Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 57 of 216
Found at i:16747573 original size:96 final size:95
Alignment explanation
Indices: 16747422--16747631 Score: 269
Period size: 96 Copynumber: 2.2 Consensus size: 95
16747412 AATGTGATTG
* *
16747422 GCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCAG
1 GCACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAACGGTAACATGATCAG
*
16747487 CATAAAACCATCAGTAACAGTGA-TATGATC
66 CACAAAACCATCAGTAACAGT-ATTATGATC
* * * ** * * *
16747517 AGCACACAGCCATCAGTAACAGTGAAATGATTGGCACACAGCCATTGGTAATGGTAATATGATCG
1 -GCACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAACGGTAACATGATCA
*
16747582 GCACAAAACCATCAGTAACGGTATTATGATC
65 GCACAAAACCATCAGTAACAGTATTATGATC
*
16747613 GACACAAATCCATCAGTAA
1 G-CACAAAGCCATCAGTAA
16747632 TGGTACTACG
Statistics
Matches: 98, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
95 2 0.02
96 96 0.98
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.20
Consensus pattern (95 bp):
GCACAAAGCCATCAGTAACAGTGAAATGATCGGCACACAACCATCAGTAACGGTAACATGATCAG
CACAAAACCATCAGTAACAGTATTATGATC
Found at i:16747649 original size:96 final size:96
Alignment explanation
Indices: 16747422--16747662 Score: 254
Period size: 96 Copynumber: 2.5 Consensus size: 96
16747412 AATGTGATTG
* * * *
16747422 GCACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCAG
1 GCACAAAGCCATCAGTAACAGTGAAACGATCGGCACACAGCCATCAGTAACGGTAACATGATCAG
*
16747487 CATAAAACCATCAGTAACAGTGATATGATCA
66 CACAAAACCATCAGTAACAGTGATATGATCA
* * * ** * * *
16747518 GCACACAGCCATCAGTAACAGTGAAATGATTGGCACACAGCCATTGGTAATGGTAATATGATCGG
1 GCACAAAGCCATCAGTAACAGTGAAACGATCGGCACACAGCCATCAGTAACGGTAACATGATCAG
*
16747583 CACAAAACCATCAGTAACGGT-ATTATGATC-
66 CACAAAACCATCAGTAACAGTGA-TATGATCA
* ** * * *
16747613 GACACAAATCCATCAGTAATGGT-ACTACGGTCGGCACAAAGCCATCAGTA
1 G-CACAAAGCCATCAGTAACAGTGA-AACGATCGGCACACAGCCATCAGTA
16747663 GCATCGCAGC
Statistics
Matches: 119, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
95 3 0.03
96 116 0.97
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (96 bp):
GCACAAAGCCATCAGTAACAGTGAAACGATCGGCACACAGCCATCAGTAACGGTAACATGATCAG
CACAAAACCATCAGTAACAGTGATATGATCA
Found at i:16747697 original size:26 final size:26
Alignment explanation
Indices: 16747668--16747719 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
16747658 CAGTAGCATC
16747668 GCAGCAAAGCTGCCAGTAAAAATATA
1 GCAGCAAAGCTGCCAGTAAAAATATA
*
16747694 GCAGCAAAGCTGCCAGTAATAATATA
1 GCAGCAAAGCTGCCAGTAAAAATATA
16747720 TGTGGCCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.17
Consensus pattern (26 bp):
GCAGCAAAGCTGCCAGTAAAAATATA
Found at i:16747864 original size:24 final size:23
Alignment explanation
Indices: 16747833--16747915 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
16747823 GCCATGCTCA
16747833 AAATCAGTCATTCAAATCACAGAC
1 AAATCAGTCATTCAAA-CACAGAC
* *
16747857 AAATCAGTCATACCAAACATAGAC
1 AAATCAGTCAT-TCAAACACAGAC
* * * *
16747881 AAATCAATCATTTAACCATAGAC
1 AAATCAGTCATTCAAACACAGAC
* *
16747904 AAAACAATCATT
1 AAATCAGTCATT
16747916 TAACCTCGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 20 0.39
24 27 0.53
25 4 0.08
ACGTcount: A:0.49, C:0.23, G:0.06, T:0.22
Consensus pattern (23 bp):
AAATCAGTCATTCAAACACAGAC
Found at i:16747904 original size:23 final size:23
Alignment explanation
Indices: 16747874--16747920 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
16747864 TCATACCAAA
*
16747874 CATAGACAAATCAATCATTTAAC
1 CATAGACAAAACAATCATTTAAC
16747897 CATAGACAAAACAATCATTTAAC
1 CATAGACAAAACAATCATTTAAC
16747920 C
1 C
16747921 TCGAGGGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.23, G:0.04, T:0.23
Consensus pattern (23 bp):
CATAGACAAAACAATCATTTAAC
Found at i:16748018 original size:27 final size:26
Alignment explanation
Indices: 16747936--16748069 Score: 175
Period size: 26 Copynumber: 5.1 Consensus size: 26
16747926 GGAAAAAATA
16747936 GTCA-TTTACCC-ACCAGGGCATTACG
1 GTCATTTTACCCTA-CAGGGCATTACG
*
16747961 GTCATTTTACCCTACAGGGGATTACG
1 GTCATTTTACCCTACAGGGCATTACG
16747987 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
*
16748014 ATCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGG-CATTACG
* *
16748041 GT-ATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACA-GGGCATTACG
16748067 GTC
1 GTC
16748070 CAAATATCGA
Statistics
Matches: 97, Mismatches: 6, Indels: 10
0.86 0.05 0.09
Matches are distributed among these distances:
25 4 0.04
26 57 0.59
27 36 0.37
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:16748019 original size:53 final size:54
Alignment explanation
Indices: 16747936--16748066 Score: 180
Period size: 53 Copynumber: 2.5 Consensus size: 54
16747926 GGAAAAAATA
* * *
16747936 GTCA-TTTACCC-ACCAGGGCATTACGGTCATTTTACCCTACAGGG-GATTACG
1 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTACG
16747987 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTACG
* * *
16748041 GT-ATTTTATCCTACAGGGGTATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
16748067 GTCCAAATAT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
51 4 0.06
52 7 0.10
53 52 0.73
54 8 0.11
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (54 bp):
GTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTACG
Found at i:16754880 original size:13 final size:13
Alignment explanation
Indices: 16754862--16754891 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
16754852 TATAAAATTA
*
16754862 TAAAATATTTTCT
1 TAAAATATTTTAT
16754875 TAAAATATTTTAT
1 TAAAATATTTTAT
16754888 TAAA
1 TAAA
16754892 TTCAAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (13 bp):
TAAAATATTTTAT
Found at i:16756095 original size:15 final size:15
Alignment explanation
Indices: 16756047--16756096 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
16756037 ATCATGTTTA
*
16756047 CACTTTCATTTTGAT
1 CACTTTCATTTTGGT
16756062 CAC--TCAACTTTTAGGT
1 CACTTTC-A-TTTT-GGT
16756078 CACTTTCATTTTGGT
1 CACTTTCATTTTGGT
16756093 CACT
1 CACT
16756097 AAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 10
0.73 0.03 0.25
Matches are distributed among these distances:
13 2 0.07
14 1 0.03
15 14 0.48
16 9 0.31
17 1 0.03
18 2 0.07
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.46
Consensus pattern (15 bp):
CACTTTCATTTTGGT
Found at i:16756909 original size:29 final size:29
Alignment explanation
Indices: 16756877--16756936 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
16756867 AGAATTGGAT
* *
16756877 CAAATTAAAATTTCATGTATAAAATTGCA
1 CAAAATAAAAGTTCATGTATAAAATTGCA
* *
16756906 CAAAATCAAAGTTCATGTATACAATTGCA
1 CAAAATAAAAGTTCATGTATAAAATTGCA
16756935 CA
1 CA
16756937 TTAAACCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.08, T:0.30
Consensus pattern (29 bp):
CAAAATAAAAGTTCATGTATAAAATTGCA
Found at i:16759843 original size:45 final size:45
Alignment explanation
Indices: 16759794--16759988 Score: 291
Period size: 45 Copynumber: 4.3 Consensus size: 45
16759784 TCGGCCATGG
* * * *
16759794 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
* *
16759839 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
* * * *
16759884 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAG
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
*
16759929 TGCTTCCTTAATTTGTTCCATAAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
16759974 TGCTTCCTTAATTTC
1 TGCTTCCTTAATTTC
16759989 ATGCCGTTCA
Statistics
Matches: 136, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 136 1.00
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (45 bp):
TGCTTCCTTAATTTCTTCCATAAATTATGCATGATGTTGGTCAAA
Found at i:16760351 original size:20 final size:20
Alignment explanation
Indices: 16760328--16760374 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
16760318 AACTGAGCTT
*
16760328 GAATGAGCTGACTTGAGCAC
1 GAATGAGCTAACTTGAGCAC
*
16760348 GAATGAGCTAACTTGAGCTC
1 GAATGAGCTAACTTGAGCAC
16760368 GAATGAG
1 GAATGAG
16760375 TTGAACCACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (20 bp):
GAATGAGCTAACTTGAGCAC
Found at i:16762109 original size:29 final size:29
Alignment explanation
Indices: 16762054--16762132 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
16762044 AATTAAATTG
*
16762054 AATCAAAATCCATGTATAAAATCACACAA
1 AATCAAAATCCATATATAAAATCACACAA
* ** * *
16762083 AATCAAAGTCCATATATAGCATTACACATTG
1 AATCAAAATCCATATATAAAATCACACA--A
*
16762114 AATCAAAATTCATATATAA
1 AATCAAAATCCATATATAA
16762133 TTTTGATATT
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 23 0.59
31 16 0.41
ACGTcount: A:0.51, C:0.18, G:0.05, T:0.27
Consensus pattern (29 bp):
AATCAAAATCCATATATAAAATCACACAA
Found at i:16775964 original size:22 final size:21
Alignment explanation
Indices: 16775911--16775964 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
16775901 ATTAAATATG
*
16775911 ATTAAAATAAAAATAATAGAA
1 ATTAAATTAAAAATAATAGAA
**
16775932 A-TAGCTGTAAAAATAAATAGAA
1 ATTAAAT-TAAAAAT-AATAGAA
16775954 ATTAAATTAAA
1 ATTAAATTAAA
16775965 TCGAATAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 5
0.71 0.14 0.14
Matches are distributed among these distances:
20 2 0.08
21 8 0.32
22 12 0.48
23 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (21 bp):
ATTAAATTAAAAATAATAGAA
Found at i:16779691 original size:16 final size:16
Alignment explanation
Indices: 16779670--16779708 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
16779660 TTTTAATAAA
16779670 ATTAAAACTAATTATT
1 ATTAAAACTAATTATT
* *
16779686 ATTAAAATTAATTGTT
1 ATTAAAACTAATTATT
*
16779702 AGTAAAA
1 ATTAAAA
16779709 TCATCAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTAAAACTAATTATT
Found at i:16779694 original size:22 final size:23
Alignment explanation
Indices: 16779641--16779696 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
16779631 CCCGTTTTTA
* *
16779641 ATTAAAATTAAAATTATATTTTT
1 ATTAAAATTAAAACTATATTATT
*
16779664 AATAAAATTAAAACTA-ATTATT
1 ATTAAAATTAAAACTATATTATT
16779686 ATTAAAATTAA
1 ATTAAAATTAA
16779697 TTGTTAGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 15 0.52
23 14 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
ATTAAAATTAAAACTATATTATT
Found at i:16782375 original size:20 final size:20
Alignment explanation
Indices: 16782350--16782387 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16782340 TTTCCTCTGC
16782350 GTTTAT-TTATTTATTTTTGT
1 GTTTATCTTATTT-TTTTTGT
16782370 GTTTATCTTATTTTTTTT
1 GTTTATCTTATTTTTTTT
16782388 CTCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.13, C:0.03, G:0.08, T:0.76
Consensus pattern (20 bp):
GTTTATCTTATTTTTTTTGT
Found at i:16783932 original size:14 final size:14
Alignment explanation
Indices: 16783915--16783958 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
16783905 AATCATATAT
16783915 TTTATGTTTAAATA
1 TTTATGTTTAAATA
*
16783929 TTTA--TTTAAAAA
1 TTTATGTTTAAATA
*
16783941 ATTATGTTTAAATA
1 TTTATGTTTAAATA
16783955 TTTA
1 TTTA
16783959 CTCGGCTTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
12 10 0.42
14 14 0.58
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (14 bp):
TTTATGTTTAAATA
Found at i:16788495 original size:18 final size:19
Alignment explanation
Indices: 16788474--16788513 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
16788464 ATCTTTCTTT
16788474 TCTCTCAAGTCTCTTAA-C
1 TCTCTCAAGTCTCTTAAGC
* *
16788492 TCTCTCAATTTTCTTAAGC
1 TCTCTCAAGTCTCTTAAGC
16788511 TCT
1 TCT
16788514 TGTTCTGAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (19 bp):
TCTCTCAAGTCTCTTAAGC
Found at i:16792558 original size:23 final size:23
Alignment explanation
Indices: 16792511--16792561 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
16792501 ACCTACTTTC
* * *
16792511 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGAGATA
*
16792534 TTACAGTAGTAATTTTTGAGATA
1 TTACAGTAGTAATTTTCGAGATA
16792557 TTACA
1 TTACA
16792562 ACTACACAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:16795488 original size:21 final size:21
Alignment explanation
Indices: 16795462--16795517 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
16795452 AACAGCGGTG
*
16795462 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGATACTATA
* *
16795483 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTATA
16795504 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
16795518 AACAGCGGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTATA
Found at i:16796297 original size:113 final size:113
Alignment explanation
Indices: 16796099--16796326 Score: 402
Period size: 113 Copynumber: 2.0 Consensus size: 113
16796089 AGAATATATC
16796099 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
1 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
* * *
16796164 TTTATTACAGTTCTTAATACAATATATGATTACTATCAGTGTGTTGTG
66 TATATTACAGTTCTTAATACAACATATGATTACTATCAGTATGTTGTG
* *
16796212 CCCATACCTATTCCTAATATATGCCGAAACATGTAATTTACGGTAAAACAAGAGTCCAGGTAGCA
1 CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
*
16796277 TATATTACAGTTTTTAATACAACATATGATTACTATCAGTATGTTGTG
66 TATATTACAGTTCTTAATACAACATATGATTACTATCAGTATGTTGTG
16796325 CC
1 CC
16796327 ATGATTGAAG
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.32
Consensus pattern (113 bp):
CCCATACCTATTCCAAATATATGCCGAAACATGTAATTTACAGTAAAACAAGAGTCCAGGTAGCA
TATATTACAGTTCTTAATACAACATATGATTACTATCAGTATGTTGTG
Found at i:16802271 original size:44 final size:44
Alignment explanation
Indices: 16802223--16802335 Score: 199
Period size: 44 Copynumber: 2.6 Consensus size: 44
16802213 GTTTTAATCC
*
16802223 GCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCT
16802267 GCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCT
1 GCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCT
* *
16802311 ACTCCACTTCAACTTCAAGGAGATA
1 GCTCCACTGCAACTTCAAGGAGATA
16802336 AGAATGGATG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 66 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGCTTCAGTCT
Found at i:16802419 original size:44 final size:44
Alignment explanation
Indices: 16802215--16802425 Score: 160
Period size: 44 Copynumber: 4.9 Consensus size: 44
16802205 GATTCATCGT
* *
16802215 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTAGTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
* * * *
16802259 TTCAGTCTGCTCCACTGCAACTTCAAGGAGATAGGATTAGTAGC
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
* * * * * * *
16802303 TTCAGTCTACTCCACTTCAACTTCAAGGAGATAAGA--A-TGGA
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
* * * * * * * * * *
16802344 TGTGATTTACTCTACTACAACTTTAGAGAGATAAGATCT-GTGGT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-TAGTAGC
* *
16802388 TTTAATCCGCTCCACTGCAACTTCAGGGAGATAGGATT
1 TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATT
16802426 CGCCATTGCG
Statistics
Matches: 133, Mismatches: 30, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
41 28 0.21
42 1 0.01
43 1 0.01
44 103 0.77
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (44 bp):
TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTAGTAGC
Found at i:16802530 original size:50 final size:50
Alignment explanation
Indices: 16802439--16803055 Score: 404
Period size: 50 Copynumber: 12.4 Consensus size: 50
16802429 CATTGCGGTC
* * * * *
16802439 TCAATTGCAATGTCAGGGAA-CACGATTCGCAGTCGTAGCTTTAATCTTT
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * * * *
16802488 TCCACTGCACTGCCAGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTTT
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * **
16802538 TTAATTGCAATGTCAGGGAA-CAAGATTCGCAGTTGTAGCTTCAGTCTGA
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * * * * *
16802587 TCCACTAC-ATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCAATCTTT
1 TCAATTGCAAT-GTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * *
16802637 TTAATTGCAATGTCGGGGAA-CAAGATTCGCCATT-TGAGCTTTAATCTGT
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTG-GCTTCAATCTTT
* * *** * *
16802686 TCCACTGCAACACCAGGGAAGTAAGATTCGCCGTTGCGGCTTCAATCTTT
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * * *
16802736 TAAATTGCAATATTAGGGAAGCAAGATTCACCGTTGCGGCTTCAATATTT
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * ** * * **
16802786 TAAATTGCAATATCAGGGAAGCAAGATTCACCGTCATAGCTTTAATCTGC
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * ** * *
16802836 TCCATTGTACTGCCAGGGAAGTGAGATTCGCTGTTGTGGCTTCAATATTT
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * **
16802886 TTAATTGCAATGTCGGGGAA-CAAGATTCGCTGTTGTAGCTTCAATCTGA
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * * * *
16802935 TCCACTGC-ATCGCCAGGAAAGTAAGACTT-GCCGTTGTGGCTTCAATCTTT
1 TCAATTGCAAT-GTCAGGGAAGCAAGA-TTCGCCGTTGTGGCTTCAATCTTT
* * * * * **
16802985 TTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGC
1 TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
* * *
16803035 TCCACTGCACTGTCAGGGAAG
1 TCAATTGCAATGTCAGGGAAG
16803056 GTAACTTCAT
Statistics
Matches: 419, Mismatches: 137, Indels: 23
0.72 0.24 0.04
Matches are distributed among these distances:
48 5 0.01
49 118 0.28
50 289 0.69
51 7 0.02
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (50 bp):
TCAATTGCAATGTCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTT
Found at i:16802612 original size:99 final size:98
Alignment explanation
Indices: 16802441--16802764 Score: 434
Period size: 99 Copynumber: 3.3 Consensus size: 98
16802431 TTGCGGTCTC
* * *
16802441 AATTGCAATGTCAGGGAACACGATTCGCAGTCGTAGCTTTAATCTTTTCCACTGCACTGCCAGGG
1 AATTGCAATGTCAGGGAACAAGATTCGCAGTTGTAGCTTTAATCTGTTCCACTGCAC-GCCAGGG
* * *
16802506 AAGTAAGATTCACCGTTGTGGCTTTAATCTTTTT
65 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTT
* * * * *
16802540 AATTGCAATGTCAGGGAACAAGATTCGCAGTTGTAGCTTCAGTCTGATCCACTACATCGCCAGGA
1 AATTGCAATGTCAGGGAACAAGATTCGCAGTTGTAGCTTTAATCTGTTCCACTGCA-CGCCAGGG
*
16802605 AAGTAAGATTCGTCGTTGCGGCTTCAATCTTTTT
65 AAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTT
* * *
16802639 AATTGCAATGTCGGGGAACAAGATTCGCCATTTG-AGCTTTAATCTGTTCCACTGCAACACCAGG
1 AATTGCAATGTCAGGGAACAAGATTCG-CAGTTGTAGCTTTAATCTGTTCCACTGC-ACGCCAGG
*
16802703 GAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTA
64 GAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTT
* *
16802738 AATTGCAATATTAGGGAAGCAAGATTC
1 AATTGCAATGTCAGGGAA-CAAGATTC
16802765 ACCGTTGCGG
Statistics
Matches: 196, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
99 181 0.92
100 15 0.08
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (98 bp):
AATTGCAATGTCAGGGAACAAGATTCGCAGTTGTAGCTTTAATCTGTTCCACTGCACGCCAGGGA
AGTAAGATTCGCCGTTGCGGCTTCAATCTTTTT
Found at i:16802911 original size:249 final size:248
Alignment explanation
Indices: 16802501--16803018 Score: 670
Period size: 249 Copynumber: 2.1 Consensus size: 248
16802491 ACTGCACTGC
* * * * * *
16802501 CAGGGAAGTAAGATTCACCGTTGTGGCTTTAATCTTTTTAATTGCAATGTCAGGGAACAAGATTC
1 CAGGGAAGCAAGATTCACCGTTGCGGCTTCAATATTTTAAATTGCAATATCAGGGAACAAGATTC
* ** *
16802566 GCAGTTGTAGCTTCAGTCTGATCCACTACATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCA
66 ACAGTCATAGCTTCAATCTGATCCACTACATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCA
* * *
16802631 ATCTTTTTAATTGCAATGTCGGGGAACAAGATTCGCCAT-TTG-AGCTTTAATCTGTTCCACTGC
131 ATATTTTTAATTGCAATGTCGGGGAACAAGATTCG-C-TGTTGTAGCTTCAATCTGATCCACTGC
*
16802694 AACACCAGGGAAGTAAGA-TTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATAT
194 AACACCAGGAAAGTAAGACTT-GCCGTTGCGGCTTCAATCTTTTAAATTGCAATAT
*
16802749 TAGGGAAGCAAGATTCACCGTTGCGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAGATT
1 CAGGGAAGCAAGATTCACCGTTGCGGCTTCAATATTTTAAATTGCAATATCAGGGAA-CAAGATT
* * * * * * *
16802814 CACCGTCATAGCTTTAATCTGCTCCATTGTAC-T-GCCAGGGAAGTGAGATTCG-CTGTTGTGGC
65 CACAGTCATAGCTTCAATCTGATCCA--CTACATCGCCAGGAAAGTAAGATTCGTC-GTTGCGGC
16802876 TTCAATATTTTTAATTGCAATGTCGGGGAACAAGATTCGCTGTTGTAGCTTCAATCTGATCCACT
127 TTCAATATTTTTAATTGCAATGTCGGGGAACAAGATTCGCTGTTGTAGCTTCAATCTGATCCACT
* * * * *
16802941 GCATCGCCAGGAAAGTAAGACTTGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
192 GCAACACCAGGAAAGTAAGACTTGCCGTTGCGGCTTCAATCTTTTAAATTGCAATAT
* *
16802998 CGGGGAAGCAAGATTCGCCGT
1 CAGGGAAGCAAGATTCACCGT
16803019 CGTAGCTTTA
Statistics
Matches: 233, Mismatches: 30, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
247 1 0.00
248 55 0.24
249 171 0.73
250 3 0.01
251 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (248 bp):
CAGGGAAGCAAGATTCACCGTTGCGGCTTCAATATTTTAAATTGCAATATCAGGGAACAAGATTC
ACAGTCATAGCTTCAATCTGATCCACTACATCGCCAGGAAAGTAAGATTCGTCGTTGCGGCTTCA
ATATTTTTAATTGCAATGTCGGGGAACAAGATTCGCTGTTGTAGCTTCAATCTGATCCACTGCAA
CACCAGGAAAGTAAGACTTGCCGTTGCGGCTTCAATCTTTTAAATTGCAATAT
Found at i:16802971 original size:99 final size:100
Alignment explanation
Indices: 16802758--16803051 Score: 387
Period size: 99 Copynumber: 3.0 Consensus size: 100
16802748 TTAGGGAAGC
* * * * * * *
16802758 AAGATTCACCGTTGCGGCTTCAATATTTTAAATTGCAATATCAGGGAAGCAAGATTCACCGTCAT
1 AAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGT
* * *
16802823 AGCTTTAATCTGCTCCATTGTACTGCCAGGGAAGT
66 AGCTTTAATCTGCTCCACTGCACTGCCAGGAAAGT
* * * *
16802858 GAGATTCGCTGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAA-CAAGATTCGCTGTTGT
1 AAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGT
* *
16802922 AGCTTCAATCTGATCCACTGCA-TCGCCAGGAAAGT
66 AGCTTTAATCTGCTCCACTGCACT-GCCAGGAAAGT
*
16802957 AAGACTT-GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCG
1 AAGA-TTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCG
*
16803021 TAGCTTTAATCTGCTCCACTGCACTGTCAGG
65 TAGCTTTAATCTGCTCCACTGCACTGCCAGG
16803052 GAAGGTAACT
Statistics
Matches: 166, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
98 1 0.01
99 82 0.49
100 82 0.49
101 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.31
Consensus pattern (100 bp):
AAGATTCGCCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTCGT
AGCTTTAATCTGCTCCACTGCACTGCCAGGAAAGT
Found at i:16803394 original size:24 final size:24
Alignment explanation
Indices: 16803340--16803397 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
16803330 TGGATTGCCC
16803340 CCACTGTAATCTTCAAAGCTCAAT
1 CCACTGTAATCTTCAAAGCTCAAT
** * * *
16803364 CTGCTGTAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGCTCAAT
16803388 CCACTGTAAT
1 CCACTGTAAT
16803398 TTTGGGACAT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGCTCAAT
Found at i:16804290 original size:5 final size:5
Alignment explanation
Indices: 16804280--16804327 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
16804270 TGGCCTCTCA
* *
16804280 TTTTC TTTTC TTTT- TTCAT- TTTTC TTTTC TTTTC TTTTC GTTTC TTTT
1 TTTTC TTTTC TTTTC TT-TTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
16804328 TTCAAGTGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
4 3 0.08
5 34 0.92
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (5 bp):
TTTTC
Found at i:16814911 original size:18 final size:17
Alignment explanation
Indices: 16814878--16814916 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
16814868 TTTTATAAAT
16814878 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
16814896 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
16814913 TGTG
1 TGTG
16814917 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:16815169 original size:23 final size:23
Alignment explanation
Indices: 16815142--16815240 Score: 153
Period size: 23 Copynumber: 4.3 Consensus size: 23
16815132 AGTGTTATTG
16815142 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16815165 TTCAGTGGTAACTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* *
16815188 ATCAATGGTAGCTTCAGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
16815211 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
16815234 ATTAGTG
1 ATCAGTG
16815241 TGGCACTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:16819891 original size:17 final size:18
Alignment explanation
Indices: 16819869--16819902 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16819859 AATATGTTTT
*
16819869 GTTTTTTGAAA-TTTTAG
1 GTTTTTAGAAACTTTTAG
16819886 GTTTTTAGAAACTTTTA
1 GTTTTTAGAAACTTTTA
16819903 TAATTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (18 bp):
GTTTTTAGAAACTTTTAG
Found at i:16819942 original size:20 final size:20
Alignment explanation
Indices: 16819919--16819957 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
16819909 TATAAAAAAA
*
16819919 TTAAAAATTTTATGGATTTT
1 TTAAAAATTTTAGGGATTTT
16819939 TTAAAAATTTTAGGGATTT
1 TTAAAAATTTTAGGGATTT
16819958 CTTTGCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (20 bp):
TTAAAAATTTTAGGGATTTT
Found at i:16820254 original size:9 final size:9
Alignment explanation
Indices: 16820242--16820266 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16820232 TTTTTTTAGT
16820242 TTTTTAAAA
1 TTTTTAAAA
16820251 TTTTTAAAA
1 TTTTTAAAA
16820260 TTTTTAA
1 TTTTTAA
16820267 GTGAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:16823216 original size:19 final size:20
Alignment explanation
Indices: 16823184--16823222 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
16823174 TTAAATATAA
16823184 ATTTTGCAACTTTTATAAAAT
1 ATTTTGCAACTTTTA-AAAAT
16823205 ATTTTG-AA-TTTTAAAAAT
1 ATTTTGCAACTTTTAAAAAT
16823223 TTTAAAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.28
19 5 0.28
20 2 0.11
21 6 0.33
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
ATTTTGCAACTTTTAAAAAT
Found at i:16827616 original size:13 final size:13
Alignment explanation
Indices: 16827580--16827617 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
16827570 AAATAAACAA
16827580 TTAATAGAATCAG
1 TTAATAGAATCAG
16827593 TTAATCA-AATCAG
1 TTAAT-AGAATCAG
16827606 TTAATAGAATCA
1 TTAATAGAATCA
16827618 ATTGGTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.04
13 21 0.91
14 1 0.04
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (13 bp):
TTAATAGAATCAG
Found at i:16830955 original size:20 final size:22
Alignment explanation
Indices: 16830910--16830957 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
16830900 AAATGAACAT
* *
16830910 ATAAATAAATATATAAATGAAC
1 ATAAATAAATATATAAAGGAAA
16830932 ATAAA-AAATA-ATAAAGGAAA
1 ATAAATAAATATATAAAGGAAA
16830952 ATAAAT
1 ATAAAT
16830958 GAAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 13 0.57
21 5 0.22
22 5 0.22
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.23
Consensus pattern (22 bp):
ATAAATAAATATATAAAGGAAA
Found at i:16831233 original size:2 final size:2
Alignment explanation
Indices: 16831228--16831252 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16831218 ACAAATTTAA
16831228 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16831253 GATGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16831269 original size:3 final size:3
Alignment explanation
Indices: 16831261--16831335 Score: 55
Period size: 3 Copynumber: 24.7 Consensus size: 3
16831251 TAGATGAAGA
* * *
16831261 AAT AAT AAT AAT AACT AAT AAT AAC AAT AAT AAT AAA AGAT GAT AA-
1 AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
* * *
16831307 AAT ATT AAA AAT AAT GAAG AA- AAT AAT AA
1 AAT AAT AAT AAT AAT -AAT AAT AAT AAT AA
16831336 AAATGCTAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 10
0.73 0.14 0.13
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:16832323 original size:20 final size:21
Alignment explanation
Indices: 16832300--16832346 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
16832290 GTTTTTGGTC
*
16832300 TGGGTTTTAATTTT-TCT-TTT
1 TGGGTTGTAATTTTAT-TGTTT
*
16832320 TGGGCTGTAATTTTATTGTTT
1 TGGGTTGTAATTTTATTGTTT
16832341 TGGGTT
1 TGGGTT
16832347 AGGTCTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.11, C:0.04, G:0.23, T:0.62
Consensus pattern (21 bp):
TGGGTTGTAATTTTATTGTTT
Found at i:16837566 original size:32 final size:32
Alignment explanation
Indices: 16837526--16837604 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
16837516 AATGTAAATT
**
16837526 ATTAATTTATTATATTT-TAAGTAA-ATTTTTA
1 ATTAATTTATTATATTTATAA-TAATATTTAAA
* *
16837557 TTGTAATTTATAATATTTATAATAATATTTAAA
1 AT-TAATTTATTATATTTATAATAATATTTAAA
16837590 ATTAATTTATTATAT
1 ATTAATTTATTATAT
16837605 AAAATAAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
31 1 0.03
32 29 0.74
33 9 0.23
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (32 bp):
ATTAATTTATTATATTTATAATAATATTTAAA
Found at i:16842812 original size:26 final size:25
Alignment explanation
Indices: 16842753--16842829 Score: 75
Period size: 26 Copynumber: 2.9 Consensus size: 25
16842743 GATAACATTG
16842753 AATTTTTAAATTTTTATATTTTTAA
1 AATTTTTAAATTTTTATATTTTTAA
*
16842778 AATCATTTTTAATTTTT-TATTTTTAA
1 AAT--TTTTAAATTTTTATATTTTTAA
**
16842804 AGAGTTTTTATCTTTTTCATATTTTT
1 A-A-TTTTTAAATTTTT-ATATTTTT
16842830 TTAAATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
25 3 0.07
26 19 0.45
27 12 0.29
28 8 0.19
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.65
Consensus pattern (25 bp):
AATTTTTAAATTTTTATATTTTTAA
Found at i:16845146 original size:43 final size:43
Alignment explanation
Indices: 16845081--16845210 Score: 131
Period size: 43 Copynumber: 3.0 Consensus size: 43
16845071 TAGGATCTCC
*
16845081 GATATGTGTTTTCGTGTAAGACCACGTCTGGGATGTTGGCATT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGATGTTGGCATT
* * *
16845124 GACT-TGTGTTTACGTGTAAGACC-CTGTATGGGATAG-TGACATC
1 GA-TATGTGTTTACGTGTAAGACCAC-GTCTGGGAT-GTTGGCATT
* * * * *
16845167 GATATGTGATTACATGTAAGATCACGTCTTGGACGTTGGCATT
1 GATATGTGTTTACGTGTAAGACCACGTCTGGGATGTTGGCATT
16845210 G
1 G
16845211 TACGAGCTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
42 3 0.04
43 63 0.91
44 3 0.04
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (43 bp):
GATATGTGTTTACGTGTAAGACCACGTCTGGGATGTTGGCATT
Found at i:16850211 original size:41 final size:42
Alignment explanation
Indices: 16850155--16850262 Score: 121
Period size: 43 Copynumber: 2.6 Consensus size: 42
16850145 TTAATGCCAC
* *
16850155 GTCCTAGACAGGGTCTTATACGAATCATA-TACGATGCCAAT
1 GTCCTAGACATGGTCTTACACGAATCATACTACGATGCCAAT
** * *
16850196 GT-CTCAGACATGGTCTTACACGTTTTCTTACTTCGATGCCAAT
1 GTCCT-AGACATGGTCTTACACG-AATCATACTACGATGCCAAT
*
16850239 GTCCTAGACATGGTTTTACACGAA
1 GTCCTAGACATGGTCTTACACGAA
16850263 ATCACACCTC
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
40 2 0.04
41 17 0.31
42 4 0.07
43 29 0.54
44 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (42 bp):
GTCCTAGACATGGTCTTACACGAATCATACTACGATGCCAAT
Found at i:16850436 original size:31 final size:31
Alignment explanation
Indices: 16850385--16850911 Score: 211
Period size: 31 Copynumber: 17.2 Consensus size: 31
16850375 CCAATGTTAA
* * *
16850385 AATC-AATTTAGCAATATATATTGATATACG
1 AATCAAATTCAGCAATGTATATTCATATACG
* * *
16850415 AACCAAATTCAGCAATGTATATTTATATACA
1 AATCAAATTCAGCAATGTATATTCATATACG
* * **
16850446 AATC-AATTCGGCAACGTATAACCATATACG
1 AATCAAATTCAGCAATGTATATTCATATACG
* * * **
16850476 AATCAAGTTCGGCAATGTATAATCATATAAA
1 AATCAAATTCAGCAATGTATATTCATATACG
* * ** *
16850507 AATTAAATTCAGTAATGTATAACCATATACA
1 AATCAAATTCAGCAATGTATATTCATATACG
* *
16850538 AATC-AATTCGGCAACT-TATATCCATATAC-
1 AATCAAATTCAGCAA-TGTATATTCATATACG
* * ** * *
16850567 AATTCAATTTCAACAATGTATAACCATGTACA
1 AA-TCAAATTCAGCAATGTATATTCATATACG
* * * * * *
16850599 AATTAATTTTAGCAATATATAATCATATACA
1 AATCAAATTCAGCAATGTATATTCATATACG
*
16850630 AATC-AATTCAGCAACT-TATATCCATATAC-
1 AATCAAATTCAGCAA-TGTATATTCATATACG
* * ** *
16850659 AATTCAATTTCAACAATGTATAACCATATACA
1 AA-TCAAATTCAGCAATGTATATTCATATACG
* * * * **
16850691 AATTAATTTCAGAAATGTACAACCATATACG
1 AATCAAATTCAGCAATGTATATTCATATACG
* *
16850722 AATC-AATTCGGCAACT-TATATCCATATAC-
1 AATCAAATTCAGCAA-TGTATATTCATATACG
* ** **
16850751 AATTCAATTTCAGCAATGTATAACCATATAAA
1 AA-TCAAATTCAGCAATGTATATTCATATACG
* ** * * *
16850783 AATTAGTTTCAACAATGTACAATT-ATATACA
1 AATCAAATTCAGCAATGTA-TATTCATATACG
* *
16850814 AATC-AATTCGGCAACT-TATATCCATATAC-
1 AATCAAATTCAGCAA-TGTATATTCATATACG
* * ** *
16850843 AATTCAATTTCAACAATGTATAACCATATACA
1 AA-TCAAATTCAGCAATGTATATTCATATACG
* * * * * * *
16850875 AATTAATTTTAGTAATGTACAATCATATACA
1 AATCAAATTCAGCAATGTATATTCATATACG
16850906 AATCAA
1 AATCAA
16850912 TTAAACAACT
Statistics
Matches: 387, Mismatches: 86, Indels: 47
0.74 0.17 0.09
Matches are distributed among these distances:
29 10 0.03
30 110 0.28
31 258 0.67
32 9 0.02
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (31 bp):
AATCAAATTCAGCAATGTATATTCATATACG
Found at i:16850491 original size:61 final size:61
Alignment explanation
Indices: 16850384--16850913 Score: 442
Period size: 61 Copynumber: 8.6 Consensus size: 61
16850374 TCCAATGTTA
* * *** * * * ***
16850384 AAATCAATTTAGCAATATATATTGATATACGAACCAAATTCAGCAATGTATATTTATATAC
1 AAATCAATTCAGCAATGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
* * * * * * *
16850445 AAATCAATTCGGCAACGTATAACCATATACGAATCAAGTTCGGCAATGTATAATCATATAA
1 AAATCAATTCAGCAATGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
* * * *
16850506 AAATTAAATTCAGTAATGTATAACCATATACAAATCAA-TTCGGCAACT-TATATCCATATAC
1 AAA-TCAATTCAGCAATGTATAACCATATACAAATCAATTTCAGCAA-TGTATAACCATATAC
* * * * * * *
16850567 AATTCAATTTCAACAATGTATAACCATGTACAAATTAATTTTAGCAATATATAATCATATAC
1 AAATCAA-TTCAGCAATGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
* * *
16850629 AAATCAATTCAGCAACT-TATATCCATATACAATTCAATTTCAACAATGTATAACCATATAC
1 AAATCAATTCAGCAA-TGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
* * * * * *
16850690 AAATTAATTTCAGAAATGTACAACCATATACGAATCAA-TTCGGCAACT-TATATCCATATAC
1 AAATCAA-TTCAGCAATGTATAACCATATACAAATCAATTTCAGCAA-TGTATAACCATATAC
* * * * * * **
16850751 AATTCAATTTCAGCAATGTATAACCATATAAAAATTAGTTTCAACAATGTACAATTATATAC
1 AAATCAA-TTCAGCAATGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
* * * *
16850813 AAATCAATTCGGCAACT-TATATCCATATACAATTCAATTTCAACAATGTATAACCATATAC
1 AAATCAATTCAGCAA-TGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
* * * * *
16850874 AAATTAATTTTAGTAATGTACAATCATATACAAATCAATT
1 AAATCAA-TTCAGCAATGTATAACCATATACAAATCAATT
16850914 AAACAACTCA
Statistics
Matches: 373, Mismatches: 82, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
60 3 0.01
61 247 0.66
62 123 0.33
ACGTcount: A:0.44, C:0.17, G:0.07, T:0.32
Consensus pattern (61 bp):
AAATCAATTCAGCAATGTATAACCATATACAAATCAATTTCAGCAATGTATAACCATATAC
Found at i:16850552 original size:92 final size:92
Alignment explanation
Indices: 16850422--16850967 Score: 716
Period size: 92 Copynumber: 5.9 Consensus size: 92
16850412 ACGAACCAAA
* * * * * *
16850422 TTCAGCAATGTATATTTATATACAAATCAATTCGGCAACGTATAACCATATACGAA-TCAAGTTC
1 TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATAC-AATTCAATTTC
** * * *
16850486 GGCAATGTATAATCATATAAAAATTAAA
65 AACAATGTATAACCATATACAAATTAAT
* * *
16850514 TTCAGTAATGTATAACCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
*
16850579 ACAATGTATAACCATGTACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
* * * *
16850606 TTTAGCAATATATAATCATATACAAATCAATTCAGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
16850671 ACAATGTATAACCATATACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
* * *
16850698 TTCAGAAATGTACAACCATATACGAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
* * *
16850763 GCAATGTATAACCATATAAAAATTAGT
66 ACAATGTATAACCATATACAAATTAAT
* *
16850790 TTCAACAATGTACAATTATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
1 TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
16850855 ACAATGTATAACCATATACAAATTAAT
66 ACAATGTATAACCATATACAAATTAAT
* * *** * * * * *
16850882 TTTAGTAATGTACAATCATATACAAATCAATTAAACAACTCATATCCACATGCAAATCAATTTCG
1 TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
* * *
16850947 ATAATGTATAACTATAAACAA
66 ACAATGTATAACCATATACAA
16850968 TTCGAATTTG
Statistics
Matches: 401, Mismatches: 52, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
91 2 0.00
92 399 1.00
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.32
Consensus pattern (92 bp):
TTCAGCAATGTACAATCATATACAAATCAATTCGGCAACTTATATCCATATACAATTCAATTTCA
ACAATGTATAACCATATACAAATTAAT
Found at i:16850944 original size:276 final size:276
Alignment explanation
Indices: 16850439--16850967 Score: 799
Period size: 276 Copynumber: 1.9 Consensus size: 276
16850429 ATGTATATTT
* *
16850439 ATATACAAATCAATTCGGCAACGTATAACCATATACGAATCAAGTTCGGCAATGTATAATCATAT
1 ATATACAAATCAATTCGGCAACGTATAACCATATACGAATCAAGTTCAGCAATGTATAACCATAT
** *
16850504 AAAAATTAAATTCAGTAATGTATAACCATATACAAATCAATTCGGCAACTTATATCCATATACAA
66 AAAAATTAAATTCAACAATGTACAACCATATACAAATCAATTCGGCAACTTATATCCATATACAA
* *
16850569 TTCAATTTCAACAATGTATAACCATGTACAAATTAATTTTAGCAATATATAATCATATACAAATC
131 TTCAATTTCAACAATGTATAACCATATACAAATTAATTTTAGCAATATACAATCATATACAAATC
* * * * * *
16850634 AATTCAGCAACTTATATCCATATACAATTCAATTTCAACAATGTATAACCATATACAAATTAATT
196 AATTAAACAACTCATATCCACATACAAATCAATTTCAACAATGTATAACCATAAACAAATTAATT
16850699 TCAGAAATGTACAACC
261 TCAGAAATGTACAACC
* * * *
16850715 ATATACGAATCAATTCGGCAACTTATATCCATATAC-AATTCAATTTCAGCAATGTATAACCATA
1 ATATACAAATCAATTCGGCAACGTATAACCATATACGAA-TCAAGTTCAGCAATGTATAACCATA
** **
16850779 TAAAAATTAGTTTCAACAATGTACAATTATATACAAATCAATTCGGCAACTTATATCCATATACA
65 TAAAAATTAAATTCAACAATGTACAACCATATACAAATCAATTCGGCAACTTATATCCATATACA
* *
16850844 ATTCAATTTCAACAATGTATAACCATATACAAATTAATTTTAGTAATGTACAATCATATACAAAT
130 ATTCAATTTCAACAATGTATAACCATATACAAATTAATTTTAGCAATATACAATCATATACAAAT
* * * *
16850909 CAATTAAACAACTCATATCCACATGCAAATCAATTTCGATAATGTATAACTATAAACAA
195 CAATTAAACAACTCATATCCACATACAAATCAATTTCAACAATGTATAACCATAAACAA
16850968 TTCGAATTTG
Statistics
Matches: 225, Mismatches: 27, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
275 2 0.01
276 223 0.99
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.31
Consensus pattern (276 bp):
ATATACAAATCAATTCGGCAACGTATAACCATATACGAATCAAGTTCAGCAATGTATAACCATAT
AAAAATTAAATTCAACAATGTACAACCATATACAAATCAATTCGGCAACTTATATCCATATACAA
TTCAATTTCAACAATGTATAACCATATACAAATTAATTTTAGCAATATACAATCATATACAAATC
AATTAAACAACTCATATCCACATACAAATCAATTTCAACAATGTATAACCATAAACAAATTAATT
TCAGAAATGTACAACC
Found at i:16850987 original size:25 final size:24
Alignment explanation
Indices: 16850959--16851012 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
16850949 AATGTATAAC
* *
16850959 TATAAACAATTCGAATTTGGAAATA
1 TATAAACAA-TCAAATTCGGAAATA
*
16850984 TATAAAACAATCAAATTCGGAAATG
1 TAT-AAACAATCAAATTCGGAAATA
16851009 TATA
1 TATA
16851013 TCTATAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.04
25 18 0.72
26 6 0.24
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (24 bp):
TATAAACAATCAAATTCGGAAATA
Found at i:16853327 original size:23 final size:22
Alignment explanation
Indices: 16853256--16853364 Score: 125
Period size: 23 Copynumber: 5.0 Consensus size: 22
16853246 CCTGATCAGT
16853256 ATACGACACAT-AAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
****
16853277 A-ACGACACACGTTGTGCCT-A
1 ATACGACACATAAAGTGCCTGA
16853297 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
*
16853319 GATACGACACATAAAGTGCTTGA
1 -ATACGACACATAAAGTGCCTGA
*
16853342 TGTACGACACATAAAGTGCCTGA
1 -ATACGACACATAAAGTGCCTGA
16853365 TCGACAAAGC
Statistics
Matches: 73, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
20 10 0.14
21 21 0.29
22 1 0.01
23 41 0.56
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (22 bp):
ATACGACACATAAAGTGCCTGA
Found at i:16853614 original size:36 final size:37
Alignment explanation
Indices: 16853560--16853636 Score: 104
Period size: 36 Copynumber: 2.1 Consensus size: 37
16853550 AAATTCATAT
* *
16853560 TTCAATTCAATTTCACTTTTTCACTTTCAA-TCACAA
1 TTCAATTCAATTTCACTTTTCCACTTTCAAGTCAAAA
*
16853596 TTCAATTCAAATTT-ACTTTTCCATTTTCAAGTCAAAA
1 TTCAATTC-AATTTCACTTTTCCACTTTCAAGTCAAAA
16853633 TTCA
1 TTCA
16853637 TTTTAATTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 22 0.61
37 14 0.39
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.44
Consensus pattern (37 bp):
TTCAATTCAATTTCACTTTTCCACTTTCAAGTCAAAA
Found at i:16854362 original size:11 final size:11
Alignment explanation
Indices: 16854342--16854371 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16854332 AAAAATTTAG
16854342 TTTTTCCTTTT
1 TTTTTCCTTTT
*
16854353 TTTTTTCTTTT
1 TTTTTCCTTTT
16854364 TTTTTCCT
1 TTTTTCCT
16854372 GCTCTGTTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTCCTTTT
Found at i:16855237 original size:13 final size:13
Alignment explanation
Indices: 16855212--16855250 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
16855202 ATTATTTTTT
16855212 TAATTTT-AAATA
1 TAATTTTAAAATA
16855224 TAATTTTAAAATA
1 TAATTTTAAAATA
16855237 TACA-TTTAAAATA
1 TA-ATTTTAAAATA
16855250 T
1 T
16855251 TATAAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 7 0.28
13 17 0.68
14 1 0.04
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (13 bp):
TAATTTTAAAATA
Found at i:16855334 original size:13 final size:12
Alignment explanation
Indices: 16855316--16855348 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
16855306 ATGTTTTATA
16855316 ATATTAAAAAATT
1 ATATTAAAAAA-T
16855329 ATATTAAAAAAT
1 ATATTAAAAAAT
16855341 AT-TTAAAA
1 ATATTAAAA
16855349 CATACATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 3 0.15
13 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
ATATTAAAAAAT
Found at i:16855375 original size:13 final size:13
Alignment explanation
Indices: 16855341--16855377 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
16855331 ATTAAAAAAT
* *
16855341 ATTTAAAACATAC
1 ATTTAAAATATAA
16855354 ATTTAAAATATAA
1 ATTTAAAATATAA
16855367 ATTTAAAATAT
1 ATTTAAAATAT
16855378 TATAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (13 bp):
ATTTAAAATATAA
Found at i:16855403 original size:36 final size:35
Alignment explanation
Indices: 16855336--16855404 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
16855326 ATTATATTAA
* * *
16855336 AAAATATTTAAAACATACATTTAAAATATAAATTT
1 AAAATATTTAAAACATACAATAAAAAAATAAATTT
16855371 AAAATATTATAAAAC-TAACAATAAAAAAATAAAT
1 AAAATATT-TAAAACAT-ACAATAAAAAAATAAAT
16855405 AAAACAAACA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 9 0.31
36 20 0.69
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (35 bp):
AAAATATTTAAAACATACAATAAAAAAATAAATTT
Found at i:16855421 original size:37 final size:35
Alignment explanation
Indices: 16855390--16855486 Score: 92
Period size: 36 Copynumber: 2.7 Consensus size: 35
16855380 TAAAACTAAC
16855390 AATAAA-A-AAATAAATAAAACAAACAAATAAAATA
1 AATAAAGATAAATAAATAAAA-AAACAAATAAAATA
* *
16855424 AATAAAGGATAAATAAATAAAAAAACTGAA-AAAGTA
1 AATAAA-GATAAATAAATAAAAAAAC-AAATAAAATA
* *
16855460 AATAAAGAAAAACAAAATAAATAAAAC
1 AATAAAGATAAA-TAAATAAA-AAAAC
16855487 GAAAAAGGAC
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
34 6 0.11
35 5 0.09
36 23 0.43
37 19 0.36
ACGTcount: A:0.75, C:0.05, G:0.05, T:0.14
Consensus pattern (35 bp):
AATAAAGATAAATAAATAAAAAAACAAATAAAATA
Found at i:16856280 original size:15 final size:15
Alignment explanation
Indices: 16856262--16856303 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
16856252 CATATATATA
16856262 AAAAATTCGAAAAA-T
1 AAAAATT-GAAAAATT
*
16856277 AAAAATTAAAAAATT
1 AAAAATTGAAAAATT
16856292 AAAAATTGAAAA
1 AAAAATTGAAAA
16856304 TATAGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.21
Consensus pattern (15 bp):
AAAAATTGAAAAATT
Found at i:16856474 original size:17 final size:18
Alignment explanation
Indices: 16856442--16856484 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
16856432 ATGTGTTTTT
16856442 ATTTTT-TTATTGTTTGA
1 ATTTTTATTATTGTTTGA
16856459 ATTTTTATTATT-TTTGA
1 ATTTTTATTATTGTTTGA
*
16856476 AATTTTATT
1 ATTTTTATT
16856485 TATATTCAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (18 bp):
ATTTTTATTATTGTTTGA
Found at i:16856487 original size:18 final size:19
Alignment explanation
Indices: 16856442--16856487 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
16856432 ATGTGTTTTT
16856442 ATTTT-TTTATTGTTTGAA
1 ATTTTATTTATTGTTTGAA
*
16856460 TTTTTA-TTATT-TTTGAA
1 ATTTTATTTATTGTTTGAA
16856477 ATTTTATTTAT
1 ATTTTATTTAT
16856488 ATTCAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.70
Consensus pattern (19 bp):
ATTTTATTTATTGTTTGAA
Found at i:16863593 original size:29 final size:29
Alignment explanation
Indices: 16863558--16863768 Score: 162
Period size: 29 Copynumber: 7.2 Consensus size: 29
16863548 TCATCGACCA
16863558 ATGAAAAGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* * * *
16863587 ATGAAAAGGGAT-GGTGACGACCATCGAATT
1 ATGAAAAGGGATAGCT-TCGGCTATCG-ATT
*
16863617 ATGAAAAGGGATAGCTTCGGCTATAGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
* *
16863646 ATGAAAAGGGAT-GGTGAT-GGCCATCGAATT
1 ATGAAAAGGGATAGCT--TCGGCTATCG-ATT
* * *
16863676 ATGTAAAGGGATAGCTTTGACTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
** * * * * *
16863705 ATGAAAAAAGAT-GGTGACGACCATCAATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGATT
*
16863734 ATGAAAAGGGAAAGC-TCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATT
*
16863762 ACGAAAA
1 ATGAAAA
16863769 AAGATGGTGA
Statistics
Matches: 139, Mismatches: 33, Indels: 21
0.72 0.17 0.11
Matches are distributed among these distances:
28 21 0.15
29 71 0.51
30 43 0.31
31 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATT
Found at i:16863634 original size:59 final size:59
Alignment explanation
Indices: 16863558--16863861 Score: 416
Period size: 59 Copynumber: 5.2 Consensus size: 59
16863548 TCATCGACCA
16863558 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * *
16863617 ATGAAAAGGGATAGCTTCGGCTATAGATTATGAAAAGGGATGGTGATGGCCATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * **
16863676 ATGTAAAGGGATAGCTTTGACTATCGATTATGAAAAAAGATGGTGACGACCATC-AATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * ** *
16863734 ATGAAAAGGGAAAGC-TCGGCTATCGATTACGAAAAAAGATGGTGACGACCATTGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
* * * * * *
16863792 ATGAAAAGGGATAACTTTGACTATTGATTATAAAAAGGGATGGTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
16863850 ATGAAAAGGGAT
1 ATGAAAAGGGAT
16863862 GGTGACGACC
Statistics
Matches: 215, Mismatches: 28, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
57 34 0.16
58 49 0.23
59 132 0.61
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (59 bp):
ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATT
Found at i:16863810 original size:116 final size:117
Alignment explanation
Indices: 16863558--16863860 Score: 430
Period size: 116 Copynumber: 2.6 Consensus size: 117
16863548 TCATCGACCA
* * *
16863558 ATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCGAATTATGAAA
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATC-AATTATGAAA
* * ** * *
16863623 AGGGATAGCTTCGGCTATAGATTATGAAAAGGGATGGTGATGGCCATCGAATT
65 AGGGAAAGCTTCGGCTATAGATTACGAAAAAAGATGGTGACGACCATCGAATT
* *
16863676 ATGTAAAGGGATAGCTTTGACTATCGATTATGAAAAAAGATGGTGACGACCATCAATTATGAAAA
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATCAATTATGAAAA
* *
16863741 GGGAAAGC-TCGGCTATCGATTACGAAAAAAGATGGTGACGACCATTGAATT
66 GGGAAAGCTTCGGCTATAGATTACGAAAAAAGATGGTGACGACCATCGAATT
* * *
16863792 ATGAAAAGGGATAACTTTGACTATTGATTAT-AAAAAGGGATGGTGACGACCATCAACTATGAAA
1 ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAA-GGATGGTGACGACCATCAATTATGAAA
16863856 AGGGA
65 AGGGA
16863861 TGGTGACGAC
Statistics
Matches: 166, Mismatches: 18, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
115 5 0.03
116 94 0.57
117 18 0.11
118 49 0.30
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.24
Consensus pattern (117 bp):
ATGAAAAGGGATAGCTTTGACTATCGATTATGAAAAAGGATGGTGACGACCATCAATTATGAAAA
GGGAAAGCTTCGGCTATAGATTACGAAAAAAGATGGTGACGACCATCGAATT
Found at i:16864170 original size:21 final size:20
Alignment explanation
Indices: 16864133--16864171 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16864123 CTACAATTTG
*
16864133 AAAAATTCTAACTTTTTCCC
1 AAAAATTCTAACATTTTCCC
16864153 AAAAATTCTATACATTTTC
1 AAAAATTCTA-ACATTTTC
16864172 TATTTAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATTCTAACATTTTCCC
Found at i:16866957 original size:18 final size:18
Alignment explanation
Indices: 16866934--16866970 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
16866924 AATTCTTTTC
16866934 TTTCTATTATATTAGTAT
1 TTTCTATTATATTAGTAT
*
16866952 TTTCTATTCTATTAGTAT
1 TTTCTATTATATTAGTAT
16866970 T
1 T
16866971 AAATTAGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTCTATTATATTAGTAT
Found at i:16866970 original size:6 final size:6
Alignment explanation
Indices: 16866961--16867031 Score: 59
Period size: 5 Copynumber: 13.2 Consensus size: 6
16866951 TTTTCTATTC
* * *
16866961 TATTAG TATTA- AATTAG TATT-C TATT-C TATTAG TATTAG -ATTAG
1 TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG TATTAG
16867005 TATTAG --TTAG -ATTAG -ATTAG TATTAG T
1 TATTAG TATTAG TATTAG TATTAG TATTAG T
16867032 TAGTGATCCC
Statistics
Matches: 56, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
4 4 0.07
5 27 0.48
6 25 0.45
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (6 bp):
TATTAG
Found at i:16866983 original size:27 final size:27
Alignment explanation
Indices: 16866938--16867008 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
16866928 CTTTTCTTTC
*
16866938 TATTATATTAGTATTTTCTATTCTATTAG
1 TATTAAATTAGTA--TTCTATTCTATTAG
16866967 TATTAAATTAGTATTCTATTCTATTAG
1 TATTAAATTAGTATTCTATTCTATTAG
*
16866994 TATTAGATTAGTATT
1 TATTAAATTAGTATT
16867009 AGTTAGATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 28 0.70
29 12 0.30
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (27 bp):
TATTAAATTAGTATTCTATTCTATTAG
Found at i:16867003 original size:11 final size:11
Alignment explanation
Indices: 16866989--16867035 Score: 73
Period size: 11 Copynumber: 4.5 Consensus size: 11
16866979 ATTCTATTCT
16866989 ATTAGTATTAG
1 ATTAGTATTAG
16867000 ATTAGTATTAG
1 ATTAGTATTAG
16867011 -TTAG-ATTAG
1 ATTAGTATTAG
16867020 ATTAGTATTAG
1 ATTAGTATTAG
16867031 -TTAGT
1 ATTAGT
16867036 GATCCCGGCT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 5 0.15
10 13 0.38
11 16 0.47
ACGTcount: A:0.34, C:0.00, G:0.19, T:0.47
Consensus pattern (11 bp):
ATTAGTATTAG
Found at i:16867020 original size:20 final size:21
Alignment explanation
Indices: 16866990--16867035 Score: 85
Period size: 20 Copynumber: 2.2 Consensus size: 21
16866980 TTCTATTCTA
16866990 TTAGTATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
16867011 TTAG-ATTAGATTAGTATTAG
1 TTAGTATTAGATTAGTATTAG
16867031 TTAGT
1 TTAGT
16867036 GATCCCGGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.33, C:0.00, G:0.20, T:0.48
Consensus pattern (21 bp):
TTAGTATTAGATTAGTATTAG
Found at i:16871322 original size:29 final size:29
Alignment explanation
Indices: 16871290--16871580 Score: 195
Period size: 29 Copynumber: 10.0 Consensus size: 29
16871280 TCGGCTATCG
* **
16871290 ATTATGAAAAGGAATGGTGACAACCATCA
1 ATTATGAAAAGGGATGGTGATGACCATCA
*
16871319 ATTATGAAAAGGGATGG-GACGACCATCGA
1 ATTATGAAAAGGGATGGTGATGACCATC-A
* * * * * **
16871348 AGTATGAAAAGGGATAGCT-TTGGCTATTG
1 ATTATGAAAAGGGAT-GGTGATGACCATCA
16871377 ATTATGAAAAGGGATGGTGATGACCATCA
1 ATTATGAAAAGGGATGGTGATGACCATCA
16871406 ATTATGAAAATGGG-TGGTGATGACCATCGA
1 ATTATGAAAA-GGGATGGTGATGACCATC-A
* * * * *
16871436 ATTATGAAAAGGGAAAGCT--TCGGCTATCG
1 ATTATGAAAAGGG-ATGGTGAT-GACCATCA
*
16871465 ATTATGAAAAGGGATGGTGATGACCATTGA
1 ATTATGAAAAGGGATGGTGATGACCA-TCA
* * * **
16871495 ATTATGAAAAGGGATAGCT--TCGGCTATTG
1 ATTATGAAAAGGGAT-GGTGAT-GACCATCA
*
16871524 ATTAT-AAAATGGGAAT-GTGACGACCATCA
1 ATTATGAAAA-GGG-ATGGTGATGACCATCA
* *
16871553 ACTATGAAAAGGGATGGTGACGACCATC
1 ATTATGAAAAGGGATGGTGATGACCATC
16871581 GTGATTCCAC
Statistics
Matches: 202, Mismatches: 40, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
28 21 0.10
29 127 0.63
30 50 0.25
31 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.24
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTGATGACCATCA
Found at i:16871468 original size:88 final size:87
Alignment explanation
Indices: 16871277--16871509 Score: 351
Period size: 88 Copynumber: 2.7 Consensus size: 87
16871267 AATAGGGATG
* **
16871277 GCTTCGGCTATCGATTATGAAAAGGAATGGTGACAACCATCAATTATGAAAAGGGATGGGACGAC
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATGGGACGAC
*
16871342 CATCGAAGTATGAAAAGGGATA
66 CATCGAAGTATGAAAAGGGAAA
* * *
16871364 GCTTTGGCTATTGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAATGGG-TGGTGATG
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAA-GGGATGG-GACG
*
16871428 ACCATCGAATTATGAAAAGGGAAA
64 ACCATCGAAGTATGAAAAGGGAAA
*
16871452 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATTATGAAAAGGGAT
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCA-TCAATTATGAAAAGGGAT
16871510 AGCTTCGGCT
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
87 50 0.38
88 68 0.52
89 13 0.10
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (87 bp):
GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAAGGGATGGGACGAC
CATCGAAGTATGAAAAGGGAAA
Found at i:16871514 original size:59 final size:58
Alignment explanation
Indices: 16871264--16871568 Score: 239
Period size: 59 Copynumber: 5.2 Consensus size: 58
16871254 TCATCGACCA
* * ** *
16871264 ATGAATAGGGATGGCTTCGGCTATCGATTATGAAAAGGAATGGTGACAACCA-TCAATT
1 ATGAAAAGGGAT-GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATT
*** * * * * * * *
16871322 ATGAAAAGGGATGGGACGACCATCGAAGTATGAAAAGGGATAGCT-TTGGCTATTG-ATT
1 ATGAAAAGGGATGCTTCGGCTATCG-ATTATGAAAAGGGAT-GGTGATGACCATTGAATT
* * * * *
16871380 ATGAAAAGGGATGGTGAT-GACCATCAATTATGAAAATGGG-TGGTGATGACCATCGAATT
1 ATGAAAAGGGATGCT--TCGGCTATCGATTATGAAAA-GGGATGGTGATGACCATTGAATT
*
16871439 ATGAAAAGGGAAAGCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATT
1 ATGAAAAGGG-ATGCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATT
* * * *
16871498 ATGAAAAGGGATAGCTTCGGCTATTGATTAT-AAAATGGGAAT-GTGACGACCA-TCAACT
1 ATGAAAAGGGAT-GCTTCGGCTATCGATTATGAAAA-GGG-ATGGTGATGACCATTGAATT
16871556 ATGAAAAGGGATG
1 ATGAAAAGGGATG
16871569 GTGACGACCA
Statistics
Matches: 198, Mismatches: 35, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
57 11 0.06
58 84 0.42
59 98 0.49
60 5 0.03
ACGTcount: A:0.36, C:0.11, G:0.28, T:0.25
Consensus pattern (58 bp):
ATGAAAAGGGATGCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATT
Found at i:16871528 original size:88 final size:87
Alignment explanation
Indices: 16871277--16871580 Score: 321
Period size: 88 Copynumber: 3.5 Consensus size: 87
16871267 AATAGGGATG
* * **
16871277 GCTTCGGCTATCGATTATGAAAAGGAATGGTGACAACCATCAATTATGAAAAGGGATGGGACGAC
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAATTATGAAAAGGGATGGTTCGAC
* *
16871342 CATCGAAGTATGAAAAGGGATA
66 CATCGAATTATGAAAAGGGAAA
* * *
16871364 GCTTTGGCTATTGATTATGAAAAGGGATGGTGATGACCATCAATTATGAAAATGGG-TGGTGAT-
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAATTATGAAAA-GGGATGGT--TC
16871427 GACCATCGAATTATGAAAAGGGAAA
63 GACCATCGAATTATGAAAAGGGAAA
* * *
16871452 GCTTCGGCTATCGATTATGAAAAGGGATGGTGATGACCATTGAATTATGAAAAGGGATAGCTTCG
1 GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCA-TCAATTATGAAAAGGGAT-GGTTCG
* * * *
16871517 GCTATTG-ATTAT-AAAATGGGAAT
64 ACCATCGAATTATGAAAA-GGGAAA
* * * * *
16871540 G-TGACGACCATCAACTATGAAAAGGGATGGTGACGACCATC
1 GCT-TCGGCTATCGATTATGAAAAGGGATGGTGACGACCATC
16871581 GTGATTCCAC
Statistics
Matches: 184, Mismatches: 24, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
87 56 0.30
88 108 0.59
89 18 0.10
90 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.28, T:0.25
Consensus pattern (87 bp):
GCTTCGGCTATCGATTATGAAAAGGGATGGTGACGACCATCAATTATGAAAAGGGATGGTTCGAC
CATCGAATTATGAAAAGGGAAA
Found at i:16872795 original size:21 final size:20
Alignment explanation
Indices: 16872758--16872796 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16872748 CTGCAGTTTG
*
16872758 AAAAATTCTAACTTTTTCCT
1 AAAAATTCTAACGTTTTCCT
16872778 AAAAATTCTAGACGTTTTC
1 AAAAATTCTA-ACGTTTTC
16872797 GATTTAGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.36, C:0.18, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAATTCTAACGTTTTCCT
Found at i:16881436 original size:19 final size:18
Alignment explanation
Indices: 16881409--16881447 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
16881399 ATCCCCACCA
16881409 TTAACTCTTTCATTACAAT
1 TTAACTC-TTCATTACAAT
*
16881428 TTAATTCTTCATTACAAT
1 TTAACTCTTCATTACAAT
16881446 TT
1 TT
16881448 TGTTCCCCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.18, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAACTCTTCATTACAAT
Found at i:16882006 original size:29 final size:29
Alignment explanation
Indices: 16881974--16882138 Score: 120
Period size: 29 Copynumber: 5.2 Consensus size: 29
16881964 ATAATATACC
* *
16881974 ACATAATATACATACAT-TAAACATGACAT
1 ACATAATATACAAACATACAAACAT-ACAT
*
16882003 ACATAATATACAAACATACAAATATACAT
1 ACATAATATACAAACATACAAACATACAT
16882032 ACATAATATA-ATAACAATACATAACATAACAT
1 ACATAATATACA-AAC-ATACA-AACAT-ACAT
16882064 ACATACAAATATACAAACATAACAATAAACATAACAT
1 ACAT---AATATACAAACAT-AC---AAACAT-ACAT
16882101 ACAT-ATATAACAATACATAACATAACATAACAT
1 ACATAATAT-ACAA-ACAT-ACA-AACAT-ACAT
16882134 ACATA
1 ACATA
16882139 CAAATATACA
Statistics
Matches: 115, Mismatches: 4, Indels: 29
0.78 0.03 0.20
Matches are distributed among these distances:
28 1 0.01
29 33 0.29
30 10 0.09
31 4 0.03
32 9 0.08
33 18 0.16
34 6 0.05
35 18 0.16
36 1 0.01
37 14 0.12
38 1 0.01
ACGTcount: A:0.58, C:0.18, G:0.01, T:0.24
Consensus pattern (29 bp):
ACATAATATACAAACATACAAACATACAT
Found at i:16882038 original size:70 final size:66
Alignment explanation
Indices: 16881956--16882259 Score: 251
Period size: 70 Copynumber: 4.6 Consensus size: 66
16881946 ATAGTCATAC
16881956 ACATAACAATAATATACCACATAATATACAT-ACATTAAACATGACATACATAATATACAAACAT
1 ACATAAC-ATAATATA--ACATAATATACATAACA-T-AACAT-ACATACA-AATATACAAACAT
*
16882020 -ACAAATAT
59 AAC-AATAA
*
16882028 ACAT-ACATAATAT-A-ATAACAATACATAACATAACATACATACAAATATACAAACATAACAAT
1 ACATAACATAATATAACATAA-TATACATAACATAACATACATACAAATATACAAACATAACAAT
16882090 AA
65 AA
* *
16882092 ACATAACATACATATATAACAATACATA-ACATAACATAACATACATACAAATATACAAGCACAA
1 ACATAACAT--A-ATATAAC-ATA-ATATACATAACATAACATACATACAAATATACAAACATAA
*
16882156 CAGTAA
61 CAATAA
* * * *
16882162 ACATAACAT-ACAT-ACA-AATATACA-AACATAACAGTA-A-ACATATCATCCACACATAACAA
1 ACATAACATAATATAACATAATATACATAACATAACA-TACATACAAAT-ATACAAACATAACAA
16882221 T--
64 TAA
*
16882222 ACATAACATAATAGTAAACATAACATACAT-ACATAACA
1 ACATAACATAATA-T-AACATAATATACATAACATAACA
16882260 AAACATAACA
Statistics
Matches: 197, Mismatches: 15, Indels: 47
0.76 0.06 0.18
Matches are distributed among these distances:
60 9 0.05
61 7 0.04
62 25 0.13
63 6 0.03
64 25 0.13
65 30 0.15
66 12 0.06
67 9 0.05
68 7 0.04
69 1 0.01
70 55 0.28
71 6 0.03
72 5 0.03
ACGTcount: A:0.57, C:0.19, G:0.02, T:0.22
Consensus pattern (66 bp):
ACATAACATAATATAACATAATATACATAACATAACATACATACAAATATACAAACATAACAATA
A
Found at i:16882104 original size:37 final size:37
Alignment explanation
Indices: 16882026--16882303 Score: 244
Period size: 37 Copynumber: 7.7 Consensus size: 37
16882016 ACATACAAAT
16882026 ATACATACATAATATA-ATAACA-ATAC-AT-AACATAAC
1 ATACATACA-AATATACA-AACATA-ACAATAAACATAAC
16882062 ATACATACAAATATACAAACATAACAATAAACATAAC
1 ATACATACAAATATACAAACATAACAATAAACATAAC
*
16882099 ATACAT--ATATA-ACAATACATAAC-AT-AACATAAC
1 ATACATACAAATATACAA-ACATAACAATAAACATAAC
* * *
16882132 ATACATACAAATATACAAGCACAACAGTAAACATAAC
1 ATACATACAAATATACAAACATAACAATAAACATAAC
* *
16882169 ATACATACAAATATACAAACATAACAGTAAACATATC
1 ATACATACAAATATACAAACATAACAATAAACATAAC
* * * * *
16882206 ATCCACACATAACAATACATAACATAATAGTAAACATAAC
1 ATACATACA-AA-TATACA-AACATAACAATAAACATAAC
*
16882246 ATACATAC--ATA-ACAAAACATAAC-AT--ACATAAT
1 ATACATACAAATATAC-AAACATAACAATAAACATAAC
* * *
16882278 ATACATAAAAATTTAAAAACATAACA
1 ATACATACAAATATACAAACATAACA
16882304 TACATACATA
Statistics
Matches: 202, Mismatches: 22, Indels: 37
0.77 0.08 0.14
Matches are distributed among these distances:
32 13 0.06
33 14 0.07
34 18 0.09
35 42 0.21
36 20 0.10
37 64 0.32
38 2 0.01
39 5 0.02
40 24 0.12
ACGTcount: A:0.59, C:0.19, G:0.01, T:0.21
Consensus pattern (37 bp):
ATACATACAAATATACAAACATAACAATAAACATAAC
Found at i:16882184 original size:107 final size:110
Alignment explanation
Indices: 16882054--16882250 Score: 319
Period size: 107 Copynumber: 1.8 Consensus size: 110
16882044 AACAATACAT
* *
16882054 AACATAACATACATACAAATATACAAACATAACAATAAACATAACATACATATATAACAATACAT
1 AACATAACATACATACAAATATACAAACATAACAATAAACATAACATACACACATAACAATACAT
16882119 AACATAACA-T-AACAT-ACATACAAATATACAAGCACAACAGTA
66 AACATAACAGTAAACATAACATACAAATATACAAGCACAACAGTA
* * *
16882161 AACATAACATACATACAAATATACAAACATAACAGTAAACATATCATCCACACATAACAATACAT
1 AACATAACATACATACAAATATACAAACATAACAATAAACATAACATACACACATAACAATACAT
*
16882226 AACATAATAGTAAACATAACATACA
66 AACATAACAGTAAACATAACATACA
16882251 TACATAACAA
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
107 68 0.84
108 1 0.01
109 5 0.06
110 7 0.09
ACGTcount: A:0.58, C:0.20, G:0.02, T:0.20
Consensus pattern (110 bp):
AACATAACATACATACAAATATACAAACATAACAATAAACATAACATACACACATAACAATACAT
AACATAACAGTAAACATAACATACAAATATACAAGCACAACAGTA
Found at i:16882940 original size:16 final size:16
Alignment explanation
Indices: 16882919--16882965 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
16882909 GTTTTCTTTC
16882919 AGATGAAGAATTGTTT
1 AGATGAAGAATTGTTT
*
16882935 AGATGAAGAATCGTTT
1 AGATGAAGAATTGTTT
16882951 AGATGAAGAATTGTT
1 AGATGAAGAATTGTT
16882966 CATATTTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (16 bp):
AGATGAAGAATTGTTT
Found at i:16896589 original size:16 final size:16
Alignment explanation
Indices: 16896570--16896602 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
16896560 ATTAATTTAA
16896570 TATTAAA-TCGATTATC
1 TATTAAAGT-GATTATC
16896586 TATTAAAGTGATTATC
1 TATTAAAGTGATTATC
16896602 T
1 T
16896603 TAATACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.36, C:0.09, G:0.09, T:0.45
Consensus pattern (16 bp):
TATTAAAGTGATTATC
Found at i:16905172 original size:13 final size:12
Alignment explanation
Indices: 16905140--16905173 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
16905130 TATCCAAATA
*
16905140 TATACTTTTATT
1 TATATTTTTATT
16905152 TATATTTTTATT
1 TATATTTTTATT
16905164 TATTATTTTT
1 TA-TATTTTT
16905174 TTTTTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TATATTTTTATT
Found at i:16910023 original size:25 final size:25
Alignment explanation
Indices: 16909981--16910028 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
16909971 CTCGCAGGAA
* *
16909981 CCATATAACGGGAAGCTCGAGAGGG
1 CCATATAACGAGAAGCTCAAGAGGG
* *
16910006 CCATATATCGAGATGCTCAAGAG
1 CCATATAACGAGAAGCTCAAGAG
16910029 TGCTAATAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.21, G:0.29, T:0.17
Consensus pattern (25 bp):
CCATATAACGAGAAGCTCAAGAGGG
Found at i:16910389 original size:21 final size:20
Alignment explanation
Indices: 16910363--16910411 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
16910353 TAAATTTAAC
* *
16910363 TCAATTTAATACGATTCATAA
1 TCAATTCAATACAATTCA-AA
*
16910384 TCAATTCAATTCAATTCAAA
1 TCAATTCAATACAATTCAAA
16910404 TCAATTCA
1 TCAATTCA
16910412 CATTCTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.43, C:0.18, G:0.02, T:0.37
Consensus pattern (20 bp):
TCAATTCAATACAATTCAAA
Found at i:16910407 original size:15 final size:16
Alignment explanation
Indices: 16910384--16910416 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
16910374 CGATTCATAA
*
16910384 TCAATTCAATTCA-AT
1 TCAAATCAATTCACAT
16910399 TCAAATCAATTCACAT
1 TCAAATCAATTCACAT
16910415 TC
1 TC
16910417 TAGGAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.36
Consensus pattern (16 bp):
TCAAATCAATTCACAT
Found at i:16910988 original size:28 final size:30
Alignment explanation
Indices: 16910935--16910990 Score: 73
Period size: 28 Copynumber: 1.9 Consensus size: 30
16910925 TATTTTATTA
*
16910935 TTTATCATATTTATTTTTCATCTTTCCAAT
1 TTTATCATATTTATTTTTAATCTTTCCAAT
16910965 TTTATCAT-TTT-TTTCTTAAT-TTTCCA
1 TTTATCATATTTATTT-TTAATCTTTCCA
16910991 TTGATAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 9 0.38
29 7 0.29
30 8 0.33
ACGTcount: A:0.21, C:0.16, G:0.00, T:0.62
Consensus pattern (30 bp):
TTTATCATATTTATTTTTAATCTTTCCAAT
Found at i:16917449 original size:61 final size:61
Alignment explanation
Indices: 16917375--16917513 Score: 188
Period size: 61 Copynumber: 2.3 Consensus size: 61
16917365 TGGAGTTTTC
* * *
16917375 CCACAAAGGCATTCTTTAACATTTAGTAGTCACCACAAAGCCTTTCATGTCCAAAGTATTA
1 CCACAAAGGCATTCCTTAACATTCAGTACTCACCACAAAGCCTTTCATGTCCAAAGTATTA
* ** * * *
16917436 CCACAAAGGCATTCCTTAACATTCAGTACTCGCCACAAAGGTTTTCCTGTCCAGAGTATTG
1 CCACAAAGGCATTCCTTAACATTCAGTACTCACCACAAAGCCTTTCATGTCCAAAGTATTA
*
16917497 CCACAAAGGTATTCCTT
1 CCACAAAGGCATTCCTT
16917514 CCCCTAGTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (61 bp):
CCACAAAGGCATTCCTTAACATTCAGTACTCACCACAAAGCCTTTCATGTCCAAAGTATTA
Found at i:16927417 original size:74 final size:74
Alignment explanation
Indices: 16927296--16927468 Score: 258
Period size: 74 Copynumber: 2.3 Consensus size: 74
16927286 AGTTTACTGT
*
16927296 ATGGTACGTAGCTTCATAAATAAACGAGGTGATATGGTGACAGGTTAT-CTATTTCAGACCTTTA
1 ATGGTACGTAGCTTCATAAATAAACGAGGGGATATGGTGACAGGTTATGC-ATTTCAGACCTTTA
16927360 GAGTAAACAC
65 GAGTAAACAC
* * * *
16927370 ATGGTACGTAACTTCATAAATAAACTAGGGGATATGGTGACTGGTTATGCATTTCAGACTTTTAG
1 ATGGTACGTAGCTTCATAAATAAACGAGGGGATATGGTGACAGGTTATGCATTTCAGACCTTTAG
* *
16927435 AGTAGACGC
66 AGTAAACAC
*
16927444 ATGGTATGTAGCTTCATAAATAAAC
1 ATGGTACGTAGCTTCATAAATAAAC
16927469 CGTGGAAAGA
Statistics
Matches: 89, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
74 88 0.99
75 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (74 bp):
ATGGTACGTAGCTTCATAAATAAACGAGGGGATATGGTGACAGGTTATGCATTTCAGACCTTTAG
AGTAAACAC
Found at i:16927969 original size:26 final size:27
Alignment explanation
Indices: 16927933--16927985 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 27
16927923 TCGGAAATAC
16927933 ATTTTAAAAATAA-AAAATAAAAAAGT
1 ATTTTAAAAATAATAAAATAAAAAAGT
16927959 ATTTTAAAAATAATTTAAAATAAAAAA
1 ATTTTAAAAATAA--TAAAATAAAAAA
16927986 ATAAAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.54
29 11 0.46
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (27 bp):
ATTTTAAAAATAATAAAATAAAAAAGT
Found at i:16929706 original size:27 final size:27
Alignment explanation
Indices: 16929662--16929720 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
16929652 CTAACGAGAT
*
16929662 AAGAATATTGGTTCAACAATTAATGTA
1 AAGAATATTGATTCAACAATTAATGTA
*
16929689 AAGAATATTGATTGAACAATTAATGTA
1 AAGAATATTGATTCAACAATTAATGTA
16929716 AAGAA
1 AAGAA
16929721 GTTTTAATCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.49, C:0.05, G:0.15, T:0.31
Consensus pattern (27 bp):
AAGAATATTGATTCAACAATTAATGTA
Found at i:16930649 original size:24 final size:25
Alignment explanation
Indices: 16930617--16930669 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
16930607 AAAGCTAAAA
*
16930617 TTTTGGATAAAATGGAAATTTA-CT
1 TTTTGGATAAAATGGAAACTTATCT
* *
16930641 TTTTTGATAAATTGGAAACTTATCT
1 TTTTGGATAAAATGGAAACTTATCT
16930666 TTTT
1 TTTT
16930670 CTTCAATAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (25 bp):
TTTTGGATAAAATGGAAACTTATCT
Found at i:16941237 original size:51 final size:50
Alignment explanation
Indices: 16941113--16941246 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
16941103 AAAGTGATGG
* * *
16941113 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
* * * * * *
16941163 TCGCATGTGTAGTACTAGGTGCAGGCTACTATGCGTACC-GGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAAT-G-ATAGA
16941214 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
16941247 TGAACCGGTA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 3 0.04
50 35 0.50
51 32 0.46
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
Found at i:16941254 original size:51 final size:50
Alignment explanation
Indices: 16941113--16941254 Score: 169
Period size: 51 Copynumber: 2.8 Consensus size: 50
16941103 AAAGTGATGG
* * *
16941113 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGA
* * * * * *
16941163 TCGCATGTGTAGTACTAGGTGCAGGCTACTATGCGTACCGG-ATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAT-G-ATAGA
*
16941214 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGAACCGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
16941255 TATCATTAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.03
50 36 0.47
51 38 0.50
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAATGATAGA
Found at i:16941323 original size:46 final size:43
Alignment explanation
Indices: 16941250--16941356 Score: 119
Period size: 46 Copynumber: 2.4 Consensus size: 43
16941240 TACTATGTGA
*
16941250 ACCGG-TATCATTAATTATAAGGTGGTTGCTATGTGCTG-ATCCC
1 ACCGGATATCATT-ATTAAAAGGTGGTTGCTATGTGCTGAAT-CC
*
16941293 ACCGGATATCATTGATTACAAAGGGTGGTTGTTATGTGCTGAATCC
1 ACCGGATATCATT-ATTA-AAA-GGTGGTTGCTATGTGCTGAATCC
*
16941339 ACCGTATATCTATTATTA
1 ACCGGATATC-ATTATTA
16941357 TTCCGAAGTG
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
43 5 0.09
44 11 0.20
45 2 0.04
46 32 0.58
47 5 0.09
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (43 bp):
ACCGGATATCATTATTAAAAGGTGGTTGCTATGTGCTGAATCC
Found at i:16946684 original size:39 final size:39
Alignment explanation
Indices: 16946630--16946770 Score: 185
Period size: 39 Copynumber: 3.6 Consensus size: 39
16946620 AACATGTTTT
* * *
16946630 TGAGTATTCTAATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATAATA
**
16946669 TGAGTATTGTGATATATGCTTAAATGTTATGTGATGGTA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATAATA
* *
16946708 TGAGTATTGTGATATATGTTTGAATGTTATGTGATAATA
1 TGAGTATTGTGATATATGCTTAAATGTTATGTGATAATA
* *
16946747 TGTGTAATGTGAT-TCATGCTTAAA
1 TGAGTATTGTGATAT-ATGCTTAAA
16946771 ACTGAATGTG
Statistics
Matches: 89, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 1 0.01
39 88 0.99
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGTTATGTGATAATA
Found at i:16946755 original size:22 final size:22
Alignment explanation
Indices: 16946715--16946756 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16946705 GTATGAGTAT
*
16946715 TGTGATATATGTTTGAATGTTA
1 TGTGATATATGTGTGAATGTTA
16946737 TGTGATAATATGTGT-AATGT
1 TGTGAT-ATATGTGTGAATGT
16946757 GATTCATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.48
Consensus pattern (22 bp):
TGTGATATATGTGTGAATGTTA
Found at i:16948216 original size:432 final size:439
Alignment explanation
Indices: 16947414--16949181 Score: 2004
Period size: 464 Copynumber: 3.9 Consensus size: 439
16947404 AGATAGTTAG
*
16947414 AAGGGAGCTTGACCGAAGCCCTCG-TGAACGGCGGCCGTAACTATAACGGTCCTAAGGTAGCAAA
1 AAGGGAGCTTGACCGAAGCCCT-GATGAACGGCAGCCGTAACTATAACGGTCCTAAGGTAGCAAA
* * * * * ** * * * * *
16947478 ATTATTTAT-TGGTAAGTTTTGAGCTACACGAAAGGCGTAACGATTTGGACACTATCTTGGAGAG
65 ATTACTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGAG
* * * * * * **
16947542 AGGCTCGGTGAAATAGACATGTTTGTGAAGATGTAGACTACCTGCACCTGGAC-TGAGAGATCC-
130 AGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAAAAG-GA-CCA
* * * *
16947605 TACGAAGCTTCACTGTTCCCTAGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTAGGTGGAAGGCA
193 TATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCG
* ** * *
16947670 AAGAAGGCCTCCTTCCAGGGGGCCAGAA-CCATGAGTGAGATACCACTCTGGAAGAGCTAGAATT
258 AAGAAGGCCACCTTCTGGGGGGCCA-AAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATT
** * * *
16947734 CTA-ACATTGTGTCAGGACCTACAGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGTGT
322 CTAGAC-TTGTGTCAAAACATACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGT
* * *
16947798 AAGCCTCCAAAAAGGTAATGGA-G-A-T-T-GACC-C-TCGAGTGCAAAGGTAA
386 AGGCCTCCCAAAAGGTAATGGAGGAATTCTCGACCACGTCGAGTGCAAAGGCAA
* * * *
16947845 AAGGGAGCTTGACTGAAGCCCTGATGAACGGTAACCGTAACTGTAACGGTCCTAAGGTAGCAAAA
1 AAGGGAGCTTGACCGAAGCCCTGATGAACGGCAGCCGTAACTATAACGGTCCTAAGGTAGCAAAA
* *
16947910 TTCCTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACAATCTGGGCACTGTCTCGGAGAGA
66 TTACTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGAGA
* *
16947975 GGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCACACTTGGACAAAAGGACCATAT
131 GGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAAAAGGACCATAT
16948040 GAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCGAAG
196 GAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCGAAG
16948105 AAGGCCACCTTCTGGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTCTAG
261 AAGGCCACCTTCTGGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTCTAG
*
16948170 ACTTGTGTCAAAACATACGGGCCAAGGGACAGTATCAGGTAGACAGTTTCTATGGGGCGTAGGCC
326 ACTTGTGTCAAAACATACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAGGCC
*
16948235 TCCCAAAAGGTAATGGAGGCATACAAAGGTTTTCTCGGGCCAAATGGAGATTAGCGTTCGAGTGC
391 TCCCAAAAGGTAATGGAGG------AA----TTCTC-GACC-----------A-CG-TCGAGTGC
*
16948300 AAAGGCAG
432 AAAGGCAA
* * * * * * * *
16948308 AAGGGTGTTTGACCGAAGCCCCGGA-GAAAGGCAGCCGTAACTATAATGGTCCTAAGCTTGCGAA
1 AAGGGAGCTTGACCGAAG-CCCTGATGAACGGCAGCCGTAACTATAACGGTCCTAAGGTAGCAAA
* *
16948372 ATTTCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGAG
65 ATTACTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGAG
*
16948437 AGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGA-AAGAAAGACCAT
130 AGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAA-AAGGACCAT
*
16948501 ATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCTTGCGTAGCTTATGTGGAAGGCGA
194 ATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCGA
*
16948566 AGAAGGCCACCTTCTGAGGGGGCCAAAGCCATCAGTGAGATGCCACTCTAGAAGAGCTAGAATTC
259 AGAAGGCCACCTTCTG-GGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTC
* *
16948631 TAGACTTGTGTCAAAACTTACGGGCCAAGGGACAGTCTCAGGTAGATAGTTTCTATGGGGCGTAG
323 TAGACTTGTGTCAAAACATACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAG
* *
16948696 GCCTCCCAAAAGGTAATAGAGGCAGACAAAGGTTTTCTCGGGCCGAATGGAGATTAGCGTTCGAG
388 GCCTCCCAAAAGGTAAT---GG-AG--GAA----TTCTC-GACC-----------A-CG-TCGAG
*
16948761 TGCAAAGGCAG
429 TGCAAAGGCAA
* * * ** * * * * * * *
16948772 AAGGGTGTTTGACCGAAGCCCCGGGGAAAGGCGGTCGTAACTATAATGGTCCTAAGCTTGCGAAA
1 AAGGGAGCTTGACCGAAGCCCTGATGAACGGCAGCCGTAACTATAACGGTCCTAAGGTAGCAAAA
* * * *
16948837 TTTCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCATAACAATCTGGGCACTGTCTCGGAGAGA
66 TTACTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGAGA
* *
16948902 GGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTGGATAGAAA-GACCATA
131 GGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACA-AAAGGACCATA
*
16948966 TGAAGCTTCACTGTTCCCTGGGATTGGTTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCGAA
195 TGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCGAA
* * ** * *
16949031 GAAGGCCTCCTTCTAGGGGGGCCAGAGCCAAGAGTGAGATACCACTCTGGAAGAGATAGAATTCT
260 GAAGGCCACCTTCT-GGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTCT
* * * * *
16949096 A-ACCTTGTGTTAAGACCTACGGGCCAAGGGACAGTTTCAGGTAGACAGTTTCTATGGGGCATAG
324 AGA-CTTGTGTCAAAACATACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAG
*
16949160 GCCTCCCAAAAGGTAACGGAGG
388 GCCTCCCAAAAGGTAATGGAGG
16949182 CGTGCAAAGG
Statistics
Matches: 1188, Mismatches: 98, Indels: 75
0.87 0.07 0.06
Matches are distributed among these distances:
430 1 0.00
431 67 0.06
432 283 0.24
433 5 0.00
440 1 0.00
445 1 0.00
446 1 0.00
448 3 0.00
460 2 0.00
461 3 0.00
462 2 0.00
463 265 0.22
464 545 0.46
465 4 0.00
466 1 0.00
467 2 0.00
468 2 0.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (439 bp):
AAGGGAGCTTGACCGAAGCCCTGATGAACGGCAGCCGTAACTATAACGGTCCTAAGGTAGCAAAA
TTACTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGGCACTGTCTCGGAGAGA
GGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTGGACAAAAGGACCATAT
GAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCTTATGTGGAAGGCGAAG
AAGGCCACCTTCTGGGGGGCCAAAGCCATCAGTGAGATACCACTCTAGAAGAGCTAGAATTCTAG
ACTTGTGTCAAAACATACGGGCCAAGGGACAGTCTCAGGTAGACAGTTTCTATGGGGCGTAGGCC
TCCCAAAAGGTAATGGAGGAATTCTCGACCACGTCGAGTGCAAAGGCAA
Found at i:16948803 original size:464 final size:464
Alignment explanation
Indices: 16947829--16949315 Score: 2340
Period size: 464 Copynumber: 3.2 Consensus size: 464
16947819 AGATTGACCC
* * * * * * * * * * *
16947829 TCGAGTGCAAAGGTAAAAGGGAGCTTGACTGAAGCCCTGATGAACGGTAACCGTAACTGTAACGG
1 TCGAGTGCAAAGGCAGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCAGCCGTAACTATAATGG
* * *
16947894 TCCTAAGGTAGCAAAATTCCTTGTCAGGTAAGTTCTGACCCGCACGAAAGCCGTAACAATCTGGG
66 TCCTAAGCTAGCGAAATTCCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACAATCTGGG
*
16947959 CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCACACTTG
131 CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTG
*
16948024 GACAA-AAGGACCATATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGC
196 GA-AAGAAAGACCATATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGC
16948088 TTATGTGGAAGGCGAAGAAGGCCACCTTCTG-GGGGGCCAAAGCCATCAGTGAGATACCACTCTA
260 TTATGTGGAAGGCGAAGAAGGCCACCTTCTGAGGGGGCCAAAGCCATCAGTGAGATACCACTCTA
16948152 GAAGAGCTAGAATTCTAGACTTGTGTCAAAACATACGGGCCAAGGGACAGTATCAGGTAGACAGT
325 GAAGAGCTAGAATTCTAGACTTGTGTCAAAACATACGGGCCAAGGGACAGTATCAGGTAGACAGT
* *
16948217 TTCTATGGGGCGTAGGCCTCCCAAAAGGTAATGGAGGCATACAAAGGTTTTCTCGGGCCAAATGG
390 TTCTATGGGGCGTAGGCCTCCCAAAAGGTAATGGAGGCAGACAAAGGTTTTCTCGGGCCGAATGG
16948282 AGATTAGCGT
455 AGATTAGCGT
* *
16948292 TCGAGTGCAAAGGCAGAAGGGTGTTTGACCGAAGCCCCGGAGAAAGGCAGCCGTAACTATAATGG
1 TCGAGTGCAAAGGCAGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCAGCCGTAACTATAATGG
* * *
16948357 TCCTAAGCTTGCGAAATTTCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACGATCTGGG
66 TCCTAAGCTAGCGAAATTCCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACAATCTGGG
*
16948422 CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCAGACTACCCGCACTTG
131 CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTG
*
16948487 GAAAGAAAGACCATATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCTTGCGTAGCT
196 GAAAGAAAGACCATATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCT
*
16948552 TATGTGGAAGGCGAAGAAGGCCACCTTCTGAGGGGGCCAAAGCCATCAGTGAGATGCCACTCTAG
261 TATGTGGAAGGCGAAGAAGGCCACCTTCTGAGGGGGCCAAAGCCATCAGTGAGATACCACTCTAG
* * *
16948617 AAGAGCTAGAATTCTAGACTTGTGTCAAAACTTACGGGCCAAGGGACAGTCTCAGGTAGATAGTT
326 AAGAGCTAGAATTCTAGACTTGTGTCAAAACATACGGGCCAAGGGACAGTATCAGGTAGACAGTT
*
16948682 TCTATGGGGCGTAGGCCTCCCAAAAGGTAATAGAGGCAGACAAAGGTTTTCTCGGGCCGAATGGA
391 TCTATGGGGCGTAGGCCTCCCAAAAGGTAATGGAGGCAGACAAAGGTTTTCTCGGGCCGAATGGA
16948747 GATTAGCGT
456 GATTAGCGT
* * * *
16948756 TCGAGTGCAAAGGCAGAAGGGTGTTTGACCGAAGCCCCGGGGAAAGGCGGTCGTAACTATAATGG
1 TCGAGTGCAAAGGCAGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCAGCCGTAACTATAATGG
* * *
16948821 TCCTAAGCTTGCGAAATTTCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCATAACAATCTGGG
66 TCCTAAGCTAGCGAAATTCCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACAATCTGGG
16948886 CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTG
131 CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTG
* *
16948951 GATAGAAAGACCATATGAAGCTTCACTGTTCCCTGGGATTGGTTTTGGGCTTTTCCTGCGTAGCT
196 GAAAGAAAGACCATATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCT
* * ** *
16949016 TATGTGGAAGGCGAAGAAGGCCTCCTTCT-AGGGGGGCCAGAGCCAAGAGTGAGATACCACTCTG
261 TATGTGGAAGGCGAAGAAGGCCACCTTCTGA-GGGGGCCAAAGCCATCAGTGAGATACCACTCTA
* * * * *
16949080 GAAGAGATAGAATTCTA-ACCTTGTGTTAAGACCTACGGGCCAAGGGACAGTTTCAGGTAGACAG
325 GAAGAGCTAGAATTCTAGA-CTTGTGTCAAAACATACGGGCCAAGGGACAGTATCAGGTAGACAG
* * * * *
16949144 TTTCTATGGGGCATAGGCCTCCCAAAAGGTAACGGAGGC-GTGCAAAGGTTTCCTCGGGCCGAAC
389 TTTCTATGGGGCGTAGGCCTCCCAAAAGGTAATGGAGGCAG-ACAAAGGTTTTCTCGGGCCGAAT
16949208 GGAGATTAGC-T
453 GGAGATTAGCGT
** *
16949219 CTCGAGTGCAAAGGCAGAAGGGAGTTTGACTAAAGCCCCGGTGAAAGGC-GATCGTAACTATAAT
1 -TCGAGTGCAAAGGCAGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCAG-CCGTAACTATAAT
* *
16949283 GGTCCTAAGGTAGCTAAATTCCTTGTCGGGTAA
64 GGTCCTAAGCTAGCGAAATTCCTTGTCGGGTAA
16949316 TGTAACAGCC
Statistics
Matches: 952, Mismatches: 65, Indels: 13
0.92 0.06 0.01
Matches are distributed among these distances:
462 2 0.00
463 269 0.28
464 681 0.72
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (464 bp):
TCGAGTGCAAAGGCAGAAGGGAGTTTGACCGAAGCCCCGGTGAAAGGCAGCCGTAACTATAATGG
TCCTAAGCTAGCGAAATTCCTTGTCGGGTAAGTTCTGACCCGCACGAAAGCCGTAACAATCTGGG
CACTGTCTCGGAGAGAGGCTTGGTGAAATAAACATGTCTGTGAAGATGCGGACTACCCGCACTTG
GAAAGAAAGACCATATGAAGCTTCACTGTTCCCTGGGATTGGCTTTGGGCTTTTCCTGCGTAGCT
TATGTGGAAGGCGAAGAAGGCCACCTTCTGAGGGGGCCAAAGCCATCAGTGAGATACCACTCTAG
AAGAGCTAGAATTCTAGACTTGTGTCAAAACATACGGGCCAAGGGACAGTATCAGGTAGACAGTT
TCTATGGGGCGTAGGCCTCCCAAAAGGTAATGGAGGCAGACAAAGGTTTTCTCGGGCCGAATGGA
GATTAGCGT
Found at i:16950826 original size:48 final size:48
Alignment explanation
Indices: 16950627--16950823 Score: 252
Period size: 48 Copynumber: 4.1 Consensus size: 48
16950617 TACTATGTGT
*
16950627 ACCGATAATCTGTTATGACACAAGGGTGGCACGTACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * *
16950675 ATCGATATTCTGTTGTGACACAAGGGCGGCACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * *
16950723 ACCAATAA-CTTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCC
1 ACCGATAATC-TGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
* * * * *
16950771 ACTGAGAATCTGTTATTACACAAAGGTGGTACGGACTGTGTGCAGGCC
1 ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
16950819 ACCGA
1 ACCGA
16950824 GAAATATGTT
Statistics
Matches: 124, Mismatches: 23, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
47 1 0.01
48 122 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.22
Consensus pattern (48 bp):
ACCGATAATCTGTTATGACACAAGGGTGGCACGGACTGTGTGCAGGCC
Found at i:16956770 original size:9 final size:9
Alignment explanation
Indices: 16956733--16956924 Score: 74
Period size: 9 Copynumber: 21.1 Consensus size: 9
16956723 CTTACCTTAC
16956733 TTTTATT-T
1 TTTTATTAT
*
16956741 ATTTATTTAT
1 TTTTA-TTAT
16956751 TTTATATTTAT
1 TTT-TA-TTAT
16956762 TTTTATTAT
1 TTTTATTAT
* *
16956771 TATTAATA-
1 TTTTATTAT
16956779 TTTTATTCAT
1 TTTTATT-AT
16956789 TTATTACTTAT
1 TT-TTA-TTAT
*
16956800 TGTT-TTAT
1 TTTTATTAT
*
16956808 TTTTCTTAT
1 TTTTATTAT
* *
16956817 TATTCTTAGT
1 TTTTATTA-T
*
16956827 TTTTATCAT
1 TTTTATTAT
16956836 TTTT-TTAT
1 TTTTATTAT
* * *
16956844 TATTACTCT
1 TTTTATTAT
*
16956853 TATTATT-T
1 TTTTATTAT
*
16956861 TTTTATT-G
1 TTTTATTAT
*
16956869 TTTTATTGT
1 TTTTATTAT
* *
16956878 TTTGACTAT
1 TTTTATTAT
*
16956887 TTTGATTAT
1 TTTTATTAT
*
16956896 TCTATTGTTA-
1 T-T-TTATTAT
*
16956906 TTTCATTAT
1 TTTTATTAT
*
16956915 TTGTATTAT
1 TTTTATTAT
16956924 T
1 T
16956925 ACTTTTAGTT
Statistics
Matches: 140, Mismatches: 30, Indels: 27
0.71 0.15 0.14
Matches are distributed among these distances:
8 40 0.29
9 61 0.44
10 17 0.12
11 20 0.14
12 2 0.01
ACGTcount: A:0.21, C:0.05, G:0.04, T:0.69
Consensus pattern (9 bp):
TTTTATTAT
Found at i:16956770 original size:15 final size:15
Alignment explanation
Indices: 16956733--16956816 Score: 59
Period size: 15 Copynumber: 5.6 Consensus size: 15
16956723 CTTACCTTAC
16956733 TTTTATT-TATTTAT
1 TTTTATTATATTTAT
16956747 TTATT-TTATATTTAT
1 TT-TTATTATATTTAT
*
16956762 TTTTATTATTATTAAT
1 TTTTATTA-TATTTAT
*
16956778 ATTTTATT-CATTTAT
1 -TTTTATTATATTTAT
* *
16956793 TACTTATTGT-TTTAT
1 T-TTTATTATATTTAT
*
16956808 TTTTCTTAT
1 TTTTATTAT
16956817 TATTCTTAGT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
14 12 0.22
15 30 0.55
16 6 0.11
17 7 0.13
ACGTcount: A:0.24, C:0.04, G:0.01, T:0.71
Consensus pattern (15 bp):
TTTTATTATATTTAT
Found at i:16956811 original size:29 final size:26
Alignment explanation
Indices: 16956733--16956867 Score: 69
Period size: 23 Copynumber: 5.4 Consensus size: 26
16956723 CTTACCTTAC
*
16956733 TTTTATTTATTTATTTATTTTATATTTAT
1 TTTTA-TTA-TTATTTATTTT-TATTCAT
*
16956762 TTTTATTATTATTAATATTTTATTCA-
1 TTTTATTATTATTTAT-TTTTATTCAT
*
16956788 -TTTATTACTTA-TT-GTTTTATT--T
1 TTTTATTA-TTATTTATTTTTATTCAT
*
16956810 TTCTTATTATT-CTTAGTTTTTA-TCAT
1 TT-TTATTATTATTTA-TTTTTATTCAT
* *
16956836 TTTT-TTATTA-TTACTCTTATT-AT
1 TTTTATTATTATTTATTTTTATTCAT
16956859 TTTT-TTATT
1 TTTTATTATT
16956868 GTTTTATTGT
Statistics
Matches: 87, Mismatches: 7, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
23 27 0.31
24 16 0.18
25 15 0.17
26 6 0.07
27 12 0.14
28 6 0.07
29 5 0.06
ACGTcount: A:0.22, C:0.05, G:0.01, T:0.71
Consensus pattern (26 bp):
TTTTATTATTATTTATTTTTATTCAT
Found at i:16956872 original size:11 final size:11
Alignment explanation
Indices: 16956735--16956872 Score: 57
Period size: 11 Copynumber: 11.6 Consensus size: 11
16956725 TACCTTACTT
*
16956735 TTATTTATTTA
1 TTATTTTTTTA
*
16956746 TT-TATTTTATA
1 TTAT-TTTTTTA
16956757 TTTATTTTTATTA
1 -TTATTTTT-TTA
16956770 TTATTAATATTTTA
1 TTATT--T-TTTTA
*
16956784 TTCA-TTTATTA
1 TT-ATTTTTTTA
*
16956795 CTTATTGTTTTA
1 -TTATTTTTTTA
16956807 TT-TTTCTTATTA
1 TTATTT-TT-TTA
*
16956819 TTCTTAGTTTTTA
1 TTATT--TTTTTA
*
16956832 TCATTTTTTTA
1 TTATTTTTTTA
* *
16956843 TTATTACTCTTA
1 TTATT-TTTTTA
16956855 TTATTTTTTTA
1 TTATTTTTTTA
*
16956866 TTGTTTT
1 TTATTTT
16956873 ATTGTTTTGA
Statistics
Matches: 96, Mismatches: 15, Indels: 32
0.67 0.10 0.22
Matches are distributed among these distances:
10 3 0.03
11 36 0.38
12 33 0.34
13 11 0.11
14 9 0.09
15 4 0.04
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (11 bp):
TTATTTTTTTA
Found at i:16970195 original size:27 final size:27
Alignment explanation
Indices: 16970157--16970208 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
16970147 TTTTGGTCCA
*
16970157 GTGCCGCCATTCTTATTGGCACCACTG
1 GTGCCGCCATTCTCATTGGCACCACTG
16970184 GTGCCGCCATTCTCATTGGCACCAC
1 GTGCCGCCATTCTCATTGGCACCAC
16970209 CTTCAGCCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.15, C:0.37, G:0.21, T:0.27
Consensus pattern (27 bp):
GTGCCGCCATTCTCATTGGCACCACTG
Found at i:16970264 original size:28 final size:28
Alignment explanation
Indices: 16970224--16970296 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
16970214 GCCCTCTTTT
16970224 TTTTTTTGGTATATTTTGGTAAA-AAATA
1 TTTTTTT-GTATATTTTGGTAAATAAATA
* *
16970252 TTTTTTTGATATATTTTGGTAAATAATTT
1 TTTTTTTG-TATATTTTGGTAAATAAATA
16970281 TTTTTTTGTATATTTT
1 TTTTTTTGTATATTTT
16970297 TATTTCTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 1 0.02
28 29 0.71
29 11 0.27
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (28 bp):
TTTTTTTGTATATTTTGGTAAATAAATA
Found at i:16971195 original size:22 final size:22
Alignment explanation
Indices: 16971170--16971217 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
16971160 CCTTATTTAC
16971170 TCCAACATGATCCCCTTTTTGT
1 TCCAACATGATCCCCTTTTTGT
16971192 TCCAACATGATCCCCTTTTTGT
1 TCCAACATGATCCCCTTTTTGT
16971214 TCCA
1 TCCA
16971218 TTGTCTCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.19, C:0.33, G:0.08, T:0.40
Consensus pattern (22 bp):
TCCAACATGATCCCCTTTTTGT
Found at i:16971598 original size:44 final size:44
Alignment explanation
Indices: 16971535--16971633 Score: 162
Period size: 44 Copynumber: 2.2 Consensus size: 44
16971525 AACAACCTCC
* *
16971535 TTTCTTTCTCTTTTCTTCTCTTCCTCTAATTATTCTTGTTTCAT
1 TTTCTTTCTCCTTTCTTCTCTTCCTCTAATTATTCTTGTTCCAT
* *
16971579 TTTCTTTCTCCTTTCTTCTCTTCCTCTAATTCTTCTTGTTCCCT
1 TTTCTTTCTCCTTTCTTCTCTTCCTCTAATTATTCTTGTTCCAT
16971623 TTTCTTTCTCC
1 TTTCTTTCTCC
16971634 CCTTATTTCT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.06, C:0.30, G:0.02, T:0.62
Consensus pattern (44 bp):
TTTCTTTCTCCTTTCTTCTCTTCCTCTAATTATTCTTGTTCCAT
Found at i:16971645 original size:44 final size:44
Alignment explanation
Indices: 16971535--16971645 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
16971525 AACAACCTCC
** * *
16971535 TTTCTTTCTCTTTTCTTCTCTTCCTCTAATTATTCTTGTTTCAT
1 TTTCTTTCTCCCTTATTCTCTTCCTCTAATTATTCTTGTTCCAT
* * * *
16971579 TTTCTTTCTCCTTTCTTCTCTTCCTCTAATTCTTCTTGTTCCCT
1 TTTCTTTCTCCCTTATTCTCTTCCTCTAATTATTCTTGTTCCAT
16971623 TTTCTTTCTCCCCTTATT-TCTTC
1 TTTCTTTCT-CCCTTATTCTCTTC
16971646 TTTTGTCGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 54 0.90
45 6 0.10
ACGTcount: A:0.06, C:0.31, G:0.02, T:0.61
Consensus pattern (44 bp):
TTTCTTTCTCCCTTATTCTCTTCCTCTAATTATTCTTGTTCCAT
Found at i:16972365 original size:19 final size:19
Alignment explanation
Indices: 16972341--16972380 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
16972331 AAAAAATATA
16972341 ATTATTTATAATCGAAACC
1 ATTATTTATAATCGAAACC
16972360 ATTATTTATAATCGAAACC
1 ATTATTTATAATCGAAACC
16972379 AT
1 AT
16972381 GTTAGAAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.42, C:0.15, G:0.05, T:0.38
Consensus pattern (19 bp):
ATTATTTATAATCGAAACC
Found at i:16974377 original size:25 final size:24
Alignment explanation
Indices: 16974279--16974401 Score: 97
Period size: 25 Copynumber: 5.0 Consensus size: 24
16974269 GTACATGTAT
* * *
16974279 GCTCATACGAGCTCAGAATCGGTAT
1 GCTCATATGAGCTGA-AATCGGTAA
* *
16974304 GCTCTTACGAGCTGTAAAT-GGTAA
1 GCTCATATGAGCTG-AAATCGGTAA
* * * *
16974328 GCTCCTCTGAGCTGAATAACAGTAA
1 GCTCATATGAGCTGAA-ATCGGTAA
*
16974353 GCTCATGA-GAGCTGAGAATTGGTAA
1 GCTCAT-ATGAGCTGA-AATCGGTAA
16974378 GCTCATATGAGCTGAAATCGGTAA
1 GCTCATATGAGCTGAAATCGGTAA
16974402 CCTTAATGAC
Statistics
Matches: 78, Mismatches: 14, Indels: 13
0.74 0.13 0.12
Matches are distributed among these distances:
23 2 0.03
24 25 0.32
25 49 0.63
26 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (24 bp):
GCTCATATGAGCTGAAATCGGTAA
Found at i:16982047 original size:12 final size:12
Alignment explanation
Indices: 16982032--16982061 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
16982022 AAAAACAAAA
*
16982032 AAAAATGAAACT
1 AAAAATAAAACT
16982044 AAAAATAAAACT
1 AAAAATAAAACT
16982056 AAAAAT
1 AAAAAT
16982062 TTTAAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.07, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAATAAAACT
Found at i:16983987 original size:26 final size:26
Alignment explanation
Indices: 16983920--16984012 Score: 96
Period size: 26 Copynumber: 3.6 Consensus size: 26
16983910 TATTCCGACC
* * *
16983920 CACAGCTCATATGAGTAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
* * * *
16983946 TACAGCCCATGAGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
* **
16983972 CACTGCTCGTGTGAGCAAACCCATTT
1 CACAGCTCGTGTGAGCAGGCCCATTT
16983998 CACAGCTCGTGTGAG
1 CACAGCTCGTGTGAG
16984013 AAACCATGTA
Statistics
Matches: 54, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGGCCCATTT
Found at i:16992700 original size:27 final size:28
Alignment explanation
Indices: 16992666--16992732 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
16992656 ATACATGAAT
*
16992666 TCATTTCAATATTCATATCTCATT-TCA
1 TCATTTCAATATTCATATCCCATTCTCA
* **
16992693 TCATTTC-ATATTTCATTTCCCATTCTTT
1 TCATTTCAATA-TTCATATCCCATTCTCA
16992721 TCATTTCAATAT
1 TCATTTCAATAT
16992733 CAACACATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
26 3 0.09
27 18 0.55
28 9 0.27
29 3 0.09
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.52
Consensus pattern (28 bp):
TCATTTCAATATTCATATCCCATTCTCA
Found at i:17021147 original size:18 final size:17
Alignment explanation
Indices: 17021124--17021158 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17021114 CATATGGTAC
*
17021124 CATTTCATATAATCATTT
1 CATTTCAAAT-ATCATTT
17021142 CATTTCAAATATCATTT
1 CATTTCAAATATCATTT
17021159 ATCAAGTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.17, G:0.00, T:0.49
Consensus pattern (17 bp):
CATTTCAAATATCATTT
Found at i:17031807 original size:25 final size:25
Alignment explanation
Indices: 17031779--17031868 Score: 92
Period size: 25 Copynumber: 3.6 Consensus size: 25
17031769 GGTTATCAAT
** *
17031779 TTCAGCTCTTATGAGCTTATCGTTA
1 TTCAGCTCGGATGAGCTTACCGTTA
* * *
17031804 TTCAACTCGGACGAACTTACCGTTA
1 TTCAGCTCGGATGAGCTTACCGTTA
*
17031829 TTCAGCTCGGAGGAGCTTACCGTT-
1 TTCAGCTCGGATGAGCTTACCGTTA
* *
17031853 TACAGCTCGTATGAGC
1 TTCAGCTCGGATGAGC
17031869 ATACATGTAC
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
24 13 0.25
25 40 0.75
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.32
Consensus pattern (25 bp):
TTCAGCTCGGATGAGCTTACCGTTA
Found at i:17032039 original size:26 final size:26
Alignment explanation
Indices: 17032010--17032061 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
17032000 CACAGGTAAT
*
17032010 TACATGAGATATATGA-AAATGATTTG
1 TACACGAGATATA-GATAAATGATTTG
* *
17032036 TACACGATATATAGATACATGATTTG
1 TACACGAGATATAGATAAATGATTTG
17032062 GAAATTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.40, C:0.08, G:0.17, T:0.35
Consensus pattern (26 bp):
TACACGAGATATAGATAAATGATTTG
Found at i:17035295 original size:18 final size:18
Alignment explanation
Indices: 17035272--17035306 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17035262 CTAGAACAAG
17035272 AAGCATAAAAATAGTTTC
1 AAGCATAAAAATAGTTTC
*
17035290 AAGCATGAAAATAGTTT
1 AAGCATAAAAATAGTTT
17035307 GGCACATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (18 bp):
AAGCATAAAAATAGTTTC
Found at i:17041608 original size:23 final size:23
Alignment explanation
Indices: 17041558--17041609 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
17041548 AGTGGTAAAA
*
17041558 TGTTAGCTTACCTTGAGGTCTCG
1 TGTTTGCTTACCTTGAGGTCTCG
*
17041581 TGTTTGCTTGCCTTGAGGTCTCG
1 TGTTTGCTTACCTTGAGGTCTCG
17041604 TGTTTG
1 TGTTTG
17041610 AACCCCCGTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.19, G:0.29, T:0.44
Consensus pattern (23 bp):
TGTTTGCTTACCTTGAGGTCTCG
Found at i:17048619 original size:8 final size:8
Alignment explanation
Indices: 17048606--17048631 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
17048596 TGAAATATGT
17048606 GGTTAGTG
1 GGTTAGTG
17048614 GGTTAGTG
1 GGTTAGTG
17048622 GGTTAGTG
1 GGTTAGTG
17048630 GG
1 GG
17048632 GAGTTGGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.54, T:0.35
Consensus pattern (8 bp):
GGTTAGTG
Done.