Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold192
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: 2196177
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 12544 characters in sequence are not A, C, G, or T
File 8 of 14
Found at i:1148302 original size:79 final size:79
Alignment explanation
Indices: 1148156--1148330 Score: 208
Period size: 79 Copynumber: 2.2 Consensus size: 79
1148146 TCATTCATGT
* * * * *
1148156 TTTTATTTCTAAAATACCGATTTTCCACCATCGGGGATACTCAAACCCCGTTATTTCAGAGGGGA
1 TTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCAAACCCCATTATTTCAGAGGAGA
* * *
1148221 TACTCTAACTCCGG
66 TACTCCAACCCCGA
* * * * *
1148235 TTTTATTTCTAAAGCACCAATTTTCTACCATCAGGGATACTCCAACCCTATTGTTTTC-GAGGAG
1 TTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCAAACCCCATT-ATTTCAGAGGAG
1148299 ATACTCCAACCCCGA
65 ATACTCCAACCCCGA
*
1148314 TTTTATTTCCAAAACAC
1 TTTTATTTCTAAAACAC
1148331 AGGTTTTTCG
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
79 76 0.95
80 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTTATTTCTAAAACACCAATTTTCCACCATCAGGGATACTCAAACCCCATTATTTCAGAGGAGA
TACTCCAACCCCGA
Found at i:1148501 original size:79 final size:79
Alignment explanation
Indices: 1148370--1148620 Score: 265
Period size: 79 Copynumber: 3.2 Consensus size: 79
1148360 ATTTTCGAAA
** * * *
1148370 GGATACTCCGACCTCGTTA-TTTCTGAAGGGATACTCCAACATCGGTTTTATTTCTAAAACATTG
1 GGATACTCTAACCTCGTTATTTTC-GAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCG
* *
1148434 ATTTTCCATAATCGT
65 ATTTTCCACAATCGG
* *
1148449 GGATACTCTAACC-CTGTTATTTTCGAGGGGATACTCTAACCTTGGTTTTATTTCTAAAACATCG
1 GGATACTCTAACCTC-GTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCG
* *
1148513 ATTTTTCACCATCGG
65 ATTTTCCACAATCGG
* * * * * *
1148528 GGATACTTTAACCTCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTGTTTCCAAAATATCGA
1 GGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCGA
* *
1148593 CTTTT-CACCATCGA
66 -TTTTCCACAATCGG
* *
1148607 GGATTCTATAACCT
1 GGATACTCTAACCT
1148621 TATTTTCTCT
Statistics
Matches: 146, Mismatches: 22, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
78 1 0.01
79 136 0.93
80 9 0.06
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (79 bp):
GGATACTCTAACCTCGTTATTTTCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCGA
TTTTCCACAATCGG
Found at i:1148534 original size:180 final size:180
Alignment explanation
Indices: 1148190--1148534 Score: 408
Period size: 180 Copynumber: 1.9 Consensus size: 180
1148180 CCACCATCGG
* * *
1148190 GGATACTCAAACCCCGTTATTTCAGAGGGGATACTCTAACTCCGGTTTTATTTCTAAAGCACCAA
1 GGATACTCAAACCCCGTTATTTCAGAAGGGATACTCCAACTCCGGTTTTATTTCTAAAACACCAA
* * *
1148255 TTTTCTACCATCAGGGATACTCCAACCCTATTGTTTTCGAGGAGATACTCCAACCCCGATTTTAT
66 TTTTCCACAATCAGGGATACTCCAACCCTATTATTTTCGAGGAGATACTCCAACCCCGATTTTAT
* *
1148320 TTCCAAAACACAGGTTTTTCGCAATCGAGGATACTCCGTTATTTTCGAAA
131 TTCCAAAACACAGATTTTTCACAATCGAGGATACTCCGTTATTTTCGAAA
** * * ***
1148370 GGATACTCCGACCTCGTTATTTCTGAAGGGATACTCCAACAT-CGGTTTTATTTCTAAAACATTG
1 GGATACTCAAACCCCGTTATTTCAGAAGGGATACTCCAAC-TCCGGTTTTATTTCTAAAACACCA
* * * * * ** *
1148434 ATTTTCCATAATC-GTGGATACTCTAACCCTGTTATTTTCGAGGGGATACTCTAACCTTGGTTTT
65 ATTTTCCACAATCAG-GGATACTCCAACCCTATTATTTTCGAGGAGATACTCCAACCCCGATTTT
* * *
1148498 ATTTCTAAAACATC-GATTTTTCACCATCGGGGATACT
129 ATTTCCAAAACA-CAGATTTTTCACAATCGAGGATACT
1148535 TTAACCTCGT
Statistics
Matches: 136, Mismatches: 26, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
179 1 0.01
180 133 0.98
181 2 0.01
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (180 bp):
GGATACTCAAACCCCGTTATTTCAGAAGGGATACTCCAACTCCGGTTTTATTTCTAAAACACCAA
TTTTCCACAATCAGGGATACTCCAACCCTATTATTTTCGAGGAGATACTCCAACCCCGATTTTAT
TTCCAAAACACAGATTTTTCACAATCGAGGATACTCCGTTATTTTCGAAA
Found at i:1149866 original size:23 final size:22
Alignment explanation
Indices: 1149816--1149878 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 22
1149806 AGTGTTTTAC
1149816 AAAATTTTTT-TTTGAATTTAAA
1 AAAATTTTTTATTT-AATTTAAA
*
1149838 ATAAATTTTTTATTTAATTTATGA
1 A-AAATTTTTTATTTAATTTA-AA
1149862 AAAATTATATTTATTTA
1 AAAATT-T-TTTATTTA
1149879 TTATTTAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
22 1 0.03
23 20 0.57
24 6 0.17
25 8 0.23
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (22 bp):
AAAATTTTTTATTTAATTTAAA
Found at i:1152104 original size:13 final size:14
Alignment explanation
Indices: 1152086--1152115 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
1152076 CATAAAGTGT
1152086 TGTATCGATACA-A
1 TGTATCGATACATA
1152099 TGTATCGATACATA
1 TGTATCGATACATA
1152113 TGT
1 TGT
1152116 TTTGTATCGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (14 bp):
TGTATCGATACATA
Found at i:1152126 original size:32 final size:33
Alignment explanation
Indices: 1152066--1152134 Score: 113
Period size: 32 Copynumber: 2.1 Consensus size: 33
1152056 TTCAACGATT
1152066 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
* *
1152099 TGTATCGATACAT-ATGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
1152131 TGTA
1 TGTA
1152135 AGCTACTGCC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 21 0.62
33 13 0.38
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:1152261 original size:52 final size:52
Alignment explanation
Indices: 1152205--1152333 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
1152195 CACTGATCTT
*
1152205 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1152257 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1152309 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1152334 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1156156 original size:13 final size:13
Alignment explanation
Indices: 1156138--1156162 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1156128 GCCCTTACAA
1156138 TTTTTGAAAATAC
1 TTTTTGAAAATAC
1156151 TTTTTGAAAATA
1 TTTTTGAAAATA
1156163 TGGATGCGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTTTGAAAATAC
Found at i:1156530 original size:69 final size:69
Alignment explanation
Indices: 1156419--1156573 Score: 229
Period size: 69 Copynumber: 2.2 Consensus size: 69
1156409 CCCTCATAAG
* *
1156419 AATGGGGTTGGAGTATCCCCGACAATGATAATTTGGACAAAATAAGACTTAAATTTCGATGAGTT
1 AATGGGGTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGGT
1156484 TAAA
66 TAAA
** * * *
1156488 AATGGGGTTGGAGTATCCTTGACAATGATAATTTAGACAAAATAATATTTAAATTTTGATGAGGT
1 AATGGGGTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGGT
1156553 TAAA
66 TAAA
**
1156557 AACAGGGTTGGAGTATC
1 AATGGGGTTGGAGTATC
1156574 TCCTTGGAGG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 77 1.00
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.31
Consensus pattern (69 bp):
AATGGGGTTGGAGTATCCCCGACAATGATAATTTAGACAAAATAAGACTTAAATTTCGATGAGGT
TAAA
Found at i:1156785 original size:96 final size:93
Alignment explanation
Indices: 1156512--1156786 Score: 277
Period size: 96 Copynumber: 2.9 Consensus size: 93
1156502 ATCCTTGACA
* * *
1156512 ATGATAATTTAGACAAAATAATATTTAAATTTTGATGAGGTTAAAAACAGGGTTGGAGTATCTCC
1 ATGACAATTT-GACAAAAT-ATATTTAAATTTTGATGAGTTTAAAAACGGGGTTGGAGTATC-CC
* *
1156577 TT-GGAGGAATGGGGTTAGAGTGTCCCCATG
63 TTCGGAGGAATGGGGTTGGAGTGTCCCAATG
* * * * ***
1156607 ATGACAATTTAACTGAAAATAAAATTTAAATTTTGATAAGTTCAAAAACGAAATTGGAGTATTCC
1 ATGACAATTTGAC--AAAAT-ATATTTAAATTTTGATGAGTTTAAAAACGGGGTTGGAGTA-TCC
* *
1156672 C-TCGAAGGAATGGGGTTGGAGTGTCCTCAATT
62 CTTCGGAGGAATGGGGTTGGAGTGTCC-CAATG
* * *
1156704 ATGACAATTTGGACAAAATATGACTTAAATTTCGATGAGTTTAAAAGCGGGGTTGGAGTATCCCT
1 ATGACAATTT-GACAAAATAT-ATTTAAATTTTGATGAGTTTAAAAACGGGGTTGGAGTATCCCT
1156769 TCGGA-GAATTGGGGTTGG
64 TCGGAGGAA-TGGGGTTGG
1156787 TGTATCCCCG
Statistics
Matches: 146, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
94 2 0.01
95 18 0.12
96 109 0.75
97 15 0.10
98 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (93 bp):
ATGACAATTTGACAAAATATATTTAAATTTTGATGAGTTTAAAAACGGGGTTGGAGTATCCCTTC
GGAGGAATGGGGTTGGAGTGTCCCAATG
Found at i:1157390 original size:55 final size:53
Alignment explanation
Indices: 1157323--1157438 Score: 135
Period size: 55 Copynumber: 2.2 Consensus size: 53
1157313 AACACGAAGA
* *
1157323 AAGAAAACATGCAGCAAA-GAAAAATCAAAAAATGAAAACAAACTCCACGGCATG
1 AAGAAAAAATGCAACAAATG-AAAATCAAAAAATGAAAACAAACT-CACGGCATG
* ** * *
1157377 AAGAAGAAAATGCAACAAATGAAGATCAAGCAATGAAAATAAGCTCACGGCATG
1 AAGAA-AAAATGCAACAAATGAAAATCAAAAAATGAAAACAAACTCACGGCATG
1157431 AAGAAAAA
1 AAGAAAAA
1157439 CAATAAAGGA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
53 3 0.06
54 19 0.36
55 30 0.57
56 1 0.02
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (53 bp):
AAGAAAAAATGCAACAAATGAAAATCAAAAAATGAAAACAAACTCACGGCATG
Found at i:1159014 original size:85 final size:85
Alignment explanation
Indices: 1158868--1159027 Score: 214
Period size: 85 Copynumber: 1.9 Consensus size: 85
1158858 CCTAAAGGTA
* * * ** *
1158868 AGAAGCTTACTAGGGACAAGGCCGATAGGTAAACAGAGATGGGAATGGTTGATCAGAGACAAAGC
1 AGAAGCTTACTAGAGACAAAGCCGATAGGTAAACAAAGAAAGGAATAGTTGATCAGAGACAAAGC
1158933 CGACAGGTCACCTAGGAGTG
66 CGACAGGTCACCTAGGAGTG
* * * *
1158953 AGAAGTTTACTAGAGACAAAGTCGATAGGTAAACAAATAAAGGAATAGTTGAT-TGAGGACAAAG
1 AGAAGCTTACTAGAGACAAAGCCGATAGGTAAACAAAGAAAGGAATAGTTGATCAGA-GACAAAG
1159017 CCGACAGGTCA
65 CCGACAGGTCA
1159028 ACAAGGTTAA
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
84 2 0.03
85 62 0.97
ACGTcount: A:0.39, C:0.14, G:0.29, T:0.17
Consensus pattern (85 bp):
AGAAGCTTACTAGAGACAAAGCCGATAGGTAAACAAAGAAAGGAATAGTTGATCAGAGACAAAGC
CGACAGGTCACCTAGGAGTG
Found at i:1159223 original size:62 final size:62
Alignment explanation
Indices: 1159154--1159379 Score: 189
Period size: 62 Copynumber: 3.7 Consensus size: 62
1159144 AAATATGGGG
* * *
1159154 AGAACGAT-AAAGATGTCGATATGCTGATTCACGACCAGCGATATCGGGCTTGAAAGATGAGA
1 AGAACGATAAAAG-TGCCAATATGCTGATTCAAGACCAGCGATATCGGGCTTGAAAGATGAGA
* * *
1159216 AGAACGATAAAAGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGGCTTGAAAG--GA-A
1 AGAACGATAAAAGTGCCAATATGCTGATTCAAGACCAGCGATATCGGGCTTGAAAGATGAGA
* * * * * * * *
1159275 A-AA-GATTTGAAAAGTTCCAATGTGTTGATTCAAGGCTAACGACATCGGGATTG-AAGATGAGA
1 AGAACGA--T-AAAAGTGCCAATATGCTGATTCAAGACCAGCGATATCGGGCTTGAAAGATGAGA
* * * *
1159337 A-AACTGATAAAGGTGCCAATATGCTAATTCAAGGCCAACGATA
1 AGAAC-GATAAAAGTGCCAATATGCTGATTCAAGACCAGCGATA
1159380 CTAGACTTAA
Statistics
Matches: 135, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
57 2 0.01
58 2 0.01
59 6 0.04
60 39 0.29
61 30 0.22
62 50 0.37
63 4 0.03
64 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.23
Consensus pattern (62 bp):
AGAACGATAAAAGTGCCAATATGCTGATTCAAGACCAGCGATATCGGGCTTGAAAGATGAGA
Found at i:1159353 original size:121 final size:120
Alignment explanation
Indices: 1159196--1159429 Score: 310
Period size: 121 Copynumber: 1.9 Consensus size: 120
1159186 GACCAGCGAT
* * * * *
1159196 ATCGGGCTTGAAAGATGAGAAGAACGATAAAAGTGCCAATATGTTGATTCAAGGCCAGCGATATT
1 ATCGGGATTGAAAGATGAGAAGAACGATAAAAGTGCCAATATGCTAATTCAAGGCCAACGATACT
* * *
1159261 GGGCTTGAAAGGAAAAAGATTTGAAAAGTTCCAATGTGTTGATTCAAGGCTAACGAC
66 AGACTT-AAA-GAAAAAGATTTGAAAAGTGCCAATGTGTTGATTCAAGGCTAACGAC
*
1159318 ATCGGGATTG-AAGATGAGAA-AACTGATAAAGGTGCCAATATGCTAATTCAAGGCCAACGATAC
1 ATCGGGATTGAAAGATGAGAAGAAC-GATAAAAGTGCCAATATGCTAATTCAAGGCCAACGATAC
** **
1159381 TAGACTTAAAGATGAAGATTTGACGAGTGCCAATGTGTTGATTCAAGGC
65 TAGACTTAAAGAAAAAGATTTGAAAAGTGCCAATGTGTTGATTCAAGGC
1159430 CATCAAATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
119 34 0.35
120 6 0.06
121 49 0.50
122 9 0.09
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.24
Consensus pattern (120 bp):
ATCGGGATTGAAAGATGAGAAGAACGATAAAAGTGCCAATATGCTAATTCAAGGCCAACGATACT
AGACTTAAAGAAAAAGATTTGAAAAGTGCCAATGTGTTGATTCAAGGCTAACGAC
Found at i:1159370 original size:61 final size:60
Alignment explanation
Indices: 1159172--1159377 Score: 184
Period size: 60 Copynumber: 3.4 Consensus size: 60
1159162 AAAGATGTCG
* * * * *
1159172 ATATGCTGATTCACGACCAGCGATATCGGGCTTGAAAGATGAGAAGAAC-GATAAAAGTGCCA
1 ATATGTTGATTCAAGGCCAACGACATCGGGCTTG-AAGATGAGAA-AACTGAT-AAAGTGCCA
* * * * * * *
1159234 ATATGTTGATTCAAGGCCAGCGATATTGGGCTTGAA-AGGAAAAAGATTTGA-AAAGTTCCA
1 ATATGTTGATTCAAGGCCAACGACATCGGGCTTGAAGATGAGAAA-A-CTGATAAAGTGCCA
* * *
1159294 ATGTGTTGATTCAAGGCTAACGACATCGGGATTGAAGATGAGAAAACTGATAAAGGTGCCA
1 ATATGTTGATTCAAGGCCAACGACATCGGGCTTGAAGATGAGAAAACTGATAAA-GTGCCA
* *
1159355 ATATGCTAATTCAAGGCCAACGA
1 ATATGTTGATTCAAGGCCAACGA
1159378 TACTAGACTT
Statistics
Matches: 116, Mismatches: 22, Indels: 13
0.77 0.15 0.09
Matches are distributed among these distances:
59 4 0.03
60 48 0.41
61 32 0.28
62 32 0.28
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (60 bp):
ATATGTTGATTCAAGGCCAACGACATCGGGCTTGAAGATGAGAAAACTGATAAAGTGCCA
Found at i:1159559 original size:28 final size:28
Alignment explanation
Indices: 1159519--1161177 Score: 1796
Period size: 30 Copynumber: 57.1 Consensus size: 28
1159509 ACTAGCTTAA
1159519 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
1159547 GTGGGCTTTGAAAATGGGTGCCACTGACTT
1 GTGGGCTTTG-AAA-GGGTGCCACTGACTT
*
1159577 ATGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
1159606 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1159634 ATGGGCTTTGAAAGGGGATGCCATTGACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
* *
1159664 ATGGGCTTTGAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1159692 CTGGGCTTTGGAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
1159720 GTGGGCTTTGAAAATGGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
* *
1159749 GTGGGTTTTGAAAGGGGATGCCACTAACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
*
1159779 GTGGACTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1159807 GTGGGCTTCGGAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
1159835 GTGGGTTTTGAAATGGGATGCCACTGACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
* * *
1159865 GTGGGCTTTGAAAAAGCGTGCCATTAACTT
1 GTGGGCTTTG--AAAGGGTGCCACTGACTT
* *
1159895 GTGGGCTTTAAAAAGTGTGCCACTGACTT
1 GTGGGCTTT-GAAAGGGTGCCACTGACTT
* * *
1159924 GTGGGCTTTGAAAGAGTGCCACTAATTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
1159952 GTAGGCTTTAAAAGGGGATGCCATTTACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
1159982 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
** ** * * *
1160010 GTAAGCTTCAAAATGGGGTGCAAATAACTT
1 GTGGGCTTTGAAA--GGGTGCCACTGACTT
*
1160040 GTGGGTTTTGAAAAGGGATGCCACTGACTT
1 GTGGGCTTTG-AAAGGG-TGCCACTGACTT
*
1160070 GTGGGTTTTGAAAAGGGATGCCACTGACTT
1 GTGGGCTTTG-AAAGGG-TGCCACTGACTT
* * * *
1160100 GTGGGCTTTGGAATGGTACCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
1160128 GTGCGCTTTGAAAAAAGGGTGCCACTGACTT
1 GTGGGCTTTG---AAAGGGTGCCACTGACTT
* *
1160159 GTGAGCTTTGAAAGGGTGCCATTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1160187 ATGGGCTTTGAAATGGTGCCA-TTACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
1160214 GTGGGCTTTGAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1160242 GTGGGCTTTGGAAGGGTGCTACAGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160270 GTGGGCTTTTAAAAGGGTGCCACTAACTT
1 GTGGGC-TTTGAAAGGGTGCCACTGACTT
* *
1160299 GTGGGCTTTGAAAAAGGGTGCCCCTAACTT
1 GTGGGCTTTG--AAAGGGTGCCACTGACTT
* *
1160329 GTGGGCTTTGAAAGGGGAGGCCACTAACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
1160359 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160387 GTGGGCTTT-AGAAGGGTGCCACTAATTT
1 GTGGGCTTTGA-AAGGGTGCCACTGACTT
1160415 GTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
*
1160444 GTGGGCTTTGAAAGGGGATGCCACTAACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
* *
1160474 GTGGGCTTTGAAAAGGGTGCCATTAACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
* * *
1160503 TTGGGCTTTTGAAAGTGGTGACATTGACTT
1 GTGGGC-TTTGAAAG-GGTGCCACTGACTT
* *
1160533 GTAGGCTTTGAAAAGGGTGCTACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
*
1160562 GTAGGCTTTGAAAAGGGGTGCC-CTCGACTT
1 GTGGGCTTTG-AAA-GGGTGCCACT-GACTT
* *
1160592 GTGGGCTTTGAAATGGTGCCATTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1160620 GTGGGCTTTGGAATGGTGGCACTAGAC-T
1 GTGGGCTTTGAAAGGGTGCCACT-GACTT
* * *
1160648 ATGGGCTTTGGAAAGGTTGCCATTGACTT
1 GTGGGCTTT-GAAAGGGTGCCACTGACTT
*
1160677 GTGGGCTTTTGAAAAGAGTTGCCACTGACTT
1 GTGGGC-TTTG-AAAG-GGTGCCACTGACTT
* *
1160708 GTGGGTTTTGAAAAGGGGTGCCACTAACTT
1 GTGGGCTTTG-AAA-GGGTGCCACTGACTT
*
1160738 GTGGGCTTTGAAAAGGGGTGTCACTGACTT
1 GTGGGCTTTG-AAA-GGGTGCCACTGACTT
* * *
1160768 ATGGGCTTTGAAAGGGGTGCCATTGGCTT
1 GTGGGCTTTGAAA-GGGTGCCACTGACTT
* * *
1160797 GTGGACTTTGAAAAGGGATGCTACTAACTT
1 GTGGGCTTTG-AAAGGG-TGCCACTGACTT
* *
1160827 GGGGGCTTTGAAAGAGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160855 GTGGGTTTTAAAAAGGCGTGCCACTGACTT
1 GTGGGCTTT-GAAAGG-GTGCCACTGACTT
*
1160885 ATGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160913 GTGGGCTTTGAAAGGGTGCCATTGACTA
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
*
1160941 GTGAGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160969 GTGGGCTTTGAAAGGGGATGCTATTGACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
1160999 GTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1161027 GTGGGCTTTGAAAAGGGTGCCACTAACGT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTT
*
1161056 GTGGGCTTTTGAAAGGGGTGCCATTGACTT
1 GTGGGC-TTTGAAA-GGGTGCCACTGACTT
* *
1161086 ATGGGCTTTAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1161114 GTGGGCTTTAGGAAGGAATGCCACTGACTT
1 GTGGGCTTT-GAAAGG-GTGCCACTGACTT
*
1161144 GTGGGCTTTGAAAGGGGATGCCACTAACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTT
1161174 GTGG
1 GTGG
1161178 ACTTAAAGGG
Statistics
Matches: 1392, Mismatches: 180, Indels: 116
0.82 0.11 0.07
Matches are distributed among these distances:
27 25 0.02
28 495 0.36
29 317 0.23
30 502 0.36
31 50 0.04
32 3 0.00
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (28 bp):
GTGGGCTTTGAAAGGGTGCCACTGACTT
Found at i:1159681 original size:58 final size:56
Alignment explanation
Indices: 1159519--1161177 Score: 1796
Period size: 58 Copynumber: 28.6 Consensus size: 56
1159509 ACTAGCTTAA
1159519 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAATGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAA-GGGTGCCACTGACTT
*
1159577 ATGGGCTTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
1159634 ATGGGCTTTGAAAGGGGATGCCATTGACTTATGGGCTTTGAAAGGGTGCCACTAACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
1159692 CTGGGCTTTGGAAGAGTGCCACTGACTTGTGGGCTTTGAAAATGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTT
* * *
1159749 GTGGGTTTTGAAAGGGGATGCCACTAACTTGTGGACTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1159807 GTGGGCTTCGGAAGGGTGCCACTGACTTGTGGGTTTTGAAATGGGATGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGG-TGCCACTGACTT
* * * * *
1159865 GTGGGCTTTGAAAAAGCGTGCCATTAACTTGTGGGCTTTAAAAAGTGTGCCACTGACTT
1 GTGGGCTTTG--AAAGGGTGCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACTGACTT
* * * * * * *
1159924 GTGGGCTTTGAAAGAGTGCCACTAATTTGTAGGCTTTAAAAGGGGATGCCATTTACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GGG-TGCCACTGACTT
** ** * * *
1159982 GTGGGCTTTGAAAGGGTGCCACTGACTTGTAAGCTTCAAAATGGGGTGCAAATAACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAA--GGGTGCCACTGACTT
* *
1160040 GTGGGTTTTGAAAAGGGATGCCACTGACTTGTGGGTTTTGAAAAGGGATGCCACTGACTT
1 GTGGGCTTTG-AAAGGG-TGCCACTGACTTGTGGGCTTTG-AAAGGG-TGCCACTGACTT
* * * * *
1160100 GTGGGCTTTGGAATGGTACCACTAACTTGTGCGCTTTGAAAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG---AAAGGGTGCCACTGACTT
* * * * *
1160159 GTGAGCTTTGAAAGGGTGCCATTGACTTATGGGCTTTGAAATGGTGCCA-TTACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
1160214 GTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGCTTTGGAAGGGTGCTACAGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * * *
1160270 GTGGGCTTTTAAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAAGGGTGCCCCTAACTT
1 GTGGGC-TTTGAAAGGGTGCCACTGACTTGTGGGCTTTG--AAAGGGTGCCACTGACTT
* *
1160329 GTGGGCTTTGAAAGGGGAGGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160387 GTGGGCTTT-AGAAGGGTGCCACTAATTTGTGGGCTTTGAAAAGGGTGCCACTGACTT
1 GTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTT
* * *
1160444 GTGGGCTTTGAAAGGGGATGCCACTAACTTGTGGGCTTTGAAAAGGGTGCCATTAACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTT
* * * * *
1160503 TTGGGCTTTTGAAAGTGGTGACATTGACTTGTAGGCTTTGAAAAGGGTGCTACTGACTT
1 GTGGGC-TTTGAAAG-GGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTT
* * *
1160562 GTAGGCTTTGAAAAGGGGTGCC-CTCGACTTGTGGGCTTTGAAATGGTGCCATTGACTT
1 GTGGGCTTTG-AAA-GGGTGCCACT-GACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * * * * *
1160620 GTGGGCTTTGGAATGGTGGCACTAGAC-TATGGGCTTTGGAAAGGTTGCCATTGACTT
1 GTGGGCTTTGAAAGGGTGCCACT-GACTTGTGGGCTTT-GAAAGGGTGCCACTGACTT
* * *
1160677 GTGGGCTTTTGAAAAGAGTTGCCACTGACTTGTGGGTTTTGAAAAGGGGTGCCACTAACTT
1 GTGGGC-TTTG-AAAG-GGTGCCACTGACTTGTGGGCTTTG-AAA-GGGTGCCACTGACTT
* * * *
1160738 GTGGGCTTTGAAAAGGGGTGTCACTGACTTATGGGCTTTGAAAGGGGTGCCATTGGCTT
1 GTGGGCTTTG-AAA-GGGTGCCACTGACTTGTGGGCTTTGAAA-GGGTGCCACTGACTT
* * * * *
1160797 GTGGACTTTGAAAAGGGATGCTACTAACTTGGGGGCTTTGAAAGAGTGCCACTGACTT
1 GTGGGCTTTG-AAAGGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1160855 GTGGGTTTTAAAAAGGCGTGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTT-GAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1160913 GTGGGCTTTGAAAGGGTGCCATTGACTAGTGAGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* *
1160969 GTGGGCTTTGAAAGGGGATGCTATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
* * *
1161027 GTGGGCTTTGAAAAGGGTGCCACTAACGTGTGGGCTTTTGAAAGGGGTGCCATTGACTT
1 GTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC-TTTGAAA-GGGTGCCACTGACTT
* * * *
1161086 ATGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTAGGAAGGAATGCCACTGACTT
1 GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT-GAAAGG-GTGCCACTGACTT
*
1161144 GTGGGCTTTGAAAGGGGATGCCACTAACTTGTGG
1 GTGGGCTTTGAAA-GGG-TGCCACTGACTTGTGG
1161178 ACTTAAAGGG
Statistics
Matches: 1366, Mismatches: 178, Indels: 112
0.82 0.11 0.07
Matches are distributed among these distances:
55 47 0.03
56 153 0.11
57 208 0.15
58 436 0.32
59 339 0.25
60 158 0.12
61 25 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (56 bp):
GTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
Found at i:1166128 original size:49 final size:49
Alignment explanation
Indices: 1165886--1166507 Score: 582
Period size: 49 Copynumber: 13.1 Consensus size: 49
1165876 CTTAGGAATG
* * * *
1165886 TTAAAGATGAAAGTGCCAATGTGCTGATTCAAGGCCAG-TGACATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* ** *
1165935 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGA--A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
1165987 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAG-TGATATTGGAC
1 TTAAAGA--A-GAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* * * *
1166039 TT--A-AAG-A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
*
1166082 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *** * * *
1166131 TTGGACTTA-AAGGTGCTAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TT-AAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
1166180 TTAAAGATGAAGGTGCCAATACGCTGATTCAAGGCCAGCAATATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
*
1166229 TT-----A-AAGGTGCCAATGA-GCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGAAGAAGGTGCCAAT-ATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
1166272 TTAAAGAAGAAGATGCCAATACGCTGATTCAAGGCTAG-TGATATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGAC
* * *
1166321 TT-----A-AAGGTGCCTATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
1166364 TTAAAGAAGAAGATGCCAATATGCTGATTCAAGGTCAGCGATATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* *
1166413 TT-----A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
* * *
1166456 TTAAAGAAGAAGATGCCAATATGCTGATTCAAGGCCAGCAATATTGGGC
1 TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
1166505 TTA
1 TTA
1166508 GAAGGGTTGC
Statistics
Matches: 470, Mismatches: 67, Indels: 72
0.77 0.11 0.12
Matches are distributed among these distances:
43 141 0.30
44 4 0.01
45 2 0.00
46 3 0.01
47 2 0.00
48 6 0.01
49 225 0.48
50 3 0.01
52 84 0.18
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
TTAAAGAAGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC
Found at i:1166275 original size:92 final size:92
Alignment explanation
Indices: 1165952--1166512 Score: 798
Period size: 92 Copynumber: 6.0 Consensus size: 92
1165942 TGACAAAGAC
* * * * **
1165952 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGA
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA--A-GAAGATGCCAATATGCTGA
** *
1166017 TTCAAGGCCAGTGATATTGGACTTAAAGAT
63 TTCAAGGCCAGCAATATTGGACTTAAAGGT
* * *
1166047 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGAAGAAGGTGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
*
1166112 AAGGCTAGCTATATTGGACTTGGACTTAAAGGT
66 AAGGCCAGC-A-A-T--A-TTGGACTTAAAGGT
* * * *
1166145 GCTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATACGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1166210 AAGGCCAGCAATATTGGACTTAAAGGT
66 AAGGCCAGCAATATTGGACTTAAAGGT
* *
1166237 GCCAATGAGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATACGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
* **
1166302 AAGGCTAGTGATATTGGACTTAAAGGT
66 AAGGCCAGCAATATTGGACTTAAAGGT
*
1166329 GCCTATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
* *
1166394 AAGGTCAGCGATATTGGACTTAAAGGT
66 AAGGCCAGCAATATTGGACTTAAAGGT
1166421 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
1 GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
*
1166486 AAGGCCAGCAATATTGGGCTTAGAAGG
66 AAGGCCAGCAATATTGGACTTA-AAGG
1166513 GTTGCCACCG
Statistics
Matches: 427, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
92 295 0.69
93 6 0.01
94 1 0.00
95 41 0.10
96 1 0.00
97 2 0.00
98 81 0.19
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (92 bp):
GCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGATGCCAATATGCTGATTC
AAGGCCAGCAATATTGGACTTAAAGGT
Found at i:1166545 original size:32 final size:32
Alignment explanation
Indices: 1166500--1166640 Score: 200
Period size: 32 Copynumber: 4.5 Consensus size: 32
1166490 CCAGCAATAT
1166500 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1166530 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
*
1166562 TGGGCTTTGAGAAGGGTTGCCATCGACTTGTG
1 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
* *
1166594 TGGGCTTTGAGAAAAAGGTTGCCACCAAC-T-TG
1 TGGGCTTTGAG--AAGGGTTGCCACCGACTTGTG
*
1166626 TGGGCTTTGAAAAGG
1 TGGGCTTTGAGAAGG
1166641 AGAAAGATGC
Statistics
Matches: 101, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
30 8 0.08
31 2 0.02
32 77 0.76
33 1 0.01
34 13 0.13
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (32 bp):
TGGGCTTTGAGAAGGGTTGCCACCGACTTGTG
Found at i:1166721 original size:34 final size:34
Alignment explanation
Indices: 1166668--1166852 Score: 215
Period size: 34 Copynumber: 5.7 Consensus size: 34
1166658 CTGTGGACGT
* **
1166668 AAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
1166702 GAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
1166736 AAAAG-GTGCTACGGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
* * *
1166769 AAAAGAGTGCCACGGAGTCGTGGGCTTA-AATG-
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
*
1166801 ----G-GTGCCACAGAGTTGTGGACTTAGAAGGA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
1166830 AAAAGAGTGCCACGGAGTTGTGG
1 AAAAGAGTGCCACGGAGTTGTGG
1166853 GCTTTGAAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
27 19 0.15
28 4 0.03
33 34 0.27
34 67 0.54
ACGTcount: A:0.32, C:0.12, G:0.36, T:0.19
Consensus pattern (34 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAGAAGGA
Found at i:1166726 original size:128 final size:126
Alignment explanation
Indices: 1166592--1166886 Score: 346
Period size: 128 Copynumber: 2.3 Consensus size: 126
1166582 CATCGACTTG
* *
1166592 TGTGGGCTTTGAGAAAAAGGTTGCCACCAACTTGTGGGCTTTGAAAAGGAGAAAGA-TGCCACGA
1 TGTGGGCTTT-AGAAAAAGG-TGCCACCGACTTGTGGGCTTT-AAAAGGAAAAAGAGTGCCACG-
*
1166656 AACT-GTGGACGTAAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGAGAAAGAGTGCCACGGAGT
62 AACTCGTGGACGTAAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
* * * * * * *
1166720 TGTGGGCTTAAAAGGAAAAAGGTGCTACGGAGTTGTGGAC-TTAGAAGGAAAAAGAGTGCCACGG
1 TGTGGGCTT--TA-GAAAAAGGTGCCACCGACTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGA
* * * * *
1166784 AGTCGTGGGCTTAAATGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
63 ACTCGTGGACGTAAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
* *
1166848 TGTGGGCTTT-GAAAAAGATGCCACTGACTTGTGGGCTTT
1 TGTGGGCTTTAGAAAAAGGTGCCACCGACTTGTGGGCTTT
1166887 TGAAGGGTGA
Statistics
Matches: 140, Mismatches: 21, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
124 21 0.15
125 2 0.01
127 13 0.09
128 82 0.59
129 14 0.10
130 8 0.06
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (126 bp):
TGTGGGCTTTAGAAAAAGGTGCCACCGACTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACGAACT
CGTGGACGTAAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
Found at i:1166733 original size:61 final size:61
Alignment explanation
Indices: 1166667--1166856 Score: 272
Period size: 61 Copynumber: 3.0 Consensus size: 61
1166657 ACTGTGGACG
* *
1166667 TAAAAGGGTGCCACAAAGTTGTGGACTTAGAAGGAGAAAGAGTGCCACGGAGTTGTGGGCT
1 TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
* * *
1166728 TAAAAGGAAAAAGGTGCTACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTCGTGGG
1 TAAAA-G-----GGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1166793 CT
60 CT
*
1166795 TAAATGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1 TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
1166856 T
1 T
1166857 TGAAAAAGAT
Statistics
Matches: 114, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
61 58 0.51
62 1 0.01
66 1 0.01
67 54 0.47
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (61 bp):
TAAAAGGGTGCCACAGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
Found at i:1166890 original size:30 final size:30
Alignment explanation
Indices: 1166828--1166886 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
1166818 GACTTAGAAG
*
1166828 GAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGACTTGTGGGCTTT
*
1166858 GAAAAAGA-TGCCACTGACTTGTGGGCTTT
1 GAAAAAGAGTGCCACGGACTTGTGGGCTTT
1166887 TGAAGGGTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.27, C:0.15, G:0.32, T:0.25
Consensus pattern (30 bp):
GAAAAAGAGTGCCACGGACTTGTGGGCTTT
Found at i:1169914 original size:28 final size:28
Alignment explanation
Indices: 1169853--1169934 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
1169843 TTTTGGAGAT
*
1169853 AATAACGGGGTTGGAGTGTTCCCTCG--GA
1 AATAACGGGGTTGGAGT-ATCCC-CGATGA
*
1169881 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGGGGTTGGAGTATCCCCGATGA
* *
1169909 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGGGGTTGGAGTATCCCCGAT
1169935 TGTGAAAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 2 0.04
27 4 0.09
28 41 0.87
ACGTcount: A:0.26, C:0.17, G:0.33, T:0.24
Consensus pattern (28 bp):
AATAACGGGGTTGGAGTATCCCCGATGA
Found at i:1170073 original size:51 final size:51
Alignment explanation
Indices: 1169917--1170086 Score: 205
Period size: 52 Copynumber: 3.3 Consensus size: 51
1169907 GAAATAACGA
* * *
1169917 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTA-TTTTGGAAATAAAATCGG
* * * * * * *
1169969 TGTTTGAGTATCCCCGATTAAAGGAAAATTAGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTATTTTGGAAATAAAATCGG
* * *
1170021 GGTTGGAGTATCCCCGATTATGAAAAATCAATATTTTGGAAATAAATTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
1170072 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1170087 TCGGAAATAA
Statistics
Matches: 97, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
51 39 0.40
52 49 0.51
53 9 0.09
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTATTTTGGAAATAAAATCGG
Found at i:1170132 original size:27 final size:28
Alignment explanation
Indices: 1170069--1170144 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
1170059 GAAATAAATT
***
1170069 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1170097 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
1170124 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1170145 TGTGAAGAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1172591 original size:33 final size:33
Alignment explanation
Indices: 1172546--1172612 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1172536 AAAATTTCCA
***
1172546 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
* *
1172579 AATGTATTGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1172612 A
1 A
1172613 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1172656 original size:19 final size:18
Alignment explanation
Indices: 1172632--1172699 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1172622 CAGTAGCTAA
1172632 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1172651 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1172666 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1172683 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1172700 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1172672 original size:13 final size:13
Alignment explanation
Indices: 1172654--1172678 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1172644 ACAATACTTA
1172654 TGTATCGATACAT
1 TGTATCGATACAT
1172667 TGTATCGATACA
1 TGTATCGATACA
1172679 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1172676 original size:32 final size:32
Alignment explanation
Indices: 1172635--1172697 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1172625 TAGCTAATTA
*
1172635 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1172667 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1172698 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1173562 original size:55 final size:55
Alignment explanation
Indices: 1173478--1174010 Score: 626
Period size: 55 Copynumber: 9.4 Consensus size: 55
1173468 ATAAAGTGTA
** * *
1173478 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1173533 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1173588 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAA-AGGCG
* * * *
1173643 TCCTGCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1173698 TCCTACTCTTTGAGGACTAGG-AAGTGCAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * * *
1173759 TCCTGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1173814 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * *
1173875 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1173930 TCCTGTTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCG
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
1173991 TCCTGCTCTTTGAGGACTGG
1 TCCTGCTCTTTGAGGACTGG
1174011 GAAGGGCTAA
Statistics
Matches: 420, Mismatches: 31, Indels: 49
0.84 0.06 0.10
Matches are distributed among these distances:
54 6 0.01
55 274 0.65
56 14 0.03
60 9 0.02
61 117 0.28
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1173805 original size:116 final size:115
Alignment explanation
Indices: 1173477--1174014 Score: 776
Period size: 116 Copynumber: 4.7 Consensus size: 115
1173467 AATAAAGTGT
** * *
1173477 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTT----GA-AAGGTGTCCT
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCT
* * *
1173537 GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-
66 GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * *
1173586 AGTCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTT---A-AG-AGGTGTC
1 A-TCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTC
* * *
1173645 CTGCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTTAAAAGGC
64 CTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1173697 ATCCTACTCTTTGAGGACTAGGAAGTGCAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCC
*
1173762 TGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGC
65 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1173813 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCC
*
1173878 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAC
65 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1173929 GTCCTGTTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCC
1173994 TGCTCTTTGAGGACTGGGAAG
65 TGCTCTTTGAGGACTGGGAAG
1174015 GGCTAAAAGA
Statistics
Matches: 396, Mismatches: 20, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
109 4 0.01
110 136 0.34
111 4 0.01
113 1 0.00
115 2 0.01
116 245 0.62
117 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (115 bp):
ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCT
GCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:1173848 original size:171 final size:167
Alignment explanation
Indices: 1173477--1173980 Score: 639
Period size: 171 Copynumber: 3.0 Consensus size: 167
1173467 AATAAAGTGT
** * * *
1173477 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
* * *
1173542 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT---GA-AAGGAGTCCTGCTCTTTGGGG
66 TTGAGGACTGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGCTCTTTGAGG
* * *
1173603 ACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGT
130 ACTGGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * * * *
1173642 GTCCTGCTCTTTGAGGACT-GGAAAATGCAACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTC
1 ATCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTC
*
1173706 TTTGAGGACTAGGAAGTGCAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTG
65 TTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTT-AAA-GAGAAGGCGTCCTGCTCTTTG
*
1173771 AGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTTAAAAGGC
127 AGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
1173813 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT---A--A-AAGGCGTCC
*
1173878 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAA-AG-A--CGTCCTGTTCT
60 TGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGCTCT
1173939 TTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
124 TTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1173981 AGAGAAGGCG
Statistics
Matches: 295, Mismatches: 28, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
165 87 0.29
166 2 0.01
170 2 0.01
171 142 0.48
172 5 0.02
173 1 0.00
174 3 0.01
176 4 0.01
177 49 0.17
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (167 bp):
ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAGAGAAGGCGTCCTGCTCTTTGAGGA
CTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:1178101 original size:13 final size:13
Alignment explanation
Indices: 1178083--1178108 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1178073 ACAAAGATCC
1178083 ATGTATCGATACA
1 ATGTATCGATACA
1178096 ATGTATCGATACA
1 ATGTATCGATACA
1178109 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1178104 original size:33 final size:33
Alignment explanation
Indices: 1178062--1178128 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1178052 AAAATTTCCA
***
1178062 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1178095 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1178128 A
1 A
1178129 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1178172 original size:19 final size:18
Alignment explanation
Indices: 1178148--1178215 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1178138 CAGTAACTAA
1178148 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1178167 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1178182 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1178199 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1178216 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1178188 original size:13 final size:13
Alignment explanation
Indices: 1178170--1178194 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1178160 ACAATACTTA
1178170 TGTATCGATACAT
1 TGTATCGATACAT
1178183 TGTATCGATACA
1 TGTATCGATACA
1178195 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1178192 original size:32 final size:32
Alignment explanation
Indices: 1178151--1178213 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1178141 TAACTAATTA
*
1178151 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1178183 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1178214 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1178277 original size:21 final size:21
Alignment explanation
Indices: 1178251--1178327 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1178241 GTTGGGACCC
* *
1178251 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
1178272 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1178293 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1178314 TGTATCGATACATT
1 TGTATCGATACATT
1178328 TGAAATTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1191811 original size:21 final size:21
Alignment explanation
Indices: 1191760--1191817 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
1191750 CATTTGTAGG
*
1191760 AATGTATCGATAC-TTCCACA
1 AATGTATCGATACATGCCACA
*
1191780 ATGATGT-TCGATACATGCTACA
1 A--ATGTATCGATACATGCCACA
1191802 AATGTATCGAGTACAT
1 AATGTATCGA-TACAT
1191818 TTGAAAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 5 0.16
21 11 0.35
22 15 0.48
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATGCCACA
Found at i:1200706 original size:54 final size:55
Alignment explanation
Indices: 1200610--1201140 Score: 596
Period size: 54 Copynumber: 9.4 Consensus size: 55
1200600 AAAAAGTGTA
** * *
1200610 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGT-TGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1200664 TCCTGC-CTCTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAG
1 TCCTGCTCT-TTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
1200718 TCCTGCTCTTTGGGGACT-GAAAG-GTCCACCAACTTGTGTGGGCTTT-AAAGAGTG
1 TCCTGCTCTTTGAGGACTAGGAAGTG-CCACCAACTTGTGTGGGCTTTGAAAG-GCG
* * *
1200772 TCCTGCTCTTTGAGGACT-GGAAAATGCAACCAACTTGTGTGGGCTTT-AAAGGCA
1 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
1200826 TCCTACTCTTTGAGGACTAGGAAGTGCAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * *
1200887 TCCTGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTT-AAAGGCA
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1200941 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
* * *
1201002 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGACG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
1201057 TCCTGTTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAGGCG
1201118 TCCTGCTCTTTGAGGACT-GGAAG
1 TCCTGCTCTTTGAGGACTAGGAAG
1201141 GGCTAAAAGA
Statistics
Matches: 417, Mismatches: 32, Indels: 50
0.84 0.06 0.10
Matches are distributed among these distances:
53 23 0.06
54 182 0.44
55 81 0.19
56 2 0.00
60 8 0.02
61 121 0.29
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:1200927 original size:115 final size:115
Alignment explanation
Indices: 1200609--1201139 Score: 711
Period size: 115 Copynumber: 4.7 Consensus size: 115
1200599 AAAAAAGTGT
** * *
1200609 ATCCTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGT-TGGGCTTT----GA-AAGGTGTCCT
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCT
*
1200668 GC-CTCTTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG-
66 GCTCT-TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
* * *
1200716 AGTCCTGCTCTTTGGGGACT-GAAAG-GTCCACCAACTTGTGTGGGCTTT--AA-AG-A-GTGTC
1 A-TCCTGCTCTTTGAGGACTAGGAAGTG-CCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTC
*
1200774 CTGCTCTTTGAGGACTGGAAAATGCAACCAACTTGTGTGGGCTTT-AAAGGC
64 CTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1200825 ATCCTACTCTTTGAGGACTAGGAAGTGCAACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCC
* * *
1200890 TGCTCTTTGAGGACTGGGAAGTGCCACTAACTTGTGTGGGCTTT-AAAGGC
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
1200940 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAGAAGGCGTCC
* * *
1201005 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAC
65 TGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
* *
1201056 GTCCTGTTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAAGAGAAGGCGTCC
1 ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAGGCGTCC
1201121 TGCTCTTTGAGGACTGGAA
65 TGCTCTTTGAGGACTGGAA
1201140 GGGCTAAAAG
Statistics
Matches: 385, Mismatches: 20, Indels: 29
0.89 0.05 0.07
Matches are distributed among these distances:
106 1 0.00
107 16 0.04
108 64 0.17
109 56 0.15
110 1 0.00
111 2 0.01
113 2 0.01
114 1 0.00
115 157 0.41
116 81 0.21
117 4 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (115 bp):
ATCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAGAAGGCGTCCT
GCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGC
Found at i:1205221 original size:13 final size:13
Alignment explanation
Indices: 1205203--1205228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1205193 ACAAAGATCC
1205203 ATGTATCGATACA
1 ATGTATCGATACA
1205216 ATGTATCGATACA
1 ATGTATCGATACA
1205229 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1205224 original size:33 final size:33
Alignment explanation
Indices: 1205182--1205248 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1205172 AAAATTTCCA
***
1205182 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1205215 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1205248 A
1 A
1205249 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1205292 original size:19 final size:18
Alignment explanation
Indices: 1205268--1205335 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1205258 CAGTAACTAA
1205268 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1205287 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1205302 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1205319 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1205336 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1205308 original size:13 final size:13
Alignment explanation
Indices: 1205290--1205314 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1205280 ACAATACTTA
1205290 TGTATCGATACAT
1 TGTATCGATACAT
1205303 TGTATCGATACA
1 TGTATCGATACA
1205315 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1205312 original size:32 final size:32
Alignment explanation
Indices: 1205271--1205333 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1205261 TAACTAATTA
*
1205271 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1205303 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1205334 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1205397 original size:21 final size:21
Alignment explanation
Indices: 1205371--1205447 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
1205361 GTTGGGACCC
* *
1205371 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACA-TTCTACAAA
*
1205392 TGTATCGATACATTCCACAAA
1 TGTATCGATACATTCTACAAA
1205413 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
1205434 TGTATCGATACATT
1 TGTATCGATACATT
1205448 TGAAATTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 3 0.06
21 48 0.94
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:1219132 original size:52 final size:52
Alignment explanation
Indices: 1218983--1219111 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
1218973 CAAAATATGA
* *
1218983 AAATTTGCTTGCATGTATCGATACATTTTATAGTGTATCGATACACCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
* *
1219035 AAATTTGCCTGCATGTATTGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1219087 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1219112 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1219193 original size:31 final size:32
Alignment explanation
Indices: 1219155--1219216 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1219145 GCTTAAATTG
1219155 TATCGATACAAAAC-TTATGTATCGATACAAT
1 TATCGATACAAAACTTTATGTATCGATACAAT
*
1219186 TATCGATACAACACTTTATGTATCGATACAA
1 TATCGATACAAAACTTTATGTATCGATACAA
1219217 ATCGTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.45
32 16 0.55
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (32 bp):
TATCGATACAAAACTTTATGTATCGATACAAT
Found at i:1219913 original size:14 final size:13
Alignment explanation
Indices: 1219892--1219924 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1219882 AAGGATTTTT
1219892 CTTTTTTTTT-TG
1 CTTTTTTTTTGTG
1219904 CTTCTTTTTTTGTG
1 CTT-TTTTTTTGTG
1219918 CTTTTTT
1 CTTTTTT
1219925 GCTAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 11 0.58
14 5 0.26
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (13 bp):
CTTTTTTTTTGTG
Found at i:1220170 original size:22 final size:21
Alignment explanation
Indices: 1220145--1220191 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
1220135 TGTTGTTCCC
*
1220145 TTTTTTATTTTGCTTTTGCATT
1 TTTTTTATTTTACTTTT-CATT
*
1220167 TTTTTTGTTTTACTTTTCATT
1 TTTTTTATTTTACTTTTCATT
1220188 TTTT
1 TTTT
1220192 GTGCTTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.35
22 15 0.65
ACGTcount: A:0.09, C:0.09, G:0.06, T:0.77
Consensus pattern (21 bp):
TTTTTTATTTTACTTTTCATT
Found at i:1220199 original size:22 final size:22
Alignment explanation
Indices: 1220152--1220199 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1220142 CCCTTTTTTA
* *
1220152 TTTTGCTTTTGCATTTTTTTTG
1 TTTTACTTTTGCATTTTTTGTG
1220174 TTTTACTTTT-CATTTTTTGTG
1 TTTTACTTTTGCATTTTTTGTG
1220195 CTTTT
1 -TTTT
1220200 GCTTGACTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.06, C:0.10, G:0.10, T:0.73
Consensus pattern (22 bp):
TTTTACTTTTGCATTTTTTGTG
Found at i:1220199 original size:27 final size:27
Alignment explanation
Indices: 1220169--1220226 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
1220159 TTTGCATTTT
* *
1220169 TTTTGTTTTACTTTTCA-TTTTTTGTGC
1 TTTTGCTTGACTTTTCATTTTTTTGT-C
*
1220196 TTTTGCTTGACTTTTGATTTTTTTGTC
1 TTTTGCTTGACTTTTCATTTTTTTGTC
1220223 TTTT
1 TTTT
1220227 TGAAGGGAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.07, C:0.10, G:0.12, T:0.71
Consensus pattern (27 bp):
TTTTGCTTGACTTTTCATTTTTTTGTC
Found at i:1221177 original size:30 final size:31
Alignment explanation
Indices: 1221118--1221178 Score: 74
Period size: 30 Copynumber: 2.0 Consensus size: 31
1221108 ATGAACTCTT
*
1221118 GATGAGATGACAGTGTGTATGAGATCATGAC
1 GATGAGATGACAGTGTATATGAGATCATGAC
1221149 GATGA-ATGACTAGTG-ATATG-GATGCATGAC
1 GATGAGATGAC-AGTGTATATGAGAT-CATGAC
1221179 CAAGACAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
29 3 0.11
30 15 0.56
31 9 0.33
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (31 bp):
GATGAGATGACAGTGTATATGAGATCATGAC
Found at i:1223459 original size:69 final size:69
Alignment explanation
Indices: 1223372--1223522 Score: 203
Period size: 69 Copynumber: 2.2 Consensus size: 69
1223362 AGAAATGAGG
* *
1223372 TTAGAGTATCCCCGACAATGATAATATGGACTAAATAAGACTTAAATTTCGATGAGTTTAAAAAC
1 TTAGAGTATCCCCGACAATGATAATATAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAAC
1223437 GAGA
66 GAGA
* * * * * *
1223441 TTAGAGTATCCTCGACAATGATAATTTAGACAAAATAATATTTAAATTTTGATGAGTTTAAAATC
1 TTAGAGTATCCCCGACAATGATAATATAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAAC
* *
1223506 GGGG
66 GAGA
*
1223510 TTGGAGTATCCCC
1 TTAGAGTATCCCC
1223523 TTGGAGGAGT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (69 bp):
TTAGAGTATCCCCGACAATGATAATATAGACAAAATAAGACTTAAATTTCGATGAGTTTAAAAAC
GAGA
Found at i:1223614 original size:96 final size:96
Alignment explanation
Indices: 1223470--1223730 Score: 262
Period size: 96 Copynumber: 2.7 Consensus size: 96
1223460 GATAATTTAG
* * * * *
1223470 ACAAAATAATATTTAAATTTTGATGAGTTTAAAATCGGGGTTGGAGTATCCCCTTGGAGGAGTGG
1 ACAAAATAAAATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTTGGAGGAATGG
1223535 GGTTAGAGTGTCC-CCATGATGACAATTT-A
66 GGTTAGAGTGTCCTCCATGATGACAATTTGA
** * * * *
1223564 ACCGAAAATAAAATTTAAATTTTGATAAGTTTAAAAACGAGGTTAAAGTAT-TCTTTCGAAAGAA
1 A-C-AAAATAAAATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTT-GGAGGAA
* * * *
1223628 TGGGATTAGAGTGTCCTCGATTATGACAATTTGG
63 TGGGGTTAGAGTGTCCTCCATGATGACAATTTGA
* * * * *
1223662 ACAAAATAAGACTTAAATTTCGATGAA-TTTAAAAGCGAGGTTGGAGTATCCCCTCGGA-GAATT
1 ACAAAATAAAATTTAAATTTTGAT-AAGTTTAAAAACGAGGTTGGAGTATCCCCTTGGAGGAA-T
1223725 GGGGTT
64 GGGGTT
1223731 GGTGTATCCC
Statistics
Matches: 133, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
94 1 0.01
95 7 0.05
96 106 0.80
97 18 0.14
98 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.23, T:0.31
Consensus pattern (96 bp):
ACAAAATAAAATTTAAATTTTGATAAGTTTAAAAACGAGGTTGGAGTATCCCCTTGGAGGAATGG
GGTTAGAGTGTCCTCCATGATGACAATTTGA
Found at i:1225279 original size:3 final size:3
Alignment explanation
Indices: 1225273--1225310 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1225263 ATTTTTTTCT
1225273 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1225311 TGATTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1225327 original size:15 final size:15
Alignment explanation
Indices: 1225303--1225350 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
1225293 ATTATTATTA
1225303 TTATTATTTGATTTTT
1 TTATT-TTTGATTTTT
1225319 TTATTTTTGATTTATT
1 TTATTTTTGATTT-TT
* *
1225335 TAATTTTTAATTTTT
1 TTATTTTTGATTTTT
1225350 T
1 T
1225351 GTGTCAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 11 0.38
16 18 0.62
ACGTcount: A:0.21, C:0.00, G:0.04, T:0.75
Consensus pattern (15 bp):
TTATTTTTGATTTTT
Found at i:1225786 original size:20 final size:19
Alignment explanation
Indices: 1225744--1225788 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
1225734 AAAAATTCAA
* *
1225744 AAAGAAAAATATTTTGAAG
1 AAAGAAAAAAATTGTGAAG
1225763 -AAGAAAAAAATTGTGAGAG
1 AAAGAAAAAAATTGTGA-AG
1225782 AAAGAAA
1 AAAGAAA
1225789 GTTAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.18
Consensus pattern (19 bp):
AAAGAAAAAAATTGTGAAG
Found at i:1226220 original size:31 final size:30
Alignment explanation
Indices: 1226178--1226251 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
1226168 TCATGGAGTT
* *
1226178 AATTTATTTTCTTACAATTTTTATTTTATGC
1 AATTTATTTTCTTACAA-TTTAAATTTATGC
* * *
1226209 AATTTACTTTCTTTCTATTTAAATTTATGC
1 AATTTATTTTCTTACAATTTAAATTTATGC
1226239 AATTTATTTTCTT
1 AATTTATTTTCTT
1226252 GTAATTCATT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 23 0.62
31 14 0.38
ACGTcount: A:0.26, C:0.11, G:0.03, T:0.61
Consensus pattern (30 bp):
AATTTATTTTCTTACAATTTAAATTTATGC
Found at i:1226257 original size:15 final size:15
Alignment explanation
Indices: 1226236--1226274 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
1226226 TTTAAATTTA
*
1226236 TGCAATTTATTTTCT
1 TGCAATTTATTTCCT
* *
1226251 TGTAATTCATTTCCT
1 TGCAATTTATTTCCT
1226266 TGCAATTTA
1 TGCAATTTA
1226275 AATTTATGCA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.08, T:0.54
Consensus pattern (15 bp):
TGCAATTTATTTCCT
Found at i:1226771 original size:43 final size:43
Alignment explanation
Indices: 1226707--1226794 Score: 117
Period size: 43 Copynumber: 2.0 Consensus size: 43
1226697 TAATTATATT
1226707 AATGCCACAATTTTTGCAAATTTAGT-AGCATTTATACTAGTAA
1 AATGCCACAATTTTTGCAAATTTAGTGA-CATTTATACTAGTAA
* * *
1226750 AATGCTACTAATTTTT-TAAATTTAGTGACATTTATATTAGTAA
1 AATGCCAC-AATTTTTGCAAATTTAGTGACATTTATACTAGTAA
1226793 AA
1 AA
1226795 CACCGCTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
43 32 0.80
44 8 0.20
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (43 bp):
AATGCCACAATTTTTGCAAATTTAGTGACATTTATACTAGTAA
Found at i:1227995 original size:30 final size:30
Alignment explanation
Indices: 1227954--1228019 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 30
1227944 ATTGAAGTAA
1227954 AAAAAACGGATATGACTTAAAATTTGGGAG
1 AAAAAACGGATATGACTTAAAATTTGGGAG
* * *
1227984 GAAAAATGGATATTACTTAAAATTTGGGAG
1 AAAAAACGGATATGACTTAAAATTTGGGAG
1228014 AAAAAA
1 AAAAAA
1228020 AAGATTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.50, C:0.05, G:0.21, T:0.24
Consensus pattern (30 bp):
AAAAAACGGATATGACTTAAAATTTGGGAG
Found at i:1233675 original size:24 final size:24
Alignment explanation
Indices: 1233639--1233710 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
1233629 GTTTTATAGG
1233639 ATAAATTTGTTAAAAAAATATTAT
1 ATAAATTTGTTAAAAAAATATTAT
*
1233663 ATATATTTGTTAAAAAAATATTAT
1 ATAAATTTGTTAAAAAAATATTAT
1233687 ATAAATTTGTT-AAAAAATATTAT
1 ATAAATTTGTTAAAAAAATATTAT
1233710 A
1 A
1233711 CAAAAACTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
23 13 0.28
24 33 0.72
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
ATAAATTTGTTAAAAAAATATTAT
Found at i:1233922 original size:22 final size:22
Alignment explanation
Indices: 1233896--1233948 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
1233886 TGCTGGTCTA
**
1233896 TTAAATATTGTTACAAAATCTT
1 TTAAATATCATTACAAAATCTT
*
1233918 TTAAATATCATTACAACATCTT
1 TTAAATATCATTACAAAATCTT
1233940 TTAAATATC
1 TTAAATATC
1233949 TTGCATAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.42, C:0.13, G:0.02, T:0.43
Consensus pattern (22 bp):
TTAAATATCATTACAAAATCTT
Found at i:1237411 original size:30 final size:30
Alignment explanation
Indices: 1237377--1237434 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1237367 AACACAAATA
1237377 TATAGCAAACAAGAATATTTTGTTTCTATC
1 TATAGCAAACAAGAATATTTTGTTTCTATC
* * *
1237407 TATAGCTAACAGGAATGTTTTGTTTCTA
1 TATAGCAAACAAGAATATTTTGTTTCTA
1237435 GATGGTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (30 bp):
TATAGCAAACAAGAATATTTTGTTTCTATC
Found at i:1239597 original size:18 final size:18
Alignment explanation
Indices: 1239570--1239619 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
1239560 TGTAGTGACG
* *
1239570 TTACTTTATTATTATATA
1 TTACTATATTATTATAGA
*
1239588 TTACTATATTATTTTAGA
1 TTACTATATTATTATAGA
1239606 TT-CTATATATATTA
1 TTACTATAT-TATTA
1239620 ATACTAACAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 6 0.22
18 21 0.78
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (18 bp):
TTACTATATTATTATAGA
Found at i:1247706 original size:79 final size:79
Alignment explanation
Indices: 1247565--1247877 Score: 237
Period size: 79 Copynumber: 4.0 Consensus size: 79
1247555 GAGTGTCCCC
1247565 TGATTATAGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGCAGTACCCCCTCGGAAATAACAG
1 TGATTATAGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGCAGTACCCCCTCGGAAATAACAG
1247630 GGTTGGAGCATCCA
66 GGTTGGAGCATCCA
* * * *
1247644 TGATTATAGAAAATCGGTGTTTT-GAAAATAAAATC-GAGGTTAG-AGTATCCTCTC-GAGGATA
1 TGATTATAGAAAATCGATGTTTTAG-AAATAAAATCAG-GGTT-GCAGTACCCCCTCGGA-AATA
* ** ** *
1247705 ACGGGGTTAAAATATCCC
62 ACAGGGTTGGAGCATCCA
* * * * * * * * * ** *
1247723 TGATTGTGGAAAATCGAAGCTTTAGAAATAAGA-CCGGGTTGGAGTATCCCCGCCAAAAT-ACGG
1 TGATTATAGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGCAGTACCCCCTCGGAAATAACAG
* *
1247786 GGTTGGAGTATCCC
66 GGTTGGAGCATCCA
* * * * *
1247800 TGATTGT-GAGAAATCAATATTTTAGAAATAAAGTCAGGGTTAG-AGTATCCCCTCGGAAATAAC
1 TGATTATAGA-AAATCGATGTTTTAGAAATAAAATCAGGGTT-GCAGTACCCCCTCGGAAATAAC
* *
1247863 GGGGTTGGAGTATCC
64 AGGGTTGGAGCATCC
1247878 CCGATGAAAT
Statistics
Matches: 189, Mismatches: 33, Indels: 24
0.77 0.13 0.10
Matches are distributed among these distances:
76 2 0.01
77 40 0.21
78 40 0.21
79 105 0.56
80 2 0.01
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
TGATTATAGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGCAGTACCCCCTCGGAAATAACAG
GGTTGGAGCATCCA
Found at i:1247804 original size:77 final size:79
Alignment explanation
Indices: 1247702--1247878 Score: 209
Period size: 77 Copynumber: 2.3 Consensus size: 79
1247692 CCTCTCGAGG
** * * * *
1247702 ATAACGGGGTTAAAATATCCCTGATTGTG-GAAAATCGAA-GCTTTAGAAAT-AAGACCGGGTTG
1 ATAACGGGGTTGGAGTATCCCTGATTGTGAG-AAATC-AATACTTTAGAAATAAAGACAGGGTTA
1247764 GAGTATCCCCGCCAAA
64 GAGTATCCCCGCCAAA
* *
1247780 AT-ACGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGTCAGGGTTAGA
1 ATAACGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATACTTTAGAAATAAAGACAGGGTTAGA
* **
1247844 GTATCCCCTCGGAA
66 GTATCCCCGCCAAA
1247858 ATAACGGGGTTGGAGTATCCC
1 ATAACGGGGTTGGAGTATCCC
1247879 CGATGAAATA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
76 2 0.02
77 37 0.44
78 27 0.32
79 18 0.21
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.25
Consensus pattern (79 bp):
ATAACGGGGTTGGAGTATCCCTGATTGTGAGAAATCAATACTTTAGAAATAAAGACAGGGTTAGA
GTATCCCCGCCAAA
Found at i:1247848 original size:156 final size:158
Alignment explanation
Indices: 1247562--1247868 Score: 347
Period size: 156 Copynumber: 2.0 Consensus size: 158
1247552 CTGGAGTGTC
* * * **
1247562 CCCTGATTATAGAAAATCGATGTTTTAGAAATAAAATCAGGGTTGCAGTACCCCCTCGGAAATAA
1 CCCTGATTATAGAAAATCGAAGCTTTAGAAATAAAATCAGGGTTGCAGTACCCCCGCCAAAATAA
** *
1247627 CAGGGTTGGAGCATCCATGATTATAGAAAATCGGTGTTTTGAAAATAAAATCGAGGTTAGAGTAT
66 CAGGGTTGGAGCATCCATGATTATAGAAAATCAATATTTTGAAAATAAAATCGAGGTTAGAGTAT
* *
1247692 CCTCTC-GAGGATAACGGGGTTAAAATAT
131 CCCCTCGGA-AATAACGGGGTTAAAATAT
* * * * * *
1247720 CCCTGATTGTGGAAAATCGAAGCTTTAGAAATAAGA-CCGGGTTGGAGTATCCCCGCCAAAAT-A
1 CCCTGATTATAGAAAATCGAAGCTTTAGAAATAAAATCAGGGTTGCAGTACCCCCGCCAAAATAA
* * * * *
1247783 CGGGGTTGGAGTATCCCTGATTGT-GAGAAATCAATATTTT-AGAAATAAAGTC-AGGGTTAGAG
66 CAGGGTTGGAGCATCCATGATTATAGA-AAATCAATATTTTGA-AAATAAAATCGA-GGTTAGAG
1247845 TATCCCCTCGGAAATAACGGGGTT
128 TATCCCCTCGGAAATAACGGGGTT
1247869 GGAGTATCCC
Statistics
Matches: 124, Mismatches: 21, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
155 4 0.03
156 67 0.54
157 22 0.18
158 31 0.25
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.26
Consensus pattern (158 bp):
CCCTGATTATAGAAAATCGAAGCTTTAGAAATAAAATCAGGGTTGCAGTACCCCCGCCAAAATAA
CAGGGTTGGAGCATCCATGATTATAGAAAATCAATATTTTGAAAATAAAATCGAGGTTAGAGTAT
CCCCTCGGAAATAACGGGGTTAAAATAT
Found at i:1247910 original size:28 final size:28
Alignment explanation
Indices: 1247836--1247910 Score: 114
Period size: 28 Copynumber: 2.7 Consensus size: 28
1247826 AATAAAGTCA
* ***
1247836 GGGTTAGAGTATCCCCTCGGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
1247864 GGGTTGGAGTATCCCCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACG
1247892 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
1247911 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.32, T:0.23
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACG
Found at i:1250405 original size:21 final size:21
Alignment explanation
Indices: 1250379--1250422 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1250369 ATTTTGACCG
*
1250379 TTAAGACCTTGTATCGATACA
1 TTAAGACCATGTATCGATACA
*
1250400 TTAAGAGCATGTATCGATACA
1 TTAAGACCATGTATCGATACA
1250421 TT
1 TT
1250423 TTGGAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (21 bp):
TTAAGACCATGTATCGATACA
Found at i:1250992 original size:40 final size:39
Alignment explanation
Indices: 1250948--1251050 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 39
1250938 ATCCCACTTT
* * *
1250948 TTGAGGACAAAGGAAAAGAGAATGAAATGGGTCTTGCTCC
1 TTGAGGACAAAGGAAAAGAAAAGGAAA-GGGTCCTGCTCC
* *
1250988 TTGAGGACAAAGGAAGAAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGG-A-AAAGAAAAGGAAAGGGTCCTGCTCC
*
1251029 TTGAGGACAAAGTAAAA-AAAAG
1 TTGAGGACAAAGGAAAAGAAAAG
1251051 TACGTCCTGC
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
38 5 0.09
39 3 0.05
40 14 0.25
41 22 0.40
42 11 0.20
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (39 bp):
TTGAGGACAAAGGAAAAGAAAAGGAAAGGGTCCTGCTCC
Found at i:1251218 original size:88 final size:87
Alignment explanation
Indices: 1251037--1251689 Score: 487
Period size: 88 Copynumber: 7.4 Consensus size: 87
1251027 TCTTGAGGAC
* * * * * * * *
1251037 AAAGTAAAAAAAAGTACGTCCTGCT-TTTCGAAGACAAA-GGAAAAAAGGAAAACGAAATGCGTC
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTT-GAGGACAAAGGGGAAAAAGG-AAATGAAACGTGTC
* *
1251100 TTCCTCTTTGAGGAC-AAAAGA-A
64 CTGCTCTTTGAGGACAAAAAGAGA
1251122 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGGGAAATAAGGAAATGAAACGTGTC
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA-GGGGAAA-AAGGAAATGAAACGTGTC
* * *
1251187 CTACTCTTTAAGGAC-AAAGGAGA
64 CTGCTCTTTGAGGACAAAAAGAGA
* * * ****
1251210 AAAGGAAAATAAAGTGCGTCTTGCTCTTTGAAGACAAAAGGGAAAAAGGAAATGAAATACCTCCT
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGGAAAAAGGAAATGAAACGTGTCCT
* *
1251275 ACTCTTTGAGGACAAAAGGAGA
66 GCTCTTTGAGGACAAAAAGAGA
* * * * * *
1251297 AAAGAAGGAAATGGAACGT--GTCCTGTTCTTTGAGGACAAAGGAGAAAAAGAAAAT-AGA-GTG
1 AAAG--GAAAAT--AAAGTGCGTCCTGCTCTTTGAGGACAAAGGGGAAAAAGGAAATGAAACGT-
* *
1251358 CGTCCTGCTCTTTGAGGGC-AAAAGGGA
61 -GTCCTGCTCTTTGAGGACAAAAAGAGA
* * * * *
1251385 AAAGAAGAAAATGAAGTGCGTCTTGCTCTTTGAGGACAAAAGGAGAAGAGAAGGGAATGGAACGT
1 AAAG--GAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGGAA-A-AAGGAAATGAAACGT
1251450 GTCCTGCTCTTTGAGGAC-AAAAGAGA
61 GTCCTGCTCTTTGAGGACAAAAAGAGA
* * * * **
1251476 AAAGGATAATAAAGTGTGTCCTGCTCTTTGAAGACAAAAGGGAAAAGAAGGAAATGAAGTGTGTC
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGGAAA-AAGGAAATGAAACGTGTC
1251541 CTGCTCTTTGAGGACAAAAAGAGAAA
64 CTGCTCTTTGAGGACAAAAAGAG--A
* * *
1251567 ATAAGG-GAATGGAACGT--GTCCTGCTCTTTGAGGACAAAGGAG-AAAAGGAAAAT-AAA-GTG
1 A-AAGGAAAAT--AAAGTGCGTCCTGCTCTTTGAGGACAAAGGGGAAAAAGG-AAATGAAACGT-
* * *
1251626 CGTCCTGCTCTTTGAGGATAAAAGGAAAAA
61 -GTCCTGCTCTTTGAGGACAAAA--AGAGA
* * *
1251656 AAAGG-AAATGAAGTACGTCCTGCCCTTTGAGGAC
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
1251690 TAGGAGGTGC
Statistics
Matches: 465, Mismatches: 71, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
85 30 0.06
86 37 0.08
87 53 0.11
88 137 0.29
89 129 0.28
90 6 0.01
91 62 0.13
92 5 0.01
93 6 0.01
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (87 bp):
AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGGAAAAAGGAAATGAAACGTGTCCT
GCTCTTTGAGGACAAAAAGAGA
Found at i:1251246 original size:43 final size:43
Alignment explanation
Indices: 1251037--1251689 Score: 464
Period size: 43 Copynumber: 14.8 Consensus size: 43
1251027 TCTTGAGGAC
* * * * *
1251037 AAAGTAAAAAAAAGTACGTCCTGCT-TTTCGAAGACAAAGGAAA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTT-GAGGACAAAGGAGA
* * * *
1251080 AAAGGAAAACGAAA-TGCGTCTTCCTCTTTGAGGACAAAAGA-A
1 AAAGGAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGA
*
1251122 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGGGGAA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAA-GGAG-A
* *
1251167 ATAAGG-AAATGAAACGT--GTCCTACTCTTTAAGGACAAAGGAGA
1 A-AAGGAAAAT-AAA-GTGCGTCCTGCTCTTTGAGGACAAAGGAGA
* *
1251210 AAAGGAAAATAAAGTGCGTCTTGCTCTTTGAAGACAAAAGG-GAA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAG-A
* * *
1251254 AAAGG-AAATGAAA-TACCTCCTACTCTTTGAGGACAAAAGGAGA
1 AAAGGAAAAT-AAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAGA
* * *
1251297 AAAGAAGGAAATGGAACGT--GTCCTGTTCTTTGAGGACAAAGGAGA
1 AAAG--GAAAAT--AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGA
* * *
1251342 AAAAGAAAATAGAGTGCGTCCTGCTCTTTGAGGGCAAAAGG-GA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAGA
* *
1251385 AAAGAAGAAAATGAAGTGCGTCTTGCTCTTTGAGGACAAAAGGAGAA
1 AAAG--GAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAG-A
* * *
1251432 GAGAAGG-GAATGGAACGT--GTCCTGCTCTTTGAGGACAAAAGAGA
1 -A-AAGGAAAAT--AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGA
* * *
1251476 AAAGGATAATAAAGTGTGTCCTGCTCTTTGAAGACAAAAGG-GA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGAGA
* * * *
1251519 AAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAAGAGAAA
1 AAAG--GAAAATAAAGTGCGTCCTGCTCTTTGAGGAC--AAAG-GAGA
* *
1251567 ATAAGG-GAATGGAACGT--GTCCTGCTCTTTGAGGACAAAGGAGA
1 A-AAGGAAAAT--AAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGA
* *
1251610 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAAGGAAAAA
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGA-CAAAGG--AGA
* * *
1251656 AAAGG-AAATGAAGTACGTCCTGCCCTTTGAGGAC
1 AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
1251690 TAGGAGGTGC
Statistics
Matches: 495, Mismatches: 65, Indels: 99
0.75 0.10 0.15
Matches are distributed among these distances:
41 16 0.03
42 47 0.09
43 156 0.32
44 43 0.09
45 128 0.26
46 80 0.16
47 9 0.02
48 10 0.02
49 6 0.01
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (43 bp):
AAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGGAGA
Found at i:1251461 original size:134 final size:133
Alignment explanation
Indices: 1251054--1251689 Score: 827
Period size: 134 Copynumber: 4.8 Consensus size: 133
1251044 AAAAAAGTAC
* * * * *
1251054 GTCCTGCT-TTTCGAAGACAAAGGAAAAAAGGAAAACGAAA-TGCGTCTTCCTCTTTGAGGACAA
1 GTCCTGCTCTTT-GAGGACAAAGGAGAAAAGGAAAA-TAAAGTGCGTCCTGCTCTTTGAGGACAA
* * * *
1251117 AA--G-AAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGGGGGAAATAAGGAAATG
64 AAGGGAAAAAAGG-AAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATG
*
1251178 AAACGT
128 GAACGT
* * * *
1251184 GTCCTACTCTTTAAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCTTGCTCTTTGAAGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
* * * *
1251249 GGG-AAAAAGGAAATGAAATACCTCCTACTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAA
66 GGGAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAA
1251313 CGT
131 CGT
* * * *
1251316 GTCCTGTTCTTTGAGGACAAAGGAGAAAAAGAAAATAGAGTGCGTCCTGCTCTTTGAGGGCAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
* * * *
1251381 GGGAAAAGAAGAAAATGAAGTGCGTCTTGCTCTTTGAGGACAAAAGGAGAAGAGAAGGGAATGGA
66 GGGAAAA-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGA
1251446 ACGT
130 ACGT
* * * *
1251450 GTCCTGCTCTTTGAGGACAAAAGAGAAAAGGATAATAAAGTGTGTCCTGCTCTTTGAAGACAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
* * * *
1251515 GGGAAAAGAAGGAAATGAAGTGTGTCCTGCTCTTTGAGGACAAAAAGAGAAAATAAGGGAATGGA
66 GGGAAAA-AAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGA
1251580 ACGT
130 ACGT
*
1251584 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGATAAAA
1 GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
* * *
1251649 GGAAAAAAAAGGAAATGAAGTACGTCCTGCCCTTTGAGGAC
66 GG-GAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGAC
1251690 TAGGAGGTGC
Statistics
Matches: 443, Mismatches: 55, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
129 3 0.01
130 50 0.11
131 27 0.06
132 91 0.21
133 3 0.01
134 265 0.60
135 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.20
Consensus pattern (133 bp):
GTCCTGCTCTTTGAGGACAAAGGAGAAAAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAA
GGGAAAAAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGGAGAAAAGAAGGAAATGGAA
CGT
Found at i:1251810 original size:46 final size:45
Alignment explanation
Indices: 1251736--1251926 Score: 160
Period size: 45 Copynumber: 4.3 Consensus size: 45
1251726 GAAGGTGTCC
**
1251736 TGCTCTTTGAGGACAAAAGAAAAAAGAAGGAAATGAAGTGCGTCT
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCT
* * * * *
1251781 TGTTCTTTGAGGACAAACGGGGAAAAGAAGGGAAAGGAA-TGTGTCC
1 TGCTCTTTGAGGACAAA-AGGGAAAAGAA-GGAAATGAAGTGCGTCT
* * * * * *
1251827 TACTCTCTGAGGAC-AAGGGGGAAA-AAGAAAATAAAGT--GTCT
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCT
* * *
1251868 TGCTCTTTGAAGACAAAAAGGAAAAGAAGGAAATGAAGTTCGTCCT
1 TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGT-CT
*
1251914 T-CCCTTTGAGGAC
1 TGCTCTTTGAGGAC
1251927 TAGGAGGTGC
Statistics
Matches: 113, Mismatches: 25, Indels: 16
0.73 0.16 0.10
Matches are distributed among these distances:
41 14 0.12
42 13 0.12
43 14 0.12
44 7 0.06
45 30 0.27
46 27 0.24
47 8 0.07
ACGTcount: A:0.38, C:0.13, G:0.28, T:0.21
Consensus pattern (45 bp):
TGCTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCT
Found at i:1252050 original size:104 final size:105
Alignment explanation
Indices: 1251870--1252090 Score: 345
Period size: 104 Copynumber: 2.1 Consensus size: 105
1251860 AAGTGTCTTG
* * * *
1251870 CTCTTTGAAGACAAAAAGGAAAAGAAGGAAATGAAGTTCGTCCTTCCCTTTGAGGACTAGGAGGT
1 CTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTACGAGGT
* *
1251935 GCCACCAACTTGTGTGGGCTTTGAAGGA-AAGGTGCCCTA
66 GCCACCAACTTGTGTGGGCTTTCAAGGAGAAGGCGCCCTA
* *
1251974 CTCTTTGAGGACAAAAGGGAAAAGAAGGAAATGAAGTGCGTCCTGCTCTTTGAGGACTACGAGGT
1 CTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTACGAGGT
* *
1252039 GCCACCAACTTGTGTGGGCTTTCAAGGAGAAGGCGTCCTG
66 GCCACCAACTTGTGTGGGCTTTCAAGGAGAAGGCGCCCTA
1252079 CTCTTTGAGGAC
1 CTCTTTGAGGAC
1252091 TAGAAGGTGC
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
104 86 0.81
105 20 0.19
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (105 bp):
CTCTTTGAGGACAAAAAGGAAAAGAAGGAAATGAAGTGCGTCCTGCCCTTTGAGGACTACGAGGT
GCCACCAACTTGTGTGGGCTTTCAAGGAGAAGGCGCCCTA
Found at i:1252212 original size:62 final size:60
Alignment explanation
Indices: 1252012--1252900 Score: 1021
Period size: 62 Copynumber: 14.4 Consensus size: 60
1252002 AAATGAAGTG
* * * * * *
1252012 CGTCCTGCTCTTTGAGGACTACGAGGTGCCACCAACTTGTGTGGGCTTT-CAAGGAGAAGG
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGA
* *
1252072 CGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGTTTTAAAA-AAAAAGA
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGA
* * *
1252132 CGTCTTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAATG-
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAA-GA
* * * * *
1252194 TGTCTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGA
* * *
1252255 TGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGA
* * *
1252317 CATCCTGCTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTGGGTTTTTAAAAAGAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGG-CTTT-AAAAGAAAAAGA
* * * * * * *
1252380 TGTCCTACTTTTTTAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGA
** *
1252441 TATCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGG
1 CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGA
*
1252502 CGTCTTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGA
1 CGTCCTGCTCTTTGAGGACT--AAAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG-AAAAAGA
*
1252566 CGTCATGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGA
* * * * * *
1252628 CGTCTTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGG
1 CGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGA
* * * * * *
1252689 CGTCCTGCTCCTTGAAGACATGAAAAGTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAAG-
1 CGTCCTGCTCTTTGAGGAC-T-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAA-GAAAAAGA
* * **
1252751 CATCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAAAGA
1 CGTCCTGCTCTTTGAGGACTA-AAGGTGCCACCAACTCGTGTGGGCTTT-AAAAG--AAAAAGA
1252815 CGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
1 CGTCCTGCTCTTTGAGGACTAAA-GGTGCCACCAACTCGTGTGGGCTTT-AAAAGAAAAAGA
* *
1252877 CATCATGCTCTTTGAGGACTAAAG
1 CGTCCTGCTCTTTGAGGACTAAAG
1252901 AGCTAAAAAG
Statistics
Matches: 723, Mismatches: 81, Indels: 49
0.85 0.09 0.06
Matches are distributed among these distances:
59 2 0.00
60 123 0.17
61 163 0.23
62 229 0.32
63 130 0.18
64 76 0.11
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (60 bp):
CGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAGAAAAAGA
Found at i:1252307 original size:123 final size:123
Alignment explanation
Indices: 1252012--1252900 Score: 1053
Period size: 123 Copynumber: 7.2 Consensus size: 123
1252002 AAATGAAGTG
* * * * * *
1252012 CGTCCTGCTCTTTGAGGACT-ACGAGGTGCCACCAACTTGTGTGGGCTTT-CAAGGAGAAGGCGT
1 CGTCTTGCTCTTTGAGGACTAAAG-GGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCGT
* * *
1252075 CCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGG-TTTTAAAA-AAAAAGA
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * * *
1252132 CGTCTTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAATGTGT
1 CGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAGCGT
* * * *
1252197 CTTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGG
65 CCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * ** *
1252255 TGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAA-AAAAAAGACA
1 CGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAG-CG
* * *
1252319 TCCTGCTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTGGGTTTTTAAAAAGAAAAAGA
64 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGG-CTTTAAAAAGAAAAAGA
* * * * * * * * **
1252380 TGTCCTACTTTTTTAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTATC
1 CGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCGTC
* *
1252445 CTGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAGG
66 CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* *
1252502 CGTCTTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGAC
1 CGTCTTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAAG-C
* *
1252567 GTCATGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
63 GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* * * *
1252628 CGTCTTGCTCTTTAAGGACTGGAA-GGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGT
1 CGTCTTGCTCTTTGAGGACT-AAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCGT
* * * * * *
1252692 CCTGCTCCTTGAAGACATGAAAA-GTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAAG-
65 CCTGCTCTTTGAGGAC-T-AAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* *
1252751 CATCTTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAAAGA
1 CGTCTTGCTCTTTGAGGACTA-AAGGGTGCCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAAG-
*
1252815 CGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
62 CGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
* *
1252877 CATCATGCTCTTTGAGGACTAAAG
1 CGTCTTGCTCTTTGAGGACTAAAG
1252901 AGCTAAAAAG
Statistics
Matches: 662, Mismatches: 85, Indels: 38
0.84 0.11 0.05
Matches are distributed among these distances:
120 41 0.06
121 2 0.00
122 88 0.13
123 206 0.31
124 87 0.13
125 142 0.21
126 96 0.15
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (123 bp):
CGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAAGCGTC
CTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGA
Found at i:1252536 original size:248 final size:246
Alignment explanation
Indices: 1252011--1252899 Score: 1164
Period size: 248 Copynumber: 3.6 Consensus size: 246
1252001 GAAATGAAGT
** ** * ** * *
1252011 GCGTCCTGCTCTTTGAGGACTACGAGGTGCCACCAACTTGTGTGGGCTTT--CAAGGAGAAGGCG
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAAAGACG
* *
1252074 TCCTGCTCTTTGAGGACTAGAA-GGTGCCACCAACTTGTGTGGG-TTTTAAAA-AAAAAGACGTC
66 TCCTGCTCTTTGAGGACTA-AATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGTC
* * * * * * *
1252136 TTACTCTTTGAGGACTAAAGGGTGCCACCAACTCGTGTAGGCTTTGAAAAGAAAAATGTGTCTTG
130 TTACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGTGTCCTG
*
1252201 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
194 CTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
* * *
1252254 GTGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAAAGACA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAAAGACG
* * * *
1252319 TCCTGCTCTTTGAGGACTAAAGGGTACCACCAACTCGTGTGGGTTTTTAAAAAGAAAAAGATGTC
66 TCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGG-CTTTAAAAAGAAAAAGACGTC
* * * *
1252384 CTACTTTTTTAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTATCCTGC
130 TTACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGC
*
1252449 TCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAG
195 TCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAAG
* *
1252501 GCGTCTTGCTCTTTGAGGACTAAAAAGGTGCCACCAACTCGTGTGGGCTTTGAAAAGAAAAAAGA
1 GCGTCCTGCTCTTTGAGGACT-AAAAGGTGCCACCAACTCATGTGGGCTTTGAAAA-AAAAAAGA
*
1252566 CGTCATGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGT
64 CGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGT
* ** *
1252631 CTTGCTCTTTAAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
129 CTTACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTG
* * * *
1252696 CTCCTTGAAGACATGAAAA-GTGCCACCAACTTGTGTGGTCTTTAAAAGGAGAAA-
194 CTCTTTGAGGAC-T-AAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAAG
* * * * *
1252750 GCATCTTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTTAAAAAGAAAAAAAGA
1 GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTT-GAAA-AAAAAAAGA
*
1252815 CGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACAT
64 CGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGT
* * *
1252880 CATGCTCTTTGAGGACTAAA
129 CTTACTCTTTAAGGACTAAA
1252900 GAGCTAAAAA
Statistics
Matches: 569, Mismatches: 62, Indels: 24
0.87 0.09 0.04
Matches are distributed among these distances:
243 44 0.08
244 2 0.00
245 45 0.08
246 27 0.05
247 64 0.11
248 192 0.34
249 164 0.29
250 28 0.05
251 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (246 bp):
GCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGGGCTTTGAAAAAAAAAAGACG
TCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGACGTCT
TACTCTTTAAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTGTCCTGCT
CTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAAG
Found at i:1255760 original size:19 final size:20
Alignment explanation
Indices: 1255718--1255760 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
1255708 TGCACTTTTT
*
1255718 TTAAAAAAAAAAAGTCCAAG
1 TTAAAAAAAAAAAGCCCAAG
* *
1255738 TTAAAAGAAATAAGCCCAA-
1 TTAAAAAAAAAAAGCCCAAG
1255757 TTAA
1 TTAA
1255761 TCCGAATCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.60, C:0.12, G:0.09, T:0.19
Consensus pattern (20 bp):
TTAAAAAAAAAAAGCCCAAG
Found at i:1256302 original size:33 final size:31
Alignment explanation
Indices: 1256247--1256765 Score: 216
Period size: 28 Copynumber: 17.7 Consensus size: 31
1256237 CGACATTGGG
* *
1256247 TTTAGAAACGTTACCACTAACTTGTAGGGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* *
1256278 TTTAGAGAAAGGTTGCCACCAACTTGTATGGGC
1 TTT--AGAAAGGTTGCCACTAACTTGTAGGGGC
* *
1256311 TTTAGAAGGGTTGCCACTGACTTGTA--GGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* * *
1256340 TTTA-AAAGGATGCCACTGA-TT-TATGGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
*
1256368 -TT-GAAAGGGTGCCACTAACTTGT--GGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* * *
1256395 -TTCGAAAGAG-TGCCACTGAC-T-TATGGGC
1 TTTAGAAAG-GTTGCCACTAACTTGTAGGGGC
* * *
1256423 TTCAAAAAGG-TGCTACTAACTTGTA--GGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* * * **
1256451 -TTCGAAAGGGTGCCACTGAC-T-TATTGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* ** *
1256479 TTTGAGAGAGGTTGCCACCGACTTGTATGGGC
1 TTT-AGAAAGGTTGCCACTAACTTGTAGGGGC
* *
1256511 TTT-GAAAGGGTGCCACTGACTTGT--GGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
** ** *
1256539 TTTGAGAAAGGTCACCACCGACTTGTATGGGC
1 TTT-AGAAAGGTTGCCACTAACTTGTAGGGGC
* **
1256571 TTTA-AAGGGTTGCCACCGACTTGT-GTGGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAG-GGGC
* *
1256601 -TTCGAAAGGGTGCCACTAACTTGT--GGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* * * *
1256629 TTT-TAAAGGGTGCCACTGAC-T-TATGGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* *
1256657 TTTA-TAAGGGTGCCACTAACTTGT--GGGC
1 TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
* * * *
1256685 TTTTGAAAAGATGCCACTGAA-TCGT--GGGC
1 TTTAGAAAGGTTGCCACT-AACTTGTAGGGGC
* * *
1256714 TTTTGAAAGGATGCCACTGAA-TCGT--GGGC
1 TTTAGAAAGGTTGCCACT-AACTTGTAGGGGC
* * *
1256743 TTTTGAAAGGATGCCACTGACTT
1 TTTAGAAAGGTTGCCACTAACTT
1256766 ATGGGCTTTG
Statistics
Matches: 397, Mismatches: 55, Indels: 74
0.75 0.10 0.14
Matches are distributed among these distances:
26 6 0.02
27 32 0.08
28 114 0.29
29 86 0.22
30 91 0.23
31 25 0.06
32 16 0.04
33 27 0.07
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (31 bp):
TTTAGAAAGGTTGCCACTAACTTGTAGGGGC
Found at i:1256677 original size:234 final size:228
Alignment explanation
Indices: 1256304--1256779 Score: 575
Period size: 234 Copynumber: 2.1 Consensus size: 228
1256294 CACCAACTTG
* ** * *
1256304 TATGGGCTTT-AGAAGGGTTGCCACTGACTTGTAGGCTTTAAAAGGATGCCACTGATTTATGGGC
1 TATGGGCTTTGAGAAAGGTCACCACCGACTTGTAGGCTTTAAAAGGATGCCACCGATTTATGGGC
1256368 TTGAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGAGTGCCACTGACTTATGGGCTTCAAAAAGG
66 TTGAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGAGTGCCACTGACTTATGGGCTTCAAAAAGG
* * * * * * *
1256433 TGCTACTAACTTGTAGGC-TTCGAAAGGGTGCCACTGACTTATTGGC-TTTGAGAGAGGTTGCCA
131 TGCCACTAACTTGTAGGCTTTCGAAAAGATGCCACTGAATCATGGGCTTTTGA-A-AGGATGCCA
* * *
1256496 CCGACTTGTATGGGC-TTTGAAAGGGTGCCACTGACT
194 CCGAATCG--TGGGCTTTTGAAAGGATGCCACTGACT
* * * *
1256532 TGTGGGCTTTGAGAAAGGTCACCACCGACTTGTATGGGCTTTAAAGGGTTGCCACCGACTTGTGT
1 TATGGGCTTTGAGAAAGGTCACCACCGACTTGTA--GGCTTTAAAAGGATGCCACCGA-TT-TAT
** * * *
1256597 GGGCTTCGAAAGGGTGCCACTAACTTGTGGGCTTTTAAAGGGTGCCACTGACTTATGGGCTTTAT
62 GGGCTT-GAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGAGTGCCACTGACTTATGGGCTTCAA
* * * *
1256662 AAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGAATCGTGGGCTTTTGAAAGGATG
126 AAAGGTGCCACTAACTTGTAGGCTTTCGAAAAGATGCCACTGAATCATGGGCTTTTGAAAGGATG
*
1256727 CCACTGAATCGTGGGCTTTTGAAAGGATGCCACTGACT
191 CCACCGAATCGTGGGCTTTTGAAAGGATGCCACTGACT
1256765 TATGGGCTTTG-GAAA
1 TATGGGCTTTGAGAAA
1256780 AATGCCACAG
Statistics
Matches: 209, Mismatches: 30, Indels: 14
0.83 0.12 0.06
Matches are distributed among these distances:
228 9 0.04
229 19 0.09
231 19 0.09
232 11 0.05
233 38 0.18
234 86 0.41
235 22 0.11
236 5 0.02
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.29
Consensus pattern (228 bp):
TATGGGCTTTGAGAAAGGTCACCACCGACTTGTAGGCTTTAAAAGGATGCCACCGATTTATGGGC
TTGAAAGGGTGCCACTAACTTGTGGGCTTCGAAAGAGTGCCACTGACTTATGGGCTTCAAAAAGG
TGCCACTAACTTGTAGGCTTTCGAAAAGATGCCACTGAATCATGGGCTTTTGAAAGGATGCCACC
GAATCGTGGGCTTTTGAAAGGATGCCACTGACT
Found at i:1256711 original size:29 final size:29
Alignment explanation
Indices: 1256611--1256831 Score: 202
Period size: 29 Copynumber: 7.7 Consensus size: 29
1256601 TTCGAAAGGG
* * * *
1256611 TGCCACTAACTTGTGGGCTTTT-AAAGGG
1 TGCCACTGACTCGTGGGCTTTTGAAAAGA
** * *
1256639 TGCCACTGACTTATGGGC-TTT-ATAAGGG
1 TGCCACTGACTCGTGGGCTTTTGA-AAAGA
* *
1256667 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTCGTGGGCTTTTGAAAAGA
* *
1256696 TGCCACTGAATCGTGGGCTTTTGAAAGGA
1 TGCCACTGACTCGTGGGCTTTTGAAAAGA
* *
1256725 TGCCACTGAATCGTGGGCTTTTGAAAGGA
1 TGCCACTGACTCGTGGGCTTTTGAAAAGA
** *
1256754 TGCCACTGACTTATGGGCTTTGGAAAA-A
1 TGCCACTGACTCGTGGGCTTTTGAAAAGA
*
1256782 TGCCACAGACTCGTGGGC-TTT-AAAAGA
1 TGCCACTGACTCGTGGGCTTTTGAAAAGA
*
1256809 GGTGCCACTGACTTGTGGGCTTT
1 --TGCCACTGACTCGTGGGCTTT
1256832 AAAAGGGTCG
Statistics
Matches: 165, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
26 4 0.02
27 7 0.04
28 53 0.32
29 98 0.59
30 3 0.02
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (29 bp):
TGCCACTGACTCGTGGGCTTTTGAAAAGA
Found at i:1256723 original size:86 final size:83
Alignment explanation
Indices: 1256304--1256839 Score: 434
Period size: 86 Copynumber: 6.2 Consensus size: 83
1256294 CACCAACTTG
* * *
1256304 TATGGGCTTTAGAAGGGTTGCCACTGACTTGTAGGCTTT-AAAAGGATGCCACTGATTTATGGGC
1 TATGGGCTTTA-AAGGG-TGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGAATTGTGGGC
*
1256368 -TTGAAAGGGTGCCACTAACT
63 TTTGAAAGGGTGCCACTGACT
* * * * ** * * *
1256388 TGTGGGCTTCGAAAGAGTGCCACTGACTTATGGGCTTCAAAAAGGTGCTACT-AACTTGTAGGCT
1 TATGGGCTT-TAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGAA-TTGTGGGCT
*
1256452 TCGAAAGGGTGCCACTGACT
64 TTGAAAGGGTGCCACTGACT
* * * * * *
1256472 TATTGGCTTTGAGAGAGGTTGCCACCGACTTGTATGGGCTTTGAAAGGGTGCCACTGACTTGTGG
1 TATGGGCTTT-A-A-AGGGTGCCACTGACTTG--TGGGCTTTGAAAAGATGCCACTGAATTGTGG
* * *
1256537 GCTTTGAGAAAGGTCACCACCGACTT
61 GCTTTGA-AAGGGT-GCCACTGAC-T
* * * *
1256563 GTATGGGCTTTAAAGGGTTGCCACCGACTTGTGTGGGCTTCGAAAGGGTGCCACT-AACTTGTGG
1 -TATGGGCTTTAAAGGG-TGCCACTGAC-T-TGTGGGCTTTGAAAAGATGCCACTGAA-TTGTGG
*
1256627 GCTTTTAAAGGGTGCCACTGACT
61 GCTTTGAAAGGGTGCCACTGACT
* *
1256650 TATGGGCTTTATAAGGGTGCCACTAACTTGTGGGCTTTTGAAAAGATGCCACTGAATCGTGGGCT
1 TATGGGCTTTA-AAGGGTGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGAATTGTGGGC-
* *
1256715 TTTGAAAGGATGCCACTGAAT
63 TTTGAAAGGGTGCCACTGACT
** * * * * *
1256736 CGTGGGCTTTTGAAAGGATGCCACTGACTTATGGGCTTTGGAAAA-ATGCCACAGACTCGTGGGC
1 TATGGGC-TTT-AAAGGGTGCCACTGACTTGTGGGCTTT-GAAAAGATGCCACTGAATTGTGGGC
*
1256800 TTTAAAAGAGGTGCCACTGACT
63 TTTGAAAG-GGTGCCACTGACT
*
1256822 TGTGGGCTTTAAAAGGGT
1 TATGGGCTTT-AAAGGGT
1256840 CGTATTGATG
Statistics
Matches: 366, Mismatches: 60, Indels: 51
0.77 0.13 0.11
Matches are distributed among these distances:
82 1 0.00
83 31 0.08
84 49 0.13
85 40 0.11
86 94 0.26
87 34 0.09
88 37 0.10
89 15 0.04
90 51 0.14
91 3 0.01
92 11 0.03
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.28
Consensus pattern (83 bp):
TATGGGCTTTAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGAATTGTGGGCTTT
GAAAGGGTGCCACTGACT
Found at i:1256832 original size:29 final size:28
Alignment explanation
Indices: 1256306--1256839 Score: 423
Period size: 28 Copynumber: 18.6 Consensus size: 28
1256296 CCAACTTGTA
*
1256306 TGGGCTTTAGAAGGGTTGCCACTGACTTG
1 TGGGCTTTAAAAGGG-TGCCACTGACTTG
* * * *
1256335 TAGGCTTTAAAAGGATGCCACTGATTTA
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* *
1256363 TGGGC-TTGAAAGGGTGCCACTAACTTG
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
** * *
1256390 TGGGCTTCGAAAGAGTGCCACTGACTTA
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* * * *
1256418 TGGGCTTCAAAAAGGTGCTACTAACTTG
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* ** *
1256446 TAGGCTTCGAAAGGGTGCCACTGACTTA
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* * * *
1256474 TTGGCTTTGAGAGAGGTTGCCACCGACTTG
1 TGGGCTTT-A-AAAGGGTGCCACTGACTTG
*
1256504 TATGGGCTTTGAAAGGGTGCCACTGACTTG
1 --TGGGCTTTAAAAGGGTGCCACTGACTTG
* *
1256534 TGGGCTTTGAGAAA-GGTCACCACCGACTTG
1 TGGGCTTT-A-AAAGGGT-GCCACTGACTTG
*
1256564 TATGGGCTTT-AAAGGGTTGCCACCGACTTGTG
1 --TGGGCTTTAAAAGGG-TGCCACTGAC-T-TG
** *
1256596 TGGGCTTCGAAAGGGTGCCACTAACTTG
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* *
1256624 TGGGCTTTTAAAGGGTGCCACTGACTTA
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* *
1256652 TGGGCTTTATAAGGGTGCCACTAACTTG
1 TGGGCTTTAAAAGGGTGCCACTGACTTG
* * *
1256680 TGGGCTTTTGAAAA-GATGCCACTGAATCG
1 TGGGC-TTT-AAAAGGGTGCCACTGACTTG
* * * *
1256709 TGGGCTTTTGAAAGGATGCCACTGAATCG
1 TGGGC-TTTAAAAGGGTGCCACTGACTTG
* * *
1256738 TGGGCTTTTGAAAGGATGCCACTGACTTA
1 TGGGC-TTTAAAAGGGTGCCACTGACTTG
* * *
1256767 TGGGCTTTGGAAAA--ATGCCACAGACTCG
1 TGGGCTTT--AAAAGGGTGCCACTGACTTG
1256795 TGGGCTTTAAAAGAGGTGCCACTGACTTG
1 TGGGCTTTAAAAG-GGTGCCACTGACTTG
1256824 TGGGCTTTAAAAGGGT
1 TGGGCTTTAAAAGGGT
1256840 CGTATTGATG
Statistics
Matches: 412, Mismatches: 70, Indels: 47
0.78 0.13 0.09
Matches are distributed among these distances:
26 4 0.01
27 22 0.05
28 174 0.42
29 112 0.27
30 75 0.18
31 8 0.02
32 17 0.04
ACGTcount: A:0.23, C:0.18, G:0.30, T:0.28
Consensus pattern (28 bp):
TGGGCTTTAAAAGGGTGCCACTGACTTG
Found at i:1258152 original size:22 final size:21
Alignment explanation
Indices: 1258124--1258173 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 21
1258114 GACCCTTCTT
1258124 TTTTTGTTTGTTTTTTTTGGTG
1 TTTTTGTTT-TTTTTTTTGGTG
* *
1258146 TTTTTGTTTTTTTTTTTTGTT
1 TTTTTGTTTTTTTTTTTGGTG
1258167 TTTTTGT
1 TTTTTGT
1258174 ACGAAGGACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 17 0.65
22 9 0.35
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (21 bp):
TTTTTGTTTTTTTTTTTGGTG
Found at i:1261064 original size:15 final size:14
Alignment explanation
Indices: 1261044--1261081 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
1261034 GTCATCATAA
1261044 AAAAATTTAAAAATT
1 AAAAATTTAAAAA-T
1261059 AAAAATTATAAAAAT
1 AAAAATT-TAAAAAT
1261074 AAAAATTT
1 AAAAATTT
1261082 TCATACTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 15 0.68
16 6 0.27
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
AAAAATTTAAAAAT
Found at i:1261646 original size:30 final size:32
Alignment explanation
Indices: 1261612--1261671 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
1261602 AAATGTCTAT
*
1261612 AAATATTA-A-TTAATAATT-TTTTTATTTTAA
1 AAATATTATATTTAAT-ATTATTTATATTTTAA
1261642 AAATATTATATTTAATATTATTTATATTTT
1 AAATATTATATTTAATATTATTTATATTTT
1261672 TTATGAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 8 0.31
31 4 0.15
32 14 0.54
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (32 bp):
AAATATTATATTTAATATTATTTATATTTTAA
Found at i:1264338 original size:29 final size:28
Alignment explanation
Indices: 1264304--1264375 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
1264294 ATTTTTAAGA
1264304 TATAATATTTAATAAATTTTAATTTAAAT
1 TATAATATTT-ATAAATTTTAATTTAAAT
* * * *
1264333 TTTAATATATATAATTTTTTATTTTAAAT
1 TATAATATTTATAA-ATTTTAATTTAAAT
1264362 TATAAT-TTTATAAA
1 TATAATATTTATAAA
1264376 AAAATATATT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
28 10 0.29
29 25 0.71
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
TATAATATTTATAAATTTTAATTTAAAT
Found at i:1264367 original size:20 final size:22
Alignment explanation
Indices: 1264331--1264370 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1264321 TTTAATTTAA
1264331 ATTTTAATATATATAATTTTTT
1 ATTTTAATATATATAATTTTTT
1264353 ATTTTAA-AT-TATAATTTT
1 ATTTTAATATATATAATTTT
1264371 ATAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 2 0.11
22 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTAATATATATAATTTTTT
Found at i:1265915 original size:20 final size:20
Alignment explanation
Indices: 1265890--1265928 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1265880 AAGAATTGAA
1265890 GAGGGATACAAGAGAGGGAT
1 GAGGGATACAAGAGAGGGAT
**
1265910 GAGGGATACTTGAGAGGGA
1 GAGGGATACAAGAGAGGGA
1265929 AGAGTGAGCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.05, G:0.46, T:0.13
Consensus pattern (20 bp):
GAGGGATACAAGAGAGGGAT
Found at i:1266051 original size:28 final size:27
Alignment explanation
Indices: 1266012--1266082 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
1266002 AAACAAGCAT
* *
1266012 CTATATTTGACAAATACAAAGGA-AACCA
1 CTATTTTTGACAAACACAAA--ATAACCA
1266040 CTATTTTTGACAAACACAAAATAACCA
1 CTATTTTTGACAAACACAAAATAACCA
*
1266067 CCATTTTTGACAAACA
1 CTATTTTTGACAAACA
1266083 AATGGGTGGC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.03
27 20 0.51
28 18 0.46
ACGTcount: A:0.46, C:0.21, G:0.07, T:0.25
Consensus pattern (27 bp):
CTATTTTTGACAAACACAAAATAACCA
Found at i:1268012 original size:21 final size:22
Alignment explanation
Indices: 1267974--1268019 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
1267964 ATCTGTTGAA
* **
1267974 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
1267995 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
1268017 ACT
1 ACT
1268020 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:1270515 original size:20 final size:20
Alignment explanation
Indices: 1270470--1270517 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1270460 GAAAGAATTG
*
1270470 AAGAGGGATACAAGAGAGGG
1 AAGAGGGATACAAGAGAGGA
* **
1270490 ATGAGGGATACTTGAGAGGA
1 AAGAGGGATACAAGAGAGGA
1270510 AAGAGGGA
1 AAGAGGGA
1270518 GCCTCTATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.42, C:0.04, G:0.44, T:0.10
Consensus pattern (20 bp):
AAGAGGGATACAAGAGAGGA
Found at i:1270634 original size:28 final size:27
Alignment explanation
Indices: 1270599--1270664 Score: 87
Period size: 27 Copynumber: 2.4 Consensus size: 27
1270589 AGCCTTCATA
* *
1270599 TTTGACAAATACAAAGGAAACTACCATT
1 TTTGACAAACACAAAAGAAAC-ACCATT
* *
1270627 TTTGACAAACACAAAATAATCACCATT
1 TTTGACAAACACAAAAGAAACACCATT
1270654 TTTGACAAACA
1 TTTGACAAACA
1270665 AATGGGTGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 17 0.50
28 17 0.50
ACGTcount: A:0.47, C:0.20, G:0.08, T:0.26
Consensus pattern (27 bp):
TTTGACAAACACAAAAGAAACACCATT
Found at i:1270733 original size:17 final size:16
Alignment explanation
Indices: 1270713--1270771 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 16
1270703 ATAAATATAA
1270713 AAATAATATAAATTATT
1 AAAT-ATATAAATTATT
1270730 AAATATATCAAAATT-TT
1 AAATATAT--AAATTATT
1270747 AAATATA-AATATATATT
1 AAATATATAA-AT-TATT
1270764 AAATATAT
1 AAATATAT
1270772 CATATTAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
14 2 0.06
15 2 0.06
16 5 0.14
17 22 0.61
18 5 0.14
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
AAATATATAAATTATT
Found at i:1270776 original size:24 final size:23
Alignment explanation
Indices: 1270749--1270836 Score: 70
Period size: 24 Copynumber: 3.5 Consensus size: 23
1270739 AAAATTTTAA
*
1270749 ATATAAATATATATTAAATATAT
1 ATATAAATATATATTAATTATAT
*
1270772 CATATTAAT-TATATTTAATTATAT
1 -ATATAAATATATA-TTAATTATAT
*
1270796 AATATTAAATTTATTATATTATTTATAT
1 -ATA-TAAA--TA-TATATTAATTATAT
1270824 ATTATAAATATAT
1 A-TATAAATATAT
1270837 TACATTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
23 4 0.08
24 22 0.42
25 5 0.10
27 6 0.12
28 11 0.21
29 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
ATATAAATATATATTAATTATAT
Found at i:1270778 original size:14 final size:13
Alignment explanation
Indices: 1270755--1270836 Score: 64
Period size: 14 Copynumber: 6.3 Consensus size: 13
1270745 TTAAATATAA
1270755 ATATATATTAAAT
1 ATATATATTAAAT
1270768 ATATCATATT-AAT
1 ATAT-ATATTAAAT
*
1270781 -TATAT-TTAATT
1 ATATATATTAAAT
1270792 ATATAATATTAAAT
1 ATAT-ATATTAAAT
* **
1270806 TTATTATATTATTT
1 ATA-TATATTAAAT
1270820 ATATAT-TATAAAT
1 ATATATAT-TAAAT
1270833 ATAT
1 ATAT
1270837 TACATTTATT
Statistics
Matches: 54, Mismatches: 8, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
10 2 0.04
11 4 0.07
12 7 0.13
13 19 0.35
14 21 0.39
15 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATTAAAT
Found at i:1270837 original size:27 final size:29
Alignment explanation
Indices: 1270779--1270853 Score: 93
Period size: 28 Copynumber: 2.7 Consensus size: 29
1270769 TATCATATTA
* * *
1270779 ATTATATTTAATTATATAATATTAAATTT
1 ATTATATTTATTTATATATTATTAAATAT
1270808 ATTATA-TTATTTATATATTA-TAAATAT
1 ATTATATTTATTTATATATTATTAAATAT
*
1270835 ATTACATTTATTT-TATATT
1 ATTATATTTATTTATATATT
1270854 TTATACTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 17 0.41
28 18 0.44
29 6 0.15
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTATATTTATTTATATATTATTAAATAT
Found at i:1271336 original size:16 final size:16
Alignment explanation
Indices: 1271315--1271349 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1271305 AAAAGTTAGT
1271315 TTATATTAT-TTTTATA
1 TTATATTATATTTTA-A
1271331 TTATATTATATTTTAA
1 TTATATTATATTTTAA
1271347 TTA
1 TTA
1271350 ATTTTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATATTATATTTTAA
Found at i:1275212 original size:2 final size:2
Alignment explanation
Indices: 1275205--1275230 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1275195 AGAAGTAGCC
1275205 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1275231 AGACATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1275377 original size:23 final size:23
Alignment explanation
Indices: 1275351--1275403 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
1275341 CATTGATAGA
*
1275351 AAAAATTATCCCATGATTTTTAT
1 AAAAATTATCCCATGATTTCTAT
* **
1275374 AAAAATTGTTTCATGATTTCTAT
1 AAAAATTATCCCATGATTTCTAT
*
1275397 AGAAATT
1 AAAAATT
1275404 GATGTAAGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (23 bp):
AAAAATTATCCCATGATTTCTAT
Found at i:1275897 original size:49 final size:49
Alignment explanation
Indices: 1275824--1275921 Score: 169
Period size: 49 Copynumber: 2.0 Consensus size: 49
1275814 AATTCAATAA
*
1275824 CTCACTTTTTAGAAAAGACATTATGGGATCTTCGTTTTTGAATATGGTT
1 CTCACTTTTTAGAAAAGACATTATGGGATCTTCGTTGTTGAATATGGTT
* *
1275873 CTCACTTTTTAGAAAAGACCTTATGGGATCTTGGTTGTTGAATATGGTT
1 CTCACTTTTTAGAAAAGACATTATGGGATCTTCGTTGTTGAATATGGTT
1275922 AAGTAGGGTT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (49 bp):
CTCACTTTTTAGAAAAGACATTATGGGATCTTCGTTGTTGAATATGGTT
Found at i:1280393 original size:2 final size:2
Alignment explanation
Indices: 1280386--1280421 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1280376 TAAAATTATG
1280386 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
1280422 TTGAAACAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1281373 original size:16 final size:16
Alignment explanation
Indices: 1281348--1281382 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1281338 TTTAGATCAT
*
1281348 TTTTAAGTTTGAGTTA
1 TTTTAAGTTTGAATTA
*
1281364 TTTTAGGTTTGAATTA
1 TTTTAAGTTTGAATTA
1281380 TTT
1 TTT
1281383 CGGATTCGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.17, T:0.60
Consensus pattern (16 bp):
TTTTAAGTTTGAATTA
Found at i:1281398 original size:16 final size:16
Alignment explanation
Indices: 1281379--1281430 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
1281369 GGTTTGAATT
1281379 ATTTCGGATTCGGATC
1 ATTTCGGATTCGGATC
*
1281395 ATTTCAGG-TTCGGATT
1 ATTTC-GGATTCGGATC
**
1281411 ATTTTAGATTCGGATC
1 ATTTCGGATTCGGATC
1281427 ATTT
1 ATTT
1281431 TGAATTCGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.90
17 2 0.07
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.44
Consensus pattern (16 bp):
ATTTCGGATTCGGATC
Found at i:1281438 original size:16 final size:16
Alignment explanation
Indices: 1281385--1281431 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
1281375 AATTATTTCG
*
1281385 GATTCGGATCATTTCA
1 GATTCGGATCATTTTA
* *
1281401 GGTTCGGATTATTTTA
1 GATTCGGATCATTTTA
1281417 GATTCGGATCATTTT
1 GATTCGGATCATTTT
1281432 GAATTCGATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (16 bp):
GATTCGGATCATTTTA
Found at i:1281473 original size:53 final size:54
Alignment explanation
Indices: 1281416--1281538 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 54
1281406 GGATTATTTT
* **
1281416 AGATTCGGATCATTTTGAATTC-GATTCAATCGGGTTTAACACTCGGGTT-AATC
1 AGATTCAGATCATTTTGAATTCGGA-TCAATCAAGTTTAACACTCGGGTTAAATC
* * *
1281469 AGATTCAGATCATTTTGGATTCGGATCAATTAAGTTTAACATTCGGGTTAAATC
1 AGATTCAGATCATTTTGAATTCGGATCAATCAAGTTTAACACTCGGGTTAAATC
*
1281523 GGATTCA-AGTCATTTT
1 AGATTCAGA-TCATTTT
1281539 AGGTTTAGGT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
53 41 0.68
54 19 0.32
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.37
Consensus pattern (54 bp):
AGATTCAGATCATTTTGAATTCGGATCAATCAAGTTTAACACTCGGGTTAAATC
Found at i:1282323 original size:16 final size:17
Alignment explanation
Indices: 1282255--1282316 Score: 76
Period size: 16 Copynumber: 3.8 Consensus size: 17
1282245 GTTAATTATC
1282255 CGGGTCATTTCA-AGTT
1 CGGGTCATTTCAGAGTT
*
1282271 CGAGTCATTTC-GAGTT
1 CGGGTCATTTCAGAGTT
**
1282287 CGGGTCATTTTGGA-TT
1 CGGGTCATTTCAGAGTT
1282303 CGGGTCATTTCAGA
1 CGGGTCATTTCAGA
1282317 TTGGGGTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
16 37 0.95
17 2 0.05
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (17 bp):
CGGGTCATTTCAGAGTT
Found at i:1282977 original size:136 final size:133
Alignment explanation
Indices: 1282834--1283168 Score: 460
Period size: 136 Copynumber: 2.5 Consensus size: 133
1282824 TATTTTATTT
1282834 ATTTTAAAAATAAAAATTTAAAAAAGAGTTTTTTATTATTATTTTTTAATAAAATAAAAAATAAT
1 ATTTTAAAAATAAAAA--TAAAAAAG-GTTTTTTATTA-TA-TTTTTAATAAAATAAAAAATAAT
1282899 ATTTAATTAAG-TTAAAAAAATTTACATTAA-AAATTAAAATATTAATTATTATAT-TTTTATAA
61 ATTTAATTAAGTTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATCTTTTAT-A
1282961 AAATAAAAA
125 AAATAAAAA
* *
1282970 ATTTTAAAATAAAAAAATAAAAAAGTTTTTTTTATTATAATTTTTAATAAAATAAAAAATAATAT
1 ATTTTAAAA-ATAAAAATAAAAAAG-GTTTTTTATTAT-ATTTTTAATAAAATAAAAAATAATAT
* * * *
1283035 TTAATTAAGTTTGAAAAATTTTACATTAACAAATTAAAATATTAATTATTATTTCTTTTCTAAAA
63 TTAATTAAGTTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATCTTTTATAAAA
1283100 TAAAAA
128 TAAAAA
** * *
1283106 ATTTTAAATTTAAAGAATAAAAAAGGGTTTTTATTATAATTTTAATAAAATAAAAAATTAATA
1 ATTTTAAAAATAAA-AATAAAAAAGGTTTTTTATTATATTTTTAATAAAATAAAAAA-TAATA
1283169 AGACTAATGC
Statistics
Matches: 179, Mismatches: 13, Indels: 15
0.86 0.06 0.07
Matches are distributed among these distances:
134 54 0.30
135 54 0.30
136 60 0.34
137 11 0.06
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (133 bp):
ATTTTAAAAATAAAAATAAAAAAGGTTTTTTATTATATTTTTAATAAAATAAAAAATAATATTTA
ATTAAGTTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATCTTTTATAAAATAA
AAA
Found at i:1283045 original size:134 final size:135
Alignment explanation
Indices: 1282834--1283168 Score: 480
Period size: 135 Copynumber: 2.5 Consensus size: 135
1282824 TATTTTATTT
** *
1282834 ATTTTAAAAATAAAAATTTAAAAAAGAGTTTTTTATTATTATTTTTTAATAAAATAAAAAATAAT
1 ATTTT-AAAATAAAAAAATAAAAAAG-GTTTTTTATTA-TAATTTTTAATAAAATAAAAAATAAT
1282899 ATTTAATTAAG-TTAAAAAAATTTACATTAA-AAATTAAAATATTAATTATTATAT-TTTTATAA
63 ATTTAATTAAGTTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATCTTTTAT-A
1282961 AAATAAAAA
127 AAATAAAAA
*
1282970 ATTTTAAAATAAAAAAATAAAAAAGTTTTTTTTATTATAATTTTTAATAAAATAAAAAATAATAT
1 ATTTTAAAATAAAAAAATAAAAAAG-GTTTTTTATTATAATTTTTAATAAAATAAAAAATAATAT
* * * *
1283035 TTAATTAAGTTTGAAAAATTTTACATTAACAAATTAAAATATTAATTATTATTTCTTTTCTAAAA
65 TTAATTAAGTTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATCTTTTATAAAA
1283100 TAAAAA
130 TAAAAA
* * * *
1283106 ATTTTAAATTTAAAGAATAAAAAAGGGTTTTTATTATAA-TTTTAATAAAATAAAAAATTAATA
1 ATTTTAAAATAAAAAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAA-TAATA
1283169 AGACTAATGC
Statistics
Matches: 181, Mismatches: 14, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
134 54 0.30
135 62 0.34
136 60 0.33
137 5 0.03
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (135 bp):
ATTTTAAAATAAAAAAATAAAAAAGGTTTTTTATTATAATTTTTAATAAAATAAAAAATAATATT
TAATTAAGTTTAAAAAAATTTACATTAACAAATTAAAATATTAATTATTATATCTTTTATAAAAT
AAAAA
Found at i:1283691 original size:181 final size:178
Alignment explanation
Indices: 1283434--1283990 Score: 622
Period size: 183 Copynumber: 3.1 Consensus size: 178
1283424 TGTCAGATTA
* * * *
1283434 TAGACTAATGCATTAATTATATTTGAGAAT-TATATTATTTTTAATAGGAAAAAAAGAAAAGTTG
1 TAGACTAATGCATGAATTATATCTAAGAATCGA-ATT-TTTTT-ATA-GAAAAAAAGAAAAGTTG
* * * * * *
1283498 ATTCATTGTAAATGTCAGACTATTAGTATTAGACTAATGCATGAATTATATTTGAGAATCAAATT
62 ATTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGATT
* * *
1283563 CTTTTTTTATATAAAAAAAGTTAATTAAGTGTAAATGTTATACTACAAAGAT
127 CTTTTTTTATATAAAAAAAGTTGATTAAGTGTAAATGTTAGACTACAAGGAT
*
1283615 TAGAATAATGCATGAATTATATCTGAA-AATCGAATTCTATTTTATAGAAAAAAAGGAAAAGTTG
1 TAGACTAATGCATGAATTATATCT-AAGAATCGAATT-T-TTTTATAGAAAAAAA-GAAAAGTTG
* * *
1283679 ATTGAATGTAAATGTCAGACTGTAATTATTAGACTAATGCATGAATTATATGTAAGAATCAGATT
62 ATTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGATT
* **
1283744 TTTTTTTTAT-TAAAAAAAGTTGATTTTGTGTAAGA-GTTAGACTGA-AAGGAT
127 CTTTTTTTATATAAAAAAAGTTGATTAAGTGTAA-ATGTTAGACT-ACAAGGAT
*
1283795 TAGACTAATGCATGAATTGTATCTAAGAATCGAATTTTTTTATAAAAAAGAAAAAAAAGAAAAGT
1 TAGACTAATGCATGAATTATATCTAAGAATCGAATTTTTTTAT-----AG-AAAAAAAGAAAAGT
* * * ** * **
1283860 TGATTGAGTGTAAATGTCAGACTGCAAGGATTAGACTAATGCACAAATAATATCTGAGAATTGGA
60 TGATTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGA
* * * * *
1283925 TTC-TTTTTAATAGAAAAAAAATTGATTGATTGTAAATGTTAGACTACAAGGAT
125 TTCTTTTTTTATATAAAAAAAGTTGATTAAGTGTAAATGTTAGACTACAAGGAT
1283978 TAGACTAATGCAT
1 TAGACTAATGCAT
1283991 AAATAAAAAT
Statistics
Matches: 320, Mismatches: 40, Indels: 30
0.82 0.10 0.08
Matches are distributed among these distances:
178 6 0.02
179 3 0.01
180 71 0.22
181 108 0.34
182 15 0.05
183 110 0.34
184 7 0.02
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (178 bp):
TAGACTAATGCATGAATTATATCTAAGAATCGAATTTTTTTATAGAAAAAAAGAAAAGTTGATTG
AATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGATTCTTT
TTTTATATAAAAAAAGTTGATTAAGTGTAAATGTTAGACTACAAGGAT
Found at i:1283896 original size:183 final size:181
Alignment explanation
Indices: 1283434--1283990 Score: 621
Period size: 181 Copynumber: 3.1 Consensus size: 181
1283424 TGTCAGATTA
* * * * * *
1283434 TAGACTAATGCATTAATTATATTTGAGAAT-TATATTAT-TTTTAATAGGAAAAAAAGAAAAGTT
1 TAGACTAATGCATGAATTATATCTGAAAATCGA-ATTCTATTTT-ATAGAAAAAAAAGAAAAGTT
* * * * * *
1283497 GATTCATTGTAAATGTCAGACTATTAGTATTAGACTAATGCATGAATTATATTTGAGAATCAAAT
64 GATTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGAT
* * * * *
1283562 TCTTTTTTTATATAAAAAAAGTTAATTAAGTGTAAATGTTATACTACAAAGAT
129 TTTTTTTTTATATAAAAAAAGTTGATTATGTGTAAATGTTAGACTACAAGGAT
* *
1283615 TAGAATAATGCATGAATTATATCTGAAAATCGAATTCTATTTTATAGAAAAAAAGGAAAAGTTGA
1 TAGACTAATGCATGAATTATATCTGAAAATCGAATTCTATTTTATAGAAAAAAAAGAAAAGTTGA
* * *
1283680 TTGAATGTAAATGTCAGACTGTAATTATTAGACTAATGCATGAATTATATGTAAGAATCAGATTT
66 TTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGATTT
*
1283745 TTTTTTTAT-TAAAAAAAGTTGATTTTGTGTAAGA-GTTAGACTGA-AAGGAT
131 TTTTTTTATATAAAAAAAGTTGATTATGTGTAA-ATGTTAGACT-ACAAGGAT
*
1283795 TAGACTAATGCATGAATTGTATCT-AAGAATCGAATT-T-TTTTATAAAAAAGAAAAAAAAGAAA
1 TAGACTAATGCATGAATTATATCTGAA-AATCGAATTCTATTTTAT-----AGAAAAAAAAGAAA
* * * ** * *
1283857 AGTTGATTGAGTGTAAATGTCAGACTGCAAGGATTAGACTAATGCACAAATAATATCTGAGAATT
60 AGTTGATTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATC
* * * * *
1283922 GGA-TTCTTTTTAATAGAAAAAAAATTGATTGAT-TGTAAATGTTAGACTACAAGGAT
125 AGATTTTTTTTTTATATAAAAAAAGTTGATT-ATGTGTAAATGTTAGACTACAAGGAT
1283978 TAGACTAATGCAT
1 TAGACTAATGCAT
1283991 AAATAAAAAT
Statistics
Matches: 321, Mismatches: 41, Indels: 26
0.83 0.11 0.07
Matches are distributed among these distances:
178 6 0.02
179 3 0.01
180 63 0.20
181 117 0.36
182 16 0.05
183 115 0.36
184 1 0.00
ACGTcount: A:0.42, C:0.07, G:0.16, T:0.35
Consensus pattern (181 bp):
TAGACTAATGCATGAATTATATCTGAAAATCGAATTCTATTTTATAGAAAAAAAAGAAAAGTTGA
TTGAATGTAAATGTCAGACTGTAAGTATTAGACTAATGCATGAATTATATCTGAGAATCAGATTT
TTTTTTTATATAAAAAAAGTTGATTATGTGTAAATGTTAGACTACAAGGAT
Found at i:1283945 original size:96 final size:88
Alignment explanation
Indices: 1283485--1283996 Score: 354
Period size: 87 Copynumber: 5.7 Consensus size: 88
1283475 TAATAGGAAA
* * * *** * * * *
1283485 AAAAGAAAAGTTGATTCATTGTAAATGTCAGACTATTAGTATTAGACTAATGCATGAATTATATT
1 AAAA-AAAAGTTGATTGAGTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATAAATAATATC
* * * *
1283550 TGAGAATCAAATTCTTTTTTTATA-
65 TAAGAATCGAATT-TTTTTATAAAG
* * * * * * * * *
1283574 TAAAAAAAGTTAATTAAGTGTAAATGTTATACTACAAAGATTAGAATAATGCATGAATTATATCT
1 AAAAAAAAGTTGATTGAGTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATAAATAATATCT
*
1283639 GAA-AATCGAATTCTATTTTATAGAAA
66 -AAGAATCGAATT-T-TTTTATA-AAG
* * * ** * *
1283665 AAAAGGAAAAGTTGATTGAATGTAAATGTCAGACTGTAATTATTAGACTAATGCATGAATTATAT
1 AAAA--AAAAGTTGATTGAGTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATAAATAATAT
* ** *
1283730 GTAAGAATC-AGATTTTTTT-TTTAT
64 CTAAGAATCGA-ATTTTTTTATAAAG
* ** * * **
1283754 TAAAAAAAGTTGATTTTGTGTAAGA-GTTAGACTGAAAGGATTAGACTAATGCATGAATTGTATC
1 AAAAAAAAGTTGATTGAGTGTAA-ATGTTAGACTGCAAGGATTAGACTAATGCATAAATAATATC
1283818 TAAGAATCGAATTTTTTTATAAAAAAG
65 TAAGAATCGAATTTTTTTAT---AAAG
* *
1283845 AAAAAAAAGAAAAGTTGATTGAGTGTAAATGTCAGACTGCAAGGATTAGACTAATGCACAAATAA
1 ----AAAA-AAAAGTTGATTGAGTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATAAATAA
* * * *
1283910 TATCTGAGAATTGGATTCTTTTTA-ATAG
61 TATCTAAGAATCGAATT-TTTTTATAAAG
* *
1283938 AAAAAAAA-TTGATTGATTGTAAATGTTAGACTACAAGGATTAGACTAATGCATAAATAA
1 AAAAAAAAGTTGATTGAGTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATAAATAA
1283997 AAATTCAGGT
Statistics
Matches: 341, Mismatches: 61, Indels: 44
0.76 0.14 0.10
Matches are distributed among these distances:
87 112 0.33
88 67 0.20
89 18 0.05
90 2 0.01
91 8 0.02
92 4 0.01
93 60 0.18
95 4 0.01
96 60 0.18
97 6 0.02
ACGTcount: A:0.43, C:0.07, G:0.16, T:0.34
Consensus pattern (88 bp):
AAAAAAAAGTTGATTGAGTGTAAATGTTAGACTGCAAGGATTAGACTAATGCATAAATAATATCT
AAGAATCGAATTTTTTTATAAAG
Found at i:1288472 original size:19 final size:19
Alignment explanation
Indices: 1288448--1288486 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
1288438 TGAACTTGTT
1288448 GGAATGACCATCATGAATA
1 GGAATGACCATCATGAATA
1288467 GGAATGACCATCATGAATA
1 GGAATGACCATCATGAATA
1288486 G
1 G
1288487 CTTTCTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (19 bp):
GGAATGACCATCATGAATA
Found at i:1289792 original size:42 final size:42
Alignment explanation
Indices: 1289724--1289855 Score: 185
Period size: 42 Copynumber: 3.1 Consensus size: 42
1289714 TCACTCTTCC
* * *
1289724 ATCT-TCTTCTCTCCTCCTCCTGTCATCCCTCCTCTCTCTATT
1 ATCTCTCTTGTCT-CTCCTCCTATCATCCCTCCTCTCTCTACT
*
1289766 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTATCTCTACT
1 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
* *
1289808 ATCTCTCCTGTCTCTCCTCCTATCATCCCTCCTCTCTCTTCT
1 ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
*
1289850 TTCTCT
1 ATCTCT
1289856 TTGAGGGCTA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 74 0.91
43 7 0.09
ACGTcount: A:0.08, C:0.45, G:0.02, T:0.45
Consensus pattern (42 bp):
ATCTCTCTTGTCTCTCCTCCTATCATCCCTCCTCTCTCTACT
Done.