Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 125 of 295
Found at i:42885784 original size:15 final size:16
Alignment explanation
Indices: 42885759--42885789 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
42885749 TTTGGAAATA
42885759 TTTATTAATATCTTTT
1 TTTATTAATATCTTTT
42885775 TTTA-TAATATCTTTT
1 TTTATTAATATCTTTT
42885790 GAAATTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTAATATCTTTT
Found at i:42890674 original size:51 final size:51
Alignment explanation
Indices: 42890619--42890724 Score: 149
Period size: 51 Copynumber: 2.1 Consensus size: 51
42890609 CTACCTTATA
* * *
42890619 ACATGTAACACATCCATAATGAACTCGGACCTCTCAACGAGCTCGGATGTT
1 ACATGTAACACACCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT
* ** *
42890670 ACATGTATCACACCCATTTTGAACTCGGACCACTCAACGAGCTCGGGTGCT
1 ACATGTAACACACCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT
42890721 ACAT
1 ACAT
42890725 ATATCATGAA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (51 bp):
ACATGTAACACACCCATAATGAACTCGGACCACTCAACGAGCTCGGATGCT
Found at i:42890748 original size:42 final size:43
Alignment explanation
Indices: 42890689--42890802 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 43
42890679 ACACCCATTT
*
42890689 TGAACTCGGACCACTCAACGAGCTCGGGTGCT-ACATATATCA
1 TGAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCA
* * * *
42890731 TGAACTTGGACCACTCAACAAGTTCGGATTCTCACATATATCA
1 TGAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCA
** * *
42890774 CAAACTCGGACCTCTCAATGAGCTCGGAT
1 TGAACTCGGACCACTCAACGAGCTCGGAT
42890803 TTCTTAATTC
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
42 27 0.46
43 32 0.54
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (43 bp):
TGAACTCGGACCACTCAACGAGCTCGGATGCTCACATATATCA
Found at i:42894165 original size:40 final size:39
Alignment explanation
Indices: 42894121--42894251 Score: 156
Period size: 40 Copynumber: 3.3 Consensus size: 39
42894111 TCTATTTGGT
42894121 GTGTTTCGGTTGGATTGACTCTTATGAGCTTCTGTCTAGC
1 GTGTTTCGGTTGGATT-ACTCTTATGAGCTTCTGTCTAGC
* * * * * *
42894161 GTGTTTCGATTAGATTAACCCTTGTGAGCTTCTATCTGGC
1 GTGTTTCGGTTGGATT-ACTCTTATGAGCTTCTGTCTAGC
* *
42894201 GTGTATCGGTTGGATTAGCTCTTATGAGCTTCTGTCTAGT
1 GTGTTTCGGTTGGATTA-CTCTTATGAGCTTCTGTCTAGC
42894241 GTG-TTCGGTTG
1 GTGTTTCGGTTG
42894252 ATCTGATGAT
Statistics
Matches: 74, Mismatches: 16, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
39 8 0.11
40 66 0.89
ACGTcount: A:0.14, C:0.17, G:0.27, T:0.42
Consensus pattern (39 bp):
GTGTTTCGGTTGGATTACTCTTATGAGCTTCTGTCTAGC
Found at i:42897117 original size:34 final size:34
Alignment explanation
Indices: 42897079--42897146 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
42897069 ATGTGTACAA
*
42897079 CTTAAAGATTACATTGTGGATACCATCTGAAAAG
1 CTTAAAGATTACATTGTGGATACCATCTAAAAAG
42897113 CTTAAAGATTACATTGTGGATACCATCTAAAAAG
1 CTTAAAGATTACATTGTGGATACCATCTAAAAAG
42897147 GCCAATTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (34 bp):
CTTAAAGATTACATTGTGGATACCATCTAAAAAG
Found at i:42901006 original size:25 final size:25
Alignment explanation
Indices: 42900978--42901063 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
42900968 ATAAGAGCCA
42900978 TAATCAGGAAGTTCACAAGAACTTT
1 TAATCAGGAAGTTCACAAGAACTTT
*
42901003 TAATCAGGAAGTTCACAAAGAACTCT
1 TAATCAGGAAGTTCAC-AAGAACTTT
* * * *
42901029 TAATCAGGAAGCTCATGAAGAGCCTT
1 TAATCAGGAAGTTCA-CAAGAACTTT
42901055 TAATCAGGA
1 TAATCAGGA
42901064 GCTCTGGATA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
25 16 0.30
26 37 0.70
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.24
Consensus pattern (25 bp):
TAATCAGGAAGTTCACAAGAACTTT
Found at i:42901049 original size:26 final size:24
Alignment explanation
Indices: 42900962--42901067 Score: 88
Period size: 26 Copynumber: 4.2 Consensus size: 24
42900952 ATATAACAGA
* *
42900962 AAGCTCATAAGAGCCATAATCAGG
1 AAGCTCATAAGAACCTTAATCAGG
* * *
42900986 AAGTTCACAAGAACTTTTAATCAGG
1 AAGCTCATAAGAAC-CTTAATCAGG
* *
42901011 AAGTTCACAAAGAACTCTTAATCAGG
1 AAGCTCA-TAAGAAC-CTTAATCAGG
*
42901037 AAGCTCATGAAGAGCCTTTAATCAGG
1 AAGCTCAT-AAGAACC-TTAATCAGG
42901063 -AGCTC
1 AAGCTC
42901068 TGGATAGTTA
Statistics
Matches: 68, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
24 11 0.16
25 21 0.31
26 36 0.53
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.23
Consensus pattern (24 bp):
AAGCTCATAAGAACCTTAATCAGG
Found at i:42901725 original size:30 final size:31
Alignment explanation
Indices: 42901657--42901725 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 31
42901647 TACCATTTTG
* **
42901657 CCCCTAAACTTTTAATTGATGACGATAATTTTG
1 CCCCTAAACTTTTAATTAATGAC-A-AATTTCA
42901690 CCCCTAAACTTTTAATTAATGAC-AATTTCA
1 CCCCTAAACTTTTAATTAATGACAAATTTCA
*
42901720 TCCCTA
1 CCCCTA
42901726 GGCTCGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
30 10 0.31
33 22 0.69
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.38
Consensus pattern (31 bp):
CCCCTAAACTTTTAATTAATGACAAATTTCA
Found at i:42903729 original size:35 final size:36
Alignment explanation
Indices: 42903690--42903762 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
42903680 TAATATTATA
42903690 AATGTATTTTAATCTATTATATAA-TTTTTTCTTGT
1 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
42903725 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
1 AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
42903761 AA
1 AA
42903763 AATGTCCACC
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 24 0.65
36 13 0.35
ACGTcount: A:0.30, C:0.05, G:0.05, T:0.59
Consensus pattern (36 bp):
AATGTATTTTAATCTATTATATAATTTTTTTCTTGT
Found at i:42905722 original size:15 final size:15
Alignment explanation
Indices: 42905702--42905732 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
42905692 AGTTCTTTAA
42905702 ATCCTAAAACTGTAC
1 ATCCTAAAACTGTAC
*
42905717 ATCCTAAAATTGTAC
1 ATCCTAAAACTGTAC
42905732 A
1 A
42905733 AGCTCTCGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (15 bp):
ATCCTAAAACTGTAC
Found at i:42907357 original size:93 final size:93
Alignment explanation
Indices: 42907198--42907370 Score: 312
Period size: 93 Copynumber: 1.9 Consensus size: 93
42907188 CGCCCATAAG
*
42907198 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
42907263 ACGAGTTCGGATGCCTAGTCACATTTCA
66 ACGAGTTCGGATGCCTAGTCACATTTCA
*
42907291 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
42907355 AACGAGTTCGGATGCC
65 AACGAGTTCGGATGCC
42907371 CAAATATCCC
Statistics
Matches: 77, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
92 2 0.03
93 75 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTCACATTTCA
Found at i:42907366 original size:46 final size:45
Alignment explanation
Indices: 42907191--42907365 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
42907181 TGTAACCCGC
*
42907191 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* * *
42907237 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A-T
*
42907282 CACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
*
42907330 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
42907366 ATGCCCAAAT
Statistics
Matches: 110, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 6 0.05
46 61 0.55
47 30 0.27
48 3 0.03
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:42909343 original size:61 final size:61
Alignment explanation
Indices: 42909248--42909372 Score: 241
Period size: 61 Copynumber: 2.0 Consensus size: 61
42909238 TATGAATAAA
42909248 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
1 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
*
42909309 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATGGTGGATTCCCTGAATG
1 GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
42909370 GCC
1 GCC
42909373 ATGAATTTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (61 bp):
GCCCACACAAAAGATAACTTCTTGCTAGCCTCAATTGATTGAATAGTGGATTCCCTGAATG
Found at i:42914090 original size:26 final size:26
Alignment explanation
Indices: 42914050--42914102 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
42914040 CGTTGTTGTT
42914050 CATCTTCCGAGGCATGAATATTCAAA
1 CATCTTCCGAGGCATGAATATTCAAA
* *
42914076 CATCTTCCGATGCATGGATATTCAAA
1 CATCTTCCGAGGCATGAATATTCAAA
42914102 C
1 C
42914103 TCCTTATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (26 bp):
CATCTTCCGAGGCATGAATATTCAAA
Found at i:42918073 original size:6 final size:6
Alignment explanation
Indices: 42918064--42918105 Score: 75
Period size: 6 Copynumber: 7.0 Consensus size: 6
42918054 TAAAAAAAAA
*
42918064 TTATAT TTATAT TTATAT TTATAT TTAGAT TTATAT TTATAT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT
42918106 ATTTTTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (6 bp):
TTATAT
Found at i:42919417 original size:7 final size:6
Alignment explanation
Indices: 42919386--42919415 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
42919376 GCATGAGTAG
42919386 TTTTAT TTTTAT TTTTAT TTTTAAT TTTTA
1 TTTTAT TTTTAT TTTTAT TTTT-AT TTTTA
42919416 ATCATGTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:42924092 original size:309 final size:311
Alignment explanation
Indices: 42923533--42924155 Score: 964
Period size: 309 Copynumber: 2.0 Consensus size: 311
42923523 ATCAAGGATA
* * *
42923533 TCCTATGAGGGTAACATAATTATGACAAGGACATTGGACGAGCAATGAATAGTTACTTTCGTAAT
1 TCCTATGAGGGTAACACAATTATGACAAGGACATTGGACAAGCAATGAATAGTTACTTTCATAAT
*
42923598 GGTATGTTGTTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
66 GGTATGTCGTTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
** ** *
42923663 TATAATTTCTAGGCGAAATTTTGGAACTTAATTATAAATCATTTGAGTGCTAATTACATATATTC
131 TATAATTTCTAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCGCTAATTACATATATTC
* *
42923728 AATCGGTCTCTCCGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACAG
196 AATCGGTCTCTCAGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACAA
*
42923793 AATGAATAGAAATAGACAAATA-AAAAAA-TCAAAAATAATTATGGTTTTC
261 AATGAATAGAAATAGACAAATAGAAAAAATTAAAAAATAATTATGGTTTTC
* * * * *
42923842 TCCTATGAGGGTAACACACTTATGACAAGGACATTGGACAAGTACTGAGTAGTTGCTTTCATAAT
1 TCCTATGAGGGTAACACAATTATGACAAGGACATTGGACAAGCAATGAATAGTTACTTTCATAAT
* * ** * **
42923907 GGTGTGTCGTTGGGGAAAGCTCAGTCACGATACTATAGTGGAATGGCTTCGTGACTAAATGAGTT
66 GGTATGTCGTTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
*
42923972 TATAATTTCTAGGTGAAAAGTTAAAACTTAATTATAAATCATTTGAGC-CGTAATTACATATATT
131 TATAATTTCTAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCGC-TAATTACATATATT
* * *
42924036 CAATCGGTCTCTCAGCTAGCTCGTTGAAACCATAAATGAATTGCGTGTTTGAATCAAAATGAACA
195 CAATCGGTCTCTCAGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACA
42924101 AAATGAATAGAAATAGACAAATAGAAAAAATTAAAAAATAATTATGGTTTTC
260 AAATGAATAGAAATAGACAAATAGAAAAAATTAAAAAATAATTATGGTTTTC
42924153 TCC
1 TCC
42924156 GAAATGGTGA
Statistics
Matches: 283, Mismatches: 28, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
308 1 0.00
309 253 0.89
310 6 0.02
311 23 0.08
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (311 bp):
TCCTATGAGGGTAACACAATTATGACAAGGACATTGGACAAGCAATGAATAGTTACTTTCATAAT
GGTATGTCGTTGGGGAAAGCTCAGTCACAATACTATAACGGAATGACTTCGTGACTAAATGAGAC
TATAATTTCTAGGCGAAAAGTTAAAACTTAATTATAAATCATTTGAGCGCTAATTACATATATTC
AATCGGTCTCTCAGCTAGCTCATTAAAACCATAAATGAATTGAGTGTTTGAATCAAAATGAACAA
AATGAATAGAAATAGACAAATAGAAAAAATTAAAAAATAATTATGGTTTTC
Found at i:42924201 original size:28 final size:29
Alignment explanation
Indices: 42924145--42924197 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
42924135 AAAATAATTA
*
42924145 TGGTTTTCTCCGAAATGGTGAAATGAATG
1 TGGTTTTCTCCAAAATGGTGAAATGAATG
42924174 TGGTTTTCT-CAAAAT-G-GAAATGAA
1 TGGTTTTCTCCAAAATGGTGAAATGAA
42924198 AATGAGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 1 0.04
28 5 0.22
29 9 0.39
ACGTcount: A:0.32, C:0.09, G:0.25, T:0.34
Consensus pattern (29 bp):
TGGTTTTCTCCAAAATGGTGAAATGAATG
Found at i:42925631 original size:36 final size:34
Alignment explanation
Indices: 42925560--42925631 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
42925550 GCAATTTCAG
*
42925560 TGTGGGCCTTAGCCCATTACAGTAGTATTAACAA
1 TGTGGGCCTTAGCCCATTACAGTAGTATCAACAA
*
42925594 TGTGGGCCTTAGCCCAATT-CAGTACAGTATCAGCAA
1 TGTGGGCCTTAGCCC-ATTACAGT--AGTATCAACAA
42925630 TG
1 TG
42925632 CATAAAGAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
34 19 0.58
35 3 0.09
36 11 0.33
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (34 bp):
TGTGGGCCTTAGCCCATTACAGTAGTATCAACAA
Found at i:42941365 original size:45 final size:45
Alignment explanation
Indices: 42941313--42941442 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 45
42941303 ATACGCCTAG
42941313 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGATTA-A
1 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGA-TAGA
* * * ** * * *
42941358 GATGATTAGGACAATAGCCGAAAGATGTTATTGCATCATGATAGA
1 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGATAGA
* * *
42941403 AATTAGTAAGATCATAGTTGAAAGACGCTATGGCATCATG
1 AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATG
42941443 TGAAAGCACG
Statistics
Matches: 65, Mismatches: 19, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
44 2 0.03
45 63 0.97
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (45 bp):
AATGATTAAGACCATAGTTGAAAGACGCTATGGCATCATGATAGA
Found at i:42947257 original size:45 final size:45
Alignment explanation
Indices: 42947201--42947289 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
42947191 ATATCGTAGC
*
42947201 ATCTTTTAGCTAAGGTCTTACACAATATAACCCCATGTTTACTAA
1 ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTAA
42947246 ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTA
1 ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTA
42947290 CCCTGACGAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.33, C:0.24, G:0.09, T:0.35
Consensus pattern (45 bp):
ATCTTTCAGCTAAGGTCTTACACAATATAACCCCATGTTTACTAA
Found at i:42947790 original size:35 final size:35
Alignment explanation
Indices: 42947751--42947821 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
42947741 TCTAGGATCA
*
42947751 CATATCTTTGAAGATCACCTTCCATATTTGCCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
*
42947786 CATATCTTTGAAGATCACTTTCCATATTTACCAAG
1 CATATCTTTGAAGATCACCTTCCATATTTACCAAG
42947821 C
1 C
42947822 TTTGAAGATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (35 bp):
CATATCTTTGAAGATCACCTTCCATATTTACCAAG
Found at i:42955032 original size:45 final size:45
Alignment explanation
Indices: 42954949--42955046 Score: 142
Period size: 45 Copynumber: 2.2 Consensus size: 45
42954939 TTCGATCGGA
* * * * * *
42954949 GGCAACATGCCAAACATGAGTAAGACCATATCTGAAAGATGTTGT
1 GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
42954994 GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
1 GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
42955039 GGCATCAT
1 GGCATCAT
42955047 ATGATGATTT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.22
Consensus pattern (45 bp):
GGCATCATGACAAAAATGAGTAAGACCATAGCTAAAAGATGTTAT
Found at i:42958809 original size:23 final size:25
Alignment explanation
Indices: 42958765--42958811 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
42958755 CGTCCATACC
42958765 ATAGTCCGCAAATAATAACAATAAA
1 ATAGTCCGCAAATAATAACAATAAA
*
42958790 ATAGTCC-CAAA-AATACCAATAA
1 ATAGTCCGCAAATAATAACAATAA
42958812 TAAAGTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 4 0.19
25 7 0.33
ACGTcount: A:0.55, C:0.19, G:0.06, T:0.19
Consensus pattern (25 bp):
ATAGTCCGCAAATAATAACAATAAA
Found at i:42959227 original size:24 final size:23
Alignment explanation
Indices: 42959200--42959277 Score: 79
Period size: 23 Copynumber: 3.3 Consensus size: 23
42959190 TGTGGTCAAA
*
42959200 CCACTCATTTACGTTATGGTCAAG
1 CCACTCA-TTACGTTATGGACAAG
*
42959224 CCACTCGTTAGCGTTGA-GGACAAG
1 CCACTCATTA-CGTT-ATGGACAAG
*
42959248 CCACCCA-TACTGTTATGGACAAG
1 CCACTCATTAC-GTTATGGACAAG
42959271 CCACTCA
1 CCACTCA
42959278 ATTTTTCAGT
Statistics
Matches: 45, Mismatches: 5, Indels: 9
0.76 0.08 0.15
Matches are distributed among these distances:
22 2 0.04
23 21 0.47
24 21 0.47
25 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.24
Consensus pattern (23 bp):
CCACTCATTACGTTATGGACAAG
Found at i:42964689 original size:2 final size:2
Alignment explanation
Indices: 42964682--42964708 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
42964672 TTTTATTTCC
42964682 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
42964709 CTTGACCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42974542 original size:13 final size:14
Alignment explanation
Indices: 42974520--42974548 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
42974510 AAGTTTTGTC
42974520 TTTATCTTTATTTA
1 TTTATCTTTATTTA
42974534 TTTAT-TTTATTTA
1 TTTATCTTTATTTA
42974547 TT
1 TT
42974549 ATTAATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTATCTTTATTTA
Found at i:42974556 original size:16 final size:17
Alignment explanation
Indices: 42974526--42974558 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
42974516 TGTCTTTATC
*
42974526 TTTATTTATTTATTTTA
1 TTTATTTATTAATTTTA
42974543 TTTA-TTATTAATTTTA
1 TTTATTTATTAATTTTA
42974559 AAAACTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTATTTATTAATTTTA
Found at i:42974636 original size:34 final size:34
Alignment explanation
Indices: 42974597--42974674 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 34
42974587 TTATAATATA
**
42974597 TATTTTTAAATTT-TTTTTCTAAATTTTAAAAATT
1 TATTTTTAAATTTATTTTTAAAAATTTTAAAAA-T
42974631 TATTTTT-AATTTATTTTTAAAAATTTTAAAAAT
1 TATTTTTAAATTTATTTTTAAAAATTTTAAAAAT
42974664 TATTTTTAAAT
1 TATTTTTAAAT
42974675 ATTAAATATA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
33 13 0.32
34 27 0.68
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (34 bp):
TATTTTTAAATTTATTTTTAAAAATTTTAAAAAT
Found at i:42974657 original size:20 final size:20
Alignment explanation
Indices: 42974634--42974691 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 20
42974624 AAAAATTTAT
42974634 TTTTAATTTATTTTTAAAAA
1 TTTTAATTTATTTTTAAAAA
* *
42974654 TTTTAAAAATTATTTTTAAATA
1 TTTT--AATTTATTTTTAAAAA
* *
42974676 -TTAAATATATTTTTAA
1 TTTTAATTTATTTTTAA
42974692 TAATATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.35
20 4 0.13
21 2 0.06
22 14 0.45
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTAATTTATTTTTAAAAA
Found at i:42974811 original size:21 final size:21
Alignment explanation
Indices: 42974769--42974837 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
42974759 TAAATGTAAA
* **
42974769 TTTAATTTGTTTTATACTTTT
1 TTTAATTTATTTTATAAATTT
42974790 TTTAATTTATTTTATAAATTT
1 TTTAATTTATTTTATAAATTT
* *
42974811 TTAAATATATATTT-TAAATATT
1 TTTAATTTAT-TTTATAAAT-TT
42974833 TTTAA
1 TTTAA
42974838 AATTTTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 31 0.77
22 9 0.22
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (21 bp):
TTTAATTTATTTTATAAATTT
Found at i:42974857 original size:32 final size:32
Alignment explanation
Indices: 42974797--42974857 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
42974787 TTTTTTAATT
* *
42974797 TATTTTATAAATTTTTAAATATATATTTTAAA
1 TATTTTATAAAATTTTAAATATAAATTTTAAA
42974829 TATTTT-TAAAATTTTAAATATAAAATTTT
1 TATTTTATAAAATTTTAAATAT-AAATTTT
42974858 TATAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (32 bp):
TATTTTATAAAATTTTAAATATAAATTTTAAA
Found at i:42974859 original size:33 final size:34
Alignment explanation
Indices: 42974788--42974859 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 34
42974778 TTTTATACTT
* * *
42974788 TTTTTAATTTATTTTATAAATTTTTAAATATATA
1 TTTTTAATATATTTTATAAAATTTTAAATATAAA
42974822 -TTTTAA-ATATTTT-TAAAATTTTAAATATAAAA
1 TTTTTAATATATTTTATAAAATTTTAAATAT-AAA
42974854 TTTTTA
1 TTTTTA
42974860 TAAATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
31 14 0.42
32 8 0.24
33 11 0.33
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (34 bp):
TTTTTAATATATTTTATAAAATTTTAAATATAAA
Found at i:42974863 original size:25 final size:24
Alignment explanation
Indices: 42974825--42974889 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 24
42974815 ATATATATTT
*
42974825 TAAATATTTTTAAAATT-TTAAATA
1 TAAA-ATTTTTTAAATTATTAAATA
* *
42974849 TAAAATTTTTATAAATTATTAATTT
1 TAAAATTTTT-TAAATTATTAAATA
42974874 TAAAATTAATTTTAAA
1 TAAAATT--TTTTAAA
42974890 GATATTCAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 6 0.18
24 9 0.26
25 12 0.35
26 4 0.12
27 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAAATTTTTTAAATTATTAAATA
Found at i:42975126 original size:23 final size:21
Alignment explanation
Indices: 42975089--42975153 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 21
42975079 AAATAATTTC
42975089 AAATATATATTTAAAATTTTAA
1 AAATATATATTTAAAATTTT-A
*
42975111 AAATATATATTATAAAATATTTC
1 AAATATATATT-TAAAAT-TTTA
* *
42975134 AAATATACATTTCAAATTTT
1 AAATATATATTTAAAATTTT
42975154 TTAAAATTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
21 3 0.08
22 16 0.42
23 16 0.42
24 3 0.08
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
AAATATATATTTAAAATTTTA
Found at i:42975160 original size:23 final size:22
Alignment explanation
Indices: 42975089--42975160 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 22
42975079 AAATAATTTC
*
42975089 AAATATATATTTAAAATTTTAA
1 AAATATATATTTAAAATTTTTA
* *
42975111 AAATATATATTATAAAATATTTC
1 AAATATATATT-TAAAATTTTTA
* *
42975134 AAATATACATTTCAAATTTTTTA
1 AAATATATATTT-AAAATTTTTA
42975157 AAAT
1 AAAT
42975161 TAATAATAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
22 12 0.29
23 29 0.71
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
AAATATATATTTAAAATTTTTA
Found at i:42975235 original size:29 final size:31
Alignment explanation
Indices: 42975164--42975235 Score: 87
Period size: 29 Copynumber: 2.4 Consensus size: 31
42975154 TTAAAATTAA
*
42975164 TAATAAAAAAATAAAGACAAAACTTAAAAAAAG
1 TAATAAAAAAAT--AGACAAAACGTAAAAAAAG
*
42975197 TAA-AAGAAAAT-GACAAAA-GTAAAAAAAG
1 TAATAAAAAAATAGACAAAACGTAAAAAAAG
42975225 TAATAAAAAAA
1 TAATAAAAAAA
42975236 ACAATGTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
28 12 0.34
29 13 0.37
32 7 0.20
33 3 0.09
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.14
Consensus pattern (31 bp):
TAATAAAAAAATAGACAAAACGTAAAAAAAG
Found at i:42975455 original size:30 final size:29
Alignment explanation
Indices: 42975387--42975460 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
42975377 TGTAAATTTC
* *
42975387 AAGTTATTTTCATATTTAATTAAAAAAAT
1 AAGTTATTTTAATAATTAATTAAAAAAAT
* ***
42975416 AAGTCATTTTAATAATTAATTAAAATTTTT
1 AAGTTATTTTAATAATTAATTAAAA-AAAT
42975446 AAGTTATTTTAATAA
1 AAGTTATTTTAATAA
42975461 AAAAAACCTT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 22 0.59
30 15 0.41
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (29 bp):
AAGTTATTTTAATAATTAATTAAAAAAAT
Found at i:42975875 original size:31 final size:29
Alignment explanation
Indices: 42975840--42975926 Score: 77
Period size: 32 Copynumber: 2.8 Consensus size: 29
42975830 TTTTTTAAAA
42975840 TTTTAAAAATTCAAAAATATATAATAATTAT
1 TTTTAAAAATT-AAAAATATATAA-AATTAT
42975871 TTTTAAAAAGATTAAAAAT-TATTAAAATTAT
1 TTTT-AAAA-ATTAAAAATATA-TAAAATTAT
**
42975902 TTAAAAAAAGTATAAAAAATATATA
1 TTTTAAAAA-T-T-AAAAATATATA
42975927 TTTTTTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
29 1 0.02
30 5 0.11
31 15 0.32
32 21 0.45
33 5 0.11
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (29 bp):
TTTTAAAAATTAAAAATATATAAAATTAT
Found at i:42976085 original size:22 final size:22
Alignment explanation
Indices: 42976042--42976088 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
42976032 ATGATTTGAA
* * * *
42976042 AAAAAATACAAATTTAAGAATT
1 AAAAAATAAAAAATAAAAAATT
42976064 AAAAAATAAAAAATAAAAAATT
1 AAAAAATAAAAAATAAAAAATT
42976086 AAA
1 AAA
42976089 CGAAAGGCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (22 bp):
AAAAAATAAAAAATAAAAAATT
Found at i:42976641 original size:17 final size:18
Alignment explanation
Indices: 42976619--42976652 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
42976609 CTGGCATTTT
42976619 TTTTTAGTTTT-ACTTTA
1 TTTTTAGTTTTAACTTTA
42976636 TTTTTAGTTTTAACTTT
1 TTTTTAGTTTTAACTTT
42976653 TAAATATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTTAGTTTTAACTTTA
Found at i:42977311 original size:21 final size:21
Alignment explanation
Indices: 42977291--42977337 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
42977281 AATAAAATAT
42977291 TTAAAATCTATA-A-TTTTATA
1 TTAAAAT-TATATATTTTTATA
*
42977311 TTAATATTATATATTTTTATAA
1 TTAAAATTATATATTTTTAT-A
42977333 TTAAA
1 TTAAA
42977338 TTTAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 4 0.18
20 7 0.32
21 6 0.27
22 5 0.23
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTAAAATTATATATTTTTATA
Found at i:42978196 original size:7 final size:7
Alignment explanation
Indices: 42978181--42978239 Score: 55
Period size: 7 Copynumber: 8.4 Consensus size: 7
42978171 TCCATCCTAT
42978181 ATTCTCA
1 ATTCTCA
*
42978188 ATCCTCA
1 ATTCTCA
*
42978195 ATTTTCA
1 ATTCTCA
*
42978202 ATTTTCA
1 ATTCTCA
*
42978209 ATCCTCA
1 ATTCTCA
*
42978216 ATTTTCA
1 ATTCTCA
*
42978223 ATTTTCA
1 ATTCTCA
*
42978230 ATCCTCA
1 ATTCTCA
42978237 ATT
1 ATT
42978240 ATTTTTTAAT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 42 1.00
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTCTCA
Found at i:42978211 original size:21 final size:21
Alignment explanation
Indices: 42978185--42978239 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
42978175 TCCTATATTC
42978185 TCAATCCTCAATTTTCAATTT
1 TCAATCCTCAATTTTCAATTT
42978206 TCAATCCTCAATTTTCAATTT
1 TCAATCCTCAATTTTCAATTT
42978227 TCAATCCTCAATT
1 TCAATCCTCAATT
42978240 ATTTTTTAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (21 bp):
TCAATCCTCAATTTTCAATTT
Found at i:42978269 original size:15 final size:14
Alignment explanation
Indices: 42978249--42978301 Score: 70
Period size: 15 Copynumber: 3.6 Consensus size: 14
42978239 TATTTTTTAA
42978249 TTATTTTTTTGAATT
1 TTATTTTTTTG-ATT
42978264 TTATTTTGTTTGATT
1 TTATTTT-TTTGATT
*
42978279 TTATTTTTTTCATT
1 TTATTTTTTTGATT
42978293 ATTATTTTT
1 -TTATTTTT
42978302 AAATGGCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
14 6 0.17
15 25 0.71
16 4 0.11
ACGTcount: A:0.17, C:0.02, G:0.06, T:0.75
Consensus pattern (14 bp):
TTATTTTTTTGATT
Found at i:42990569 original size:17 final size:17
Alignment explanation
Indices: 42990547--42990580 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
42990537 TAGCTGCAAA
42990547 TACTTTTGAACTGAAAC
1 TACTTTTGAACTGAAAC
42990564 TACTTTTGAACTGAAAC
1 TACTTTTGAACTGAAAC
42990581 CTAACACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.18, G:0.12, T:0.35
Consensus pattern (17 bp):
TACTTTTGAACTGAAAC
Found at i:43004177 original size:18 final size:20
Alignment explanation
Indices: 43004154--43004195 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
43004144 TTAAAAGCCT
43004154 ATAAT-ATAAAC-AATAATA
1 ATAATAATAAACGAATAATA
43004172 ATAATAGATAAACGAATAATA
1 ATAATA-ATAAACGAATAATA
43004193 ATA
1 ATA
43004196 GGTAAACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 5 0.24
20 6 0.29
21 10 0.48
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
ATAATAATAAACGAATAATA
Found at i:43004196 original size:18 final size:18
Alignment explanation
Indices: 43004168--43004202 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43004158 TATAAACAAT
43004168 AATAATAATAGATAAACG
1 AATAATAATAGATAAACG
*
43004186 AATAATAATAGGTAAAC
1 AATAATAATAGATAAAC
43004203 AAATTCGAAG
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:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (18 bp):
AATAATAATAGATAAACG
Found at i:43004960 original size:54 final size:55
Alignment explanation
Indices: 43004884--43005026 Score: 144
Period size: 54 Copynumber: 2.6 Consensus size: 55
43004874 ATGAAAGCCC
** * * *
43004884 CACGCCCGTGTTCATTTGACAGGTTCGACCACGGGTGTTAGACAC-GACGTGTCA
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACACGGACATGTCA
* * * * * * * *
43004938 CACGCCCGTGCTGTTTTAACAGGTTTGCCCACGGTTCTTCCACACGGGCATGTCG
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACACGGACATGTCA
* *
43004993 CACGCCCGTGTTGTTTTGTCAGGCTCGACCACGG
1 CACGCCCGTGTTGTTTTGACAGGTTCGACCACGG
43005027 CCAGGTCGCA
Statistics
Matches: 69, Mismatches: 19, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
54 35 0.51
55 34 0.49
ACGTcount: A:0.16, C:0.31, G:0.27, T:0.26
Consensus pattern (55 bp):
CACGCCCGTGTTGTTTTGACAGGTTCGACCACGGGTCTTACACACGGACATGTCA
Found at i:43007688 original size:23 final size:25
Alignment explanation
Indices: 43007662--43007708 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43007652 TATCATTCAT
*
43007662 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
43007685 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
43007709 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:43008029 original size:46 final size:46
Alignment explanation
Indices: 43007969--43008233 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
43007959 TTTGACGTGA
* * * * * *
43007969 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
43008015 TGCCATGGTATCTTTCAACCATGGT-TTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
43008060 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43008106 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43008152 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
43008190 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
43008234 AGAGCACACT
Statistics
Matches: 196, Mismatches: 13, Indels: 20
0.86 0.06 0.09
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 7 0.04
45 38 0.19
46 112 0.57
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:43008108 original size:91 final size:90
Alignment explanation
Indices: 43007969--43008232 Score: 344
Period size: 91 Copynumber: 3.0 Consensus size: 90
43007959 TTTGACGTGA
* * * * * *
43007969 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA--TTCTATCAGGTTGCCATGGTATCTTTCAAC
** * *
43008034 CATGGT-TTATTCTTTTCATGTCACGT
64 CATGGTCTTACACATTTCATATCACGT
43008060 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAT-TC-TATCAGGTTGCCATGGTATCTTTCAAC
*
43008125 CATGGTCTTACACATTTCATATCAGGT
64 CATGGTCTTACACATTTCATATCACGT
43008152 TGCCATGGTATCTTTCAACCATGGTCTT--ACA--C-A-CAGGTTGCCATGGTATCTTTCAACCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAGGTTGCCATGGTATCTTTCAACCA
43008211 TGGTCTTACACATTTCATATCA
66 TGGTCTTACACATTTCATATCA
43008233 GAGAGCACAC
Statistics
Matches: 159, Mismatches: 11, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
84 48 0.30
85 1 0.01
87 1 0.01
89 1 0.01
90 5 0.03
91 60 0.38
92 43 0.27
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (90 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTCTATCAGGTTGCCATGGTATCTTTCAACCA
TGGTCTTACACATTTCATATCACGT
Found at i:43008198 original size:38 final size:38
Alignment explanation
Indices: 43008147--43008222 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
43008137 CATTTCATAT
43008147 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
43008185 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
43008223 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:43013043 original size:23 final size:25
Alignment explanation
Indices: 43013017--43013063 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
43013007 TATCATTCAT
*
43013017 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
43013040 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
43013064 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:43013384 original size:46 final size:46
Alignment explanation
Indices: 43013324--43013497 Score: 204
Period size: 46 Copynumber: 4.0 Consensus size: 46
43013314 TTTGACGTGA
* * * * * * *
43013324 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
43013370 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
43013416 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
43013454 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAG
43013498 AGAGCACACT
Statistics
Matches: 112, Mismatches: 7, Indels: 18
0.82 0.05 0.13
Matches are distributed among these distances:
38 33 0.29
39 1 0.01
40 3 0.03
41 1 0.01
43 1 0.01
44 3 0.03
45 4 0.04
46 66 0.59
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.37
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
Found at i:43013462 original size:38 final size:38
Alignment explanation
Indices: 43013411--43013486 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
43013401 CATCTCATAT
43013411 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
43013449 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
43013487 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:43025548 original size:47 final size:48
Alignment explanation
Indices: 43025458--43025678 Score: 226
Period size: 46 Copynumber: 4.7 Consensus size: 48
43025448 TAGGTAAGGT
* *
43025458 GCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCAT-ATCT-TAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCTAA
* * * *
43025505 GTCAATGCCATATCCCAGACATGGTCTTACACTGACTATTATCTCGT-A
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTC-TAA
* * * *
43025553 GCCGATG-CATGTCCCAAACAT-GTTTTACACTGACTATCATCTCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCTAA
* *
43025599 GCCGATG-CATGTCCCAGACAT-GTCTTACACT-AGCTCTCGTCTC-AA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCATCTCTAA
*
43025644 TGCCGGTGCCATGTCCCAGACATGGTCTTACACTG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTG
43025679 GCTCTCATAA
Statistics
Matches: 146, Mismatches: 19, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 65 0.45
47 62 0.42
48 16 0.11
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCTAA
Found at i:43025595 original size:46 final size:46
Alignment explanation
Indices: 43025458--43025722 Score: 200
Period size: 46 Copynumber: 5.7 Consensus size: 46
43025448 TAGGTAAGGT
* * * *
43025458 GCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCAT-ATCT-TAA
1 GCCGATG-CATGTCCCAGAC-ATGTCTTACACTGACT-ATCATCTCGAG
* * * *
43025505 GTCAATGCCATATCCCAGACATGGTCTTACACTGACTATTATCTCGTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AG
* *
43025553 GCCGATGCATGTCCCAAACATGTTTTACACTGACTATCATCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
* * * *
43025599 GCCGATGCATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGA-CTATCATCTCGAG
* * * *
43025645 GCCGGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCG-AG
* * *
43025693 GCCGATACTTGTCCCAGACATGTCGTACAC
1 GCCGATGCATGTCCCAGACATGTCTTACAC
43025723 AAGCTCACAC
Statistics
Matches: 180, Mismatches: 27, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 2 0.01
46 76 0.42
47 73 0.41
48 26 0.14
49 3 0.02
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACTATCATCTCGAG
Found at i:43025722 original size:140 final size:141
Alignment explanation
Indices: 43025458--43025722 Score: 322
Period size: 140 Copynumber: 1.9 Consensus size: 141
43025448 TAGGTAAGGT
* * *
43025458 GCCGATGCCATGTCCCAGACAAGGTCTTACACTGGCTCATATCTTAAGTCAATGCCATATCCCAG
1 GCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCATATCTCAAGCCAATGCCATATCCCAG
* * * **
43025523 ACATGGTCTTACACTGACTATTATCTCGTAGCCGATGCATGTCCCAAACATGTTTTACACTGACT
66 ACATGGTCTTACACTGACTATCATATCGTAGCCGATACATGTCCCAAACATGTCGTACACTGACT
43025588 ATCATCTCGAG
131 ATCATCTCGAG
* * ** *
43025599 GCCGATG-CATGTCCCAGAC-ATGTCTTACACTAGCTC-TCGTCTCAATGCCGGTGCCATGTCCC
1 GCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCAT-ATCTCAA-GCCAATGCCATATCCC
* * * *
43025661 AGACATGGTCTTACACTGGCTCTCATAAT-GTAGCCGATACTTGTCCCAGACATGTCGTACAC
64 AGACATGGTCTTACACTGACTATCAT-ATCGTAGCCGATACATGTCCCAAACATGTCGTACAC
43025723 AAGCTCACAC
Statistics
Matches: 104, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 20 0.19
140 75 0.72
141 8 0.08
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCATATCTCAAGCCAATGCCATATCCCAG
ACATGGTCTTACACTGACTATCATATCGTAGCCGATACATGTCCCAAACATGTCGTACACTGACT
ATCATCTCGAG
Found at i:43028187 original size:26 final size:26
Alignment explanation
Indices: 43028157--43028208 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
43028147 TCTTTTCATA
43028157 CCCAACCACCAATACATTTTCTTGAG
1 CCCAACCACCAATACATTTTCTTGAG
43028183 CCCAACCACCAATACATTTTCTTGAG
1 CCCAACCACCAATACATTTTCTTGAG
43028209 GCCACTGTAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.27
Consensus pattern (26 bp):
CCCAACCACCAATACATTTTCTTGAG
Found at i:43032214 original size:47 final size:46
Alignment explanation
Indices: 43032146--43032358 Score: 166
Period size: 47 Copynumber: 4.6 Consensus size: 46
43032136 TTTGTACGCC
* * * *
43032146 AGTGTAAGACATGTTTGGGACATGCTTCGGCCA-CATTATGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACCA-GACGAGAGCT
* * *
43032192 AGTGTAAGACCATGTCTAGGACATGGCATCGGCAACCAGACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCACCAGACGAGAGCT
* * * *
43032240 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACA-AAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC--CAGACGAGAGCT
** * * * * * *
43032287 AGTGTAAGATGTGTCTAGGACACGCATTGGCTA--AGA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACCAGACG-AGAGCT
43032331 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
43032359 AGCACGTGTA
Statistics
Matches: 130, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
43 2 0.02
44 26 0.20
46 18 0.14
47 56 0.43
48 26 0.20
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACCAGACGAGAGCT
Found at i:43032307 original size:94 final size:91
Alignment explanation
Indices: 43032146--43032358 Score: 232
Period size: 94 Copynumber: 2.3 Consensus size: 91
43032136 TTTGTACGCC
* * ** * *
43032146 AGTGTAAGACATGTTTGGGACATGCTTCGGCCACATTATGAGAGCTAGTGTAAGACCATGTCTAG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGTGTAAGACCATGTCTAG
*
43032211 GACATGGCATCGGCAACCAGACG-AGGGCT
66 GACA-CGCATCGGCAA--AGA-GTAGGGCT
* * **
43032240 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGACAAAGATAGCCAGTGTAAGA-TGTGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ACAAAGAGAGCCAGTGTAAGACCATGTCTA
* * * *
43032304 GGACACGCATTGGCTAAGAGTTGTGCT
65 GGACACGCATCGGCAAAGAGTAGGGCT
43032331 AGTGTAAGACATGTCTGGGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
43032359 AGCACGTGTA
Statistics
Matches: 102, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
90 1 0.01
91 35 0.34
93 8 0.08
94 42 0.41
95 16 0.16
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (91 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACACAAAGAGAGCCAGTGTAAGACCATGTCTAG
GACACGCATCGGCAAAGAGTAGGGCT
Found at i:43036604 original size:79 final size:82
Alignment explanation
Indices: 43036493--43036677 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
43036483 GCTACTCGTT
* *
43036493 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43036556 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
43036573 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
43036636 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
43036653 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43036678 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:43036677 original size:40 final size:40
Alignment explanation
Indices: 43036474--43036677 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
43036464 CGGAATTTAA
** *
43036474 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43036514 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43036554 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43036593 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43036633 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43036673 CCGGA
1 CCGGA
43036678 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43044568 original size:79 final size:82
Alignment explanation
Indices: 43044457--43044641 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
43044447 GCTACTCGTT
* *
43044457 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
43044520 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
43044537 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
43044600 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
43044617 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
43044642 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:43044641 original size:40 final size:40
Alignment explanation
Indices: 43044438--43044641 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
43044428 CGGAATTTAA
** *
43044438 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43044478 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
43044518 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
43044557 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
43044597 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
43044637 CCGGA
1 CCGGA
43044642 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:43047030 original size:47 final size:48
Alignment explanation
Indices: 43046959--43047228 Score: 258
Period size: 46 Copynumber: 5.8 Consensus size: 48
43046949 GGTAAGGTGC
* *
43046959 CGATGCCATGTCCTAGACAAGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
* * * *
43047006 CGATGCCATGTCCCAGGCATGGTCTTACATTGACT-ATCATCTCATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCA-AGT
* * *
43047054 CGATG-CATGTCCCAGACAT-GTTTTACACTGACT-ATCATCTCGAGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTC-AAGT
* *
43047100 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTC-TCGTCTCAA-T
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
* *** *
43047144 ACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTGGC
1 --CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT-CTCAAGT
*
43047194 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA
43047229 CACTCACATG
Statistics
Matches: 188, Mismatches: 24, Indels: 22
0.80 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 78 0.41
47 78 0.41
48 29 0.15
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAAGT
Found at i:43047092 original size:46 final size:47
Alignment explanation
Indices: 43046957--43047222 Score: 253
Period size: 47 Copynumber: 5.7 Consensus size: 47
43046947 TGGGTAAGGT
* * *
43046957 GCCGATGCCATGTCCTAGACAAGGTCTTACACTGGCTCAT-ATCTCA-A
1 GCCGATGCCATGTCCCAGAC-ATGTCTTACACTGACT-ATCATCTCATA
* * *
43047004 GTCGATGCCATGTCCCAGGCATGGTCTTACATTGACTATCATCTCATA
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTATCATCTCATA
* *
43047052 GCCGATG-CATGTCCCAGACATGTTTTACACTGACTATCATCTCGA-G
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTC-ATA
* * *
43047098 GTCGATG-CATGTCCCAGACATGTCTTACACT-AGCTCTCGTCTCAATA
1 GCCGATGCCATGTCCCAGACATGTCTTACACTGA-CTATCATCTC-ATA
* * * * *
43047145 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTG
1 GCCGATGCCATGTCCCAGACAT-GTCTTACACTGACTATCAT-CTCATA
43047192 GCCGATG-CATGTCCCAGACATGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGTCTTACACT
43047223 AGCTCACACT
Statistics
Matches: 185, Mismatches: 23, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
45 1 0.01
46 76 0.41
47 78 0.42
48 29 0.16
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGTCTTACACTGACTATCATCTCATA
Found at i:43047207 original size:94 final size:93
Alignment explanation
Indices: 43046957--43047227 Score: 302
Period size: 94 Copynumber: 2.9 Consensus size: 93
43046947 TGGGTAAGGT
* * * *
43046957 GCCGATGCCATGTCCTAGACAAGGTCTTACACTGG--CTCATATCTCAAGTCGATGCCATGTCCC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGT--GGTCGATG-CATGTCCC
* * *
43047020 AGGCATGGTCTTACA-TTGACTATCATCTCATA
63 AGACAT-GTCTTACACTAG-CTCTCATCTCATA
* * * * *
43047052 GCCGATG-CATGTCCCAGACAT-GTTTTACACTGACTATCATCTCGAGGTCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAT-GTGGTCGATGCATGTCCCAG
*
43047115 ACATGTCTTACACTAGCTCTCGTCTCAATA
65 ACATGTCTTACACTAGCTCTCATCTC-ATA
*
43047145 -CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATGTGGTCGATGCATGTCCCAG
43047209 ACATGTCTTACACTAGCTC
65 ACATGTCTTACACTAGCTC
43047228 ACACTCACAT
Statistics
Matches: 149, Mismatches: 19, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
92 22 0.15
93 42 0.28
94 72 0.48
95 13 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATGTGGTCGATGCATGTCCCAGA
CATGTCTTACACTAGCTCTCATCTCATA
Found at i:43047220 original size:140 final size:141
Alignment explanation
Indices: 43046959--43047222 Score: 349
Period size: 140 Copynumber: 1.9 Consensus size: 141
43046949 GGTAAGGTGC
* * *
43046959 CGATGCCATGTCCTAGACAAGGTCTTACACTGGCTCATATCTCAAGTCGATGCCATGTCCCAGGC
1 CGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
* * *
43047024 ATGGTCTTACATTGACTATCATCTCATAGCCGATGCATGTCCCAGACATGTTTTACACTGACTAT
66 ATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACACTGACTAT
43047089 CATCTCGAGGT
131 CATCTCGAGGT
* *
43047100 CGATG-CATGTCCCAGAC-ATGTCTTACACTAGCTC-TCGTCTCAA-TACCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCAT-ATCTCAAGT--CGATGCCATGTCCCA
* * * *
43047161 GACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCATGTCCCAGACATGTCTTACACT
63 GACATGGTCTTACACTGACTATCAT-ATCATAGCCGATGCATGTCCCAGACATGTCTTACACT
43047223 AGCTCACACT
Statistics
Matches: 107, Mismatches: 12, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
138 2 0.02
139 21 0.20
140 78 0.73
141 6 0.06
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.28
Consensus pattern (141 bp):
CGATGCCATGTCCCAGACAAGGTCTTACACTAGCTCATATCTCAAGTCGATGCCATGTCCCAGAC
ATGGTCTTACACTGACTATCATATCATAGCCGATGCATGTCCCAGACATGTCTTACACTGACTAT
CATCTCGAGGT
Found at i:43049561 original size:24 final size:24
Alignment explanation
Indices: 43049519--43049569 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
43049509 CCACTTTTCC
* *
43049519 CAAAAAGAAAAGAAGAAGAAGAAG
1 CAAAAAGAAAACAAGAAGAAAAAG
43049543 CAAAAAGAAAACCAA-AAGAAAAAG
1 CAAAAAGAAAA-CAAGAAGAAAAAG
43049567 CAA
1 CAA
43049570 TCAAAAGGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.73, C:0.10, G:0.18, T:0.00
Consensus pattern (24 bp):
CAAAAAGAAAACAAGAAGAAAAAG
Found at i:43050782 original size:2 final size:2
Alignment explanation
Indices: 43050775--43050801 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43050765 AGGGTGTTAT
43050775 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
43050802 TGGTGAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:43052602 original size:23 final size:23
Alignment explanation
Indices: 43052576--43052620 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
43052566 ACCAAAACAC
43052576 AAGCATAACATAAGCCCAAACCT
1 AAGCATAACATAAGCCCAAACCT
* *
43052599 AAGCATAACATGAGTCCAAACC
1 AAGCATAACATAAGCCCAAACC
43052621 AATACCCACG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.47, C:0.29, G:0.11, T:0.13
Consensus pattern (23 bp):
AAGCATAACATAAGCCCAAACCT
Found at i:43061765 original size:12 final size:12
Alignment explanation
Indices: 43061748--43061774 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
43061738 TCTTATGCTC
43061748 TCTTTTTTTTTT
1 TCTTTTTTTTTT
43061760 TCTTTTTTTTTT
1 TCTTTTTTTTTT
43061772 TCT
1 TCT
43061775 ATAATTAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TCTTTTTTTTTT
Found at i:43063589 original size:3 final size:3
Alignment explanation
Indices: 43063581--43063606 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43063571 TAATTTACTG
43063581 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
43063607 ATTTAGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:43063761 original size:2 final size:2
Alignment explanation
Indices: 43063754--43063790 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
43063744 CTTAACATTC
*
43063754 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
43063791 ACATTGTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:43064178 original size:21 final size:21
Alignment explanation
Indices: 43064153--43064197 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
43064143 ATATATCATG
43064153 TATATATTTCGAATACTATAT
1 TATATATTTCGAATACTATAT
43064174 TATATATTTCGAATACTATAT
1 TATATATTTCGAATACTATAT
43064195 TAT
1 TAT
43064198 TTTTTCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (21 bp):
TATATATTTCGAATACTATAT
Found at i:43064274 original size:25 final size:25
Alignment explanation
Indices: 43064216--43064337 Score: 93
Period size: 25 Copynumber: 4.6 Consensus size: 25
43064206 ACATATTATC
* *
43064216 TTATATATATATATATTTTTTTAATAA
1 TTATAT-TATGTATATATTTTTAAT-A
43064243 CTCTATATTATGTATATATTTTTAATA
1 -T-TATATTATGTATATATTTTTAATA
* *
43064270 TTATACTATGTATATACTTTGTAATA
1 TTATATTATGTATATA-TTTTTAATA
* * * **
43064296 CTATTATCATGTTTATATTTAAAATA
1 TTA-TATTATGTATATATTTTTAATA
43064322 -TATATGTATGTATATA
1 TTATAT-TATGTATATA
43064338 GGTAACATTA
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
24 3 0.04
25 24 0.31
26 18 0.23
27 11 0.14
28 17 0.22
29 5 0.06
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.53
Consensus pattern (25 bp):
TTATATTATGTATATATTTTTAATA
Found at i:43071944 original size:435 final size:435
Alignment explanation
Indices: 43071134--43071981 Score: 1678
Period size: 435 Copynumber: 1.9 Consensus size: 435
43071124 GAAGTTTATC
43071134 ATGGATGGCTGTTTGGTCACTATCGAGGGAGAAGAAGACATTGTCGCATCTATCTCTGCCGATGC
1 ATGGATGGCTGTTTGGTCACTATCGAGGGAGAAGAAGACATTGTCGCATCTATCTCTGCCGATGC
43071199 ACCGTACCTGGAAGTGAACAAAGATGCAATAGAATGTTCCTTCCGATCCTTTGAATTTGTCAATG
66 ACCGTACCTGGAAGTGAACAAAGATGCAATAGAATGTTCCTTCCGATCCTTTGAATTTGTCAATG
43071264 CCACTTTTGTCGCTGAGGGAAATAGAATTTCGGTGCCAAAACTGTCAAGGAATACCAAATTGGGT
131 CCACTTTTGTCGCTGAGGGAAATAGAATTTCGGTGCCAAAACTGTCAAGGAATACCAAATTGGGT
43071329 GTTAAGATGACTGTGGGAAGAGGAGCCCGAGCAAGGAAGGGTTTGGGAAGGTATCTACAAGGAAT
196 GTTAAGATGACTGTGGGAAGAGGAGCCCGAGCAAGGAAGGGTTTGGGAAGGTATCTACAAGGAAT
43071394 AGTCAGGGCTCTAAAGCCAGTGCACCACAAGGCCCGATACGGTTTGGGGTTCCAGCCAGACATAC
261 AGTCAGGGCTCTAAAGCCAGTGCACCACAAGGCCCGATACGGTTTGGGGTTCCAGCCAGACATAC
43071459 GACAGAGAAGGAAATAGTTGCAGAAAGATCAAGAAAGATGGATTGCAAGAGTCTTAGGCTGAGAA
326 GACAGAGAAGGAAATAGTTGCAGAAAGATCAAGAAAGATGGATTGCAAGAGTCTTAGGCTGAGAA
43071524 TTAGAATGAGAGCCCATAACGTAATTAGAATGAGAATTAGAAAAG
391 TTAGAATGAGAGCCCATAACGTAATTAGAATGAGAATTAGAAAAG
43071569 ATGGATGGCTGTTTGGTCACTATCGAGGGAGAAGAAGACATTGTCGCATCTATCTCTGCCGATGC
1 ATGGATGGCTGTTTGGTCACTATCGAGGGAGAAGAAGACATTGTCGCATCTATCTCTGCCGATGC
43071634 ACCGTACCTGGAAGTGAACAAAGATGCAATAGAATGTTCCTTCCGATCCTTTGAATTTGTCAATG
66 ACCGTACCTGGAAGTGAACAAAGATGCAATAGAATGTTCCTTCCGATCCTTTGAATTTGTCAATG
*
43071699 CCACTTTTTTCGCTGAGGGAAATAGAATTTCGGTGCCAAAACTGTCAAGGAATACCAAATTGGGT
131 CCACTTTTGTCGCTGAGGGAAATAGAATTTCGGTGCCAAAACTGTCAAGGAATACCAAATTGGGT
43071764 GTTAAGATGACTGTGGGAAGAGGAGCCCGAGCAAGGAAGGGTTTGGGAAGGTATCTACAAGGAAT
196 GTTAAGATGACTGTGGGAAGAGGAGCCCGAGCAAGGAAGGGTTTGGGAAGGTATCTACAAGGAAT
*
43071829 AGTCAGGGCTCTAAAGCCAGTGTACCACAAGGCCCGATACGGTTTGGGGTTCCAGCCAGACATAC
261 AGTCAGGGCTCTAAAGCCAGTGCACCACAAGGCCCGATACGGTTTGGGGTTCCAGCCAGACATAC
43071894 GACAGAGAAGGAAATAGTTGCAGAAAGATCAAGAAAGATGGATTGCAAGAGTCTTAGGCTGAGAA
326 GACAGAGAAGGAAATAGTTGCAGAAAGATCAAGAAAGATGGATTGCAAGAGTCTTAGGCTGAGAA
43071959 TTAGAATGAGAGCCCATAACGTA
391 TTAGAATGAGAGCCCATAACGTA
43071982 CCCTCCTTTG
Statistics
Matches: 411, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
435 411 1.00
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (435 bp):
ATGGATGGCTGTTTGGTCACTATCGAGGGAGAAGAAGACATTGTCGCATCTATCTCTGCCGATGC
ACCGTACCTGGAAGTGAACAAAGATGCAATAGAATGTTCCTTCCGATCCTTTGAATTTGTCAATG
CCACTTTTGTCGCTGAGGGAAATAGAATTTCGGTGCCAAAACTGTCAAGGAATACCAAATTGGGT
GTTAAGATGACTGTGGGAAGAGGAGCCCGAGCAAGGAAGGGTTTGGGAAGGTATCTACAAGGAAT
AGTCAGGGCTCTAAAGCCAGTGCACCACAAGGCCCGATACGGTTTGGGGTTCCAGCCAGACATAC
GACAGAGAAGGAAATAGTTGCAGAAAGATCAAGAAAGATGGATTGCAAGAGTCTTAGGCTGAGAA
TTAGAATGAGAGCCCATAACGTAATTAGAATGAGAATTAGAAAAG
Found at i:43077282 original size:87 final size:86
Alignment explanation
Indices: 43077136--43077435 Score: 379
Period size: 87 Copynumber: 3.6 Consensus size: 86
43077126 CAAATTTCAG
* *
43077136 CTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCA
1 CTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCA
43077201 ATTTATGTGTTTTAAAAATCAA
66 ATTTA-GTGTTTTAAAAATCAA
* *
43077223 CTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCA
1 CTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCA
43077288 ATTTAGGTGTTTTAAAAATCAA
66 ATTTA-GTGTTTTAAAAATCAA
* * *
43077310 CTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTA-TTTCAATTTCT-ATTTT
1 CTCATATTACGAGAGGTGAGTTGAGCCTCGGG--ACACGCTGAGGTATTTTCAATTTCTGCTTTT
*
43077373 CAA---A------AAAAAATCAA
64 CAATTTAGTGTTTTAAAAATCAA
* * **
43077387 CTCATACTACGAGAGGTGAGTTGAGCCTTGGGATGCGCTGAGGTATTTT
1 CTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTT
43077436 TAGTCTCTAT
Statistics
Matches: 195, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
75 9 0.05
76 3 0.02
77 39 0.20
84 1 0.01
87 121 0.62
88 11 0.06
89 11 0.06
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.34
Consensus pattern (86 bp):
CTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATTTCTGCTTTTCA
ATTTAGTGTTTTAAAAATCAA
Found at i:43077407 original size:77 final size:76
Alignment explanation
Indices: 43077301--43077543 Score: 267
Period size: 77 Copynumber: 3.2 Consensus size: 76
43077291 TAGGTGTTTT
* *
43077301 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACACCGAGGTA-TTTCAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTTAATT
43077365 TCTATTTTCAAAA
66 TCTATTTTC--AA
* * ** * * *
43077378 AAAAATCAACTCATACTACGAGAGGTGAGTTGAGCCTTGGG--ATGCGCTGAGGTATTTTTAGTC
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTTAATT
43077441 TCTATTTTTCAA
66 TCTA-TTTTCAA
* * * * * * *
43077453 ACAAATCAACTCATATTACGAGAGATGAGCTAAGCTTCAGATCACACACTGAGGTATTTTTAATT
1 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTTAATT
* *
43077518 TATGTTTTTCAA
66 TCT-ATTTTCAA
43077530 AAAAATCAACTCAT
1 AAAAATCAACTCAT
43077544 TGAGCCTTGG
Statistics
Matches: 135, Mismatches: 26, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
75 43 0.32
76 9 0.07
77 83 0.61
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (76 bp):
AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCGGGTCACACACTGAGGTATTTTTAATT
TCTATTTTCAA
Found at i:43077600 original size:13 final size:13
Alignment explanation
Indices: 43077568--43077604 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 13
43077558 CATGTCGAGG
43077568 TATTTTCAAATTC
1 TATTTTCAAATTC
*
43077581 TGTTTTTCAAATTC
1 T-ATTTTCAAATTC
43077595 TATTTTCAAA
1 TATTTTCAAA
43077605 AATCAACTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (13 bp):
TATTTTCAAATTC
Found at i:43079870 original size:3 final size:3
Alignment explanation
Indices: 43079862--43079890 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43079852 TAATTTACTG
43079862 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
43079891 ATTTAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:43080480 original size:21 final size:21
Alignment explanation
Indices: 43080429--43080473 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
43080419 ATATATCATG
43080429 TATATATTTCGAATACTATAT
1 TATATATTTCGAATACTATAT
43080450 TATATATTTCGAATACTATAT
1 TATATATTTCGAATACTATAT
43080471 TAT
1 TAT
43080474 TTTTTTCTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (21 bp):
TATATATTTCGAATACTATAT
Found at i:43080547 original size:25 final size:25
Alignment explanation
Indices: 43080485--43080610 Score: 92
Period size: 25 Copynumber: 4.8 Consensus size: 25
43080475 TTTTTCTTAC
* *
43080485 ATATTATCTTATATATATATATATTTA
1 ATATTATATTATGTATATAT-T-TTTA
43080512 ATAACTCTATATTATGTATATATTTTTA
1 AT-A-T-TATATTATGTATATATTTTTA
* *
43080540 ATATTATACTATGTATATACTTTGTA
1 ATATTATATTATGTATATA-TTTTTA
* * * **
43080566 ATACTATTATCATGTTTATATTTAAA
1 ATATTA-TATTATGTATATATTTTTA
43080592 ATA-TATATGTATGTATATA
1 ATATTATAT-TATGTATATA
43080611 GGTAACATTA
Statistics
Matches: 81, Mismatches: 12, Indels: 14
0.76 0.11 0.13
Matches are distributed among these distances:
24 3 0.04
25 24 0.30
26 18 0.22
27 13 0.16
28 7 0.09
29 2 0.02
30 14 0.17
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.52
Consensus pattern (25 bp):
ATATTATATTATGTATATATTTTTA
Found at i:43087883 original size:16 final size:17
Alignment explanation
Indices: 43087862--43087895 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
43087852 ATTATCTTGG
*
43087862 ATTTTTGG-GTATTTCT
1 ATTTTTGGTATATTTCT
43087878 ATTTTTGGTATATTTCT
1 ATTTTTGGTATATTTCT
43087895 A
1 A
43087896 ATGAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.18, C:0.06, G:0.15, T:0.62
Consensus pattern (17 bp):
ATTTTTGGTATATTTCT
Found at i:43090209 original size:29 final size:30
Alignment explanation
Indices: 43090177--43090233 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
43090167 TTTATATTTG
*
43090177 ATAAAGATTAT-ATATTTTAGTATTTAAAA
1 ATAAAGATGATAATATTTTAGTATTTAAAA
* * *
43090206 ATAACGGTGATAATTTTTTAGTATTTAA
1 ATAAAGATGATAATATTTTAGTATTTAA
43090234 TTCGAGTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.46
Consensus pattern (30 bp):
ATAAAGATGATAATATTTTAGTATTTAAAA
Found at i:43092878 original size:27 final size:27
Alignment explanation
Indices: 43092828--43092880 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
43092818 TTTTATAATC
* ***
43092828 AAAAGTTTATCTTAATTTTGGCAGCAA
1 AAAAGTTGATCTTAATTCACGCAGCAA
43092855 AAAAGTTGATCTTAATTCACGCAGCA
1 AAAAGTTGATCTTAATTCACGCAGCA
43092881 TTTGCTAAGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (27 bp):
AAAAGTTGATCTTAATTCACGCAGCAA
Found at i:43095564 original size:30 final size:31
Alignment explanation
Indices: 43095519--43095578 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
43095509 AAAATGTTTT
43095519 TTTATCTTATAATTTT-ATAATTTTGAAGGGA
1 TTTATCTTATAATTTTAAT-ATTTTGAAGGGA
* *
43095550 TTTATC-TCTAATTTTAATATTTTTAAGGG
1 TTTATCTTATAATTTTAATATTTTGAAGGG
43095579 GACAAGATCC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (31 bp):
TTTATCTTATAATTTTAATATTTTGAAGGGA
Found at i:43097827 original size:16 final size:15
Alignment explanation
Indices: 43097806--43097861 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 15
43097796 CAATGGTTGC
43097806 TAGAATTAAAAAAAGT
1 TAGAATTAAAAAAA-T
*
43097822 TAGAA-TATAAAAAT
1 TAGAATTAAAAAAAT
*
43097836 TA-AATTAAAAATAT
1 TAGAATTAAAAAAAT
*
43097850 TA-AAATAAAAAA
1 TAGAATTAAAAAA
43097862 TGGCTAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
13 2 0.06
14 20 0.59
15 7 0.21
16 5 0.15
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (15 bp):
TAGAATTAAAAAAAT
Found at i:43097856 original size:28 final size:28
Alignment explanation
Indices: 43097809--43097862 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
43097799 TGGTTGCTAG
*
43097809 AATTAAAAAAAGTTAGAATATAAAAATTA
1 AATTAAAAAAAGTTAAAATA-AAAAATTA
*
43097838 AATTAAAAATA-TTAAAATAAAAAAT
1 AATTAAAAAAAGTTAAAATAAAAAAT
43097863 GGCTAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
28 7 0.30
29 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.28
Consensus pattern (28 bp):
AATTAAAAAAAGTTAAAATAAAAAATTA
Found at i:43100495 original size:38 final size:36
Alignment explanation
Indices: 43100380--43101014 Score: 474
Period size: 37 Copynumber: 17.4 Consensus size: 36
43100370 TAATCAATGC
* * *
43100380 CAACCTTTGAAAAAGATTGGTATAGACCCGTCTAAGG
1 CAACCTTTAAAAAAG-TTGGGATAGACCTGTCTAAGG
* * * * * *
43100417 CAATC-TTAAAGAGGTTGAGATAGACCAGTCTAAGA
1 CAACCTTTAAAAAAGTTGGGATAGACCTGTCTAAGG
* * *
43100452 TAACCTTTTAAAAAAGTTAGGATAGACCCTGTCTAAGA
1 CAACC-TTTAAAAAAGTTGGGATAGA-CCTGTCTAAGG
*
43100490 CAACCTTTAAGAAAAGTTGGGATAGACCTGGTCTATA-A
1 CAACCTTTAA-AAAAGTTGGGATAGACCT-GTCTA-AGG
* **
43100528 CAACCTTTAAAAAATATTGGGATAGAATTGTCTAAGG
1 CAACCTTTAAAAAA-GTTGGGATAGACCTGTCTAAGG
* *
43100565 CAACC-TTAAAAAGGTTGGAATAGACCTTGTCTAAGG
1 CAACCTTTAAAAAAGTTGGGATAGACC-TGTCTAAGG
* *
43100601 CAACTTTTAAAAAAGGTTGGGATAGACCAGTCTAAGG
1 CAACCTTTAAAAAA-GTTGGGATAGACCTGTCTAAGG
* * *
43100638 TAACCTTTTAACAAAGTTGGGATAGACCTTGGCTAAGG
1 CAACC-TTTAAAAAAGTTGGGATAGACC-TGTCTAAGG
* * *
43100676 CAACCTTTAAAAAAGGTTGAGATAGATCAGTCTAAGG
1 CAACCTTTAAAAAA-GTTGGGATAGACCTGTCTAAGG
* *
43100713 CAACTTTTTAAAAAAGTTGGGATAGACCTTGTTTAAGG
1 CAAC-CTTTAAAAAAGTTGGGATAGACC-TGTCTAAGG
* * * *
43100751 CAACCTTAAAAAAAGGTTAGGATAGACTTGTCTAAAG
1 CAACCTTTAAAAAA-GTTGGGATAGACCTGTCTAAGG
*
43100788 CAACC-TTAAAAAGGTTGGGATAGA-CTCGTCTAAGG
1 CAACCTTTAAAAAAGTTGGGATAGACCT-GTCTAAGG
* * * * * *
43100823 TAACC-TCAAAAAGGTTAGGATAGATCTTATCTAAGG
1 CAACCTTTAAAAAAGTTGGGATAGA-CCTGTCTAAGG
* * * *
43100859 CAACTTTTAAAAAGGTTGGGATTGA-CTCGT-TAAAGA
1 CAACCTTTAAAAAAGTTGGGATAGACCT-GTCT-AAGG
* * * *
43100895 CAACC-TTAAAGATA-TTGGGATAGACCTATTTAAAG
1 CAACCTTTAAA-AAAGTTGGGATAGACCTGTCTAAGG
* * * *
43100930 CAACC-TTAAAAAGGTTGGGATAGACTTTTTCCAAGG
1 CAACCTTTAAAAAAGTTGGGATAGAC-CTGTCTAAGG
*
43100966 CAA--TTTAAAAAAAGTTGGGATAAACTCAT-T-TAAGG
1 CAACCTTT-AAAAAAGTTGGGATAGAC-C-TGTCTAAGG
43101001 CAACC-TTAAAAAAG
1 CAACCTTTAAAAAAG
43101015 GTTAGGGTAA
Statistics
Matches: 477, Mismatches: 88, Indels: 68
0.75 0.14 0.11
Matches are distributed among these distances:
34 2 0.00
35 123 0.26
36 83 0.17
37 140 0.29
38 128 0.27
39 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (36 bp):
CAACCTTTAAAAAAGTTGGGATAGACCTGTCTAAGG
Found at i:43100540 original size:75 final size:74
Alignment explanation
Indices: 43100380--43101060 Score: 480
Period size: 75 Copynumber: 9.4 Consensus size: 74
43100370 TAATCAATGC
* * * * * *
43100380 CAACCTTTGAAAAAGATT-GGTATAGACCCGTCTAAGGCAATC-TTAAAGAGGTTGAGATAGACC
1 CAACCTTTAAAAAAGGTTAGG-ATAGACCTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC
*
43100443 -AGTCTAAGA
65 TGGTCTAAGA
* * *
43100452 TAACCTTTTAAAAAA-GTTAGGATAGACCCTGTCTAAGACAACCTTTAAGAAAAGTTGGGATAGA
1 CAACC-TTTAAAAAAGGTTAGGATAGA-CCTGTCTAAGGCAACCTTTAA-AAAGGTTGGGATAGA
43100516 CCTGGTCTATA-A
63 CCTGGTCTA-AGA
** * ** *
43100528 CAACCTTTAAAAAATATTGGGATAGAATTGTCTAAGGCAACC-TTAAAAAGGTTGGAATAGACCT
1 CAACCTTTAAAAAAGGTTAGGATAGACCTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT
* *
43100592 TGTCTAAGG
66 GGTCTAAGA
* * * *
43100601 CAACTTTTAAAAAAGGTTGGGATAGACCAGTCTAAGGTAACCTTTTAACAAA-GTTGGGATAGAC
1 CAACCTTTAAAAAAGGTTAGGATAGACCTGTCTAAGGCAACC-TTTAA-AAAGGTTGGGATAGAC
*
43100665 CTTGG-CTAAGG
64 C-TGGTCTAAGA
* * * *
43100676 CAACCTTTAAAAAAGGTT-GAGATAGATCAGTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGAC
1 CAACCTTTAAAAAAGGTTAG-GATAGACCTGTCTAAGGCAAC-CTTTAAAAAGGTTGGGATAGAC
* * *
43100740 CTTGTTTAAGG
64 CTGGTCTAAGA
* * *
43100751 CAACCTTAAAAAAAGGTTAGGATAGACTTGTCTAAAGCAACC-TTAAAAAGGTTGGGATAGA-CT
1 CAACCTTTAAAAAAGGTTAGGATAGACCTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT
* *
43100814 CGTCTAAGG
66 GGTCTAAGA
* * * * * *
43100823 TAACC--TCAAAAAGGTTAGGATAGATCTTATCTAAGGCAACTTTTAAAAAGGTTGGGATTGA-C
1 CAACCTTTAAAAAAGGTTAGGATAGA-CCTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC
*
43100885 TCGT-TAAAGA
65 TGGTCT-AAGA
* * * * * *
43100895 CAACC-TTAAAGATA--TTGGGATAGACCTATTTAAAGCAACC-TTAAAAAGGTTGGGATAGACT
1 CAACCTTTAAA-AAAGGTTAGGATAGACCTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACC
** * *
43100956 TTTTCCAAGG
65 TGGTCTAAGA
* * * *
43100966 CAA--TTTAAAAAAAGTTGGGATAAACTCAT-T-TAAGGCAACCTTAAAAAAGGTTAGGG-TA-A
1 CAACCTTTAAAAAAGGTTAGGATAGAC-C-TGTCTAAGGCAACCTTTAAAAAGGTT-GGGATAGA
* * * *
43101025 ACTCGTTTAAGG
63 CCTGGTCTAAGA
*
43101037 CAAAC-TT-AAAAAGGTTAGGATAGA
1 CAACCTTTAAAAAAGGTTAGGATAGA
43101061 TCTTTGTCTC
Statistics
Matches: 496, Mismatches: 79, Indels: 69
0.77 0.12 0.11
Matches are distributed among these distances:
69 2 0.00
70 40 0.08
71 77 0.16
72 80 0.16
73 104 0.21
74 16 0.03
75 151 0.30
76 25 0.05
77 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (74 bp):
CAACCTTTAAAAAAGGTTAGGATAGACCTGTCTAAGGCAACCTTTAAAAAGGTTGGGATAGACCT
GGTCTAAGA
Found at i:43100828 original size:35 final size:35
Alignment explanation
Indices: 43100380--43101060 Score: 444
Period size: 35 Copynumber: 18.7 Consensus size: 35
43100370 TAATCAATGC
* * *
43100380 CAACCTTTGAAAAAGATTGGTATAGACCCGTCTAAGG
1 CAACC-TT-AAAAAGGTTGGGATAGACTCGTCTAAGG
* * * *
43100417 CAATCTTAAAGAGGTTGAGATAGAC-CAGTCTAAGA
1 CAACCTTAAAAAGGTTGGGATAGACTC-GTCTAAGG
* * * * *
43100452 TAACCTTTTAAAAAAGTTAGGATAGACCCTGTCTAAGA
1 CAACC--TTAAAAAGGTTGGGATAGACTC-GTCTAAGG
* * *
43100490 CAACCTTTAAGAAAAGTTGGGATAGACCTGGTCTATA-A
1 CAACC-TTAA-AAAGGTTGGGATAGA-CTCGTCTA-AGG
** * *
43100528 CAACCTTTAAAAAATATTGGGATAGAATTGTCTAAGG
1 CAACC-TT-AAAAAGGTTGGGATAGACTCGTCTAAGG
* *
43100565 CAACCTTAAAAAGGTTGGAATAGACCTTGTCTAAGG
1 CAACCTTAAAAAGGTTGGGATAGA-CTCGTCTAAGG
*
43100601 CAACTTTTAAAAAAGGTTGGGATAGAC-CAGTCTAAGG
1 CAAC-CTT-AAAAAGGTTGGGATAGACTC-GTCTAAGG
* * *
43100638 TAACCTTTTAACAAA-GTTGGGATAGACCTTGGCTAAGG
1 CAACC--TTAA-AAAGGTTGGGATAGA-CTCGTCTAAGG
*
43100676 CAACCTTTAAAAAAGGTTGAGATAGA-TCAGTCTAAGG
1 CAACC-TT-AAAAAGGTTGGGATAGACTC-GTCTAAGG
* * * *
43100713 CAACTTTTTAAAAAAGTTGGGATAGACCTTGTTTAAGG
1 CAAC--CTTAAAAAGGTTGGGATAGA-CTCGTCTAAGG
* * *
43100751 CAACCTTAAAAAAAGGTTAGGATAGACTTGTCTAAAG
1 CAACCTT--AAAAAGGTTGGGATAGACTCGTCTAAGG
43100788 CAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGG
1 CAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGG
* * * **
43100823 TAACCTCAAAAAGGTTAGGATAGATCTTATCTAAGG
1 CAACCTTAAAAAGGTTGGGATAGA-CTCGTCTAAGG
* * *
43100859 CAACTTTTAAAAAGGTTGGGATTGACTCGT-TAAAGA
1 CAAC-CTTAAAAAGGTTGGGATAGACTCGTCT-AAGG
* ** * * *
43100895 CAACCTTAAAGATATTGGGATAGAC-CTATTTAAAG
1 CAACCTTAAAAAGGTTGGGATAGACTC-GTCTAAGG
** *
43100930 CAACCTTAAAAAGGTTGGGATAGACTTTTTCCAAGG
1 CAACCTTAAAAAGGTTGGGATAGAC-TCGTCTAAGG
* * * * *
43100966 CAA-TTTAAAAAAAGTTGGGATAAACTCATTTAAGG
1 CAACCTT-AAAAAGGTTGGGATAGACTCGTCTAAGG
* *
43101001 CAACCTTAAAAAAGGTTAGGG-TAAACTCGTTTAAGG
1 CAACCTT-AAAAAGGTT-GGGATAGACTCGTCTAAGG
* *
43101037 CAAACTTAAAAAGGTTAGGATAGA
1 CAACCTTAAAAAGGTTGGGATAGA
43101061 TCTTTGTCTC
Statistics
Matches: 514, Mismatches: 92, Indels: 78
0.75 0.13 0.11
Matches are distributed among these distances:
34 4 0.01
35 149 0.29
36 99 0.19
37 130 0.25
38 127 0.25
39 5 0.01
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (35 bp):
CAACCTTAAAAAGGTTGGGATAGACTCGTCTAAGG
Found at i:43100913 original size:107 final size:105
Alignment explanation
Indices: 43100532--43101064 Score: 353
Period size: 107 Copynumber: 4.9 Consensus size: 105
43100522 CTATAACAAC
** * * * * * * *
43100532 CTTTAAAAAATATTGGGATAGAATTGTCTAAGGCAACCTTAAAAAGGTTGGAATAGACCTTGTCT
1 CTTTAAAAAAGGTTGGGATAGACTCGT-TAAAGCAACCTTAAAAA-ATTGGGATAGA-CTCGTTT
* * * *
43100597 AAGGCAACTTTTAAAAAAGGTTGGGATAGA-C-CAGTCTAAGGTAA
63 AAGGCAAC-CTT-AAAAAGGTTAGGATAGATCTTA-TCTAAGGCAA
* * * * *
43100641 CCTTTTAACAAA-GTTGGGATAGACCTTGGCTAAGGCAACCTTTAAAAAAGGTTGAGATAGA-TC
1 -C-TTTAAAAAAGGTTGGGATAGA-C-TCGTTAAAGCAACC-TTAAAAAA--TTGGGATAGACTC
* * * * * * *
43100704 AGTCTAAGGCAACTTTTTAAAAAAGTTGGGATAGACCTTGTTTAAGGCAA
59 -GTTTAAGGCAAC--CTTAAAAAGGTTAGGATAGATCTTATCTAAGGCAA
* * * * *
43100754 CCTTAAAAAAAGGTTAGGATAGACTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCT
1 -CTTTAAAAAAGGTTGGGATAGACTCGT-TAAAGCAACCTTAAAAA-ATTGGGATAGACTCGTTT
* *
43100819 AAGGTAACCTCAAAAAGGTTAGGATAGATCTTATCTAAGGCAA
63 AAGGCAACCTTAAAAAGGTTAGGATAGATCTTATCTAAGGCAA
* * * *
43100862 CTTTTAAAAAGGTTGGGATTGACTCGTTAAAGACAACCTTAAAGATATTGGGATAGAC-CTATTT
1 CTTTAAAAAAGGTTGGGATAGACTCGTTAAAG-CAACCTTAAA-AAATTGGGATAGACTC-GTTT
* * * *
43100926 AAAGCAACCTTAAAAAGGTTGGGATAGA-CTTTTTCCAAGGCAA
63 AAGGCAACCTTAAAAAGGTTAGGATAGATC-TTATCTAAGGCAA
* * * * *
43100969 -TTTAAAAAAAGTTGGGATAAACTCATTTAAGGCAACCTTAAAAAAGGTTAGGG-TAAACTCGTT
1 CTTTAAAAAAGGTTGGGATAGACTC-GTTAAAGCAACCTTAAAAAA--TT-GGGATAGACTCGTT
*
43101032 TAAGGCAAACTTAAAAAGGTTAGGATAGATCTT
62 TAAGGCAACCTTAAAAAGGTTAGGATAGATCTT
43101065 TGTCTCATGT
Statistics
Matches: 342, Mismatches: 57, Indels: 51
0.76 0.13 0.11
Matches are distributed among these distances:
105 2 0.01
106 37 0.11
107 121 0.35
108 34 0.10
110 31 0.09
111 30 0.09
112 54 0.16
113 33 0.10
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (105 bp):
CTTTAAAAAAGGTTGGGATAGACTCGTTAAAGCAACCTTAAAAAATTGGGATAGACTCGTTTAAG
GCAACCTTAAAAAGGTTAGGATAGATCTTATCTAAGGCAA
Found at i:43101058 original size:142 final size:142
Alignment explanation
Indices: 43100459--43101060 Score: 411
Period size: 142 Copynumber: 4.1 Consensus size: 142
43100449 AGATAACCTT
* * * *
43100459 TTAAAAAAGTTAGGATAGACCCTGTCT-AAGACAACCTTTAAGAAAAGTTGGGATAGACCTGGTC
1 TTAAAAAGGTTAGGATAGA-CCTATCTAAAG-CAACC-TTAA-AAAGGTTGGGATAGA-CTCGTC
* * * ** *
43100523 TATA-ACAACCTTTAAAAAATA-TTGGGATAGAA-TTGTCTAAGGCAACCTT-AAAAAGGTTGGA
61 CA-AGGCAACC--TAAAAAA-AGTTAGGATAGAACTCATCTAAGGCAACCTTAAAAAAGGTTGGG
* * * *
43100584 ATAGACCTTGTCTAAGGCAACTT
122 ATA-AACTCGTTTAAGGCAAC-C
* * * * *
43100607 TTAAAAAAGGTTGGGATAGACC-AGTCTAAGGTAACCTTTTAACAAA-GTTGGGATAGACCTTGG
1 TT-AAAAAGGTTAGGATAGACCTA-TCTAAAGCAACC--TTAA-AAAGGTTGGGATAGA-CTCGT
* * *
43100670 CTAAGGCAACCTTTAAAAAAGGTT-GAGATAG-A-TCAGTCTAAGGCAACTTTTTAAAAAA-GTT
60 CCAAGGCAACC--TAAAAAAAGTTAG-GATAGAACTCA-TCTAAGGCAAC--CTTAAAAAAGGTT
* *
43100731 GGGATAGACCTTGTTTAAGGCAACC
119 GGGATA-AACTCGTTTAAGGCAACC
* * *
43100756 TTAAAAAAAGGTTAGGATAGACTTGTCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCTAA
1 TT--AAAAAGGTTAGGATAGACCTATCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCCAA
* * * * * * * **
43100821 GGTAACCTCAAAAAGGTTAGGATAGATCTTATCTAAGGCAACTTTTAAAAAGGTTGGGATTGACT
64 GGCAACCTAAAAAAAGTTAGGATAGAACTCATCTAAGGCAACCTTAAAAAAGGTTGGGATAAACT
* *
43100886 CGTTAAAGACAACC
129 CGTTTAAGGCAACC
* ** * * **
43100900 TTAAAGATATTGGGATAGACCTATTTAAAGCAACCTTAAAAAGGTTGGGATAGACTTTTTCCAAG
1 TTAAAAAGGTTAGGATAGACCTATCTAAAGCAACCTTAAAAAGGTTGGGATAGAC-TCGTCCAAG
** * *
43100965 GCAATTTAAAAAAAGTTGGGATA-AACTCATTTAAGGCAACCTTAAAAAAGGTTAGGG-TAAACT
65 GCAACCTAAAAAAAGTTAGGATAGAACTCATCTAAGGCAACCTTAAAAAAGGTT-GGGATAAACT
*
43101028 CGTTTAAGGCAAAC
129 CGTTTAAGGCAACC
43101042 TTAAAAAGGTTAGGATAGA
1 TTAAAAAGGTTAGGATAGA
43101061 TCTTTGTCTC
Statistics
Matches: 370, Mismatches: 64, Indels: 46
0.77 0.13 0.10
Matches are distributed among these distances:
142 101 0.27
143 26 0.07
144 23 0.06
145 23 0.06
146 12 0.03
147 22 0.06
148 76 0.21
149 27 0.07
150 55 0.15
151 5 0.01
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (142 bp):
TTAAAAAGGTTAGGATAGACCTATCTAAAGCAACCTTAAAAAGGTTGGGATAGACTCGTCCAAGG
CAACCTAAAAAAAGTTAGGATAGAACTCATCTAAGGCAACCTTAAAAAAGGTTGGGATAAACTCG
TTTAAGGCAACC
Found at i:43101376 original size:75 final size:75
Alignment explanation
Indices: 43101253--43101405 Score: 256
Period size: 75 Copynumber: 2.0 Consensus size: 75
43101243 TAGTAATTTA
* *
43101253 TATACAAAATCCTAATAGAAGTAGTCAACAAGTTGTAAACATGTTGTCAACCTGTTTCAC-ATGA
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGTTGTCAACCTGTTTC-CTATGA
43101317 CATCAAAAAAT
65 CATCAAAAAAT
43101328 TATACAAAATCCTAATAGAAGCAGTCAACACA-TTGCAAACATGTTGTCAACCTGTTTCCTATGA
1 TATACAAAATCCTAATAGAAGCAGTCAACA-AGTTGCAAACATGTTGTCAACCTGTTTCCTATGA
43101392 CATCAAAAAAT
65 CATCAAAAAAT
43101403 TAT
1 TAT
43101406 GGGGCAACTG
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
74 1 0.01
75 72 0.97
76 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATGTTGTCAACCTGTTTCCTATGAC
ATCAAAAAAT
Found at i:43107262 original size:22 final size:22
Alignment explanation
Indices: 43107231--43107272 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
43107221 TCCCCACAGG
*
43107231 AAGTGTAGGGATGGACGGAGGC
1 AAGTGCAGGGATGGACGGAGGC
* *
43107253 AAGTGCAGGGTTGGATGGAG
1 AAGTGCAGGGATGGACGGAG
43107273 TTATCATGCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.07, G:0.50, T:0.17
Consensus pattern (22 bp):
AAGTGCAGGGATGGACGGAGGC
Found at i:43113947 original size:17 final size:17
Alignment explanation
Indices: 43113925--43113960 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
43113915 CACCCTGAGC
43113925 TTGGATGTTATACTAGG
1 TTGGATGTTATACTAGG
43113942 TTGGATGTTATACTAGG
1 TTGGATGTTATACTAGG
43113959 TT
1 TT
43113961 AGATTGCCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.06, G:0.28, T:0.44
Consensus pattern (17 bp):
TTGGATGTTATACTAGG
Found at i:43114699 original size:9 final size:9
Alignment explanation
Indices: 43114681--43114753 Score: 52
Period size: 9 Copynumber: 8.6 Consensus size: 9
43114671 TTTATTTAAG
43114681 TTAA-GTGT
1 TTAATGTGT
43114689 TTAATGTGT
1 TTAATGTGT
*
43114698 TT--TATGT
1 TTAATGTGT
43114705 TTAATAAGTGT
1 TTAAT--GTGT
43114716 TTAAATGTGT
1 TT-AATGTGT
*
43114726 TTAATATG-
1 TTAATGTGT
43114734 TT--TGT-T
1 TTAATGTGT
43114740 TTAATGTGT
1 TTAATGTGT
43114749 TTAAT
1 TTAAT
43114754 TGCAGGTGTC
Statistics
Matches: 51, Mismatches: 4, Indels: 19
0.69 0.05 0.26
Matches are distributed among these distances:
6 4 0.08
7 6 0.12
8 9 0.18
9 18 0.35
10 6 0.12
11 5 0.10
12 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.18, T:0.56
Consensus pattern (9 bp):
TTAATGTGT
Found at i:43114727 original size:10 final size:11
Alignment explanation
Indices: 43114702--43114753 Score: 54
Period size: 10 Copynumber: 4.7 Consensus size: 11
43114692 ATGTGTTTTA
*
43114702 TGTTTAATAAG
1 TGTTTAATATG
43114713 TGTTTAA-ATG
1 TGTTTAATATG
43114723 TGTTTAATATG
1 TGTTTAATATG
*
43114734 TTTGTTTTA-ATG
1 --TGTTTAATATG
43114746 TGTTTAAT
1 TGTTTAAT
43114754 TGCAGGTGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
10 15 0.44
11 10 0.29
12 3 0.09
13 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (11 bp):
TGTTTAATATG
Found at i:43114728 original size:21 final size:22
Alignment explanation
Indices: 43114702--43114753 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
43114692 ATGTGTTTTA
43114702 TGTTTAATAAG-TGTTTAAATG
1 TGTTTAATAAGTTGTTTAAATG
* *
43114723 TGTTTAATATGTTTGTTTTAATG
1 TGTTTAATAAG-TTGTTTAAATG
43114746 TGTTTAAT
1 TGTTTAAT
43114754 TGCAGGTGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 10 0.37
23 17 0.63
ACGTcount: A:0.27, C:0.00, G:0.17, T:0.56
Consensus pattern (22 bp):
TGTTTAATAAGTTGTTTAAATG
Found at i:43118284 original size:29 final size:29
Alignment explanation
Indices: 43118242--43118298 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
43118232 AAAAGTAAGC
43118242 TCGATTTCTATTTTTGATCCCGGCATAAT
1 TCGATTTCTATTTTTGATCCCGGCATAAT
43118271 TCGATTTCTATTTTTGATCCCGGCATAA
1 TCGATTTCTATTTTTGATCCCGGCATAA
43118299 GAACATTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.21, C:0.21, G:0.14, T:0.44
Consensus pattern (29 bp):
TCGATTTCTATTTTTGATCCCGGCATAAT
Found at i:43118306 original size:29 final size:29
Alignment explanation
Indices: 43118243--43118306 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
43118233 AAAGTAAGCT
**
43118243 CGATTTCTATTTTTGATCCCGGCATAATT
1 CGATTTCTATTTTTGATCCCGGCATAAAA
43118272 CGATTTCTATTTTTGATCCCGGCATAAGAA
1 CGATTTCTATTTTTGATCCCGGCATAA-AA
43118302 C-ATTT
1 CGATTT
43118307 GTTCAAATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 31 0.97
30 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.14, T:0.42
Consensus pattern (29 bp):
CGATTTCTATTTTTGATCCCGGCATAAAA
Found at i:43119044 original size:9 final size:9
Alignment explanation
Indices: 43119026--43119099 Score: 54
Period size: 9 Copynumber: 8.6 Consensus size: 9
43119016 TTTATTTAAG
43119026 TTAA-GTGT
1 TTAATGTGT
43119034 TTAATGTGT
1 TTAATGTGT
43119043 TT--TGTGT
1 TTAATGTGT
43119050 TTAATAAGTGT
1 TTAAT--GTGT
43119061 TTAAAATGTGT
1 TT--AATGTGT
*
43119072 TTAATATG-
1 TTAATGTGT
43119080 TT--TGT-T
1 TTAATGTGT
43119086 TTAATGTGT
1 TTAATGTGT
43119095 TTAAT
1 TTAAT
43119100 TGCACGTGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 21
0.70 0.03 0.28
Matches are distributed among these distances:
6 4 0.08
7 7 0.13
8 9 0.17
9 18 0.34
11 12 0.23
13 3 0.06
ACGTcount: A:0.26, C:0.00, G:0.19, T:0.55
Consensus pattern (9 bp):
TTAATGTGT
Found at i:43119062 original size:11 final size:12
Alignment explanation
Indices: 43119045--43119099 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 12
43119035 TAATGTGTTT
43119045 TGTGTTTAATAA
1 TGTGTTTAATAA
43119057 -GTGTTTAA-AA
1 TGTGTTTAATAA
43119067 TGTGTTTAAT-A
1 TGTGTTTAATAA
43119078 TGTTTGTTT--TAA
1 TG--TGTTTAATAA
43119090 TGTGTTTAAT
1 TGTGTTTAAT
43119100 TGCACGTGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 14
0.72 0.00 0.28
Matches are distributed among these distances:
10 7 0.19
11 20 0.56
12 4 0.11
13 5 0.14
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (12 bp):
TGTGTTTAATAA
Found at i:43119254 original size:23 final size:23
Alignment explanation
Indices: 43119210--43119254 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
43119200 ATTATTCTTC
*
43119210 ATTAAAAGAAGCTATTATCATCA
1 ATTAAAAGAAGCTATTAACATCA
*
43119233 ATTAAAGGAAGC-ATTACACATC
1 ATTAAAAGAAGCTATTA-ACATC
43119255 CTTAAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (23 bp):
ATTAAAAGAAGCTATTAACATCA
Found at i:43131398 original size:39 final size:39
Alignment explanation
Indices: 43131355--43131433 Score: 131
Period size: 39 Copynumber: 2.0 Consensus size: 39
43131345 AAATTTCGTA
* *
43131355 AAAAATTCTCTGAGTTCCCGATTTAGTCCCGATTTGATT
1 AAAAATTCTCTAAGTTCCCGATTTAGTCCCAATTTGATT
*
43131394 AAAAATTCTCTAAGTTCCCGATTTAGTCTCAATTTGATT
1 AAAAATTCTCTAAGTTCCCGATTTAGTCCCAATTTGATT
43131433 A
1 A
43131434 TAATACTCGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (39 bp):
AAAAATTCTCTAAGTTCCCGATTTAGTCCCAATTTGATT
Found at i:43131900 original size:32 final size:32
Alignment explanation
Indices: 43131859--43131933 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
43131849 CGGTGCAGAC
43131859 TCTTCACCTGTTTTGAACCCGGGTGGGAACCA
1 TCTTCACCTGTTTTGAACCCGGGTGGGAACCA
43131891 TCTTCACCTGTTTTGAACCCGGGTGGGAACCA
1 TCTTCACCTGTTTTGAACCCGGGTGGGAACCA
43131923 TCTT-ACCTGTT
1 TCTTCACCTGTT
43131934 GAATTCTCAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 7 0.16
32 36 0.84
ACGTcount: A:0.17, C:0.28, G:0.23, T:0.32
Consensus pattern (32 bp):
TCTTCACCTGTTTTGAACCCGGGTGGGAACCA
Found at i:43139560 original size:40 final size:40
Alignment explanation
Indices: 43139508--43139615 Score: 153
Period size: 40 Copynumber: 2.6 Consensus size: 40
43139498 GCAAAAATTG
* * *
43139508 TAAAACACAGAGCAATAGCGGTGTTTTATCAAAAATACCGC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
*
43139549 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
*
43139589 TAAAAACAGAGCATTAGCGGCGCTTTT
1 TAAAAACAGAGCAATAGCGGCG-TTTT
43139616 TGTGCCGCTA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 52 0.85
41 9 0.15
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.20
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGCGTTTTACCAAAAACACCGC
Found at i:43139829 original size:31 final size:31
Alignment explanation
Indices: 43139791--43139849 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
43139781 ATCATTATAG
43139791 TTTAAGGTTTATG-GTTTAAGATGGTTTAGGA
1 TTTAAGGTTTATGAG-TTAAGATGGTTTAGGA
*
43139822 TTTAAGGTTTATGAGTTAATATGGTTTA
1 TTTAAGGTTTATGAGTTAAGATGGTTTA
43139850 AGATATATAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.96
32 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.47
Consensus pattern (31 bp):
TTTAAGGTTTATGAGTTAAGATGGTTTAGGA
Found at i:43139863 original size:31 final size:31
Alignment explanation
Indices: 43139793--43139868 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
43139783 CATTATAGTT
* *
43139793 TAAGGTTTATG-GTTTAAGATGGTTTAGGATT
1 TAAGGTTTATGAG-TTAAGATGGTTTAAGATA
*
43139824 TAAGGTTTATGAGTTAATATGGTTTAAGATA
1 TAAGGTTTATGAGTTAAGATGGTTTAAGATA
43139855 TATA-GTTTA-GAGTT
1 TA-AGGTTTATGAGTT
43139869 TAAGGTTTAG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
30 5 0.12
31 33 0.82
32 2 0.05
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (31 bp):
TAAGGTTTATGAGTTAAGATGGTTTAAGATA
Found at i:43139944 original size:7 final size:7
Alignment explanation
Indices: 43139932--43140043 Score: 59
Period size: 7 Copynumber: 15.7 Consensus size: 7
43139922 AGGATTGTGA
43139932 TTTAGGG
1 TTTAGGG
43139939 TTTAGGG
1 TTTAGGG
*
43139946 GTTAGGG
1 TTTAGGG
43139953 -TT-GGTG
1 TTTAGG-G
*
43139959 TTTAAGG
1 TTTAGGG
*
43139966 TGTAAGGG
1 T-TTAGGG
*
43139974 TTTGGGG
1 TTTAGGG
*
43139981 TTAAGGG
1 TTTAGGG
*
43139988 TTAAGGG
1 TTTAGGG
*
43139995 TTAAGGG
1 TTTAGGG
*
43140002 TTTAGTG
1 TTTAGGG
43140009 TTTATGGG
1 TTTA-GGG
*
43140017 -ATAGGGG
1 TTTA-GGG
*
43140024 TTAAGAGG
1 TTTAG-GG
*
43140032 TTTAAGG
1 TTTAGGG
43140039 TTTAG
1 TTTAG
43140044 ATTAATTAGT
Statistics
Matches: 80, Mismatches: 18, Indels: 14
0.71 0.16 0.12
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 61 0.76
8 14 0.17
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.38
Consensus pattern (7 bp):
TTTAGGG
Found at i:43139987 original size:14 final size:14
Alignment explanation
Indices: 43139932--43140006 Score: 73
Period size: 14 Copynumber: 5.4 Consensus size: 14
43139922 AGGATTGTGA
*
43139932 TTTAGGGTTTAGGG
1 TTTAGGGTTAAGGG
*
43139946 GTTAGGGTT--GGTG
1 TTTAGGGTTAAGG-G
*
43139959 TTTAAGGTGTAAGGG
1 TTTAGGGT-TAAGGG
*
43139974 TTTGGGGTTAAGGG
1 TTTAGGGTTAAGGG
*
43139988 TTAAGGGTTAAGGG
1 TTTAGGGTTAAGGG
43140002 TTTAG
1 TTTAG
43140007 TGTTTATGGG
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
12 2 0.04
13 7 0.14
14 31 0.63
15 7 0.14
16 2 0.04
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (14 bp):
TTTAGGGTTAAGGG
Found at i:43144440 original size:43 final size:42
Alignment explanation
Indices: 43144360--43144461 Score: 132
Period size: 43 Copynumber: 2.4 Consensus size: 42
43144350 AAATTTTATA
* *
43144360 ACCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAAAGGCCATG
1 ACCTTTAGCGGCATTTTGGGAAAAGCGCCGCTAAAGGCCATG
* * *
43144402 ACCTTTAGCGGCATTTGTGGGAAGAGTGCCGCTAAAGGCTATG
1 ACCTTTAGCGGCATTT-TGGGAAAAGCGCCGCTAAAGGCCATG
* *
43144445 TCCTTTAGCGGCCTTTT
1 ACCTTTAGCGGCATTTT
43144462 TAAAAATAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 16 0.31
43 36 0.69
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (42 bp):
ACCTTTAGCGGCATTTTGGGAAAAGCGCCGCTAAAGGCCATG
Found at i:43146100 original size:19 final size:21
Alignment explanation
Indices: 43146078--43146125 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
43146068 TCCCATTAGG
43146078 AAATTC-AA-GTTGGCACTTA
1 AAATTCTAATGTTGGCACTTA
*
43146097 AAA-TCTAATGTTGGTACTTA
1 AAATTCTAATGTTGGCACTTA
43146117 AAA-TCTAAT
1 AAATTCTAAT
43146126 TGAACTGCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.08
19 5 0.19
20 19 0.73
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (21 bp):
AAATTCTAATGTTGGCACTTA
Found at i:43146115 original size:20 final size:20
Alignment explanation
Indices: 43146086--43146125 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43146076 GGAAATTCAA
43146086 GTTGGCACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
*
43146106 GTTGGTACTTAAAATCTAAT
1 GTTGGCACTTAAAATCTAAT
43146126 TGAACTGCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (20 bp):
GTTGGCACTTAAAATCTAAT
Found at i:43146266 original size:29 final size:28
Alignment explanation
Indices: 43146202--43146261 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 28
43146192 ACAAAATAAT
*
43146202 AACATAAGTGACTAAAATGTAACATTTCA
1 AACATAAGTGACTAAAATGTAACA-CTCA
*
43146231 AACATAAGTGACTAAAATGTAAC-CTGA
1 AACATAAGTGACTAAAATGTAACACTCA
43146258 AACA
1 AACA
43146262 AATAAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 6 0.21
29 23 0.79
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.23
Consensus pattern (28 bp):
AACATAAGTGACTAAAATGTAACACTCA
Found at i:43156228 original size:49 final size:49
Alignment explanation
Indices: 43156172--43156270 Score: 189
Period size: 49 Copynumber: 2.0 Consensus size: 49
43156162 TTATGAATAG
*
43156172 TTGTGTCCATTAAAATATAGACACCTATTTAATTTGATATCATATTCTT
1 TTGTGTCCATTAAAACATAGACACCTATTTAATTTGATATCATATTCTT
43156221 TTGTGTCCATTAAAACATAGACACCTATTTAATTTGATATCATATTCTT
1 TTGTGTCCATTAAAACATAGACACCTATTTAATTTGATATCATATTCTT
43156270 T
1 T
43156271 CTTTCTTTTC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.32, C:0.15, G:0.08, T:0.44
Consensus pattern (49 bp):
TTGTGTCCATTAAAACATAGACACCTATTTAATTTGATATCATATTCTT
Found at i:43159628 original size:39 final size:39
Alignment explanation
Indices: 43159585--43159661 Score: 111
Period size: 39 Copynumber: 2.0 Consensus size: 39
43159575 GAAGTCTAGC
*
43159585 TGAAGCACATAAGTGCTAAACGA-AAGCCCGAAGACTAAT
1 TGAAGCACACAAGTGCTAAA-GAGAAGCCCGAAGACTAAT
* *
43159624 TGAAGCACACAAGTGCTAAATAGAAGCCCGAAGGCTAA
1 TGAAGCACACAAGTGCTAAAGAGAAGCCCGAAGACTAA
43159662 CTAAAGCTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.43, C:0.21, G:0.22, T:0.14
Consensus pattern (39 bp):
TGAAGCACACAAGTGCTAAAGAGAAGCCCGAAGACTAAT
Done.