Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 38 of 199
Found at i:15214319 original size:17 final size:17
Alignment explanation
Indices: 15214297--15214330 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15214287 ATCCACTAAT
*
15214297 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
15214314 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
15214331 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:15218949 original size:17 final size:17
Alignment explanation
Indices: 15218927--15218960 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15218917 ATCCACTAAT
*
15218927 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
15218944 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
15218961 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:15225340 original size:37 final size:37
Alignment explanation
Indices: 15225289--15225436 Score: 251
Period size: 37 Copynumber: 4.0 Consensus size: 37
15225279 TAGCTAGGCT
****
15225289 ACCACTTATCACTTTACCACTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
*
15225326 GCCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
15225363 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
15225400 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
1 ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
15225437 GCTAAAACTA
Statistics
Matches: 105, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.39
Consensus pattern (37 bp):
ACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTA
Found at i:15232428 original size:27 final size:25
Alignment explanation
Indices: 15232385--15232437 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
15232375 CATGTATAAA
15232385 TTTTAGTTTTTTATTTCATTTATATTT
1 TTTTAGTTTTTTATTTC--TTATATTT
*
15232412 TTTTA-TTTTATTTTTTCTTATATTT
1 TTTTAGTTTT-TTATTTCTTATATTT
15232437 T
1 T
15232438 GGTCCTATCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 9 0.38
26 4 0.17
27 11 0.46
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTAGTTTTTTATTTCTTATATTT
Found at i:15232807 original size:7 final size:7
Alignment explanation
Indices: 15232795--15232833 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
15232785 CTAATTGTTA
15232795 AAACCCT
1 AAACCCT
*
15232802 AAACCCC
1 AAACCCT
15232809 AAATCCCT
1 AAA-CCCT
*
15232817 AACCCCT
1 AAACCCT
15232824 AAACCCT
1 AAACCCT
15232831 AAA
1 AAA
15232834 TCCCCATAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.44, C:0.44, G:0.00, T:0.13
Consensus pattern (7 bp):
AAACCCT
Found at i:15232826 original size:22 final size:24
Alignment explanation
Indices: 15232798--15232850 Score: 83
Period size: 22 Copynumber: 2.3 Consensus size: 24
15232788 ATTGTTAAAA
15232798 CCCTAAACCCCAAAT-CCC-TAAC
1 CCCTAAACCCCAAATCCCCATAAC
*
15232820 CCCTAAACCCTAAATCCCCATAAC
1 CCCTAAACCCCAAATCCCCATAAC
15232844 CCCTAAA
1 CCCTAAA
15232851 GCATAACACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
22 14 0.50
23 3 0.11
24 11 0.39
ACGTcount: A:0.38, C:0.47, G:0.00, T:0.15
Consensus pattern (24 bp):
CCCTAAACCCCAAATCCCCATAAC
Found at i:15233245 original size:114 final size:114
Alignment explanation
Indices: 15233109--15233340 Score: 385
Period size: 114 Copynumber: 2.0 Consensus size: 114
15233099 TAAATTATTT
* *
15233109 TAAATCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGTCGCTAAATCCCCGAAAGCTCAGAAAAC
1 TAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
15233174 GGCGTC-GTTGGGCTTAGTTTTTTTTGCAGCACTTTCCCAAAAACGCCGC
66 GGCG-CGGTTGGGCTTAGTTTTTTTTGCAGCACTTTCCCAAAAACGCCGC
* * *
15233223 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAAT
1 TAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
* *
15233288 GGCGCGGTTGGGCTTAGTTTTTTTTGCGGCGCTTTCCCAAAAACGCCGC
66 GGCGCGGTTGGGCTTAGTTTTTTTTGCAGCACTTTCCCAAAAACGCCGC
15233337 TAAA
1 TAAA
15233341 TCCCCGATAG
Statistics
Matches: 110, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
113 1 0.01
114 109 0.99
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (114 bp):
TAAAGCCCTAAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAAC
GGCGCGGTTGGGCTTAGTTTTTTTTGCAGCACTTTCCCAAAAACGCCGC
Found at i:15233359 original size:73 final size:73
Alignment explanation
Indices: 15233240--15233778 Score: 730
Period size: 73 Copynumber: 7.4 Consensus size: 73
15233230 CTGAGCATTA
* * * *
15233240 GCGGCGCTTTCTTAAAAACGCCGCTAAATCCCTGAAAGCTCAGAAAATGGCG-CGGTTGGGCTTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTC-GTTTGGCTTA
*
15233304 GTTTTTTTT
65 GGTTTTTTT
* * * * * *
15233313 GCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCGATAGCTTAGAAAACGACGCCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
*
15233378 TTTTTTTTT
66 -GTTTTTTT
* * * * *
15233387 GCGGCGCTTCCCCAAAAATGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCATCGTTGGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
15233452 G--TTTTT
66 GTTTTTTT
* * * *
15233458 -CGGCGCTTTCTCAAAAATGCCTC-AAAACCCCGAAAGCTCAGAAAACGGTGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
15233521 G-TTTTTT
66 GTTTTTTT
* * *
15233528 GCGGCGCTTTCTAAAAAACGCCGCCAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
15233593 GTTTTTTT
66 GTTTTTTT
* *
15233601 GCGGTGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAAAAAACGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
15233666 GTTTTTTT
66 GTTTTTTT
* * * *
15233674 GCGGCGCTTTATCAAAAACACCGCTAAATCCCCAAAAGCTCAAAAAACGGCGTCGTTTGGCTTAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
15233739 GTTTTTTT
66 GTTTTTTT
* *
15233747 GCGGCGCTTTATCAAAAACGTCGCTAAATCCC
1 GCGGCGCTTTCTCAAAAACGCCGCTAAATCCC
15233779 TGAGCATTAG
Statistics
Matches: 421, Mismatches: 39, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
69 37 0.09
70 25 0.06
71 25 0.06
72 38 0.09
73 229 0.54
74 67 0.16
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (73 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAATCCCCGAAAGCTCAGAAAACGGCGTCGTTTGGCTTAG
GTTTTTTT
Found at i:15246009 original size:24 final size:24
Alignment explanation
Indices: 15245966--15246070 Score: 151
Period size: 24 Copynumber: 4.5 Consensus size: 24
15245956 ATTGGGAAAT
15245966 GATGAATTGAC-GAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
15245989 GATGAATTGACGGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
*
15246013 GATGAACTGACGGAAAATGTAAAG
1 GATGAATTGACGGAAAATGTAAAG
* * * *
15246037 GATGAATTGGCAG-TAATGTAAAA
1 GATGAATTGACGGAAAATGTAAAG
15246060 GATGAATTGAC
1 GATGAATTGAC
15246071 AGCAAATTAT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
23 29 0.39
24 45 0.61
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.22
Consensus pattern (24 bp):
GATGAATTGACGGAAAATGTAAAG
Found at i:15273096 original size:49 final size:47
Alignment explanation
Indices: 15273036--15273490 Score: 676
Period size: 47 Copynumber: 9.6 Consensus size: 47
15273026 GATAATTGTG
* * *
15273036 ATGTGAATGTATATATATGTGATAAGGCCTAATGGCCGATATGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15273083 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15273130 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15273179 ATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
15273226 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15273275 ATGTGAAAGTGTATATATATGTGATAAAGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15273324 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
15273371 ATGTGAAAGTGTATATATGTGATGAGGCCTAATGGCCGATGTTATGA
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* * * * * * * *
15273418 ATGTGAAAGTGTATATATGTGACAGGGCCGAGTAGCCAACGTGATGG
1 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
15273465 ATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGAAAGTGTATATATGTGATAAG
15273491 TCCCGAAGGG
Statistics
Matches: 376, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 238 0.63
49 138 0.37
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
Found at i:15273143 original size:96 final size:96
Alignment explanation
Indices: 15273036--15273490 Score: 688
Period size: 96 Copynumber: 4.8 Consensus size: 96
15273026 GATAATTGTG
*
15273036 ATGTG-AA-TGTATATATATGTGATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
15273099 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
15273130 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
15273195 ATGTGATAAGGCCGAATGGCCAATGTGATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
15273226 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TAT
* * *
15273291 ATATGTGATAAAGCCTAATGGCCGATGTGATGA
64 ATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
15273324 ATGTGAAAGTG--TATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
* * * *
15273387 ATGTGATGAGGCCTAATGGCCGATGTTATGA
66 ATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * * * * * *
15273418 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTAGCCAACGTGATGGATGTGAAAGTGTATAA
1 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
15273481 ATGTGATAAG
66 ATGTGATAAG
15273491 TCCCGAAGGG
Statistics
Matches: 338, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 100 0.30
95 2 0.01
96 192 0.57
98 44 0.13
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
ATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:15296724 original size:19 final size:20
Alignment explanation
Indices: 15296700--15296740 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
15296690 TAATTTAGGC
*
15296700 AAATATTGAATA-AAAATTG
1 AAATATTCAATATAAAATTG
15296719 AAATATTCAATATAAAATTG
1 AAATATTCAATATAAAATTG
15296739 AA
1 AA
15296741 TTGTGTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATTCAATATAAAATTG
Found at i:15311088 original size:27 final size:26
Alignment explanation
Indices: 15311058--15311120 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
15311048 TTTGCTTTGT
*
15311058 AAAATGGAAAGAAAAATGAAAAGATGA
1 AAAATGG-AAGAAAAATGAAAAGAAGA
* *
15311085 AAAATTGAAGAAAATTGAAAAGAAGA
1 AAAATGGAAGAAAAATGAAAAGAAGA
*
15311111 AAAATTGAAG
1 AAAATGGAAG
15311121 GGGTAGAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 27 0.82
27 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.21, T:0.14
Consensus pattern (26 bp):
AAAATGGAAGAAAAATGAAAAGAAGA
Found at i:15319677 original size:23 final size:23
Alignment explanation
Indices: 15319633--15319677 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
15319623 TAACTATCAT
* *
15319633 TAAAATAATAAAGTAAATAAATA
1 TAAAAGAATAAAGTAAAGAAATA
15319656 TAAAAGAATAAAAG-AAAGAAAT
1 TAAAAGAAT-AAAGTAAAGAAAT
15319678 GAAGGAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (23 bp):
TAAAAGAATAAAGTAAAGAAATA
Found at i:15320619 original size:21 final size:22
Alignment explanation
Indices: 15320593--15320656 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
15320583 GCTTTGTCGA
15320593 TCAGGCACTATATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
* ** *
15320615 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTTGTAT
* *
15320635 TCGGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTTGTAT
15320657 ACTGCTTTTG
Statistics
Matches: 30, Mismatches: 10, Indels: 4
0.68 0.23 0.09
Matches are distributed among these distances:
20 2 0.07
21 26 0.87
22 2 0.07
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.39
Consensus pattern (22 bp):
TCAGGCACTATATGTGTTGTAT
Found at i:15336793 original size:23 final size:23
Alignment explanation
Indices: 15336767--15336813 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
15336757 TCACCTTTGG
15336767 ATTATGATCCAAGAAACATAATA
1 ATTATGATCCAAGAAACATAATA
* *
15336790 ATTATGATCTAAGCAACATAATA
1 ATTATGATCCAAGAAACATAATA
15336813 A
1 A
15336814 GCATTAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.28
Consensus pattern (23 bp):
ATTATGATCCAAGAAACATAATA
Found at i:15337977 original size:3 final size:3
Alignment explanation
Indices: 15337969--15337995 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
15337959 CCAAATAGCC
15337969 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
15337996 GTGGAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:15340355 original size:20 final size:18
Alignment explanation
Indices: 15340325--15340373 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
15340315 TTAAATTAAT
* * *
15340325 TTAAATATAAAATATATAT
1 TTAATTATAAAA-ATAAAA
15340344 TTATATTATAAAAATAAAA
1 TTA-ATTATAAAAATAAAA
15340363 TTAATTATAAA
1 TTAATTATAAA
15340374 TTAAATAACC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 10 0.38
20 8 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TTAATTATAAAAATAAAA
Found at i:15343219 original size:14 final size:15
Alignment explanation
Indices: 15343178--15343219 Score: 52
Period size: 14 Copynumber: 2.8 Consensus size: 15
15343168 GATAATTAAT
15343178 TTTTAT-TTATTCTA
1 TTTTATATTATTCTA
15343192 TTTTGATAATTATT-TA
1 TTTT-AT-ATTATTCTA
15343208 TTTTATATTATT
1 TTTTATATTATT
15343220 AGGGTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 6 0.24
17 5 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTTATATTATTCTA
Found at i:15346913 original size:32 final size:32
Alignment explanation
Indices: 15346877--15347153 Score: 210
Period size: 32 Copynumber: 8.7 Consensus size: 32
15346867 AATCAAATCA
* * *
15346877 GCAATATATAAATACATATACAAATCAATTTG
1 GCAATATATATATACATATACAATTCAATTCG
** * * *
15346909 GCAATAGGTGTATACCTATACAATTCAATTTG
1 GCAATATATATATACATATACAATTCAATTCG
* *
15346941 GCAATATA-AGTATATATATACAATTCAATTTG
1 GCAATATATA-TATACATATACAATTCAATTCG
* * * *
15346973 GTAATAGATGTATACCTATACAATTCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
*
15347005 GCAATATA-ATTATATATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
** * *
15347037 ATAATATA-AGTATATATATACAATTCAATTTG
1 GCAATATATA-TATACATATACAATTCAATTCG
* *
15347069 GCAAT-TATAAGAATATATATACAATTCAATTCG
1 GCAATATAT-A-TATACATATACAATTCAATTCG
* * *
15347102 GCAATATATA-A-CCATATATGAA-TCAAATTCA
1 GCAATATATATATACATATA-CAATTC-AATTCG
*
15347133 GCAATATATA-AAACATATACA
1 GCAATATATATATACATATACA
15347154 TTTAAATTTA
Statistics
Matches: 200, Mismatches: 36, Indels: 19
0.78 0.14 0.07
Matches are distributed among these distances:
30 7 0.04
31 22 0.11
32 140 0.70
33 28 0.14
34 3 0.01
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.34
Consensus pattern (32 bp):
GCAATATATATATACATATACAATTCAATTCG
Found at i:15346960 original size:64 final size:64
Alignment explanation
Indices: 15346892--15347107 Score: 297
Period size: 64 Copynumber: 3.4 Consensus size: 64
15346882 ATATAAATAC
* * *
15346892 ATATACAAATCAATTTGGCAATAGGTGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
1 ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
* * * *
15346956 ATATACAATTCAATTTGGTAATAGATGTATACCTATACAATTCAATTCGGCAATATAATTATAT
1 ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
** * * ** *
15347020 ATATACAATTCAATTCGATAATATAAGTATATATATACAATTCAATTTGGCAATTATAAGAATAT
1 ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAA-TATAAGTATAT
15347085 ATATACAATTCAATTCGGCAATA
1 ATATACAATTCAATTCGGCAATA
15347108 TATAACCATA
Statistics
Matches: 135, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
64 105 0.78
65 30 0.22
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (64 bp):
ATATACAATTCAATTCGGCAATAGATGTATACCTATACAATTCAATTTGGCAATATAAGTATAT
Found at i:15347009 original size:96 final size:97
Alignment explanation
Indices: 15346887--15347109 Score: 288
Period size: 96 Copynumber: 2.3 Consensus size: 97
15346877 GCAATATATA
* * ** * * *
15346887 AATACATATACAAATCAATTTGGCAATA-GGTGTATACCTATACAATTCAATTTGGCAATATAAG
1 AATACATATACAATTCAATTCGGCAATATAAT-TATACATATACAATTCAATTCGACAATATAAG
* *
15346951 TATATATATACAATTCAATTTGGTAA-TAGATG
65 TATATATATACAATTCAATTTGGCAATTAGAAG
* * * *
15346983 TATACCTATACAATTCAATTCGGCAATATAATTATATATATACAATTCAATTCGATAATATAAGT
1 AATACATATACAATTCAATTCGGCAATATAATTATACATATACAATTCAATTCGACAATATAAGT
*
15347048 ATATATATACAATTCAATTTGGCAATTATAAG
66 ATATATATACAATTCAATTTGGCAATTAGAAG
*
15347080 AATATATATACAATTCAATTCGGCAATATA
1 AATACATATACAATTCAATTCGGCAATATA
15347110 TAACCATATA
Statistics
Matches: 108, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
96 76 0.70
97 32 0.30
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (97 bp):
AATACATATACAATTCAATTCGGCAATATAATTATACATATACAATTCAATTCGACAATATAAGT
ATATATATACAATTCAATTTGGCAATTAGAAG
Found at i:15347161 original size:31 final size:30
Alignment explanation
Indices: 15347085--15347161 Score: 82
Period size: 31 Copynumber: 2.5 Consensus size: 30
15347075 ATAAGAATAT
* * *
15347085 ATATACAATTCAATTCGGCAATATATAACC
1 ATATACAATTAAATTCAGCAATATATAAAC
* *
15347115 ATATATGAATCAAATTCAGCAATATATAAAAC
1 ATATA-CAATTAAATTCAGCAATATAT-AAAC
*
15347147 ATATACATTTAAATT
1 ATATACAATTAAATT
15347162 TAAAAACATC
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
30 5 0.14
31 24 0.65
32 8 0.22
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
ATATACAATTAAATTCAGCAATATATAAAC
Found at i:15349156 original size:5 final size:5
Alignment explanation
Indices: 15349146--15349177 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
15349136 CAACAATATT
*
15349146 AAAGA AAAGA AAAGG AAAGA AAAGA AAAGA AA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AA
15349178 GTTGTGTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:15355814 original size:33 final size:33
Alignment explanation
Indices: 15355774--15355842 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
15355764 GAAACACCAT
15355774 CACCACCCACAAATACTGAACCACAT-ATTGAAC
1 CACCACCCACAAATACTGAACCACATGA-TGAAC
*
15355807 CACCACCCACAAATATTGAACCACATGATGAAC
1 CACCACCCACAAATACTGAACCACATGATGAAC
15355840 CAC
1 CAC
15355843 ATATTGAACC
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 33 0.97
34 1 0.03
ACGTcount: A:0.42, C:0.36, G:0.07, T:0.14
Consensus pattern (33 bp):
CACCACCCACAAATACTGAACCACATGATGAAC
Found at i:15355840 original size:12 final size:12
Alignment explanation
Indices: 15355819--15355854 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
15355809 CCACCCACAA
15355819 ATATTGAACCAC
1 ATATTGAACCAC
15355831 ATGA-TGAACCAC
1 AT-ATTGAACCAC
15355843 ATATTGAACCAC
1 ATATTGAACCAC
15355855 CAACTCCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.05
12 20 0.91
13 1 0.05
ACGTcount: A:0.42, C:0.25, G:0.11, T:0.22
Consensus pattern (12 bp):
ATATTGAACCAC
Found at i:15359185 original size:4 final size:4
Alignment explanation
Indices: 15359176--15359201 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
15359166 GAGATGGGGC
15359176 AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AA
15359202 TGAGGAGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:15370243 original size:25 final size:25
Alignment explanation
Indices: 15370206--15370260 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
15370196 TTTTATTTTT
*
15370206 CCCCAAAATTTTTACTCCC-TCCCA
1 CCCCAAAACTTTTACTCCCTTCCCA
*
15370230 CCCCTAAAACTTTTATTCCCTTCCCA
1 CCCC-AAAACTTTTACTCCCTTCCCA
*
15370256 TCCCA
1 CCCCA
15370261 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 4 0.15
25 14 0.54
26 8 0.31
ACGTcount: A:0.24, C:0.45, G:0.00, T:0.31
Consensus pattern (25 bp):
CCCCAAAACTTTTACTCCCTTCCCA
Found at i:15370905 original size:5 final size:5
Alignment explanation
Indices: 15370895--15370920 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15370885 GAACAAATAT
15370895 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
15370921 ATTCCATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:15382345 original size:16 final size:15
Alignment explanation
Indices: 15382324--15382354 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
15382314 ATGTAATTAT
15382324 AAAAATAGTTAAAATA
1 AAAAATA-TTAAAATA
15382340 AAAAATATTAAAATA
1 AAAAATATTAAAATA
15382355 TTATATGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (15 bp):
AAAAATATTAAAATA
Found at i:15401934 original size:21 final size:21
Alignment explanation
Indices: 15401903--15401971 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 21
15401893 TGAGCTGCAC
*
15401903 TTTAACCCTTATGGGTTTCCG
1 TTTAGCCCTTATGGGTTTCCG
* * *
15401924 TTTAGCTCTTATGAGCTTCCG
1 TTTAGCCCTTATGGGTTTCCG
* *
15401945 TTCAACCCTTATGGGTTTCCG
1 TTTAGCCCTTATGGGTTTCCG
15401966 TTTAGC
1 TTTAGC
15401972 ACTTGTGTGC
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.14, C:0.25, G:0.19, T:0.42
Consensus pattern (21 bp):
TTTAGCCCTTATGGGTTTCCG
Found at i:15401939 original size:42 final size:42
Alignment explanation
Indices: 15401860--15401971 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 42
15401850 ATGAGTTTCT
* ** * * *
15401860 GTTTAACCCTAATGGGTTTTAGTTCAGTTCTTTTGAGCTGCAC
1 GTTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTGC-C
*
15401903 -TTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTTCC
1 GTTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTGCC
*
15401944 GTTCAACCCTTATGGGTTTCCGTTTAGC
1 GTTTAACCCTTATGGGTTTCCGTTTAGC
15401972 ACTTGTGTGC
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.42
Consensus pattern (42 bp):
GTTTAACCCTTATGGGTTTCCGTTTAGCTCTTATGAGCTGCC
Found at i:15404997 original size:33 final size:32
Alignment explanation
Indices: 15404953--15405080 Score: 77
Period size: 33 Copynumber: 3.9 Consensus size: 32
15404943 GACATTTTAA
15404953 TGAAA-AA-ACCATAACTGGCTTATGGCATTT
1 TGAAATAAGACCATAACTGGCTTATGGCATTT
** * *
15404983 TGAACATAAGACCATAGTTGGAC-CATGACAGTATT
1 TGAA-ATAAGACCATAACTGG-CTTATGGCA-T-TT
* **
15405018 T-ATAAGTAAGACCATAGCTGGGATATGGCATTT
1 TGA-AA-TAAGACCATAACTGGCTTATGGCATTT
*
15405051 TGATGATAAGACCATAACTGAG-TTATGGCA
1 TGA-AATAAGACCATAACTG-GCTTATGGCA
15405081 CTACGAATGT
Statistics
Matches: 76, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
30 4 0.05
31 1 0.01
32 2 0.03
33 37 0.49
34 9 0.12
35 23 0.30
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (32 bp):
TGAAATAAGACCATAACTGGCTTATGGCATTT
Found at i:15405065 original size:101 final size:101
Alignment explanation
Indices: 15404887--15405080 Score: 273
Period size: 101 Copynumber: 1.9 Consensus size: 101
15404877 GAATTGACGG
* ** * * *
15404887 ATAAGACCATGGTTGGACTGTGGCAATTTTTATATGTAAGACCATAGCTGGGATATGACATTTTA
1 ATAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTTTA
15404952 ATGAAAAAACCATAACTG-GCTTATGGCATTTTGAAC
66 ATGAAAAAACCATAACTGAG-TTATGGCATTTTGAAC
* * *
15404988 ATAAGACCATAGTTGGACCATGACAGTATTTATAAGTAAGACCATAGCTGGGATATGGCATTTTG
1 ATAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTTTA
* *
15405053 ATGATAAGACCATAACTGAGTTATGGCA
66 ATGAAAAAACCATAACTGAGTTATGGCA
15405081 CTACGAATGT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
101 80 0.99
102 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (101 bp):
ATAAGACCATAGTTGGACCATGACAATATTTATAAGTAAGACCATAGCTGGGATATGACATTTTA
ATGAAAAAACCATAACTGAGTTATGGCATTTTGAAC
Found at i:15416527 original size:9 final size:9
Alignment explanation
Indices: 15416498--15416618 Score: 145
Period size: 9 Copynumber: 13.4 Consensus size: 9
15416488 GTAGTGATTC
15416498 AATTCGGTT
1 AATTCGGTT
**
15416507 AATTTAGTT
1 AATTCGGTT
15416516 AATTCGAG-T
1 AATTCG-GTT
15416525 AATTCGGTT
1 AATTCGGTT
*
15416534 AATTCGGGT
1 AATTCGGTT
*
15416543 AATCCGGTT
1 AATTCGGTT
*
15416552 AATTCGGGT
1 AATTCGGTT
* *
15416561 AATCCGATT
1 AATTCGGTT
*
15416570 AATTCAGTT
1 AATTCGGTT
*
15416579 AATTCGGGT
1 AATTCGGTT
15416588 AATTCGGTT
1 AATTCGGTT
15416597 AATTCGGTT
1 AATTCGGTT
15416606 AATTCGGTT
1 AATTCGGTT
15416615 AATT
1 AATT
15416619 TTTAACCAAA
Statistics
Matches: 92, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
8 1 0.01
9 90 0.98
10 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.21, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:15420503 original size:11 final size:12
Alignment explanation
Indices: 15420470--15420507 Score: 51
Period size: 13 Copynumber: 3.2 Consensus size: 12
15420460 TAAGACAATT
*
15420470 TAATATATATATA
1 TAATATATA-AAA
15420483 TAATATATAAAA
1 TAATATATAAAA
15420495 TAATA-ATAAAA
1 TAATATATAAAA
15420506 TA
1 TA
15420508 TTGTTTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 8 0.33
12 7 0.29
13 9 0.38
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAATATATAAAA
Found at i:15420707 original size:16 final size:15
Alignment explanation
Indices: 15420681--15420712 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
15420671 TTTTAATGTG
15420681 ACATAATTATATTTA
1 ACATAATTATATTTA
15420696 ACATATATTATATTTA
1 ACATA-ATTATATTTA
15420712 A
1 A
15420713 AAAGTTAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (15 bp):
ACATAATTATATTTA
Found at i:15421489 original size:31 final size:31
Alignment explanation
Indices: 15421451--15421512 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
15421441 TATTCGGGTC
15421451 GCGGGTCGGAGACCCGGATCCCTTTCAGGAT
1 GCGGGTCGGAGACCCGGATCCCTTTCAGGAT
* *
15421482 GCGGGTCGGAGACTCGGATCCCTTTTAGGAT
1 GCGGGTCGGAGACCCGGATCCCTTTCAGGAT
15421513 ACAGGTCAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.16, C:0.26, G:0.35, T:0.23
Consensus pattern (31 bp):
GCGGGTCGGAGACCCGGATCCCTTTCAGGAT
Found at i:15426657 original size:56 final size:56
Alignment explanation
Indices: 15426589--15426702 Score: 192
Period size: 56 Copynumber: 2.0 Consensus size: 56
15426579 TCACCCGCCC
* * *
15426589 TTTCTGTTGTTCCTGTTCCTCAACTCAAAACTCAAGCTACTAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
*
15426645 TTTCTATTGTTCCTCTTTCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
1 TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
15426701 TT
1 TT
15426703 GTTTCATAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.23, C:0.24, G:0.11, T:0.43
Consensus pattern (56 bp):
TTTCTATTGTTCCTCTTCCTCAACTCAAAACTCAAGCTAATAATTGGCTATTGTCT
Found at i:15427517 original size:355 final size:355
Alignment explanation
Indices: 15426866--15427573 Score: 1335
Period size: 355 Copynumber: 2.0 Consensus size: 355
15426856 AAAACAAGAA
*
15426866 AACAGTAAAGTGAAATACAAAGCCTCATGTGGTCTACATAGAATATCATGCCTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATGTGGTCCACATAGAATATCATGCCTAGGTTGGAAAGG
* *
15426931 GAACAACTGTTTCTAAAAGCAGCCCCAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
15426996 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
*
15427061 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACATAGGCCAACAAT
196 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
15427126 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
15427191 ACCTACAAAGTACACTGTAAATAGTATTAC
326 ACCTACAAAGTACACTGTAAATAGTATTAC
* *
15427221 AACAGTAAAGTGAAATACAAAGCCTCATTTGGTCCACATAGAATATCATGCTTAGGTTGGAAAGG
1 AACAGTAAAGTGAAATACAAAGCCTCATGTGGTCCACATAGAATATCATGCCTAGGTTGGAAAGG
15427286 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
66 AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
*
15427351 CTCATCAATTGAAATTTATACTCTAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
131 CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
* *
15427416 ATAGGTCTCACTTGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGATAACAAAGGCCAACAAT
196 ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
15427481 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
261 TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
15427546 ACCTACAAAGTACACTGTAAATAGTATT
326 ACCTACAAAGTACACTGTAAATAGTATT
15427574 CACTTTTTTT
Statistics
Matches: 344, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
355 344 1.00
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.23
Consensus pattern (355 bp):
AACAGTAAAGTGAAATACAAAGCCTCATGTGGTCCACATAGAATATCATGCCTAGGTTGGAAAGG
AAACAACTGTTTCTAAAAGCAGCCCAAAACCAATGAAAACTAGAGATCTAAAAACCCTTCAATGA
CTCATCAATTGAAATTTATACTCGAGGGTCCGAGCAGAAGAAACAATAAAGATTGGAAATAAATC
ATAGGTCTCACTGGCCAAAAGCAAGAGAAGGAAGAAAAATGGGTAAGAAAACAAAGGCCAACAAT
TCAGGCATGCTTTGAACTCAACACTTACTAGGACCATGAGAATCTCTCTTTATGTCATTAAGGAT
ACCTACAAAGTACACTGTAAATAGTATTAC
Found at i:15430171 original size:23 final size:24
Alignment explanation
Indices: 15430134--15430178 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
15430124 TTTTTCTCCA
15430134 AAACCCTAAAAATCCAAAAACCCT
1 AAACCCTAAAAATCCAAAAACCCT
15430158 AAACCC-AAAAATCCAAAAACC
1 AAACCCTAAAAATCCAAAAACC
15430179 TACAAGTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.09
Consensus pattern (24 bp):
AAACCCTAAAAATCCAAAAACCCT
Found at i:15430782 original size:147 final size:147
Alignment explanation
Indices: 15430501--15430783 Score: 376
Period size: 147 Copynumber: 1.9 Consensus size: 147
15430491 AATTTAATTA
* * * *
15430501 AAAAATTATTAAAATATTTCTATACATAAAATAATATATATTATTATGAGGGTGTTTTTATCTTT
1 AAAAATTACTAAAATATATCTATACATAAAATAAGATATATTATCATGAGGGTGTTTTTATCTTT
* * * *
15430566 TTATATTTTTATTTAAATTTTATATTAATATTAAGTCCTAAATTATGTTGGTATCACAAGTTAAC
66 TTACATTTTTATTTAAATTCTATATTAATATTAAGTCCTAAACTATGTTGATATCACAAGTTAAC
15430631 ATACACTAGTTCTGTTG
131 ATACACTAGTTCTGTTG
* *
15430648 AAAAATTACTAAAATATAT-TATATATAAACTGAGAGATATATTATCATGAGGGTGTTTTTATCT
1 AAAAATTACTAAAATATATCTATACATAAAAT-A-AGATATATTATCATGAGGGTGTTTTTATCT
* * *
15430712 TTTTGCATTTTT-TTATAAA-TCTATACTT-ATATTAAGTCTTAAACTGTGTTGATATCACAAGT
64 TTTTACATTTTTATT-TAAATTCTATA-TTAATATTAAGTCCTAAACTATGTTGATATCACAAGT
*
15430774 TAATATACAC
127 TAACATACAC
15430784 CAATGCAAGT
Statistics
Matches: 118, Mismatches: 14, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
146 10 0.08
147 64 0.54
148 44 0.37
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.45
Consensus pattern (147 bp):
AAAAATTACTAAAATATATCTATACATAAAATAAGATATATTATCATGAGGGTGTTTTTATCTTT
TTACATTTTTATTTAAATTCTATATTAATATTAAGTCCTAAACTATGTTGATATCACAAGTTAAC
ATACACTAGTTCTGTTG
Found at i:15431541 original size:32 final size:31
Alignment explanation
Indices: 15431484--15431547 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
15431474 GAAAACAAAC
*
15431484 TTTATTTTTTATTAAAATTCAA-TTTTTAAA
1 TTTATTTTTTATCAAAATTCAATTTTTTAAA
* *
15431514 TTTATATTTTTATCCAAATCTCTATTTTTTAAA
1 TTTAT-TTTTTATCAAAAT-TCAATTTTTTAAA
15431547 T
1 T
15431548 GGATAACTCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 5 0.18
31 11 0.39
32 3 0.11
33 9 0.32
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTATTTTTTATCAAAATTCAATTTTTTAAA
Found at i:15435675 original size:16 final size:16
Alignment explanation
Indices: 15435642--15435675 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15435632 TGTTTCTGTT
* *
15435642 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
15435658 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
15435674 AA
1 AA
15435676 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:15438497 original size:21 final size:21
Alignment explanation
Indices: 15438471--15438511 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15438461 AGACGAGCAA
* *
15438471 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
15438492 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
15438512 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:15440448 original size:16 final size:16
Alignment explanation
Indices: 15440415--15440448 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15440405 GGAGATTGTT
* *
15440415 AACATTAATGGGAGAC
1 AACATTAATGGCAAAC
15440431 AACATTAATGGCAAAC
1 AACATTAATGGCAAAC
15440447 AA
1 AA
15440449 TACAAAGTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.15, G:0.18, T:0.18
Consensus pattern (16 bp):
AACATTAATGGCAAAC
Found at i:15452609 original size:13 final size:13
Alignment explanation
Indices: 15452591--15452619 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15452581 AAAGTTTTTC
15452591 TAGGGGGTTATTT
1 TAGGGGGTTATTT
15452604 TAGGGGGTTATTT
1 TAGGGGGTTATTT
15452617 TAG
1 TAG
15452620 TTTCCTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.38, T:0.45
Consensus pattern (13 bp):
TAGGGGGTTATTT
Found at i:15455842 original size:18 final size:20
Alignment explanation
Indices: 15455810--15455847 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
15455800 GTTAATTTTA
*
15455810 ATTTTTCAATATTATTTAAT
1 ATTTTTCAATATTATGTAAT
15455830 ATTTTTC-AT-TTATGTAAT
1 ATTTTTCAATATTATGTAAT
15455848 TTTAATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.47
19 2 0.12
20 7 0.41
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
ATTTTTCAATATTATGTAAT
Found at i:15457947 original size:41 final size:45
Alignment explanation
Indices: 15457902--15458000 Score: 125
Period size: 46 Copynumber: 2.3 Consensus size: 45
15457892 TATTGTTTCA
* *
15457902 TTTAATAAAATAAAAGTT-GTTT-AGTAA-T-TTATTTTTATATT
1 TTTAATAAAATAAAAGTTCGTTTGAATAAGTAATATTTTTATATT
* *
15457943 TTTAATAAAATAGAAGTTCTTTTGAATAAGGTAATATTTTTATATT
1 TTTAATAAAATAAAAGTTCGTTTGAATAA-GTAATATTTTTATATT
15457989 TTTAATAAAATA
1 TTTAATAAAATA
15458001 GAAATAATGC
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 17 0.35
42 3 0.06
43 4 0.08
45 1 0.02
46 24 0.49
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.49
Consensus pattern (45 bp):
TTTAATAAAATAAAAGTTCGTTTGAATAAGTAATATTTTTATATT
Found at i:15461865 original size:46 final size:46
Alignment explanation
Indices: 15461791--15461920 Score: 215
Period size: 46 Copynumber: 2.8 Consensus size: 46
15461781 ACAATGCTAT
* *
15461791 AACTCAGTATGGTTTTCTTCACTAAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
*
15461837 AACTCAGTATGGTTTTCTTTACTGAAATATCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
* *
15461883 AACTCAATATGGTTTGCTTTACTGAAATACCATACCTA
1 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTA
15461921 TGTTCCACAC
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
Found at i:15464548 original size:26 final size:25
Alignment explanation
Indices: 15464513--15464692 Score: 86
Period size: 24 Copynumber: 7.3 Consensus size: 25
15464503 GCAGCTCTTA
*
15464513 TGAGCATCCCGTTATATGGCTCTTCG
1 TGAGCTTCCCGTTA-ATGGCTCTTCG
* * *
15464539 TGAGCTTCCCGATTAAAGACTCTTTG
1 TGAGCTTCCCG-TTAATGGCTCTTCG
* * *
15464565 TGAGCTTCCCGTTAGT-GCT-TGCT
1 TGAGCTTCCCGTTAATGGCTCTTCG
* * *
15464588 TGAACTTCCCGTTATATGGCTATCCG
1 TGAGCTTCCCGTTA-ATGGCTCTTCG
* ** **
15464614 -GTGCTTCCTATTAATTACTCTTCG
1 TGAGCTTCCCGTTAATGGCTCTTCG
* * * *
15464638 -GAGCTACTCGTTAATTGCTCTTTG
1 TGAGCTTCCCGTTAATGGCTCTTCG
*
15464662 -GAG-TTACCCGTT-ATAGGCTCTTTG
1 TGAGCTT-CCCGTTAAT-GGCTCTTCG
15464686 TGAGCTT
1 TGAGCTT
15464693 TCCATTATAT
Statistics
Matches: 114, Mismatches: 32, Indels: 16
0.70 0.20 0.10
Matches are distributed among these distances:
23 17 0.15
24 43 0.38
25 18 0.16
26 33 0.29
27 3 0.03
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
TGAGCTTCCCGTTAATGGCTCTTCG
Found at i:15465229 original size:39 final size:40
Alignment explanation
Indices: 15465174--15465287 Score: 167
Period size: 39 Copynumber: 2.8 Consensus size: 40
15465164 AATATATTTA
15465174 TTTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATA-C
1 TTTTTTT-ATTTTTTTAATTTTAAAATATTTTTAAAATACC
15465214 TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACC
1 TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACC
***
15465254 TTTTAAAATTTTTTTTAATTTTAAAATACTTTTT
1 TTTTTTTA-TTTTTTTAATTTTAAAATA-TTTTT
15465288 TAATTTTTAA
Statistics
Matches: 68, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
39 31 0.46
40 13 0.19
41 19 0.28
42 5 0.07
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (40 bp):
TTTTTTTATTTTTTTAATTTTAAAATATTTTTAAAATACC
Found at i:15465307 original size:19 final size:19
Alignment explanation
Indices: 15465266--15465307 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
15465256 TTAAAATTTT
**
15465266 TTTTAATTTTAAAATACTT
1 TTTTAATTTTAAAATACAA
15465285 TTTTAATTTTTAAAATA-AA
1 TTTTAA-TTTTAAAATACAA
15465304 TTTT
1 TTTT
15465308 TCGTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTTAATTTTAAAATACAA
Found at i:15465307 original size:20 final size:19
Alignment explanation
Indices: 15465265--15465308 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
15465255 TTTAAAATTT
**
15465265 TTTTTAATTTTAAAATACT
1 TTTTTAATTTTAAAATAAA
15465284 TTTTTAATTTTTAAAATAAA
1 TTTTTAA-TTTTAAAATAAA
15465304 TTTTT
1 TTTTT
15465309 CGTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTTTAATTTTAAAATAAA
Found at i:15465308 original size:41 final size:40
Alignment explanation
Indices: 15465182--15465301 Score: 142
Period size: 39 Copynumber: 3.0 Consensus size: 40
15465172 TATTTTTTTA
**
15465182 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTT--TTT
1 ATTTTTTTAATTTTAAAATATTTTTAAAAT-CTTTTAAAAT
15465221 ATTTTTTTAATTTTAAAATATTTTTAAAATACCTTTTAAAAT
1 ATTTTTTTAATTTTAAAATATTTTTAAAAT--CTTTTAAAAT
*
15465263 -TTTTTTTAATTTTAAAATACTTTTT-TAAT-TTTTAAAAT
1 ATTTTTTTAATTTTAAAATA-TTTTTAAAATCTTTTAAAAT
15465301 A
1 A
15465302 AATTTTTCGT
Statistics
Matches: 72, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
38 9 0.12
39 30 0.42
40 5 0.07
41 22 0.31
42 6 0.08
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATCTTTTAAAAT
Found at i:15467215 original size:126 final size:126
Alignment explanation
Indices: 15466989--15467260 Score: 368
Period size: 126 Copynumber: 2.2 Consensus size: 126
15466979 TAAGGCCAAA
* * * *
15466989 CAGGAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGGTTTTTTCATCAAATTTATTGACAGTGC
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCATCAAATTTACTGACAGTGC
* * *
15467054 ATCCTGTTTGAAGCGTTTTTAACACCATTTGTTCAGATTCGTCTTCTCAAAATTATTTTTT
66 ATACTGCTTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
* * * *
15467115 CAGGAACTACTATAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCAGT-AATTTTGCTGACTGTG
1 CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCA-TCAAATTTACTGACAGTG
* * **
15467179 CATATTGCTTGAAGCGTTTTTTACATTATCTT-TTCAGAATCGTCTTCTCAAAATTATTTTTT
65 CATACTGCTTGAAGCGTTTTTAACACCAT-TTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
*
15467241 CAGAAACTACTGTAGAAAAA
1 CAGGAACTACTGTAGAAAAA
15467261 AACAAAAGTT
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
126 124 0.98
127 3 0.02
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (126 bp):
CAGGAACTACTGTAGAAAAAGAGAGTCCACGTGAGAGCTTTTTTCATCAAATTTACTGACAGTGC
ATACTGCTTGAAGCGTTTTTAACACCATTTGTTCAGAATCGTCTTCTCAAAATTATTTTTT
Found at i:15467378 original size:34 final size:34
Alignment explanation
Indices: 15467326--15467390 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
15467316 CAAATTTATT
15467326 TTAAAAAAACTAAACCATAATTTAATTAATTTTC
1 TTAAAAAAACTAAACCATAATTTAATTAATTTTC
** *
15467360 TTAAAAACCCTAATCCATAATTTAATTAATT
1 TTAAAAAAACTAAACCATAATTTAATTAATT
15467391 AATTTAAAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (34 bp):
TTAAAAAAACTAAACCATAATTTAATTAATTTTC
Found at i:15467398 original size:34 final size:33
Alignment explanation
Indices: 15467325--15467399 Score: 96
Period size: 34 Copynumber: 2.2 Consensus size: 33
15467315 ACAAATTTAT
*
15467325 TTTAAAAAAACTAAACCATAATTTAATTAATTT
1 TTTAAAAAAACTAAACCATAATTTAATTAATTA
** *
15467358 TCTTAAAAACCCTAATCCATAATTTAATTAATTAA
1 T-TTAAAAAAACTAAACCATAATTTAATTAATT-A
15467393 TTTAAAA
1 TTTAAAA
15467400 CCCCAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 1 0.03
34 34 0.94
35 1 0.03
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (33 bp):
TTTAAAAAAACTAAACCATAATTTAATTAATTA
Found at i:15467730 original size:27 final size:27
Alignment explanation
Indices: 15467700--15467752 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
15467690 GCATTTTGCT
*
15467700 AAAATCGGCC-ATTTTCGGTAAATAAAA
1 AAAATCGACCAATTTTC-GTAAATAAAA
*
15467727 AAAATTGACCAATTTTCGTAAATAAA
1 AAAATCGACCAATTTTCGTAAATAAA
15467753 GTTAGAAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATCGACCAATTTTCGTAAATAAAA
Found at i:15485749 original size:5 final size:5
Alignment explanation
Indices: 15485739--15485766 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
15485729 TTTAATATTA
15485739 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
15485767 GAATAAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:15498250 original size:16 final size:16
Alignment explanation
Indices: 15498212--15498250 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15498202 TTTAATTTTG
*
15498212 TGATTTTATTTTATCA
1 TGATTTTATTATATCA
* *
15498228 TGGTTTTATTATATCT
1 TGATTTTATTATATCA
15498244 TGATTTT
1 TGATTTT
15498251 TGTTTTGTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.21, C:0.05, G:0.10, T:0.64
Consensus pattern (16 bp):
TGATTTTATTATATCA
Found at i:15499688 original size:57 final size:56
Alignment explanation
Indices: 15499615--15499724 Score: 202
Period size: 57 Copynumber: 1.9 Consensus size: 56
15499605 TTGTACATTA
15499615 ATTTATAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATTGTT
1 ATTTATAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATTGTT
*
15499671 ATTTATTATTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATT
1 ATTTA-TAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATT
15499725 CCTATTAATA
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
56 5 0.10
57 47 0.90
ACGTcount: A:0.25, C:0.05, G:0.11, T:0.58
Consensus pattern (56 bp):
ATTTATAGTGATTTATTAATCATTTGTACTATGTATCATGTTTTTGTATTATTGTT
Found at i:15500528 original size:33 final size:34
Alignment explanation
Indices: 15500485--15500550 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 34
15500475 ATCTTTTCAA
* *
15500485 AATTTTTTAGG-AAATATTTGTTTCAATATTTTT
1 AATTTGTTAGGAAAATATTTATTTCAATATTTTT
*
15500518 AATTTGTTAGGAAAATATTTATTTTAATATTTT
1 AATTTGTTAGGAAAATATTTATTTCAATATTTT
15500551 AGTGTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 10 0.34
34 19 0.66
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (34 bp):
AATTTGTTAGGAAAATATTTATTTCAATATTTTT
Found at i:15504021 original size:20 final size:19
Alignment explanation
Indices: 15503967--15504011 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
15503957 ACTTAACTTC
*
15503967 TTTTTTAAA-TAGATCTT-A
1 TTTTTTAAATTAAAT-TTAA
15503985 TTTTTTAAATTAAATTTAA
1 TTTTTTAAATTAAATTTAA
15504004 TTTTTTAA
1 TTTTTTAA
15504012 GCTTATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTTAAATTAAATTTAA
Found at i:15504550 original size:5 final size:5
Alignment explanation
Indices: 15504540--15504566 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15504530 TTTAAGGAAG
15504540 GATGA GATGA GATGA GATGA GATGA GA
1 GATGA GATGA GATGA GATGA GATGA GA
15504567 AATGTGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (5 bp):
GATGA
Found at i:15511754 original size:18 final size:19
Alignment explanation
Indices: 15511720--15511790 Score: 58
Period size: 18 Copynumber: 3.7 Consensus size: 19
15511710 CAAAATTTAT
*
15511720 ATTTTTAAAAAATTATAAA
1 ATTTCTAAAAAATTATAAA
15511739 ATTTCTAAAAAA-TATAACGA
1 ATTTCTAAAAAATTATAA--A
* *
15511759 ATATATAAAGAAATT-T-AA
1 ATTTCTAAA-AAATTATAAA
*
15511777 ATTTTTAAAAAATT
1 ATTTCTAAAAAATT
15511791 TCTAAAATAA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
17 5 0.12
18 13 0.30
19 11 0.26
20 9 0.21
21 4 0.09
22 1 0.02
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (19 bp):
ATTTCTAAAAAATTATAAA
Found at i:15512856 original size:35 final size:35
Alignment explanation
Indices: 15512810--15512879 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
15512800 TATCTTACCT
*
15512810 AAGCTTTCTGGACCCATAATAGATGATGGAGCTAG
1 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
15512845 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
1 AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
15512880 TATCAAGCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (35 bp):
AAGCTTTCTGGACCAATAATAGATGATGGAGCTAG
Found at i:15516004 original size:74 final size:74
Alignment explanation
Indices: 15515841--15515996 Score: 195
Period size: 74 Copynumber: 2.1 Consensus size: 74
15515831 GATAATTAGA
* * * * * * **
15515841 AAAAGATGAATAATTATGGTACATTTGAAAAACTAGTGGAACTAAACTATTTAGTTGGAAAATTC
1 AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTAAACTATTTAGTTGAAAAATAA
*
15515906 ATAAATGAG
66 ACAAATGAG
* * *
15515915 AGAACATGAATAATTATGGGGCATTTAAAAAACAAGTGCAACTAAATTATTTAGTTGAAAAATAA
1 AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTAAACTATTTAGTTGAAAAATAA
*
15515980 ACAAATGGG
66 ACAAATGAG
15515989 AAAACATG
1 AAAACATG
15515997 GGTAATTAAA
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (74 bp):
AAAACATGAATAATTATGGGACATTTAAAAAACAAGTGCAACTAAACTATTTAGTTGAAAAATAA
ACAAATGAG
Found at i:15518346 original size:114 final size:115
Alignment explanation
Indices: 15518118--15518903 Score: 1002
Period size: 114 Copynumber: 6.9 Consensus size: 115
15518108 AAAAATAAAC
* * *
15518118 TTTAGCGGCGTTTTTCACAAAGCGCCGCAAAA-AACCTAAGCCCAACGACGCCGTATT-CTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGT-TTCCTGAGC
** * *
15518181 TTTCGCAAATTTAGTGGCG-ATTTTAGTAAGCGCCGCTAATGCTCAGTGCT
65 TTTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
* *
15518231 TTTAGTGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAACCCAACGACGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTCCTGAGCT
*
15518296 TTCACGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCA-GGCT
66 TTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
* * * *
15518345 TTTAGCGGCGTTTTTGATAAAGTGCCGCAAAATAAACTAAACCCAACGATGCCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTCCTGAGCT
15518410 TTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCA-GGCT
66 TTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
* * * *
15518459 TTTAGCGGCTTTTTTGAGAAAGCGCCGCAAAATAAACTAATCCCAACGATGTCGTTTCCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTCCTGAGCT
* * * *
15518524 TTCGCGGATTTAGTGGCATTTTTTAGCAAGCGCCGCTAATGCTTAGGGCA
66 TTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
* * ** **
15518574 GTT-GCGGCGTTTTTGATG-AAGCGCCACAAAATAAACTAAGCCCAACGATTCCGTTTTTTGAGC
1 TTTAGCGGCGTTTTTGA-GAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTCCTGAGC
* * * * * *
15518637 TTTCACGGATTTAGTGGCGTTTCTTAATAAAGCGCTGCTAATGATGAGGGC-
65 TTTCGCGGATTTAGTGGCGTTTTTTAGT-AAGCGCCGCTAATGCTCAGGGCT
* * * *
15518688 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAATAAACTAAGCCCAACGACACTGTTTTCTGAGCT
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTCCTGAGCT
* * * *
15518753 TTTGCGGCTTTAGTGTCG-TTTTTAGGGAAGCGCCGCTAATGCTCAGGGCT
66 TTCGCGGATTTAGTGGCGTTTTTTA-GTAAGCGCCGCTAATGCTCAGGGCT
* * *
15518803 TTTAGCGGCGTTTGTGAGAAAGCGCCGCAAAA-AGACATAAGCCCAACGACGCCGTTT-TTGAGC
1 TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAAC-TAAGCCCAACGACGCCGTTTCCTGAGC
* *
15518866 TTTCGGGGGATTTAGCGGCGTTTTTTA-TGAAGCGCCGC
65 TTTC-GCGGATTTAGTGGCGTTTTTTAGT-AAGCGCCGC
15518904 AAAAAAACAT
Statistics
Matches: 591, Mismatches: 68, Indels: 26
0.86 0.10 0.04
Matches are distributed among these distances:
113 31 0.05
114 368 0.62
115 186 0.31
116 6 0.01
ACGTcount: A:0.24, C:0.22, G:0.25, T:0.29
Consensus pattern (115 bp):
TTTAGCGGCGTTTTTGAGAAAGCGCCGCAAAATAAACTAAGCCCAACGACGCCGTTTCCTGAGCT
TTCGCGGATTTAGTGGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:15519351 original size:7 final size:7
Alignment explanation
Indices: 15519341--15519383 Score: 50
Period size: 7 Copynumber: 5.9 Consensus size: 7
15519331 TAAGATTTAT
15519341 GGGTTAG
1 GGGTTAG
15519348 GGGTTTAG
1 GGG-TTAG
15519356 GGGTTTAG
1 GGG-TTAG
15519364 GGGTTAG
1 GGGTTAG
**
15519371 ACGTTAG
1 GGGTTAG
15519378 GGGTTA
1 GGGTTA
15519384 AGAGTTAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
7 16 0.52
8 15 0.48
ACGTcount: A:0.16, C:0.02, G:0.49, T:0.33
Consensus pattern (7 bp):
GGGTTAG
Found at i:15519357 original size:8 final size:8
Alignment explanation
Indices: 15519344--15519368 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
15519334 GATTTATGGG
15519344 TTAGGGGT
1 TTAGGGGT
15519352 TTAGGGGT
1 TTAGGGGT
15519360 TTAGGGGT
1 TTAGGGGT
15519368 T
1 T
15519369 AGACGTTAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.48, T:0.40
Consensus pattern (8 bp):
TTAGGGGT
Found at i:15519359 original size:15 final size:15
Alignment explanation
Indices: 15519336--15519382 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
15519326 GGATTTAAGA
*
15519336 TTTATGGGTTAGGGG
1 TTTAGGGGTTAGGGG
15519351 TTTAGGGGTTTAGGGG
1 TTTAGGGG-TTAGGGG
**
15519367 -TTAGACGTTAGGGG
1 TTTAGGGGTTAGGGG
15519381 TT
1 TT
15519383 AAGAGTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 7 0.26
15 13 0.48
16 7 0.26
ACGTcount: A:0.15, C:0.02, G:0.45, T:0.38
Consensus pattern (15 bp):
TTTAGGGGTTAGGGG
Found at i:15519970 original size:106 final size:106
Alignment explanation
Indices: 15519786--15520469 Score: 640
Period size: 106 Copynumber: 6.1 Consensus size: 106
15519776 TAAATAAATT
* * * * * *
15519786 ATAAAAAATTATT-TACATAGCAAAACGGCGCCCTTTTTTTATCAAAATGAAATAGCGGCGTTTT
1 ATAAAAAATT-TTGTGCATAGCAAAACGGCG-TCATTTTGT-TCAAATTGAAATTGCGGCGTTTT
* *
15519850 TCATTAAAACGCCGCAAAAAGTAAATCAATTTATAAAAAACAAA
63 TCATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
*
15519894 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTGAAGTTGCGGCGTTTTGTC
1 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTGAAATTGCGGCGTTTT-TC
15519959 -TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
65 ATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
* * * *
15520000 ATAAAAAATTTTGTGCATAGTAAAACGGCGTCATTTCGTTCAAATTGAAATTGCAGCGTTTTTCC
1 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTGAAATTGCGGCGTTTTTCA
* *
15520065 TACAAACGCTGCAAAAAATAAATCAATTTA-AAAAAACAAA
66 TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
*
15520105 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAAATGAAATAATATTTTGCGGCG
1 ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTG----AA-A--TTGCGGCG
* * * * * *
15520170 ATTTTCACAAAAACACCGCAAAAGAT-AAGCAATAGCGGCGTATATAAAACGCTGCAAAGAAA
59 TTTTTCATAAAAACGCCGCAAAAAATAAATCAAT-------T-TAT-AAA------AAACAAA
* * * * * *
15520232 ATAAATAAATTATAAAAAAATTATTTGCATAGCAAAACGGCGCCGTTTTTCTTCAAAATGAAATA
1 AT-AA-AAA--AT-------TT-TGTGCATAGCAAAACGGCGTC-ATTTTGTTCAAATTGAAATT
*
15520297 GCGGCGTTTTTCGTAAAAACGCCGCAAAAAAGTAAATCAATTTATAAAAAACAAA
53 GCGGCGTTTTTCATAAAAACGCCGCAAAAAA-TAAATCAATTTATAAAAAACAAA
* * * * *
15520352 ATAACAAAATTTTGTGCATAGAAAAACGGCGTCA-TTTGGTCAAATTGAAGTTGCAGCGTTTTCC
1 ATAA-AAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTGAAATTGCGGCGTTTTTC
*
15520416 CTAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
65 ATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
*
15520458 ATAAATAATTTT
1 ATAAAAAATTTT
15520470 TAGCATACCG
Statistics
Matches: 481, Mismatches: 54, Indels: 85
0.78 0.09 0.14
Matches are distributed among these distances:
105 63 0.13
106 172 0.36
107 51 0.11
108 26 0.05
109 20 0.04
110 3 0.01
111 6 0.01
112 26 0.05
117 2 0.00
118 1 0.00
119 7 0.01
120 8 0.02
121 3 0.01
126 3 0.01
127 11 0.02
128 3 0.01
129 3 0.01
131 2 0.00
133 27 0.06
134 1 0.00
135 7 0.01
136 2 0.00
138 2 0.00
139 19 0.04
140 13 0.03
ACGTcount: A:0.44, C:0.15, G:0.14, T:0.27
Consensus pattern (106 bp):
ATAAAAAATTTTGTGCATAGCAAAACGGCGTCATTTTGTTCAAATTGAAATTGCGGCGTTTTTCA
TAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAA
Found at i:15524912 original size:30 final size:32
Alignment explanation
Indices: 15524869--15524933 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
15524859 TATAACTTGC
* *
15524869 ATAATTTACATAACTTATAAATTTTTA-ATAT
1 ATAACTTACATAACTTATAAATATTTATATAT
*
15524900 ATAACTTA-ATAACTTATTAATATTTATATAT
1 ATAACTTACATAACTTATAAATATTTATATAT
15524931 ATA
1 ATA
15524934 TTAAAAATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 16 0.53
31 14 0.47
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAACTTACATAACTTATAAATATTTATATAT
Found at i:15524919 original size:23 final size:22
Alignment explanation
Indices: 15524878--15524922 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
15524868 CATAATTTAC
*
15524878 ATAACTTATAAATTTTTAATAT
1 ATAACTTATAAATTATTAATAT
*
15524900 ATAACTTAATAACTTATTAATAT
1 ATAACTT-ATAAATTATTAATAT
15524923 TTATATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAACTTATAAATTATTAATAT
Found at i:15524965 original size:20 final size:20
Alignment explanation
Indices: 15524900--15524984 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 20
15524890 TTTTTAATAT
15524900 ATAACTTA-ATA-ACTTATTA
1 ATAACTTATATATACTT-TTA
* *
15524919 AT-ATTTATATATA-TATTA
1 ATAACTTATATATACTTTTA
* *
15524937 AAAATTTATATATACTTTTA
1 ATAACTTATATATACTTTTA
*
15524957 ATAACTTATATATAAC-TTTC
1 ATAACTTATATAT-ACTTTTA
15524977 ATAACTTA
1 ATAACTTA
15524985 CATAATAACA
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.15
19 17 0.31
20 27 0.50
21 2 0.04
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAACTTATATATACTTTTA
Found at i:15524982 original size:9 final size:9
Alignment explanation
Indices: 15524968--15525671 Score: 141
Period size: 9 Copynumber: 80.9 Consensus size: 9
15524958 TAACTTATAT
*
15524968 ATAACTTTC
1 ATAACTTAC
15524977 ATAACTTAC
1 ATAACTTAC
*
15524986 ATAA-TAAC
1 ATAACTTAC
15524994 ATAATAACTTAC
1 ---ATAACTTAC
15525006 ATAA--TAC
1 ATAACTTAC
*
15525013 ATAGCTTAC
1 ATAACTTAC
** *
15525022 ACGACTTGC
1 ATAACTTAC
15525031 ATAA--TAC
1 ATAACTTAC
*
15525038 ACAACTTAC
1 ATAACTTAC
*
15525047 ATAAATTAC
1 ATAACTTAC
15525056 ATAA--TAC
1 ATAACTTAC
*
15525063 ATAACTTTC
1 ATAACTTAC
*
15525072 ATAATTTAC
1 ATAACTTAC
*
15525081 ATAATAACTTAA
1 ---ATAACTTAC
*
15525093 ATAAATTAC
1 ATAACTTAC
15525102 ATAA--TAC
1 ATAACTTAC
**
15525109 AT-TTTTA-
1 ATAACTTAC
* *
15525116 ATCACTTAT
1 ATAACTTAC
*
15525125 ATAAAACTTTC
1 AT--AACTTAC
15525136 ATAACTTAC
1 ATAACTTAC
15525145 ATAA--TAC
1 ATAACTTAC
*
15525152 ATAACCTAC
1 ATAACTTAC
* *
15525161 ATGACTTGC
1 ATAACTTAC
15525170 ATAA--TAC
1 ATAACTTAC
* *
15525177 ACAACTTGC
1 ATAACTTAC
*
15525186 ATAAATTAC
1 ATAACTTAC
15525195 ATAA--TAC
1 ATAACTTAC
**
15525202 AT-TTTTA-
1 ATAACTTAC
* *
15525209 AAAACTTATAT
1 ATAAC-T-TAC
*
15525220 ATAACTTTC
1 ATAACTTAC
15525229 ATAACTTAC
1 ATAACTTAC
*
15525238 ATAA-TAAC
1 ATAACTTAC
15525246 ATAATAACTTAC
1 ---ATAACTTAC
15525258 ATAA--TAC
1 ATAACTTAC
* *
15525265 ATAGCCTAC
1 ATAACTTAC
* **
15525274 ATGACTTGT
1 ATAACTTAC
15525283 ATAA--TAC
1 ATAACTTAC
*
15525290 ACAACTTAC
1 ATAACTTAC
*
15525299 ATAAATTAC
1 ATAACTTAC
15525308 ATAA--TAC
1 ATAACTTAC
*
15525315 ATAACTTTC
1 ATAACTTAC
*
15525324 ACAACTTAC
1 ATAACTTAC
*
15525333 ATTA--TAC
1 ATAACTTAC
*
15525340 ATAACTTAT
1 ATAACTTAC
*
15525349 A-AATCATATC
1 ATAA-CTTA-C
15525359 ATAACTTAC
1 ATAACTTAC
15525368 ATAAC-T-C
1 ATAACTTAC
*
15525375 A-AATTTATC
1 ATAACTTA-C
* *
15525384 A-ATCATATC
1 ATAACTTA-C
*
15525393 ATAACTTATAT
1 ATAAC-T-TAC
15525404 ATACACTTAC
1 ATA-ACTTAC
15525414 ATAA--TAC
1 ATAACTTAC
*
15525421 ATAACTTAAATA
1 ATAACTT--A-C
*
15525433 ATAACCTAC
1 ATAACTTAC
15525442 ATAACTTAC
1 ATAACTTAC
*
15525451 ATAGAAACTTAT
1 AT---AACTTAC
*
15525463 ATAGAAACTTGC
1 AT---AACTTAC
*
15525475 ATAGCTTACC
1 ATAACTTA-C
*
15525485 A-CACTTA-
1 ATAACTTAC
* *
15525492 AAAACTTAG
1 ATAACTTAC
15525501 ATAA--TAC
1 ATAACTTAC
* *
15525508 ATAGCCTAC
1 ATAACTTAC
*
15525517 ATAACTTAT
1 ATAACTTAC
15525526 ATAACTTAC
1 ATAACTTAC
15525535 ATAA--TAC
1 ATAACTTAC
**
15525542 ACCACTTAC
1 ATAACTTAC
15525551 AT-A---A-
1 ATAACTTAC
*
15525555 ATAACTTGC
1 ATAACTTAC
15525564 ATAA--TAC
1 ATAACTTAC
* *
15525571 ATAGCCTAC
1 ATAACTTAC
15525580 ATAACTTAC
1 ATAACTTAC
*
15525589 TTAACTTAC
1 ATAACTTAC
15525598 ATAA--TAC
1 ATAACTTAC
**
15525605 ACCACTTAC
1 ATAACTTAC
*
15525614 ATAACTTAA
1 ATAACTTAC
15525623 ATAACTTAC
1 ATAACTTAC
15525632 ATAA--TAC
1 ATAACTTAC
*
15525639 TTAACTTTA-
1 ATAAC-TTAC
15525648 ATAA--TAC
1 ATAACTTAC
*
15525655 ACAACTTAC
1 ATAACTTAC
15525664 ATAACTTA
1 ATAACTTA
15525672 ATTACATTAT
Statistics
Matches: 497, Mismatches: 117, Indels: 162
0.64 0.15 0.21
Matches are distributed among these distances:
4 2 0.00
5 2 0.00
6 4 0.01
7 106 0.21
8 22 0.04
9 276 0.56
10 19 0.04
11 25 0.05
12 41 0.08
ACGTcount: A:0.45, C:0.19, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:15525000 original size:20 final size:20
Alignment explanation
Indices: 15524955--15525015 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
15524945 TATATACTTT
* *
15524955 TAATAACTTATAT-ATAACTT
1 TAATAACTTACATAATAAC-A
*
15524975 TCATAACTTACATAATAACA
1 TAATAACTTACATAATAACA
15524995 TAATAACTTACATAAT-ACA
1 TAATAACTTACATAATAACA
15525014 TA
1 TA
15525016 GCTTACACGA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TAATAACTTACATAATAACA
Found at i:15525033 original size:25 final size:25
Alignment explanation
Indices: 15524999--15525086 Score: 95
Period size: 25 Copynumber: 3.5 Consensus size: 25
15524989 ATAACATAAT
*
15524999 AACTTACATAATACATAGCTTACAC
1 AACTTACATAATACATAACTTACAC
* * * *
15525024 GACTTGCATAATACACAACTTACAT
1 AACTTACATAATACATAACTTACAC
* * *
15525049 AAATTACATAATACATAACTTTCAT
1 AACTTACATAATACATAACTTACAC
*
15525074 AATTTACATAATA
1 AACTTACATAATA
15525087 ACTTAAATAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAC
Found at i:15525058 original size:50 final size:48
Alignment explanation
Indices: 15524997--15525203 Score: 178
Period size: 50 Copynumber: 4.4 Consensus size: 48
15524987 TAATAACATA
* *
15524997 ATAACTTACATAATACATAGCTTACACGACTTGCATAATACACAACTTAC
1 ATAAATTACATAATACATAACTTACACGACTTGCATAATA-A-AACTTAC
* ** * * *
15525047 ATAAATTACATAATACATAACTTTCATAATTTACATAAT--AACTTAA
1 ATAAATTACATAATACATAACTTACACGACTTGCATAATAAAACTTAC
** *
15525093 ATAAATTACATAATACAT-TTTTA-ATC-ACTT--AT-ATAAAACTTTC
1 ATAAATTACATAATACATAACTTACA-CGACTTGCATAATAAAACTTAC
* * * *
15525136 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTGC
1 ATAAATTACATAATACATAACTTACACGACTTGCATAATA-A-AACTTAC
15525186 ATAAATTACATAATACAT
1 ATAAATTACATAATACAT
15525204 TTTTAAAAAC
Statistics
Matches: 124, Mismatches: 22, Indels: 22
0.74 0.13 0.13
Matches are distributed among these distances:
41 2 0.02
42 2 0.02
43 22 0.18
44 6 0.05
45 7 0.06
46 24 0.19
47 2 0.02
48 3 0.02
49 1 0.01
50 55 0.44
ACGTcount: A:0.45, C:0.18, G:0.03, T:0.33
Consensus pattern (48 bp):
ATAAATTACATAATACATAACTTACACGACTTGCATAATAAAACTTAC
Found at i:15525089 original size:21 final size:21
Alignment explanation
Indices: 15525063--15525150 Score: 79
Period size: 21 Copynumber: 4.1 Consensus size: 21
15525053 TACATAATAC
* *
15525063 ATAACTTTCATAATTTACATA
1 ATAACTTTAATAACTTACATA
* *
15525084 ATAACTTAAATAAATTACATA
1 ATAACTTTAATAACTTACATA
* * *
15525105 ATACATTTTTAATCACTTATATA
1 ATA-A-CTTTAATAACTTACATA
*
15525128 A-AACTTTCATAACTTACATA
1 ATAACTTTAATAACTTACATA
15525148 ATA
1 ATA
15525151 CATAACCTAC
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 14 0.27
21 23 0.44
22 2 0.04
23 13 0.25
ACGTcount: A:0.47, C:0.14, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAACTTTAATAACTTACATA
Found at i:15525147 original size:43 final size:43
Alignment explanation
Indices: 15525040--15525243 Score: 165
Period size: 43 Copynumber: 4.5 Consensus size: 43
15525030 CATAATACAC
* * * * *
15525040 AACTTACATAAATTACATAATACATAACTTTCATAATTTACATAA
1 AACTTTCATAAATTACATAATACAT--TTTTAATAACTTATATAA
** *
15525085 TAACTTAAATAAATTACATAATACATTTTTAATCACTTATATAA
1 -AACTTTCATAAATTACATAATACATTTTTAATAACTTATATAA
* *** *
15525129 AACTTTCATAACTTACATAATACATAACCTACATGACTTGCATAATACA
1 AACTTTCATAAATTACATAATACAT-TTTTA-ATAACTT--AT-ATA-A
* * *
15525178 CAACTTGCATAAATTACATAATACATTTTTAAAAACTTATATAT
1 -AACTTTCATAAATTACATAATACATTTTTAATAACTTATATAA
*
15525222 AACTTTCATAACTTACATAATA
1 AACTTTCATAAATTACATAATA
15525244 ACATAATAAC
Statistics
Matches: 128, Mismatches: 23, Indels: 17
0.76 0.14 0.10
Matches are distributed among these distances:
43 42 0.33
44 15 0.12
45 9 0.07
46 26 0.20
47 2 0.02
48 8 0.06
49 3 0.02
50 23 0.18
ACGTcount: A:0.46, C:0.16, G:0.01, T:0.36
Consensus pattern (43 bp):
AACTTTCATAAATTACATAATACATTTTTAATAACTTATATAA
Found at i:15525167 original size:25 final size:25
Alignment explanation
Indices: 15525135--15525344 Score: 120
Period size: 25 Copynumber: 8.9 Consensus size: 25
15525125 ATAAAACTTT
15525135 CATAACTTACATAATACATAACCTA
1 CATAACTTACATAATACATAACCTA
* * * * *
15525160 CATGACTTGCATAATACACAACTTG
1 CATAACTTACATAATACATAACCTA
* ***
15525185 CATAAATTACATAATACAT-TTTTA
1 CATAACTTACATAATACATAACCTA
* * *
15525209 -AAAACTT--AT-AT--ATAACTTT
1 CATAACTTACATAATACATAACCTA
*
15525228 CATAACTTAC---ATA-ATAACATA
1 CATAACTTACATAATACATAACCTA
*
15525249 -ATAACTTACATAATACATAGCCTA
1 CATAACTTACATAATACATAACCTA
* ** * *
15525273 CATGACTTGTATAATACACAACTTA
1 CATAACTTACATAATACATAACCTA
* * *
15525298 CATAAATTACATAATACATAACTTT
1 CATAACTTACATAATACATAACCTA
* *
15525323 CACAACTTACATTATACATAAC
1 CATAACTTACATAATACATAAC
15525345 TTATAAATCA
Statistics
Matches: 138, Mismatches: 37, Indels: 20
0.71 0.19 0.10
Matches are distributed among these distances:
18 2 0.01
19 2 0.01
20 19 0.14
21 8 0.06
23 8 0.06
24 8 0.06
25 91 0.66
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (25 bp):
CATAACTTACATAATACATAACCTA
Found at i:15525252 original size:20 final size:19
Alignment explanation
Indices: 15525229--15525267 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
15525219 TATAACTTTC
15525229 ATAACTTACATAATAACATA
1 ATAACTTACATAAT-ACATA
15525249 ATAACTTACATAATACATA
1 ATAACTTACATAATACATA
15525268 GCCTACATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAACTTACATAATACATA
Found at i:15525362 original size:113 final size:112
Alignment explanation
Indices: 15525136--15525371 Score: 309
Period size: 113 Copynumber: 2.1 Consensus size: 112
15525126 TAAAACTTTC
*
15525136 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTGCATAAATTACATAATA
1 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTACATAAATTACATAATA
* * *
15525201 CATTTTTAAAAACTTATATATAACTTTCATAACTTACATAATAACATA
66 CATCTTTAAAAACTTACATATAAC-TACATAACTTACATAATAACATA
* *
15525249 ATAACTTACATAATACATAGCCTACATGACTTGTATAATACACAACTTACATAAATTACATAATA
1 ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTACATAAATTACATAATA
* * * * * *
15525314 CATAACTTTCACAACTTACAT-T-A-TACATAACTTATA-AATCATATC
66 CAT--CTTTAAAAACTTACATATAACTACATAACTTACATAATAACATA
15525359 ATAACTTACATAA
1 ATAACTTACATAA
15525372 CTCAAATTTA
Statistics
Matches: 109, Mismatches: 12, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
110 19 0.17
111 11 0.10
113 66 0.61
114 1 0.01
115 12 0.11
ACGTcount: A:0.46, C:0.19, G:0.03, T:0.33
Consensus pattern (112 bp):
ATAACTTACATAATACATAACCTACATGACTTGCATAATACACAACTTACATAAATTACATAATA
CATCTTTAAAAACTTACATATAACTACATAACTTACATAATAACATA
Found at i:15525459 original size:12 final size:12
Alignment explanation
Indices: 15525444--15525478 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
15525434 TAACCTACAT
15525444 AACTTACATAGA
1 AACTTACATAGA
*
15525456 AACTTATATAGA
1 AACTTACATAGA
*
15525468 AACTTGCATAG
1 AACTTACATAG
15525479 CTTACCACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (12 bp):
AACTTACATAGA
Found at i:15525539 original size:34 final size:33
Alignment explanation
Indices: 15525487--15525638 Score: 161
Period size: 34 Copynumber: 4.7 Consensus size: 33
15525477 AGCTTACCAC
*
15525487 ACTTAAA-AACTTAGATAATACATAGCCTACATA
1 ACTTAAATAACTTACATAATACATA-CCTACATA
* *
15525520 ACTTATATAACTTACATAATAC--ACC-AC-TT
1 ACTTAAATAACTTACATAATACATACCTACATA
* *
15525549 ACATAAATAACTTGCATAATACATAGCCTACATA
1 ACTTAAATAACTTACATAATACATA-CCTACATA
** * *
15525583 ACTTACTTAACTTACATAATACACCACTTACATA
1 ACTTAAATAACTTACATAATACA-TACCTACATA
15525617 ACTTAAATAACTTACATAATAC
1 ACTTAAATAACTTACATAATAC
15525639 TTAACTTTAA
Statistics
Matches: 97, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
29 20 0.21
30 2 0.02
31 3 0.03
32 3 0.03
33 8 0.08
34 60 0.62
35 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.03, T:0.30
Consensus pattern (33 bp):
ACTTAAATAACTTACATAATACATACCTACATA
Found at i:15525550 original size:16 final size:16
Alignment explanation
Indices: 15525528--15525667 Score: 90
Period size: 16 Copynumber: 8.7 Consensus size: 16
15525518 TAACTTATAT
15525528 AACTTACATAATACAC
1 AACTTACATAATACAC
* *
15525544 CACTTACAT-A-A-AT
1 AACTTACATAATACAC
* *
15525557 AACTTGCATAATACAT
1 AACTTACATAATACAC
* * **
15525573 AGCCTACATAACTTACTT
1 AACTTACATAA--TACAC
15525591 AACTTACATAATACAC
1 AACTTACATAATACAC
* * *
15525607 CACTTACATAACTTAAAT
1 AACTTACATAA--TACAC
**
15525625 AACTTACATAATACTT
1 AACTTACATAATACAC
15525641 AACTTTA-ATAATACAC
1 AAC-TTACATAATACAC
15525657 AACTTACATAA
1 AACTTACATAA
15525668 CTTAATTACA
Statistics
Matches: 95, Mismatches: 20, Indels: 18
0.71 0.15 0.14
Matches are distributed among these distances:
13 8 0.08
14 2 0.02
15 5 0.05
16 51 0.54
17 3 0.03
18 26 0.27
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (16 bp):
AACTTACATAATACAC
Found at i:15525605 original size:25 final size:24
Alignment explanation
Indices: 15525577--15525673 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 24
15525567 ATACATAGCC
* *
15525577 TACATAACTTACTTAACTTACATAA
1 TACACAACTTACATAACTTA-ATAA
*
15525602 TACACCACTTACATAACTTAAATAA
1 TACACAACTTACATAACTT-AATAA
* *
15525627 CTTACATAA--TACTTAACTTTAATAA
1 --TACACAACTTACATAAC-TTAATAA
15525652 TACACAACTTACATAACTTAAT
1 TACACAACTTACATAACTTAAT
15525674 TACATTATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
23 6 0.10
24 5 0.09
25 39 0.67
26 3 0.05
27 5 0.09
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (24 bp):
TACACAACTTACATAACTTAATAA
Found at i:15527437 original size:21 final size:21
Alignment explanation
Indices: 15527412--15527461 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
15527402 CTGCAGCTTA
*
15527412 AAGCAGATACGGCAGCGAGAG
1 AAGCAGAGACGGCAGCGAGAG
* * *
15527433 AAGCAGAGGCTGCAGCGAGGG
1 AAGCAGAGACGGCAGCGAGAG
15527454 AAGCAGAG
1 AAGCAGAG
15527462 CAGCGTAGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.18, G:0.42, T:0.04
Consensus pattern (21 bp):
AAGCAGAGACGGCAGCGAGAG
Found at i:15530213 original size:37 final size:37
Alignment explanation
Indices: 15530163--15530289 Score: 146
Period size: 37 Copynumber: 3.2 Consensus size: 37
15530153 GGCCCTTCTG
*
15530163 GTGTAGCAGCTTATCACTTTGTCACTTGATCAGATAA
1 GTGTAGCCGCTTATCACTTTGTCACTTGATCAGATAA
15530200 GTGTAGCCGCTTATCACTTTGTCACTTGATCAGATAA
1 GTGTAGCCGCTTATCACTTTGTCACTTGATCAGATAA
*
15530237 GTGAAGCTAAAGCTACCACTTATCACTTTGTCACTTGATCAGATAA
1 GT---G-T--AG---CCGCTTATCACTTTGTCACTTGATCAGATAA
*
15530283 TTGTAGC
1 GTGTAGC
15530290 TAAAGCTACC
Statistics
Matches: 78, Mismatches: 3, Indels: 18
0.79 0.03 0.18
Matches are distributed among these distances:
37 39 0.50
40 3 0.04
41 1 0.01
42 1 0.01
43 3 0.04
46 31 0.40
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (37 bp):
GTGTAGCCGCTTATCACTTTGTCACTTGATCAGATAA
Found at i:15530261 original size:46 final size:46
Alignment explanation
Indices: 15530209--15530324 Score: 189
Period size: 46 Copynumber: 2.5 Consensus size: 46
15530199 AGTGTAGCCG
15530209 CTTATCACTTTGTCACTTGATCAGATAAGTGAAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGAAGCTAAAGCTACCA
* *
15530255 CTTATCACTTTGTCACTTGATCAGATAATTGTAGCTAAAGCTACCA
1 CTTATCACTTTGTCACTTGATCAGATAAGTGAAGCTAAAGCTACCA
* *
15530301 CTTTTCACTTTTTCAC-TGATCAGA
1 CTTATCACTTTGTCACTTGATCAGA
15530325 AGTACTCAAA
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
45 8 0.12
46 58 0.88
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.35
Consensus pattern (46 bp):
CTTATCACTTTGTCACTTGATCAGATAAGTGAAGCTAAAGCTACCA
Found at i:15533190 original size:19 final size:19
Alignment explanation
Indices: 15533174--15533212 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
15533164 TTTTTAAATA
15533174 ATATTGATAAATTTAAAAC
1 ATATTGATAAATTTAAAAC
15533193 ATATTGATAACAATTTAAAA
1 ATATTGAT-A-AATTTAAAA
15533213 AATGTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 1 0.06
21 9 0.50
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (19 bp):
ATATTGATAAATTTAAAAC
Found at i:15533220 original size:23 final size:19
Alignment explanation
Indices: 15533166--15533215 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
15533156 TATATGTATT
*
15533166 TTTAAATAATATTGATAAA
1 TTTAAAAAATATTGATAAA
*
15533185 TTTAAAACATATTGATAACAA
1 TTTAAAAAATATTGAT-A-AA
15533206 TTTAAAAAAT
1 TTTAAAAAAT
15533216 GTATTATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 14 0.54
20 1 0.04
21 11 0.42
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (19 bp):
TTTAAAAAATATTGATAAA
Found at i:15534789 original size:46 final size:46
Alignment explanation
Indices: 15534680--15535101 Score: 498
Period size: 46 Copynumber: 9.7 Consensus size: 46
15534670 TACATATGAT
*
15534680 CACTTATCACTTGTC-C-C-TGATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTT-TCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
15534723 TACTTATCACTTTGTCACTTGATCAGATAAGGGTAGCTAAGGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
15534769 CACTTATCACTTTCTCACTTGATCAGATAAGAGTAGCTAAGGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
15534815 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAA
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
15534861 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T-A-G----
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
15534897 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
15534943 CACTTATCACTTTGTCTCTTGATTAGATAA--GT-G-T-A-G----
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* *
15534979 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
* * *
15535025 CACTTATCATTTTCTCACTTGATTAGATAAGTGTAGCTAATGCTAC
1 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
*
15535071 CACTTATCACTTTATCACTTGATC-GATAAGT
1 CACTTATCACTTTCTCACTTGATCAGATAAGT
15535102 ACTCAAATCC
Statistics
Matches: 332, Mismatches: 23, Indels: 46
0.83 0.06 0.11
Matches are distributed among these distances:
36 56 0.17
38 5 0.02
39 1 0.00
40 4 0.01
41 4 0.01
42 5 0.02
43 13 0.04
44 6 0.02
45 25 0.08
46 213 0.64
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
Found at i:15534902 original size:36 final size:36
Alignment explanation
Indices: 15534861--15535015 Score: 166
Period size: 36 Copynumber: 4.0 Consensus size: 36
15534851 CTAAGGCTAA
15534861 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
*
15534897 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--T--AG
* * *
15534939 CTACCACTTATCACTTTGTCTCTTGATTAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
* *
15534979 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
15535015 C
1 C
15535016 TAATGCTACC
Statistics
Matches: 101, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
36 63 0.62
38 3 0.03
40 3 0.03
42 3 0.03
44 2 0.02
46 27 0.27
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
Found at i:15534909 original size:82 final size:82
Alignment explanation
Indices: 15534815--15535061 Score: 413
Period size: 82 Copynumber: 3.0 Consensus size: 82
15534805 CTAAGGCTAC
* * *
15534815 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
* *
15534880 TGATCAGATAAGTATAG
66 TGATTAGATAAGTGTAG
*
15534897 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
15534962 TGATTAGATAAGTGTAG
66 TGATTAGATAAGTGTAG
* * *
15534979 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATGCTACCACTTATCATTTTCTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
15535044 TGATTAGATAAGTGTAG
66 TGATTAGATAAGTGTAG
15535061 C
1 C
15535062 TAATGCTACC
Statistics
Matches: 155, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 155 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
TGATTAGATAAGTGTAG
Found at i:15534909 original size:128 final size:125
Alignment explanation
Indices: 15534768--15535101 Score: 396
Period size: 128 Copynumber: 2.6 Consensus size: 125
15534758 GCTAAGGCTA
* * *
15534768 CCACTTATCACTTTCTCACTTGATCAGATAAGAGTAGCTAAGGCTACCACTTATCACTTTCTCAC
1 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
15534833 TTGATCAGATAAGTGTAGCTAAGGCTAACACTTATCACTTTGTCACTTGATCAGATAA-GTA-T-
66 TTGATCAGATAAGTGT-G-T-A-G----CACTTATCACTTTGTCACTTGATCAGATAAGGTACTA
15534895 A-G
123 ATG
* * *
15534897 -CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTC
1 CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
* *
15534961 TTGATTAGATAA--GTGTAGCACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAATG
66 TTGATCAGATAAGTGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAG-GTA-CTAATG
* * *
15535021 CTACCACTTATCATTTTCTCACTTGATTAGATAAGTGTAGCTAATGCTACCACTTATCACTTTAT
1 ---CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTAT
15535086 CACTTGATC-GATAAGT
63 CACTTGATCAGATAAGT
15535102 ACTCAAATCC
Statistics
Matches: 179, Mismatches: 14, Indels: 24
0.82 0.06 0.11
Matches are distributed among these distances:
118 29 0.16
120 3 0.02
122 2 0.01
123 2 0.01
124 2 0.01
125 1 0.01
126 2 0.01
127 5 0.03
128 133 0.74
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (125 bp):
CCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
TTGATCAGATAAGTGTGTAGCACTTATCACTTTGTCACTTGATCAGATAAGGTACTAATG
Found at i:15536842 original size:10 final size:10
Alignment explanation
Indices: 15536838--15536862 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15536828 TAAAAAAATT
15536838 AAAAATTAAA
1 AAAAATTAAA
15536848 AAAAATTAAA
1 AAAAATTAAA
15536858 AAAAA
1 AAAAA
15536863 CAAAATGGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (10 bp):
AAAAATTAAA
Found at i:15537262 original size:5 final size:5
Alignment explanation
Indices: 15537249--15537286 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
15537239 AATCGAATGG
* *
15537249 AAAAA AAAAT AAAAT -AAAG AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
15537287 AATTTCTGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:15537273 original size:14 final size:14
Alignment explanation
Indices: 15537254--15537280 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15537244 AATGGAAAAA
15537254 AAAATAAAATAAAG
1 AAAATAAAATAAAG
15537268 AAAATAAAATAAA
1 AAAATAAAATAAA
15537281 ATAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (14 bp):
AAAATAAAATAAAG
Found at i:15537276 original size:19 final size:19
Alignment explanation
Indices: 15537248--15537285 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15537238 AAATCGAATG
15537248 GAAAAAAAAATAAAATAAA
1 GAAAAAAAAATAAAATAAA
*
15537267 GAAAATAAAATAAAATAAA
1 GAAAAAAAAATAAAATAAA
15537286 AAATTTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (19 bp):
GAAAAAAAAATAAAATAAA
Found at i:15537872 original size:44 final size:44
Alignment explanation
Indices: 15537791--15537878 Score: 122
Period size: 44 Copynumber: 2.0 Consensus size: 44
15537781 TTAGGGTTTT
* * *
15537791 TCTGCTTAACTTTGTAGTGTTGGGCCAGGAGCCGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
* * *
15537835 TCTGTTTAACTTTGTAATGTTGGACTAGGAACTGTTTTGGGCCG
1 TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
15537879 ATTGGGCCTT
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.15, C:0.17, G:0.31, T:0.38
Consensus pattern (44 bp):
TCTGCTTAACTTTGTAATGTTGGACCAGGAACCGTTTTGGGCCG
Found at i:15543159 original size:35 final size:35
Alignment explanation
Indices: 15543119--15543186 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
15543109 TTTCAAAATT
* * *
15543119 TTTTTAGTTAATGTTTTTAATTAATAATTTTTTTA
1 TTTTTAATTAATCTTTTTAATTAATAAATTTTTTA
*
15543154 TTTTTAATTCATCTTTTTAATTAATAAATTTTT
1 TTTTTAATTAATCTTTTTAATTAATAAATTTTT
15543187 ATTAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (35 bp):
TTTTTAATTAATCTTTTTAATTAATAAATTTTTTA
Found at i:15543192 original size:31 final size:31
Alignment explanation
Indices: 15543114--15543195 Score: 85
Period size: 35 Copynumber: 2.5 Consensus size: 31
15543104 TATTGTTTCA
* *
15543114 AAATTTTT-TTAGTTAATGTTTTTAATTAAT
1 AAATTTTTATTAATTAATCTTTTTAATTAAT
* *
15543144 AATTTTTTTATTTTTAATTCATCTTTTTAATTAAT
1 AA-ATTTTTA---TTAATTAATCTTTTTAATTAAT
15543179 AAATTTTTATTAATTAA
1 AAATTTTTATTAATTAA
15543196 AAAGATGAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
30 2 0.05
31 12 0.29
34 6 0.15
35 21 0.51
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (31 bp):
AAATTTTTATTAATTAATCTTTTTAATTAAT
Found at i:15543193 original size:18 final size:18
Alignment explanation
Indices: 15543135--15543195 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
15543125 GTTAATGTTT
*
15543135 TTAATTAATAATTTTTTTA
1 TTAATTAATAA-ATTTTTA
* ** *
15543154 TT-TTTAATTCATCTTT-
1 TTAATTAATAAATTTTTA
15543170 TTAATTAATAAATTTTTA
1 TTAATTAATAAATTTTTA
15543188 TTAATTAA
1 TTAATTAA
15543196 AAAGATGAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 5
0.69 0.20 0.11
Matches are distributed among these distances:
16 2 0.06
17 14 0.45
18 13 0.42
19 2 0.06
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (18 bp):
TTAATTAATAAATTTTTA
Found at i:15545552 original size:29 final size:29
Alignment explanation
Indices: 15545481--15545552 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 29
15545471 TAGAGGGATT
*
15545481 TAATAAAATTTTTAAAAAATTTAAGAGTT
1 TAATAAAATTTTTAAAAAATTTAAGAGTC
** * *
15545510 TAATAAGGTCTTTTTAAAAA-TTGAGAGTC
1 TAATAAAAT-TTTTAAAAAATTTAAGAGTC
15545539 TAATTAAAATTTTT
1 TAA-TAAAATTTTT
15545553 GTGAGATGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
29 21 0.62
30 13 0.38
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (29 bp):
TAATAAAATTTTTAAAAAATTTAAGAGTC
Found at i:15551110 original size:15 final size:15
Alignment explanation
Indices: 15551092--15551126 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
15551082 AGAAAACAAG
15551092 GAAGAAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
15551107 GAAGCAGAGAAGAAA
1 GAAGAAGAGAAGAAA
*
15551122 CAAGA
1 GAAGA
15551127 TGCAGGAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.63, C:0.06, G:0.31, T:0.00
Consensus pattern (15 bp):
GAAGAAGAGAAGAAA
Found at i:15551144 original size:18 final size:17
Alignment explanation
Indices: 15551097--15551146 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
15551087 ACAAGGAAGA
15551097 AGAGAAGAAAGAAGCAG
1 AGAGAAGAAAGAAGCAG
*
15551114 AGAAGAA-ACAAGATGCAGG
1 AG-AGAAGA-AAGAAGCA-G
15551133 AGAGAAGAAAGAAG
1 AGAGAAGAAAGAAG
15551147 AAGATCAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
17 3 0.11
18 20 0.74
19 4 0.15
ACGTcount: A:0.58, C:0.06, G:0.34, T:0.02
Consensus pattern (17 bp):
AGAGAAGAAAGAAGCAG
Found at i:15551780 original size:69 final size:69
Alignment explanation
Indices: 15551669--15551878 Score: 402
Period size: 69 Copynumber: 3.0 Consensus size: 69
15551659 GAGAAAGGTG
*
15551669 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTGCATTTA
1 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTACATTTA
15551734 CTTT
66 CTTT
15551738 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTACATTTA
1 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTACATTTA
15551803 CTTT
66 CTTT
*
15551807 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGCAATTTTACATTTA
1 TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTACATTTA
15551872 CTTT
66 CTTT
15551876 TAA
1 TAA
15551879 CAAATAACTA
Statistics
Matches: 139, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 139 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (69 bp):
TAATGTCCACGACCATGAGAGAGGTGCAGGAAAATTAAGAAGTGACCATTGTAATTTTACATTTA
CTTT
Found at i:15552311 original size:18 final size:18
Alignment explanation
Indices: 15552288--15552324 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
15552278 ATGCTGGAAA
15552288 AATGAGGCTAATTAAGAC
1 AATGAGGCTAATTAAGAC
*
15552306 AATGAGGCTAGTTAAGAC
1 AATGAGGCTAATTAAGAC
15552324 A
1 A
15552325 TGATCGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (18 bp):
AATGAGGCTAATTAAGAC
Found at i:15555086 original size:16 final size:18
Alignment explanation
Indices: 15555056--15555089 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
15555046 TGCATATTTG
15555056 TTTTATATTTAAATAATT
1 TTTTATATTTAAATAATT
15555074 TTTTA-ATTT-AATAATT
1 TTTTATATTTAAATAATT
15555090 CTAAATGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTATATTTAAATAATT
Found at i:15556075 original size:15 final size:16
Alignment explanation
Indices: 15556052--15556085 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15556042 CAACGAATTT
15556052 AATAAAAT-AATTTTA
1 AATAAAATAAATTTTA
*
15556067 AATATAATAAATTTTA
1 AATAAAATAAATTTTA
15556083 AAT
1 AAT
15556086 TTTAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
AATAAAATAAATTTTA
Found at i:15559804 original size:10 final size:10
Alignment explanation
Indices: 15559789--15559813 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15559779 AAGCAAGGAA
15559789 AGAAAGTAAC
1 AGAAAGTAAC
15559799 AGAAAGTAAC
1 AGAAAGTAAC
15559809 AGAAA
1 AGAAA
15559814 AATAACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAGTAAC
Found at i:15564131 original size:10 final size:10
Alignment explanation
Indices: 15564116--15564140 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15564106 AAGCAAGGAA
15564116 AGAAAGTAAC
1 AGAAAGTAAC
15564126 AGAAAGTAAC
1 AGAAAGTAAC
15564136 AGAAA
1 AGAAA
15564141 AATAACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAGTAAC
Found at i:15582081 original size:19 final size:19
Alignment explanation
Indices: 15582059--15582096 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
15582049 ACAGAATACT
*
15582059 AACTAACTACCTCAACTGC
1 AACTAACTACCACAACTGC
*
15582078 AACTAACTATCACAACTGC
1 AACTAACTACCACAACTGC
15582097 TTGCATTCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.34, G:0.05, T:0.21
Consensus pattern (19 bp):
AACTAACTACCACAACTGC
Found at i:15583639 original size:6 final size:6
Alignment explanation
Indices: 15583628--15583655 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15583618 TTAACGGAAC
15583628 AAGTTG AAGTTG AAGTTG AAGTTG AAGT
1 AAGTTG AAGTTG AAGTTG AAGTTG AAGT
15583656 CTAAGCCCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (6 bp):
AAGTTG
Found at i:15594584 original size:5 final size:5
Alignment explanation
Indices: 15594574--15594625 Score: 95
Period size: 5 Copynumber: 10.4 Consensus size: 5
15594564 GACCTTTCAC
*
15594574 TAGTA TAGTA TAGTA TGGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
1 TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA TAGTA
15594624 TA
1 TA
15594626 TGACAACTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 45 1.00
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.40
Consensus pattern (5 bp):
TAGTA
Found at i:15597079 original size:18 final size:19
Alignment explanation
Indices: 15597042--15597080 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
15597032 TTATAGTTCA
* *
15597042 TATATATCAAATTTATATT
1 TATATATCAAATTCAAATT
15597061 TATAT-TCAAATTCAAATT
1 TATATATCAAATTCAAATT
15597079 TA
1 TA
15597081 ACTGAAGTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.49
Consensus pattern (19 bp):
TATATATCAAATTCAAATT
Found at i:15598396 original size:40 final size:39
Alignment explanation
Indices: 15598326--15598460 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 39
15598316 ACCAGTTTGG
* * *
15598326 CACCTAGTGCCTCATCGGATAATTCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGATAATCCAAAGT-ATAAATTGA
* * * * *
15598366 CACCTAGTGTCTCATCGGCTAAACCAAAG--TAAATTGG
1 CACCCAGTGCCTCATCGGATAATCCAAAGTATAAATTGA
* * *
15598403 CACCCAGTACCTCATCGAATTAATCCAAACTAGTAAATTGA
1 CACCCAGTGCCTCATCGGA-TAATCCAAAGTA-TAAATTGA
*
15598444 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
15598461 ACTCGAAGTC
Statistics
Matches: 75, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
37 21 0.28
38 8 0.11
40 24 0.32
41 22 0.29
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAATCCAAAGTATAAATTGA
Done.