Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 106 of 211
Found at i:33032592 original size:36 final size:36
Alignment explanation
Indices: 33032545--33032707 Score: 119
Period size: 36 Copynumber: 4.4 Consensus size: 36
33032535 GTTCCCAAAA
* * ** * *
33032545 CTAGTCCGATAAATCAACAATGTTTTGTGCCCAGCT
1 CTAGTCGGATAAACCAACAATGAGTTGCGCCCAGCG
*
33032581 CTAGTCGGATAAACCAACAATGAGTTGCGCCTAGCG
1 CTAGTCGGATAAACCAACAATGAGTTGCGCCCAGCG
** * * * * *
33032617 CTAGTCGGATAAACGGACGATATCAAATGTGTGTCCAGCA
1 CTAGTCGGATAAACCAAC-A-AT-GAGT-TGCGCCCAGCG
* * * *
33032657 CTAATCGAATAAACCAACAATGATTTTGCACCCAGCG
1 CTAGTCGGATAAACCAACAATGA-GTTGCGCCCAGCG
33032694 CTAGTCGGATAAAC
1 CTAGTCGGATAAAC
33032708 TGAAAAATAC
Statistics
Matches: 95, Mismatches: 27, Indels: 9
0.73 0.21 0.07
Matches are distributed among these distances:
36 45 0.47
37 21 0.22
38 5 0.05
39 3 0.03
40 21 0.22
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (36 bp):
CTAGTCGGATAAACCAACAATGAGTTGCGCCCAGCG
Found at i:33032637 original size:112 final size:113
Alignment explanation
Indices: 33032505--33032707 Score: 286
Period size: 112 Copynumber: 1.8 Consensus size: 113
33032495 GTGCCCAGCA
* * *
33032505 CTAGTCAGATAAACTGACGATATCAAATGTGT-TCCCAAAACTAGTCCG-ATAAATCAACAATG-
1 CTAGTCAGATAAACGGACGATATCAAATGTGTGT-CCAAAACTAAT-CGAATAAACCAACAATGA
** *
33032567 TTTTGTGCCCAGCTCTAGTCGGATAAACCAACAATGAGTTGCGCCTAGCG
64 TTTTGCACCCAGCGCTAGTCGGATAAACCAACAATGAGTTGCGCCTAGCG
* **
33032617 CTAGTCGGATAAACGGACGATATCAAATGTGTGTCCAGCACTAATCGAATAAACCAACAATGATT
1 CTAGTCAGATAAACGGACGATATCAAATGTGTGTCCAAAACTAATCGAATAAACCAACAATGATT
33032682 TTGCACCCAGCGCTAGTCGGATAAAC
66 TTGCACCCAGCGCTAGTCGGATAAAC
33032708 TGAAAAATAC
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
111 2 0.03
112 51 0.65
113 26 0.33
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (113 bp):
CTAGTCAGATAAACGGACGATATCAAATGTGTGTCCAAAACTAATCGAATAAACCAACAATGATT
TTGCACCCAGCGCTAGTCGGATAAACCAACAATGAGTTGCGCCTAGCG
Found at i:33033460 original size:17 final size:17
Alignment explanation
Indices: 33033438--33033472 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33033428 AAATGTTTGA
33033438 CGGTTTCTCAAATTAAT
1 CGGTTTCTCAAATTAAT
33033455 CGGTTTCTCAAATTAAT
1 CGGTTTCTCAAATTAAT
33033472 C
1 C
33033473 TTCAATTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (17 bp):
CGGTTTCTCAAATTAAT
Found at i:33041936 original size:51 final size:51
Alignment explanation
Indices: 33041859--33042016 Score: 289
Period size: 51 Copynumber: 3.1 Consensus size: 51
33041849 ACTTCTAATC
* *
33041859 AGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACT
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
33041910 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
33041961 AGTGACAAGTGATAAGTGGTAGCTTTAGTTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
33042012 AGTGA
1 AGTGA
33042017 TAAATGTGAT
Statistics
Matches: 104, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 104 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:33064529 original size:40 final size:40
Alignment explanation
Indices: 33064470--33064578 Score: 121
Period size: 40 Copynumber: 2.7 Consensus size: 40
33064460 TACTGTAATG
** *
33064470 TATCGGGCCTTCTGCCTAGCAGGCTTCGTATC-GGTATATC
1 TATCGGGCCTAATGCCTAGCAGGCTTCGTACCAGG-ATATC
* * * *
33064510 TATTGGGCCTAATGCCTAGCAGGCTTTGTGCCAGGGTATC
1 TATCGGGCCTAATGCCTAGCAGGCTTCGTACCAGGATATC
* *
33064550 TATCGGGCTTAATGCCTAGCAAGCTTCGT
1 TATCGGGCCTAATGCCTAGCAGGCTTCGT
33064579 GCCGGTGTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 55 0.96
41 2 0.04
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.31
Consensus pattern (40 bp):
TATCGGGCCTAATGCCTAGCAGGCTTCGTACCAGGATATC
Found at i:33064581 original size:40 final size:40
Alignment explanation
Indices: 33064482--33064600 Score: 134
Period size: 40 Copynumber: 3.0 Consensus size: 40
33064472 TCGGGCCTTC
* ** * * *
33064482 TGCCTAGCAGGCTTCGTATCGGTATATCTATTGGGCCTAA
1 TGCCTAGCAAGCTTCGTGCCGGTGTATCTATCGGGCTTAA
* *
33064522 TGCCTAGCAGGCTTTGTGCCAGG-GTATCTATCGGGCTTAA
1 TGCCTAGCAAGCTTCGTGCC-GGTGTATCTATCGGGCTTAA
33064562 TGCCTAGCAAGCTTCGTGCCGGTGTAAT-TATCGGGCTTA
1 TGCCTAGCAAGCTTCGTGCCGGTGT-ATCTATCGGGCTTA
33064601 GCACCTAGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 2 0.03
40 62 0.91
41 4 0.06
ACGTcount: A:0.18, C:0.23, G:0.28, T:0.31
Consensus pattern (40 bp):
TGCCTAGCAAGCTTCGTGCCGGTGTATCTATCGGGCTTAA
Found at i:33066813 original size:49 final size:52
Alignment explanation
Indices: 33066721--33066817 Score: 148
Period size: 49 Copynumber: 1.9 Consensus size: 52
33066711 TTGATATAAA
*
33066721 AATAATTATATTAAAAATATTATTAAATTGTATATTTTTATTTTTATTTAAT
1 AATAATTATATTAAAAATATGATTAAATTGTATATTTTTATTTTTATTTAAT
33066773 AATAATTATATT-AAAATATGATTAAA-T-TAT-TTATTTATTTTTATT
1 AATAATTATATTAAAAATATGATTAAATTGTATATT-TTTATTTTTATT
33066818 AAATTATTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
48 2 0.05
49 15 0.35
50 1 0.02
51 13 0.30
52 12 0.28
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (52 bp):
AATAATTATATTAAAAATATGATTAAATTGTATATTTTTATTTTTATTTAAT
Found at i:33067240 original size:35 final size:37
Alignment explanation
Indices: 33067200--33067276 Score: 90
Period size: 35 Copynumber: 2.2 Consensus size: 37
33067190 TTATTAAATT
33067200 ATATTTAATAATA-ATTATGTTAA-AATATGATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
* * * *
33067235 ATATTT-ATATTATATTATTTTAATAATCTTATTAAA
1 ATATTTAATAATATATTATGTTAATAATATGATTAAA
33067271 AT-TTTA
1 ATATTTA
33067277 TAACAAAACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
34 5 0.14
35 18 0.51
36 12 0.34
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.51
Consensus pattern (37 bp):
ATATTTAATAATATATTATGTTAATAATATGATTAAA
Found at i:33067425 original size:44 final size:45
Alignment explanation
Indices: 33067361--33067458 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
33067351 GCTATTACAC
* *
33067361 TTCCATTCCATTCAATCAAACACA-AGAA-TACTATTACGCCTCTA
1 TTCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTA
* *
33067405 TTCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTA
1 TTCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTA
*
33067450 TTTCATTAC
1 TTCCATTAC
33067459 TCATCTATTC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.34, C:0.28, G:0.05, T:0.34
Consensus pattern (45 bp):
TTCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTA
Found at i:33069120 original size:17 final size:18
Alignment explanation
Indices: 33069088--33069125 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 18
33069078 AAATTATCAT
33069088 TGCATATGTAAGTTAAACA
1 TGCATATG-AAGTTAAACA
33069107 TGCATATG-AGTTAAACA
1 TGCATATGAAGTTAAACA
33069124 TG
1 TG
33069126 TAAGCTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (18 bp):
TGCATATGAAGTTAAACA
Found at i:33071181 original size:19 final size:18
Alignment explanation
Indices: 33071157--33071209 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
33071147 TTAAAACATG
33071157 TTTTTATAATTGAATTTAA
1 TTTTTA-AATTGAATTTAA
*
33071176 TTTTTAAAAAT-AATTTTAA
1 TTTTT-AAATTGAA-TTTAA
33071195 TTATTTAAATTGAAT
1 TT-TTTAAATTGAAT
33071210 GTGGGTTAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
18 2 0.07
19 20 0.71
20 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTTTTAAATTGAATTTAA
Found at i:33072839 original size:92 final size:92
Alignment explanation
Indices: 33072676--33072853 Score: 215
Period size: 92 Copynumber: 1.9 Consensus size: 92
33072666 ATTGTTATTA
*
33072676 GTTTTTATTGAAATGAAAATATACTAAAATACCCTAGAATAATAAAAATTATTTTAAATTATAGG
1 GTTTTTATTGAAATGAAAATATACTAAAATAACCTAGAATAATAAAAATTATTTTAAATTATAGG
*
33072741 ATATTTTCG-TAATTTCTCTAATCAAAT
66 ACATTTT-GATAATTTCTCTAATCAAAT
* *
33072768 GTTTTTGTTGAAAT-AAAA-ATACTAAAATAATCTAGAATAATATAAAA-TATTTT-AATTA-AG
1 GTTTTTATTGAAATGAAAATATACTAAAATAACCTAGAATAATA-AAAATTATTTTAAATTATAG
*
33072828 AAATGACATTTTGATAATTTTTCTAA
65 ----GACATTTTGATAATTTCTCTAA
33072854 CTAAATTGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 12
0.82 0.05 0.13
Matches are distributed among these distances:
88 2 0.03
89 5 0.07
90 28 0.37
91 9 0.12
92 31 0.41
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (92 bp):
GTTTTTATTGAAATGAAAATATACTAAAATAACCTAGAATAATAAAAATTATTTTAAATTATAGG
ACATTTTGATAATTTCTCTAATCAAAT
Found at i:33072976 original size:3 final size:3
Alignment explanation
Indices: 33072968--33072997 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
33072958 ATTACCTAAT
33072968 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
33072998 ATTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:33078430 original size:34 final size:34
Alignment explanation
Indices: 33078387--33078472 Score: 102
Period size: 34 Copynumber: 2.5 Consensus size: 34
33078377 GATATAAGTT
*
33078387 ATTTGGTGTGCTGGATGGATTAGCTC-TTACGAGC
1 ATTTGGTGTGCTGGATGGAATAGCTCATT-CGAGC
* * *
33078421 ATTTGGTGTGCTGGTTGGAATGGCTCATTTGAGC
1 ATTTGGTGTGCTGGATGGAATAGCTCATTCGAGC
* *
33078455 ATATGGTGTGCTAGATGG
1 ATTTGGTGTGCTGGATGG
33078473 TTAAACGACA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 42 0.95
35 2 0.05
ACGTcount: A:0.17, C:0.12, G:0.35, T:0.36
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGAATAGCTCATTCGAGC
Found at i:33080958 original size:50 final size:50
Alignment explanation
Indices: 33080874--33081052 Score: 178
Period size: 50 Copynumber: 3.5 Consensus size: 50
33080864 AACATGCCAA
* ** * * *
33080874 ACATGGTCTTACATGGGAGTTCTCATATCAGTGCCCATGCCATGTCCCAG
1 ACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAG
* * *
33080924 ACATGGTTTTACGGGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAG
1 ACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAG
* * *
33080974 ACATGGTCTTACATGGGACCTCTAATAATCTCAATGATGCCAATGCCATGTCCCAG
1 ACATGGTCTTACAGGGGACCTC---TCATCTC---GGTGCCAATGCCATGTCCCAG
* *
33081030 ACATGGTCTTACATGGGATCTCT
1 ACATGGTCTTACAGGGGACCTCT
33081053 TTACCCAAAT
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
50 60 0.56
53 7 0.07
56 40 0.37
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (50 bp):
ACATGGTCTTACAGGGGACCTCTCATCTCGGTGCCAATGCCATGTCCCAG
Found at i:33086857 original size:50 final size:50
Alignment explanation
Indices: 33086733--33086979 Score: 226
Period size: 50 Copynumber: 4.8 Consensus size: 50
33086723 GATAATAACA
* * * ** * * * *
33086733 TGCCAAAGCCATGTCCTAGACATGGTATTACATGGGATGTTTCTTGT-AT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * **
33086782 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* * * ** * *
33086832 TGCCCATGCCATGTCCCAAACATGGTTTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
* *
33086882 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTAATAATCTCAATG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-G
*
33086937 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
33086980 TTACCCAAAT
Statistics
Matches: 158, Mismatches: 33, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
49 37 0.23
50 78 0.49
53 2 0.01
55 1 0.01
56 40 0.25
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAG
Found at i:33088992 original size:16 final size:16
Alignment explanation
Indices: 33088951--33088993 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
33088941 GAATGTGTGA
33088951 AATGTGATATATGATT
1 AATGTGATATATGATT
33088967 AATG-GAATATATG-TT
1 AATGTG-ATATATGATT
33088982 -ATGTGATATATG
1 AATGTGATATATG
33088994 CTTGAATTAG
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 11 0.44
ACGTcount: A:0.37, C:0.00, G:0.21, T:0.42
Consensus pattern (16 bp):
AATGTGATATATGATT
Found at i:33089379 original size:9 final size:9
Alignment explanation
Indices: 33089367--33089392 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
33089357 ATTGATTTTA
33089367 TTTATGAGG
1 TTTATGAGG
33089376 TTTATGAGG
1 TTTATGAGG
33089385 TTTATGAG
1 TTTATGAG
33089393 TTATAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (9 bp):
TTTATGAGG
Found at i:33093241 original size:13 final size:13
Alignment explanation
Indices: 33093223--33093354 Score: 76
Period size: 13 Copynumber: 10.2 Consensus size: 13
33093213 AATGTGTAAA
*
33093223 ATGAAATGGTTAT
1 ATGAAATAGTTAT
*
33093236 ATGAAATAGATAT
1 ATGAAATAGTTAT
* * *
33093249 ATGGAAT-GGTAA
1 ATGAAATAGTTAT
33093261 ATG-AATCAGTTAT
1 ATGAAAT-AGTTAT
*
33093274 ATGGAAATAGATAT
1 AT-GAAATAGTTAT
*
33093288 ACGAAAT-GATTAT
1 ATGAAATAG-TTAT
*
33093301 ATG-AATCAATTAT
1 ATGAAAT-AGTTAT
*
33093314 ATGAAAATAGTTGT
1 ATG-AAATAGTTAT
* * *
33093328 ATTAAGTATTTAT
1 ATGAAATAGTTAT
33093341 ATGAAAT-GTTAT
1 ATGAAATAGTTAT
33093353 AT
1 AT
33093355 TGATAGGTGT
Statistics
Matches: 89, Mismatches: 21, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
11 3 0.03
12 16 0.18
13 51 0.57
14 13 0.15
15 6 0.07
ACGTcount: A:0.44, C:0.02, G:0.17, T:0.36
Consensus pattern (13 bp):
ATGAAATAGTTAT
Found at i:33093314 original size:40 final size:39
Alignment explanation
Indices: 33093232--33093323 Score: 114
Period size: 40 Copynumber: 2.4 Consensus size: 39
33093222 AATGAAATGG
* * *
33093232 TTATAT-GAAATAGATATATGGAATGGTAAATGAATCAG
1 TTATATGGAAATAGATATACGAAATGGTAAATGAATCAA
* *
33093270 TTATATGGAAATAGATATACGAAATGATTATATGAATCAA
1 TTATATGGAAATAGATATACGAAATG-GTAAATGAATCAA
*
33093310 TTATATGAAAATAG
1 TTATATGGAAATAG
33093324 TTGTATTAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 6 0.13
39 17 0.37
40 23 0.50
ACGTcount: A:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (39 bp):
TTATATGGAAATAGATATACGAAATGGTAAATGAATCAA
Found at i:33095067 original size:8 final size:8
Alignment explanation
Indices: 33095054--33095120 Score: 109
Period size: 8 Copynumber: 8.4 Consensus size: 8
33095044 GTAAAATCAG
33095054 AAACATTT
1 AAACATTT
33095062 AAACATTT
1 AAACATTT
33095070 AAACATTT
1 AAACATTT
33095078 AAACATTT
1 AAACATTT
*
33095086 AAAAATTT
1 AAACATTT
33095094 AAACATTT
1 AAACATTT
33095102 AAACATTT
1 AAACATTT
33095110 AATA-ATTT
1 AA-ACATTT
33095118 AAA
1 AAA
33095121 TCATATCATA
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
7 1 0.02
8 54 0.96
9 1 0.02
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (8 bp):
AAACATTT
Found at i:33101556 original size:16 final size:16
Alignment explanation
Indices: 33101512--33101558 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
33101502 GAGGAATGTG
*
33101512 TAAAAAAACAT-AAATA
1 TAAATAAACATGAAA-A
*
33101528 TAAATAGACATGAAAA
1 TAAATAAACATGAAAA
*
33101544 TAAATAAAGATGAAA
1 TAAATAAACATGAAA
33101559 TAAGAATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
16 23 0.88
17 3 0.12
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:33102733 original size:3 final size:3
Alignment explanation
Indices: 33102727--33102755 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
33102717 CTAAAAAAAG
33102727 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
33102756 TTGTGTCCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:33105680 original size:17 final size:17
Alignment explanation
Indices: 33105658--33105690 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
33105648 TAAATACAAT
33105658 AAAATTAACTATAATTA
1 AAAATTAACTATAATTA
33105675 AAAATTAACTATAATT
1 AAAATTAACTATAATT
33105691 TTTTTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTAACTATAATTA
Found at i:33105741 original size:21 final size:21
Alignment explanation
Indices: 33105688--33105743 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 21
33105678 ATTAACTATA
* *
33105688 ATTTTTTTTTTTAGGTTTTGG
1 ATTTTTTATTTTAGGTTTCGG
* ***
33105709 GTTTTGGGTTTTAGGTTTCGG
1 ATTTTTTATTTTAGGTTTCGG
33105730 ATTTTTTATTTTAG
1 ATTTTTTATTTTAG
33105744 ATCTTGAGTT
Statistics
Matches: 26, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.11, C:0.02, G:0.23, T:0.64
Consensus pattern (21 bp):
ATTTTTTATTTTAGGTTTCGG
Found at i:33106182 original size:34 final size:35
Alignment explanation
Indices: 33106136--33106203 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 35
33106126 GATTCAAAAG
* *
33106136 AAAAGAAAGCAGTATTCCACCATAACTATCGATTC
1 AAAAGAAAGCAGTATTCCAACATAACAATCGATTC
33106171 AAAAG-AAGCAGTATTCCAACATAACAATCGATT
1 AAAAGAAAGCAGTATTCCAACATAACAATCGATT
33106204 TAAACATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 26 0.84
35 5 0.16
ACGTcount: A:0.46, C:0.21, G:0.12, T:0.22
Consensus pattern (35 bp):
AAAAGAAAGCAGTATTCCAACATAACAATCGATTC
Found at i:33106261 original size:94 final size:94
Alignment explanation
Indices: 33106094--33106326 Score: 353
Period size: 94 Copynumber: 2.5 Consensus size: 94
33106084 TAGACAAGCT
* *
33106094 ACATAACAATCGATTTAAACATACAAACAATCGATTCAAAAGAAAAGAAAGCAGTATTCCACCAT
1 ACATAACAATCGATTTAAACATATAAAAAAT-GATTCAAAAGAAAAGAAAGCAGTATTCCACCAT
*
33106159 AACTATCGATTCAAAAGAAGCAGTATTCCA
65 AACTATCGATTCAAAAGAAGCAATATTCCA
33106189 ACATAACAATCGATTTAAACATATAAAAAATGATTCAAAAGAATAAG-AAGCAGTATTCCACCAT
1 ACATAACAATCGATTTAAACATATAAAAAATGATTCAAAAGAA-AAGAAAGCAGTATTCCACCAT
* *
33106253 AA-TAATCGATTCAAAAGAATCAATATTCTA
65 AACT-ATCGATTCAAAAGAAGCAATATTCCA
* *
33106283 ACATGACAATCGATTTAAACATATAAACAATTGATTCAAAAGAA
1 ACATAACAATCGATTTAAACATATAAA-AAATGATTCAAAAGAA
33106327 GCAGTATTCC
Statistics
Matches: 128, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
93 1 0.01
94 80 0.62
95 47 0.37
ACGTcount: A:0.50, C:0.17, G:0.09, T:0.24
Consensus pattern (94 bp):
ACATAACAATCGATTTAAACATATAAAAAATGATTCAAAAGAAAAGAAAGCAGTATTCCACCATA
ACTATCGATTCAAAAGAAGCAATATTCCA
Found at i:33106344 original size:55 final size:55
Alignment explanation
Indices: 33106256--33106389 Score: 205
Period size: 55 Copynumber: 2.4 Consensus size: 55
33106246 CCACCATAAT
* * *
33106256 AATCGATTCAAAAGAATCAATATTCTAACATGACAATCGATTTAAACATATAAAC
1 AATCGATTCAAAAGAAGCAATATTCCAACATGACAATCGATTTAAACATAAAAAC
* * *
33106311 AATTGATTCAAAAGAAGCAGTATTCCAACATGACAATTGATTTAAACATAAAAAC
1 AATCGATTCAAAAGAAGCAATATTCCAACATGACAATCGATTTAAACATAAAAAC
*
33106366 AATCGATCCAAAAGAAGCAATATT
1 AATCGATTCAAAAGAAGCAATATT
33106390 TGTGGGAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
55 70 1.00
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (55 bp):
AATCGATTCAAAAGAAGCAATATTCCAACATGACAATCGATTTAAACATAAAAAC
Found at i:33107820 original size:3 final size:3
Alignment explanation
Indices: 33107812--33107870 Score: 64
Period size: 3 Copynumber: 18.7 Consensus size: 3
33107802 TGTTAAATTG
* **
33107812 TTA TTA TTA CTGTA TTA TTA TTA GTA TTTA TTA TTA TTA TTA TGG TTA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
33107860 TTA TTA TTA TT
1 TTA TTA TTA TT
33107871 TCAATACAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
3 41 0.87
4 4 0.09
5 2 0.04
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:33108187 original size:27 final size:27
Alignment explanation
Indices: 33108164--33108215 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
33108154 CATATTTTCA
33108164 TAATTTATTAATATATTTTAATTTTAT
1 TAATTTATTAATATATTTTAATTTTAT
* * * *
33108191 TTATTTATTTATTTATTTTTATTTT
1 TAATTTATTAATATATTTTAATTTT
33108216 TATCTTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (27 bp):
TAATTTATTAATATATTTTAATTTTAT
Found at i:33117795 original size:16 final size:15
Alignment explanation
Indices: 33117747--33117796 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
33117737 AAAAGAAAAG
33117747 ATTATAA-T-TATTA
1 ATTATAATTATATTA
**
33117760 ATATATAATTATATCC
1 AT-TATAATTATATTA
33117776 ATTATAATATATATTA
1 ATTATAAT-TATATTA
33117792 ATTAT
1 ATTAT
33117797 TATCAGCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 2 0.07
14 5 0.17
15 7 0.24
16 15 0.52
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTATAATTATATTA
Found at i:33130423 original size:19 final size:18
Alignment explanation
Indices: 33130386--33130425 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
33130376 TAAGGGGTCC
**
33130386 AAGATGAAAGTTTTAGGG
1 AAGATGAAAGTGCTAGGG
33130404 AAGATGAAACGTGCTAGGG
1 AAGATGAAA-GTGCTAGGG
33130423 AAG
1 AAG
33130426 TTTGTGACGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.40, C:0.05, G:0.35, T:0.20
Consensus pattern (18 bp):
AAGATGAAAGTGCTAGGG
Found at i:33157077 original size:4 final size:4
Alignment explanation
Indices: 33157063--33157101 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
33157053 CACTTACACC
*
33157063 TTTG CTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
1 TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTTG TTT
33157102 ATGAATGTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.00, C:0.03, G:0.23, T:0.74
Consensus pattern (4 bp):
TTTG
Found at i:33160434 original size:15 final size:14
Alignment explanation
Indices: 33160409--33160456 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
33160399 AAATTGAGAG
*
33160409 AAGAAAAAAAGAAA
1 AAGAGAAAAAGAAA
*
33160423 TGAGAGAAAAAGAAA
1 -AAGAGAAAAAGAAA
33160438 AAGAGATAAAAGAAA
1 AAGAGA-AAAAGAAA
33160453 AAGA
1 AAGA
33160457 AAACGAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 5 0.17
15 24 0.83
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (14 bp):
AAGAGAAAAAGAAA
Found at i:33160438 original size:21 final size:21
Alignment explanation
Indices: 33160398--33160459 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
33160388 AATCTTGAAT
*
33160398 GAAATTGAGAGAAGAA-AAAAA
1 GAAA-TGAGAGAAAAAGAAAAA
33160419 GAAATGAGAGAAAAAGAAAAA
1 GAAATGAGAGAAAAAGAAAAA
* * *
33160440 GAGATAAAAGAAAAAGAAAA
1 GAAATGAGAGAAAAAGAAAA
33160460 CGAAGAAAAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.28
21 26 0.72
ACGTcount: A:0.71, C:0.00, G:0.23, T:0.06
Consensus pattern (21 bp):
GAAATGAGAGAAAAAGAAAAA
Found at i:33161443 original size:33 final size:33
Alignment explanation
Indices: 33161406--33161512 Score: 171
Period size: 33 Copynumber: 3.2 Consensus size: 33
33161396 ATTAAATGGA
*
33161406 AAAGGTAAAACTGAACTTTATTTTCCTTCTCCT
1 AAAGGTAAAACTGAACTTTATTTTCCTACTCCT
*
33161439 AAAGGTAAAA-TCGAACTTTGTTTTCCTACTCCT
1 AAAGGTAAAACT-GAACTTTATTTTCCTACTCCT
*
33161472 AAAGGTAAAACTGAACTTTCTTTTCCTACTCCT
1 AAAGGTAAAACTGAACTTTATTTTCCTACTCCT
33161505 AAAGGTAA
1 AAAGGTAA
33161513 GCCTCTTGAA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
32 1 0.01
33 67 0.97
34 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.36
Consensus pattern (33 bp):
AAAGGTAAAACTGAACTTTATTTTCCTACTCCT
Found at i:33167573 original size:21 final size:21
Alignment explanation
Indices: 33167549--33167615 Score: 100
Period size: 21 Copynumber: 3.2 Consensus size: 21
33167539 TCGGGTCAAC
*
33167549 CCCAAAATCACTTTTGCTTGA
1 CCCAAAATCACTTCTGCTTGA
33167570 CCCAAAATCACTTCTGCTCT-A
1 CCCAAAATCACTTCTGCT-TGA
*
33167591 CCCAAAATCACTTCTGTTTGA
1 CCCAAAATCACTTCTGCTTGA
33167612 CCCA
1 CCCA
33167616 CCCCAGTAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.28, C:0.34, G:0.07, T:0.30
Consensus pattern (21 bp):
CCCAAAATCACTTCTGCTTGA
Found at i:33171941 original size:40 final size:41
Alignment explanation
Indices: 33171882--33171971 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
33171872 TTTTTTTATA
* *
33171882 CTAAACCCCGAACCCCGAACC-CTAAA-CTTCGAACTCGAACC
1 CTAAACCTCGAACCCCGAACCTC-AAACCTT-GAACTCAAACC
*
33171923 C-AAACCTCGAACCTCGAACCTCAAACCTTGAACTCAAACC
1 CTAAACCTCGAACCCCGAACCTCAAACCTTGAACTCAAACC
33171963 CTAAACCTC
1 CTAAACCTC
33171972 AAACTCAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
40 31 0.72
41 12 0.28
ACGTcount: A:0.36, C:0.42, G:0.08, T:0.14
Consensus pattern (41 bp):
CTAAACCTCGAACCCCGAACCTCAAACCTTGAACTCAAACC
Found at i:33171942 original size:7 final size:7
Alignment explanation
Indices: 33171910--33171955 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
33171900 ACCCTAAACT
33171910 TCGAA-C
1 TCGAACC
33171916 TCGAACC
1 TCGAACC
*
33171923 -CAAACC
1 TCGAACC
33171929 TCGAACC
1 TCGAACC
33171936 TCGAACC
1 TCGAACC
*
33171943 TCAAACC
1 TCGAACC
*
33171950 TTGAAC
1 TCGAAC
33171956 TCAAACCCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
6 10 0.30
7 23 0.70
ACGTcount: A:0.35, C:0.39, G:0.11, T:0.15
Consensus pattern (7 bp):
TCGAACC
Found at i:33171969 original size:20 final size:20
Alignment explanation
Indices: 33171899--33171981 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
33171889 CCGAACCCCG
* *
33171899 AACCCTAAACTTCGAACTCG
1 AACCCTAAACCTCGAACTCA
*
33171919 AACCC-AAACCTCGAACCTCG
1 AACCCTAAACCTCGAA-CTCA
*
33171939 AA-CCTCAAACCTTGAACTCA
1 AACCCT-AAACCTCGAACTCA
*
33171959 AACCCTAAACCTCAAACTCA
1 AACCCTAAACCTCGAACTCA
33171979 AAC
1 AAC
33171982 TCAAACTCAA
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
19 11 0.20
20 31 0.57
21 12 0.22
ACGTcount: A:0.40, C:0.39, G:0.06, T:0.16
Consensus pattern (20 bp):
AACCCTAAACCTCGAACTCA
Found at i:33171975 original size:7 final size:7
Alignment explanation
Indices: 33171919--33171994 Score: 65
Period size: 7 Copynumber: 11.6 Consensus size: 7
33171909 TTCGAACTCG
33171919 AACC-CA
1 AACCTCA
*
33171925 AACCTCG
1 AACCTCA
*
33171932 AACCTCG
1 AACCTCA
33171939 AACCTCA
1 AACCTCA
**
33171946 AACCTTG
1 AACCTCA
33171953 AA-CTCA
1 AACCTCA
33171959 AACC-CTA
1 AACCTC-A
33171966 AACCTCA
1 AACCTCA
33171973 AA-CTCA
1 AACCTCA
33171979 AA-CTCA
1 AACCTCA
33171985 AA-CTCA
1 AACCTCA
33171991 AACC
1 AACC
33171995 ATGAACCATG
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
6 27 0.46
7 31 0.53
8 1 0.02
ACGTcount: A:0.42, C:0.39, G:0.04, T:0.14
Consensus pattern (7 bp):
AACCTCA
Found at i:33171980 original size:6 final size:6
Alignment explanation
Indices: 33171953--33171993 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
33171943 TCAAACCTTG
*
33171953 AACTCA AACCCTA AACCTCA AACTCA AACTCA AACTCA AAC
1 AACTCA AACTC-A AA-CTCA AACTCA AACTCA AACTCA AAC
33171994 CATGAACCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 23 0.74
7 6 0.19
8 2 0.06
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.15
Consensus pattern (6 bp):
AACTCA
Found at i:33173935 original size:29 final size:29
Alignment explanation
Indices: 33173914--33174145 Score: 242
Period size: 29 Copynumber: 8.2 Consensus size: 29
33173904 AAAGGCATTT
*
33173914 TTTTAACAGAGATGGCCACAAAGGCTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* ** **
33173943 TTTTAACAAAGATAGTGATGAAGGCTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* *
33173972 -TTTAACTA-AGATTGCCTCAAAGGCTTCC
1 TTTTAAC-AGAGATAGCCACAAAGGCTTCC
* * * *
33174000 TTTTAAAAAAGATAGACACAAAGG-TTTC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
33174028 TTTTAACAGAGATAGCCACAAAGGCTTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
**
33174057 TTTTAACAGAGATAGCCACAAAGAATTCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* * *
33174086 TTTTAAAAGAGATAGCCACGAAGGCGT-C
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
* *
33174114 TTTTCA-AG-GATAGCCACAAAGGCATCC
1 TTTTAACAGAGATAGCCACAAAGGCTTCC
33174141 TTTTA
1 TTTTA
33174146 GGGATAGCCA
Statistics
Matches: 166, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
26 15 0.09
27 7 0.04
28 51 0.31
29 93 0.56
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (29 bp):
TTTTAACAGAGATAGCCACAAAGGCTTCC
Found at i:33173976 original size:57 final size:57
Alignment explanation
Indices: 33173915--33174143 Score: 232
Period size: 57 Copynumber: 4.1 Consensus size: 57
33173905 AAGGCATTTT
* ** **
33173915 TTTAACAGAGATGGCCACAAAGGCTTCCTTTTAACAAAGATAGTGATGAAGGCTTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCCTTTTAACAAAGATAGACACAAAGGCTTCC
* * * * *
33173972 TTTAACTA-AGATTGCCTCAAAGGCTTCCTTTTAAAAAAGATAGACACAAAGGTTTCT
1 TTTAAC-AGAGATAGCCACAAAGGCTTCCTTTTAACAAAGATAGACACAAAGGCTTCC
* * **
33174029 TTTAACAGAGATAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAGAATTCC
1 TTTAACAGAGATAGCCACAAAGGCTTCCTTTTAACAAAGATAGACACAAAGGCTTCC
* * * * * *
33174086 TTTTAAAAGAGATAGCCACGAAGGCGT-CTTTT--CAAGGATAGCCACAAAGGCATCC
1 -TTTAACAGAGATAGCCACAAAGGCTTCCTTTTAACAAAGATAGACACAAAGGCTTCC
33174141 TTT
1 TTT
33174144 TAGGGATAGC
Statistics
Matches: 144, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
54 3 0.02
55 18 0.12
56 1 0.01
57 98 0.68
58 24 0.17
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (57 bp):
TTTAACAGAGATAGCCACAAAGGCTTCCTTTTAACAAAGATAGACACAAAGGCTTCC
Found at i:33174020 original size:86 final size:87
Alignment explanation
Indices: 33173930--33174145 Score: 237
Period size: 86 Copynumber: 2.5 Consensus size: 87
33173920 CAGAGATGGC
** ** * *
33173930 CACAAAGGCTTCCTTTTAACAAAGATAGTGATGAAGGCTTCC-TTTAACTA-AGATTGCCTCAAA
1 CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGGCTTCCTTTTAAC-AGAGATAGCCACAAA
**
33173993 GGCTTCCTTTTAAAAAAGATAGA
65 GAATTCCTTTTAAAAAAGATAGA
* *
33174016 CACAAAGG-TTTCTTTTAACAGAGATAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAG
1 CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAG
* *
33174080 AATTCCTTTTAAAAGAGATAGC
66 AATTCCTTTTAAAAAAGATAGA
* * * *
33174102 CACGAAGGCGT-CTTTT--CAAGGATAGCCACAAAGGCATCCTTTTA
1 CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGGCTTCCTTTTA
33174146 GGGATAGCCA
Statistics
Matches: 110, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
84 25 0.23
85 28 0.25
86 56 0.51
87 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (87 bp):
CACAAAGGCTTCCTTTTAACAAAGATAGCCACAAAGGCTTCCTTTTAACAGAGATAGCCACAAAG
AATTCCTTTTAAAAAAGATAGA
Found at i:33174135 original size:26 final size:28
Alignment explanation
Indices: 33173914--33174171 Score: 208
Period size: 29 Copynumber: 9.2 Consensus size: 28
33173904 AAAGGCATTT
*
33173914 TTTTAACAGAGATGGCCACAAAGGCTTCC
1 TTTTAA-AGAGATAGCCACAAAGGCTTCC
* ** **
33173943 TTTTAACAAAGATAGTGATGAAGGCTTCC
1 TTTTAA-AGAGATAGCCACAAAGGCTTCC
* *
33173972 -TTTAACTA-AGATTGCCTCAAAGGCTTCC
1 TTTTAA--AGAGATAGCCACAAAGGCTTCC
* * *
33174000 TTTTAAAAAAGATAGACACAAAGG-TTTC
1 TTTT-AAAGAGATAGCCACAAAGGCTTCC
33174028 TTTTAACAGAGATAGCCACAAAGGCTTCC
1 TTTTAA-AGAGATAGCCACAAAGGCTTCC
**
33174057 TTTTAACAGAGATAGCCACAAAGAATTCC
1 TTTTAA-AGAGATAGCCACAAAGGCTTCC
* *
33174086 TTTTAAAAGAGATAGCCACGAAGGCGT-C
1 TTTT-AAAGAGATAGCCACAAAGGCTTCC
* *
33174114 TTTTCAAG-GATAGCCACAAAGGCATCC
1 TTTTAAAGAGATAGCCACAAAGGCTTCC
* *
33174141 TTTT--AGGGATAGCCACGAAGG-TATCC
1 TTTTAAAGAGATAGCCACAAAGGCT-TCC
33174167 TTTTA
1 TTTTA
33174172 CAGAAATTTG
Statistics
Matches: 187, Mismatches: 31, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
25 2 0.01
26 35 0.19
27 10 0.05
28 47 0.25
29 89 0.48
30 4 0.02
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (28 bp):
TTTTAAAGAGATAGCCACAAAGGCTTCC
Found at i:33179395 original size:50 final size:50
Alignment explanation
Indices: 33179336--33179433 Score: 151
Period size: 50 Copynumber: 2.0 Consensus size: 50
33179326 CCTTTAGATC
** * *
33179336 TTTCCATATGATGCCATAACCCACCAGTTATGGTCTTACACGATATGGTA
1 TTTCCATATGACACCATAACCCACCAGCTATGGTCTTACACAATATGGTA
*
33179386 TTTCCATATGACACCATAGCCCACCAGCTATGGTCTTACACAATATGG
1 TTTCCATATGACACCATAACCCACCAGCTATGGTCTTACACAATATGG
33179434 CCTTTTCATT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (50 bp):
TTTCCATATGACACCATAACCCACCAGCTATGGTCTTACACAATATGGTA
Found at i:33181659 original size:18 final size:19
Alignment explanation
Indices: 33181636--33181671 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33181626 TATTGGATTG
33181636 TTTTGAATATG-ATTTTTA
1 TTTTGAATATGAATTTTTA
*
33181654 TTTTGAATTTGAATTTTT
1 TTTTGAATATGAATTTTT
33181672 GAATTGATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.25, C:0.00, G:0.11, T:0.64
Consensus pattern (19 bp):
TTTTGAATATGAATTTTTA
Found at i:33185864 original size:42 final size:43
Alignment explanation
Indices: 33185808--33185900 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 43
33185798 CTTTGGAACT
33185808 TTGGTGGCTCGGATGTGCAGG-AGCCTCAGACAACATCGGC-ACC
1 TTGGT-GCTCGGATGTGC-GGAAGCCTCAGACAACATCGGCAACC
* * *
33185851 TTGGTGCTTGGATGTGCGGAAGCCTCGGACACCATCGGCAACC
1 TTGGTGCTCGGATGTGCGGAAGCCTCAGACAACATCGGCAACC
33185894 TTGGTGC
1 TTGGTGC
33185901 ATTGCATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
41 2 0.04
42 28 0.62
43 15 0.33
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (43 bp):
TTGGTGCTCGGATGTGCGGAAGCCTCAGACAACATCGGCAACC
Found at i:33198486 original size:30 final size:29
Alignment explanation
Indices: 33198359--33198511 Score: 139
Period size: 29 Copynumber: 5.2 Consensus size: 29
33198349 AGCAAATCCC
* * *
33198359 TTGTGGCAATCTCTGCTATAAGGAAGCCT
1 TTGTGGCTATCTCTGTTAAAAGGAAGCCT
* *
33198388 ATGTGGCTATCTTTGTTAAAA-GAACGCCT
1 TTGTGGCTATCTCTGTTAAAAGGAA-GCCT
* ** * * * *
33198417 ATGTCACCATATTTGTTATAAGGAAGCCT
1 TTGTGGCTATCTCTGTTAAAAGGAAGCCT
* *
33198446 TTGTGTCTATCTCTGTTAAAAGGATGCCTT
1 TTGTGGCTATCTCTGTTAAAAGGAAGCC-T
33198476 TTGTGGCTATCTCTGTTAAAAGGACA-CCT
1 TTGTGGCTATCTCTGTTAAAAGGA-AGCCT
33198505 TTGTGGC
1 TTGTGGC
33198512 AAGACTTTGA
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
28 3 0.03
29 68 0.68
30 29 0.29
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (29 bp):
TTGTGGCTATCTCTGTTAAAAGGAAGCCT
Found at i:33201785 original size:14 final size:14
Alignment explanation
Indices: 33201768--33201796 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
33201758 TTTTAAAAAA
33201768 TTTTATTTATTTAT
1 TTTTATTTATTTAT
33201782 TTTTATTTATTTAT
1 TTTTATTTATTTAT
33201796 T
1 T
33201797 AAAAACAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTATTTATTTAT
Found at i:33202165 original size:24 final size:24
Alignment explanation
Indices: 33202125--33202171 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
33202115 GTCTACAACA
* *
33202125 TCAATATATAATTTAAATTTAAAT
1 TCAATATATAATATAAATATAAAT
33202149 TCAATAATATAA-ATAAATATAAA
1 TCAAT-ATATAATATAAATATAAA
33202172 AGATTTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (24 bp):
TCAATATATAATATAAATATAAAT
Found at i:33206597 original size:28 final size:27
Alignment explanation
Indices: 33206532--33206614 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
33206522 CAAGGCATCC
*
33206532 CTTTCAGAGTTCATCACAAAGGT-TATT
1 CTTTCAGAGTTCACCACAAA-GTCTATT
* *
33206559 CTTTTATAGTTTCACCACAAAGTCTATT
1 CTTTCAGAG-TTCACCACAAAGTCTATT
* * *
33206587 CTTTCAGAGTTCGCCAAAAAGGCTATT
1 CTTTCAGAGTTCACCACAAAGTCTATT
33206614 C
1 C
33206615 ACAGCTTTCG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 25 0.54
28 21 0.46
ACGTcount: A:0.29, C:0.22, G:0.13, T:0.36
Consensus pattern (27 bp):
CTTTCAGAGTTCACCACAAAGTCTATT
Found at i:33209604 original size:29 final size:29
Alignment explanation
Indices: 33209572--33209633 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
33209562 ATAGTACCCA
*
33209572 ATAAATATAACACCAACACAAAGTGCCTG
1 ATAAATATAACACCAACACAAAGTACCTG
* ** *
33209601 ATAACTATAACACGGATACAAAGTACCTG
1 ATAAATATAACACCAACACAAAGTACCTG
33209630 ATAA
1 ATAA
33209634 CTGTAATCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.48, C:0.21, G:0.11, T:0.19
Consensus pattern (29 bp):
ATAAATATAACACCAACACAAAGTACCTG
Found at i:33211781 original size:21 final size:21
Alignment explanation
Indices: 33211757--33211797 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
33211747 TTCGTTATTC
33211757 TATTTCAAAATATAGACCCAT
1 TATTTCAAAATATAGACCCAT
33211778 TATTTCAAAATATAGACCCA
1 TATTTCAAAATATAGACCCA
33211798 AACTTTTCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.32
Consensus pattern (21 bp):
TATTTCAAAATATAGACCCAT
Found at i:33216590 original size:28 final size:29
Alignment explanation
Indices: 33216530--33216590 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
33216520 ATAAAAAAAA
* * *
33216530 TTTCTCATAATATAACTAATGTAAAATTT
1 TTTCTCATAATATAACTAATATAAAAATG
* *
33216559 TTTCTCATTAT-TAATTAATATAAAAATG
1 TTTCTCATAATATAACTAATATAAAAATG
33216587 TTTC
1 TTTC
33216591 CCAATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 17 0.63
29 10 0.37
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (29 bp):
TTTCTCATAATATAACTAATATAAAAATG
Found at i:33216982 original size:5 final size:5
Alignment explanation
Indices: 33216972--33217000 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
33216962 AAATATTTTG
33216972 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
33217001 ATTTTCAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
TAAAT
Found at i:33222616 original size:26 final size:27
Alignment explanation
Indices: 33222587--33222637 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
33222577 GGGTAAAATG
33222587 GTAATTTTACCCTAT-AGGGTATTTTA
1 GTAATTTTACCCTATAAGGGTATTTTA
*
33222613 GTAATTTTACCCTTTAAGGGTATTT
1 GTAATTTTACCCTATAAGGGTATTT
33222638 CAGTCATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.25, C:0.12, G:0.16, T:0.47
Consensus pattern (27 bp):
GTAATTTTACCCTATAAGGGTATTTTA
Found at i:33224128 original size:24 final size:24
Alignment explanation
Indices: 33224079--33224129 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
33224069 TTTTTGAATT
* *
33224079 TCCTTGATTTTCTCCCCAATCTCC
1 TCCTTGATTTTCTCCCAAAACTCC
33224103 TCCTTGATTTTCTCCACAAAAC-CC
1 TCCTTGATTTTCTCC-CAAAACTCC
33224127 TCC
1 TCC
33224130 AAGACCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.18, C:0.41, G:0.04, T:0.37
Consensus pattern (24 bp):
TCCTTGATTTTCTCCCAAAACTCC
Found at i:33235633 original size:16 final size:15
Alignment explanation
Indices: 33235606--33235639 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
33235596 ATAACTAGTA
*
33235606 TATAATTATATTTAT
1 TATAATTATATTAAT
33235621 TATAATATATATTAAT
1 TATAAT-TATATTAAT
33235637 TAT
1 TAT
33235640 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:33240039 original size:19 final size:19
Alignment explanation
Indices: 33240015--33240053 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
33240005 AATAAATTAC
*
33240015 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTAAGT
33240034 TCATCTTAGTTAATTAAGT
1 TCATCTTAGTTAATTAAGT
33240053 T
1 T
33240054 GCTGGAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.49
Consensus pattern (19 bp):
TCATCTTAGTTAATTAAGT
Found at i:33240045 original size:54 final size:54
Alignment explanation
Indices: 33239982--33240118 Score: 202
Period size: 54 Copynumber: 2.5 Consensus size: 54
33239972 TAAATTAATA
* * *
33239982 ATCTTAGTTAACTAAGTTTCTTGAATAAATTACTCATCTTAGTTAATTGAGTTC
1 ATCTTAGTTAACTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTC
*
33240036 ATCTTAGTTAATTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTC
1 ATCTTAGTTAACTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTC
* * * *
33240090 AACTTAGTTCACTTAGTTGCTGGATTAAA
1 ATCTTAGTTAACTAAGTTGCTGGAATAAA
33240119 CTTTTAATGT
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 74 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (54 bp):
ATCTTAGTTAACTAAGTTGCTGGAATAAATTACTCATCTTAGTTAATTAAGTTC
Found at i:33244431 original size:19 final size:19
Alignment explanation
Indices: 33244407--33244495 Score: 71
Period size: 19 Copynumber: 4.8 Consensus size: 19
33244397 GAATAAGTTA
33244407 CTCATCTTAGTTAATTGAG
1 CTCATCTTAGTTAATTGAG
*
33244426 CTCATCTTAGTTAATTAAG
1 CTCATCTTAGTTAATTGAG
* *
33244445 -T--TGCTTGAATAAATT-A-
1 CTCAT-CTT-AGTTAATTGAG
* *
33244461 CTCATCTTCGTTACTTGAG
1 CTCATCTTAGTTAATTGAG
*
33244480 TTCATCTTAGTTAATT
1 CTCATCTTAGTTAATT
33244496 AAGTTACTAG
Statistics
Matches: 53, Mismatches: 10, Indels: 14
0.69 0.13 0.18
Matches are distributed among these distances:
16 1 0.02
17 9 0.17
18 11 0.21
19 32 0.60
ACGTcount: A:0.27, C:0.16, G:0.12, T:0.45
Consensus pattern (19 bp):
CTCATCTTAGTTAATTGAG
Found at i:33244455 original size:54 final size:54
Alignment explanation
Indices: 33244389--33244545 Score: 208
Period size: 54 Copynumber: 2.9 Consensus size: 54
33244379 ATAAGTATTT
* * *
33244389 AGTTGCTGGAATAAGTTACTCATCTTAGTTAATTGAGCTCATCTTAGTTAATTA
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* * *
33244443 AGTTGCTTGAATAAATTACTCATCTTCGTTACTTGAGTTCATCTTAGTTAATTA
1 AGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
* * * *
33244497 AGTTACTAGAATAAAATCACTCATTTTAGTTAATTAAGTTCA-CTTAGTT
1 AGTTGCTAGAAT-AAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTT
33244546 GCTGGATTAA
Statistics
Matches: 90, Mismatches: 12, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
54 66 0.73
55 24 0.27
ACGTcount: A:0.31, C:0.13, G:0.13, T:0.42
Consensus pattern (54 bp):
AGTTGCTAGAATAAATTACTCATCTTAGTTAATTGAGTTCATCTTAGTTAATTA
Found at i:33261917 original size:17 final size:18
Alignment explanation
Indices: 33261884--33261917 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33261874 ATGATGTGTC
33261884 AAACTATTTTCATGCTTG
1 AAACTATTTTCATGCTTG
33261902 AAACTATTTT-ATGCTT
1 AAACTATTTTCATGCTT
33261918 ACTTTTCTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (18 bp):
AAACTATTTTCATGCTTG
Found at i:33263531 original size:73 final size:73
Alignment explanation
Indices: 33263445--33263590 Score: 292
Period size: 73 Copynumber: 2.0 Consensus size: 73
33263435 TTAGTGTTTG
33263445 CCTTCCTTGGGTACGATCCTCAGAGTACTCACCTACTTCATTGTAACTATATTACAACCTAAGCA
1 CCTTCCTTGGGTACGATCCTCAGAGTACTCACCTACTTCATTGTAACTATATTACAACCTAAGCA
33263510 GCATACAT
66 GCATACAT
33263518 CCTTCCTTGGGTACGATCCTCAGAGTACTCACCTACTTCATTGTAACTATATTACAACCTAAGCA
1 CCTTCCTTGGGTACGATCCTCAGAGTACTCACCTACTTCATTGTAACTATATTACAACCTAAGCA
33263583 GCATACAT
66 GCATACAT
33263591 GTGAACACCA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.30
Consensus pattern (73 bp):
CCTTCCTTGGGTACGATCCTCAGAGTACTCACCTACTTCATTGTAACTATATTACAACCTAAGCA
GCATACAT
Found at i:33267114 original size:45 final size:44
Alignment explanation
Indices: 33267043--33267203 Score: 214
Period size: 45 Copynumber: 3.6 Consensus size: 44
33267033 ACTCATAGCA
* * * * *
33267043 CACCCTTATAGTCAATGATACTCGGTGGAATCAGCACATAGCAAC
1 CACCTTTATAATCAATG-TACCCGGTGGAATCAGCACACAACAAC
* * *
33267088 CACCTTGATAATCAATAGTACCCGGTGGAATCAACAGACAACAAC
1 CACCTTTATAATCAAT-GTACCCGGTGGAATCAGCACACAACAAC
33267133 CACCTTTATAATCAATGATACCCGGTGGAATCAGCACACAACAAC
1 CACCTTTATAATCAATG-TACCCGGTGGAATCAGCACACAACAAC
33267178 CACCTTTATAATCAATGGTACCCGGT
1 CACCTTTATAATCAAT-GTACCCGGT
33267204 ACACGTAGTA
Statistics
Matches: 102, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 1 0.01
45 99 0.97
46 2 0.02
ACGTcount: A:0.35, C:0.27, G:0.16, T:0.22
Consensus pattern (44 bp):
CACCTTTATAATCAATGTACCCGGTGGAATCAGCACACAACAAC
Found at i:33276577 original size:18 final size:18
Alignment explanation
Indices: 33276534--33276569 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33276524 AACTGCATTG
*
33276534 CATCTATAAGCATGAATA
1 CATCTATAAGCATGAAGA
33276552 CATCTATAAGCATGAAGA
1 CATCTATAAGCATGAAGA
33276570 GAGTTATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (18 bp):
CATCTATAAGCATGAAGA
Found at i:33282395 original size:50 final size:50
Alignment explanation
Indices: 33282308--33282493 Score: 198
Period size: 50 Copynumber: 3.7 Consensus size: 50
33282298 GGTAAAGAGA
* * **
33282308 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * *
33282358 TCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
* * * * *
33282408 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGA-AAC
1 TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATGAGAAC
* *
33282456 ATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 -TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCA
33282494 TGTTATTATC
Statistics
Matches: 115, Mismatches: 19, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
48 4 0.03
49 38 0.33
50 73 0.63
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (50 bp):
TCCCACGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAC
Found at i:33294241 original size:26 final size:26
Alignment explanation
Indices: 33294189--33294292 Score: 120
Period size: 26 Copynumber: 4.0 Consensus size: 26
33294179 ACACCAATAC
* * * * *
33294189 CGCAGCAAAACTGCCAGTAATAATAT
1 CGCAGCAAAGCTACCAATAACAGTAT
* *
33294215 CGCAGCAAAGCTGCTC-CTAACAGTAT
1 CGCAGCAAAGCTAC-CAATAACAGTAT
33294241 CGCAGCAAAGCTACCAATAACAGTAT
1 CGCAGCAAAGCTACCAATAACAGTAT
*
33294267 CGCAGCAAAGCTACCAGTAACAGTAT
1 CGCAGCAAAGCTACCAATAACAGTAT
33294293 ACTTCCTCCA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
25 1 0.01
26 67 0.97
27 1 0.01
ACGTcount: A:0.38, C:0.27, G:0.17, T:0.17
Consensus pattern (26 bp):
CGCAGCAAAGCTACCAATAACAGTAT
Found at i:33294507 original size:27 final size:27
Alignment explanation
Indices: 33294458--33294704 Score: 259
Period size: 27 Copynumber: 9.1 Consensus size: 27
33294448 TATAACAGTA
* * *
33294458 ATTTTACCCTGTG-GAGGTGTTTCAGTC
1 ATTTTACCCTATGAG-GGTATTTCGGTC
* *
33294485 ATTTTACGCTATGAGGGTATTTCGGTG
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * *
33294512 ATTTTATCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
*
33294539 ATTTTACCCTAT-AGGGGTATTTTGGTC
1 ATTTTACCCTATGA-GGGTATTTCGGTC
*
33294566 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* *
33294593 ATTTTACCCTAT-AGGGGTATTTTGATC
1 ATTTTACCCTATGA-GGGTATTTCGGTC
* * *
33294620 ATCTTACCCTATGGGGGTATTTTGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
**
33294647 ATTTTACCCTAT-AGGGGTATTTCAATC
1 ATTTTACCCTATGA-GGGTATTTCGGTC
* *
33294674 ATTTTACCCTATGGGGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
33294701 ATTT
1 ATTT
33294705 ATTGACCTCT
Statistics
Matches: 184, Mismatches: 29, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
27 183 0.99
28 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCGGTC
Found at i:33294516 original size:54 final size:54
Alignment explanation
Indices: 33294458--33294704 Score: 334
Period size: 54 Copynumber: 4.6 Consensus size: 54
33294448 TATAACAGTA
* * * * * * *
33294458 ATTTTACCCTGTGGAGGTGTTTCAGTCATTTTACGCTAT-GAGGGTATTTCGGTG
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAG-GGGTATTTCGATC
* * * *
33294512 ATTTTATCCTATGGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTTGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATC
*
33294566 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGATC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATC
* * *
33294620 ATCTTACCCTATGGGGGTATTTTGGTCATTTTACCCTATAGGGGTATTTCAATC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATC
*
33294674 ATTTTACCCTATGGGGGTATTTCGATCATTT
1 ATTTTACCCTATGGGGGTATTTCGGTCATTT
33294705 ATTGACCTCT
Statistics
Matches: 173, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
54 172 0.99
55 1 0.01
ACGTcount: A:0.19, C:0.16, G:0.23, T:0.43
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATC
Found at i:33294584 original size:81 final size:81
Alignment explanation
Indices: 33294482--33294704 Score: 347
Period size: 81 Copynumber: 2.8 Consensus size: 81
33294472 AGGTGTTTCA
* * * *
33294482 GTCATTTTACGCTATGAGGGTATTTCGGTGATTTTATCCTATGGGGGTATTTCGATCATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
33294547 CTATAGGGGTATTTTG
66 CTATAGGGGTATTTTG
* * *
33294563 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTTGATCATCTTACC
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
*
33294628 CTATGGGGGTATTTTG
66 CTATAGGGGTATTTTG
* **
33294644 GTCATTTTACCCTATAGGGGTATTTCAATCATTTTACCCTATGGGGGTATTTCGATCATTT
1 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTT
33294705 ATTGACCTCT
Statistics
Matches: 128, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 128 1.00
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATGGGGGTATTTCGATCATTTTACC
CTATAGGGGTATTTTG
Found at i:33295937 original size:24 final size:24
Alignment explanation
Indices: 33295884--33295939 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
33295874 ACTCCTTGAT
* *
33295884 TTTCTCCTTGTATCACTCCCCTTA
1 TTTCTCCTTGAATCACTCCCCTAA
*
33295908 TCTCTCCTTGAATCACTCCACC-AA
1 TTTCTCCTTGAATCACTCC-CCTAA
33295932 TTTCTCCT
1 TTTCTCCT
33295940 CAACTCCCCC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.16, C:0.39, G:0.04, T:0.41
Consensus pattern (24 bp):
TTTCTCCTTGAATCACTCCCCTAA
Found at i:33299924 original size:15 final size:16
Alignment explanation
Indices: 33299904--33299933 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
33299894 AACTGAGAAG
33299904 GTTGAA-AAAAATAAT
1 GTTGAAGAAAAATAAT
33299919 GTTGAAGAAAAATAA
1 GTTGAAGAAAAATAA
33299934 GCTCGTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (16 bp):
GTTGAAGAAAAATAAT
Found at i:33301519 original size:38 final size:38
Alignment explanation
Indices: 33301464--33301696 Score: 241
Period size: 38 Copynumber: 6.1 Consensus size: 38
33301454 AATTAAAATG
*
33301464 CGGTGATATTCGGGCTCCGTGCCTAGCAGGCTTTGTGC
1 CGGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGC
* * *
33301502 CGGTGATATTCATGCTCCGTGCCTAACAGGCTTTGTGT
1 CGGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGC
* * * ** *
33301540 CGGTGATATTTAGGCTCCGTTCCAAAAAGGCTTTGTAC
1 CGGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGC
** *
33301578 CGGTGATATTCAGGCTCTATGCCTAGCAGGCTTTGTGT
1 CGGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGC
* * * *
33301616 CGGTGATATTCAGGCCCCGTGCCTAGTAGGCGTTATGC
1 CGGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGC
* * * * *
33301654 CGGTGTATTATATCAAGCTCTGTGCTTATCAGGCTTCGTGC
1 CGGTG-A-TAT-TCAGGCTCCGTGCCTAGCAGGCTTTGTGC
33301695 CG
1 CG
33301697 ATGTTTTAAA
Statistics
Matches: 156, Mismatches: 36, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
38 130 0.83
39 1 0.01
40 3 0.02
41 22 0.14
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (38 bp):
CGGTGATATTCAGGCTCCGTGCCTAGCAGGCTTTGTGC
Found at i:33301751 original size:41 final size:41
Alignment explanation
Indices: 33301657--33301752 Score: 111
Period size: 41 Copynumber: 2.3 Consensus size: 41
33301647 GTTATGCCGG
* ** *
33301657 TGTATTATATCAAGCTCTGTGCTTATCAGGCTTCGTGCCGA
1 TGTATTATATCAAGCTCTGAGCTTAGAAGGCTTCGTGCCAA
* * * *
33301698 TGTTTTAAATCAAGCTTTGAGCTTAGAAGTCTTCGTGCCAA
1 TGTATTATATCAAGCTCTGAGCTTAGAAGGCTTCGTGCCAA
*
33301739 TGTATTGTATCAAG
1 TGTATTATATCAAG
33301753 TAAGTTGTAC
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.21, T:0.38
Consensus pattern (41 bp):
TGTATTATATCAAGCTCTGAGCTTAGAAGGCTTCGTGCCAA
Found at i:33314900 original size:14 final size:15
Alignment explanation
Indices: 33314872--33314901 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
33314862 AATCCAGTCC
33314872 AAAAATCACATTTTT
1 AAAAATCACATTTTT
*
33314887 AAAAATTACATTTTT
1 AAAAATCACATTTTT
33314902 GCCTCTAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAATCACATTTTT
Found at i:33325448 original size:24 final size:24
Alignment explanation
Indices: 33325421--33325500 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
33325411 CAGCTTGAAA
*
33325421 GAGCGTCCCATTATTAGCTCTCAT-
1 GAGCATCCCATTATTAGCTCTC-TC
* *
33325445 GAGCATCTCATTATTAGCCCTCTC
1 GAGCATCCCATTATTAGCTCTCTC
* * *
33325469 GAGCTTCCCGTTAATAGCTCT-TC
1 GAGCATCCCATTATTAGCTCTCTC
33325492 AGAGCATCC
1 -GAGCATCC
33325501 GATCGGTGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (24 bp):
GAGCATCCCATTATTAGCTCTCTC
Found at i:33325613 original size:26 final size:26
Alignment explanation
Indices: 33325564--33325621 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
33325554 CCTGATATAT
* *
33325564 GGCTCTTCGTGAGCTTCCCGATTAAA
1 GGCTCTTCGTGAGCTTCACAATTAAA
* * *
33325590 GGCTCTTTGTGAGCTTCATAATTAAT
1 GGCTCTTCGTGAGCTTCACAATTAAA
33325616 GGCTCT
1 GGCTCT
33325622 CTAGAGCTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (26 bp):
GGCTCTTCGTGAGCTTCACAATTAAA
Found at i:33325739 original size:24 final size:23
Alignment explanation
Indices: 33325712--33325759 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
33325702 TACCCGTTAT
33325712 TGGCTAGTATGAGCTTCCCAATTA
1 TGGCTAGTATGAGCTTCCC-ATTA
**
33325736 TGGCTCTTATGAGCTTCCCATTA
1 TGGCTAGTATGAGCTTCCCATTA
33325759 T
1 T
33325760 ACAACCCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (23 bp):
TGGCTAGTATGAGCTTCCCATTA
Found at i:33325800 original size:25 final size:25
Alignment explanation
Indices: 33325720--33325818 Score: 92
Period size: 25 Copynumber: 4.0 Consensus size: 25
33325710 ATTGGCTAGT
* **
33325720 ATGAGCTTCCCAAT-TATGGCTCTT
1 ATGAGCTTCCCATTATATGGCTCAA
*** *
33325744 ATGAGCTTCCCATTATACAACCCAA
1 ATGAGCTTCCCATTATATGGCTCAA
* * *
33325769 ATAAGCTTCCCATTACATGGCTCAC
1 ATGAGCTTCCCATTATATGGCTCAA
*
33325794 ATGAGCTTCCCGTTATATGGCTCAA
1 ATGAGCTTCCCATTATATGGCTCAA
33325819 GAGAGAGCTT
Statistics
Matches: 56, Mismatches: 18, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
24 13 0.23
25 43 0.77
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (25 bp):
ATGAGCTTCCCATTATATGGCTCAA
Found at i:33331905 original size:30 final size:29
Alignment explanation
Indices: 33331795--33331927 Score: 124
Period size: 29 Copynumber: 4.6 Consensus size: 29
33331785 CTGCTCCGTG
*
33331795 AACTATCCCTTTTCATATAT-GATGGTCGT
1 AACTATCCCTTTTCATA-ATCGATGGTCGA
* * * * *
33331824 CACTATCCCTTTTCATAGTTGATGGCCGT
1 AACTATCCCTTTTCATAATCGATGGTCGA
* * * * *
33331853 CACCATCCCTTTTCACAGTCGATAGTCGA
1 AACTATCCCTTTTCATAATCGATGGTCGA
*
33331882 AACTATCCCTTTTTCATAATCGATGGTCAA
1 AACTATCCC-TTTTCATAATCGATGGTCGA
*
33331912 AACCATCCCTTTTCAT
1 AACTATCCCTTTTCAT
33331928 TGGTTGATGA
Statistics
Matches: 86, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
28 1 0.01
29 61 0.71
30 24 0.28
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (29 bp):
AACTATCCCTTTTCATAATCGATGGTCGA
Found at i:33334401 original size:20 final size:20
Alignment explanation
Indices: 33334378--33334431 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
33334368 AACTAATATT
33334378 AAACATAATAAAAATATTAA
1 AAACATAATAAAAATATTAA
*
33334398 AAACATAATAATAGA-ATTAA
1 AAACATAATAA-AAATATTAA
*
33334418 ATACA-AATAAAAAT
1 AAACATAATAAAAAT
33334432 CAACAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 20 0.69
21 2 0.07
ACGTcount: A:0.69, C:0.06, G:0.02, T:0.24
Consensus pattern (20 bp):
AAACATAATAAAAATATTAA
Found at i:33334599 original size:13 final size:13
Alignment explanation
Indices: 33334581--33334622 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
33334571 GTATCAATGG
33334581 TAATAATAATAAA
1 TAATAATAATAAA
*
33334594 TAATAATAAGAAA
1 TAATAATAATAAA
*
33334607 CAA-AATAAATAAA
1 TAATAAT-AATAAA
33334620 TAA
1 TAA
33334623 ATAAAACAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (13 bp):
TAATAATAATAAA
Found at i:33338600 original size:25 final size:24
Alignment explanation
Indices: 33338572--33338625 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
33338562 AGAAAAAATT
*
33338572 AAATGTAAAAATTAAATTAAAACAA
1 AAATGTAAAAA-TAAAATAAAACAA
* * *
33338597 AAATATTAAAATAAAATAAAATAA
1 AAATGTAAAAATAAAATAAAACAA
33338621 AAATG
1 AAATG
33338626 GCTAAATTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (24 bp):
AAATGTAAAAATAAAATAAAACAA
Found at i:33338606 original size:19 final size:18
Alignment explanation
Indices: 33338578--33338617 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
33338568 AATTAAATGT
*
33338578 AAAAATTAAATTAAAACA
1 AAAAATTAAAATAAAACA
*
33338596 AAAATATTAAAATAAAATA
1 AAAA-ATTAAAATAAAACA
33338615 AAA
1 AAA
33338618 TAAAAATGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAATTAAAATAAAACA
Found at i:33340346 original size:15 final size:16
Alignment explanation
Indices: 33340326--33340359 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
33340316 AATCTTTTAA
33340326 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
33340341 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
33340357 AAA
1 AAA
33340360 ATTACATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:33341439 original size:2 final size:2
Alignment explanation
Indices: 33341432--33341466 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
33341422 TCTTATTTCA
33341432 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
33341467 TTTTAATCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:33343960 original size:20 final size:21
Alignment explanation
Indices: 33343918--33343962 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
33343908 CAGTTCGGCT
33343918 AATTTTTTTAATAAATACTAAA
1 AATTTTTTTAATAAATAC-AAA
33343940 AATTTATTTTAA-AAATA-AAA
1 AATTT-TTTTAATAAATACAAA
33343960 AAT
1 AAT
33343963 AAAAAAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.27
22 10 0.45
23 6 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTTTTTAATAAATACAAA
Found at i:33344416 original size:19 final size:19
Alignment explanation
Indices: 33344385--33344440 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
33344375 AAATATAAAA
*
33344385 AAAAT-ATTTAAAAATATT
1 AAAATCATTAAAAAATATT
* *
33344403 AAAATCATTAAAAAGTATA
1 AAAATCATTAAAAAATATT
33344422 AAAATCA-TAACAAAATATT
1 AAAATCATTAA-AAAATATT
33344441 TTTTAATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 8 0.26
19 23 0.74
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATCATTAAAAAATATT
Found at i:33346224 original size:7 final size:7
Alignment explanation
Indices: 33346212--33346237 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
33346202 TACACTTCAA
33346212 AAATTAC
1 AAATTAC
33346219 AAATTAC
1 AAATTAC
33346226 AAATTAC
1 AAATTAC
33346233 AAATT
1 AAATT
33346238 TAGAAAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (7 bp):
AAATTAC
Found at i:33347048 original size:70 final size:67
Alignment explanation
Indices: 33346923--33347054 Score: 158
Period size: 70 Copynumber: 1.9 Consensus size: 67
33346913 TACACGATAT
* *
33346923 AATGGTTTTGCCTTTTAACTTAATAAATAAACATTTATCACAACAACGTAGTTTTGCCTTTTAAC
1 AATGGTTTTGACTTTTAACTTAATAAATAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAAC
33346988 TC
66 TC
* * ** *
33346990 AATGGTTTTGACTTTTAACTTTAGA-AAAGGTAAACGTTTATTAAAACGGCGTAGTTTTGTCTTT
1 AATGGTTTTGACTTTTAAC-TTA-ATAAA--TAAACATTTATCAAAACAACGTAGTTTTGCCTTT
33347054 T
62 T
33347055 CTTATTCTGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
67 18 0.33
68 6 0.11
69 1 0.02
70 29 0.54
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.42
Consensus pattern (67 bp):
AATGGTTTTGACTTTTAACTTAATAAATAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAAC
TC
Found at i:33349023 original size:40 final size:40
Alignment explanation
Indices: 33348968--33349102 Score: 123
Period size: 37 Copynumber: 3.4 Consensus size: 40
33348958 ACCAGTTTGG
33348968 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
* * * ** * *
33349008 CACCCAGTGTCTCATCAGTTAAACCG-A--AGTAAGTTGG
1 CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
* * * * *
33349045 CATCTAGTGCCTCATCGAATAAATTCAAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGGAT-AATTCGAAGTAGTAAATTGA
*
33349086 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
33349103 ACTCGAAGTC
Statistics
Matches: 69, Mismatches: 22, Indels: 7
0.70 0.22 0.07
Matches are distributed among these distances:
37 22 0.32
38 3 0.04
39 2 0.03
40 21 0.30
41 21 0.30
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.26
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGGATAATTCGAAGTAGTAAATTGA
Found at i:33353594 original size:4 final size:4
Alignment explanation
Indices: 33353585--33353615 Score: 53
Period size: 4 Copynumber: 7.5 Consensus size: 4
33353575 CCTAAAATAC
33353585 TAAT TAAT TAAT TAAT TAAT TAAT TCAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT T-AAT TA
33353616 TTTTTCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 22 0.85
5 4 0.15
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:33355297 original size:16 final size:16
Alignment explanation
Indices: 33355276--33355310 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
33355266 CTGTAATGGA
33355276 AATGGAACAGAACTGT
1 AATGGAACAGAACTGT
*
33355292 AATGGAATAGAACTGT
1 AATGGAACAGAACTGT
33355308 AAT
1 AAT
33355311 CAATAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.23
Consensus pattern (16 bp):
AATGGAACAGAACTGT
Found at i:33355602 original size:60 final size:60
Alignment explanation
Indices: 33355489--33355644 Score: 182
Period size: 60 Copynumber: 2.6 Consensus size: 60
33355479 TTTTAATAGG
* *
33355489 ATTATTATTAAATATAATTCAATAAAAAT-A-A-ATAATTTAATAATATATTTAATA-AA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAACATATTTAATATAA
* * *
33355545 ATTATTATTGAATATAATTTAAAAAACAATAATATATAATTTAATAACGT-TCTTAATATAA
1 ATTATTATTAAATATAATTTAATAAA-AATAATATATAATTTAATAACATAT-TTAATATAA
33355606 A-TATTATTAAAATATGAA-TTAATAAAAATAATATATAAT
1 ATTATTATT-AAATAT-AATTTAATAAAAATAATATATAAT
33355645 ATTAGAAAAA
Statistics
Matches: 85, Mismatches: 7, Indels: 12
0.82 0.07 0.12
Matches are distributed among these distances:
56 23 0.27
57 3 0.04
58 1 0.01
59 2 0.02
60 39 0.46
61 15 0.18
62 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (60 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAACATATTTAATATAA
Found at i:33362562 original size:20 final size:21
Alignment explanation
Indices: 33362537--33362583 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
33362527 TATTGAGACA
33362537 CTTACC-GTTCCATTACC-TTT
1 CTTACCTGTTCCATT-CCTTTT
*
33362557 CTTACCTGTTTCATTCCTTTT
1 CTTACCTGTTCCATTCCTTTT
33362578 CTTACC
1 CTTACC
33362584 CATTTTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.13, C:0.34, G:0.04, T:0.49
Consensus pattern (21 bp):
CTTACCTGTTCCATTCCTTTT
Found at i:33367481 original size:101 final size:102
Alignment explanation
Indices: 33367361--33367545 Score: 259
Period size: 101 Copynumber: 1.8 Consensus size: 102
33367351 AAAATGATGG
* * * * *
33367361 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTTTA-CTAGA-A-TGATAGGTCGCATGTGTAG
1 TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTATC-AGATAGTGAT-GGTCACATGTGTAG
* *
33367423 TACTATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
64 TACTAGGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
33367462 TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
1 TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
*
33367527 CTAGGTGCATGCTACTATG
66 CTAGGTGCAGGCTACTATG
33367546 TGAACCGGTA
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
101 36 0.49
102 33 0.45
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (102 bp):
TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTATCAGATAGTGATGGTCACATGTGTAGTA
CTAGGTGCAGGCTACTATGCGTACCGGATAGCTTCGA
Found at i:33367522 original size:51 final size:51
Alignment explanation
Indices: 33367355--33367543 Score: 165
Period size: 51 Copynumber: 3.7 Consensus size: 51
33367345 AAAGAGAAAA
* * *
33367355 TGAT-GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTTTACTAGA-A-
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTAC-AGATAG
* * * * *
33367404 TGATAGGTCGCATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAG
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATAG
* * * * *
33367456 CT--TCGATCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTATCAGATAG
1 -TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGATAG
* *
33367507 TGAT-GGTCACATGTGTAGTACTAGGTGCATGCTACTA
1 TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
33367544 TGTGAACCGG
Statistics
Matches: 110, Mismatches: 23, Indels: 12
0.76 0.16 0.08
Matches are distributed among these distances:
49 4 0.04
50 37 0.34
51 67 0.61
52 1 0.01
53 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (51 bp):
TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGATAG
Found at i:33367553 original size:102 final size:101
Alignment explanation
Indices: 33367361--33367553 Score: 255
Period size: 102 Copynumber: 1.9 Consensus size: 101
33367351 AAAATGATGG
* * * * *
33367361 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTTTACTAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTACTAGAATGATAGGTCACATGTGTAGTAC
* * *
33367426 TATGTGTAGGCTACTATGCGTACCGGATAGCTTCGA
66 TAGGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
33367462 TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTA-TCAGATAGTGAT-GGTCACATGTGTAG
1 TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTACT-AGA-A-TGATAGGTCACATGTGTAG
* *
33367525 TACTAGGTGCATGCTACTATGTGAACCGG
63 TACTAGGTGCAGGCTACTATGCGAACCGG
33367554 TATCATTAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
100 1 0.01
101 36 0.46
102 38 0.48
103 4 0.05
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTAATATGTGCAGGCTACCACGTGTACTAGAATGATAGGTCACATGTGTAGTAC
TAGGTGCAGGCTACTATGCGAACCGGATAGCTTCGA
Found at i:33370164 original size:49 final size:50
Alignment explanation
Indices: 33370068--33370164 Score: 142
Period size: 49 Copynumber: 2.0 Consensus size: 50
33370058 ACATGTGAAA
* * * *
33370068 ATGTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGT
1 ATGTGATTATGTGATTACGTGTAAGACCATAGCTGGACCATGACATCGGT
*
33370118 ATGTGA-TATGTGATTACGTGTAAGACCATAGTTGGACCATGACATCG
1 ATGTGATTATGTGATTACGTGTAAGACCATAGCTGGACCATGACATCG
33370165 AGAAAATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
49 36 0.86
50 6 0.14
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (50 bp):
ATGTGATTATGTGATTACGTGTAAGACCATAGCTGGACCATGACATCGGT
Found at i:33372946 original size:51 final size:50
Alignment explanation
Indices: 33372829--33373162 Score: 246
Period size: 51 Copynumber: 6.6 Consensus size: 50
33372819 AAAGTGATGG
* * * * * * *
33372829 TCACGTGTGTAGTACTATGT-TAGGCTACTACGTGTACC-AGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTA-GTTCGA
* * * *
33372878 TCGCATGTGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTAG-TTCGA
* * ** *
33372929 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGTATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTAGT--TCGA
* * * * * * *
33372980 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACC-AGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTA-GTTCGA
* * * *
33373030 TCGCATGTGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTAG-TTCGA
* * ** *
33373081 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGTATAGTGAT-GG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTAGT--TCGA
* * *
33373132 TCACATGTGTAGTACTAGGTGCATGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
33373163 TGTGAACTGG
Statistics
Matches: 225, Mismatches: 49, Indels: 20
0.77 0.17 0.07
Matches are distributed among these distances:
49 19 0.08
50 54 0.24
51 150 0.67
52 2 0.01
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.31
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGGTAGTTCGA
Found at i:33372963 original size:28 final size:27
Alignment explanation
Indices: 33372931--33373015 Score: 90
Period size: 28 Copynumber: 3.2 Consensus size: 27
33372921 AGCTTCGATC
33372931 ACGTGTGTAGTACTATGTGCAGGCTACT
1 ACGTGTGTAGTACTATGTG-AGGCTACT
* *
33372959 ACGTGTATCGTA-TA-GTGATGG-T-C-
1 ACGTGTGTAGTACTATGTGA-GGCTACT
33372982 ACGTGTGTAGTACTATGTGTAGGCTACT
1 ACGTGTGTAGTACTATGTG-AGGCTACT
33373010 ACGTGT
1 ACGTGT
33373016 ACCAGAATGA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
23 10 0.22
24 3 0.07
25 7 0.15
26 7 0.15
27 3 0.07
28 16 0.35
ACGTcount: A:0.21, C:0.15, G:0.29, T:0.34
Consensus pattern (27 bp):
ACGTGTGTAGTACTATGTGAGGCTACT
Found at i:33373040 original size:101 final size:102
Alignment explanation
Indices: 33372821--33373162 Score: 299
Period size: 101 Copynumber: 3.4 Consensus size: 102
33372811 TGAAAGTGAA
* * * * * * * * *
33372821 AGTGATGGTCACGTGTGTAGTACTATGT-TAGGCTACTACGTGTACCAGA-ATG-ATAGGTCGCA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATA-GCTTCGATCACG
* * * **
33372883 TGTGTAGTACTATGTGCAGGCCACTATGCGTACCGGGT
65 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGTAT
* * * * * *
33372921 AGCT--TCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGTATAG-TGAT-GGTC
1 AG-TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGCT--TCGATC
*
33372982 ACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAG-A-
62 ACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GTAT
* * * *
33373022 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGATCACG
1 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGCTTCGATCACG
*
33373086 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGTAT
65 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGTAT
* *
33373124 AGTGATGGTCACATGTGTAGTACTAGGTGCATGCTACTA
1 AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
33373163 TGTGAACTGG
Statistics
Matches: 198, Mismatches: 30, Indels: 26
0.78 0.12 0.10
Matches are distributed among these distances:
99 2 0.01
100 25 0.13
101 98 0.49
102 67 0.34
103 6 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (102 bp):
AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGCGTACCGGATAGCTTCGATCACGT
GTGTAGTACTATGTGCAGGCTACTACGTGTACCGTAT
Found at i:33373096 original size:152 final size:152
Alignment explanation
Indices: 33372821--33373162 Score: 641
Period size: 152 Copynumber: 2.3 Consensus size: 152
33372811 TGAAAGTGAA
33372821 AGTGATGGTCACGTGTGTAGTACTATGT-TAGGCTACTACGTGTACCAGAATGATAGGTCGCATG
1 AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATG
33372885 TGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGATCACGTGTGTAGTACTATGTG
66 TGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGATCACGTGTGTAGTACTATGTG
33372950 CAGGCTACTACGTGTATCGTAT
131 CAGGCTACTACGTGTATCGTAT
33372972 AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATG
1 AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATG
33373037 TGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGATCACGTGTGTAGTACTATGTG
66 TGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGATCACGTGTGTAGTACTATGTG
33373102 CAGGCTACTACGTGTATCGTAT
131 CAGGCTACTACGTGTATCGTAT
* * * *
33373124 AGTGATGGTCACATGTGTAGTACTAGGTGCATGCTACTA
1 AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTA
33373163 TGTGAACTGG
Statistics
Matches: 186, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
151 28 0.15
152 158 0.85
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (152 bp):
AGTGATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATG
TGTAGTACTATGTGCAGGCCACTATGCGTACCGGGTAGCTTCGATCACGTGTGTAGTACTATGTG
CAGGCTACTACGTGTATCGTAT
Found at i:33373166 original size:26 final size:25
Alignment explanation
Indices: 33373086--33373166 Score: 69
Period size: 26 Copynumber: 3.2 Consensus size: 25
33373076 TTCGATCACG
*
33373086 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTA-GTGCATGCTACTA
* *
33373112 CGTGTATCGTA-TAGTG-ATGGTCAC-A
1 TGTGTA--GTACTAGTGCATGCT-ACTA
33373137 TGTGTAGTACTAGGTGCATGCTACTA
1 TGTGTAGTACTA-GTGCATGCTACTA
33373163 TGTG
1 TGTG
33373167 AACTGGTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
23 3 0.07
24 2 0.05
25 14 0.33
26 19 0.44
27 2 0.05
28 3 0.07
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (25 bp):
TGTGTAGTACTAGTGCATGCTACTA
Found at i:33377431 original size:12 final size:12
Alignment explanation
Indices: 33377414--33377444 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
33377404 AGTTTGTACG
33377414 TTTAAATAATGT
1 TTTAAATAATGT
*
33377426 TTTAAATTATGT
1 TTTAAATAATGT
33377438 TTTAAAT
1 TTTAAAT
33377445 GATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (12 bp):
TTTAAATAATGT
Found at i:33377689 original size:30 final size:30
Alignment explanation
Indices: 33377520--33377760 Score: 158
Period size: 30 Copynumber: 8.1 Consensus size: 30
33377510 TAACTAATGG
* * *
33377520 AAAGAGATAGCTTTGGCTATCAAATTAATGA
1 AAAGGGATAGCTTCGACTATCAAATT-ATGA
* * *
33377551 AAAAGGATAGCCTCGGA-TATCAAGTTAAT-A
1 AAAGGGATAGCTTC-GACTATCAAATT-ATGA
* * *
33377581 AAAGGGAT-GGTACGACCATCAACA--ATGA
1 AAAGGGATAGCTTCGACTATCAA-ATTATGA
* * * **
33377609 AAAGGGATGATG-AT-GACCATCGAACAATGA
1 AAAGGGAT-A-GCTTCGACTATCAAATTATGA
*
33377639 AAAGGGATAGCTTCTG-CTATCGAATTATGA
1 AAAGGGATAGCTTC-GACTATCAAATTATGA
*
33377669 AAAGGGATAGCTTCGACTATCAAATTGTGA
1 AAAGGGATAGCTTCGACTATCAAATTATGA
* * * *
33377699 AAATGGAT-GGTGACGACCATCAAATTATGA
1 AAAGGGATAGCT-TCGACTATCAAATTATGA
*
33377729 AAAGGGATAGCTTCGGCTATCAAATTATGA
1 AAAGGGATAGCTTCGACTATCAAATTATGA
33377759 AA
1 AA
33377761 TCAGTTAGCT
Statistics
Matches: 164, Mismatches: 31, Indels: 31
0.73 0.14 0.14
Matches are distributed among these distances:
27 2 0.01
28 13 0.08
29 20 0.12
30 103 0.63
31 25 0.15
32 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (30 bp):
AAAGGGATAGCTTCGACTATCAAATTATGA
Found at i:33377770 original size:30 final size:30
Alignment explanation
Indices: 33377635--33377779 Score: 112
Period size: 30 Copynumber: 4.8 Consensus size: 30
33377625 CCATCGAACA
** * *
33377635 ATGAAAAGGGATAGCTTCTGCTATCGAATT
1 ATGAAAACAGATAGCTTCGGCTATCAAATT
** *
33377665 ATGAAAAGGGATAGCTTCGACTATCAAATT
1 ATGAAAACAGATAGCTTCGGCTATCAAATT
* ** * * * *
33377695 GTGAAAATGGAT-GGTGACGACCATCAAATT
1 ATGAAAACAGATAGCT-TCGGCTATCAAATT
**
33377725 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAACAGATAGCTTCGGCTATCAAATT
* *
33377755 ATGAAATCAGTTAGCTTCGGCTATC
1 ATGAAAACAGATAGCTTCGGCTATC
33377780 GATTGGTAAA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
29 2 0.02
30 91 0.96
31 2 0.02
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (30 bp):
ATGAAAACAGATAGCTTCGGCTATCAAATT
Found at i:33377770 original size:90 final size:90
Alignment explanation
Indices: 33377606--33377779 Score: 231
Period size: 90 Copynumber: 1.9 Consensus size: 90
33377596 CCATCAACAA
* * * *
33377606 TGAAAAGGGATGATGATGACCATCGAACAATGAAAAGGGATAGCTTCTGCTATCGAATTATGAAA
1 TGAAAAGGGATGATGACGACCATCAAACAATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAA
**
33377671 AGGGATAGCTTCGACTATCAAATTG
66 ACAGATAGCTTCGACTATCAAATTG
* * **
33377696 TGAAAATGGATGGTGACGACCATCAAATTATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAA
1 TGAAAAGGGATGATGACGACCATCAAACAATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAA
* * *
33377761 TCAGTTAGCTTCGGCTATC
66 ACAGATAGCTTCGACTATC
33377780 GATTGGTAAA
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
90 71 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (90 bp):
TGAAAAGGGATGATGACGACCATCAAACAATGAAAAGGGATAGCTTCGGCTATCAAATTATGAAA
ACAGATAGCTTCGACTATCAAATTG
Found at i:33385213 original size:18 final size:19
Alignment explanation
Indices: 33385171--33385221 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
33385161 AATACTCATC
33385171 CCATTTCATCATCTCATATT
1 CCATTTC-TCATCTCATATT
*
33385191 CCATTTCTCATTTCATA-T
1 CCATTTCTCATCTCATATT
33385209 CCATTTCTCATCT
1 CCATTTCTCATCT
33385222 TTGTCATCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 13 0.45
19 9 0.31
20 7 0.24
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (19 bp):
CCATTTCTCATCTCATATT
Found at i:33396560 original size:6 final size:6
Alignment explanation
Indices: 33396551--33396577 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
33396541 CTCCTACAGA
33396551 CACTAC CACTAC CACTAC CACTAC CAC
1 CACTAC CACTAC CACTAC CACTAC CAC
33396578 CACACTGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.00, T:0.15
Consensus pattern (6 bp):
CACTAC
Found at i:33403460 original size:23 final size:23
Alignment explanation
Indices: 33403426--33403476 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
33403416 TGTTGACCGG
*
33403426 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
33403449 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
33403472 TGTAA
1 TGTAA
33403477 GAAAGTAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:33406135 original size:19 final size:19
Alignment explanation
Indices: 33406111--33406148 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
33406101 CAGCCTATTT
33406111 TCAATTAAGTCACTAATTA
1 TCAATTAAGTCACTAATTA
*
33406130 TCAATTAAGTCGCTAATTA
1 TCAATTAAGTCACTAATTA
33406149 CCCTTGATTG
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:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCAATTAAGTCACTAATTA
Found at i:33408652 original size:94 final size:94
Alignment explanation
Indices: 33408474--33408785 Score: 310
Period size: 94 Copynumber: 3.3 Consensus size: 94
33408464 ATAGCATGTT
* * * * * * *
33408474 ATTTTGCAAAGTTATAAAGCAGACACCCCGAGAGGAGACTTCTCACTAAGTTTAATAGAAGAACC
1 ATTTTGCAAAGTTACAAAGCAAACACCCCAAGAGGAGACTGCTCGCTAAGTTTAAAAGAAGAACT
* * * *
33408539 AC-TCATAGCCTCATAAGGCACTTAGCTTT
66 ACTTC-TAGTCTCTTAAGGCACTTAACTTA
* *
33408568 ATTTTGCAAAGTTACAAAGCAAACACCTCAAGAGGAGACTGCTTGCTAAGTTTAAAAGAAGAACT
1 ATTTTGCAAAGTTACAAAGCAAACACCCCAAGAGGAGACTGCTCGCTAAGTTTAAAAGAAGAACT
* * *
33408633 ACTTCTAGTCTCTTCAGGCACTTAAATAA
66 ACTTCTAGTCTCTTAAGGCACTTAACTTA
*** * * * * *
33408662 ATTCAACAAAGTTATAAAG-AAGACACCCCAAGAGGAAATTGCTCGCTATGTTT--AA-TAGAAC
1 ATTTTGCAAAGTTACAAAGCAA-ACACCCCAAGAGGAGACTGCTCGCTAAGTTTAAAAGAAGAAC
33408723 TACTTCTAGACTCTCTTAAGGCACTTAACTTA
65 TACTTCTAG--TCTCTTAAGGCACTTAACTTA
* * *
33408755 ATTTTGTAAAGTTACAAAGTAGACACCCCAA
1 ATTTTGCAAAGTTACAAAGCAAACACCCCAA
33408786 AATGGATATT
Statistics
Matches: 178, Mismatches: 35, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
91 14 0.08
92 2 0.01
93 43 0.24
94 117 0.66
95 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.27
Consensus pattern (94 bp):
ATTTTGCAAAGTTACAAAGCAAACACCCCAAGAGGAGACTGCTCGCTAAGTTTAAAAGAAGAACT
ACTTCTAGTCTCTTAAGGCACTTAACTTA
Found at i:33409387 original size:26 final size:26
Alignment explanation
Indices: 33409357--33409410 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
33409347 TCACCACTAG
* *
33409357 AACAATCAGTTTGTCGCCTCACCTTA
1 AACAATCAATTTGGCGCCTCACCTTA
* *
33409383 AACAATTAATTTGGCGCCTCATCTTA
1 AACAATCAATTTGGCGCCTCACCTTA
33409409 AA
1 AA
33409411 TAGATTGAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (26 bp):
AACAATCAATTTGGCGCCTCACCTTA
Found at i:33409730 original size:9 final size:9
Alignment explanation
Indices: 33409713--33409749 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
33409703 TGAGTTTTCG
33409713 AATTCGAAT
1 AATTCGAAT
*
33409722 AACTCGAAT
1 AATTCGAAT
*
33409731 AATTCAAAT
1 AATTCGAAT
33409740 AATTCGAAT
1 AATTCGAAT
33409749 A
1 A
33409750 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:33409870 original size:30 final size:30
Alignment explanation
Indices: 33409808--33409870 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
33409798 ACTTTTCCCT
* *
33409808 CAAAACTTTTACTTCTTCCCACTTTCCCCC
1 CAAAACTTTTACTTCCTCCCACTCTCCCCC
*
33409838 CAAAACTTTTACTTCCCTCCC-CTCTCCTCC
1 CAAAACTTTTACTT-CCTCCCACTCTCCCCC
33409868 CAA
1 CAA
33409871 CCCCCCAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.21, C:0.46, G:0.00, T:0.33
Consensus pattern (30 bp):
CAAAACTTTTACTTCCTCCCACTCTCCCCC
Found at i:33411005 original size:14 final size:14
Alignment explanation
Indices: 33410986--33411020 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
33410976 GATTATTTAT
33410986 TTTCCTCCTCAAAA
1 TTTCCTCCTCAAAA
* *
33411000 TTTCCTCCTCGAAT
1 TTTCCTCCTCAAAA
33411014 TTTCCTC
1 TTTCCTC
33411021 TAAACCAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.37, G:0.03, T:0.43
Consensus pattern (14 bp):
TTTCCTCCTCAAAA
Done.