTTTT
8573432 AATTTTT
1 AATTTTT
8573439 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (16 bp):
AATTTTTAATAGTTTT
Found at i:8578178 original size:22 final size:20
Alignment explanation
Indices: 8578153--8578207 Score: 56
Period size: 22 Copynumber: 2.6 Consensus size: 20
8578143 TTTTTTATAT
8578153 ATTTAAAATTTAATTTTCAAGA
1 ATTTAAAATTTAATTTT-AA-A
** *
8578175 ATTTAATTTTTTATTTTAAA
1 ATTTAAAATTTAATTTTAAA
8578195 ATTTTAAAATTTA
1 A-TTTAAAATTTA
8578208 TATCCAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
20 2 0.08
21 10 0.38
22 14 0.54
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTAAAATTTAATTTTAAA
Found at i:8585259 original size:17 final size:16
Alignment explanation
Indices: 8585237--8585270 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
8585227 TTTTTTAAAA
*
8585237 AATATTTATATTATTTT
1 AATATTTA-ATAATTTT
8585254 AATATTTAATAATTTT
1 AATATTTAATAATTTT
8585270 A
1 A
8585271 TACTTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATATTTAATAATTTT
Found at i:8585767 original size:2 final size:2
Alignment explanation
Indices: 8585760--8585802 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
8585750 CTACTAATTA
8585760 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8585801 AT
1 AT
8585803 TGGTGAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8589861 original size:23 final size:23
Alignment explanation
Indices: 8589797--8589861 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
8589787 AACTCTCTGT
* *
8589797 AAAGCCTTTGTGGCATATTTTGT
1 AAAGCCTTTGTGGCATATTTCGC
* * **
8589820 GAAG-GTTGTGTGGTGTATTTCGC
1 AAAGCCTT-TGTGGCATATTTCGC
8589843 AAAGCCTTTGTGGCATATT
1 AAAGCCTTTGTGGCATATT
8589862 CGGTAGTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
22 2 0.07
23 26 0.87
24 2 0.07
ACGTcount: A:0.20, C:0.12, G:0.28, T:0.40
Consensus pattern (23 bp):
AAAGCCTTTGTGGCATATTTCGC
Done.