Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 41 of 425
Found at i:10719307 original size:22 final size:22
Alignment explanation
Indices: 10719279--10719323 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10719269 AAGATAAATA
10719279 AGGATAAATAAAGATAAAAGCT
1 AGGATAAATAAAGATAAAAGCT
10719301 AGGATAAATAAAGATAAAAGCT
1 AGGATAAATAAAGATAAAAGCT
10719323 A
1 A
10719324 AAATTAAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.60, C:0.04, G:0.18, T:0.18
Consensus pattern (22 bp):
AGGATAAATAAAGATAAAAGCT
Found at i:10729605 original size:11 final size:11
Alignment explanation
Indices: 10729589--10729620 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
10729579 ACAATTAATG
10729589 AATTCACAATC
1 AATTCACAATC
10729600 AATTCACAATC
1 AATTCACAATC
10729611 AATTCACAAT
1 AATTCACAAT
10729621 AGACATACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTCACAATC
Found at i:10732383 original size:25 final size:25
Alignment explanation
Indices: 10732355--10732408 Score: 101
Period size: 25 Copynumber: 2.2 Consensus size: 25
10732345 TATTTGAATA
10732355 CTATGTCGAATTGGTATAAAATGTG
1 CTATGTCGAATTGGTATAAAATGTG
10732380 CTATGTCGAATTGGTATAAAATGTG
1 CTATGTCGAATTGGTATAAAATGTG
10732405 -TATG
1 CTATG
10732409 AAATGTTGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (25 bp):
CTATGTCGAATTGGTATAAAATGTG
Found at i:10738417 original size:24 final size:24
Alignment explanation
Indices: 10738387--10738527 Score: 126
Period size: 24 Copynumber: 5.9 Consensus size: 24
10738377 GAAATAACTT
10738387 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
10738411 TGACACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
*
10738435 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * * *
10738459 TGTCAATACGTGTGTGGATTACT-AA
1 TGGCACTATGTGTGCGGATT--TGAA
* *
10738484 -GGCACTATGTGTGCGG-GTTAACA
1 TGGCACTATGTGTGCGGATTTGA-A
* *
10738507 TGGCACTATGGGTGCGAATTT
1 TGGCACTATGTGTGCGGATTT
10738528 CCTTGCTTGA
Statistics
Matches: 93, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
21 1 0.01
22 1 0.01
23 2 0.02
24 84 0.90
25 4 0.04
26 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:10738458 original size:48 final size:48
Alignment explanation
Indices: 10738387--10738499 Score: 145
Period size: 48 Copynumber: 2.4 Consensus size: 48
10738377 GAAATAACTT
* * **
10738387 TGGCACTATGTGTGCGGATTTGAATGACACTATGTGTGCAGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAATGACAATACGTGTGCAGATTACTA
* * **
10738435 TGGCACTATGTGTGTGGATTTGAATGTCAATACGTGTGTGGATTACTA
1 TGGCACTATGTGTGCGGATTTGAATGACAATACGTGTGCAGATTACTA
*
10738483 AGGCACTATGTGTGCGG
1 TGGCACTATGTGTGCGG
10738500 GTTAACATGG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 55 1.00
ACGTcount: A:0.22, C:0.12, G:0.31, T:0.35
Consensus pattern (48 bp):
TGGCACTATGTGTGCGGATTTGAATGACAATACGTGTGCAGATTACTA
Found at i:10742254 original size:6 final size:6
Alignment explanation
Indices: 10742208--10742253 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
10742198 TCCTCCTATC
* *
10742208 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTG TTTTAA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
10742254 ATTATTTTCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:10745204 original size:13 final size:13
Alignment explanation
Indices: 10745186--10745214 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10745176 TTTAGTTGAA
10745186 TTAGTTAATTAGT
1 TTAGTTAATTAGT
10745199 TTAGTTAATTAGT
1 TTAGTTAATTAGT
10745212 TTA
1 TTA
10745215 ATAAACAACC
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:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:10747825 original size:54 final size:52
Alignment explanation
Indices: 10747653--10747856 Score: 212
Period size: 53 Copynumber: 3.8 Consensus size: 52
10747643 ATCATACCGG
* * * * *
10747653 TGCCATATCCCGGATATGGTCTTACACGGAAGCACTTATCACTTTTCTCCGA
1 TGCCATAGCCCAGCTATGGTCTTACACGGAATCACTTATCACTTTTATCCGA
* * * * * *
10747705 TGCCATAGCCCAGCTGTGATCTTATACAG-ATCGCTTGTATCACTTTAATCCGA
1 TGCCATAGCCCAGCTATGGTCTTACACGGAATCAC-T-TATCACTTTTATCCGA
* * *
10747758 AGCCATAACCCAGCTATGGTCTTACACGGGAATCACTTATCACTTGTTTTCCGA
1 TGCCATAGCCCAGCTATGGTCTTACAC-GGAATCACTTATCACTT-TTATCCGA
* *
10747812 TGCCATAGCCCAGCTATGGTCTTATACGGATATCGCTTATCACTT
1 TGCCATAGCCCAGCTATGGTCTTACACGGA-ATCACTTATCACTT
10747857 ATTGCCATGG
Statistics
Matches: 122, Mismatches: 24, Indels: 10
0.78 0.15 0.06
Matches are distributed among these distances:
51 3 0.02
52 23 0.19
53 47 0.39
54 45 0.37
55 4 0.03
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.31
Consensus pattern (52 bp):
TGCCATAGCCCAGCTATGGTCTTACACGGAATCACTTATCACTTTTATCCGA
Found at i:10750818 original size:66 final size:66
Alignment explanation
Indices: 10750700--10750825 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
10750690 TATGTTGCTA
* * *
10750700 GAGTTCATCATATTTTCTTGTTGCCTCTACTTCCCTCGCTGCTACCTCTGCTTTAGGTTGTAGTT
1 GAGTTCATCATATTTTCTTGTAGCCTCTACTTCCCTCGATGCTACCTCTGCTTTAAGTTGTAGTT
10750765 G
66 G
* * * * *
10750766 GAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTCTTGATGTTGCCTTTGCTTTAAGTTG
1 GAGTTCATCATATTTTCTTGT-AGCCTCTACTTCCCTCGATGCTACCTCTGCTTTAAGTTG
10750826 AGTAATTTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 50 0.98
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (66 bp):
GAGTTCATCATATTTTCTTGTAGCCTCTACTTCCCTCGATGCTACCTCTGCTTTAAGTTGTAGTT
G
Found at i:10760129 original size:64 final size:64
Alignment explanation
Indices: 10759974--10760231 Score: 211
Period size: 67 Copynumber: 3.9 Consensus size: 64
10759964 TGGATGATAC
* ** * * * *
10759974 AGATAGTATGTAGCTAGGTCACATGTATGGTGCT-GGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC
10760037 AAG
64 --G
* *
10760040 ACATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
10760105 G
64 G
* * * * * *
10760106 GGATATATGTAGCTAGGTTGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
10760171 CG
63 CG
* * * *
10760173 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
10760232 CAAACTATAT
Statistics
Matches: 156, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 26 0.17
65 2 0.01
66 25 0.16
67 58 0.37
68 24 0.15
69 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:10763356 original size:13 final size:13
Alignment explanation
Indices: 10763338--10763364 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10763328 GAAGTAATCA
10763338 CACACGGGCGTGT
1 CACACGGGCGTGT
10763351 CACACGGGCGTGT
1 CACACGGGCGTGT
10763364 C
1 C
10763365 CCTGTATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:10770476 original size:16 final size:17
Alignment explanation
Indices: 10770455--10770493 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
10770445 CTTTTATTAA
10770455 GTTTTTAAGACTCATTT
1 GTTTTTAAGACTCATTT
*
10770472 GTTTTTAAGATTCATTT
1 GTTTTTAAGACTCATTT
10770489 GTTTT
1 GTTTT
10770494 CCTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.21, C:0.08, G:0.13, T:0.59
Consensus pattern (17 bp):
GTTTTTAAGACTCATTT
Found at i:10776243 original size:25 final size:27
Alignment explanation
Indices: 10776206--10776258 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
10776196 TCAAACATGC
10776206 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
10776232 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
10776258 A
1 A
10776259 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:10777769 original size:26 final size:26
Alignment explanation
Indices: 10777738--10777845 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
10777728 TGAAATGCCC
*
10777738 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
10777764 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10777790 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
10777816 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10777842 ATCA
1 ATCA
10777846 ATTTGTACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10785698 original size:26 final size:26
Alignment explanation
Indices: 10785667--10785774 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
10785657 TGAAATGCCC
*
10785667 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
10785693 ATCATGGAACATCTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10785719 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
10785745 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10785771 ATCA
1 ATCA
10785775 ATTTATACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10787235 original size:19 final size:18
Alignment explanation
Indices: 10787196--10787247 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
10787186 CTAGGACTAC
*
10787196 TTTTTATTTTTCTTTAATT
1 TTTTTATTTTT-ATTAATT
10787215 TTTTTATTTTTATTAAGTT
1 TTTTTATTTTTATTAA-TT
* *
10787234 TTATAATTTTTATT
1 TTTTTATTTTTATT
10787248 TAACAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 4 0.14
19 25 0.86
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTTATTTTTATTAATT
Found at i:10790882 original size:53 final size:54
Alignment explanation
Indices: 10790772--10790974 Score: 175
Period size: 54 Copynumber: 3.8 Consensus size: 54
10790762 TCATACCGGT
* * * * ** * *
10790772 GCCATATCCCAGATATGGTCTTACAC-AGAAGCACTTATCACTT-TTCTCTGAT
1 GCCATAGCCCAGCTATGGTCTTATACGAGAATCACTTATCACTTGTAATCCGAA
* * *
10790824 GCCATAGCCCAGCTGTGATCTTATAC-AG-ATCGCTTGTATCACTT-TAATCCGAA
1 GCCATAGCCCAGCTATGGTCTTATACGAGAATCAC-T-TATCACTTGTAATCCGAA
* * * ** *
10790877 GCCATAACCCAGCTATGGTCTTACACGGGAATCACTTATCACTTGTTTTCCGAT
1 GCCATAGCCCAGCTATGGTCTTATACGAGAATCACTTATCACTTGTAATCCGAA
*
10790931 GCCATAGCCCAGCTATGGTCTTATACG-GATATCGCTTATCACTT
1 GCCATAGCCCAGCTATGGTCTTATACGAGA-ATCACTTATCACTT
10790975 ATTGCCATGG
Statistics
Matches: 122, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
51 3 0.02
52 24 0.20
53 45 0.37
54 46 0.38
55 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (54 bp):
GCCATAGCCCAGCTATGGTCTTATACGAGAATCACTTATCACTTGTAATCCGAA
Found at i:10790943 original size:54 final size:52
Alignment explanation
Indices: 10790771--10790974 Score: 203
Period size: 53 Copynumber: 3.8 Consensus size: 52
10790761 TTCATACCGG
* * * * *
10790771 TGCCATATCCCAGATATGGTCTTACACAGAAGCACTTATCACTTTTCTCTGA
1 TGCCATAGCCCAGCTATGGTCTTACACAGAATCACTTATCACTTTTATCCGA
* * * * *
10790823 TGCCATAGCCCAGCTGTGATCTTATACAG-ATCGCTTGTATCACTTTAATCCGA
1 TGCCATAGCCCAGCTATGGTCTTACACAGAATCAC-T-TATCACTTTTATCCGA
* * * *
10790876 AGCCATAACCCAGCTATGGTCTTACACGGGAATCACTTATCACTTGTTTTCCGA
1 TGCCATAGCCCAGCTATGGTCTTACAC-AGAATCACTTATCACTT-TTATCCGA
* * *
10790930 TGCCATAGCCCAGCTATGGTCTTATACGGATATCGCTTATCACTT
1 TGCCATAGCCCAGCTATGGTCTTACACAGA-ATCACTTATCACTT
10790975 ATTGCCATGG
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
51 3 0.02
52 25 0.20
53 46 0.37
54 45 0.37
55 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (52 bp):
TGCCATAGCCCAGCTATGGTCTTACACAGAATCACTTATCACTTTTATCCGA
Found at i:10792785 original size:17 final size:15
Alignment explanation
Indices: 10792757--10792791 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
10792747 TGATTGAGAT
10792757 TGAATGATGATTGCA
1 TGAATGATGATTGCA
10792772 TGAATTGATCGATTGCA
1 TGAA-TGAT-GATTGCA
10792789 TGA
1 TGA
10792792 GAAAAGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 4 0.22
17 10 0.56
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (15 bp):
TGAATGATGATTGCA
Found at i:10793937 original size:66 final size:66
Alignment explanation
Indices: 10793819--10793944 Score: 164
Period size: 66 Copynumber: 1.9 Consensus size: 66
10793809 TATGTAGCTA
* * *
10793819 GAGTTCATCATATTTTCTTGTTGCCTCTACTTCCCTCGCTGCTACCTCTGCTTTAGGTTGTAGTT
1 GAGTTCATCATATTTTCTTGTAGCCTCTACTTCCCTCGATGCTACCTCTGCTTTAAGTTGTAGTT
10793884 G
66 G
* * * * *
10793885 GAGTTCATCATATTTTCTT-TGAGCCTCTACTTCTCTTGATGTTGCCTTTGCTTTAAGTTG
1 GAGTTCATCATATTTTCTTGT-AGCCTCTACTTCCCTCGATGCTACCTCTGCTTTAAGTTG
10793945 AGTAATTTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
65 1 0.02
66 50 0.98
ACGTcount: A:0.13, C:0.23, G:0.17, T:0.46
Consensus pattern (66 bp):
GAGTTCATCATATTTTCTTGTAGCCTCTACTTCCCTCGATGCTACCTCTGCTTTAAGTTGTAGTT
G
Found at i:10803216 original size:68 final size:66
Alignment explanation
Indices: 10803144--10803329 Score: 171
Period size: 67 Copynumber: 2.8 Consensus size: 66
10803134 CATCATGTGT
* * *
10803144 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TA-TATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCA
10803207 TGTAG
62 TGTAG
** * * *
10803212 ACAAGAGAGCTACGGGATATATGTAGCTAGGTTGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTA-GTGAAGGACACCATGT
10803277 AG
65 AG
* * * * * *
10803279 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACT-AGTG
10803330 TTCACCATGT
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
64 25 0.25
65 2 0.02
66 26 0.26
67 33 0.33
68 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCATGTA
G
Found at i:10803249 original size:64 final size:64
Alignment explanation
Indices: 10803093--10803351 Score: 211
Period size: 68 Copynumber: 3.9 Consensus size: 64
10803083 TGGATGATAC
* ** * ** * *
10803093 AGATAGTATGTAGCTAGGTCACATGTATGGTGCTGGGTGCACATCATGT-GTACAAGAGAGCTAC
1 AGATA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGCTAC
10803157 AAG
64 --G
* *
10803160 ACATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTAC
1 AGA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTAC
10803225 G
64 G
* * * * * *
10803226 GGATATATGTAGCTAGGTTGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTA
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTA
10803291 CG
63 CG
* * * *
10803293 AGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 AGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
10803352 CAAACTATAT
Statistics
Matches: 156, Mismatches: 29, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.12
64 26 0.17
65 2 0.01
66 23 0.15
67 35 0.22
68 49 0.31
69 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.30, T:0.25
Consensus pattern (64 bp):
AGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACG
Found at i:10807454 original size:40 final size:40
Alignment explanation
Indices: 10807388--10807554 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
10807378 AAATTGAATG
* * * *
10807388 ATATCC-GGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
10807427 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
10807467 ATATCCGGGTTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
10807507 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
10807547 ATATCCGG
1 ATATCCGG
10807555 TTATATTCCG
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 9 0.09
40 93 0.89
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:10809699 original size:13 final size:13
Alignment explanation
Indices: 10809681--10809707 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
10809671 GAACTAATCA
10809681 CACACGGGCGTGT
1 CACACGGGCGTGT
10809694 CACACGGGCGTGT
1 CACACGGGCGTGT
10809707 C
1 C
10809708 CCTGCATTGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:10816809 original size:17 final size:17
Alignment explanation
Indices: 10816789--10816827 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
10816779 CTTTTATTAA
10816789 GTTTTTAAGACTCATTT
1 GTTTTTAAGACTCATTT
*
10816806 GTTTTTAAGATTCATTT
1 GTTTTTAAGACTCATTT
10816823 -TTTTT
1 GTTTTT
10816828 CCTTTTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.21, C:0.08, G:0.10, T:0.62
Consensus pattern (17 bp):
GTTTTTAAGACTCATTT
Found at i:10832685 original size:14 final size:12
Alignment explanation
Indices: 10832655--10832680 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10832645 TCTAACCGAG
10832655 AACTAGCCAAAA
1 AACTAGCCAAAA
10832667 AACTAGCCAAAA
1 AACTAGCCAAAA
10832679 AA
1 AA
10832681 AACTATCTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.23, G:0.08, T:0.08
Consensus pattern (12 bp):
AACTAGCCAAAA
Found at i:10840724 original size:46 final size:46
Alignment explanation
Indices: 10840657--10840830 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
10840647 TGTAACCCGC
10840657 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
*
10840703 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G--T-GTTCGCAT
* * * ***
10840753 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
*
10840796 CCATAAGTGAACTCGGACTCAACTC-ACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
10840831 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 12 0.11
46 53 0.49
47 27 0.25
48 3 0.03
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
Found at i:10840777 original size:93 final size:92
Alignment explanation
Indices: 10840665--10840835 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 92
10840655 GCCCATAAGT
***
10840665 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTC-A
10840730 CGAGCTCGGATGCCTAGTTACATCTCAC
65 CGAGCTCGGATGCCTAGTTACATCTCAC
*
10840758 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
*
10840823 GAGTTCGGATGCC
66 GAGCTCGGATGCC
10840836 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 14 0.19
93 59 0.81
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAC
GAGCTCGGATGCCTAGTTACATCTCAC
Found at i:10843760 original size:55 final size:55
Alignment explanation
Indices: 10843653--10843772 Score: 132
Period size: 55 Copynumber: 2.2 Consensus size: 55
10843643 TATGTAGGTC
* * *
10843653 CACGCCCGTGGTAATTTAACAGATTTGACCACGGGTGCTAGACACGGGCGTGTCA
1 CACGCCCGTGGTAATTTAACAGATTTGACCACGGGTGCAAGACAAGGACGTGTCA
* * * * * * * * *
10843708 CATGCCCGTGTTAATTTGACAGTTTTGACTATGGGTTCAAGGCAAGGACGTGTCG
1 CACGCCCGTGGTAATTTAACAGATTTGACCACGGGTGCAAGACAAGGACGTGTCA
10843763 CACGCCCGTG
1 CACGCCCGTG
10843773 CTATTTTGGC
Statistics
Matches: 52, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (55 bp):
CACGCCCGTGGTAATTTAACAGATTTGACCACGGGTGCAAGACAAGGACGTGTCA
Found at i:10849808 original size:26 final size:26
Alignment explanation
Indices: 10849779--10849828 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10849769 TATATGTTTT
*
10849779 TATTTTTATTT-TACTTTTTTTTCACG
1 TATTTTT-TTTGTACTTTTTCTTCACG
*
10849805 TATTTTTTTTGTTCTTTTTCTTCA
1 TATTTTTTTTGTACTTTTTCTTCA
10849829 GTTTTCTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 18 0.86
ACGTcount: A:0.12, C:0.12, G:0.04, T:0.72
Consensus pattern (26 bp):
TATTTTTTTTGTACTTTTTCTTCACG
Found at i:10850505 original size:21 final size:21
Alignment explanation
Indices: 10850456--10850505 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
10850446 GCGTGTGCCC
*
10850456 CCTCCACACAGGCATGTGGGG
1 CCTCCACACAGGCATGTGAGG
* *
10850477 CTTTCACAC-GAGCATGTGAGG
1 CCTCCACACAG-GCATGTGAGG
10850498 CCTCCACA
1 CCTCCACA
10850506 TGGGCGTGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.22, C:0.34, G:0.26, T:0.18
Consensus pattern (21 bp):
CCTCCACACAGGCATGTGAGG
Found at i:10856131 original size:26 final size:26
Alignment explanation
Indices: 10856029--10856138 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
10856019 CATGAAATTC
10856029 TTATCATGAAACATTTACCTAACAC-A
1 TTATCATGAAACATTTACCTAAC-CTA
*
10856055 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCTA
*
10856081 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCTA
* *
10856107 TTATCATGGAACATTTACCTAACCTT
1 TTATCATGAAACATTTACCTAACCTA
10856133 TTATCA
1 TTATCA
10856139 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 1 0.01
26 79 0.99
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCTA
Found at i:10856595 original size:35 final size:35
Alignment explanation
Indices: 10856529--10856595 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
10856519 TTTTTTTATT
*
10856529 CTTTAAATGTTTATGTAAATTATGGTAATCATAAA
1 CTTTAAATGTTTATGTAAATTATGATAATCATAAA
* *
10856564 CTTTAAATGTTTATGTAAGTTATGATTATCAT
1 CTTTAAATGTTTATGTAAATTATGATAATCAT
10856596 TTTTAATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (35 bp):
CTTTAAATGTTTATGTAAATTATGATAATCATAAA
Found at i:10857676 original size:63 final size:64
Alignment explanation
Indices: 10857597--10857716 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 64
10857587 TAATCTTCTC
* * *
10857597 AAAACATATAACTTGAATAAACAATTTTACTTAATATCGAAACTCAATAAATTGAACCTTTTTA
1 AAAACACATAACTTGAATAAACAATTCTACTTAATATCAAAACTCAATAAATTGAACCTTTTTA
** *
10857661 AAAACACATAA-TTGAATAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAAC
1 AAAACACATAACTTGAATAAACAATTCTACTTAATATCAAAACTCAATAAATTGAAC
10857717 TAAATTAACT
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
63 40 0.80
64 10 0.20
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (64 bp):
AAAACACATAACTTGAATAAACAATTCTACTTAATATCAAAACTCAATAAATTGAACCTTTTTA
Found at i:10859512 original size:21 final size:21
Alignment explanation
Indices: 10859488--10859529 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10859478 CAGCGAGGCT
10859488 GCCAGATATTGTGACGAAGTC
1 GCCAGATATTGTGACGAAGTC
10859509 GCCAGATATTGTGACGAAGTC
1 GCCAGATATTGTGACGAAGTC
10859530 ACAGATACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (21 bp):
GCCAGATATTGTGACGAAGTC
Found at i:10859536 original size:20 final size:21
Alignment explanation
Indices: 10859490--10859536 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
10859480 GCGAGGCTGC
*
10859490 CAGATATTGTGACGAAGTCGC
1 CAGATATTGTGACGAAGTCGA
10859511 CAGATATTGTGACGAAGTC-A
1 CAGATATTGTGACGAAGTCGA
10859531 CAGATA
1 CAGATA
10859537 CAGATATTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (21 bp):
CAGATATTGTGACGAAGTCGA
Found at i:10859576 original size:27 final size:27
Alignment explanation
Indices: 10859531--10859668 Score: 183
Period size: 27 Copynumber: 5.1 Consensus size: 27
10859521 GACGAAGTCA
10859531 CAGATACAGATAT-TGTGGCAGAGCCAC
1 CAGA-ACAGATATATGTGGCAGAGCCAC
*
10859558 CAGAACAGATATATATGGCAGAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCAC
* *
10859585 CAGATCAGATA-ATCGTGGCATAGCCAC
1 CAGAACAGATATAT-GTGGCAGAGCCAC
10859612 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCAC
* *
10859639 CAGATCAGATA-ATTGTGGCATAGCCAC
1 CAGAACAGATATA-TGTGGCAGAGCCAC
10859666 CAG
1 CAG
10859669 GACGCTTCCT
Statistics
Matches: 99, Mismatches: 8, Indels: 8
0.86 0.07 0.07
Matches are distributed among these distances:
26 11 0.11
27 86 0.87
28 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
CAGAACAGATATATGTGGCAGAGCCAC
Found at i:10859603 original size:54 final size:54
Alignment explanation
Indices: 10859531--10859668 Score: 233
Period size: 54 Copynumber: 2.6 Consensus size: 54
10859521 GACGAAGTCA
*
10859531 CAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATATGGCAGAGCCAC
1 CAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGCCAC
* *
10859585 CAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGCCAC
1 CAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGCCAC
10859639 CAGATCAGATAATTGTGGCATAGCCACCAG
1 CAGATCAGATAATTGTGGCATAGCCACCAG
10859669 GACGCTTCCT
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
53 5 0.06
54 74 0.94
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATATGGCAGAGCCAC
Found at i:10861311 original size:26 final size:26
Alignment explanation
Indices: 10861280--10861387 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
10861270 TGAAATGCCC
*
10861280 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
10861306 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
10861332 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
10861358 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
10861384 ATCA
1 ATCA
10861388 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:10866678 original size:27 final size:27
Alignment explanation
Indices: 10866630--10866762 Score: 166
Period size: 27 Copynumber: 5.0 Consensus size: 27
10866620 GTCACTAGAT
10866630 ACAGATAT-TGTGGCAG-GACCACCAGA
1 ACAGATATATGTGGCAGAG-CCACCAGA
*
10866656 ACAGATATATGTAGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
10866683 TCAGATA-ATCGTGGCATAGCCACCAGA
1 ACAGATATAT-GTGGCAGAGCCACCAGA
10866710 ACAGATATATGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* *
10866737 TCAGATA-ATTGTGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
10866763 GACGCTTCCT
Statistics
Matches: 94, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
26 11 0.12
27 80 0.85
28 3 0.03
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.17
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:10866708 original size:54 final size:54
Alignment explanation
Indices: 10866648--10866762 Score: 212
Period size: 54 Copynumber: 2.1 Consensus size: 54
10866638 TGTGGCAGGA
10866648 CCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATAG
1 CCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATAG
* *
10866702 CCACCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAG
1 CCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATAG
10866756 CCACCAG
1 CCACCAG
10866763 GACGCTTCCT
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 59 1.00
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.17
Consensus pattern (54 bp):
CCACCAGAACAGATATATGTAGCAGAGCCACCAGATCAGATAATCGTGGCATAG
Found at i:10868412 original size:26 final size:26
Alignment explanation
Indices: 10868376--10868459 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
10868366 CATGAAATTC
*
10868376 TTATCATGAAACATTTACCTAACACA
1 TTATCATGAAACATTTACCTAACCCA
10868402 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
10868428 TTATCATGGAACATTTATCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
10868454 TTATCA
1 TTATCA
10868460 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:10870003 original size:15 final size:15
Alignment explanation
Indices: 10869983--10870014 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10869973 TGTAAAGCAC
*
10869983 ATATATTTTTCTAAA
1 ATATATTTTTATAAA
10869998 ATATATTTTTATAAA
1 ATATATTTTTATAAA
10870013 AT
1 AT
10870015 TTAATGCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATATTTTTATAAA
Found at i:10873113 original size:28 final size:28
Alignment explanation
Indices: 10873073--10873128 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
10873063 GCATTCAAAG
10873073 AAAGATTCAAACATTAAATAAACTCATT
1 AAAGATTCAAACATTAAATAAACTCATT
10873101 AAAGATTCAAACATTAAATAAACTCATT
1 AAAGATTCAAACATTAAATAAACTCATT
10873129 CATTCGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.54, C:0.14, G:0.04, T:0.29
Consensus pattern (28 bp):
AAAGATTCAAACATTAAATAAACTCATT
Found at i:10873485 original size:40 final size:38
Alignment explanation
Indices: 10873441--10873561 Score: 92
Period size: 40 Copynumber: 3.2 Consensus size: 38
10873431 GTGCCCAGCC
10873441 CTAGTCGAATAAACTGAAAAATGTAATGGTGTGCCCTACA
1 CTAGTCGAATAAACTGAAAAATGTAAT-GTGTGCCCT-CA
* * *
10873481 CTAGT-TAGATAAACTGATGAAA-GT--TGTGT-CCATCA
1 CTAGTCGA-ATAAACTGA-AAAATGTAATGTGTGCCCTCA
* *
10873516 CTAGTCGAATAAA-TCAATAAATATAATTGTGTGCCCTGCA
1 CTAGTCGAATAAACTGAA-AAATGTAA-TGTGTGCCCT-CA
10873556 CTAGTC
1 CTAGTC
10873562 AGATAAATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 20
0.69 0.09 0.22
Matches are distributed among these distances:
34 5 0.08
35 13 0.21
36 4 0.06
37 4 0.06
38 6 0.10
39 4 0.06
40 24 0.38
41 3 0.05
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (38 bp):
CTAGTCGAATAAACTGAAAAATGTAATGTGTGCCCTCA
Found at i:10873503 original size:75 final size:75
Alignment explanation
Indices: 10873355--10873568 Score: 227
Period size: 75 Copynumber: 2.9 Consensus size: 75
10873345 TAAATAAGTT
* * ** * ** *
10873355 TTGTGCCCAGCGCTAGTCAAAT-AATTGATAATTATAATAATGTGCTC-AGCACTAGTCAGATAA
1 TTGTGCCCAGCACTAGTCGAATAAATCAATAAATATAATGGTGTGCCCTA-CACTAGTCAGATAA
10873418 ACTAACGAAAG
65 ACTAACGAAAG
* * * *
10873429 TTGTGCCCAGCCCTAGTCGAATAAACTGAA-AAATGTAATGGTGTGCCCTACACTAGTTAGATAA
1 TTGTGCCCAGCACTAGTCGAATAAA-TCAATAAATATAATGGTGTGCCCTACACTAGTCAGATAA
* *
10873493 ACTGATGAAAG
65 ACTAACGAAAG
* * * *
10873504 TTGTGTCCATCACTAGTCGAATAAATCAATAAATATAATTGTGTGCCCTGCACTAGTCAGATAAA
1 TTGTGCCCAGCACTAGTCGAATAAATCAATAAATATAATGGTGTGCCCTACACTAGTCAGATAAA
10873569 TTTACGAAGA
Statistics
Matches: 116, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
74 23 0.20
75 90 0.78
76 3 0.03
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (75 bp):
TTGTGCCCAGCACTAGTCGAATAAATCAATAAATATAATGGTGTGCCCTACACTAGTCAGATAAA
CTAACGAAAG
Found at i:10873528 original size:35 final size:35
Alignment explanation
Indices: 10873404--10873528 Score: 87
Period size: 35 Copynumber: 3.5 Consensus size: 35
10873394 ATGTGCTCAG
* * *
10873404 CACTAGTC-AGATAAACTAACGAAAGTTGTGCCCAG
1 CACTAGTCGAGATAAACTGA-GAAAGTTGTGTCCAT
* * *
10873439 CCCTAGTCGA-ATAAACTGAAAAATGTAATGGTGTGCCCT
1 CACTAGTCGAGATAAACTGAGAAA-GT--T-GTGT-CCAT
*
10873478 ACACTAGT-TAGATAAACTGATGAAAGTTGTGTCCAT
1 -CACTAGTCGAGATAAACTGA-GAAAGTTGTGTCCAT
10873514 CACTAGTCGA-ATAAA
1 CACTAGTCGAGATAAA
10873529 TCAATAAATA
Statistics
Matches: 69, Mismatches: 11, Indels: 20
0.69 0.11 0.20
Matches are distributed among these distances:
34 3 0.04
35 29 0.42
36 5 0.07
37 5 0.07
38 4 0.06
39 3 0.04
40 17 0.25
41 3 0.04
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (35 bp):
CACTAGTCGAGATAAACTGAGAAAGTTGTGTCCAT
Found at i:10873595 original size:75 final size:73
Alignment explanation
Indices: 10873358--10873595 Score: 192
Period size: 75 Copynumber: 3.2 Consensus size: 73
10873348 ATAAGTTTTG
* ** * * * *
10873358 TGCCCAGCGCTAGTCAAAT-AATTGATAATTATAATAATGTGCTCAGCACTAGTCAGATAAACTA
1 TGCCCAGCGCTAGTCGAATAAATCAATAAATATAATAGTGTGCCCTGCACTAGTCAGATAAACTA
*
10873422 ACGAAAGTT
66 ACG-AAGAT
* * * * * *
10873431 GTGCCCAGCCCTAGTCGAATAAACTGAA-AAATGTAATGGTGTGCCCTACACTAGTTAGATAAAC
1 -TGCCCAGCGCTAGTCGAATAAA-TCAATAAATATAATAGTGTGCCCTGCACTAGTCAGATAAAC
* * *
10873495 TGATGAAAGTT
64 TAACG-AAGAT
* * * * *
10873506 GTGTCCATCACTAGTCGAATAAATCAATAAATATAATTGTGTGCCCTGCACTAGTCAGATAAATT
1 -TGCCCAGCGCTAGTCGAATAAATCAATAAATATAATAGTGTGCCCTGCACTAGTCAGATAAACT
*
10873571 TACGAAGAT
65 AACGAAGAT
10873580 TGCACCAAGCGCTAGT
1 TGC-CC-AGCGCTAGT
10873596 TGGATAAACC
Statistics
Matches: 130, Mismatches: 29, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
73 2 0.02
74 26 0.20
75 100 0.77
76 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (73 bp):
TGCCCAGCGCTAGTCGAATAAATCAATAAATATAATAGTGTGCCCTGCACTAGTCAGATAAACTA
ACGAAGAT
Found at i:10881952 original size:11 final size:10
Alignment explanation
Indices: 10881925--10881957 Score: 50
Period size: 11 Copynumber: 3.3 Consensus size: 10
10881915 AGCCACCCTC
10881925 CTTCCTTTTT
1 CTTCCTTTTT
10881935 -TTCCTTTTT
1 CTTCCTTTTT
10881944 CTCTCCTTTTT
1 CT-TCCTTTTT
10881955 CTT
1 CTT
10881958 TTTTCCCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.43
10 2 0.10
11 10 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
CTTCCTTTTT
Found at i:10885588 original size:27 final size:26
Alignment explanation
Indices: 10885545--10885652 Score: 108
Period size: 27 Copynumber: 4.0 Consensus size: 26
10885535 AGCATGGCTG
*
10885545 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGACAGAGCCA
* *
10885571 CTAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGACAGAGCCA
* * *
10885598 CCAGAATAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCA
* * *
10885625 CCAGAAACAGATAATGTGGCAAAGCCA
1 CCAG-AACAGATATTGTGACAGAGCCA
10885652 C
1 C
10885653 TTAACAGAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
26 10 0.14
27 53 0.76
28 7 0.10
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGACAGAGCCA
Found at i:10885643 original size:54 final size:53
Alignment explanation
Indices: 10885545--10885652 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
10885535 AGCATGGCTG
* * * * *
10885545 CCAGAACAGATATTGTGACAGAGTCACTAGATACAGATATTGTGGCAGAGCCA
1 CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
* * *
10885598 CCAGAATAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTGGCAAAGCCA
1 CCAGAACAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
10885652 C
1 C
10885653 TTAACAGAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 11 0.24
54 35 0.76
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.19
Consensus pattern (53 bp):
CCAGAACAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCA
Found at i:10885858 original size:22 final size:22
Alignment explanation
Indices: 10885810--10885868 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
10885800 GTAAATACGT
*
10885810 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
10885832 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
10885854 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
10885869 CGATAACGGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:10886015 original size:27 final size:26
Alignment explanation
Indices: 10885976--10886054 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
10885966 TCGATCGGTC
*
10885976 AACAGATATTGTGACAAAGTCACCAG
1 AACAGATATTGTGACAAAGCCACCAG
* *
10886002 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGACAAAGCCACCAG
* *
10886029 AACAGATATTTGTGGCATAGCCACCA
1 AACAGATA-TTGTGACAAAGCCACCA
10886055 AAACGCTTCC
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
26 8 0.17
27 39 0.83
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
AACAGATATTGTGACAAAGCCACCAG
Found at i:10886315 original size:27 final size:27
Alignment explanation
Indices: 10886285--10886531 Score: 305
Period size: 27 Copynumber: 9.1 Consensus size: 27
10886275 GTAAAATAGA
* * * * *
10886285 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
10886312 AATTCTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
10886339 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
10886366 AATTCTACCTTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* **
10886393 AATTCTACCCTACAGGGGTATTTTAAA
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
10886420 AATTTTACCCTATAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* *
10886447 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAGGGGTATTTCAGT
* * *
10886474 ATTTTTACCCTACAAGGGTATTTCAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
*
10886501 AATTCTACCCTACAGGGGTATTTTAGT
1 AATTCTACCCTACAGGGGTATTTCAGT
10886528 AATT
1 AATT
10886532 TTACAAATCG
Statistics
Matches: 192, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 192 1.00
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAGGGGTATTTCAGT
Found at i:10886331 original size:54 final size:55
Alignment explanation
Indices: 10886273--10886385 Score: 131
Period size: 54 Copynumber: 2.1 Consensus size: 55
10886263 AACACCCTAG
*
10886273 GGGTAAAAT-AGAAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAA
1 GGGTAAAATCAGAAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAA
** * * * * * *
10886327 GGGT-ATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTACAG
1 GGGTAAAATCAGAAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAA
10886381 GGGTA
1 GGGTA
10886386 TTTTAGTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.04
54 46 0.96
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.30
Consensus pattern (55 bp):
GGGTAAAATCAGAAATTCTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAA
Found at i:10886546 original size:27 final size:27
Alignment explanation
Indices: 10886516--10886828 Score: 293
Period size: 27 Copynumber: 11.7 Consensus size: 27
10886506 TACCCTACAG
*
10886516 GGGTATTTTAGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
*
10886543 GGGTATTTCAGTAATTTTACAAA-CTAA
1 GGGTATTTCAGTAATTTTACAAATC-GA
* *
10886570 GGGTATTTCTA-TAATTTTAGAAATCAA
1 GGGTATTTC-AGTAATTTTACAAATCGA
*
10886597 GGGTATTTCAATAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * *
10886623 CGGTATTTCGGTAATTTTATAAATCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* *
10886650 GGGTACTTT-GGTAATTTTACAAGTCGA
1 GGGTA-TTTCAGTAATTTTACAAATCGA
* *
10886677 GGGTATTTCAATAATTTTGCAAA-CTGA
1 GGGTATTTCAGTAATTTTACAAATC-GA
*
10886704 GGGTATTTC-GATAATTTTACGAATCGA
1 GGGTATTTCAG-TAATTTTACAAATCGA
10886731 GGGTATTTCAGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAAATCGA
* * * * * *
10886757 CGCTATTTCGGTAATTTTATAAACCGG
1 GGGTATTTCAGTAATTTTACAAATCGA
* * *
10886784 GGGTACTTT-GGTAATTTTACAACTAG-
1 GGGTA-TTTCAGTAATTTTACAAATCGA
*
10886810 GGGTATTTTAGTAATTTTA
1 GGGTATTTCAGTAATTTTA
10886829 GTAAACTAAA
Statistics
Matches: 238, Mismatches: 34, Indels: 29
0.79 0.11 0.10
Matches are distributed among these distances:
25 3 0.01
26 63 0.26
27 162 0.68
28 10 0.04
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAATCGA
Found at i:10886547 original size:81 final size:80
Alignment explanation
Indices: 10886299--10886641 Score: 300
Period size: 81 Copynumber: 4.2 Consensus size: 80
10886289 TTACCCCACA
* * *
10886299 AGGGTATCTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCG
1 AGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
**
10886364 GTAATTCTACCTTAC-
66 GTAATTCTACAAT-CG
** * * * ** * * *
10886379 AGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTTAAAAATTTTACCCTATAGGGGTATTTT
1 A-GGGTATTTCGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
10886444 AGTAATTCTACCCTATAG
65 AGTAATTCTA--CAATCG
* *
10886462 -GGGTATTTCGGTATTTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTA
1 AGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
*
10886526 GTAATTTTACAAATCG
66 GTAATTCTAC-AATCG
* ** * *** *
10886542 AGGGTATTTCAGTAATTTTA-CAAACTAAGGGTATTTCTA-TAATTTTA-GAAATCAAGGGTATT
1 AGGGTATTTCGGTAATTTTACCCTAC-AAGGGTATTTC-AGTAATTCTACCCTA-CAGGGGTATT
* *
10886604 TCAATAATTTTACAATCG
63 TCAGTAATTCTACAATCG
*
10886622 ACGGTATTTCGGTAATTTTA
1 AGGGTATTTCGGTAATTTTA
10886642 TAAATCGGGG
Statistics
Matches: 214, Mismatches: 40, Indels: 18
0.79 0.15 0.07
Matches are distributed among these distances:
79 1 0.00
80 31 0.14
81 179 0.84
82 1 0.00
83 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCA
GTAATTCTACAATCG
Found at i:10886684 original size:134 final size:134
Alignment explanation
Indices: 10886515--10886837 Score: 479
Period size: 134 Copynumber: 2.4 Consensus size: 134
10886505 CTACCCTACA
* * *
10886515 GGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCT
1 GGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCG
*
10886580 ATAATTTTA-GAAATCAAGGGTATTTCAATAATTTTACAATCGACGGTATTTCGGTAATTTTATA
66 ATAATTTTACG-AATCAAGGGTATTTCAATAATTTTACAATCGACGCTATTTCGGTAATTTTATA
*
10886644 AATCG
130 AACCG
* * * *
10886649 GGGGTACTTTGGTAATTTTACAAGTCGAGGGTATTTCAATAATTTTGCAAACTGAGGGTATTTCG
1 GGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCG
* *
10886714 ATAATTTTACGAATCGAGGGTATTTCAGTAATTTTACAATCGACGCTATTTCGGTAATTTTATAA
66 ATAATTTTACGAATCAAGGGTATTTCAATAATTTTACAATCGACGCTATTTCGGTAATTTTATAA
10886779 ACCG
131 ACCG
* * * *
10886783 GGGGTACTTTGGTAATTTTACAACTAG-GGGTATTTTAGTAATTTTAGTAAACTAA
1 GGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTA-CAAACTAA
10886838 AGTATTCTAA
Statistics
Matches: 169, Mismatches: 18, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
133 16 0.09
134 152 0.90
135 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.39
Consensus pattern (134 bp):
GGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCG
ATAATTTTACGAATCAAGGGTATTTCAATAATTTTACAATCGACGCTATTTCGGTAATTTTATAA
ACCG
Found at i:10886799 original size:107 final size:105
Alignment explanation
Indices: 10886516--10886828 Score: 319
Period size: 107 Copynumber: 2.9 Consensus size: 105
10886506 TACCCTACAG
* * ** *
10886516 GGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACTAAGGGTATTTCTA
1 GGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCGGTAATTTTACAAACCGAGGGTATTTCAA
*
10886581 TAATTTTAG-AAATCAAGGGTATTTCAATAATTTTACAATCGA
65 TAATTTT-GCAAA-CTAGGGTATTTCAATAATTTTACAATCGA
* * * * **
10886623 CGGTATTTCGGTAATTTTATAAATCGGGGGTACTTT-GGTAATTTTACAAGTCGAGGGTATTTCA
1 GGGTATTTCAGTAATTTTA-CAATCGAGGGTA-TTTCGGTAATTTTACAAACCGAGGGTATTTCA
*
10886687 ATAATTTTGCAAACTGAGGGTATTTCGATAATTTTACGAATCGA
64 ATAATTTTGCAAACT-AGGGTATTTCAATAATTTTAC-AATCGA
* * * * **
10886731 GGGTATTTCAGTAATTTTACAATCGACGCTATTTCGGTAATTTTATAAACCGGGGGTACTTT-GG
1 GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAACCGAGGGTA-TTTCAA
* * *
10886795 TAATTTTAC-AACTAGGGGTATTTTAGTAATTTTA
65 TAATTTTGCAAACTA-GGGTATTTCAATAATTTTA
10886829 GTAAACTAAA
Statistics
Matches: 169, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
105 1 0.01
106 25 0.15
107 114 0.67
108 29 0.17
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (105 bp):
GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAACCGAGGGTATTTCAAT
AATTTTGCAAACTAGGGTATTTCAATAATTTTACAATCGA
Found at i:10895343 original size:30 final size:31
Alignment explanation
Indices: 10895297--10895360 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
10895287 TTCAAGAGCA
*
10895297 AATATTATTATTTTTAATTATTATATAAGAC
1 AATAATATTATTTTTAATTATTATATAAGAC
10895328 AATAATATT-TTTTTAATTATTATATAAGAC
1 AATAATATTATTTTTAATTATTATATAAGAC
10895358 AAT
1 AAT
10895361 TTTTGTGTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.75
31 8 0.25
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (31 bp):
AATAATATTATTTTTAATTATTATATAAGAC
Found at i:10900291 original size:33 final size:34
Alignment explanation
Indices: 10900242--10900314 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 34
10900232 CATAGGCCCA
* * * * *
10900242 TACTGTTATTGTATAGGGCTTAGGCCCAGACTG-
1 TACTGTTAATGAATAGGACTCAGGCCCAGACCGT
*
10900275 TACTGTTAATGAATAGGACTCAGGCCTAGACCGT
1 TACTGTTAATGAATAGGACTCAGGCCCAGACCGT
10900309 TACTGT
1 TACTGT
10900315 AACACCCCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 27 0.82
34 6 0.18
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (34 bp):
TACTGTTAATGAATAGGACTCAGGCCCAGACCGT
Found at i:10900987 original size:6 final size:6
Alignment explanation
Indices: 10900965--10901078 Score: 90
Period size: 6 Copynumber: 18.5 Consensus size: 6
10900955 ATCAAAGCTG
* * *
10900965 GAATCA AAATGA GAATCA GAATCA GAATCA G-GTGACA GAATCA GAATCA
1 GAATCA GAATCA GAATCA GAATCA GAATCA GAAT--CA GAATCA GAATCA
* * *
10901014 GAATCA GAATCA GAATTA GGCGA-CA GAATCA GAATCA GTATCA GGTAA-CA
1 GAATCA GAATCA GAATCA -G-AATCA GAATCA GAATCA GAATCA -G-AATCA
*
10901064 GAATCA AAATCA GAA
1 GAATCA GAATCA GAA
10901079 AGTGAATGCA
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 4 0.05
6 70 0.82
7 8 0.09
8 3 0.04
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.17
Consensus pattern (6 bp):
GAATCA
Found at i:10901006 original size:37 final size:37
Alignment explanation
Indices: 10900965--10901057 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 37
10900955 ATCAAAGCTG
* *
10900965 GAATCAAAATGAGAATCAGAATCAGAATCAGGTGACA
1 GAATCAAAATCAGAATCAGAATCAGAATCAGGCGACA
* *
10901002 GAATCAGAATCAGAATCAGAATCAGAATTAGGCGACA
1 GAATCAAAATCAGAATCAGAATCAGAATCAGGCGACA
* *
10901039 GAATCAGAATCAGTATCAG
1 GAATCAAAATCAGAATCAG
10901058 GTAACAGAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (37 bp):
GAATCAAAATCAGAATCAGAATCAGAATCAGGCGACA
Found at i:10901014 original size:31 final size:31
Alignment explanation
Indices: 10900976--10901078 Score: 113
Period size: 31 Copynumber: 3.3 Consensus size: 31
10900966 AATCAAAATG
10900976 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
10901007 AGAATCAGAATCAGAATCAGAATTAGGC-G-A-C
1 AGAATCAGAATCAGAATCAG--GT-GACAGAATC
* *
10901038 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
10901069 AAAATCAGAA
1 AGAATCAGAA
10901079 AGTGAATGCA
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
28 1 0.02
29 2 0.03
30 1 0.02
31 50 0.85
32 1 0.02
33 2 0.03
34 2 0.03
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:10901040 original size:25 final size:25
Alignment explanation
Indices: 10901012--10901078 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
10901002 GAATCAGAAT
* *
10901012 CAGAATCAGAATCAGAATTAGGCGA
1 CAGAATCAGAATCAGAATCAGGCAA
* *
10901037 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGCAA
*
10901062 CAGAATCAAAATCAGAA
1 CAGAATCAGAATCAGAA
10901079 AGTGAATGCA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.48, C:0.16, G:0.19, T:0.16
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGCAA
Found at i:10901251 original size:27 final size:26
Alignment explanation
Indices: 10901221--10901304 Score: 96
Period size: 27 Copynumber: 3.1 Consensus size: 26
10901211 GTAGCGAAGT
* *
10901221 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGA-ATAGATATTGTGGCAAAGC
*
10901248 CACCAGAATAGATATTTGTGGCATAGC
1 CACCAGAATAGATA-TTGTGGCAAAGC
* *
10901275 CACCAGAAATAGATAATATGGCAAAGC
1 CACCAG-AATAGATATTGTGGCAAAGC
10901302 CAC
1 CAC
10901305 TTAACAGAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 6 0.12
27 36 0.72
28 8 0.16
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (26 bp):
CACCAGAATAGATATTGTGGCAAAGC
Found at i:10901497 original size:22 final size:22
Alignment explanation
Indices: 10901463--10901527 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
10901453 GAAAATATGT
* *
10901463 TTGGAACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
*
10901485 TTGGCACAGAGCCATATAT-AGG
1 TTGGCACAAAGCCATA-ATCAGG
*
10901507 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
10901528 AATAATTGGC
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:10902032 original size:27 final size:27
Alignment explanation
Indices: 10901916--10902056 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
10901906 GGGTCGAATG
* * * * *
10901916 GTAATTTTACCCCACAAGGGTATCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
10901943 GTAATTTTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
10901970 GTATTTCTACCCTACAAGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
10901997 TTAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* ** *
10902024 GTAACTCTACTTTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
10902051 ATAATT
1 GTAATT
10902057 TTGTAAATCG
Statistics
Matches: 97, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 97 1.00
ACGTcount: A:0.26, C:0.20, G:0.17, T:0.37
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:10904010 original size:21 final size:21
Alignment explanation
Indices: 10903986--10904027 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
10903976 CAGCATCGGG
10903986 CCACATGCTGACTAGAGAGGC
1 CCACATGCTGACTAGAGAGGC
10904007 CCACATGCTGACTAGAGAGGC
1 CCACATGCTGACTAGAGAGGC
10904028 ACTAACCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.29, G:0.29, T:0.14
Consensus pattern (21 bp):
CCACATGCTGACTAGAGAGGC
Found at i:10909824 original size:28 final size:28
Alignment explanation
Indices: 10909764--10909824 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
10909754 AATGACCAAA
*
10909764 ATACCCCTAAGGGGTAAAAATTACTATT
1 ATACCCCTAAGGGGTAAAAATGACTATT
* * ** *
10909792 CTACCCCTAATGGGTGGAAATGACTGTT
1 ATACCCCTAAGGGGTAAAAATGACTATT
10909820 ATACC
1 ATACC
10909825 TTAAATGTAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (28 bp):
ATACCCCTAAGGGGTAAAAATGACTATT
Found at i:10912402 original size:3 final size:3
Alignment explanation
Indices: 10912389--10912433 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
10912379 AATGGTAAAT
*
10912389 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TCAA -AA TCA TAA TAA TA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
10912434 GTAAAGACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:10914295 original size:50 final size:49
Alignment explanation
Indices: 10914165--10914408 Score: 256
Period size: 49 Copynumber: 4.9 Consensus size: 49
10914155 ATCCGAAACT
* * * * *
10914165 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCCACC
10914213 AGTCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-CACC
** * **
10914264 ATCTAATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCCA-CC
* * * * * * * **
10914315 TTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCCACC
* *
10914364 ATCCGGTACATGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
10914409 TCACAATAGT
Statistics
Matches: 164, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
48 1 0.01
49 78 0.48
50 45 0.27
51 40 0.24
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCCACC
Found at i:10919515 original size:17 final size:17
Alignment explanation
Indices: 10919493--10919526 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
10919483 CACTCCTTAA
10919493 ACCTATTCAAAATGCAC
1 ACCTATTCAAAATGCAC
10919510 ACCTATTCAAAATGCAC
1 ACCTATTCAAAATGCAC
10919527 CAAAAACATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (17 bp):
ACCTATTCAAAATGCAC
Found at i:10919706 original size:14 final size:16
Alignment explanation
Indices: 10919687--10919719 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
10919677 AAATTTCTAT
10919687 CACATACC-AT-TAAC
1 CACATACCAATGTAAC
10919701 CACATACCAATGTAAC
1 CACATACCAATGTAAC
10919717 CAC
1 CAC
10919720 CTATAACTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 2 0.12
16 7 0.41
ACGTcount: A:0.42, C:0.36, G:0.03, T:0.18
Consensus pattern (16 bp):
CACATACCAATGTAAC
Found at i:10920610 original size:51 final size:53
Alignment explanation
Indices: 10920555--10920657 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 53
10920545 GGGCACTGAG
**
10920555 TGCCAACCCCATAGGCTA-AA-CATCCCTCCAAAAACATGCCTGAA-CACTATA
1 TGCCAACCCCATAGGCTACAATCATCCC-CCAAAAACACACCTGAATCACTATA
* * *
10920606 TGCCAAGCCCGTAGGCTACAATCCTCCCCCAAAAACACACCTGAATCACTAT
1 TGCCAACCCCATAGGCTACAATCATCCCCCAAAAACACACCTGAATCACTAT
10920658 GGATATAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
51 16 0.36
52 17 0.39
53 11 0.25
ACGTcount: A:0.35, C:0.37, G:0.11, T:0.17
Consensus pattern (53 bp):
TGCCAACCCCATAGGCTACAATCATCCCCCAAAAACACACCTGAATCACTATA
Found at i:10922138 original size:66 final size:66
Alignment explanation
Indices: 10922032--10922354 Score: 333
Period size: 66 Copynumber: 4.9 Consensus size: 66
10922022 GTGCAAGAAC
* * * *
10922032 TACTTCTGTTTATTCAATGAGGCACTGGGTGCCAAATACATTGATGAGCACTGGGCGCAATTGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
10922097 T
66 T
* * * * * * *
10922098 TACTTTGGTTTTTCCGATAAGGCATTGGGTGCCAAATACATCGATAAGCATTGGGCACAATTGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
10922163 T
66 T
* ** * * * * * *
10922164 TGCTTCAATTTATCCGATGAGGAACTGGATGCCAAATACATCGATGAACAATAGGCGCAATCGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
10922229 T
66 T
* * * * * * ** *
10922230 TACTTCGGCTTGTCCGATGAGGCATTAGGTGCCAAATACATTGACGAGTGCTGGGCGTAATTGAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
10922295 T
66 T
* * * * *
10922296 TATTTC-GTTTATCCGATGAGGCACTGGGTGTCAAATATATCGATGAACACTGGACGCAA
1 TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAA
10922355 ACTAATATTT
Statistics
Matches: 199, Mismatches: 58, Indels: 1
0.77 0.22 0.00
Matches are distributed among these distances:
65 40 0.20
66 159 0.80
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (66 bp):
TACTTCGGTTTATCCGATGAGGCACTGGGTGCCAAATACATCGATGAGCACTGGGCGCAATTGAA
T
Found at i:10924757 original size:25 final size:25
Alignment explanation
Indices: 10924717--10924789 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
10924707 ATGGGACTGA
* *
10924717 AATTGCTCATATGAGCTGTGAGTAT
1 AATTGCTCATATGAGCTGTAAATAT
* * *
10924742 AATTGCTCACACGAGCTATAAATAT
1 AATTGCTCATATGAGCTGTAAATAT
*
10924767 AATTTCTCATATGAGCTGTAAAT
1 AATTGCTCATATGAGCTGTAAAT
10924790 CGGGAAATTA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (25 bp):
AATTGCTCATATGAGCTGTAAATAT
Found at i:10931531 original size:330 final size:330
Alignment explanation
Indices: 10930930--10931604 Score: 1332
Period size: 330 Copynumber: 2.0 Consensus size: 330
10930920 TATGATTGAT
10930930 TGCCCAAAATGTAAAGAAGCAATATTGGCTAAGCTAAACTCATTAGCCAAGCTAAAAGTATTTTG
1 TGCCCAAAATGTAAAGAAGCAATATTGGCTAAGCTAAACTCATTAGCCAAGCTAAAAGTATTTTG
10930995 GACCGTATTCGAATGTCCTATTCTATTACCAACAAGATTCTAATAATGATATATATTATACATGT
66 GACCGTATTCGAATGTCCTATTCTATTACCAACAAGATTCTAATAATGATATATATTATACATGT
10931060 GGGGAAAAATTGAAAGAAAGCATTACTATTGCTGTGGGGCTTTTCGAGCATATGCCAACACCATG
131 GGGGAAAAATTGAAAGAAAGCATTACTATTGCTGTGGGGCTTTTCGAGCATATGCCAACACCATG
*
10931125 ATAAAATCCTTTGCAGAAGAACCAACAGATGCTGGAACTCTCTGTGATGTTGATGCTTTTTGCAG
196 ATAAAATCCTTTGCAGAAGAACCAACAGATGCTGGAACTCTCTGTGATGTTGATGCCTTTTGCAG
10931190 CCACAGATGGACTAAATTGTACAACTGCAATGTGGGTACTACTGGTTGTCCCATAAATTTGATCT
261 CCACAGATGGACTAAATTGTACAACTGCAATGTGGGTACTACTGGTTGTCCCATAAATTTGATCT
10931255 CAACC
326 CAACC
10931260 TGCCCAAAATGTAAAGAAGCAATATTGGCTAAGCTAAACTCATTAGCCAAGCTAAAAGTATTTTG
1 TGCCCAAAATGTAAAGAAGCAATATTGGCTAAGCTAAACTCATTAGCCAAGCTAAAAGTATTTTG
10931325 GACCGTATTCGAATGTCCTATTCTATTACCAACAAGATTCTAATAATGATATATATTATACATGT
66 GACCGTATTCGAATGTCCTATTCTATTACCAACAAGATTCTAATAATGATATATATTATACATGT
10931390 GGGGAAAAATTGAAAGAAAGCATTACTATTGCTGTGGGGCTTTTCGAGCATATGCCAACACCATG
131 GGGGAAAAATTGAAAGAAAGCATTACTATTGCTGTGGGGCTTTTCGAGCATATGCCAACACCATG
10931455 ATAAAATCCTTTGCAGAAGAACCAACAGATGCTGGAACTCTCTGTGATGTTGATGCCTTTTGCAG
196 ATAAAATCCTTTGCAGAAGAACCAACAGATGCTGGAACTCTCTGTGATGTTGATGCCTTTTGCAG
10931520 CCACAGATGGACTAAATTGTACAACTGCAATGTGGGTACTACTGGTTGTCCCATAAATTTGATCT
261 CCACAGATGGACTAAATTGTACAACTGCAATGTGGGTACTACTGGTTGTCCCATAAATTTGATCT
10931585 CAACC
326 CAACC
*
10931590 TGCCCAAAAGGTAAA
1 TGCCCAAAATGTAAA
10931605 AAAAATAAAG
Statistics
Matches: 343, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
330 343 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (330 bp):
TGCCCAAAATGTAAAGAAGCAATATTGGCTAAGCTAAACTCATTAGCCAAGCTAAAAGTATTTTG
GACCGTATTCGAATGTCCTATTCTATTACCAACAAGATTCTAATAATGATATATATTATACATGT
GGGGAAAAATTGAAAGAAAGCATTACTATTGCTGTGGGGCTTTTCGAGCATATGCCAACACCATG
ATAAAATCCTTTGCAGAAGAACCAACAGATGCTGGAACTCTCTGTGATGTTGATGCCTTTTGCAG
CCACAGATGGACTAAATTGTACAACTGCAATGTGGGTACTACTGGTTGTCCCATAAATTTGATCT
CAACC
Found at i:10943511 original size:22 final size:22
Alignment explanation
Indices: 10943483--10943525 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10943473 TATAAAATAC
10943483 AAAAAAAAATATCATATCATCA
1 AAAAAAAAATATCATATCATCA
*
10943505 AAAAAAATATATCATATCATC
1 AAAAAAAAATATCATATCATC
10943526 TATCATATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.14, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAAAAAATATCATATCATCA
Found at i:10946467 original size:30 final size:30
Alignment explanation
Indices: 10946431--10946518 Score: 124
Period size: 30 Copynumber: 2.9 Consensus size: 30
10946421 GTTTTCAGGT
*
10946431 TCCACACGGGCTGGGCACACGCCCATGTGA
1 TCCACACGGGCTGGCCACACGCCCATGTGA
* *
10946461 TCCACACGGG-TAAGCCACATGCCCATGTGA
1 TCCACACGGGCT-GGCCACACGCCCATGTGA
*
10946491 TCCACACGGGCAGGCCACACGCCCATGT
1 TCCACACGGGCTGGCCACACGCCCATGT
10946519 ACCAATCGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.14
Consensus pattern (30 bp):
TCCACACGGGCTGGCCACACGCCCATGTGA
Found at i:10950449 original size:21 final size:21
Alignment explanation
Indices: 10950420--10950463 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
10950410 ACACTGCTAA
* * *
10950420 TTTTCTTAACATTATTTCATT
1 TTTTCTTAAAATTAATTAATT
*
10950441 TTTTTTTAAAATTAATTAATT
1 TTTTCTTAAAATTAATTAATT
10950462 TT
1 TT
10950464 CAAAATTTAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.64
Consensus pattern (21 bp):
TTTTCTTAAAATTAATTAATT
Found at i:10950835 original size:4 final size:5
Alignment explanation
Indices: 10950814--10950865 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
10950804 AATCACCCCA
*
10950814 ATTTT ATTTT ATTTT A-TTT ATTTT AATTGTT ATATT A-TTT ATTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT -ATT-TT ATTTT ATTTT A-TTTT
10950860 ATTTT A
1 ATTTT A
10950866 CTAATTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
4 7 0.17
5 22 0.55
6 9 0.22
7 2 0.05
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (5 bp):
ATTTT
Found at i:10950851 original size:21 final size:19
Alignment explanation
Indices: 10950814--10950865 Score: 68
Period size: 21 Copynumber: 2.6 Consensus size: 19
10950804 AATCACCCCA
*
10950814 ATTTTATTTTATTTTATTT
1 ATTTTATTTTATATTATTT
10950833 ATTTTAATTGTTATATTATTT
1 ATTTT-ATT-TTATATTATTT
10950854 ATTTTTATTTTA
1 A-TTTTATTTTA
10950866 CTAATTGATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 14 0.48
22 4 0.14
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
ATTTTATTTTATATTATTT
Found at i:10950917 original size:24 final size:24
Alignment explanation
Indices: 10950889--10950957 Score: 86
Period size: 24 Copynumber: 2.8 Consensus size: 24
10950879 TTATTATTCT
*
10950889 TATACTTATATTTTTA-ATTTTTTA
1 TATACTTTTATTTTTATA-TTTTTA
*
10950913 TATACTTTTATTTTTTTATTTTTA
1 TATACTTTTATTTTTATATTTTTA
*
10950937 TATACTTTTATTATTTTTATT
1 TATACTTTTATT-TTTATATT
10950958 ATTTTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
24 32 0.78
25 9 0.22
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (24 bp):
TATACTTTTATTTTTATATTTTTA
Found at i:10950921 original size:18 final size:18
Alignment explanation
Indices: 10950895--10950931 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10950885 TTCTTATACT
*
10950895 TATATTTTTAATTTTTTA
1 TATACTTTTAATTTTTTA
*
10950913 TATACTTTTATTTTTTTA
1 TATACTTTTAATTTTTTA
10950931 T
1 T
10950932 TTTTATATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (18 bp):
TATACTTTTAATTTTTTA
Found at i:10950953 original size:8 final size:8
Alignment explanation
Indices: 10950822--10950962 Score: 58
Period size: 8 Copynumber: 16.9 Consensus size: 8
10950812 CAATTTTATT
10950822 TTATTTTA
1 TTATTTTA
10950830 TTTATTTTAA
1 -TTATTTT-A
* *
10950840 TTGTTATA
1 TTATTTTA
*
10950848 TTATTTATTT
1 TTA-TT-TTA
10950858 TTATTTTA
1 TTATTTTA
* * *
10950866 CTAATTGA
1 TTATTTTA
*
10950874 TTAATTTA
1 TTATTTTA
10950882 TTATTCTTA
1 TTATT-TTA
*
10950891 -TACTTATA
1 TTA-TTTTA
*
10950899 TT-TTTAA
1 TTATTTTA
10950906 TT-TTTTA
1 TTATTTTA
10950913 TATACTTTTA
1 T-TA-TTTTA
*
10950923 TTTTTTTA
1 TTATTTTA
10950931 -T-TTTTA
1 TTATTTTA
10950937 TATACTTTTA
1 T-TA-TTTTA
10950947 TTATTTTTA
1 TTA-TTTTA
10950956 TTATTTT
1 TTATTTT
10950963 TATTTTGCTA
Statistics
Matches: 101, Mismatches: 18, Indels: 27
0.69 0.12 0.18
Matches are distributed among these distances:
6 5 0.05
7 11 0.11
8 35 0.35
9 33 0.33
10 17 0.17
ACGTcount: A:0.26, C:0.04, G:0.01, T:0.70
Consensus pattern (8 bp):
TTATTTTA
Found at i:10950954 original size:9 final size:9
Alignment explanation
Indices: 10950920--10950966 Score: 69
Period size: 9 Copynumber: 5.2 Consensus size: 9
10950910 TTATATACTT
10950920 TTATTTTT-
1 TTATTTTTA
10950928 TTATTTTTA
1 TTATTTTTA
*
10950937 TATACTTTTA
1 T-TATTTTTA
10950947 TTATTTTTA
1 TTATTTTTA
10950956 TTATTTTTA
1 TTATTTTTA
10950965 TT
1 TT
10950967 TTGCTATTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
8 8 0.23
9 19 0.54
10 8 0.23
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
TTATTTTTA
Found at i:10951057 original size:3 final size:3
Alignment explanation
Indices: 10951049--10951086 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
10951039 ATCATTGAGT
10951049 TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10951087 ATTTTTATCT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:10954890 original size:13 final size:14
Alignment explanation
Indices: 10954872--10954900 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10954862 GACACATTCA
10954872 TTAGTTAA-TTTAG
1 TTAGTTAATTTTAG
10954885 TTAGTTAATTTTAG
1 TTAGTTAATTTTAG
10954899 TT
1 TT
10954901 TTAATCAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.59
Consensus pattern (14 bp):
TTAGTTAATTTTAG
Found at i:10956900 original size:7 final size:7
Alignment explanation
Indices: 10956888--10956913 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
10956878 TGTAATTAAT
10956888 TATATTA
1 TATATTA
10956895 TATATTA
1 TATATTA
10956902 TATATTA
1 TATATTA
10956909 TATAT
1 TATAT
10956914 GTGGTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATTA
Found at i:10961851 original size:26 final size:26
Alignment explanation
Indices: 10961822--10961873 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
10961812 CAAAAGGTAA
10961822 TGGTACTGGAAATTCTTATAAGCATT
1 TGGTACTGGAAATTCTTATAAGCATT
10961848 TGGTACTGGAAATTCTTATAAGCATT
1 TGGTACTGGAAATTCTTATAAGCATT
10961874 CTTCATATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (26 bp):
TGGTACTGGAAATTCTTATAAGCATT
Found at i:10965097 original size:20 final size:21
Alignment explanation
Indices: 10965059--10965100 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10965049 AAAAAAATAA
*
10965059 GACTAAGTCTTAGGGAGATTT
1 GACTAAGTCCTAGGGAGATTT
10965080 GACTAAGTCCTA-GGAGATTT
1 GACTAAGTCCTAGGGAGATTT
10965100 G
1 G
10965101 TTAGCTTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (21 bp):
GACTAAGTCCTAGGGAGATTT
Found at i:10965380 original size:2 final size:2
Alignment explanation
Indices: 10965373--10965416 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
10965363 TTGCGAGTTG
10965373 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10965415 AT
1 AT
10965417 GATTATTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10978385 original size:18 final size:18
Alignment explanation
Indices: 10978359--10978397 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10978349 GAGAGCGAAA
10978359 AAAACGAG-AAACGGGCC
1 AAAACGAGAAAACGGGCC
*
10978376 AAAACGGAGAAAATGGGCC
1 AAAAC-GAGAAAACGGGCC
10978395 AAA
1 AAA
10978398 GTACGAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 3 0.16
19 11 0.58
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (18 bp):
AAAACGAGAAAACGGGCC
Found at i:10986121 original size:32 final size:31
Alignment explanation
Indices: 10986085--10986149 Score: 86
Period size: 26 Copynumber: 2.2 Consensus size: 31
10986075 GTTGCTTCCC
10986085 CAAGTCTAGGTATTACTTTGAATTGGAATTCA
1 CAAGTCTA-GTATTACTTTGAATTGGAATTCA
10986117 C-A----AGTATTACTTTGAATTGGAATTCA
1 CAAGTCTAGTATTACTTTGAATTGGAATTCA
10986143 CAAGTCT
1 CAAGTCT
10986150 TAACATCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 11
0.72 0.00 0.28
Matches are distributed among these distances:
26 24 0.86
27 2 0.07
31 1 0.04
32 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (31 bp):
CAAGTCTAGTATTACTTTGAATTGGAATTCA
Found at i:10986123 original size:26 final size:26
Alignment explanation
Indices: 10986094--10986147 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
10986084 CCAAGTCTAG
10986094 GTATTACTTTGAATTGGAATTCACAA
1 GTATTACTTTGAATTGGAATTCACAA
10986120 GTATTACTTTGAATTGGAATTCACAA
1 GTATTACTTTGAATTGGAATTCACAA
10986146 GT
1 GT
10986148 CTTAACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (26 bp):
GTATTACTTTGAATTGGAATTCACAA
Found at i:10986654 original size:32 final size:32
Alignment explanation
Indices: 10986618--10986681 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
10986608 GCTTCAGAAG
10986618 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
1 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
10986650 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
1 TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
10986682 GTACGCAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (32 bp):
TTAAATTCCATAGTCTGAGAAGAAGCTCTGTT
Found at i:10998602 original size:20 final size:19
Alignment explanation
Indices: 10998570--10998619 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
10998560 TCAAACTTAT
* *
10998570 TTTAATAGT-ATTTTATTAA
1 TTTAATATTAATTTGATT-A
10998589 TTTAATATTAATTTGATTA
1 TTTAATATTAATTTGATTA
10998608 TCTTAATATTAA
1 T-TTAATATTAA
10998620 ATTAAATTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (19 bp):
TTTAATATTAATTTGATTA
Found at i:11001883 original size:93 final size:93
Alignment explanation
Indices: 11001771--11001941 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
11001761 GCCCATAAGT
* *
11001771 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11001836 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
11001864 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
11001929 CGAGTTCGGATGC
66 CGAGTTCGGATGC
11001942 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:11001938 original size:46 final size:46
Alignment explanation
Indices: 11001763--11001938 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
11001753 TGTAACCCGC
* * *
11001763 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
11001809 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
11001859 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
11001902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
11001939 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:11007654 original size:2 final size:2
Alignment explanation
Indices: 11007649--11007680 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11007639 TTTGAAGGTC
11007649 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11007681 TTTTTTTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11012218 original size:130 final size:130
Alignment explanation
Indices: 11011980--11012218 Score: 343
Period size: 130 Copynumber: 1.8 Consensus size: 130
11011970 CTGTGTGATT
* *
11011980 GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAATTAACTCATAGAAGATTGTTCATGA
1 GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAACTAACTCATAGAAGATTATTCATGA
* * * * *
11012045 TCGTAAATCAATTAATTTAGGCTATGATCATAAATTAGGGAGTCTTAATGATATTAAATGTAATC
66 TCGTAAACCAATTAACTTAGGCTATAATCATAAATCAGCGAGTCTTAATGATATTAAATGTAATC
* * * * * *
11012110 GTAAATCAGCGAGCTGTTTAGAGTAGCGATAGTAAATCAGCTATCTCATAGAAGATTATTCATGA
1 GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAACTAACTCATAGAAGATTATTCATGA
* *
11012175 TCGTAAACCAATTAACTTAGGCTGTAATCTTAAATCAGCGAGTC
66 TCGTAAACCAATTAACTTAGGCTATAATCATAAATCAGCGAGTC
11012219 GTTTTGCATG
Statistics
Matches: 94, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
130 94 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (130 bp):
GTAAACCAGCGAGCTGTCTAGAGTAGCAATAATAAATCAACTAACTCATAGAAGATTATTCATGA
TCGTAAACCAATTAACTTAGGCTATAATCATAAATCAGCGAGTCTTAATGATATTAAATGTAATC
Found at i:11019856 original size:18 final size:18
Alignment explanation
Indices: 11019579--11019861 Score: 160
Period size: 18 Copynumber: 15.3 Consensus size: 18
11019569 GAATAATTAT
* *
11019579 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
11019597 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * * * *
11019615 ATATCCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
11019633 TTATTCAGTATCGATCAATCGATCGG
1 TTATTCAGTA---A-CAATC-A---A
* *
11019659 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
*
11019677 TTATTTAGTAA-AATCAGA
1 TTATTCAGTAACAATCA-A
*
11019695 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAATCAA
* * *
11019712 GTTATTTAGTAACAGTCAT
1 -TTATTCAGTAACAATCAA
* *
11019731 TTATTCAGTGACAATCAG
1 TTATTCAGTAACAATCAA
**
11019749 TTATTCAGTAATGATCAA
1 TTATTCAGTAACAATCAA
* * * *
11019767 TTATTCAGAAATATTCAG
1 TTATTCAGTAACAATCAA
*
11019785 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAATC-AA
* *
11019804 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAATCAA
* *
11019821 TTA-TCTGTTAACAGTCAA
1 TTATTCAG-TAACAATCAA
*
11019839 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAATCAA
11019857 TTATT
1 TTATT
11019862 TTATACCTTT
Statistics
Matches: 202, Mismatches: 47, Indels: 32
0.72 0.17 0.11
Matches are distributed among these distances:
17 18 0.09
18 145 0.72
19 17 0.08
21 2 0.01
22 8 0.04
23 2 0.01
26 10 0.05
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:11020086 original size:45 final size:45
Alignment explanation
Indices: 11020029--11020132 Score: 147
Period size: 45 Copynumber: 2.3 Consensus size: 45
11020019 ATTCGGAACA
* *
11020029 GTAACAGT-ACAGTAACAATATCCTACACACAAAGTGAGGAATCG
1 GTAACAGTAACAGTAACAATATCCGACACACAAAGTGACGAATCG
* * *
11020073 GTAACGGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATCCGACACACAAAGTGACGAATCG
*
11020118 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
11020133 GCGGTAACAG
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
44 7 0.13
45 45 0.87
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATCCGACACACAAAGTGACGAATCG
Found at i:11021685 original size:5 final size:5
Alignment explanation
Indices: 11021669--11021721 Score: 97
Period size: 5 Copynumber: 10.4 Consensus size: 5
11021659 TCTTTAGCTT
11021669 ATATA TATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
11021720 AT
1 AT
11021722 TAAAACATAA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 42 0.89
6 5 0.11
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:11037065 original size:26 final size:26
Alignment explanation
Indices: 11037029--11037138 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
11037019 TGATACAAAT
*
11037029 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11037055 TGATAATAGGTTAGGTAAATATTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11037081 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
11037107 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
11037133 TGATAA
1 TGATAA
11037139 GAATTTCATG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:11038799 original size:27 final size:27
Alignment explanation
Indices: 11038758--11038897 Score: 183
Period size: 27 Copynumber: 5.2 Consensus size: 27
11038748 GAGGAAGCGT
*
11038758 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
11038785 TCTGGTGGCTCTGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11038812 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
11038839 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
11038867 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
11038893 TCTGG
1 TCTGG
11038898 CAGCCATGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
26 5 0.05
27 82 0.80
28 15 0.15
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:11038843 original size:54 final size:55
Alignment explanation
Indices: 11038758--11038897 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 55
11038748 GAGGAAGCGT
* * *
11038758 TCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
11038812 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
* *
11038867 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
11038898 CAGCCATGCT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 60 0.77
55 18 0.23
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:11038983 original size:19 final size:22
Alignment explanation
Indices: 11038959--11038998 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
11038949 TTCCCCACAC
11038959 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
11038978 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
11038999 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:11041041 original size:35 final size:35
Alignment explanation
Indices: 11041002--11041126 Score: 117
Period size: 35 Copynumber: 3.4 Consensus size: 35
11040992 GAGCCAAGCT
*
11041002 CTAGTTGGATAAACCAATGATATTTGCGCCCAGTG
1 CTAGTTGGATAAACCAACGATATTTGCGCCCAGTG
* * *
11041037 CTAGTCGGATAGACCAACGAATGTATTTAGTGAGCCCAGCT-
1 CTAGTTGGATAAACCAACG-A--TA-TT--TGCGCCCAG-TG
* * *
11041078 CTAGTTGGATAAACCAACGATATTTGCACCTAGCG
1 CTAGTTGGATAAACCAACGATATTTGCGCCCAGTG
11041113 CTAGTTGGATAAAC
1 CTAGTTGGATAAAC
11041127 TGACGAATGT
Statistics
Matches: 72, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
35 36 0.50
36 1 0.01
37 2 0.03
38 4 0.06
39 2 0.03
40 1 0.01
41 25 0.35
42 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (35 bp):
CTAGTTGGATAAACCAACGATATTTGCGCCCAGTG
Found at i:11041082 original size:41 final size:41
Alignment explanation
Indices: 11040961--11041097 Score: 135
Period size: 41 Copynumber: 3.5 Consensus size: 41
11040951 GCGCCCAACG
*** * *
11040961 CTAGTTGGATAAATTGATGAATGTATTTAGTGAGCCAAGCT
1 CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
* *
11041002 CTAGTTGGATAAACCAATG-A--TA-TT--TGCGCCCAG-T
1 CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
* *
11041036 GCTAGTCGGATAGACCAACGAATGTATTTAGTGAGCCCAGCT
1 -CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
11041078 CTAGTTGGATAAACCAACGA
1 CTAGTTGGATAAACCAACGA
11041098 TATTTGCACC
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
34 1 0.01
35 23 0.30
36 1 0.01
37 2 0.03
38 4 0.05
39 2 0.03
40 1 0.01
41 42 0.55
42 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (41 bp):
CTAGTTGGATAAACCAACGAATGTATTTAGTGAGCCCAGCT
Found at i:11041133 original size:76 final size:76
Alignment explanation
Indices: 11040949--11041136 Score: 259
Period size: 76 Copynumber: 2.5 Consensus size: 76
11040939 CTAACGGAAG
* * * *
11040949 TTGCGCCCAACGCTAGTTGGATAAATTGATGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAA
1 TTGCACCCAGCGCTAGTTGGATAAACTGACGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAA
*
11041014 ACCAATGATAT
66 ACCAACGATAT
* * * * ** *
11041025 TTGCGCCCAGTGCTAGTCGGATAGACCAACGAATGTATTTAGTGAGCCCAGCTCTAGTTGGATAA
1 TTGCACCCAGCGCTAGTTGGATAAACTGACGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAA
11041090 ACCAACGATAT
66 ACCAACGATAT
*
11041101 TTGCACCTAGCGCTAGTTGGATAAACTGACGAATGT
1 TTGCACCCAGCGCTAGTTGGATAAACTGACGAATGT
11041137 GTGCCGAGTA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
76 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (76 bp):
TTGCACCCAGCGCTAGTTGGATAAACTGACGAATGTATTTAGTGAGCCAAGCTCTAGTTGGATAA
ACCAACGATAT
Found at i:11044645 original size:44 final size:45
Alignment explanation
Indices: 11044579--11044698 Score: 144
Period size: 44 Copynumber: 2.8 Consensus size: 45
11044569 ATTTGTGGGG
*
11044579 AAAGCGCCGCTAAAAGTTATGGCCTTTAGTA-G-CATTTGT-AAGGA
1 AAAGCGCCGCTAAAAGTCATGGCCTTTAG-ACGACATTTGTGAA-GA
* *
11044623 AAAGCACCGCTAAAAGTCATGGCCTTTA-ACGACGTTTGTGAAGA
1 AAAGCGCCGCTAAAAGTCATGGCCTTTAGACGACATTTGTGAAGA
*
11044667 AAA-CGCCGCTAAAAGACATGGCCTTTAG-CGAC
1 AAAGCGCCGCTAAAAGTCATGGCCTTTAGACGAC
11044699 GCTTTCCCTA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
42 1 0.01
43 27 0.40
44 37 0.55
45 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (45 bp):
AAAGCGCCGCTAAAAGTCATGGCCTTTAGACGACATTTGTGAAGA
Found at i:11044699 original size:43 final size:43
Alignment explanation
Indices: 11044560--11044698 Score: 147
Period size: 43 Copynumber: 3.2 Consensus size: 43
11044550 AATCATAACT
* ** * *
11044560 TTTAGCGGCATTTGTGGGGAAAGCGCCGCTAAAAGTTATGGCC
1 TTTAGCGACATTTGTGAAGAAAACGCCGCTAAAAGTCATGGCC
* *
11044603 TTTAG-TAGCATTTGT-AAGGAAAAGCACCGCTAAAAGTCATGGCC
1 TTTAGCGA-CATTTGTGAA-GAAAA-CGCCGCTAAAAGTCATGGCC
* * *
11044647 TTTAACGACGTTTGTGAAGAAAACGCCGCTAAAAGACATGGCC
1 TTTAGCGACATTTGTGAAGAAAACGCCGCTAAAAGTCATGGCC
11044690 TTTAGCGAC
1 TTTAGCGAC
11044699 GCTTTCCCTA
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
43 42 0.54
44 33 0.42
45 3 0.04
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (43 bp):
TTTAGCGACATTTGTGAAGAAAACGCCGCTAAAAGTCATGGCC
Found at i:11044718 original size:43 final size:43
Alignment explanation
Indices: 11044629--11044720 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
11044619 AGGAAAAGCA
* *** *
11044629 CCGCTAAAAGTCATGGCCTTTAACGACGTTTGTGAAGAAAACG
1 CCGCTAAAAGACATGGCCTTTAACGACGTTTCCCAACAAAACG
* *
11044672 CCGCTAAAAGACATGGCCTTTAGCGACGCTTTCCCTACAAAA-G
1 CCGCTAAAAGACATGGCCTTTAACGACG-TTTCCCAACAAAACG
11044715 CCGCTA
1 CCGCTA
11044721 TAAAATAGAC
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (43 bp):
CCGCTAAAAGACATGGCCTTTAACGACGTTTCCCAACAAAACG
Found at i:11045603 original size:69 final size:68
Alignment explanation
Indices: 11045519--11045877 Score: 336
Period size: 69 Copynumber: 5.2 Consensus size: 68
11045509 AAATAAGTAC
* * *
11045519 TTAAACACTTCAATTTATAGCATTCAAACACTTCAATTTGCAGGACTTTAACACTTCAATTTACA
1 TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
11045584 GCA
66 GCA
* * * * *
11045587 CTTTAACACTTCAATTTACAGCATTTAAACACTTTAATTTGTAGCACTTTAACACCTCAATTAAC
1 -TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTAC
*
11045652 AACA
65 AGCA
* * * * * *
11045656 TTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATGTCCAGCAAC-TAAACACTTCAATT
1 -TTAAACACTTCAATTTACAGC-ATTTAAACACT-TCAATTTGCAGC-ACTTTAACACTTCAATT
* *
11045717 TGCAGTA
62 TACAGCA
* * * *
11045724 CTTAAACACTTCAATTTACAACATTTAAGCACTTCAATTTACAGCA-TTTAAACACTTTAATTTA
1 -TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTA
11045788 CAGCA
64 CAGCA
* *
11045793 TTCAAACACTTCAATTTGCAGCACTTT-AACACTTCAATTTGCAGCACTTTAACA-TCTCAATTA
1 TT-AAACACTTCAATTTACAGCA-TTTAAACACTTCAATTTGCAGCACTTTAACACT-TCAATTT
*
11045856 ACAACA
63 ACAGCA
* *
11045862 TTTATACACCTCAATT
1 -TTAAACACTTCAATT
11045878 ACATGAGTTG
Statistics
Matches: 232, Mismatches: 45, Indels: 26
0.77 0.15 0.09
Matches are distributed among these distances:
67 1 0.00
68 53 0.23
69 169 0.73
70 9 0.04
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (68 bp):
TTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACACTTCAATTTACA
GCA
Found at i:11045839 original size:23 final size:23
Alignment explanation
Indices: 11045517--11045877 Score: 287
Period size: 23 Copynumber: 15.7 Consensus size: 23
11045507 CAAAATAAGT
* *
11045517 ACTTAAACACTTCAATTTATAGC
1 ACTTTAACACTTCAATTTACAGC
* * *
11045540 A-TTCAAACACTTCAATTTGCAGG
1 ACTT-TAACACTTCAATTTACAGC
11045563 ACTTTAACACTTCAATTTACAGC
1 ACTTTAACACTTCAATTTACAGC
11045586 ACTTTAACACTTCAATTTACAGC
1 ACTTTAACACTTCAATTTACAGC
* **
11045609 A-TTTAAACACTTTAATTTGTAGC
1 ACTTT-AACACTTCAATTTACAGC
* * *
11045632 ACTTTAACACCTCAATTAACAAC
1 ACTTTAACACTTCAATTTACAGC
*
11045655 A-TTTATACACCTCAA-TTACAGC
1 ACTTTA-ACACTTCAATTTACAGC
** * *
11045677 GA-TAAAACA-TCTCAATGTCCAGC
1 -ACTTTAACACT-TCAATTTACAGC
* * *
11045700 AAC-TAAACACTTCAATTTGCAGT
1 -ACTTTAACACTTCAATTTACAGC
* *
11045723 ACTTAAACACTTCAATTTACAAC
1 ACTTTAACACTTCAATTTACAGC
11045746 A-TTTAAGCACTTCAATTTACAGC
1 ACTTTAA-CACTTCAATTTACAGC
*
11045769 A-TTTAAACACTTTAATTTACAGC
1 ACTTT-AACACTTCAATTTACAGC
* *
11045792 A-TTCAAACACTTCAATTTGCAGC
1 ACTT-TAACACTTCAATTTACAGC
*
11045815 ACTTTAACACTTCAATTTGCAGC
1 ACTTTAACACTTCAATTTACAGC
* *
11045838 ACTTTAACA-TCTCAATTAACAAC
1 ACTTTAACACT-TCAATTTACAGC
*
11045861 A-TTTATACACCTCAATT
1 ACTTTA-ACACTTCAATT
11045878 ACATGAGTTG
Statistics
Matches: 279, Mismatches: 41, Indels: 36
0.78 0.12 0.10
Matches are distributed among these distances:
22 32 0.11
23 237 0.85
24 10 0.04
ACGTcount: A:0.37, C:0.24, G:0.06, T:0.33
Consensus pattern (23 bp):
ACTTTAACACTTCAATTTACAGC
Found at i:11046277 original size:12 final size:12
Alignment explanation
Indices: 11046260--11046292 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
11046250 CAGCCCGCCC
11046260 ATATTAATTTTT
1 ATATTAATTTTT
11046272 ATATT-ATTTTT
1 ATATTAATTTTT
11046283 ATA-TAATTTT
1 ATATTAATTTT
11046293 AAAATATATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:11046448 original size:30 final size:29
Alignment explanation
Indices: 11046412--11046470 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
11046402 CAATTTAACA
11046412 AGCAAATACCTCTAAAATAATAACAAAATT
1 AGCAAATACCTCTAAAATAATAA-AAAATT
* *
11046442 AGCAAATATCTTTAAAATAATAAAAAATT
1 AGCAAATACCTCTAAAATAATAAAAAATT
11046471 TAACAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 6 0.22
30 21 0.78
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (29 bp):
AGCAAATACCTCTAAAATAATAAAAAATT
Found at i:11046533 original size:23 final size:22
Alignment explanation
Indices: 11046506--11046549 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
11046496 TATACAAACA
11046506 ATAATAAAAAAATTAGTAGCAAC
1 ATAATAAAAAAA-TAGTAGCAAC
**
11046529 ATAATACTAAAATAGTAGCAA
1 ATAATAAAAAAATAGTAGCAA
11046550 AATACGGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.23
Consensus pattern (22 bp):
ATAATAAAAAAATAGTAGCAAC
Done.