Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 29 of 141
Found at i:9647616 original size:10 final size:9
Alignment explanation
Indices: 9647586--9647677 Score: 55
Period size: 9 Copynumber: 10.0 Consensus size: 9
9647576 TTTGAATTTT
9647586 TTTTTATAA
1 TTTTTATAA
* *
9647595 ATTTTA-ATT
1 TTTTTATA-A
9647604 TTTTTATAA
1 TTTTTATAA
9647613 TTTTTATGAA
1 TTTTTAT-AA
9647623 TTTTTATAA
1 TTTTTATAA
**
9647632 --TACATAA
1 TTTTTATAA
*
9647639 GTTTTTATGAT
1 -TTTTTAT-AA
*
9647650 TTTTTTTATA
1 TTTTTATA-A
*
9647660 TTTTTATAC
1 TTTTTATAA
9647669 TTTTTATAA
1 TTTTTATAA
9647678 GTGTGAAAAT
Statistics
Matches: 61, Mismatches: 14, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
7 5 0.08
8 1 0.02
9 28 0.46
10 26 0.43
11 1 0.02
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:9649305 original size:18 final size:17
Alignment explanation
Indices: 9649284--9649345 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 17
9649274 TTTTGGTTAA
*
9649284 AAATTAACCGAATTACC
1 AAATTAATCGAATTACC
9649301 TAAATTAATCGAATTAACC
1 -AAATTAATCGAATT-ACC
*
9649320 GAATTAATCGAATTAACC
1 AAATTAATCGAATT-ACC
*
9649338 GAATTAAT
1 AAATTAAT
9649346 TGAAGTGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
18 38 0.93
19 3 0.07
ACGTcount: A:0.47, C:0.16, G:0.08, T:0.29
Consensus pattern (17 bp):
AAATTAATCGAATTACC
Found at i:9649315 original size:9 final size:9
Alignment explanation
Indices: 9649303--9649345 Score: 68
Period size: 9 Copynumber: 4.8 Consensus size: 9
9649293 GAATTACCTA
9649303 AATTAATCG
1 AATTAATCG
*
9649312 AATTAACCG
1 AATTAATCG
9649321 AATTAATCG
1 AATTAATCG
*
9649330 AATTAACCG
1 AATTAATCG
9649339 AATTAAT
1 AATTAAT
9649346 TGAAGTGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (9 bp):
AATTAATCG
Found at i:9649333 original size:27 final size:27
Alignment explanation
Indices: 9649285--9649344 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
9649275 TTTGGTTAAA
*
9649285 AATTAACCGAATTACCTAAATTAATCG
1 AATTAACCGAATTACCTAAATTAACCG
* *
9649312 AATTAACCGAATTA-ATCGAATTAACCG
1 AATTAACCGAATTACCT-AAATTAACCG
9649339 AATTAA
1 AATTAA
9649345 TTGAAGTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTAACCGAATTACCTAAATTAACCG
Found at i:9649496 original size:18 final size:18
Alignment explanation
Indices: 9649473--9649544 Score: 99
Period size: 18 Copynumber: 3.9 Consensus size: 18
9649463 AATTTTTATG
9649473 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
9649491 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGGGTA
* *
9649509 ATTGGGCTGGGTTGGATA
1 ATTGGGTTGGGTTGGGTA
* *
9649527 CTTGGGTTTGGATTGGGT
1 ATTGGG-TTGGGTTGGGT
9649545 TTAGGTGAAT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
18 39 0.83
19 8 0.17
ACGTcount: A:0.11, C:0.03, G:0.47, T:0.39
Consensus pattern (18 bp):
ATTGGGTTGGGTTGGGTA
Found at i:9652573 original size:20 final size:20
Alignment explanation
Indices: 9652550--9652606 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
9652540 TAATTTATCC
9652550 ATTTTAATTTTAATTTTAAT
1 ATTTTAATTTTAATTTTAAT
** *
9652570 ATTTTTGTTTTAAATTTAAT
1 ATTTTAATTTTAATTTTAAT
*
9652590 -TTTTACATTCTAATTTT
1 ATTTTA-ATTTTAATTTT
9652607 TCTTTAGTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
ATTTTAATTTTAATTTTAAT
Found at i:9652606 original size:26 final size:26
Alignment explanation
Indices: 9652550--9652606 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
9652540 TAATTTATCC
* * * *
9652550 ATTTTAATTTTAATTTTAATATTTTT
1 ATTTTAAATTTAATTTTAACATTCTA
* *
9652576 GTTTTAAATTTAATTTTTACATTCTA
1 ATTTTAAATTTAATTTTAACATTCTA
9652602 ATTTT
1 ATTTT
9652607 TCTTTAGTTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.65
Consensus pattern (26 bp):
ATTTTAAATTTAATTTTAACATTCTA
Found at i:9656158 original size:40 final size:40
Alignment explanation
Indices: 9656106--9656302 Score: 214
Period size: 40 Copynumber: 4.9 Consensus size: 40
9656096 AAGGCGATAA
* * *
9656106 CACATACATTTCAGTGGAATCGGTAGGTATAGCTCGAAAG
1 CACATACATTTCAGTAGATTCAGTAGGTATAGCTCGAAAG
* * * *
9656146 CGCATACGTTTCAGTAGATTCAGTAAGTATGGCTCGAAAG
1 CACATACATTTCAGTAGATTCAGTAGGTATAGCTCGAAAG
* * * * *
9656186 CACATACATTTCAGTGGATTCAGTAGCTGTGGTTCGAAAAG
1 CACATACATTTCAGTAGATTCAGTAGGTATAGCTCG-AAAG
* *
9656227 CACATACATTTTAGTAGATTCAGTAGGTATAGCTCAAAAG
1 CACATACATTTCAGTAGATTCAGTAGGTATAGCTCGAAAG
* * * * *
9656267 AATATACATTTCAGTAGATTCAATAGATATCGCTCG
1 CACATACATTTCAGTAGATTCAGTAGGTATAGCTCG
9656303 TCTGAGCACC
Statistics
Matches: 128, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
40 95 0.74
41 33 0.26
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (40 bp):
CACATACATTTCAGTAGATTCAGTAGGTATAGCTCGAAAG
Found at i:9656274 original size:81 final size:80
Alignment explanation
Indices: 9656107--9656302 Score: 221
Period size: 81 Copynumber: 2.4 Consensus size: 80
9656097 AGGCGATAAC
* * * * *
9656107 ACATACATTTCAGTGGAATCGGTAGGTATAGCTCGAAAGCGCATACGTTTCAGTAGATTCAGTAA
1 ACATACATTTCAGTGGATTCAGTAGCTATAGCTCGAAAGCACATACATTTCAGTAGATTCAGTAA
* * *
9656172 GTATGGCTCGAAAGC
66 GTATAGCTCAAAAGA
* * * *
9656187 ACATACATTTCAGTGGATTCAGTAGCTGTGGTTCGAAAAGCACATACATTTTAGTAGATTCAGTA
1 ACATACATTTCAGTGGATTCAGTAGCTATAGCTCG-AAAGCACATACATTTCAGTAGATTCAGTA
*
9656252 GGTATAGCTCAAAAGA
65 AGTATAGCTCAAAAGA
* * * * *
9656268 ATATACATTTCAGTAGATTCAATAGATATCGCTCG
1 ACATACATTTCAGTGGATTCAGTAGCTATAGCTCG
9656303 TCTGAGCACC
Statistics
Matches: 95, Mismatches: 20, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
80 29 0.31
81 66 0.69
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (80 bp):
ACATACATTTCAGTGGATTCAGTAGCTATAGCTCGAAAGCACATACATTTCAGTAGATTCAGTAA
GTATAGCTCAAAAGA
Found at i:9660920 original size:59 final size:59
Alignment explanation
Indices: 9660853--9660973 Score: 179
Period size: 59 Copynumber: 2.1 Consensus size: 59
9660843 CAATGAAACA
* * * * *
9660853 TAAGTTAGATTAGACCAATCAATATCATACTATTACAGGTTTATATGGCATGTCCATTC
1 TAAGTTAGATCAGACCAATCAATATCACACTATCACAGGTTCATATGGCATGTACATTC
* *
9660912 TAAGTTAGATCAGACCAATCAATATCACAGTATCACAGGTTCATATGGCATGTACTTTC
1 TAAGTTAGATCAGACCAATCAATATCACACTATCACAGGTTCATATGGCATGTACATTC
9660971 TAA
1 TAA
9660974 TCTTTCAACA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (59 bp):
TAAGTTAGATCAGACCAATCAATATCACACTATCACAGGTTCATATGGCATGTACATTC
Found at i:9663837 original size:12 final size:11
Alignment explanation
Indices: 9663812--9663844 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9663802 GGGCCCGGTG
9663812 TAATTGGG-TT
1 TAATTGGGTTT
9663822 TAATTTGGGTTT
1 TAA-TTGGGTTT
9663834 TAATTGGGTTT
1 TAATTGGGTTT
9663845 GGTATAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.14
11 13 0.62
12 5 0.24
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (11 bp):
TAATTGGGTTT
Found at i:9663931 original size:9 final size:8
Alignment explanation
Indices: 9663902--9663950 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
9663892 GTTTTCATTA
9663902 TTTATATTT
1 TTTAT-TTT
*
9663911 TGTATTTT
1 TTTATTTT
9663919 TTTATTTT
1 TTTATTTT
*
9663927 GTTTATTTA
1 -TTTATTTT
*
9663936 TTTAATTT
1 TTTATTTT
9663944 TTTATTT
1 TTTATTT
9663951 GATTTGATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
8 22 0.67
9 11 0.33
ACGTcount: A:0.18, C:0.00, G:0.04, T:0.78
Consensus pattern (8 bp):
TTTATTTT
Found at i:9663955 original size:17 final size:16
Alignment explanation
Indices: 9663899--9663955 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
9663889 TTGGTTTTCA
*
9663899 TTATTTATATTTTGTAT
1 TTATTTA-ATTTTTTAT
* *
9663916 TTTTTTATTTTGTTTAT
1 TTATTTAATTT-TTTAT
9663933 TTATTTAATTTTTTAT
1 TTATTTAATTTTTTAT
9663949 TTGATTT
1 TT-ATTT
9663956 GATTCAGTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 10 0.30
17 23 0.70
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (16 bp):
TTATTTAATTTTTTAT
Found at i:9664013 original size:40 final size:40
Alignment explanation
Indices: 9663956--9664117 Score: 227
Period size: 40 Copynumber: 4.0 Consensus size: 40
9663946 TATTTGATTT
*
9663956 GATTCAGTAGGTATGGCTCGAAAGCACATATGTTTCAGTA
1 GATTCAGTAGGTATGGCTCGAAAGCACATACGTTTCAGTA
* * *
9663996 GATTCGGTAGGTGTGGCTCGAAAGCACTTACGTTTCAGTA
1 GATTCAGTAGGTATGGCTCGAAAGCACATACGTTTCAGTA
* * * *
9664036 AATTTAGTAGGTATGGCTGGAAAGCACATACGTTTCAATA
1 GATTCAGTAGGTATGGCTCGAAAGCACATACGTTTCAGTA
*
9664076 GATTCTA-TAGGTATGGCTCGAAAGCACATAAGTTTCAGTA
1 GATTC-AGTAGGTATGGCTCGAAAGCACATACGTTTCAGTA
9664116 GA
1 GA
9664118 CAATAGATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
40 104 0.99
41 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (40 bp):
GATTCAGTAGGTATGGCTCGAAAGCACATACGTTTCAGTA
Found at i:9664907 original size:14 final size:14
Alignment explanation
Indices: 9664888--9664922 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
9664878 AACCCAAGTG
9664888 TTTTTATTT-ATTT
1 TTTTTATTTCATTT
9664901 ATTTTTATTTCATTT
1 -TTTTTATTTCATTT
9664916 TTTTTAT
1 TTTTTAT
9664923 GTTGCATGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 16 0.80
15 4 0.20
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTATTTCATTT
Found at i:9665679 original size:5 final size:5
Alignment explanation
Indices: 9665669--9665760 Score: 109
Period size: 5 Copynumber: 18.4 Consensus size: 5
9665659 TCTATTAGCA
* * *
9665669 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT-TC TCATT AGTATTT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT -TTA-TT
9665720 TTACTT TTA-T TT-TT TTATT TTATT TTATT TTATT TTATT TT
1 TTA-TT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TT
9665761 TTCCTTATAA
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
4 8 0.11
5 57 0.76
6 8 0.11
7 2 0.03
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:9669763 original size:6 final size:6
Alignment explanation
Indices: 9669737--9669875 Score: 221
Period size: 6 Copynumber: 23.3 Consensus size: 6
9669727 AGTGACTTTA
*
9669737 TTTAGT TTTATGT TTTA-- TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTAT-T TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
9669784 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
9669832 TTTATT TTTATT TTTAAT TTTATT TTTATT TTTACTT TTT-TT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTA-TT TTTATT TT
9669876 GTTATGTGTT
Statistics
Matches: 126, Mismatches: 3, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
4 4 0.03
5 4 0.03
6 108 0.86
7 10 0.08
ACGTcount: A:0.17, C:0.01, G:0.01, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:9669888 original size:1 final size:1
Alignment explanation
Indices: 9669758--9669875 Score: 56
Period size: 1 Copynumber: 118.0 Consensus size: 1
9669748 GTTTTATTTA
* * * * * * * * * *
9669758 TTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * ** * * **
9669823 ATTTTTATTTTTATTTTTATTTTTAATTTTATTTTTATTTTTACTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9669876 GTTATGTGTT
Statistics
Matches: 80, Mismatches: 37, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 80 1.00
ACGTcount: A:0.16, C:0.01, G:0.00, T:0.83
Consensus pattern (1 bp):
T
Found at i:9672827 original size:3 final size:3
Alignment explanation
Indices: 9672819--9672859 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
9672809 ACATTGTCCT
*
9672819 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9672860 TTTATTATTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9677874 original size:24 final size:24
Alignment explanation
Indices: 9677815--9677864 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
9677805 ACCAAATTAT
* *
9677815 AATT-ATATGAATTAATTTAACCG
1 AATTAATATTAATTAAATTAACCG
*
9677838 AATTAATATTAATTAAATTAATCG
1 AATTAATATTAATTAAATTAACCG
9677862 AAT
1 AAT
9677865 ATATTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.40
Consensus pattern (24 bp):
AATTAATATTAATTAAATTAACCG
Found at i:9677895 original size:24 final size:24
Alignment explanation
Indices: 9677868--9677913 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
9677858 ATCGAATATA
**
9677868 TTTTAATAGTTAATTGAATTGAGT
1 TTTTAATAAATAATTGAATTGAGT
**
9677892 TTTTTTTAAATAATTGAATTGA
1 TTTTAATAAATAATTGAATTGA
9677914 AATATTTTAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (24 bp):
TTTTAATAAATAATTGAATTGAGT
Found at i:9678866 original size:14 final size:14
Alignment explanation
Indices: 9678845--9678878 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
9678835 TGGTATGGGT
9678845 TTAT-GGGTTTTGG
1 TTATAGGGTTTTGG
9678858 TTATAGGGTTTTGG
1 TTATAGGGTTTTGG
9678872 TTATAGG
1 TTATAGG
9678879 CAAATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.35, T:0.50
Consensus pattern (14 bp):
TTATAGGGTTTTGG
Found at i:9679360 original size:28 final size:29
Alignment explanation
Indices: 9679329--9679391 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
9679319 AATGTCGATA
*
9679329 TTTTTTAATATTTGTAGGAGTAGGTC-TT
1 TTTTTTAATATTTATAGGAGTAGGTCGTT
* * *
9679357 TTTTTGAATATTTATGGGATTAGGTCGTT
1 TTTTTTAATATTTATAGGAGTAGGTCGTT
9679386 TTTTTT
1 TTTTTT
9679392 TTAAAACCAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.19, C:0.03, G:0.21, T:0.57
Consensus pattern (29 bp):
TTTTTTAATATTTATAGGAGTAGGTCGTT
Found at i:9679555 original size:21 final size:23
Alignment explanation
Indices: 9679531--9679579 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
9679521 CCTGAACCAA
* *
9679531 TTTAGGGT-TTTCTTTTA-AGGT
1 TTTAGGGTATTTATTTTAGAGCT
9679552 TTTAGGGTATTTATTTTAGAGCT
1 TTTAGGGTATTTATTTTAGAGCT
9679575 TTTAG
1 TTTAG
9679580 AAGACATGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
22 8 0.33
23 8 0.33
ACGTcount: A:0.18, C:0.04, G:0.22, T:0.55
Consensus pattern (23 bp):
TTTAGGGTATTTATTTTAGAGCT
Found at i:9681845 original size:47 final size:47
Alignment explanation
Indices: 9681794--9681894 Score: 157
Period size: 47 Copynumber: 2.1 Consensus size: 47
9681784 ATTTTGAAAT
* *
9681794 AATACATATAAAAACTATTTAAACTAAATAACGTATACGTATATATA
1 AATACATATAAAAACCATTTAAACTAAATAACATATACGTATATATA
* *
9681841 AATACATATAAAAACCATTTAAACTAAATAACATATATGTATGTATA
1 AATACATATAAAAACCATTTAAACTAAATAACATATACGTATATATA
*
9681888 TATACAT
1 AATACAT
9681895 TAGAATAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (47 bp):
AATACATATAAAAACCATTTAAACTAAATAACATATACGTATATATA
Found at i:9682996 original size:22 final size:25
Alignment explanation
Indices: 9682968--9683018 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
9682958 TTTTAGACTG
9682968 TTATTTT-ATTTG-GTTTTTATTT-
1 TTATTTTAATTTGAGTTTTTATTTA
*
9682990 TTATTTTAATTTGATTTTTTATTTA
1 TTATTTTAATTTGAGTTTTTATTTA
9683015 TTAT
1 TTAT
9683019 GGGCCGGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 7 0.28
23 5 0.20
24 9 0.36
25 4 0.16
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.75
Consensus pattern (25 bp):
TTATTTTAATTTGAGTTTTTATTTA
Found at i:9687052 original size:29 final size:31
Alignment explanation
Indices: 9686991--9687055 Score: 105
Period size: 30 Copynumber: 2.1 Consensus size: 31
9686981 AAGCGTTTTC
*
9686991 AAAAATAGGTCTAATCCCATAAATATTCAAA
1 AAAAATAGGTCTAATCCAATAAATATTCAAA
*
9687022 AAAAAT-GGTCTAATCCAATAAATATTTAAA
1 AAAAATAGGTCTAATCCAATAAATATTCAAA
9687052 AAAA
1 AAAA
9687056 TCGATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 26 0.81
31 6 0.19
ACGTcount: A:0.55, C:0.12, G:0.06, T:0.26
Consensus pattern (31 bp):
AAAAATAGGTCTAATCCAATAAATATTCAAA
Found at i:9688610 original size:124 final size:123
Alignment explanation
Indices: 9688389--9688762 Score: 617
Period size: 124 Copynumber: 3.0 Consensus size: 123
9688379 TTAGGGTTTT
* ** *
9688389 TAGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTGATCAAATAGTATAAAATC-ACTTCTAG
1 TAGGTCATGGAAGAAATAATTT--TTTTGACGTTTCTGAGCAAATAGTATAAAATCGA-TTCTAG
*
9688453 CAGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTATAG
63 CAGGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
9688514 TAGGTCATGGAAGAAATAAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCA
1 TAGGTCATGGAAGAAAT-AATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCA
9688579 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 GGATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
9688638 TCGATCATGGAAGAAAT-ATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCAG
1 TAGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCAG
* *
9688702 GATGCTATTTGAGAAGAATTTGTAAAATCGCACCCTCGTGGATGCGCTTTTGCTACAG
66 GATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
9688760 TAG
1 TAG
9688763 CATGTTTGGG
Statistics
Matches: 237, Mismatches: 10, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
122 105 0.44
124 110 0.46
125 17 0.07
126 5 0.02
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (123 bp):
TAGGTCATGGAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGATTCTAGCAG
GATGCTATTTGAGAAGAATTTGTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:9692230 original size:23 final size:22
Alignment explanation
Indices: 9692195--9692396 Score: 189
Period size: 23 Copynumber: 8.9 Consensus size: 22
9692185 NNNNNTAAGT
9692195 TTAGGTTTAGGGTTTTTAATTAAA
1 TTAGG-TTAGGGTTTTTAATT-AA
9692219 TTAGGTTAGGGTTTTTAATTTAA
1 TTAGGTTAGGGTTTTTAA-TTAA
* *
9692242 TTAGATGAGGGTTTTTAAGTTAA
1 TTAGGTTAGGGTTTTTAA-TTAA
9692265 TTAGGTTAGGGTTTTTAAGTTAA
1 TTAGGTTAGGGTTTTTAA-TTAA
*** *
9692288 GGGGGTTAGGGTTTTTAAGT--
1 TTAGGTTAGGGTTTTTAATTAA
*
9692308 TTAGGGTTTAAGG-TTTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATT-AA
* *
9692332 TTAAGTTAGGGTTTTTAAGT--
1 TTAGGTTAGGGTTTTTAATTAA
9692352 TTAGGGATTAGGGTTTTTAATTAAA
1 TTA-GG-TTAGGGTTTTTAATT-AA
9692377 TTAGGTTAGGGTTTTTAATT
1 TTAGGTTAGGGTTTTTAATT
9692397 TAAGGGTATT
Statistics
Matches: 147, Mismatches: 19, Indels: 25
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.02
21 10 0.07
22 25 0.17
23 94 0.64
24 12 0.08
25 3 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.48
Consensus pattern (22 bp):
TTAGGTTAGGGTTTTTAATTAA
Found at i:9692341 original size:44 final size:44
Alignment explanation
Indices: 9692292--9692413 Score: 174
Period size: 45 Copynumber: 2.7 Consensus size: 44
9692282 AGTTAAGGGG
9692292 GTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTAATTAAATTAA
1 GTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTAATTAAATTAA
* * *
9692336 GTTAGGGTTTTTAAGTTTAGGGATTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAAGTTTAGGGTTTAAGG-TTTTAATTAAATTAA
9692381 GTTAGGGTTTTTAA-TTTAAGGGTATTAATGGTT
1 GTTAGGGTTTTTAAGTTT-AGGGT-TTAA-GGTT
9692414 AGTAGAATTC
Statistics
Matches: 69, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
44 30 0.43
45 32 0.46
46 5 0.07
47 2 0.03
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (44 bp):
GTTAGGGTTTTTAAGTTTAGGGTTTAAGGTTTTAATTAAATTAA
Found at i:9692385 original size:45 final size:45
Alignment explanation
Indices: 9692224--9692407 Score: 198
Period size: 44 Copynumber: 4.1 Consensus size: 45
9692214 TTAAATTAGG
* * *
9692224 TTAGGGTTTTTAATTTAATTAGATGAGGGTTTTTAAGTTAATTA-GG-
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAG-T--TTAGGGA
*** *
9692270 TTAGGGTTTTTAAGTT-AAGGGGGTTAGGGTTTTTAAGTTTAGGGT
1 TTAGGGTTTTTAA-TTAAATTAGGTTAGGGTTTTTAAGTTTAGGGA
* *
9692315 TTAAGG-TTTTAATTAAATTAAGTTAGGGTTTTTAAGTTTAGGGA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGA
9692359 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAA-TTTAAGGGTA
1 TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTT-AGGG-A
9692405 TTA
1 TTA
9692408 ATGGTTAGTA
Statistics
Matches: 118, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 5 0.04
44 40 0.34
45 38 0.32
46 33 0.28
47 2 0.02
ACGTcount: A:0.27, C:0.00, G:0.26, T:0.47
Consensus pattern (45 bp):
TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTTAGGGA
Found at i:9692470 original size:25 final size:25
Alignment explanation
Indices: 9692442--9692489 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
9692432 TATCAAAAAT
9692442 TTCTATTTTATTACATAAAATAAAC
1 TTCTATTTTATTACATAAAATAAAC
*
9692467 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATAAAATAA
9692490 TATCAAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATAAAATAAAC
Found at i:9693813 original size:20 final size:20
Alignment explanation
Indices: 9693776--9693813 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9693766 TTTATTTTTA
*
9693776 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
9693796 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
9693814 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:9695781 original size:164 final size:161
Alignment explanation
Indices: 9695505--9695916 Score: 526
Period size: 164 Copynumber: 2.5 Consensus size: 161
9695495 TTTCCACCAT
* *
9695505 CTATTATTGTTTTTTTATTTCCAAATGAATATTAAAACTAAT-AAATCTGTTTCCGGATTTTTCC
1 CTATTTTTGTTTTTTTATTTCCAAATGAATATTAAAACTAATAAAATC-GTTTCGGGATTTTTCC
* * *
9695569 CGTCGTTTAATAGATTTTAATCGATTTTGTTTCCAAATTAAAAGTAAATAAAATTCGTTTCGGGA
65 CGTCGTTTAACAGATTTTATTCGATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTCGGGA
* * *
9695634 TTTATTCCTGCTGTTCAACAAATTTCTTTTTCCA
130 TTTATTCCCGCCGTTCAACAAATTTC-ATTT-CA
*
9695668 CTATTTTTGTTTTTTTATTTCCAAATGAATATTAAAACTAATAAAATACGTTTTGGGATTTTTCC
1 CTATTTTTGTTTTTTTATTTCCAAATGAATATTAAAACTAATAAAAT-CGTTTCGGGATTTTTCC
*
9695733 CGTCGTTTAACAGATTTTATTCGATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTTGGGA
65 CGTCGTTTAACAGATTTTATTCGATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTCGGGA
**
9695798 TTTATTCCCGCCGTTCAACGGATTTCATTTCA
130 TTTATTCCCGCCGTTCAACAAATTTCATTTCA
* * * * ** *
9695830 TTA-TTTTG--ATTTTATTTCCAAATGAAAAAATAAAGGTAAATAAAATTCGTTTCGGGATTGAT
1 CTATTTTTGTTTTTTTATTTCCAAATG-AATATTAAAACT-AATAAAA-TCGTTTCGGGATT-TT
* * *
9695892 TCCCGCCGTTCAACGGATTTTATTC
62 TCCCGTCGTTTAACAGATTTTATTC
9695917 CAAATTTTGT
Statistics
Matches: 220, Mismatches: 23, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
159 15 0.07
160 8 0.04
161 23 0.10
162 28 0.13
163 44 0.20
164 101 0.46
165 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (161 bp):
CTATTTTTGTTTTTTTATTTCCAAATGAATATTAAAACTAATAAAATCGTTTCGGGATTTTTCCC
GTCGTTTAACAGATTTTATTCGATTTTGTTTCCAAATTAAAAGTAAATAAAATCCGTTTCGGGAT
TTATTCCCGCCGTTCAACAAATTTCATTTCA
Found at i:9695957 original size:75 final size:74
Alignment explanation
Indices: 9695870--9696018 Score: 253
Period size: 74 Copynumber: 2.0 Consensus size: 74
9695860 TAAAGGTAAA
* *
9695870 TAAAATTCGTTTCGGGATTGATTCCCGCCGTTCAACGGATTTTATTCCAAATTTTGTTTTATTTC
1 TAAAATTAGTTTCGGGATTGATTCCCGCCATTCAAC-GATTTTATTCCAAATTTTGTTTTATTTC
9695935 CAAAAACGAG
65 CAAAAACGAG
*
9695945 TAAAATTAGTTTCGGGATTGATTCCCGCTATTCAACGATTTTATTCCAAATTTTGTTTTATTTCC
1 TAAAATTAGTTTCGGGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTTGTTTTATTTCC
*
9696010 AAAATCGAG
66 AAAAACGAG
9696019 CATTAAAACT
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 37 0.53
75 33 0.47
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (74 bp):
TAAAATTAGTTTCGGGATTGATTCCCGCCATTCAACGATTTTATTCCAAATTTTGTTTTATTTCC
AAAAACGAG
Found at i:9696203 original size:84 final size:84
Alignment explanation
Indices: 9696112--9696352 Score: 297
Period size: 84 Copynumber: 2.9 Consensus size: 84
9696102 CGAGAAATTA
* *
9696112 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGTCGCTTAACAATATTTGATTTGATTTTAT
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGCTTAACAAGATTTGATTTGATTTTAT
9696177 TTTGTTTCCAAATTAGAAT
66 TTTGTTTCCAAATTAGAAT
* * * * *
9696196 AAAATTAAGTAAAAGT-TGTTTGGGGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTTTA
1 AAAATTAAATAAAA-TCTGTTTCGGGATTTATTCCCGCCGCTTAACAAGATTTGATTTGATTTTA
*
9696260 TTTTGTTTTCAAATTAGAAT
65 TTTTGTTTCCAAATTAGAAT
* * * ** * * * *
9696280 CAAATTAAATAAAATCTATTTCGGGATTTTTTCCTACCGTTTAAC-AGATTTTATTTTGATATAA
1 AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGCTTAACAAGATTTGA-TTTGATTTTA
9696344 TTTTGTTTC
65 TTTTGTTTC
9696353 GGGATTTAAT
Statistics
Matches: 137, Mismatches: 17, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
83 9 0.07
84 127 0.93
85 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.46
Consensus pattern (84 bp):
AAAATTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGCTTAACAAGATTTGATTTGATTTTAT
TTTGTTTCCAAATTAGAAT
Found at i:9703902 original size:37 final size:37
Alignment explanation
Indices: 9703852--9703926 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
9703842 CATATCACCG
9703852 CTTTCACTTTGAACAATAAACTTCTTTTTATAGCAAT
1 CTTTCACTTTGAACAATAAACTTCTTTTTATAGCAAT
9703889 CTTTCACTTTGAACAATAAACTTCTTTTTATAGCAAT
1 CTTTCACTTTGAACAATAAACTTCTTTTTATAGCAAT
9703926 C
1 C
9703927 CAGAATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.20, G:0.05, T:0.43
Consensus pattern (37 bp):
CTTTCACTTTGAACAATAAACTTCTTTTTATAGCAAT
Found at i:9709748 original size:19 final size:18
Alignment explanation
Indices: 9709714--9709766 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
9709704 TCTTTCTAGT
9709714 TTATTTTTATTTATTAAA
1 TTATTTTTATTTATTAAA
*
9709732 TTATTTTTCTTTAATT-AA
1 TTATTTTTATTT-ATTAAA
9709750 -T-TTTTTATTT-TTAAA
1 TTATTTTTATTTATTAAA
9709765 TT
1 TT
9709767 TATTATTTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
14 2 0.07
15 2 0.07
16 9 0.30
17 1 0.03
18 13 0.43
19 3 0.10
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATTTTTATTTATTAAA
Found at i:9710638 original size:22 final size:22
Alignment explanation
Indices: 9710613--9710668 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
9710603 TATATTGTCA
**
9710613 TATGTATTTTTATATACATTTT
1 TATGTATTTTTATATACATAAT
* * *
9710635 TATGGATATTTATATATATAAT
1 TATGTATTTTTATATACATAAT
9710657 TATGTATATTTT
1 TATGTAT-TTTT
9710669 TCTCATATAA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
22 23 0.88
23 3 0.12
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.59
Consensus pattern (22 bp):
TATGTATTTTTATATACATAAT
Found at i:9721057 original size:4 final size:4
Alignment explanation
Indices: 9721048--9721078 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
9721038 CCTAAGTGCA
9721048 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
9721079 GCTAGAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:9722774 original size:25 final size:25
Alignment explanation
Indices: 9722748--9722795 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
9722738 TGAGTTGATG
*
9722748 GGGCT-TTTGGGTATTGGGTTTGTT
1 GGGCTGTTTGGGTATTGAGTTTGTT
9722772 GGGCTGTTTGGGTATTGAGTTTGT
1 GGGCTGTTTGGGTATTGAGTTTGT
9722796 AAAAAATTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.06, C:0.04, G:0.42, T:0.48
Consensus pattern (25 bp):
GGGCTGTTTGGGTATTGAGTTTGTT
Found at i:9724230 original size:6 final size:6
Alignment explanation
Indices: 9724220--9724264 Score: 63
Period size: 6 Copynumber: 7.2 Consensus size: 6
9724210 AAATATTCAA
*
9724220 AAAAACT AAAAAT AAAAAAT AAAAAT AAAAAT AAGAAT AAAAAT A
1 AAAAA-T AAAAAT -AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A
9724265 GCTAAGATGG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
6 24 0.69
7 11 0.31
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:9725853 original size:44 final size:45
Alignment explanation
Indices: 9725771--9725884 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 45
9725761 AAGACTTGTA
** *
9725771 TCTTCGATCTACTTCACCACCAGTATGGGAAGTCAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTT
* * *
9725816 TCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTT
* *
9725860 TCTTCAATCTACTCCACCACCAGTA
1 TCTTCGATCTACTTCACCACCAGTA
9725885 TGGGGAGATA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 36 0.62
45 22 0.38
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (45 bp):
TCTTCGATCTACTTCACCACCAGTACAGGAAGACAAGATCTGCTT
Found at i:9726138 original size:44 final size:43
Alignment explanation
Indices: 9726090--9726219 Score: 120
Period size: 45 Copynumber: 2.9 Consensus size: 43
9726080 TGTCTTTGAT
* *
9726090 CTACTTCACGCCAGTACATGAAGACACGATTTGTTTTCTTCGAC
1 CTACTTCACGCCAGTACATGAAGACAAGATCTG-TTTCTTCGAC
* * * * *
9726134 CTACTCCACCACCAG--CATGGGGAGACAAGATCTGTTTCTTTGAT
1 CTACTTCA-CGCCAGTACAT--GAAGACAAGATCTGTTTCTTCGAC
9726178 CTACTTCACGCCAGTACATGAAGAGACAAGATCTGTTATCTT
1 CTACTTCACGCCAGTACATG-A-AGACAAGATCTGTT-TCTT
9726220 TCACCCTGCT
Statistics
Matches: 68, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
43 9 0.13
44 22 0.32
45 33 0.49
46 4 0.06
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (43 bp):
CTACTTCACGCCAGTACATGAAGACAAGATCTGTTTCTTCGAC
Found at i:9737786 original size:2 final size:2
Alignment explanation
Indices: 9737779--9737805 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9737769 TACGCGCCTT
9737779 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
9737806 ATATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:9757435 original size:17 final size:18
Alignment explanation
Indices: 9757402--9757435 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
9757392 GTAGATCATC
*
9757402 AAACTATTTTTATGCTTG
1 AAACTATTTTGATGCTTG
9757420 AAACTA-TTTGATGCTT
1 AAACTATTTTGATGCTT
9757436 ACTATTCTTG
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:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (18 bp):
AAACTATTTTGATGCTTG
Found at i:9761316 original size:43 final size:43
Alignment explanation
Indices: 9761246--9761350 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
9761236 CTTCGAATGC
** * *
9761246 CCACACGGCCT-AAAACACGGGCGTGTCTCTTAATCGTGTGAG
1 CCACACGGCCTGATCACACGGGCATGTCTCTTAACCGTGTGAG
* *
9761288 TCACACGGCCTGATCACACGGGCATGTCTCTTGACCGTGTGAG
1 CCACACGGCCTGATCACACGGGCATGTCTCTTAACCGTGTGAG
*
9761331 CCACACAG-CTAGATCACACG
1 CCACACGGCCT-GATCACACG
9761351 AGTGTGTGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 12 0.23
43 41 0.77
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.20
Consensus pattern (43 bp):
CCACACGGCCTGATCACACGGGCATGTCTCTTAACCGTGTGAG
Found at i:9764427 original size:27 final size:27
Alignment explanation
Indices: 9764396--9764450 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
9764386 TTTGAAATTG
9764396 AGAAGTTTGATGGTGTCACAAATTTCA
1 AGAAGTTTGATGGTGTCACAAATTTCA
9764423 AGAAGTTTGATGGTGTCACAAATTTCA
1 AGAAGTTTGATGGTGTCACAAATTTCA
9764450 A
1 A
9764451 TCTATGGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.35, C:0.11, G:0.22, T:0.33
Consensus pattern (27 bp):
AGAAGTTTGATGGTGTCACAAATTTCA
Found at i:9767267 original size:124 final size:124
Alignment explanation
Indices: 9766977--9767412 Score: 674
Period size: 124 Copynumber: 3.5 Consensus size: 124
9766967 AAATCAAAGT
* * * * *
9766977 AGGATGTTTTATCAAAAGAATTTCTAAAATCGCGCCCATGTGGACGTGCTTTTGCTACAGTAGCT
1 AGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGT
* * *
9767042 CTTGAAAAAATAATTTTGAGTTGACGTTTCTGAGAAAATAGTATAAAAAACGCTTCAAGC
66 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAACGCTTCAAGC
** * * * *
9767102 AAAATGCTTTATCAGAAGAATTTTTGAAATCGCGCTCACGTGGACACGCTTTTGCTACAGTAGGT
1 AGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGT
9767167 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGC
66 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGC
* *
9767226 AGGATGATTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCCACAGTAGGT
1 AGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGT
*
9767291 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAATGCTTCAAGC
66 CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGC
* * * *
9767350 AGGATGCTTTATCAGAAGAATTTATGAAATCGTGCCCCCGTGGACGCGCTTTTGCTACAGTAG
1 AGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAG
9767413 CATGTTTGGC
Statistics
Matches: 282, Mismatches: 29, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
124 187 0.66
125 95 0.34
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.29
Consensus pattern (124 bp):
AGGATGCTTTATCAGAAGAATTTCTAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGTAGGT
CCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAACGCTTCAAGC
Found at i:9770589 original size:112 final size:112
Alignment explanation
Indices: 9770409--9770622 Score: 367
Period size: 112 Copynumber: 1.9 Consensus size: 112
9770399 ATATTTTTTT
9770409 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAAATTATTAATGTTAATTGTA
1 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAAATTATTAATGTTAATTGTA
9770474 TTAATTGTTAATAAAATTATCAAATTATATCAAATTATTAATTGTTA
66 TTAATTGTTAATAAAATTATCAAATTATATCAAATTATTAATTGTTA
* *
9770521 GTACCAGTTAAAACATTTTGTAAAATCTAACATTTTGTTAGT-CAAATTATTAATTGTTAATTGT
1 GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAAATTATTAA-TGTTAATTGT
* * *
9770585 ATTAATTGTTAGTAAATTTATCAAATTATATCATATTA
65 ATTAATTGTTAATAAAATTATCAAATTATATCAAATTA
9770623 GGGTTAGGTT
Statistics
Matches: 96, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 10 0.10
112 86 0.90
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.44
Consensus pattern (112 bp):
GTACCAGTCAAAACATTTTGTAAAATCTAACATTTTGTTAGTAAAAATTATTAATGTTAATTGTA
TTAATTGTTAATAAAATTATCAAATTATATCAAATTATTAATTGTTA
Found at i:9770722 original size:22 final size:21
Alignment explanation
Indices: 9770689--9770762 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
9770679 TAAGGGTTAC
*
9770689 GGTTAGGGTTTTTAAGTTTAG
1 GGTTAGGGTTTTTAAGTTAAG
*
9770710 GGTTAGGCTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAGTTAAG
9770731 GGTTTAGGGTTTTTAAGTTAAG
1 GG-TTAGGGTTTTTAAGTTAAG
9770753 GGTTAGGGTT
1 GGTTAGGGTT
9770763 AGGATTAGGG
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
21 29 0.59
22 20 0.41
ACGTcount: A:0.20, C:0.01, G:0.34, T:0.45
Consensus pattern (21 bp):
GGTTAGGGTTTTTAAGTTAAG
Found at i:9771045 original size:21 final size:20
Alignment explanation
Indices: 9771013--9771051 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
9771003 AGCTTTCGGC
*
9771013 CGGGGTTATGGTTGCTCCGG
1 CGGGGTTATGGTTCCTCCGG
*
9771033 CGGGGATTCTGGTTCCTCC
1 CGGGG-TTATGGTTCCTCC
9771052 AGTAGGGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.05, C:0.26, G:0.38, T:0.31
Consensus pattern (20 bp):
CGGGGTTATGGTTCCTCCGG
Found at i:9772009 original size:7 final size:7
Alignment explanation
Indices: 9771999--9772024 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
9771989 TTATATACGT
9771999 AATACTA
1 AATACTA
9772006 AATACTA
1 AATACTA
9772013 AATACTA
1 AATACTA
9772020 AATAC
1 AATAC
9772025 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:9773234 original size:51 final size:51
Alignment explanation
Indices: 9773150--9773247 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 51
9773140 AAATAATTAA
* *
9773150 AAATAGGGATTTAAGAGAAATTTAAGAGGAAATT-AAGAGTAAATTAAAATT
1 AAATAGGGATTTAAGAGAAATTTAAGAGCAAATTGAA-AGCAAATTAAAATT
* * *
9773201 AAATATGGATTTGAGAGAAATTT-GGAAGCAAATTGAAAGCAAATTAA
1 AAATAGGGATTTAAGAGAAATTTAAG-AGCAAATTGAAAGCAAATTAA
9773248 GAGCAAATTG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 1 0.03
51 37 0.93
52 2 0.05
ACGTcount: A:0.51, C:0.02, G:0.20, T:0.27
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATTTAAGAGCAAATTGAAAGCAAATTAAAATT
Found at i:9773236 original size:22 final size:21
Alignment explanation
Indices: 9773211--9773264 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
9773201 AAATATGGAT
**
9773211 TTGAGAGAAATTTGGAAGCAAA
1 TTGAGAGAAATTAAG-AGCAAA
*
9773233 TTGAAAGCAAATTAAGAGCAAA
1 TTGAGAG-AAATTAAGAGCAAA
9773255 TTGAGA-AAAT
1 TTGAGAGAAAT
9773265 AATTGAGAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 4 0.15
22 17 0.63
23 6 0.22
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (21 bp):
TTGAGAGAAATTAAGAGCAAA
Found at i:9773240 original size:11 final size:11
Alignment explanation
Indices: 9773226--9773258 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
9773216 AGAAATTTGG
9773226 AAGCAAATTGA
1 AAGCAAATTGA
9773237 AAGCAAATT-A
1 AAGCAAATTGA
9773247 AGAGCAAATTGA
1 A-AGCAAATTGA
9773259 GAAAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 2 0.10
11 17 0.85
12 1 0.05
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.18
Consensus pattern (11 bp):
AAGCAAATTGA
Found at i:9773485 original size:40 final size:40
Alignment explanation
Indices: 9773407--9773485 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 40
9773397 CAGGGGCGCG
* *
9773407 CTACGTGGCAACAAAACGCGTCCACGTCAGCGTACTTTGC
1 CTACGTGGCAACAAAACGCGTCCACGTAAGCGCACTTTGC
* *
9773447 CTACGTGGCAACAAATCGCGT-CATCGTAAGCGCGCTTTG
1 CTACGTGGCAACAAAACGCGTCCA-CGTAAGCGCACTTTG
9773486 AGTCCATGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 2 0.06
40 32 0.94
ACGTcount: A:0.24, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
CTACGTGGCAACAAAACGCGTCCACGTAAGCGCACTTTGC
Found at i:9780103 original size:15 final size:16
Alignment explanation
Indices: 9780083--9780115 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9780073 TTTATTAAAA
*
9780083 AAATTA-AATAATGTT
1 AAATTAGAATAAAGTT
9780098 AAATTAGAATAAAGTT
1 AAATTAGAATAAAGTT
9780114 AA
1 AA
9780116 TATTTAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (16 bp):
AAATTAGAATAAAGTT
Found at i:9785160 original size:22 final size:24
Alignment explanation
Indices: 9785135--9785193 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
9785125 CAAGTCTCAA
* *
9785135 TTTTAATAT-TTATACTTTAATTT
1 TTTTAATATCTCATACTTCAATTT
9785158 TTTTATATAATCTCATACTTCAATTT
1 TTTTA-AT-ATCTCATACTTCAATTT
*
9785184 TTATAATATC
1 TTTTAATATC
9785194 ATTGTTAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.17
24 5 0.17
25 4 0.13
26 16 0.53
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTAATATCTCATACTTCAATTT
Found at i:9785435 original size:38 final size:38
Alignment explanation
Indices: 9785393--9785468 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9785383 CTTTATTCTG
9785393 ATTAAAATGTTGGTTTAACATAATTTGGTACTTCAACT
1 ATTAAAATGTTGGTTTAACATAATTTGGTACTTCAACT
9785431 ATTAAAATGTTGGTTTAACATAATTTGGTACTTCAACT
1 ATTAAAATGTTGGTTTAACATAATTTGGTACTTCAACT
9785469 TTAGCCCCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (38 bp):
ATTAAAATGTTGGTTTAACATAATTTGGTACTTCAACT
Found at i:9786000 original size:17 final size:16
Alignment explanation
Indices: 9785959--9786000 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 16
9785949 AAAATATTTT
9785959 TAAAAATCAAAGATAA
1 TAAAAATCAAAGATAA
9785975 -AAATGAATCAAAAGATAA
1 TAAA--AATC-AAAGATAA
9785993 TAAAAATC
1 TAAAAATC
9786001 TTTTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
15 3 0.14
17 8 0.36
18 8 0.36
19 3 0.14
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (16 bp):
TAAAAATCAAAGATAA
Found at i:9790980 original size:18 final size:18
Alignment explanation
Indices: 9790957--9790992 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
9790947 AAGCAACTAG
9790957 TAAATTAGGGTTTAGTTC
1 TAAATTAGGGTTTAGTTC
9790975 TAAATTAGGGTTTAGTTC
1 TAAATTAGGGTTTAGTTC
9790993 ATACAAGGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.06, G:0.22, T:0.44
Consensus pattern (18 bp):
TAAATTAGGGTTTAGTTC
Found at i:9794789 original size:14 final size:14
Alignment explanation
Indices: 9794754--9794792 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
9794744 AATGTTTGGG
* *
9794754 GTTTAGGATTTAGA
1 GTTTAGGGTTTAAA
9794768 GTTTAGGGTTTAAA
1 GTTTAGGGTTTAAA
9794782 GTTTAGGGTTT
1 GTTTAGGGTTT
9794793 GAGTCTGGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTAAA
Found at i:9802248 original size:32 final size:34
Alignment explanation
Indices: 9802182--9802262 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 34
9802172 TACATTCAAC
9802182 ATTGCCTGGTGTCTTTGTTAAAAAAAAAACAAAAAA
1 ATTGCCTGGTGTCTTTGTT--AAAAAAAACAAAAAA
* *
9802218 ATTGCCTGGTGTCTTTG-T-AAAAAAAGAAAAAC
1 ATTGCCTGGTGTCTTTGTTAAAAAAAACAAAAAA
*
9802250 ATTGCTTGGTGTC
1 ATTGCCTGGTGTC
9802263 GGTAGCATTG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
32 24 0.57
35 1 0.02
36 17 0.40
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (34 bp):
ATTGCCTGGTGTCTTTGTTAAAAAAAACAAAAAA
Found at i:9808010 original size:27 final size:28
Alignment explanation
Indices: 9807958--9808010 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
9807948 ATAGATTTAA
*
9807958 TATTAAATTTAATTTAATAATTATTATT
1 TATTAAATTTAATTTAATAATGATTATT
*
9807986 TATT-AATTTAATATTAA-AGTGATTA
1 TATTAAATTTAAT-TTAATAATGATTA
9808011 AGTTTAGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (28 bp):
TATTAAATTTAATTTAATAATGATTATT
Found at i:9809080 original size:12 final size:12
Alignment explanation
Indices: 9809061--9809091 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
9809051 CAACTATAAC
9809061 TATCATCATAGT
1 TATCATCATAGT
*
9809073 TCTCATCATAGT
1 TATCATCATAGT
9809085 TATCATC
1 TATCATC
9809092 TCTATCATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (12 bp):
TATCATCATAGT
Found at i:9809942 original size:24 final size:24
Alignment explanation
Indices: 9809915--9809965 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
9809905 AAGATTTAGT
*
9809915 ATTTATGAGTATAATATATTTAAC
1 ATTTATGAGCATAATATATTTAAC
* *
9809939 ATTTATTAGCATAATATATTTGAC
1 ATTTATGAGCATAATATATTTAAC
9809963 ATT
1 ATT
9809966 GATTAGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (24 bp):
ATTTATGAGCATAATATATTTAAC
Found at i:9809970 original size:24 final size:24
Alignment explanation
Indices: 9809925--9809971 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
9809915 ATTTATGAGT
*
9809925 ATAATATATTTAACATTTATTAGC
1 ATAATATATTTAACATTGATTAGC
*
9809949 ATAATATATTTGACATTGATTAG
1 ATAATATATTTAACATTGATTAG
9809972 AATTAGGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.40, C:0.06, G:0.09, T:0.45
Consensus pattern (24 bp):
ATAATATATTTAACATTGATTAGC
Found at i:9814223 original size:24 final size:24
Alignment explanation
Indices: 9814160--9814211 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9814150 TTTCTAAAAG
* * *
9814160 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
9814184 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
9814208 ATTT
1 ATTT
9814212 GACTTTGATT
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:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:9815859 original size:7 final size:7
Alignment explanation
Indices: 9815849--9815879 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
9815839 CCTAAACCCT
9815849 AGGCCCA
1 AGGCCCA
9815856 AGGCCCA
1 AGGCCCA
9815863 AGGCCCA
1 AGGCCCA
*
9815870 AGGCCTA
1 AGGCCCA
9815877 AGG
1 AGG
9815880 TCTACGGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.29, C:0.35, G:0.32, T:0.03
Consensus pattern (7 bp):
AGGCCCA
Found at i:9816980 original size:4 final size:4
Alignment explanation
Indices: 9816971--9816999 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
9816961 CTCACCCGTA
9816971 ATTT ATTT ATTT ATTT ATTT ATTT -TTT AT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT AT
9817000 AATTGTGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
3 3 0.12
4 21 0.88
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
ATTT
Found at i:9822763 original size:19 final size:19
Alignment explanation
Indices: 9822736--9822784 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
9822726 AAATGATAAG
*
9822736 GATGAGAAATGGAAAATGA
1 GATGTGAAATGGAAAATGA
* *
9822755 GATGTGAAATTGAATATGA
1 GATGTGAAATGGAAAATGA
*
9822774 AATGGTGAAAT
1 GAT-GTGAAAT
9822785 TGGTTGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.29, T:0.24
Consensus pattern (19 bp):
GATGTGAAATGGAAAATGA
Found at i:9825766 original size:16 final size:16
Alignment explanation
Indices: 9825745--9825778 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9825735 TAGTCCCTAT
*
9825745 AGTTTTGATTTATTTA
1 AGTTTTGATTTAGTTA
*
9825761 AGTTTTGTTTTAGTTA
1 AGTTTTGATTTAGTTA
9825777 AG
1 AG
9825779 AAATATGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.18, T:0.59
Consensus pattern (16 bp):
AGTTTTGATTTAGTTA
Found at i:9828668 original size:42 final size:44
Alignment explanation
Indices: 9828559--9828715 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 44
9828549 AGCTTGTACA
** * *
9828559 ATGCC-ATCGTCCCAGACGCGGTCTTACATGT-AATC-AAATATCG
1 ATGCCAAT-GTCCCAGACATGGTCTTACACGTAAATCTCAA-ATCG
* * * *
9828602 ATGCCACTGTCCCAGATA-GAGTCTTACACG--AA-GTCATATACG
1 ATGCCAATGTCCCAGACATG-GTCTTACACGTAAATCTCAAAT-CG
* *
9828644 GTGCCAATGTCCTAGACATGGTCTTACACGTAAATCTCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
*
9828688 ATGCCAATGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACATGGTCTTACA
9828716 TGAAATAACA
Statistics
Matches: 90, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
41 2 0.02
42 30 0.33
43 23 0.26
44 30 0.33
45 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAAATCTCAAATCG
Found at i:9834356 original size:28 final size:28
Alignment explanation
Indices: 9834311--9834382 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
9834301 TAAAGAGATT
* *
9834311 AGCATTAAGTGTGCGAGTTTAATTGTAA
1 AGCACTAAGTGTGCGAGTTTAATTATAA
* * *
9834339 AGTACTAAGTGTGCGAGTTTGATTATTA
1 AGCACTAAGTGTGCGAGTTTAATTATAA
9834367 AGCACTAAGTGTGCGA
1 AGCACTAAGTGTGCGA
9834383 ACTTATTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTAATTATAA
Found at i:9839118 original size:32 final size:31
Alignment explanation
Indices: 9839025--9839135 Score: 102
Period size: 30 Copynumber: 3.6 Consensus size: 31
9839015 CCATTTACTA
**
9839025 AAATGTGGAAGCCTTTGTGGTTGTTCTCTAAT
1 AAATGT-GAAGCCTTTGTGGTTGTTCTCTGTT
* * * **
9839057 ATATGTG-AGCCTTAGTGGTGGAAC-CTGTT
1 AAATGTGAAGCCTTTGTGGTTGTTCTCTGTT
*
9839086 AAATGTTGAAGCCTTTGCGGTTGTTCTCTGTT
1 AAATG-TGAAGCCTTTGTGGTTGTTCTCTGTT
*
9839118 ACATGT-AAGCCTTTGTGG
1 AAATGTGAAGCCTTTGTGG
9839136 CAAAATCGTC
Statistics
Matches: 61, Mismatches: 15, Indels: 8
0.73 0.18 0.10
Matches are distributed among these distances:
29 7 0.11
30 26 0.43
31 14 0.23
32 14 0.23
ACGTcount: A:0.20, C:0.14, G:0.27, T:0.39
Consensus pattern (31 bp):
AAATGTGAAGCCTTTGTGGTTGTTCTCTGTT
Found at i:9840097 original size:18 final size:20
Alignment explanation
Indices: 9840074--9840113 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
9840064 ATATCCATAT
9840074 AGAGG-AAGAATGAA-AGAA
1 AGAGGAAAGAATGAAGAGAA
*
9840092 AGAGGAAAGCATGAAGAGAA
1 AGAGGAAAGAATGAAGAGAA
9840112 AG
1 AG
9840114 CTATATGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (20 bp):
AGAGGAAAGAATGAAGAGAA
Found at i:9844230 original size:11 final size:11
Alignment explanation
Indices: 9844211--9844240 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9844201 AACAGAAGAC
*
9844211 TTGGGAAAAAA
1 TTGGAAAAAAA
9844222 TTGGAAAAAAA
1 TTGGAAAAAAA
9844233 TTGGAAAA
1 TTGGAAAA
9844241 CAGGGGTCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.23, T:0.20
Consensus pattern (11 bp):
TTGGAAAAAAA
Found at i:9845169 original size:38 final size:38
Alignment explanation
Indices: 9845113--9845271 Score: 169
Period size: 38 Copynumber: 4.2 Consensus size: 38
9845103 CATCAGCTCA
* * * *
9845113 AAGCCTGCTAAGCACTAAGTCTGATTAACACCGGCA-T
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACCGGAACT
*
9845150 CAAGCTTGCTAGGCACTAAGCCTGAATAACACCGGAACT
1 -AAGCCTGCTAGGCACTAAGCCTGAATAACACCGGAACT
* **
9845189 AATCCTGCTAGGCACTAAGCCTGAATAACA-CTAACACT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACCGGA-ACT
* * * * *
9845227 AAGCCTGCTAGGCACTTAGCCGGAATAGCACCAGCACT
1 AAGCCTGCTAGGCACTAAGCCTGAATAACACCGGAACT
9845265 AAGCCTG
1 AAGCCTG
9845272 AATAATACCC
Statistics
Matches: 102, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
37 2 0.02
38 98 0.96
39 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (38 bp):
AAGCCTGCTAGGCACTAAGCCTGAATAACACCGGAACT
Found at i:9847255 original size:27 final size:27
Alignment explanation
Indices: 9847225--9847276 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
9847215 GCAGGGTTTG
9847225 CCATAGAAGCTATCCCTTCATAATTTA
1 CCATAGAAGCTATCCCTTCATAATTTA
* *
9847252 CCATATAGGCTATCCCTTCATAATT
1 CCATAGAAGCTATCCCTTCATAATT
9847277 CGCCATAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.08, T:0.35
Consensus pattern (27 bp):
CCATAGAAGCTATCCCTTCATAATTTA
Found at i:9847282 original size:27 final size:27
Alignment explanation
Indices: 9847224--9847283 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
9847214 TGCAGGGTTT
*
9847224 GCCATAGAAGCTATCCCTTCATAATTT
1 GCCATAGAAGCTATCCCTTCATAATTC
* * *
9847251 ACCATATAGGCTATCCCTTCATAATTC
1 GCCATAGAAGCTATCCCTTCATAATTC
9847278 GCCATA
1 GCCATA
9847284 AAGTCTTTTC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.30, C:0.28, G:0.10, T:0.32
Consensus pattern (27 bp):
GCCATAGAAGCTATCCCTTCATAATTC
Found at i:9847298 original size:27 final size:27
Alignment explanation
Indices: 9847268--9847512 Score: 203
Period size: 27 Copynumber: 9.1 Consensus size: 27
9847258 AGGCTATCCC
*
9847268 TTCATAATTCGCCATAAAGTCTTTTCT
1 TTCATAATTCGCCACAAAGTCTTTTCT
*
9847295 TTCATGATTCGCCACAAAGGT-TTTTCT
1 TTCATAATTCGCCACAAA-GTCTTTTCT
* * *
9847322 TTCAT-ATCTTGCCACAAAGACTTTTGT
1 TTCATAAT-TCGCCACAAAGTCTTTTCT
* * * *
9847349 TTCATATTTTGCCATAAA-TTTTTTCT
1 TTCATAATTCGCCACAAAGTCTTTTCT
* *
9847375 TTCATGATTCGCCACAAAGGT-TTTCCT
1 TTCATAATTCGCCACAAA-GTCTTTTCT
* * * *
9847402 TTCGTATTTCGCCATAAAAT-TTTTCCT
1 TTCATAATTCGCCACAAAGTCTTTT-CT
** * *
9847429 TTTGTATTTCGCCACAAAGGCTTTTCT
1 TTCATAATTCGCCACAAAGTCTTTTCT
* *
9847456 TTCATGATTCGCCACAAAGGCTTTTCT
1 TTCATAATTCGCCACAAAGTCTTTTCT
* * *
9847483 TTCATGATTCACCACAAAGGCTTTTCT
1 TTCATAATTCGCCACAAAGTCTTTTCT
9847510 TTC
1 TTC
9847513 TTGACGTATT
Statistics
Matches: 180, Mismatches: 30, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
26 26 0.14
27 146 0.81
28 8 0.04
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (27 bp):
TTCATAATTCGCCACAAAGTCTTTTCT
Found at i:9847326 original size:54 final size:53
Alignment explanation
Indices: 9847268--9847512 Score: 237
Period size: 54 Copynumber: 4.6 Consensus size: 53
9847258 AGGCTATCCC
* *
9847268 TTCATAATTCGCCATAAAGTCTTTTCTTTCATGA-TTCGCCACAAAGGTTTTTCT
1 TTCATAATTCGCCACAAAGGCTTTTCTTTCAT-ATTTCGCCACAAA-GTTTTTCT
* * * * * *
9847322 TTCAT-ATCTTGCCACAAAGACTTTTGTTTCATATTTTGCCATAAATTTTTTCT
1 TTCATAAT-TCGCCACAAAGGCTTTTCTTTCATATTTCGCCACAAAGTTTTTCT
* * * *
9847375 TTCATGATTCGCCACAAAGG-TTTTCCTTTCGTATTTCGCCATAAAATTTTTCCT
1 TTCATAATTCGCCACAAAGGCTTTT-CTTTCATATTTCGCCACAAAGTTTTT-CT
** * *
9847429 TTTGTATTTCGCCACAAAGGCTTTTCTTTCATGA-TTCGCCACAAAGGCTTTTCT
1 TTCATAATTCGCCACAAAGGCTTTTCTTTCAT-ATTTCGCCACAAA-GTTTTTCT
* *
9847483 TTCATGATTCACCACAAAGGCTTTTCTTTC
1 TTCATAATTCGCCACAAAGGCTTTTCTTTC
9847513 TTGACGTATT
Statistics
Matches: 157, Mismatches: 26, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
52 4 0.03
53 47 0.30
54 97 0.62
55 9 0.06
ACGTcount: A:0.23, C:0.23, G:0.11, T:0.43
Consensus pattern (53 bp):
TTCATAATTCGCCACAAAGGCTTTTCTTTCATATTTCGCCACAAAGTTTTTCT
Found at i:9849074 original size:24 final size:25
Alignment explanation
Indices: 9849037--9849135 Score: 105
Period size: 25 Copynumber: 4.0 Consensus size: 25
9849027 ACAATAAACA
* *
9849037 CGAATT-TCTAAAAAGTCTTTGTGG
1 CGAATTATCTGAAAAGACTTTGTGG
* *
9849061 CGAATTATCT-AAAACGGCTTTGTTG
1 CGAATTATCTGAAAA-GACTTTGTGG
*
9849086 CGAATTATCTGAAAAGACTTTATGG
1 CGAATTATCTGAAAAGACTTTGTGG
*
9849111 CGAATTCTCTGAAAA-ACCTTTGTGG
1 CGAATTATCTGAAAAGA-CTTTGTGG
9849136 TAAATTCTCT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
24 11 0.17
25 49 0.77
26 4 0.06
ACGTcount: A:0.30, C:0.15, G:0.20, T:0.34
Consensus pattern (25 bp):
CGAATTATCTGAAAAGACTTTGTGG
Found at i:9849141 original size:25 final size:25
Alignment explanation
Indices: 9849113--9849226 Score: 81
Period size: 25 Copynumber: 4.5 Consensus size: 25
9849103 CTTTATGGCG
9849113 AATTCTCTGAAAAACCTTTGTGGTA
1 AATTCTCTGAAAAACCTTTGTGGTA
* *
9849138 AATTCTCT-AGAACATCTTTGTGGTA
1 AATTCTCTGA-AAAACCTTTGTGGTA
* * * *
9849163 AATCCTCT-AGAAAGCCTTTATGGTG
1 AATTCTCTGA-AAAACCTTTGTGGTA
* * * *
9849188 AATTCTCAGGAAAGCCTTTGCGGCT-
1 AATTCTCTGAAAAACCTTTGTGG-TA
9849213 AATTCTCTAGAAAA
1 AATTCTCT-GAAAA
9849227 TTCATATAGT
Statistics
Matches: 70, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
24 1 0.01
25 64 0.91
26 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (25 bp):
AATTCTCTGAAAAACCTTTGTGGTA
Found at i:9850960 original size:11 final size:10
Alignment explanation
Indices: 9850934--9850958 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
9850924 TCAAAAAAAA
9850934 TTAAATATTT
1 TTAAATATTT
9850944 TTAAATATTT
1 TTAAATATTT
9850954 TTAAA
1 TTAAA
9850959 ATTAATTAAT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (10 bp):
TTAAATATTT
Found at i:9857539 original size:15 final size:15
Alignment explanation
Indices: 9857511--9857549 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9857501 AATTGCAAAC
* *
9857511 CAAAAACAAAATCTA
1 CAAAAATAATATCTA
*
9857526 GAAAAATAATATCTA
1 CAAAAATAATATCTA
9857541 CAAAAATAA
1 CAAAAATAA
9857550 AGGCCCCTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.18
Consensus pattern (15 bp):
CAAAAATAATATCTA
Found at i:9861466 original size:13 final size:13
Alignment explanation
Indices: 9861448--9861473 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9861438 GAAGAAATTG
9861448 ATAAATTTAACAT
1 ATAAATTTAACAT
9861461 ATAAATTTAACAT
1 ATAAATTTAACAT
9861474 GGAAAAACTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAAATTTAACAT
Found at i:9863884 original size:3 final size:3
Alignment explanation
Indices: 9863878--9863933 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
9863868 AAGGCAAGAA
*
9863878 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GGT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
9863926 GAT GAT GA
1 GAT GAT GA
9863934 AATAACAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:9864542 original size:42 final size:42
Alignment explanation
Indices: 9864483--9864605 Score: 201
Period size: 42 Copynumber: 2.9 Consensus size: 42
9864473 AATTTTTTTT
* *
9864483 ACCGTTACAATATCAAATAATTATCCAAATTAAAAACTATTG
1 ACCGTTATAATACCAAATAATTATCCAAATTAAAAACTATTG
*
9864525 ATCGTTATAATACCAAATAATTATCCAAATTAAAAACTATTG
1 ACCGTTATAATACCAAATAATTATCCAAATTAAAAACTATTG
* *
9864567 ACCGTTATAATACCAAATAATTACCCTAATTAAAAACTA
1 ACCGTTATAATACCAAATAATTATCCAAATTAAAAACTA
9864606 CTAATAATTT
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 75 1.00
ACGTcount: A:0.48, C:0.17, G:0.04, T:0.31
Consensus pattern (42 bp):
ACCGTTATAATACCAAATAATTATCCAAATTAAAAACTATTG
Found at i:9866304 original size:3 final size:3
Alignment explanation
Indices: 9866296--9866331 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
9866286 ATTATATATT
9866296 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
9866332 AGAAAGAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:9866712 original size:18 final size:19
Alignment explanation
Indices: 9866677--9866714 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
9866667 GTGAAAATTT
* *
9866677 TGAAACTTAGATATTTAAA
1 TGAAACTTAGAGAGTTAAA
9866696 TGAAA-TTAGAGAGTTAAA
1 TGAAACTTAGAGAGTTAAA
9866714 T
1 T
9866715 CTAGTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.47, C:0.03, G:0.16, T:0.34
Consensus pattern (19 bp):
TGAAACTTAGAGAGTTAAA
Found at i:9867391 original size:40 final size:40
Alignment explanation
Indices: 9867333--9867409 Score: 91
Period size: 40 Copynumber: 1.9 Consensus size: 40
9867323 GGGTGCTAAT
* *
9867333 TTACTCCGATTTAACCGATAAGACACTAGGTGTCAAATTA
1 TTACTCCGAATTAACCGATAAGACACTAGGTGCCAAATTA
* * * * *
9867373 TTACTTCGAATTATCCGATGAGGCACTGGGTGCCAAA
1 TTACTCCGAATTAACCGATAAGACACTAGGTGCCAAA
9867410 CTGGTGTGTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (40 bp):
TTACTCCGAATTAACCGATAAGACACTAGGTGCCAAATTA
Found at i:9873871 original size:49 final size:50
Alignment explanation
Indices: 9873818--9873949 Score: 130
Period size: 49 Copynumber: 2.7 Consensus size: 50
9873808 GGCTCTCACG
* * *
9873818 AGCTTCCCAATTAATGGCTCTT-TGGAGCTTCCTGATA-TTGGCTCGCATA
1 AGCTTCCCGATTAATGGCTCTTAT-GAGCTTCCCGATATTTGGCTCACATA
* *
9873867 AGCTTCCTGATTACA--GCTCTTATGAGCTTCCCGTTATTTGGCTCACATA
1 AGCTTCCCGATTA-ATGGCTCTTATGAGCTTCCCGATATTTGGCTCACATA
* * *
9873916 AGCTTCTCGATTAGTGGCTCTCT-TAAGCTTCCCG
1 AGCTTCCCGATTAATGGCTCT-TATGAGCTTCCCG
9873950 TTTATATGCT
Statistics
Matches: 68, Mismatches: 9, Indels: 11
0.77 0.10 0.12
Matches are distributed among these distances:
48 17 0.25
49 34 0.50
50 16 0.24
51 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.19, T:0.36
Consensus pattern (50 bp):
AGCTTCCCGATTAATGGCTCTTATGAGCTTCCCGATATTTGGCTCACATA
Found at i:9873919 original size:25 final size:24
Alignment explanation
Indices: 9873891--9873951 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
9873881 AGCTCTTATG
*
9873891 AGCTTCCCGTTATTTGGCTCACATA
1 AGCTTCCCGTTA-GTGGCTCACATA
* * *
9873916 AGCTTCTCGATTAGTGGCTCTCTTA
1 AGCTTCCCG-TTAGTGGCTCACATA
9873941 AGCTTCCCGTT
1 AGCTTCCCGTT
9873952 TATATGCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
24 2 0.07
25 25 0.83
26 3 0.10
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (24 bp):
AGCTTCCCGTTAGTGGCTCACATA
Found at i:9877588 original size:29 final size:30
Alignment explanation
Indices: 9877555--9877620 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 30
9877545 CAAAAATTTG
* *
9877555 TGTATATAATT-ACATAAAATCAAAGTTCA
1 TGTATACAATTCACATAAAACCAAAGTTCA
*
9877584 TGTATACAATTGCACATTAAACCAAAGTTCA
1 TGTATACAATT-CACATAAAACCAAAGTTCA
9877615 TGTATA
1 TGTATA
9877621 ATTTTGACAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 10 0.31
31 22 0.69
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (30 bp):
TGTATACAATTCACATAAAACCAAAGTTCA
Found at i:9887065 original size:15 final size:15
Alignment explanation
Indices: 9887041--9887079 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
9887031 AAAATGTAAT
*
9887041 AGTTTTTTTATTTTA
1 AGTTTATTTATTTTA
9887056 AGTTTATTTATTTTA
1 AGTTTATTTATTTTA
9887071 AGTTTATTT
1 AGTTTATTT
9887080 CGTTGTATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (15 bp):
AGTTTATTTATTTTA
Found at i:9890486 original size:17 final size:17
Alignment explanation
Indices: 9890464--9890496 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
9890454 CACTCAGCAT
9890464 CTTTCTTCCCAAACTTC
1 CTTTCTTCCCAAACTTC
*
9890481 CTTTCTTGCCAAACTT
1 CTTTCTTCCCAAACTT
9890497 TCTCCAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.03, T:0.42
Consensus pattern (17 bp):
CTTTCTTCCCAAACTTC
Found at i:9894225 original size:22 final size:23
Alignment explanation
Indices: 9894197--9894244 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
9894187 TAAGGTTAGA
9894197 GTTTTTAAT-TTTAAG-GGATAAG
1 GTTTTTAATATTTAAGAGG-TAAG
*
9894219 GTTTTTAATATTTTAGAGGTAAG
1 GTTTTTAATATTTAAGAGGTAAG
9894242 GTT
1 GTT
9894245 AGGGTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
GTTTTTAATATTTAAGAGGTAAG
Found at i:9899411 original size:19 final size:20
Alignment explanation
Indices: 9899372--9899412 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
9899362 CTATTTGTTT
*
9899372 TTTACATTTTTTTACATCAAA
1 TTTACATTCTTTTA-ATCAAA
9899393 TTTACATTCTTTT-ATCAAA
1 TTTACATTCTTTTAATCAAA
9899412 T
1 T
9899413 CAACTAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
21 12 0.63
ACGTcount: A:0.32, C:0.15, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTACATTCTTTTAATCAAA
Found at i:9902999 original size:21 final size:21
Alignment explanation
Indices: 9902973--9903060 Score: 131
Period size: 21 Copynumber: 4.2 Consensus size: 21
9902963 GAAGCTCGAA
9902973 AGCTGAACAGAAGCTCATAAG
1 AGCTGAACAGAAGCTCATAAG
*
9902994 AGCTGAACAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
* * *
9903015 GGCTGAATAGAAGCTCGTAAG
1 AGCTGAACAGAAGCTCATAAG
*
9903036 AGCTGAACAGAAACTCATAAG
1 AGCTGAACAGAAGCTCATAAG
9903057 AGCT
1 AGCT
9903061 AATCCATCCA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.16
Consensus pattern (21 bp):
AGCTGAACAGAAGCTCATAAG
Found at i:9903027 original size:42 final size:42
Alignment explanation
Indices: 9902962--9903060 Score: 139
Period size: 42 Copynumber: 2.4 Consensus size: 42
9902952 ATAAGTCAAT
9902962 AGAAGCTCG-AA-AGCTGAACAGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAGCTGAAC
* * *
9903002 AGAAGCTCGTAAGGGCTGAATAGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAGCTGAAC
* *
9903044 AGAAACTCATAAGAGCT
1 AGAAGCTCGTAAGAGCT
9903061 AATCCATCCA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
40 9 0.18
41 2 0.04
42 40 0.78
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (42 bp):
AGAAGCTCGTAAGAGCTGAACAGAAGCTCATAAGAGCTGAAC
Found at i:9903252 original size:19 final size:18
Alignment explanation
Indices: 9903230--9903272 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
9903220 CCATTTCAAT
9903230 ATTATAATTCCAACAATAA
1 ATTAT-ATTCCAACAATAA
*
9903249 ATTAT-TTCTAACAATAA
1 ATTATATTCCAACAATAA
*
9903266 AATATAT
1 ATTATAT
9903273 ATATATACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 15 0.71
18 1 0.05
19 5 0.24
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (18 bp):
ATTATATTCCAACAATAA
Found at i:9903785 original size:22 final size:21
Alignment explanation
Indices: 9903759--9903805 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
9903749 TTATTCATCA
* *
9903759 AAAACATCTAATATTTATTAAT
1 AAAACATCCAAAATTT-TTAAT
*
9903781 AAAACTTCCAAAATTTTTAAT
1 AAAACATCCAAAATTTTTAAT
9903802 AAAA
1 AAAA
9903806 TAAAAAACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAACATCCAAAATTTTTAAT
Found at i:9909248 original size:30 final size:31
Alignment explanation
Indices: 9909203--9909260 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
9909193 ATTAAACCTA
* *
9909203 ATCATTTTAATATTAAATTAATATAATATTT
1 ATCACTTTAATATTAAATTAATAAAATATTT
*
9909234 ATCACTTTAA-ATTAATTTAATAAAATA
1 ATCACTTTAATATTAAATTAATAAAATA
9909261 CTATTAAGAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (31 bp):
ATCACTTTAATATTAAATTAATAAAATATTT
Found at i:9915651 original size:213 final size:214
Alignment explanation
Indices: 9915273--9915701 Score: 851
Period size: 213 Copynumber: 2.0 Consensus size: 214
9915263 ATATATATTA
9915273 TATAATATATAAAAAATAAAAATAGTTTACAAAAATATAAAATGAATTGAGCTCCAACTTTTAAT
1 TATAATATATAAAAAATAAAAATAGTTTACAAAAATATAAAATGAATTGAGCTCCAACTTTTAAT
9915338 GTTTAAGCTTAAATCTTATTTATATATTAAACAATTTTTAAATTTTTTTATCCAAGCTTAATTTT
66 GTTTAAGCTTAAATCTTATTTATATATTAAACAATTTTTAAATTTTTTTATCCAAGCTTAATTTT
9915403 CGAATCTCGTATGTTTTTTTCTGAACTCAGACTACGAAAAAATCTAAGATCGTGTAATTATAAGA
131 CGAATCTCGTATGTTTTTTTCTGAACTCAGACTACGAAAAAATCTAAGATCGTGTAATTATAAGA
9915468 AATTTTAATTTCATAAATC
196 AATTTTAATTTCATAAATC
9915487 TATAATATAT-AAAAATAAAAATAGTTTACAAAAATATAAAATGAATTGAGCTCCAACTTTTAAT
1 TATAATATATAAAAAATAAAAATAGTTTACAAAAATATAAAATGAATTGAGCTCCAACTTTTAAT
9915551 GTTTAAGCTTAAATCTTATTTATATATTAAACAATTTTTAAATTTTTTTATCCAAGCTTAATTTT
66 GTTTAAGCTTAAATCTTATTTATATATTAAACAATTTTTAAATTTTTTTATCCAAGCTTAATTTT
9915616 CGAATCTCGTATGTTTTTTTCTGAACTCAGACTACGAAAAAATCTAAGATCGTGTAATTATAAGA
131 CGAATCTCGTATGTTTTTTTCTGAACTCAGACTACGAAAAAATCTAAGATCGTGTAATTATAAGA
9915681 AATTTTAATTTCATAAATC
196 AATTTTAATTTCATAAATC
9915700 TA
1 TA
9915702 ACTAGCAAAG
Statistics
Matches: 215, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
213 205 0.95
214 10 0.05
ACGTcount: A:0.41, C:0.11, G:0.08, T:0.40
Consensus pattern (214 bp):
TATAATATATAAAAAATAAAAATAGTTTACAAAAATATAAAATGAATTGAGCTCCAACTTTTAAT
GTTTAAGCTTAAATCTTATTTATATATTAAACAATTTTTAAATTTTTTTATCCAAGCTTAATTTT
CGAATCTCGTATGTTTTTTTCTGAACTCAGACTACGAAAAAATCTAAGATCGTGTAATTATAAGA
AATTTTAATTTCATAAATC
Found at i:9916191 original size:36 final size:36
Alignment explanation
Indices: 9916143--9916213 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
9916133 ATCAAAGGCT
*
9916143 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
*
9916179 ATAATTAGAAGCTGTATACAATTAAAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGA
9916214 TTAAATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
Found at i:9920999 original size:36 final size:36
Alignment explanation
Indices: 9920951--9921021 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
9920941 ATCAAAGGCT
*
9920951 ATAATTAAAAGCTGTATACAATTAGAACTCTAAGAC
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
*
9920987 ATAATTAGAAGCTGTATACAATTAAAACTCTAAGA
1 ATAATTAAAAGCTGTATACAATTAAAACTCTAAGA
9921022 TTAAATAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.48, C:0.13, G:0.11, T:0.28
Consensus pattern (36 bp):
ATAATTAAAAGCTGTATACAATTAAAACTCTAAGAC
Found at i:9932103 original size:13 final size:13
Alignment explanation
Indices: 9932085--9932113 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9932075 GAAGTACTGT
9932085 GCATGGGTTTAAG
1 GCATGGGTTTAAG
9932098 GCATGGGTTTAAG
1 GCATGGGTTTAAG
9932111 GCA
1 GCA
9932114 GTTTAATTTC
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:0.24, C:0.10, G:0.38, T:0.28
Consensus pattern (13 bp):
GCATGGGTTTAAG
Found at i:9938384 original size:24 final size:26
Alignment explanation
Indices: 9938357--9938407 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
9938347 CTACCAAGCT
9938357 TTAAGCTAAAC-A-CATACCAAAACA
1 TTAAGCTAAACTATCATACCAAAACA
*
9938381 TTAAGCTAAGCTATCATACCAAAACA
1 TTAAGCTAAACTATCATACCAAAACA
9938407 T
1 T
9938408 GTACAAGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.49, C:0.24, G:0.06, T:0.22
Consensus pattern (26 bp):
TTAAGCTAAACTATCATACCAAAACA
Found at i:9940780 original size:17 final size:17
Alignment explanation
Indices: 9940758--9940791 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
9940748 TAGACCAATT
9940758 TTATACAATTATATATA
1 TTATACAATTATATATA
*
9940775 TTATACAATTTTATATA
1 TTATACAATTATATATA
9940792 CAAAATTTAA
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:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
TTATACAATTATATATA
Found at i:9942125 original size:24 final size:24
Alignment explanation
Indices: 9942096--9942147 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9942086 TTTCTAGAAG
* *
9942096 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
9942120 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
9942144 ATTT
1 ATTT
9942148 GACCTACGAA
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:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:9943580 original size:24 final size:24
Alignment explanation
Indices: 9943553--9943646 Score: 71
Period size: 24 Copynumber: 3.9 Consensus size: 24
9943543 CAACTCACAA
* *
9943553 GAGCGTCCCGTTATTAGCTCTCAT
1 GAGCTTCCCGATATTAGCTCTCAT
* * * *
9943577 GAGCATCCCAATATTGGCTCTCTT
1 GAGCTTCCCGATATTAGCTCTCAT
* * * *
9943601 CAGCTTCCTGATATATGGCTCTCAC
1 GAGCTTCCCGATAT-TAGCTCTCAT
* *
9943626 GAGCTTCCCGTTAATAGCTCT
1 GAGCTTCCCGATATTAGCTCT
9943647 TTTGAGTATC
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
24 35 0.66
25 18 0.34
ACGTcount: A:0.19, C:0.30, G:0.18, T:0.33
Consensus pattern (24 bp):
GAGCTTCCCGATATTAGCTCTCAT
Found at i:9943739 original size:25 final size:25
Alignment explanation
Indices: 9943711--9943854 Score: 123
Period size: 27 Copynumber: 5.6 Consensus size: 25
9943701 TTTATGAGTG
*
9943711 TCCCGA-TATATGGCTCTTTGGAGCT
1 TCCCGATTA-ATGGCTCTTTTGAGCT
*
9943736 TCCCGATTAAAGGCTCTTTCATGAGCT
1 TCCCGATTAATGGCTCTTT--TGAGCT
*
9943763 TCCCGATTAAAGGCTCTTTAATGAGCT
1 TCCCGATTAATGGCTCTTT--TGAGCT
***
9943790 TCCCGATTAATGGCTCTCCAGAGCT
1 TCCCGATTAATGGCTCTTTTGAGCT
* ***
9943815 ACCCGA-TAATGGCTCACATGAGCT
1 TCCCGATTAATGGCTCTTTTGAGCT
9943839 TCCCG-TTATATGGCTC
1 TCCCGATTA-ATGGCTC
9943855 GAGAGAGAGC
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
24 21 0.21
25 32 0.31
26 2 0.02
27 47 0.46
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (25 bp):
TCCCGATTAATGGCTCTTTTGAGCT
Found at i:9943767 original size:27 final size:26
Alignment explanation
Indices: 9943731--9943843 Score: 133
Period size: 27 Copynumber: 4.4 Consensus size: 26
9943721 TGGCTCTTTG
9943731 GAGCTTCCCGATTAAAGGCTCTTTCAT
1 GAGCTTCCCGATTAAAGGCTC-TTCAT
*
9943758 GAGCTTCCCGATTAAAGGCTCTTTAAT
1 GAGCTTCCCGATTAAAGGCTC-TTCAT
* *
9943785 GAGCTTCCCGATTAATGGCTCTCCA-
1 GAGCTTCCCGATTAAAGGCTCTTCAT
* * *
9943810 GAGCTACCCGA-TAATGGCTC-ACAT
1 GAGCTTCCCGATTAAAGGCTCTTCAT
9943834 GAGCTTCCCG
1 GAGCTTCCCG
9943844 TTATATGGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
23 2 0.03
24 18 0.23
25 10 0.13
26 2 0.03
27 46 0.59
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (26 bp):
GAGCTTCCCGATTAAAGGCTCTTCAT
Found at i:9943767 original size:52 final size:51
Alignment explanation
Indices: 9943711--9943829 Score: 136
Period size: 52 Copynumber: 2.3 Consensus size: 51
9943701 TTTATGAGTG
*
9943711 TCCCGATATATGGCTCTTT-GGAGCTTCCCGATTAAAGGCTCTTTCATGAGCT
1 TCCCGATATATGGCTCTTTAGGAGCTTCCCGATTAAAGGCTC-TCCA-GAGCT
* * *
9943763 TCCCGAT-TAAAGGCTCTTTAATGAGCTTCCCGATTAATGGCTCTCCAGAGCT
1 TCCCGATAT-ATGGCTCTTT-AGGAGCTTCCCGATTAAAGGCTCTCCAGAGCT
*
9943815 ACCCGATA-ATGGCTC
1 TCCCGATATATGGCTC
9943830 ACATGAGCTT
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
51 7 0.12
52 27 0.47
53 3 0.05
54 20 0.35
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (51 bp):
TCCCGATATATGGCTCTTTAGGAGCTTCCCGATTAAAGGCTCTCCAGAGCT
Found at i:9943940 original size:39 final size:39
Alignment explanation
Indices: 9943886--9943964 Score: 133
Period size: 39 Copynumber: 2.0 Consensus size: 39
9943876 GTGCTCGTAA
9943886 AAGCATTCCCGAATATGAATTGATAGG-TTACAGATTTAT
1 AAGCATTCCCGAATATGAATTGA-AGGATTACAGATTTAT
*
9943925 AAGCATTCCCGAATATGAATTGACGGATTACAGATTTAT
1 AAGCATTCCCGAATATGAATTGAAGGATTACAGATTTAT
9943964 A
1 A
9943965 CACTTCATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (39 bp):
AAGCATTCCCGAATATGAATTGAAGGATTACAGATTTAT
Found at i:9948172 original size:368 final size:368
Alignment explanation
Indices: 9947495--9948232 Score: 1458
Period size: 368 Copynumber: 2.0 Consensus size: 368
9947485 GGTACAGGTA
9947495 TGTACGAAACCTATGTGGTTGATGATATTGTGTATGAGGTAGAAGCAATAGTATGAGAATGAATG
1 TGTACGAAACCTATGTGGTTGATGATATTGTGTATGAGGTAGAAGCAATAGTATGAGAATGAATG
9947560 AATATGGTTGAATAAGTTGGAATGGATAGAAATAAATATACTTGCATGTGAGCTAAAAGAAATGG
66 AATATGGTTGAATAAGTTGGAATGGATAGAAATAAATATACTTGCATGTGAGCTAAAAGAAATGG
9947625 TATGAAATGAGTAATAGTTATGAATGGGATTGAGTAGTGATATGGATTGAACTATGTGTTAGCAA
131 TATGAAATGAGTAATAGTTATGAATGGGATTGAGTAGTGATATGGATTGAACTATGTGTTAGCAA
*
9947690 ATATGTCATATAGCATTTTAAATGATGAGTTAAATGTATTATATTATGAATTTACTAAGCTCTAA
196 ATATGTCACATAGCATTTTAAATGATGAGTTAAATGTATTATATTATGAATTTACTAAGCTCTAA
9947755 GCTTATTGTGTGAAGTTTTCTCTGTTTTACAGTGTTATAAAGCTAGCTCGGATCTGAGGATCGTC
261 GCTTATTGTGTGAAGTTTTCTCTGTTTTACAGTGTTATAAAGCTAGCTCGGATCTGAGGATCGTC
9947820 AATGACTCAATCACACTATCGAACATCTATTTTGGTACCTTTT
326 AATGACTCAATCACACTATCGAACATCTATTTTGGTACCTTTT
9947863 TGTACGAAACCTATGTGGTTGATGATATTGTGTATGAGGTAGAAGCAATAGTATGAGAATGAATG
1 TGTACGAAACCTATGTGGTTGATGATATTGTGTATGAGGTAGAAGCAATAGTATGAGAATGAATG
9947928 AATATGGTTGAATAAGTTGGAATGGATAGAAATAAATATACTTGCATGTGAGCTAAAAGAAATGG
66 AATATGGTTGAATAAGTTGGAATGGATAGAAATAAATATACTTGCATGTGAGCTAAAAGAAATGG
9947993 TATGAAATGAGTAATAGTTATGAATGGGATTGAGTAGTGATATGGATTGAACTATGTGTTAGCAA
131 TATGAAATGAGTAATAGTTATGAATGGGATTGAGTAGTGATATGGATTGAACTATGTGTTAGCAA
*
9948058 ATATGTTACATAGCATTTTAAATGATGAGTTAAATGTATTATATTATGAATTTACTAAGCTCTAA
196 ATATGTCACATAGCATTTTAAATGATGAGTTAAATGTATTATATTATGAATTTACTAAGCTCTAA
9948123 GCTTATTGTGTGAAGTTTTCTCTGTTTTACAGTGTTATAAAGCTAGCTCGGATCTGAGGATCGTC
261 GCTTATTGTGTGAAGTTTTCTCTGTTTTACAGTGTTATAAAGCTAGCTCGGATCTGAGGATCGTC
9948188 AATGACTCAATCACACTATCGAACATCTATTTTGGTACCTTTT
326 AATGACTCAATCACACTATCGAACATCTATTTTGGTACCTTTT
9948231 TG
1 TG
9948233 AAATGTATAT
Statistics
Matches: 368, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
368 368 1.00
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.35
Consensus pattern (368 bp):
TGTACGAAACCTATGTGGTTGATGATATTGTGTATGAGGTAGAAGCAATAGTATGAGAATGAATG
AATATGGTTGAATAAGTTGGAATGGATAGAAATAAATATACTTGCATGTGAGCTAAAAGAAATGG
TATGAAATGAGTAATAGTTATGAATGGGATTGAGTAGTGATATGGATTGAACTATGTGTTAGCAA
ATATGTCACATAGCATTTTAAATGATGAGTTAAATGTATTATATTATGAATTTACTAAGCTCTAA
GCTTATTGTGTGAAGTTTTCTCTGTTTTACAGTGTTATAAAGCTAGCTCGGATCTGAGGATCGTC
AATGACTCAATCACACTATCGAACATCTATTTTGGTACCTTTT
Found at i:9949364 original size:12 final size:12
Alignment explanation
Indices: 9949334--9949366 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
9949324 AGATAATGTA
*
9949334 GGAGATCAAGAT
1 GGAGATGAAGAT
9949346 GGAGATGAAGAT
1 GGAGATGAAGAT
9949358 GGAGATGAA
1 GGAGATGAA
9949367 TATGAAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.39, T:0.15
Consensus pattern (12 bp):
GGAGATGAAGAT
Found at i:9949599 original size:4 final size:4
Alignment explanation
Indices: 9949590--9949631 Score: 75
Period size: 4 Copynumber: 10.5 Consensus size: 4
9949580 TATCAAAATA
*
9949590 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT ATGT TT
1 TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT TTGT TT
9949632 ATAAAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.02, C:0.00, G:0.24, T:0.74
Consensus pattern (4 bp):
TTGT
Done.