Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold111
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: 1194829
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 272571 characters in sequence are not A, C, G, or T
File 6 of 6
Found at i:1058096 original size:42 final size:42
Alignment explanation
Indices: 1058048--1058137 Score: 128
Period size: 42 Copynumber: 2.1 Consensus size: 42
1058038 GCTCTTTTTA
* *
1058048 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTT-CTTT
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCCTTT
* *
1058089 CGTCCTCAAAGAGCAGGACGTATTTTATTTCCCTTTTTCCTTT
1 -GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCCTTT
1058132 GTCCTC
1 GTCCTC
1058138 GAAAAACGAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 39 0.91
43 4 0.09
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTTTTTCCTTT
Found at i:1058332 original size:28 final size:28
Alignment explanation
Indices: 1058300--1058365 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
1058290 CTAAAGTCTG
1058300 CACAAGTTGGCAGCACCCAAAAAGCCCA
1 CACAAGTTGGCAGCACCCAAAAAGCCCA
*
1058328 CACAAGTTGGCAGCACCCAAAAGGCCCA
1 CACAAGTTGGCAGCACCCAAAAAGCCCA
1058356 CACAAGTTGG
1 CACAAGTTGG
1058366 TGGCAAACCT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.36, C:0.33, G:0.21, T:0.09
Consensus pattern (28 bp):
CACAAGTTGGCAGCACCCAAAAAGCCCA
Found at i:1059023 original size:20 final size:19
Alignment explanation
Indices: 1058998--1059126 Score: 117
Period size: 20 Copynumber: 6.8 Consensus size: 19
1058988 CTGGCAAGGA
1058998 AATGTATCGATACATTATTC
1 AATGTATCGATACATT-TTC
1059018 AATGTATCGATACATTTTGC
1 AATGTATCGATACATTTT-C
* *
1059038 ATTGTATCGATACATTGCTC
1 AATGTATCGATACATT-TTC
* *
1059058 ATTATATCGATACA---T-
1 AATGTATCGATACATTTTC
*
1059073 --TGTATCGATACATTGCTC
1 AATGTATCGATACATT-TTC
*
1059091 ATTGTATCGATACATTTTAC
1 AATGTATCGATACATTTT-C
1059111 AATGTATCGATACATT
1 AATGTATCGATACATT
1059127 CAGGCATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 20
0.78 0.05 0.17
Matches are distributed among these distances:
13 11 0.12
16 1 0.01
17 1 0.01
19 3 0.03
20 76 0.82
21 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.40
Consensus pattern (19 bp):
AATGTATCGATACATTTTC
Found at i:1059051 original size:40 final size:39
Alignment explanation
Indices: 1059000--1059126 Score: 149
Period size: 40 Copynumber: 3.4 Consensus size: 39
1058990 GGCAAGGAAA
** *
1059000 TGTATCGATACATTATTCAATGTATCGATACATTTTGCAT
1 TGTATCGATACATTGCTCATTGTATCGATACATTTT-CAT
*
1059040 TGTATCGATACATTGCTCATTATATCGAT--A----CAT
1 TGTATCGATACATTGCTCATTGTATCGATACATTTTCAT
*
1059073 TGTATCGATACATTGCTCATTGTATCGATACATTTTACAA
1 TGTATCGATACATTGCTCATTGTATCGATACATTTT-CAT
1059113 TGTATCGATACATT
1 TGTATCGATACATT
1059127 CAGGCATTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
33 31 0.42
35 1 0.01
38 1 0.01
40 41 0.55
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.41
Consensus pattern (39 bp):
TGTATCGATACATTGCTCATTGTATCGATACATTTTCAT
Found at i:1059079 original size:33 final size:33
Alignment explanation
Indices: 1059037--1059106 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
1059027 ATACATTTTG
1059037 CATTGTATCGATACATTGCTCATTATATCGATA
1 CATTGTATCGATACATTGCTCATTATATCGATA
*
1059070 CATTGTATCGATACATTGCTCATTGTATCGATA
1 CATTGTATCGATACATTGCTCATTATATCGATA
1059103 CATT
1 CATT
1059107 TTACAATGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.40
Consensus pattern (33 bp):
CATTGTATCGATACATTGCTCATTATATCGATA
Found at i:1059106 original size:13 final size:13
Alignment explanation
Indices: 1059057--1059087 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1059047 ATACATTGCT
*
1059057 CATTATATCGATA
1 CATTGTATCGATA
1059070 CATTGTATCGATA
1 CATTGTATCGATA
1059083 CATTG
1 CATTG
1059088 CTCATTGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1059119 original size:53 final size:53
Alignment explanation
Indices: 1059020--1059126 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
1059010 CATTATTCAA
* *
1059020 TGTATCGATACATTTTGCATTGTATCGATACATTGCTCATTATATCGATACAT
1 TGTATCGATACATTCTGCATTGTATCGATACATTGCTCAATATATCGATACAT
* *
1059073 TGTATCGATACATTGCT-CATTGTATCGATACATT-TTACAATGTATCGATACAT
1 TGTATCGATACATT-CTGCATTGTATCGATACATTGCT-CAATATATCGATACAT
1059126 T
1 T
1059127 CAGGCATTTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
52 1 0.02
53 46 0.96
54 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.13, T:0.41
Consensus pattern (53 bp):
TGTATCGATACATTCTGCATTGTATCGATACATTGCTCAATATATCGATACAT
Found at i:1061465 original size:51 final size:52
Alignment explanation
Indices: 1061409--1061545 Score: 168
Period size: 51 Copynumber: 2.6 Consensus size: 52
1061399 TTATGTTTCT
* * *
1061409 CAATTTTTCATAATCGGGGGTCCTCCAACCCCGGTTATA-TTTCTAAAACAC
1 CAATTTTTCATAATCGGGGGTACTCCAACCCCGATTATATTTTCAAAAACAC
* * * * *
1061460 TAATTTTCCATAATCGGGGATACTCCAACTCCGATTTTATTTTCAAAAACAC
1 CAATTTTTCATAATCGGGGGTACTCCAACCCCGATTATATTTTCAAAAACAC
* *
1061512 CAAATTTTCACAATCGGGGGATACTCCAACCCCG
1 CAATTTTTCATAATCGGGGG-TACTCCAACCCCG
1061546 TTAATCATCG
Statistics
Matches: 70, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
51 32 0.46
52 26 0.37
53 12 0.17
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (52 bp):
CAATTTTTCATAATCGGGGGTACTCCAACCCCGATTATATTTTCAAAAACAC
Found at i:1061535 original size:53 final size:51
Alignment explanation
Indices: 1061413--1061545 Score: 162
Period size: 53 Copynumber: 2.6 Consensus size: 51
1061403 GTTTCTCAAT
* * * *
1061413 TTTTCATAATCGGGGG-TCCTCCAACCCCGGTTATATTTCTAAAACACTAA
1 TTTTCATAATCGGGGGATACTCCAACCCCGATTATATTTCAAAAACACAAA
* *
1061463 TTTTCCATAATC-GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAAA
1 TTTT-CATAATCGGGGGATACTCCAACCCCGATTATA-TTTCAAAAACA-CAAA
*
1061516 TTTTCACAATCGGGGGATACTCCAACCCCG
1 TTTTCATAATCGGGGGATACTCCAACCCCG
1061546 TTAATCATCG
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
50 8 0.11
51 22 0.31
52 16 0.23
53 24 0.34
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (51 bp):
TTTTCATAATCGGGGGATACTCCAACCCCGATTATATTTCAAAAACACAAA
Found at i:1061555 original size:28 final size:26
Alignment explanation
Indices: 1061524--1061600 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 26
1061514 AATTTTCACA
1061524 ATCGGGGGATACTCCAACCCCGTTAAT
1 ATCGGGGGATACTCCAACCCCGTT-AT
* *
1061551 CATC-GGGGATACTCTAACCCTGTTAT
1 -ATCGGGGGATACTCCAACCCCGTTAT
*
1061577 TTCTGAGGGGATACTCCAACCCCG
1 ATC-G-GGGGATACTCCAACCCCG
1061601 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
25 2 0.05
26 2 0.05
27 18 0.44
28 19 0.46
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (26 bp):
ATCGGGGGATACTCCAACCCCGTTAT
Found at i:1061561 original size:27 final size:28
Alignment explanation
Indices: 1061528--1061600 Score: 87
Period size: 27 Copynumber: 2.6 Consensus size: 28
1061518 TTCACAATCG
*
1061528 GGGGATACTCCAACCCCGTTA-ATCAT-C
1 GGGGATACTCCAACCCCGTTATATC-TGA
* * *
1061555 GGGGATACTCTAACCCTGTTATTTCTGA
1 GGGGATACTCCAACCCCGTTATATCTGA
1061583 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1061601 GCTTTATTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 20 0.53
28 18 0.47
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.25
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATATCTGA
Found at i:1061643 original size:79 final size:79
Alignment explanation
Indices: 1061552--1061758 Score: 337
Period size: 79 Copynumber: 2.6 Consensus size: 79
1061542 CCCGTTAATC
* *
1061552 ATCGGGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
*
1061617 ATTGATTTCTCATA
66 ATTGATTTCTCACA
* *
1061631 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1061696 ATTGATTTCTCACA
66 ATTGATTTCTCACA
1061710 ATCGGGGATACTCCAACCCCGTTATTTTCGTGA--GGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTA-TTTC-TGAGGGGATACTCCAACCCCG
1061759 TTATTTTTGA
Statistics
Matches: 120, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
79 114 0.95
80 4 0.03
81 2 0.02
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:1061755 original size:28 final size:28
Alignment explanation
Indices: 1061714--1061784 Score: 110
Period size: 28 Copynumber: 2.5 Consensus size: 28
1061704 CTCACAATCG
1061714 GGGATACTCCAACCCCGTTATTTTCGTG-A
1 GGGATACTCCAACCCCGTTATTTT--TGAA
1061743 -GGATACTCCAACCCCGTTATTTTTGAA
1 GGGATACTCCAACCCCGTTATTTTTGAA
1061770 GGGATACTCCAACCC
1 GGGATACTCCAACCC
1061785 TGATTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
26 2 0.05
27 1 0.03
28 37 0.93
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTTTGAA
Found at i:1061825 original size:107 final size:107
Alignment explanation
Indices: 1061636--1061862 Score: 260
Period size: 107 Copynumber: 2.1 Consensus size: 107
1061626 TCATAATCGG
* * * ***
1061636 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTCCTAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAA
* * **
1061701 TTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCGTGA
66 TTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGA
** * *
1061743 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCTGATTTTATT-TTCAAAACACCA
1 GGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATTCCT-AAAACACCA
* * * *
1061807 ATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTTCCAAGG
65 ATTTCTC-ACAATCAGGGATACTCCAACCCCGTTATTTCCAAGA
1061850 GGATACTCCAACC
1 GGATACTCCAACC
1061863 TCGATTTTAT
Statistics
Matches: 100, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
106 3 0.03
107 97 0.97
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
GGATACTCCAACCCCGTTATTTCCGAAGGGATACTCCAACCCCGATTTTATTCCTAAAACACCAA
TTTCTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGA
Found at i:1061827 original size:186 final size:185
Alignment explanation
Indices: 1061475--1061891 Score: 482
Period size: 186 Copynumber: 2.2 Consensus size: 185
1061465 TTCCATAATC
* * * ***
1061475 GGGGATACTCCAACTCCGATTTTATTTTCAAAAACACCAAATTTTCACAATCGGGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTA-TTCCTAAAACA-TTGATTTTCACAATCGGGGGATACTCCA
* * * *
1061540 ACCCCGTTAATCATCGGGGATACTCTAACCCTGTTATTTCTGAGGGGATACTCCAACCCCGGCTT
64 ACCCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGACTT
* *** * *
1061605 TATTCCTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCGA
129 TATTCCTAAAACACCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCAA
* *
1061662 GGGGATACTCCAACCCCGGTTTTATTCCTAAAATATTGATTTCTCACAATC-GGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAACATTGATTT-TCACAATCGGGGGATACTCCAA
** * * *
1061726 CCCCGTT-ATTTTCGTGAGGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCTGATT
65 CCCCGTTAATCATCG-G-GGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGACT
* * *
1061790 TTATT-TTCAAAACACCAATTT-TCTATAATTAGGGATACTCCAACCCTGTTATTTCCAA
128 TTATTCCT-AAAACACCAATTTCTC-ATAATCAGGGATACTCCAACCCCGTTATTTCCAA
* * *
1061848 GGGGATACTCCAACCTCGATTTTATTTCTAGAACATTGATTTTC
1 GGGGATACTCCAACCCCGATTTTATTCCTAAAACATTGATTTTC
1061892 CATAATCAAG
Statistics
Matches: 194, Mismatches: 31, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
184 5 0.03
185 30 0.15
186 137 0.71
187 22 0.11
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.32
Consensus pattern (185 bp):
GGGGATACTCCAACCCCGATTTTATTCCTAAAACATTGATTTTCACAATCGGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAAGGGATACTCCAACCCCGACTTTA
TTCCTAAAACACCAATTTCTCATAATCAGGGATACTCCAACCCCGTTATTTCCAA
Found at i:1061890 original size:79 final size:80
Alignment explanation
Indices: 1061743--1061910 Score: 193
Period size: 79 Copynumber: 2.1 Consensus size: 80
1061733 ATTTTCGTGA
**
1061743 GGATACTCCAACCCCGTTATTTTTGAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAA
1 GGATACTCCAACCCCGTTATTTTCCAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAA
* *
1061808 TTTTCTATAAT-TAG
66 TTTTCCATAATCAAG
* * *
1061822 GGATACTCCAACCCTGTTA-TTTCCAAGGGGATACTCCAA-CCTCGATTTTA-TTTCTAGAACAT
1 GGATACTCCAACCCCGTTATTTTCCAA-GGGATACTCCAACCCT-GATTTTATTTTC-AAAACAC
**
1061884 TGATTTTCCATAATCAAG
63 CAATTTTCCATAATCAAG
1061902 GGA-ACTCCA
1 GGATACTCCA
1061911 GCACCGTCGT
Statistics
Matches: 76, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
78 12 0.16
79 59 0.78
80 5 0.07
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (80 bp):
GGATACTCCAACCCCGTTATTTTCCAAGGGATACTCCAACCCTGATTTTATTTTCAAAACACCAA
TTTTCCATAATCAAG
Found at i:1063121 original size:20 final size:20
Alignment explanation
Indices: 1063096--1063161 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1063086 CACACCTAGA
1063096 GTATCGATACATTATGCTTT
1 GTATCGATACATTATGCTTT
1063116 GTATCGATAC---A----TT
1 GTATCGATACATTATGCTTT
1063129 GTATCGATACATTATGCTTT
1 GTATCGATACATTATGCTTT
1063149 GTATCGATACATT
1 GTATCGATACATT
1063162 GTATCGATAC
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 12 0.31
16 1 0.03
17 1 0.03
20 25 0.64
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
GTATCGATACATTATGCTTT
Found at i:1063132 original size:13 final size:13
Alignment explanation
Indices: 1063114--1063173 Score: 69
Period size: 13 Copynumber: 5.1 Consensus size: 13
1063104 ACATTATGCT
1063114 TTGTATCGATACA
1 TTGTATCGATACA
1063127 TTGTATCGATACA
1 TTGTATCGATACA
*
1063140 -T-TAT-G---CT
1 TTGTATCGATACA
1063147 TTGTATCGATACA
1 TTGTATCGATACA
1063160 TTGTATCGATACA
1 TTGTATCGATACA
1063173 T
1 T
1063174 GTTCACTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.08
10 2 0.05
11 3 0.08
12 1 0.03
13 28 0.72
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1063138 original size:33 final size:33
Alignment explanation
Indices: 1063096--1063173 Score: 156
Period size: 33 Copynumber: 2.4 Consensus size: 33
1063086 CACACCTAGA
1063096 GTATCGATACATTATGCTTTGTATCGATACATT
1 GTATCGATACATTATGCTTTGTATCGATACATT
1063129 GTATCGATACATTATGCTTTGTATCGATACATT
1 GTATCGATACATTATGCTTTGTATCGATACATT
1063162 GTATCGATACAT
1 GTATCGATACAT
1063174 GTTCACTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (33 bp):
GTATCGATACATTATGCTTTGTATCGATACATT
Found at i:1063281 original size:13 final size:13
Alignment explanation
Indices: 1063263--1063287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1063253 CATGGCACAT
1063263 TGTATCGATACAA
1 TGTATCGATACAA
1063276 TGTATCGATACA
1 TGTATCGATACA
1063288 TGATGAATTG
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1063303 original size:33 final size:33
Alignment explanation
Indices: 1063243--1063307 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1063233 TACCACTGTT
*
1063243 TGTATCGATACATGGCACATTGTATCGATACAA
1 TGTATCGATACATGGCACATTGCATCGATACAA
1063276 TGTATCGATACATGATG-A-ATTGCATCGATACA
1 TGTATCGATACATG--GCACATTGCATCGATACA
1063308 TTGCTTATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 27 0.93
34 1 0.03
35 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATGGCACATTGCATCGATACAA
Found at i:1065442 original size:56 final size:55
Alignment explanation
Indices: 1065365--1066152 Score: 421
Period size: 56 Copynumber: 14.2 Consensus size: 55
1065355 TTTAAATTTG
* * *
1065365 AAATGAAATAGCCTAAAAGTAGCTAGT-GGATTTCTTCTAAATTGAAATTGGCACCA
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGG-TTTCTTCT-AATTGAAATTGGCACCA
* * * * *
1065421 AAATGAAAAAGCCCGAGAGTAGTTAATAGGTATAGCTT-TAGTTGAAATTGGCACC-
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGGT-T-TCTTCTAATTGAAATTGGCACCA
** * * * * * * *
1065476 AAATGTGAAAGCCTAAGAATAGCCAATAGGTTTCATCCTAAATGAAATTGGCATCA
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGGTTTC-TTCTAATTGAAATTGGCACCA
* * *
1065532 AAA-CAAAAA--CCAAAAGTAGCTAGTAGGTTTCATAT-TAATTGAAATTGGCACCG
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGGTTTC-T-TCTAATTGAAATTGGCACCA
* * **
1065585 AAGT-AAAAAGGCCCAA-AGTAGCTAGTAGGTTT-TGTCCCAATTGAAATTGGCACTT
1 AAATGAAAAA-GCCCAAGAGTAGCTAGTAGGTTTCT-T-CTAATTGAAATTGGCACCA
* * * * * * *
1065640 AAGTGAAAAAACCTAAGAGTAACTAGTAGGTTTCGTCCCT-ATTAAAATTGGCACTA
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGGTTTC-T-TCTAATTGAAATTGGCACCA
** * * * * * *
1065696 AAATGAAAAAGCTTGAA-AGTTGTTGGTAAGTTT-TATCATAGTTGAAACTGGCACCA
1 AAATGAAAAAGC-CCAAGAGTAGCTAGTAGGTTTCT-TC-TAATTGAAATTGGCACCA
* * * *
1065752 AAATGAAAAAGCCTAAGAGTAGCTCA-TAGGTTTCATCCTAATTGAAATCGGCACTA
1 AAATGAAAAAGCCCAAGAGTAGCT-AGTAGGTTTC-TTCTAATTGAAATTGGCACCA
* * * ** * *
1065808 AAGTGAAAAAACCCAAGAGTAGCTAGTAGGTTTTGTTCTAGCTAAAATTTGCACCA
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGG-TTTCTTCTAATTGAAATTGGCACCA
* * * * *
1065864 AAATGAAAAAGCCCAAAAGTAGCTTGTAGGTTTCATCCTAGTTGAAATTGACACCA
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGGTTTC-TTCTAATTGAAATTGGCACCA
* * * ** * *
1065920 AAATTG-GAAAGCCCAAAAGTAACT-GATAGGTTT-TATCCTTGTTGAAATTAGCACTA
1 AAA-TGAAAAAGCCCAAGAGTAGCTAG-TAGGTTTCT-T-CTAATTGAAATTGGCACCA
* * ** ** * * *
1065976 AAATG-AGAAGCCCAAGAATAGCTAGTAAACATAGC-TCTAATTGAAATAGTCACCC
1 AAATGAAAAAGCCCAAGAGTAGCTAGT--AGGTTTCTTCTAATTGAAATTGGCACCA
* * * ***
1066031 AAAT-AAGAAAGCCTAAGAGCAGCTAATAGG-TTCTTTCCTAATTGAAATTGGCATTG
1 AAATGAA-AAAGCCCAAGAGTAGCTAGTAGGTTTC-TT-CTAATTGAAATTGGCACCA
* * * * * *
1066087 AAATGAGAAAGCCCAAGAATAGCTAATAGGTTTCGTCCTAGTTGAAATTAGCACCA
1 AAATGAAAAAGCCCAAGAGTAGCTAGTAGGTTTC-TTCTAATTGAAATTGGCACCA
1066143 AAATGAAAAA
1 AAATGAAAAA
1066153 CTCAATGTGG
Statistics
Matches: 549, Mismatches: 141, Indels: 84
0.71 0.18 0.11
Matches are distributed among these distances:
53 45 0.08
54 6 0.01
55 122 0.22
56 351 0.64
57 20 0.04
58 5 0.01
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (55 bp):
AAATGAAAAAGCCCAAGAGTAGCTAGTAGGTTTCTTCTAATTGAAATTGGCACCA
Found at i:1065814 original size:168 final size:166
Alignment explanation
Indices: 1065406--1065977 Score: 482
Period size: 168 Copynumber: 3.4 Consensus size: 166
1065396 TTCTTCTAAA
* * * * * *
1065406 TTGAAATTGGCACCAAAATGAAAAAGCCCGAGAGTAGTTAATAGG-TATAGCTTTAGTTGAAATT
1 TTGAAATTGGCACCAAAATGAAAAAGCCC-AAAGTAGCT-ATAGGTTTTATC-CTAATTGAAATT
* * * * * * * * ** * *
1065470 GGCACCAAATGTG--AAAGCCTAAGAATAGCCAATAGGTTTCATCCTAAATGAAATTGGCATCAA
63 GGCACTAAA-GTGAAAAAACCCAAGAGTAACTAGTAGGTTTCGTCCTAGCTAAAATTGGCACCAA
* * * *
1065533 AA-CAAAAA--CCAAAAGTAGCTAGTAGGTTTCAT-ATTAA
127 AATGAAAAAGCCCAAAAGTAGCTTGTAAGTTTCATCA-TAG
* * * *
1065570 TTGAAATTGGCACCGAAGT-AAAAAGGCCCAAAGTAGCTAGTAGGTTTTGTCCCAATTGAAATTG
1 TTGAAATTGGCACCAAAATGAAAAA-GCCCAAAGTAGCTA-TAGGTTTTATCCTAATTGAAATTG
* * * *
1065634 GCACTTAAGTGAAAAAACCTAAGAGTAACTAGTAGGTTTCGTCCCTA-TTAAAATTGGCACTAAA
64 GCACTAAAGTGAAAAAACCCAAGAGTAACTAGTAGGTTTCGT-CCTAGCTAAAATTGGCACCAAA
*** * *
1065698 ATGAAAAAGCTTGAAAGTTG-TTGGTAAGTTTTATCATAG
128 ATGAAAAAGCCCAAAAGTAGCTT-GTAAGTTTCATCATAG
* * * *
1065737 TTGAAACTGGCACCAAAATGAAAAAGCCTAAGAGTAGCTCATAGGTTTCATCCTAATTGAAATCG
1 TTGAAATTGGCACCAAAATGAAAAAGCCCAA-AGTAGCT-ATAGGTTTTATCCTAATTGAAATTG
* * * *
1065802 GCACTAAAGTGAAAAAACCCAAGAGTAGCTAGTAGGTTTTGTTCTAGCTAAAATTTGCACCAAAA
64 GCACTAAAGTGAAAAAACCCAAGAGTAACTAGTAGGTTTCGTCCTAGCTAAAATTGGCACCAAAA
* *
1065867 TGAAAAAGCCCAAAAGTAGCTTGTAGGTTTCATCCTAG
129 TGAAAAAGCCCAAAAGTAGCTTGTAAGTTTCATCATAG
* * * **
1065905 TTGAAATTGACACCAAAATTG-GAAAGCCCAAAAGTAACTGATAGGTTTTATCCTTGTTGAAATT
1 TTGAAATTGGCACCAAAA-TGAAAAAGCCC-AAAGTAGCT-ATAGGTTTTATCCTAATTGAAATT
*
1065969 AGCACTAAA
63 GGCACTAAA
1065978 ATGAGAAGCC
Statistics
Matches: 325, Mismatches: 65, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
162 4 0.01
163 32 0.10
164 61 0.19
165 9 0.03
166 1 0.00
167 41 0.13
168 170 0.52
169 7 0.02
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (166 bp):
TTGAAATTGGCACCAAAATGAAAAAGCCCAAAGTAGCTATAGGTTTTATCCTAATTGAAATTGGC
ACTAAAGTGAAAAAACCCAAGAGTAACTAGTAGGTTTCGTCCTAGCTAAAATTGGCACCAAAATG
AAAAAGCCCAAAAGTAGCTTGTAAGTTTCATCATAG
Found at i:1065841 original size:112 final size:110
Alignment explanation
Indices: 1065380--1066152 Score: 471
Period size: 112 Copynumber: 7.0 Consensus size: 110
1065370 AAATAGCCTA
* * * * *
1065380 AAAGTAGCTAGT-GGATTTCTTCTAAATTGAAATTGGCACCAAAATGAAAAAGCCCGAGAGTAGT
1 AAAGTAGCTAGTAGGTTTTATCCT-AATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAGC
* * * * *
1065444 TAATAGGTAT-AGCTTTAGTTGAAATTGGCACCAAATGTG--AAAGCCT
65 T-ATAGGTTTCATC-CTAATTGAAATTGGCACCAAA-GTGAAAAAGCCC
* * * * * * * *
1065490 AAGAATAGCCAATAGGTTTCATCCTAAATGAAATTGGCATCAAAA-CAAAAA--CCAAAAGTAGC
1 AA-AGTAGCTAGTAGGTTTTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAGC
** *
1065552 TAGTAGGTTTCATATTAATTGAAATTGGCACCGAAGT-AAAAAGGCCC
65 TA-TAGGTTTCATCCTAATTGAAATTGGCACCAAAGTGAAAAA-GCCC
* * ** * * * *
1065599 AAAGTAGCTAGTAGGTTTTGTCCCAATTGAAATTGGCACTTAAGTGAAAAAACCTAAGAGTAACT
1 AAAGTAGCTAGTAGGTTTTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAGCT
* * * * **
1065664 AGTAGGTTTCGTCCCT-ATTAAAATTGGCACTAAAATGAAAAAGCTTG
66 A-TAGGTTTCAT-CCTAATTGAAATTGGCACCAAAGTGAAAAAGC-CC
* * * * * * * *
1065711 AAAGTTGTTGGTAAGTTTTATCATAGTTGAAACTGGCACCAAAATGAAAAAGCCTAAGAGTAGCT
1 AAAGTAGCTAGTAGGTTTTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAGCT
* * *
1065776 CATAGGTTTCATCCTAATTGAAATCGGCACTAAAGTGAAAAAACCC
66 -ATAGGTTTCATCCTAATTGAAATTGGCACCAAAGTGAAAAAGCCC
* * ** * * *
1065822 AAGAGTAGCTAGTAGGTTTTGTTCTAGCTAAAATTTGCACCAAAATGAAAAAGCCCAAAAGTAGC
1 AA-AGTAGCTAGTAGGTTTTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAGC
* * * * *
1065887 TTGTAGGTTTCATCCTAGTTGAAATTGACACCAAAATTG-GAAAGCCC
65 -TATAGGTTTCATCCTAATTGAAATTGGCACC-AAAGTGAAAAAGCCC
* ** * * * *
1065934 AAAAGTAACT-GATAGGTTTTATCCTTGTTGAAATTAGCACTAAAATG-AGAAGCCCAAGAATAG
1 -AAAGTAGCTAG-TAGGTTTTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAG
**** * * * *
1065997 CTAGTAAACAT-AGCTCTAATTGAAATAGTCACCCAAA-T-AAGAAAGCCT
64 CTA-TAGGTTTCATC-CTAATTGAAATTGGCA-CCAAAGTGAA-AAAGCCC
* * *** * *
1066045 AAGAGCAGCTAATAGGTTCTT-TCCTAATTGAAATTGGCATTGAAATGAGAAAGCCCAAGAATAG
1 AA-AGTAGCTAGTAGGTT-TTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAG
* * * *
1066109 CTAATAGGTTTCGTCCTAGTTGAAATTAGCACCAAAATGAAAAA
64 CT-ATAGGTTTCATCCTAATTGAAATTGGCACCAAAGTGAAAAA
1066153 CTCAATGTGG
Statistics
Matches: 503, Mismatches: 127, Indels: 64
0.72 0.18 0.09
Matches are distributed among these distances:
107 3 0.01
108 68 0.14
109 11 0.02
110 13 0.03
111 145 0.29
112 250 0.50
113 13 0.03
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.26
Consensus pattern (110 bp):
AAAGTAGCTAGTAGGTTTTATCCTAATTGAAATTGGCACCAAAATGAAAAAGCCCAAGAGTAGCT
ATAGGTTTCATCCTAATTGAAATTGGCACCAAAGTGAAAAAGCCC
Found at i:1066144 original size:111 final size:112
Alignment explanation
Indices: 1065852--1066144 Score: 267
Period size: 111 Copynumber: 2.6 Consensus size: 112
1065842 GTTCTAGCTA
* * * * *
1065852 AAATTTGCACCAAAATGAAAAAGCCCAA-AAGTAGCTTGTAGGTTTCATCCTAGTTGAAATT-GA
1 AAATTAGCACTAAAATGAGAAAGCCCAAGAA-TAGCTAGTAGGTTTCGTCCTAGTTGAAATTAGA
** * * **
1065915 CACCAAAATTGGAAAGCCCAAAAGTAACTGATAGGTTTTATCCTTGTTG
65 CACC-AAATAAGAAAGCCCAAAAGCAACTAATAGGTTTTATCCTAATTG
**** * * *
1065964 AAATTAGCACTAAAATGAG-AAGCCCAAGAATAGCTAGTAAACATAG-CTCTAATTGAAA-TAGT
1 AAATTAGCACTAAAATGAGAAAGCCCAAGAATAGCTAGTAGGTTTCGTC-CTAGTTGAAATTAGA
* * *
1066026 CACCCAAATAAGAAAGCCTAAGAGCAGCTAATAGGTTCTT-TCCTAATTG
65 CA-CCAAATAAGAAAGCCCAAAAGCAACTAATAGGTT-TTATCCTAATTG
* * * *
1066075 AAATTGGCATTGAAATGAGAAAGCCCAAGAATAGCTAATAGGTTTCGTCCTAGTTGAAATTAG-C
1 AAATTAGCACTAAAATGAGAAAGCCCAAGAATAGCTAGTAGGTTTCGTCCTAGTTGAAATTAGAC
1066139 ACCAAA
66 ACCAAA
1066145 ATGAAAAACT
Statistics
Matches: 142, Mismatches: 31, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
110 2 0.01
111 82 0.58
112 54 0.38
113 4 0.03
ACGTcount: A:0.40, C:0.17, G:0.18, T:0.25
Consensus pattern (112 bp):
AAATTAGCACTAAAATGAGAAAGCCCAAGAATAGCTAGTAGGTTTCGTCCTAGTTGAAATTAGAC
ACCAAATAAGAAAGCCCAAAAGCAACTAATAGGTTTTATCCTAATTG
Found at i:1074505 original size:13 final size:13
Alignment explanation
Indices: 1074487--1074511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1074477 CAAAGATCAG
1074487 TGTATCGATACAA
1 TGTATCGATACAA
1074500 TGTATCGATACA
1 TGTATCGATACA
1074512 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1075421 original size:49 final size:49
Alignment explanation
Indices: 1075308--1075424 Score: 207
Period size: 49 Copynumber: 2.4 Consensus size: 49
1075298 GGTTAGCGAT
* *
1075308 ATTGGACTTAAAGATAAAGGTACCAATGTGCTGATTCAAGGCCAGCGAC
1 ATTGGACTTAAAGATGAAGGTACCAATGTGCTGATTCAAGGCCAACGAC
*
1075357 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
1 ATTGGACTTAAAGATGAAGGTACCAATGTGCTGATTCAAGGCCAACGAC
1075406 ATTGGACTTAAAGATGAAG
1 ATTGGACTTAAAGATGAAG
1075425 ATGAGAAAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (49 bp):
ATTGGACTTAAAGATGAAGGTACCAATGTGCTGATTCAAGGCCAACGAC
Found at i:1075538 original size:55 final size:52
Alignment explanation
Indices: 1075479--1075776 Score: 176
Period size: 49 Copynumber: 6.1 Consensus size: 52
1075469 CGATATTAGG
* *
1075479 CTTAAAGATGAGAAAAAAGATGTCAATGCACTGATTCAAGGCCAGCTACATTGAA
1 CTTAAAGATG-G--AAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
* ** * *
1075534 CTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
*** *
1075586 CTT-AA-A--G----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
* ** * *
1075629 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
*** *
1075678 CTT-AA-A--G----G-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGA
1 CTTAAAGATGGAAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
* ** * *
1075721 CTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGA
1 CTTAAAGATGGAAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
1075770 CTTAAAG
1 CTTAAAG
1075777 GTGCCAATGT
Statistics
Matches: 216, Mismatches: 15, Indels: 30
0.83 0.06 0.11
Matches are distributed among these distances:
43 72 0.33
44 6 0.03
45 2 0.01
46 3 0.01
47 1 0.00
48 5 0.02
49 76 0.35
50 1 0.00
51 2 0.01
52 37 0.17
54 1 0.00
55 10 0.05
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (52 bp):
CTTAAAGATGGAAAAGATGCCAATACACTGATTCAAGGCCAGCTACATTGAA
Found at i:1075607 original size:43 final size:43
Alignment explanation
Indices: 1075546--1075821 Score: 372
Period size: 43 Copynumber: 6.1 Consensus size: 43
1075536 TAAAGATGGA
*
1075546 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1075589 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1075632 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1075681 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
*
1075724 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 ----A--AAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
* *
1075773 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
1075816 AGAAGG
1 A-AAGG
1075822 GTTGCCACCG
Statistics
Matches: 209, Mismatches: 11, Indels: 25
0.85 0.04 0.10
Matches are distributed among these distances:
43 121 0.58
44 4 0.02
45 2 0.01
47 2 0.01
49 80 0.38
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTT
Found at i:1075677 original size:92 final size:92
Alignment explanation
Indices: 1075509--1075816 Score: 571
Period size: 92 Copynumber: 3.3 Consensus size: 92
1075499 TGTCAATGCA
*
1075509 CTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAGGCC
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCC
1075574 AGCTATATTGGACTTAAAGGTGCCAATGTG
63 AGCTATATTGGACTTAAAGGTGCCAATGTG
1075604 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1075669 TATATTGGACTTAAAGGTGCCAATGTG
66 TATATTGGACTTAAAGGTGCCAATGTG
1075696 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1 CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
1075761 TATATTGGACTTAAAGGTGCCAATGTG
66 TATATTGGACTTAAAGGTGCCAATGTG
*
1075788 CTGATTCAAGGCCAGCTACATTGGGCTTA
1 CTGATTCAAGGCCAGCTACATTGGACTTA
1075817 GAAGGGTTGC
Statistics
Matches: 211, Mismatches: 2, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 177 0.84
94 1 0.00
95 33 0.16
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (92 bp):
CTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGC
TATATTGGACTTAAAGGTGCCAATGTG
Found at i:1075911 original size:65 final size:65
Alignment explanation
Indices: 1075809--1076630 Score: 1091
Period size: 65 Copynumber: 12.8 Consensus size: 65
1075799 CCAGCTACAT
* * * *
1075809 TGGGC-TTA-GAAGGGTTGCCACCGACTTGTGTAGGCTTTAGAGAATGGTTGCCACCAACCTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* * * *
1075872 TGGGCTTTAGGAAGAGTTGCCACCAACTTGTGTGGGCTTTAGAG-GGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* * **
1075936 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTATAGGCTTTA-AGAAAAGTTGCCACCGACTTGT
1 TGGGCTTTAG-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1076000 G
65 G
*
1076001 TGGGCTTTAGAGAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCGACTTGT
1 TGGGCTTTAG-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1076065 G
65 G
* * * * *
1076066 TGGGCTTTAGAGAATGGTTGCCACCAACCTGTGTGGGCTTTAG-GAAGAGTTGCCACCAACTTGT
1 TGGGCTTTAG-GAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1076130 G
65 G
* *
1076131 TGGGCTTTA-GAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1 TGGGCTTTAGGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1076195 G
65 G
** * * * *
1076196 TGGGCTTTAAAAAGAGTTGCCACTGACTTGTGTGGGCTTTAGAGAGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
1076261 TGGGCTTTA-GAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACTGACTTG
1 TGGGCTTTAGGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGGTTGCCACCGACTTG
1076324 TG
64 TG
* **
1076326 TGAGCTTTAGGAA-GGTTGCCACCGACTTGTGTGGGCTTTAG-GAATAGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* * *
1076389 TGGGCTTTA-GAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCATCGACTTGT
1 TGGGCTTTAGGA-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1076453 G
65 G
* * * * *
1076454 TGGGCTTTAAGAAGAGTTGCCACCAACTTGTGTAGGCTTTAGAGAGGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
1076519 TGGGCTTTA-GAGAGGGTTGCCACCGACTTGTGTGGGCTTTATAAGAA-GGTTGCCACCGACTTG
1 TGGGCTTTAGGA-AGGGTTGCCACCGACTTGTGTGGGCTTTA-GAGAAGGGTTGCCACCGACTTG
1076582 TG
64 TG
*
1076584 TGGGCTTTAGGAA-GGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
1076631 AGAAAGATGC
Statistics
Matches: 674, Mismatches: 64, Indels: 42
0.86 0.08 0.05
Matches are distributed among these distances:
62 8 0.01
63 33 0.05
64 144 0.21
65 474 0.70
66 15 0.02
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.28
Consensus pattern (65 bp):
TGGGCTTTAGGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
Found at i:1075987 original size:97 final size:97
Alignment explanation
Indices: 1075809--1076630 Score: 1130
Period size: 97 Copynumber: 8.5 Consensus size: 97
1075799 CCAGCTACAT
* * * *
1075809 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTAGGCTTTAGAGAATGGTTGCCACCAACCTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* *
1075872 TGGGCTTTAGGAAGAGTTGCCACCAACTTGTG
66 TGGGCTTTAAGAAGAGTTGCCACCGACTTGTG
* * *
1075904 TGGGCTTTAGAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTA
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
* *
1075969 TAGGCTTTAAGAAAAGTTGCCACCGACTTGTG
66 TGGGCTTTAAGAAGAGTTGCCACCGACTTGTG
1076001 TGGGCTTTAGAGAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAGA-GGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
* *
1076065 GTGGGCTTTAGAGAATG-GTTGCCACCAACCTGTG
65 GTGGGCTTTA-AGAA-GAGTTGCCACCGACTTGTG
* * * *
1076099 TGGGCTTTAG-GAAGAGTTGCCACCAACTTGTGTGGGCTTTAGAG-GGGGTTGCCACCAACTTGT
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
*
1076162 GTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
65 GTGGGCTTTA-AGAAGAGTTGCCACCGACTTGTG
* * * * * *
1076196 TGGGCTTTAAAAAGAGTTGCCACTGACTTGTGTGGGCTTTAGAGAGGGGTTGCCACCAACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
1076261 TGGGCTTT-AGAGAGGGTTGCCACCGACTTGTG
66 TGGGCTTTAAGA-AGAGTTGCCACCGACTTGTG
* * *
1076293 TGGGCTTTAGAAGAAGGTTGCCACTGACTTGTGTGAGCTTTAG-GAA-GGTTGCCACCGACTTGT
1 TGGGCTTTAG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
* *
1076356 GTGGGCTTTAGGAATAGTTGCCACCGACTTGTG
65 GTGGGCTTTAAGAAGAGTTGCCACCGACTTGTG
* * *
1076389 TGGGCTTTAGAGGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTTGCCATCGACTTGTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
*
1076454 TGGGCTTTAAGAAGAGTTGCCACCAACTTGTG
66 TGGGCTTTAAGAAGAGTTGCCACCGACTTGTG
*
1076486 TAGGCTTTAGAGAGGGGTTGCCACCGACTTGTGTGGGCTTTAGAG-AGGGTTGCCACCGACTTGT
1 TGGGCTTTAGAGA-GGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGT
1076550 GTGGGCTTTATAAGAAG-GTTGCCACCGACTTGTG
65 GTGGGC-TT-TAAGAAGAGTTGCCACCGACTTGTG
* *
1076584 TGGGCTTTAG-GAAGGTTGCCACCGACTTGTGTGGGCTTT-GGGAAGGG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGG
1076631 AGAAAGATGC
Statistics
Matches: 654, Mismatches: 55, Indels: 35
0.88 0.07 0.05
Matches are distributed among these distances:
95 34 0.05
96 95 0.15
97 345 0.53
98 173 0.26
99 7 0.01
ACGTcount: A:0.19, C:0.18, G:0.34, T:0.28
Consensus pattern (97 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTG
TGGGCTTTAAGAAGAGTTGCCACCGACTTGTG
Found at i:1076715 original size:34 final size:34
Alignment explanation
Indices: 1076667--1077395 Score: 764
Period size: 34 Copynumber: 21.8 Consensus size: 34
1076657 TAAAAGGGTG
1076667 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
1076702 AAAGGTGCCACGGAGTTGTGGGTTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
**
1076738 AAAGAGTGCCATTGAGTTGTGGGCTTTAAAAAGAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG-AA
*
1076774 AAAGGTGCCATGGAGTTGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1076808 AAAGGTGTCACGGAGTTGTGGGCTTTGAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * * *
1076842 CAAGGTGCCACGGGGTCGTGGAC-TTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
1076874 AAAGGTGCCACGGAGTGGTGGGCTTTAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1076908 AAAGGTACCACGGAGTTATGGGCTTTGAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AGAA
1076944 AAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-AA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1076977 AAA-GTGCCACGGAGTGGTGGGCTTTGAGAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
*
1077010 AAAGGTGCCACGGAGTTGTGGAC-TT-AAAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
** *
1077040 ---GGTGCCACAAAGTTGCGGGCTTTAAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAA-GAA
* *
1077072 AAAGAATGCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1077105 -AAGGTGCCACAGAGTTGTGGACTTCAAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
1077138 AAAGGTTCCACGGAGTTGTGGGCTTTGAAAAG--
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * ** *
1077170 -AAGGTGCCATGGAGTCGTGAAC-TTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1077202 CAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA-AGAA
*
1077237 AAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * *
1077271 GAAGGTGCCATGGAGTTGTGGGCTTT-AAAGGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* * * * *
1077304 CAAGGTGCCATGGGGTCGTGGAC-TTAAAAAG-A
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
* *
1077336 AAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
1077370 AAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTT
1077396 GAAGAAAAAT
Statistics
Matches: 580, Mismatches: 82, Indels: 65
0.80 0.11 0.09
Matches are distributed among these distances:
27 16 0.03
28 2 0.00
29 4 0.01
30 7 0.01
31 61 0.11
32 51 0.09
33 81 0.14
34 197 0.34
35 76 0.13
36 46 0.08
37 39 0.07
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (34 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAA
Found at i:1077084 original size:128 final size:130
Alignment explanation
Indices: 1076667--1077395 Score: 652
Period size: 128 Copynumber: 5.4 Consensus size: 130
1076657 TAAAAGGGTG
**
1076667 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGTTTTGAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAA-AAAAA-GTGCCACGGAGTTGTGGACTTT-AAA
* ** *
1076732 AGGGAAAAAGAGTGCCATTGAGTTGTGGGCTTTAAAAAGAAAAAAGGTGCCATGGAGTTGTGGGC
61 A-AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAG-----AGGTGCCACGGAGTTGTGGGC
1076797 TTTAAAAA-GAA
119 TTTAAAAAGGAA
* * * * *
1076808 AAAGGTGTCACGGAGTTGTGGGCTTTGAAAGGAACAAGGTGCCACGGGGTCGTGGAC-TTAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAA--AAAAAAGTGCCACGGAGTTGTGGACTTTAAAAA
* * *
1076872 G-AAAAGGTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTTATGGGCTTTGA
63 GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG----AGGTGCCACGGAGTTGTGGGCTTT-A
*
1076936 AAAGGGAA
123 AAAAGGAA
* * * *
1076944 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTGGTGGGCTTTGAGAAGA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTTGTGGACTTTAAAAAGA
* ** *
1077009 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAG-GGTGCCACAAAGTTGCGGGCTTTAAAAAGGA
65 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGA
1077071 A
130 A
* * * * * *
1077072 AAAGAATGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACAGAGTTGTGGACTTCAAAAAGA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTTGTGGACTTTAAAAAGA
* * * * **
1077137 AAAAGGTTCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCATGGAGTCGTGAAC-TT-AAAAGG
65 AAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG-AGGTGCCACGGAGTTGTGGGCTTTAAAAAGG
1077200 AA
129 AA
* * * *
1077202 CAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA---AAAAA-GTGCCACGGAGTTGTGGACTTTAAAA
* * * * * * *
1077267 AGAAGAAGGTGCCATGGAGTTGTGGGCTTTAAAGGAACAAGGTGCCATGGGGTCGTGGAC-TTAA
62 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA--AA-GAGGTGCCACGGAGTTGTGGGCTTTAA
1077331 AAA-G-A
124 AAAGGAA
* *
1077336 AAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-AAAAA-GTGCCACGGAGTTGTGGACTTT
1077396 GAAGAAAAAT
Statistics
Matches: 497, Mismatches: 71, Indels: 48
0.81 0.12 0.08
Matches are distributed among these distances:
128 85 0.17
129 43 0.09
130 16 0.03
131 2 0.00
132 16 0.03
133 80 0.16
134 74 0.15
135 65 0.13
136 41 0.08
137 22 0.04
138 4 0.01
139 2 0.00
140 39 0.08
141 7 0.01
142 1 0.00
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.21
Consensus pattern (130 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAAAAAGTGCCACGGAGTTGTGGACTTTAAAAAGAA
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA
Found at i:1077257 original size:99 final size:98
Alignment explanation
Indices: 1077105--1077369 Score: 372
Period size: 99 Copynumber: 2.7 Consensus size: 98
1077095 CTTTGAAAAG
* * *
1077105 AAGGTGCCACAGAGTTGTGGACTTCAAAAAGAAAAAGGTTCCACGGAGTTGTGGGCTTTGAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1077170 AAGGTGCCATGGAGTCGTGAACTTAAAAGGAAC
66 AAGGTGCCATGGAGTCGTGAACTTAAAAGGAAC
*
1077203 AAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAGGTGCCACGGAGTTGTGGACTTTAAAA-AGAAAAAGGTGCCACGGAGTTGTGGGCTTTG--AA
* ** *
1077268 GAAGAAGGTGCCATGGAGTTGTGGGCTTTAAAGGAAC
63 -AAGAAGGTGCCATGGAGTCGTGAACTTAAAAGGAAC
* * * *
1077305 AAGGTGCCATGGGGTCGTGGAC-TTAAAAAG-AAAAGGTGCCACGGAGTGGTGGGCTTTGAAAAG
1 AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1077368 AA
66 AA
1077370 AAAGGTGCCA
Statistics
Matches: 150, Mismatches: 13, Indels: 10
0.87 0.08 0.06
Matches are distributed among these distances:
96 5 0.03
97 2 0.01
98 27 0.18
99 56 0.37
100 1 0.01
101 8 0.05
102 51 0.34
ACGTcount: A:0.32, C:0.13, G:0.34, T:0.20
Consensus pattern (98 bp):
AAGGTGCCACGGAGTTGTGGACTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
AAGGTGCCATGGAGTCGTGAACTTAAAAGGAAC
Found at i:1077401 original size:65 final size:65
Alignment explanation
Indices: 1076667--1077404 Score: 662
Period size: 65 Copynumber: 11.0 Consensus size: 65
1076657 TAAAAGGGTG
*
1076667 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGTTTTGAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--AA
1076732 AGGGAA
62 A--GAA
** *
1076738 AAAGAGTGCCATTGAGTTGTGGGCTTTAAAAAGAAAAAAGGTGCCATGGAGTTGTGGGCTTTAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAG-AAAAAGGTGCCACGGAGTTGTGGGCTTT--A
1076803 AAGAA
61 AAGAA
* * * * * * *
1076808 AAAGGTGTCACGGAGTTGTGGGCTTTGAAAGGAACAAGGTGCCACGGGGTCGTGGAC-TTAAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
1076872 GA
65 -A
* * *
1076874 AAAGGTGCCACGGAGTGGTGGGCTTTAAAAAGAAAAAGGTACCACGGAGTTATGGGCTTTGAAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--AAA
1076939 GGGAA
63 --GAA
*
1076944 AAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AAAAA-GTGCCACGGAGTGGTGGGCTTTGAGAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-A-AA
1077007 GAA
63 GAA
* ** *
1077010 AAAGGTGCCACGGAGTTGTGGAC-TTAAAAG-----GGTGCCACAAAGTTGCGGGCTTTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT--AAA-
1077069 GAA
63 GAA
* * * *
1077072 AAAGAATGCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCACAGAGTTGTGGACTTCAAAA
1 AAAG-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTT--TAA
1077134 AGAA
62 AGAA
* * * ** *
1077138 AAAGGTTCCACGGAGTTGTGGGCTTTGAAAAG---AAGGTGCCATGGAGTCGTGAACTTAAAAGG
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-G
1077200 AA
64 AA
* *
1077202 CAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAA--GAAAAAGGTGCCACGGAGTTGTGGGCTTT--AA
1077267 AGAA
62 AGAA
* * * * * * * * *
1077271 GAAGGTGCCATGGAGTTGTGGGCTTTAAAGGAACAAGGTGCCATGGGGTCGTGGAC-TTAAAAAG
1 AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA-
1077335 A
65 A
* *
1077336 AAAGGTGCCACGGAGTGGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAGA
1 AAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGA
1077401 A
65 A
1077402 AAA
1 AAA
1077405 TGCCACTGAG
Statistics
Matches: 557, Mismatches: 79, Indels: 67
0.79 0.11 0.10
Matches are distributed among these distances:
61 20 0.04
62 8 0.01
63 25 0.04
64 38 0.07
65 98 0.18
66 92 0.17
67 53 0.10
68 61 0.11
69 60 0.11
70 19 0.03
71 53 0.10
72 30 0.05
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (65 bp):
AAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAGAA
Found at i:1077567 original size:31 final size:30
Alignment explanation
Indices: 1077333--1077674 Score: 350
Period size: 31 Copynumber: 11.0 Consensus size: 30
1077323 GGACTTAAAA
* * * *
1077333 AGAAAAGGTGCCACGGAGTGGTGGGCTTTG
1 AGAAAAGATGCCACTGAGTCGTGGACTTTG
* * * *
1077363 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTG
1 ---AG-AAAAGATGCCACTGAGTCGTGGACTTTG
*
1077397 AAGAAAA-ATGCCACTGAGTCATGGACTTTG
1 -AGAAAAGATGCCACTGAGTCGTGGACTTTG
*
1077427 AGACAAA-ATGCCACTGAGTCGTGGACTTTAA
1 AGA-AAAGATGCCACTGAGTCGTGGACTTT-G
* *
1077458 AGAAAAGGATGCCACTGAGTCGTGAACTTGG
1 AGAAAA-GATGCCACTGAGTCGTGGACTTTG
*
1077489 AGACAAA-ATGCCACTGAGTCGTGGATTTTG
1 AGA-AAAGATGCCACTGAGTCGTGGACTTTG
*
1077519 AAGAAAAGGATGCCACTGAGTCGTGGACTTCG
1 -AGAAAA-GATGCCACTGAGTCGTGGACTTTG
* *
1077551 AGCAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAAGA-TGCCACTGAGTCGTGGACTTTG
1077582 AAGAAAAGGATGCCACTGAGTCGTGGACTTTG
1 -AGAAAA-GATGCCACTGAGTCGTGGACTTTG
*
1077614 AGAAGAGATTGCCACTGAGTCGTGGACTTTG
1 AGAAAAGA-TGCCACTGAGTCGTGGACTTTG
1077645 A-AAAGAGATTGCCACTGAGTCGTGGACTTT
1 AGAAA-AGA-TGCCACTGAGTCGTGGACTTT
1077675 AAAAAGGTAT
Statistics
Matches: 272, Mismatches: 23, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.01
30 74 0.27
31 91 0.33
32 73 0.27
33 4 0.01
34 27 0.10
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (30 bp):
AGAAAAGATGCCACTGAGTCGTGGACTTTG
Found at i:1077585 original size:63 final size:62
Alignment explanation
Indices: 1077318--1077674 Score: 406
Period size: 62 Copynumber: 5.7 Consensus size: 62
1077308 GTGCCATGGG
** * * *
1077318 GTCGTGGACTTAAAAAGAAAAGG-TGCCACGGAGTGGTGGGCTTTGAAAAGA-AAAAGGTGCCAC
1 GTCGTGGACTT-TGAAGAAAAGGATGCCACTGAGTCGTGGACTTTG---AGACAAAA--TGCCAC
*
1077381 GGA
60 TGA
* * *
1077384 GTTGTGGGCTTTGAAGAAAA--ATGCCACTGAGTCATGGACTTTGAGACAAAATGCCACTGA
1 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGA
* * *
1077444 GTCGTGGACTTTAAAGAAAAGGATGCCACTGAGTCGTGAACTTGGAGACAAAATGCCACTGA
1 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGA
* * *
1077506 GTCGTGGATTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTCGAG-CAGAGATTGCCACTGA
1 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGA
*
1077569 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGA-AGAGATTGCCACTGA
1 GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACA-A-AATGCCACTGA
*
1077632 GTCGTGGACTTTGAA-AAGA-GATTGCCACTGAGTCGTGGACTTT
1 GTCGTGGACTTTGAAGAAAAGGA-TGCCACTGAGTCGTGGACTTT
1077675 AAAAAGGTAT
Statistics
Matches: 260, Mismatches: 23, Indels: 20
0.86 0.08 0.07
Matches are distributed among these distances:
60 25 0.10
61 7 0.03
62 109 0.42
63 85 0.33
64 18 0.07
65 7 0.03
66 9 0.03
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (62 bp):
GTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTGAGACAAAATGCCACTGA
Found at i:1078999 original size:14 final size:13
Alignment explanation
Indices: 1078976--1079016 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
1078966 TGATTTTGCC
*
1078976 TTTGCACTTTTTT
1 TTTGCTCTTTTTT
1078989 TTTGACTCTTTTTT
1 TTTG-CTCTTTTTT
1079003 TTTGCT-TTTTTT
1 TTTGCTCTTTTTT
1079015 TT
1 TT
1079017 ACTTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 6 0.23
14 12 0.46
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (13 bp):
TTTGCTCTTTTTT
Found at i:1086026 original size:13 final size:13
Alignment explanation
Indices: 1086008--1086032 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1085998 CAAAGATCAG
1086008 TGTATCGATACAA
1 TGTATCGATACAA
1086021 TGTATCGATACA
1 TGTATCGATACA
1086033 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1086103 original size:19 final size:20
Alignment explanation
Indices: 1086075--1086127 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
1086065 TAGCTTAAAT
*
1086075 TGTATAGATACAAAAC-TTA
1 TGTATCGATACAAAACTTTA
*
1086094 TGTATCGATACAACACTTTA
1 TGTATCGATACAAAACTTTA
1086114 TGTATCGATACAAA
1 TGTATCGATACAAA
1086128 TCGTTGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.32
Consensus pattern (20 bp):
TGTATCGATACAAAACTTTA
Found at i:1087395 original size:36 final size:32
Alignment explanation
Indices: 1087313--1087409 Score: 94
Period size: 36 Copynumber: 3.0 Consensus size: 32
1087303 TTTACAACAT
1087313 TATC-TTTC-AAGGCTAAGATAGAAAC-CTCTC
1 TATCTTTTCAAAGGCTAAGATAG-AACTCTCTC
**
1087343 TATCTTTTCACGGGCTAAGATAGAACTTCTCTCCC
1 TATCTTTTCAAAGGCTAAGATAGAAC-TCTCT--C
*
1087378 TATCTTTTTCAAAGGCTAAGGTAGAAC-CTCTC
1 TATC-TTTTCAAAGGCTAAGATAGAACTCTCTC
1087410 AATCACTTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
30 4 0.07
31 7 0.13
32 12 0.22
33 4 0.07
34 4 0.07
35 5 0.09
36 19 0.35
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (32 bp):
TATCTTTTCAAAGGCTAAGATAGAACTCTCTC
Found at i:1087886 original size:32 final size:32
Alignment explanation
Indices: 1087846--1087920 Score: 123
Period size: 32 Copynumber: 2.3 Consensus size: 32
1087836 CAATGTATAG
1087846 TGATGAATAGTGATGTATCGATACATGAACAA
1 TGATGAATAGTGATGTATCGATACATGAACAA
* * *
1087878 TGATGAATAGTGATGTATCGATACATGGATAG
1 TGATGAATAGTGATGTATCGATACATGAACAA
1087910 TGATGAATAGT
1 TGATGAATAGT
1087921 AAAAAATGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (32 bp):
TGATGAATAGTGATGTATCGATACATGAACAA
Found at i:1089165 original size:167 final size:167
Alignment explanation
Indices: 1088973--1089722 Score: 709
Period size: 167 Copynumber: 4.5 Consensus size: 167
1088963 GTCATGAAAA
* *
1088973 GGGTAAGTGGGTTTACCGGGGACTAAGTTGATAGGTAAACAAAGGATGAAGATTGACTGGAGACT
1 GGGTAAG-GGGTTTACCAGGGACTAAGTTGACAGGTAAACAAAGGATGAAGATTGACTGGAGACT
* * ** * * ** *
1089038 GAGTTGATAGGTCACCAAGGGATAAGGGGTTTTTCGAAGACAAAGCTGAAAGATAAACAAAGAAT
65 GAGCTGATAGGTCACCAAAGGATAAGGGGTTTACCGAGGACTAAGCCCAAAGATAAACAAAGGAT
* * * *
1089103 GAAGGTTAATCAGAGACTGAGCTAACAAGTCACCATAG
130 GAAGGTTGACCAAAGACTAAGCTAACAAGTCACCATAG
** * * * *
1089141 GGGTAAGGGGTTTATTAGGGACTAAGCTGACAAGTAAACAAAAGATGAA-AGTTGA-TAAGAGAC
1 GGGTAAGGGGTTTACCAGGGACTAAGTTGACAGGTAAACAAAGGATGAAGA-TTGACT-GGAGAC
* * * * * * *
1089204 TGAGCTGATAGGTCACCAAAGGACAAGGGGTTTACCGGGGATTGAGCCGATAGGTAAACAAAGGA
64 TGAGCTGATAGGTCACCAAAGGATAAGGGGTTTACCGAGGACTAAGCCCAAAGATAAACAAAGGA
* **** * *
1089269 TAAAGGTTGATTGGAGACTAAGCTAATAGGTCACCATAG
129 TGAAGGTTGACCAAAGACTAAGCTAACAAGTCACCATAG
* * * * * * * *
1089308 GGGTAAAGGGTTTACCAAGGACTGAGTTAACAGGTAAACAAAGGATAAAGGTTTGGCCGGAGACT
1 GGGTAAGGGGTTTACCAGGGACTAAGTTGACAGGTAAACAAAGGATGAA-GATTGACTGGAGACT
* * * * *
1089373 GAGCTGACAGGTCACTAAGGGATAAGGGGTTTACTGGGGACTAAGCCCACAAG-TAAACAAAGGA
65 GAGCTGATAGGTCACCAAAGGATAAGGGGTTTACCGAGGACTAAGCCCA-AAGATAAACAAAGGA
* * * * *
1089437 TGAAGGTTGACCAAAGATTGAGCTGACAAGTCACAATAA
129 TGAAGGTTGACCAAAGACTAAGCTAACAAGTCACCATAG
*** * * * * *
1089476 GGGTAAGGGGTTTATTGGGGACTAAGTCGATAGGTAAATAAAGGATGAAGGTTGACCGGAGACTG
1 GGGTAAGGGGTTTACCAGGGACTAAGTTGACAGGTAAACAAAGGATGAAGATTGACTGGAGACTG
* * * * *
1089541 AGCTAATAGGTCACCAAAGGATAAAGGGTTTACCGAGGACTGAGTCAACAAG-TAAACAAAGGAT
66 AGCTGATAGGTCACCAAAGGATAAGGGGTTTACCGAGGACTAAGCCCA-AAGATAAACAAAGGAT
* * *
1089605 GAAGGTTGACCAAAAACTAAGCTGACAGGTCACCA-AG
130 GAAGGTTGACCAAAGACTAAGCTAACAAGTCACCATAG
* * * ** * * * *
1089642 GGATAAGGGGTTTACCAAGGACTGAGCCGACAAGTAAACAAAGGATAAAGGTTGACTAGAGACTG
1 GGGTAAGGGGTTTACCAGGGACTAAGTTGACAGGTAAACAAAGGATGAAGATTGACTGGAGACTG
1089707 AGCTGATAGGTCACCA
66 AGCTGATAGGTCACCA
1089723 TAGGTGTAAG
Statistics
Matches: 469, Mismatches: 107, Indels: 14
0.79 0.18 0.02
Matches are distributed among these distances:
166 70 0.15
167 264 0.56
168 133 0.28
169 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.19
Consensus pattern (167 bp):
GGGTAAGGGGTTTACCAGGGACTAAGTTGACAGGTAAACAAAGGATGAAGATTGACTGGAGACTG
AGCTGATAGGTCACCAAAGGATAAGGGGTTTACCGAGGACTAAGCCCAAAGATAAACAAAGGATG
AAGGTTGACCAAAGACTAAGCTAACAAGTCACCATAG
Found at i:1089182 original size:84 final size:83
Alignment explanation
Indices: 1088971--1089722 Score: 618
Period size: 83 Copynumber: 9.0 Consensus size: 83
1088961 AAGTCATGAA
* * * * * **
1088971 AAGGG-TAAGTGGGTTTACCGGGGACTAAGTTGATAGGTAAACAAAGGATGAAGATTGACTGGAG
1 AAGGGATAAG-GGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGGTTGACCAGAG
* *
1089035 ACTGAGTTGATAGGTCACC
65 ACTGAGCTGACAGGTCACC
** * * * * *
1089054 AAGGGATAAGGGGTTTTTC-GAAGACAAAGCTGA-AAGATAAACAAAGAATGAAGGTTAATCAGA
1 AAGGGATAAGGGGTTTACCAG-GGACTAAGCTGACAAG-TAAACAAAGGATGAAGGTTGACCAGA
* *
1089117 GACTGAGCTAACAAGTCACC
64 GACTGAGCTGACAGGTCACC
* ** * * **
1089137 ATAGGGGTAAGGGGTTTATTAGGGACTAAGCTGACAAGTAAACAAAAGATGAAAGTTGATAAGAG
1 A-AGGGATAAGGGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGGTTGACCAGAG
*
1089202 ACTGAGCTGATAGGTCACC
65 ACTGAGCTGACAGGTCACC
* * * * * * * * * ***
1089221 AAAGGACAAGGGGTTTACCGGGGATTGAGCCGATAGGTAAACAAAGGATAAAGGTTGATTGGAGA
1 AAGGGATAAGGGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGGTTGACCAGAGA
* * *
1089286 CTAAGCTAATAGGTCACC
66 CTGAGCTGACAGGTCACC
* * * * * * * * * *
1089304 ATAGGGGTAAAGGGTTTACCAAGGACTGAGTTAACAGGTAAACAAAGGATAAAGGTTTGGCCGGA
1 A-AGGGATAAGGGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGG-TTGACCAGA
*
1089369 GACTGAGCTGACAGGTCACT
64 GACTGAGCTGACAGGTCACC
** ** *
1089389 AAGGGATAAGGGGTTTACTGGGGACTAAGCCCACAAGTAAACAAAGGATGAAGGTTGACCAAAGA
1 AAGGGATAAGGGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGGTTGACCAGAGA
* * *
1089454 TTGAGCTGACAAGTCACAAT
66 CTGAGCTGACAGGTCAC--C
*** * * * *
1089474 AAGGG-TAAGGGGTTTATTGGGGACTAAG-TCGATAGGTAAATAAAGGATGAAGGTTGACCGGAG
1 AAGGGATAAGGGGTTTACCAGGGACTAAGCT-GACAAGTAAACAAAGGATGAAGGTTGACCAGAG
* *
1089537 ACTGAGCTAATAGGTCACC
65 ACTGAGCTGACAGGTCACC
* * * * *
1089556 AAAGGATAAAGGGTTTACC-GAGGACTGAG-TCAACAAGTAAACAAAGGATGAAGGTTGACCAAA
1 AAGGGATAAGGGGTTTACCAG-GGACTAAGCT-GACAAGTAAACAAAGGATGAAGGTTGACCAGA
* *
1089619 AACTAAGCTGACAGGTCACC
64 GACTGAGCTGACAGGTCACC
* * * * *
1089639 AAGGGATAAGGGGTTTACCAAGGACTGAGCCGACAAGTAAACAAAGGATAAAGGTTGACTAGAGA
1 AAGGGATAAGGGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGGTTGACCAGAGA
*
1089704 CTGAGCTGATAGGTCACC
66 CTGAGCTGACAGGTCACC
1089722 A
1 A
1089723 TAGGTGTAAG
Statistics
Matches: 534, Mismatches: 120, Indels: 30
0.78 0.18 0.04
Matches are distributed among these distances:
82 8 0.01
83 278 0.52
84 215 0.40
85 33 0.06
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.19
Consensus pattern (83 bp):
AAGGGATAAGGGGTTTACCAGGGACTAAGCTGACAAGTAAACAAAGGATGAAGGTTGACCAGAGA
CTGAGCTGACAGGTCACC
Found at i:1089550 original size:41 final size:41
Alignment explanation
Indices: 1089494--1089615 Score: 122
Period size: 42 Copynumber: 3.0 Consensus size: 41
1089484 GGTTTATTGG
* * *
1089494 GGACTAAGTCGATAGGTAAATAAAGGATGAAGGTTGACCG-
1 GGACTGAGTCAATAGGTAAACAAAGGATGAAGGTTGACCGA
* * * *
1089534 GAGACTGAG-CTAATAGGTCACCAAAGGATAAAGGGTTTACCGA
1 G-GACTGAGTC-AATAGGTAAACAAAGGATGAA-GGTTGACCGA
* *
1089577 GGACTGAGTCAACAAGTAAACAAAGGATGAAGGTTGACC
1 GGACTGAGTCAATAGGTAAACAAAGGATGAAGGTTGACC
1089616 AAAAACTAAG
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
40 2 0.03
41 29 0.45
42 31 0.48
43 2 0.03
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.18
Consensus pattern (41 bp):
GGACTGAGTCAATAGGTAAACAAAGGATGAAGGTTGACCGA
Found at i:1089552 original size:335 final size:333
Alignment explanation
Indices: 1088981--1089722 Score: 896
Period size: 335 Copynumber: 2.2 Consensus size: 333
1088971 AAGGGTAAGT
** * * * * *
1088981 GGGTTTACCGGGGACTAAGTTGATAGGTAAACAAAGGATGAAGATTGACTGGAGACTGAGTTGAT
1 GGGTTTACCAAGGACTGAGTTGACAGGTAAACAAAGGATAAAGGTTGACTGGAGACTGAGCTGAT
* **
1089046 AGGTCACCAAGGGATAAGGGGTTTTTCGAAGACAAAGCTGAAAGATAAACAAAGAATGAAGGTTA
66 AGGTCACCAAGGGATAAGGGGTTTCTCGAAGACAAAGCCCAAAGATAAACAAAGAATGAAGGTTA
* * * *
1089111 ATCAGAGACTGAGCTAACAAGTCACCATAGGGGTAAGGGGTTTATTAGGGACTAAGCTGACAAGT
131 ACCAAAGACTGAGCTAACAAGTCACAATAAGGGTAAGGGGTTTATTAGGGACTAAGCTGACAAGT
* * *
1089176 AAACAAAAGATGAAAGTTGATAAGAGACTGAGCTGATAGGTCACCAAAGGACAAGGGGTTTACCG
196 AAACAAAAGATGAAAGTTGACAAGAGACTGAGCTAATAGGTCACCAAAGGACAAAGGGTTTACCG
* * * * * **** * *
1089241 GGGATTGAGCCGATAGGTAAACAAAGGATAAAGGTTGATTGGAGACTAAGCTAATAGGTCACCAT
261 AGGACTGAGCCAACAAGTAAACAAAGGATAAAGGTTGACCAAAAACTAAGCTAACAGGTCACCA-
*
1089306 AGGGGTAAA
325 AGGGATAAA
* * *
1089315 GGGTTTACCAAGGACTGAGTTAACAGGTAAACAAAGGATAAAGGTTTGGCCGGAGACTGAGCTGA
1 GGGTTTACCAAGGACTGAGTTGACAGGTAAACAAAGGATAAAGG-TTGACTGGAGACTGAGCTGA
* * ** * *
1089380 CAGGTCACTAAGGGATAAGGGGTTTACT-GGGGACTAAGCCCACAAG-TAAACAAAGGATGAAGG
65 TAGGTCACCAAGGGATAAGGGGTTT-CTCGAAGACAAAGCCCA-AAGATAAACAAAGAATGAAGG
* * * * *
1089443 TTGACCAAAGATTGAGCTGACAAGTCACAATAAGGGTAAGGGGTTTATTGGGGACTAAG-TCGAT
128 TTAACCAAAGACTGAGCTAACAAGTCACAATAAGGGTAAGGGGTTTATTAGGGACTAAGCT-GAC
* * * * ** *
1089507 AGGTAAATAAAGGATGAAGGTTGACCGGAGACTGAGCTAATAGGTCACCAAAGGATAAAGGGTTT
192 AAGTAAACAAAAGATGAAAGTTGACAAGAGACTGAGCTAATAGGTCACCAAAGGACAAAGGGTTT
* * *
1089572 ACCGAGGACTGAGTCAACAAGTAAACAAAGGATGAAGGTTGACCAAAAACTAAGCTGACAGGTCA
257 ACCGAGGACTGAGCCAACAAGTAAACAAAGGATAAAGGTTGACCAAAAACTAAGCTAACAGGTCA
*
1089637 CCAAGGGATAAG
322 CCAAGGGATAAA
** * *
1089649 GGGTTTACCAAGGACTGAGCCGACAAGTAAACAAAGGATAAAGGTTGACTAGAGACTGAGCTGAT
1 GGGTTTACCAAGGACTGAGTTGACAGGTAAACAAAGGATAAAGGTTGACTGGAGACTGAGCTGAT
1089714 AGGTCACCA
66 AGGTCACCA
1089723 TAGGTGTAAG
Statistics
Matches: 341, Mismatches: 63, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
333 25 0.07
334 85 0.25
335 227 0.67
336 4 0.01
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (333 bp):
GGGTTTACCAAGGACTGAGTTGACAGGTAAACAAAGGATAAAGGTTGACTGGAGACTGAGCTGAT
AGGTCACCAAGGGATAAGGGGTTTCTCGAAGACAAAGCCCAAAGATAAACAAAGAATGAAGGTTA
ACCAAAGACTGAGCTAACAAGTCACAATAAGGGTAAGGGGTTTATTAGGGACTAAGCTGACAAGT
AAACAAAAGATGAAAGTTGACAAGAGACTGAGCTAATAGGTCACCAAAGGACAAAGGGTTTACCG
AGGACTGAGCCAACAAGTAAACAAAGGATAAAGGTTGACCAAAAACTAAGCTAACAGGTCACCAA
GGGATAAA
Found at i:1090189 original size:20 final size:19
Alignment explanation
Indices: 1090159--1090196 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1090149 TAATTTTTTT
*
1090159 TTAAATGTGATTTAACCTA
1 TTAAATGTGATCTAACCTA
1090178 TTAAAGTGTGATCTAACCT
1 TTAAA-TGTGATCTAACCT
1090197 TTCCTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (19 bp):
TTAAATGTGATCTAACCTA
Found at i:1102623 original size:20 final size:20
Alignment explanation
Indices: 1102597--1102651 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1102587 AAAAAAACAG
*
1102597 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1102617 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
1102637 AATATATCGATACAT
1 AATGTATCGATACAT
1102652 CTGGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1102701 original size:71 final size:70
Alignment explanation
Indices: 1102547--1102681 Score: 209
Period size: 70 Copynumber: 1.9 Consensus size: 70
1102537 AATTAACTAG
*
1102547 ATGTATCGATACATTGAAAAATAATTAATACATCTGGGCAAAAAAAACAGAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATAATCAATACATCTGGG-AAAAAAAACAGAATGTATCGATACAT
1102612 TCATAC
65 TCATAC
* * *
1102618 ATGTATCGATACATTGAAAAATATATCGATACATCTGGG-TAAAAAACATAATGTATCGATACAT
1 ATGTATCGATACATTGAAAAATA-ATCAATACATCTGGGAAAAAAAACAGAATGTATCGATACAT
1102682 ATACTGTTCA
Statistics
Matches: 59, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
70 23 0.39
71 23 0.39
72 13 0.22
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.28
Consensus pattern (70 bp):
ATGTATCGATACATTGAAAAATAATCAATACATCTGGGAAAAAAAACAGAATGTATCGATACATT
CATAC
Found at i:1103930 original size:56 final size:56
Alignment explanation
Indices: 1103750--1104154 Score: 262
Period size: 59 Copynumber: 7.0 Consensus size: 56
1103740 CACCAACATG
* * * * *
1103750 TGTGGGCTTTAGAGAAGGTTGCCACCAACTTGTGTGGGCTTTATAAGAGTTGCCACTAACT
1 TGTGGGCTTT-GAGAAGGATGCCACTAAC-T-TGTGGGC-TTA-AAAAGGTACCACTAACT
** * * * *
1103811 TGTGGGCTTT-A-AAGGGATAACACTAATTTGTGGGCTTCAAAAGG-GCCACTAATT
1 TGTGGGCTTTGAGAA-GGATGCCACTAACTTGTGGGCTTAAAAAGGTACCACTAACT
* * * *
1103865 TGTGAGCTTTGA-AAAGATACCACTGACTTGTGGGCTTCAAAAAGGTACCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTT-AAAAAGGTACCACTAACT
* * * * ** * * *
1103921 TGTGGGCTTT-AAAAGGGTGCCACTGACTTGTGAGCTTTGGAAGGGTGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGC-TTAAAAAGGTACCACTAACT
* ** *
1103977 TGTGGGCTTTGAGAGAGGTTGCCACTAACTTGTGTGGACTTAAAGGGGTACCACTGACT
1 TGTGGGCTTTGAGA-AGGATGCCACTAACTTGTG-GG-CTTAAAAAGGTACCACTAACT
* * ** ** * * *
1104036 TGTGGGATTTGAGAGAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTGAGA-AGGATGCCACTAAC-T-TGTGGGCTTAAAAAGG-TACCACTAACT
* * *
1104096 TGTGGGCTTTGAGAAGGATGCCACTAACTTATGGGCTTTGAGAAGGATACCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGC-TTAAAAAGG-TACCACTAACT
1104154 T
1 T
1104155 ATGTCTCTAA
Statistics
Matches: 275, Mismatches: 55, Indels: 31
0.76 0.15 0.09
Matches are distributed among these distances:
54 37 0.13
55 14 0.05
56 61 0.22
57 17 0.06
58 37 0.13
59 69 0.25
60 26 0.09
61 14 0.05
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTAAAAAGGTACCACTAACT
Found at i:1104120 original size:89 final size:86
Alignment explanation
Indices: 1103782--1104141 Score: 265
Period size: 89 Copynumber: 4.2 Consensus size: 86
1103772 CACCAACTTG
* * ** * ** *
1103782 TGTGGGCTTT-ATAAGAGTTGCCACTAACTTGTGGGCTTT-AAAG-GGATAACACTAATTTGTGG
1 TGTGGGCTTTGAGAAG-GGTGCCACCGACTTGTGGGCTTTGAGAGAGGATGCCACTAACTTGTGG
* * * *
1103844 GCTTCAAAAGG-GCCACTAATT
65 GCTTTAAAGGGTGCCACTGACT
* * * * * * * * *
1103865 TGTGAGCTTTGA-AAAGATACCACTGACTTGTGGGC-TTCAAAAAGG-TACCACTAACTTGTGGG
1 TGTGGGCTTTGAGAAGGGTGCCACCGACTTGTGGGCTTTGAGAGAGGATGCCACTAACTTGTGGG
1103927 CTTTAAAAGGGTGCCACTGACT
66 CTTT-AAAGGGTGCCACTGACT
* * *
1103949 TGTGAGCTTTG-GAAGGGTGCCACTGACTTGTGGGCTTTGAGAGAGGTTGCCACTAACTTGTGTG
1 TGTGGGCTTTGAGAAGGGTGCCACCGACTTGTGGGCTTTGAGAGAGGATGCCACTAACTTGTG-G
*
1104013 GAC-TTAAAGGGGTACCACTGACT
65 G-CTTTAAA-GGGTGCCACTGACT
* * * *
1104036 TGTGGGATTTGAGAGAGGTTGCCACCGACTTGTGTGGGCTTTGA-A-AGGATGCCATTGACTTGT
1 TGTGGGCTTTGAGA-AGGGTGCCACCGAC-T-TGTGGGCTTTGAGAGAGGATGCCACTAACTTGT
* *
1104099 GGGCTTTGAGAAGGATGCCACTAACT
63 GGGCTTT-A-AAGGGTGCCACTGACT
*
1104125 TATGGGCTTTGAGAAGG
1 TGTGGGCTTTGAGAAGG
1104142 ATACCACTAA
Statistics
Matches: 227, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
81 2 0.01
82 38 0.17
83 18 0.08
84 40 0.18
85 7 0.03
86 17 0.07
87 27 0.12
88 10 0.04
89 52 0.23
90 4 0.02
91 12 0.05
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (86 bp):
TGTGGGCTTTGAGAAGGGTGCCACCGACTTGTGGGCTTTGAGAGAGGATGCCACTAACTTGTGGG
CTTTAAAGGGTGCCACTGACT
Found at i:1104157 original size:29 final size:29
Alignment explanation
Indices: 1103750--1104154 Score: 280
Period size: 28 Copynumber: 14.0 Consensus size: 29
1103740 CACCAACATG
* *
1103750 TGTGGGCTTTAGAGAAGGTTGCCACCAACTT
1 TGTGGGCTTT-GAGAAGGATGCCACTAAC-T
* *
1103781 GTGTGGGCTTT-ATAAGAGTTGCCACTAACT
1 -TGTGGGCTTTGAGAAG-GATGCCACTAACT
** *
1103811 TGTGGGCTTT-A-AAGGGATAACACTAATT
1 TGTGGGCTTTGAGAA-GGATGCCACTAACT
* * *
1103839 TGTGGGC-TTCAAAAGG--GCCACTAATT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
* * * *
1103865 TGTGAGCTTTGA-AAAGATACCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
** * *
1103893 TGTGGGCTTCAAAAAGG-TACCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
* * *
1103921 TGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
* * *
1103949 TGTGAGCTTTG-GAAGGGTGCCACTGACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
*
1103977 TGTGGGCTTTGAGAGAGGTTGCCACTAACT
1 TGTGGGCTTTGAGA-AGGATGCCACTAACT
* * *
1104007 TGTGTGGAC-TT-A-AAGGGGTACCACTGACT
1 TGTG-GG-CTTTGAGAA-GGATGCCACTAACT
* * **
1104036 TGTGGGATTTGAGAGAGGTTGCCACCGACTT
1 TGTGGGCTTTGAGA-AGGATGCCACTAAC-T
* *
1104067 GTGTGGGCTTTGA-AAGGATGCCATTGACT
1 -TGTGGGCTTTGAGAAGGATGCCACTAACT
1104096 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
* *
1104125 TATGGGCTTTGAGAAGGATACCACTAACT
1 TGTGGGCTTTGAGAAGGATGCCACTAACT
1104154 T
1 T
1104155 ATGTCTCTAA
Statistics
Matches: 309, Mismatches: 42, Indels: 47
0.78 0.11 0.12
Matches are distributed among these distances:
26 17 0.06
27 11 0.04
28 117 0.38
29 79 0.26
30 45 0.15
31 18 0.06
32 22 0.07
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (29 bp):
TGTGGGCTTTGAGAAGGATGCCACTAACT
Found at i:1106743 original size:166 final size:163
Alignment explanation
Indices: 1106521--1107004 Score: 648
Period size: 165 Copynumber: 2.9 Consensus size: 163
1106511 AAATTCGATT
* *
1106521 TTTCAAGAAAAAGGGGAATTTCAAGGAAAAAATAAAAAAATCATGAAAATGAATGAATTTTTGAA
1 TTTC-AGAAAAA-GGGAATTTCAA-GAAAAAATAAAAAACTCATGAAAATGAATGAATTTCTGAA
* ** *
1106586 AACTAATTTAATATGAAACAAATAATAATATTTGATAAATTTTAAAAATTAAAAACCAAGAAAAA
63 AACTGATTTAATATGAATTAAATAATAATATTTTATAAATTTTAAAAATTAAAAACCAAGAAAAA
*
1106651 T-CTCCACGAAAAAATTTACGGAGTAGAAAACTCTGTA
128 TACTCC-C-AAAAAATTTACGGAGTAAAAAACTCTGTA
* * *
1106688 TTTCAGAAATAGGAGAATTTCAAGAAAAAATTCAAAAACTCATTAAAATGAATGAATTTCTGAAA
1 TTTCAGAAAAAGG-GAATTTCAAGAAAAAA-TAAAAAACTCATGAAAATGAATGAATTTCTGAAA
* * *
1106753 ACTGATTTAATATGCATTAAATAATAATATTTTATTAATTTTAAATATTAAAAACCAAGAAAAAT
64 ACTGATTTAATATGAATTAAATAATAATATTTTATAAATTTTAAAAATTAAAAACCAAGAAAAAT
* * * *
1106818 AATCCTAAAAAATTTACGAAGTAAAAAATTCTGTA
129 ACTCCCAAAAAATTTACGGAGTAAAAAACTCTGTA
*
1106853 TTTC-GAATACAAGGGAATTTCAAGAAAAAAATAAAAAACTCACGAAAATGAATGAATTTCTGAA
1 TTTCAGAA-A-AAGGGAATTTCAAG-AAAAAATAAAAAACTCATGAAAATGAATGAATTTCTGAA
* * **
1106917 AAATGATTTAATATGAATTAAATAATAATATTTTATGAATTTTAAAAATTAAAAACCAATTAAAA
63 AACTGATTTAATATGAATTAAATAATAATATTTTATAAATTTTAAAAATTAAAAACCAAGAAAAA
*
1106982 TCCTCCCAAAAAATTTTACGGAG
128 TACTCCCAAAAAA-TTTACGGAG
1107005 ATGAAAATCT
Statistics
Matches: 279, Mismatches: 31, Indels: 15
0.86 0.10 0.05
Matches are distributed among these distances:
164 3 0.01
165 149 0.53
166 120 0.43
167 7 0.03
ACGTcount: A:0.52, C:0.09, G:0.10, T:0.29
Consensus pattern (163 bp):
TTTCAGAAAAAGGGAATTTCAAGAAAAAATAAAAAACTCATGAAAATGAATGAATTTCTGAAAAC
TGATTTAATATGAATTAAATAATAATATTTTATAAATTTTAAAAATTAAAAACCAAGAAAAATAC
TCCCAAAAAATTTACGGAGTAAAAAACTCTGTA
Found at i:1108290 original size:8 final size:8
Alignment explanation
Indices: 1108274--1108331 Score: 57
Period size: 8 Copynumber: 7.4 Consensus size: 8
1108264 CTAGTTTGGT
1108274 AAAAA-AA
1 AAAAACAA
1108281 AAAAACAA
1 AAAAACAA
*
1108289 AATAACAA
1 AAAAACAA
*
1108297 AATAACAA
1 AAAAACAA
1108305 AAAATA-AA
1 AAAA-ACAA
* *
1108313 CAAAATAA
1 AAAAACAA
1108321 AAAAACAA
1 AAAAACAA
1108329 AAA
1 AAA
1108332 GGAGAAAAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
7 6 0.14
8 36 0.84
9 1 0.02
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (8 bp):
AAAAACAA
Found at i:1108314 original size:19 final size:17
Alignment explanation
Indices: 1108277--1108325 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 17
1108267 GTTTGGTAAA
*
1108277 AAAAAAAAACAAAATAAC
1 AAAATAAAA-AAAATAAC
1108295 AAAATAACAAAAAATAAAC
1 AAAATAA-AAAAAAT-AAC
1108314 AAAATAAAAAAA
1 AAAATAAAAAAA
1108326 CAAAAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (17 bp):
AAAATAAAAAAAATAAC
Found at i:1108314 original size:27 final size:24
Alignment explanation
Indices: 1108276--1108331 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 24
1108266 AGTTTGGTAA
1108276 AAAAAAAAAACAAAATAACAAAATAAC
1 AAAAAAAAAACAAAAT-A-AAAA-AAC
*
1108303 AAAAAATAAACAAAATAAAAAAAC
1 AAAAAAAAAACAAAATAAAAAAAC
1108327 AAAAA
1 AAAAA
1108332 GGAGAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 8 0.29
25 4 0.14
26 1 0.04
27 15 0.54
ACGTcount: A:0.84, C:0.09, G:0.00, T:0.07
Consensus pattern (24 bp):
AAAAAAAAAACAAAATAAAAAAAC
Found at i:1111756 original size:20 final size:20
Alignment explanation
Indices: 1111730--1111784 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1111720 AAAAAAACAG
*
1111730 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1111750 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
1111770 AATATATCGATACAT
1 AATGTATCGATACAT
1111785 CTGGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1111796 original size:72 final size:70
Alignment explanation
Indices: 1111679--1111814 Score: 200
Period size: 72 Copynumber: 1.9 Consensus size: 70
1111669 AATTAAATAG
* *
1111679 ATGTATCGCTACATTGAAAAATATATTAATACATCTGGGCAAAAAAAACAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATATATCAATACATCTGGGC--AAAAAACAGAATGTATCGATACA
1111744 TTCATAC
64 TTCATAC
* * * *
1111751 ATGTATCGATACATTGAAAAATATATCGATACATCTGGGTAAAAAACATAGTGTATCGATACAT
1 ATGTATCGATACATTGAAAAATATATCAATACATCTGGGCAAAAAACAGAATGTATCGATACAT
1111815 ATACTATTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
70 22 0.38
72 36 0.62
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (70 bp):
ATGTATCGATACATTGAAAAATATATCAATACATCTGGGCAAAAAACAGAATGTATCGATACATT
CATAC
Found at i:1112894 original size:31 final size:31
Alignment explanation
Indices: 1112859--1112938 Score: 106
Period size: 32 Copynumber: 2.5 Consensus size: 31
1112849 CGACATTGGG
1112859 TTTAGAAGGGTTGCCACCAACATGTGTGAGC
1 TTTAGAAGGGTTGCCACCAACATGTGTGAGC
* * *
1112890 TTTAGAGAAGGTTGCCACCAACTTGTGTGGGC
1 TTTAGA-AGGGTTGCCACCAACATGTGTGAGC
* *
1112922 TTTATAAGAGTTGCCAC
1 TTTAGAAGGGTTGCCAC
1112939 TGACTTGTGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
31 15 0.36
32 27 0.64
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (31 bp):
TTTAGAAGGGTTGCCACCAACATGTGTGAGC
Found at i:1113258 original size:29 final size:28
Alignment explanation
Indices: 1112915--1113496 Score: 556
Period size: 28 Copynumber: 20.5 Consensus size: 28
1112905 CACCAACTTG
*
1112915 TGTGGGCTTT-ATAAGAGTTGCCACTGACT
1 TGTGGGCTTTGA-AAG-GATGCCACTGACT
** * *
1112944 TGTGGGCTTT-AAAGGGATAACACTAATT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
** * *
1112972 TGTGGGCTTCAAAAGG--GCCACTAATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1112998 TGTGGGCTTTGAAAAGG-TACCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
** * *
1113026 TGTGGGCTTCAAAAAGG-TACCACTAACT
1 TGTGGGCTT-TGAAAGGATGCCACTGACT
* *
1113054 TGTGGGCTTTAAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1113082 TGTGAGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1113110 TGTGGGCTTTGAGAGAGGTTGCCACTAACT
1 TGTGGGCTTTGA-A-AGGATGCCACTGACT
* *
1113140 TGTGTGGAC-TT-AAAGGGGTACCACTGACT
1 TGTG-GG-CTTTGAAA-GGATGCCACTGACT
* *
1113169 TGTGGGCTTTGAGAGAGGTTGCCACCGACTT
1 TGTGGGCTTTGA-A-AGGATGCCACTGAC-T
*
1113200 GTGTGGGCTTTGAAAGGATGCCATTGACT
1 -TGTGGGCTTTGAAAGGATGCCACTGACT
*
1113229 TGTGGGCTTTGAGAAGGATGCCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
* * *
1113258 TATGGGCTTTGAGAAGGATACCACTAACT
1 TGTGGGCTTTGA-AAGGATGCCACTGACT
*
1113287 TGTGGGCTTTGAAAAGG-TGCCACTGATT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
1113315 TATGGGCTTTGAAAGCATGCCACTGATT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
1113343 TGTGGGCTTTGAAAGGATGCCACTAACA
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1113371 TGAGGGCTTTGAAAGGATGCCACT-AGCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
1113399 TAG-GGGCTTTGAGAAGGATGCTACTGACT
1 T-GTGGGCTTTGA-AAGGATGCCACTGACT
*
1113428 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
1113456 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
1113484 TGTGGGCTTTGAA
1 TGTGGGCTTTGAA
1113497 TAGGTTCACA
Statistics
Matches: 473, Mismatches: 55, Indels: 51
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.04
27 17 0.04
28 264 0.56
29 113 0.24
30 42 0.09
31 7 0.01
32 13 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:1113437 original size:85 final size:84
Alignment explanation
Indices: 1112915--1113496 Score: 528
Period size: 85 Copynumber: 6.8 Consensus size: 84
1112905 CACCAACTTG
* * ** *
1112915 TGTGGGCTTT-ATAAGAGTTGCCACTGACTTGTGGGCTTT-AAAGGGATAACACTA-ATTTGTGG
1 TGTGGGCTTTGA-AAG-GATGCCACTAACTTGTGGGCTTTGAAA-GG-TGCCACTAGACTTGTGG
** * *
1112977 GCTTCAAAAGG--GCCACTAATT
62 GCTTTGAAAGGATGCCACTGACT
* * ** *
1112998 TGTGGGCTTTGAAAAGG-TACCACTGACTTGTGGGCTTCAAAAAGGTACCACTA-ACTTGTGGGC
1 TGTGGGCTTTG-AAAGGATGCCACTAACTTGTGGGCTT-TGAAAGGTGCCACTAGACTTGTGGGC
* *
1113061 TTTAAAAGGGTGCCACTGACT
64 TTTGAAAGGATGCCACTGACT
* * *
1113082 TGTGAGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAGAGAGGTTGCCACTA-ACTTGTGTG
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGA-A-AGG-TGCCACTAGACTTGTG-G
* *
1113146 GAC-TT-AAAGGGGTACCACTGACT
62 G-CTTTGAAA-GGATGCCACTGACT
* ** *
1113169 TGTGGGCTTTGAGAGAGGTTGCCACCGACTTGTGTGGGCTTTGAAAGGATGCCA-TTGACTTGTG
1 TGTGGGCTTTGA-A-AGGATGCCACTAAC-T-TGTGGGCTTTGAAAGG-TGCCACTAGACTTGTG
*
1113233 GGCTTTGAGAAGGATGCCACTAACT
61 GGCTTTGA-AAGGATGCCACTGACT
* * * *
1113258 TATGGGCTTTGAGAAGGATACCACTAACTTGTGGGCTTTGAAAAGGTGCCACT-GATTTATGGGC
1 TGTGGGCTTTGA-AAGGATGCCACTAACTTGTGGGCTTTG-AAAGGTGCCACTAGACTTGTGGGC
* *
1113322 TTTGAAAGCATGCCACTGATT
64 TTTGAAAGGATGCCACTGACT
* *
1113343 TGTGGGCTTTGAAAGGATGCCACTAACATGAGGGCTTTGAAAGGATGCCACTAG-CTTAG-GGGC
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGG-TGCCACTAGACTT-GTGGGC
*
1113406 TTTGAGAAGGATGCTACTGACT
64 TTTGA-AAGGATGCCACTGACT
1113428 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACT-GACTTGTGGGCT
1 TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAA-GGTGCCACTAGACTTGTGGGCT
1113492 TTGAA
65 TTGAA
1113497 TAGGTTCACA
Statistics
Matches: 427, Mismatches: 42, Indels: 59
0.81 0.08 0.11
Matches are distributed among these distances:
82 43 0.10
83 24 0.06
84 89 0.21
85 101 0.24
86 49 0.11
87 36 0.08
88 17 0.04
89 52 0.12
90 4 0.01
91 12 0.03
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.29
Consensus pattern (84 bp):
TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGTGCCACTAGACTTGTGGGCTT
TGAAAGGATGCCACTGACT
Found at i:1125341 original size:20 final size:20
Alignment explanation
Indices: 1125315--1125369 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1125305 AAACGGACAG
* *
1125315 AATGTATCTATACATTCATA
1 AATGTATCGATACATTCAAA
* *
1125335 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
1125355 AATGTATCGATACAT
1 AATGTATCGATACAT
1125370 CTAGGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:1126179 original size:49 final size:45
Alignment explanation
Indices: 1126113--1126232 Score: 141
Period size: 49 Copynumber: 2.6 Consensus size: 45
1126103 GAGAGGAGTG
**
1126113 CCAATGTGCCAATTCAAGGCCAGCAACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTAA---AAAAG-GGA
* * *
1126162 CCAATGTGCTGATTCAAGGCCAACAACATTGGGCTAATAAAGGTA
1 CCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTAAAAAAGGGA
* *
1126207 CCAATATGCTGATTCAATGCCAGCAA
1 CCAATGTGCTGATTCAAGGCCAGCAA
1126233 TATCGGACTT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 25 0.40
46 4 0.06
49 34 0.54
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (45 bp):
CCAATGTGCTGATTCAAGGCCAGCAACATTGGGCTAAAAAAGGGA
Found at i:1126466 original size:28 final size:28
Alignment explanation
Indices: 1126324--1126671 Score: 416
Period size: 28 Copynumber: 12.1 Consensus size: 28
1126314 TAACTTGTGG
*
1126324 GGGCTTTGAAAAGAGTTGCCACTAACTTGTGT
1 GGGCTTTGAAAAG-G-TGCCACTGAC-T-TGT
*
1126356 GGGCTTTGAAAAGAGTTACCACTGACTTGT
1 GGGCTTTGAAAAG-G-TGCCACTGACTTGT
*
1126386 GGGCTTTGAAAAGAGTTACCACT-AGCTTGT
1 GGGCTTTGAAAAG-G-TGCCACTGA-CTTGT
1126416 GGGCTTTGAAAAGAGTGCCACTGACTTGT
1 GGGCTTTGAAAAG-GTGCCACTGACTTGT
* *
1126445 GGGCTTTAAAAAGGTGCTACTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTGACTTGT
1126473 GGGCTTTG-AAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGG-TGCCACTGACTTGT
1126501 GGGCTTTG-AAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGG-TGCCACTGACTTGT
* * *
1126529 AGGCTTTGAAAAGATGCCACTGACTTAT
1 GGGCTTTGAAAAGGTGCCACTGACTTGT
* *
1126557 AGGCTTTGAAAAGATGCCACTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTGACTTGT
* *
1126585 GGGCTTTGAAAAGATTCCACTGACTTGT
1 GGGCTTTGAAAAGGTGCCACTGACTTGT
* *
1126613 GGGCTTTGAGAAGGATGCCACTAACTTGT
1 GGGCTTTGAAAAGG-TGCCACTGACTTGT
1126642 GGGCTTTG-AAAGGATGCCACTGACTTGT
1 GGGCTTTGAAAAGG-TGCCACTGACTTGT
1126670 GG
1 GG
1126672 TTTTTTGAAG
Statistics
Matches: 292, Mismatches: 19, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
27 5 0.02
28 167 0.57
29 48 0.16
30 47 0.16
31 1 0.00
32 24 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (28 bp):
GGGCTTTGAAAAGGTGCCACTGACTTGT
Found at i:1126541 original size:84 final size:85
Alignment explanation
Indices: 1126324--1126696 Score: 464
Period size: 84 Copynumber: 4.3 Consensus size: 85
1126314 TAACTTGTGG
* * *
1126324 GGGCTTTGAAAAGAGTTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTACCACTGACTTGTGGG
1 GGGCTTTGAAAAGA--TGCCACTGAC-T-TGTGGGCTTTGAAAAG-GATGCCACTGACTTGTGGG
* *
1126389 CTTTGAAAAGAGTTACCACT-AGCTTGT
61 CTTTG-AAAG-GATGCCACTGA-CTTGT
* *
1126416 GGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTAAAAAGG-TGCTACTGACTTGTGGGCTTT
1 GGGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTT
1126480 GAAAGGATGCCACTGACTTGT
65 GAAAGGATGCCACTGACTTGT
* * * *
1126501 GGGCTTTGAAAGGATGCCACTGACTTGTAGGCTTTGAAAA-GATGCCACTGACTTATAGGCTTTG
1 GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG
*
1126565 AAAAGATGCCACTGACTTGT
66 AAAGGATGCCACTGACTTGT
* * *
1126585 GGGCTTTGAAAAGATTCCACTGACTTGTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTG
1 GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG
1126650 AAAGGATGCCACTGACTTGT
66 AAAGGATGCCACTGACTTGT
** * *
1126670 GGTTTTTTGAAGAGATGCCACTAACTT
1 GG-GCTTTGAAAAGATGCCACTGACTT
1126697 ATGGTTTTTT
Statistics
Matches: 250, Mismatches: 27, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
83 1 0.00
84 98 0.39
85 67 0.27
86 24 0.10
87 20 0.08
88 1 0.00
89 15 0.06
90 1 0.00
91 9 0.04
92 14 0.06
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (85 bp):
GGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCTTTG
AAAGGATGCCACTGACTTGT
Found at i:1126769 original size:28 final size:28
Alignment explanation
Indices: 1126324--1126772 Score: 404
Period size: 28 Copynumber: 15.6 Consensus size: 28
1126314 TAACTTGTGG
* *
1126324 GGGCTTTGAAAAGAGTTGCCACTAACTTGTGT
1 GGGCTTTG--AAGAGATGCCACTGAC-T-TGT
* *
1126356 GGGCTTTGAAAAGAGTTACCACTGACTTGT
1 GGGCTTTG--AAGAGATGCCACTGACTTGT
* *
1126386 GGGCTTTGAAAAGAGTTACCACT-AGCTTGT
1 GGGCTTTG--AAGAGATGCCACTGA-CTTGT
*
1126416 GGGCTTTGAAAAGAGTGCCACTGACTTGT
1 GGGCTTTGAAGAGA-TGCCACTGACTTGT
* * * *
1126445 GGGCTTTAAAAAGGTGCTACTGACTTGT
1 GGGCTTTGAAGAGATGCCACTGACTTGT
1126473 GGGCTTTGAA-AGGATGCCACTGACTTGT
1 GGGCTTTGAAGA-GATGCCACTGACTTGT
1126501 GGGCTTTGAA-AGGATGCCACTGACTTGT
1 GGGCTTTGAAGA-GATGCCACTGACTTGT
* * *
1126529 AGGCTTTGAAAAGATGCCACTGACTTAT
1 GGGCTTTGAAGAGATGCCACTGACTTGT
* *
1126557 AGGCTTTGAAAAGATGCCACTGACTTGT
1 GGGCTTTGAAGAGATGCCACTGACTTGT
* *
1126585 GGGCTTTGAAAAGATTCCACTGACTTGT
1 GGGCTTTGAAGAGATGCCACTGACTTGT
*
1126613 GGGCTTTG-AGAAGGATGCCACTAACTTGT
1 GGGCTTTGAAG-A-GATGCCACTGACTTGT
1126642 GGGCTTTGAA-AGGATGCCACTGACTTGT
1 GGGCTTTGAAGA-GATGCCACTGACTTGT
** * *
1126670 GGTTTTTTGAAGAGATGCCACTAACTTAT
1 GG-GCTTTGAAGAGATGCCACTGACTTGT
** * * * *
1126699 GGTTTTTTTAAGAGATGCGATTGACTTAT
1 GG-GCTTTGAAGAGATGCCACTGACTTGT
** * *
1126728 GGTTTTTTGAAGAGATGCCACTAACCTGT
1 GG-GCTTTGAAGAGATGCCACTGACTTGT
1126757 GGGCTTTGAAGAGATG
1 GGGCTTTGAAGAGATG
1126773 AGCATTCTAG
Statistics
Matches: 371, Mismatches: 36, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
27 2 0.01
28 185 0.50
29 117 0.32
30 42 0.11
31 1 0.00
32 24 0.06
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (28 bp):
GGGCTTTGAAGAGATGCCACTGACTTGT
Found at i:1128024 original size:9 final size:9
Alignment explanation
Indices: 1127982--1128064 Score: 80
Period size: 9 Copynumber: 8.8 Consensus size: 9
1127972 TCTGGACCCA
1127982 TTTTTTTG-
1 TTTTTTTGT
*
1127990 TTTGTTTGT
1 TTTTTTTGT
*
1127999 TTTATTATTAT
1 TTT-TT-TTGT
1128010 TTTTTTTGGT
1 TTTTTTT-GT
1128020 TTTTTTTGT
1 TTTTTTTGT
1128029 TTTTTGTT-T
1 TTTTT-TTGT
1128038 TTTTTCTTGGT
1 TTTTT-TT-GT
1128049 TTTTTTTGT
1 TTTTTTTGT
1128058 TTTTTTT
1 TTTTTTT
1128065 TTGTACGAAG
Statistics
Matches: 63, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
8 7 0.11
9 29 0.46
10 15 0.24
11 12 0.19
ACGTcount: A:0.04, C:0.01, G:0.12, T:0.83
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:1128030 original size:38 final size:39
Alignment explanation
Indices: 1127982--1128065 Score: 109
Period size: 38 Copynumber: 2.2 Consensus size: 39
1127972 TCTGGACCCA
1127982 TTTTTTTGTTTGTTTG-TTTTATTATT-ATTTTTTTTGGT
1 TTTTTTTGTTT-TTTGTTTTTATTATTGATTTTTTTTGGT
* * * *
1128020 TTTTTTTGTTTTTTGTTTTTTTTCTTGGTTTTTTTTGTT
1 TTTTTTTGTTTTTTGTTTTTATTATTGATTTTTTTTGGT
1128059 TTTTTTT
1 TTTTTTT
1128066 TGTACGAAGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
37 4 0.10
38 19 0.47
39 17 0.43
ACGTcount: A:0.04, C:0.01, G:0.12, T:0.83
Consensus pattern (39 bp):
TTTTTTTGTTTTTTGTTTTTATTATTGATTTTTTTTGGT
Found at i:1128038 original size:22 final size:23
Alignment explanation
Indices: 1128028--1128068 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 23
1128018 GTTTTTTTTG
*
1128028 TTTTTT-GTTTTTTTTCTTGGTT
1 TTTTTTGGTTTTTTTTCTTGTTT
1128050 TTTTTT-GTTTTTTTT-TTGT
1 TTTTTTGGTTTTTTTTCTTGT
1128069 ACGAAGGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.85
Consensus pattern (23 bp):
TTTTTTGGTTTTTTTTCTTGTTT
Found at i:1128062 original size:30 final size:30
Alignment explanation
Indices: 1127982--1128063 Score: 100
Period size: 29 Copynumber: 2.8 Consensus size: 30
1127972 TCTGGACCCA
* *
1127982 TTTTTTT-G-TTTGTTTGTTTTATTATTAT
1 TTTTTTTGGTTTTTTTTGTTTTTTTATTAT
1128010 TTTTTTTGGTTTTTTTTGTTTTTTGT-TT-T
1 TTTTTTTGGTTTTTTTTGTTTTTT-TATTAT
*
1128039 TTTTCTTGGTTTTTTTTGTTTTTTT
1 TTTTTTTGGTTTTTTTTGTTTTTTT
1128064 TTTGTACGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 8 0.17
29 25 0.52
30 14 0.29
31 1 0.02
ACGTcount: A:0.04, C:0.01, G:0.12, T:0.83
Consensus pattern (30 bp):
TTTTTTTGGTTTTTTTTGTTTTTTTATTAT
Found at i:1128065 original size:10 final size:10
Alignment explanation
Indices: 1128009--1128065 Score: 71
Period size: 10 Copynumber: 5.8 Consensus size: 10
1127999 TTTATTATTA
*
1128009 TTTTTTTTGG
1 TTTTTTTTGT
1128019 TTTTTTTTGT
1 TTTTTTTTGT
*
1128029 TTTTTGTT-T
1 TTTTTTTTGT
* *
1128038 TTTTTCTTGG
1 TTTTTTTTGT
1128048 TTTTTTTTGT
1 TTTTTTTTGT
1128058 TTTTTTTT
1 TTTTTTTT
1128066 TGTACGAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
9 8 0.20
10 32 0.80
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (10 bp):
TTTTTTTTGT
Found at i:1141345 original size:20 final size:20
Alignment explanation
Indices: 1141320--1141396 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
1141310 GTAAAAAGAT
1141320 AGAATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
1141340 AGAATGTATCGATACACTCA
1 AGAATGTATCGATACATTGA
*
1141360 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
1141380 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1141397 CTAGGTAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 1 0.02
20 47 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1148485 original size:20 final size:20
Alignment explanation
Indices: 1148460--1148533 Score: 103
Period size: 20 Copynumber: 3.7 Consensus size: 20
1148450 AATAAACTAG
*
1148460 ATGTATCGATGCATTGAAAA
1 ATGTATCGATACATTGAAAA
* * * *
1148480 ATGTATCGGTACATTCATAC
1 ATGTATCGATACATTGAAAA
1148500 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
1148520 ATGTATCGATACAT
1 ATGTATCGATACAT
1148534 CTAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:1150979 original size:58 final size:58
Alignment explanation
Indices: 1150917--1151029 Score: 174
Period size: 58 Copynumber: 1.9 Consensus size: 58
1150907 GTCATTTTAA
* * *
1150917 TTATTTTCTATGA-CATAGGGATTTTGGTGCAATTTCATGAATTTTGATGTCATTTAGG
1 TTATTTTCCATGATC-TAGGGATATTGGTACAATTTCATGAATTTTGATGTCATTTAGG
*
1150975 TTATTTTCCATGATCTAGGGATATTGGTACAATTTCATGTATTTTGATGTCATTT
1 TTATTTTCCATGATCTAGGGATATTGGTACAATTTCATGAATTTTGATGTCATTT
1151030 GGATCTTTTT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 49 0.98
59 1 0.02
ACGTcount: A:0.24, C:0.10, G:0.19, T:0.48
Consensus pattern (58 bp):
TTATTTTCCATGATCTAGGGATATTGGTACAATTTCATGAATTTTGATGTCATTTAGG
Found at i:1151265 original size:58 final size:58
Alignment explanation
Indices: 1151175--1151326 Score: 214
Period size: 58 Copynumber: 2.6 Consensus size: 58
1151165 AAGGACTTTG
*
1151175 TGATGTCATTTAGGTCATTTTCAATGATCTAGGGACTAAGGTATAATTTTATGAATTT
1 TGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTAAGGTATAATTTTATGAATTT
** *
1151233 TGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGGTGTAATTTTATGAATTT
1 TGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTAAGGTATAATTTTATGAATTT
* * * * * *
1151291 TGGTGCCATTCAGGTTATTTTTCATAATCTAGGGAC
1 TGATGTCATTTAGGTCATTTTCCATGATCTAGGGAC
1151327 ATTCATGTAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 84 1.00
ACGTcount: A:0.25, C:0.11, G:0.20, T:0.43
Consensus pattern (58 bp):
TGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTAAGGTATAATTTTATGAATTT
Found at i:1151349 original size:58 final size:58
Alignment explanation
Indices: 1151175--1151349 Score: 131
Period size: 58 Copynumber: 3.0 Consensus size: 58
1151165 AAGGACTTTG
* * * * * * * *
1151175 TGATGTCATTTAGGTCATTTTCAATGATCTAGGGAC--TAAGGTATAATTTTATGAATTT
1 TGATGCCATTCAGGTCATTTTCCATAATCTAGGGACATTCA--TGTAATTTCATAAATTT
* * * * ** * *
1151233 TGATGTCATTTAGGTCATTTTCCATGATCTAGGGACTTTGGTGTAATTTTATGAATTT
1 TGATGCCATTCAGGTCATTTTCCATAATCTAGGGACATTCATGTAATTTCATAAATTT
* * *
1151291 TGGTGCCATTCAGGTTATTTTTCATAATCTAGGGACATTCATGTAATTTCA-AACATTT
1 TGATGCCATTCAGGTCATTTTCCATAATCTAGGGACATTCATGTAATTTCATAA-ATTT
1151349 T
1 T
1151350 AAGTCATTAT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 97 0.98
60 1 0.01
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (58 bp):
TGATGCCATTCAGGTCATTTTCCATAATCTAGGGACATTCATGTAATTTCATAAATTT
Found at i:1154062 original size:24 final size:25
Alignment explanation
Indices: 1154025--1154071 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1154015 GTTCAGCTGA
*
1154025 AAAACAAGAGAGAAAAAAAGAAAGG
1 AAAACAAGAAAGAAAAAAAGAAAGG
*
1154050 AAAA-AAGAAAGAAAAAAGGAAA
1 AAAACAAGAAAGAAAAAAAGAAA
1154072 AAATGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAACAAGAAAGAAAAAAAGAAAGG
Found at i:1154066 original size:13 final size:12
Alignment explanation
Indices: 1154023--1154071 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
1154013 TGGTTCAGCT
*
1154023 GAAAAACAAGAGA
1 GAAAAA-AAGAAA
1154036 GAAAAAAAGAAA
1 GAAAAAAAGAAA
*
1154048 GGAAAAAAGAAA
1 GAAAAAAAGAAA
*
1154060 GAAAAAAGGAAA
1 GAAAAAAAGAAA
1154072 AAATGGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 26 0.81
13 6 0.19
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:1154069 original size:19 final size:20
Alignment explanation
Indices: 1154035--1154074 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1154025 AAAACAAGAG
1154035 AGAAAAAAAGAAAGGAAAAA
1 AGAAAAAAAGAAAGGAAAAA
*
1154055 AGAAAGAAA-AAAGGAAAAA
1 AGAAAAAAAGAAAGGAAAAA
1154074 A
1 A
1154075 TGGAAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAGAAAGGAAAAA
Found at i:1154167 original size:21 final size:22
Alignment explanation
Indices: 1154127--1154167 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
1154117 GTAATCATTC
1154127 TTTTCAATCTTGTTTCTTGCTG
1 TTTTCAATCTTGTTTCTTGCTG
1154149 TTTTC-ATCTTTGTTT-TTGC
1 TTTTCAATC-TTGTTTCTTGC
1154168 ACATTTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.07, C:0.17, G:0.12, T:0.63
Consensus pattern (22 bp):
TTTTCAATCTTGTTTCTTGCTG
Found at i:1156047 original size:154 final size:152
Alignment explanation
Indices: 1155512--1156649 Score: 997
Period size: 154 Copynumber: 7.3 Consensus size: 152
1155502 TAGGGGTATT
* * *
1155512 GGGTACTTTTACGTCGAAGGCATACCCCCAAGGGCATTTTTGTAATTTTTTAGAACTAACTCCTA
1 GGGTACTTTTACGTCGAAGGTATACCCCTAAGGGCA-TTTTGTAATTTTTTAGAACCAACTCCTA
* * *
1155577 GGTCGTCACCGGGTCCGTTTTTATGTCGAAGGTGGGCATTTAGGATAGGTTTATCCCTTTTATGA
65 GGTCGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTAT-A
*
1155642 CTCTTTTTAAGTCCTTTAGGGTTACC
127 GTCTTTTTAAGTCCTTTAGGGTTACC
* * *
1155668 GGGATACTTTTACGTCGAAGGTATACCTCTAAGGGCATTTTCGTAATTTTATTAGAACCGACTCT
1 GGG-TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTT-GTAATTTT-TTAGAACCAACTCC
* * * * *
1155733 TAGGTCATCACTGGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAAGTTCATACCATCTCT
63 TAGGTCGTCACCGGGTCCGCTTTTATGC-GAAGGTGGGTATTTAGGATAGGTTC--ACCCT-TTT
** * *
1155798 A-ACCCTTTTTAAGTCCTTTAGGGGTATC
124 ATAGTCTTTTTAAGTCCTTTAGGGTTACC
* * * * * * * * *
1155826 GAGATACTTTCACGTCGAAGATAT-CCCTTAGGGGTATTTTTGTAATTTCTTAGAACCGAGTCCT
1 G-GGTACTTTTACGTCGAAGGTATACCCCTAAGGGCA-TTTTGTAATTTTTTAGAACCAACTCCT
* * * * *
1155890 AGGTTGTCACCAGGTCCACTTTTATGTCAAAGGTGGGTAATTAGGATAGGTTCA-CCTCTTTATA
64 AGGTCGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCACCCT-TTTATA
* *
1155954 GTCTTTTTAAGTCTTTTAGGGTTGCC
127 GTCTTTTTAAGTCCTTTAGGGTTACC
** * * * * * * *
1155980 GGGTACTTTTACGTTAAAGGTATACCCATAAGGGCATTTTGATAATTTCTTAAAATCGAGTCTTA
1 GGGTACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTG-TAATTTTTTAGAACCAACTCCTA
* * ** * *
1156045 GGTTGTCATCGGGTTTGCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTCTAG
65 GGTCGTCACCGGGTCCGCTTTTATGC-GAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTATAG
* *
1156110 TCTTTTTAGGTCCTTTAGGG-TACTA
128 TCTTTTTAAGTCCTTTAGGGTTAC-C
** * * * * * * * *
1156135 GGACACTTTCACATCGAAGATAT-TCCCTAGGGGCATTTTCGTAATTTTTTAAAACTAACTTCTA
1 GGGTACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTT-GTAATTTTTTAGAACCAACTCCTA
* * * *
1156199 GGTCATCACCGGGTCCGCTTTTATGCCGAAGGTGAGTATTTAGGATAGTTTCATCCCTTTTAAAG
65 GGTCGTCACCGGGTCCGCTTTTATG-CGAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTATAG
* *
1156264 TCCTTTTTAAGTCCTTTAGGGGTATC
128 T-CTTTTTAAGTCCTTTAGGGTTACC
* * * *
1156290 GGGATACTTTCATGTCGAAGGTAT-CCCCT-AGAGGCATTTTCATAA-TTTTTAGAATCAACTCC
1 GGG-TACTTTTACGTCGAAGGTATACCCCTAAG-GGCATTTT-GTAATTTTTTAGAACCAACTCC
* * * * * *
1156352 TAGGTGGTCACCGGGTTCGCTTTTATGCCAA--AGGGAATTTAGGATAGGTTCATACCTTTTATG
63 TAGGTCGTCACCGGGTCCGCTTTTATGCGAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTAT-
* * *
1156415 AGTCTTTTTAAATCCTTGAGGGTTGCC
126 AGTCTTTTTAAGTCCTTTAGGGTTACC
* * * * *
1156442 GGGATATTTTTATGTCGAAGGTATACTCTTAGGGGCATTTTGGTAATTTTTTAGAACCAACTCCT
1 GGG-TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTT-GTAATTTTTTAGAACCAACTCCT
* ** *
1156507 AGGTCATCACCGGGTTTG-TGTTTATACTGAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTAT
64 AGGTCGTCACCGGGTCCGCT-TTTATGC-GAAGGTGGGTATTTAGGATAGGTTCA-CCCTTTTAT
* *
1156571 GAGTCTTTTTAAGTCTTTTAGGGCTGT-CA
126 -AGTCTTTTTAAGTCCTTTAGGG-T-TACC
* * *
1156600 GGATACTTTTACATCGAAGGCAT-CCCCTAAGGGCATTTTTGTAATTTTTT
1 GGGTACTTTTACGTCGAAGGTATACCCCTAAGGGCA-TTTTGTAATTTTTT
1156650 TTGAACTTAG
Statistics
Matches: 795, Mismatches: 153, Indels: 68
0.78 0.15 0.07
Matches are distributed among these distances:
152 66 0.08
153 47 0.06
154 221 0.28
155 102 0.13
156 119 0.15
157 123 0.15
158 108 0.14
159 5 0.01
160 4 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (152 bp):
GGGTACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTGTAATTTTTTAGAACCAACTCCTAG
GTCGTCACCGGGTCCGCTTTTATGCGAAGGTGGGTATTTAGGATAGGTTCACCCTTTTATAGTCT
TTTTAAGTCCTTTAGGGTTACC
Found at i:1156494 original size:309 final size:308
Alignment explanation
Indices: 1155543--1156638 Score: 1150
Period size: 309 Copynumber: 3.5 Consensus size: 308
1155533 ATACCCCCAA
* * * *
1155543 GGGCATTTTTGTAATTTTTTAGAACTAACTCCTAGGTCGTCACCGGGTCCGTTTTTATGTCGAAG
1 GGGCATTTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAG
* * * *
1155608 GTGGGCATTTAGGATAGGTTTATCCCTTTTATGACTCTTTTTAAGTCCTTTAGGGTTACCGGGAT
66 GTGGGTATTTAGGATAGGTTCATCCCTTTTA-AAGTCTTTTTAAGTCCTTTAGGGTTACCGGGAT
* * *
1155673 ACTTTTACGTCGAAGGTATACCTCTAAGGGCATTTTCGTAATTTTATTAGAACCGACTCTTAGGT
130 ACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAA-TTTATTAGAATCGACTCTTAGGT
* * * * * * * **
1155738 CATCACTGGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGATAAGTTCATACCATCTCTAACCC
194 CGTCACCGGGTTCGCTTTTATGCTGAA-GTGGGAATTTAGGATAGGTTCATACCTTTTCT-AGTC
* *
1155803 TTTTTAAGTCCTTTAGGGGTATCGAGATACTTTCACGTCGAAGATATCCCTTAG
257 TTTTTAAGTCCTTTA-GGGTACCGGGATACTTTCACGTCGAAGATAT-CCTTAG
* * * * ** * * * *
1155857 GGGTATTTTTGTAATTTCTTAGAACCGAGTCCTAGGTTGTCACCAGGTCCACTTTTATGTCAAAG
1 GGGCATTTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAG
* * * *
1155922 GTGGGTAATTAGGATAGGTTCA--CCTCTTTATAGTCTTTTTAAGTCTTTTAGGGTTGCCGGG-T
66 GTGGGTATTTAGGATAGGTTCATCCCT-TTTAAAGTCTTTTTAAGTCCTTTAGGGTTACCGGGAT
** * * * * * *
1155984 ACTTTTACGTTAAAGGTATACCCATAAGGGCATTTTGATAATTTCTTAAAATCGAGTCTTAGGTT
130 ACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTATTAGAATCGACTCTTAGGTC
* * * **
1156049 GTCATCGGGTTTGCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCACCCCTTTTCTAGTCTT
195 GTCACCGGGTTCGCTTTTATGCTGAA-GTGGGAATTTAGGATAGGTTCATACCTTTTCTAGTCTT
* ** * * *
1156114 TTTAGGTCCTTTAGGGTACTAGGACACTTTCACATCGAAGATATTCCCTAG
259 TTTAAGTCCTTTAGGGTACCGGGATACTTTCACGTCGAAGATA-TCCTTAG
* * * *
1156165 GGGCATTTTCGTAATTTTTTAAAACTAACTTCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAG
1 GGGCATTTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAG
* * * *
1156230 GTGAGTATTTAGGATAGTTTCATCCCTTTTAAAGTCCTTTTTAAGTCCTTTAGGGGTATCGGGAT
66 GTGGGTATTTAGGATAGGTTCATCCCTTTTAAAGT-CTTTTTAAGTCCTTTAGGGTTACCGGGAT
* * * *
1156295 ACTTTCATGTCGAAGGTAT-CCCCT-AGAGGCATTTTCATAATTT-TTAGAATCAACTCCTAGGT
130 ACTTTTACGTCGAAGGTATACCCCTAAG-GGCATTTTCATAATTTATTAGAATCGACTCTTAGGT
* * * *
1156357 GGTCACCGGGTTCGCTTTTATGC-CAA-AGGGAATTTAGGATAGGTTCATACCTTTTATGAGTCT
194 CGTCACCGGGTTCGCTTTTATGCTGAAGTGGGAATTTAGGATAGGTTCATACCTTTTCT-AGTCT
* * * * * * *
1156420 TTTTAAATCCTTGAGGGTTGCCGGGATATTTTTATGTCGAAGGTATACTCTTAG
258 TTTTAAGTCCTTTAGGG-TACCGGGATACTTTCACGTCGAAGATAT-C-CTTAG
* ** * *
1156474 GGGCATTTTGGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTTTG-TGTTTATACTGAA
1 GGGCATTTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCT-TTTATGCCGAA
* * * ** *
1156538 GGTGGGTATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCTTTTAGGGCTGTCAGGA
65 GGTGGGTATTTAGGATAGGTTCATCCCTTTTA-AAGTCTTTTTAAGTCCTTTAGGGTTACCGGGA
* *
1156603 TACTTTTACATCGAAGGCAT-CCCCTAAGGGCATTTT
129 TACTTTTACGTCGAAGGTATACCCCTAAGGGCATTTT
1156639 TGTAATTTTT
Statistics
Matches: 646, Mismatches: 122, Indels: 33
0.81 0.15 0.04
Matches are distributed among these distances:
306 26 0.04
307 20 0.03
308 121 0.19
309 202 0.31
310 117 0.18
311 52 0.08
312 30 0.05
313 4 0.01
314 74 0.11
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.38
Consensus pattern (308 bp):
GGGCATTTTTGTAATTTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCCGAAG
GTGGGTATTTAGGATAGGTTCATCCCTTTTAAAGTCTTTTTAAGTCCTTTAGGGTTACCGGGATA
CTTTTACGTCGAAGGTATACCCCTAAGGGCATTTTCATAATTTATTAGAATCGACTCTTAGGTCG
TCACCGGGTTCGCTTTTATGCTGAAGTGGGAATTTAGGATAGGTTCATACCTTTTCTAGTCTTTT
TAAGTCCTTTAGGGTACCGGGATACTTTCACGTCGAAGATATCCTTAG
Found at i:1161194 original size:44 final size:44
Alignment explanation
Indices: 1161146--1161283 Score: 109
Period size: 44 Copynumber: 3.1 Consensus size: 44
1161136 TCGTTTCATC
1161146 TGCATATGCATTTTAGATAACATTGGTATTTGCATTATTCCATA
1 TGCATATGCATTTTAGATAACATTGGTATTTGCATTATTCCATA
* * * * ** * *
1161190 TGCATTTGCCTTTCTA-TTGATGTTTGCATTTGCATTATTCCATA
1 TGCATATGCATTT-TAGATAACATTGGTATTTGCATTATTCCATA
* * * * * *
1161234 TACATCTGCACTTTAGATGACCTTTGGTATTTGCATCA-TCTCATA
1 TGCATATGCATTTTAGAT-AACATTGGTATTTGCATTATTC-CATA
1161279 TGCAT
1 TGCAT
1161284 TAGCCATTTT
Statistics
Matches: 69, Mismatches: 21, Indels: 7
0.71 0.22 0.07
Matches are distributed among these distances:
43 2 0.03
44 45 0.65
45 22 0.32
ACGTcount: A:0.24, C:0.18, G:0.14, T:0.44
Consensus pattern (44 bp):
TGCATATGCATTTTAGATAACATTGGTATTTGCATTATTCCATA
Found at i:1161219 original size:88 final size:89
Alignment explanation
Indices: 1161097--1161327 Score: 252
Period size: 89 Copynumber: 2.6 Consensus size: 89
1161087 TTGCGTCGTT
* * * * * *
1161097 TCATAAGCTTTTGCCTTCCTATTGATGCTTGCATTTGCATCGTTTCATCTGCATATGCATTTTAG
1 TCATATGCATTTGCCTTTCTATTGATGCTTGCATTTGCATCATTTCATATGCATATGCACTTTAG
*
1161162 AT-AACATTGGTATTTGCATTAT-
66 ATGAACATTGGTATTTGCATCATC
* * * * *
1161184 TCCATATGCATTTGCCTTTCTATTGATGTTTGCATTTGCATTATTCCATATACATCTGCACTTTA
1 T-CATATGCATTTGCCTTTCTATTGATGCTTGCATTTGCATCATTTCATATGCATATGCACTTTA
* *
1161249 GATGACCTTTGGTATTTGCATCATC
65 GATGAACATTGGTATTTGCATCATC
* ** * *
1161274 TCATATGCATTAGCCATTT-TGCTGATGCTTGCATTTACATCATTTCATGTGCAT
1 TCATATGCATTTGCC-TTTCTATTGATGCTTGCATTTGCATCATTTCATATGCAT
1161328 CTACACCATT
Statistics
Matches: 117, Mismatches: 23, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
87 1 0.01
88 55 0.47
89 57 0.49
90 4 0.03
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.44
Consensus pattern (89 bp):
TCATATGCATTTGCCTTTCTATTGATGCTTGCATTTGCATCATTTCATATGCATATGCACTTTAG
ATGAACATTGGTATTTGCATCATC
Found at i:1161922 original size:78 final size:78
Alignment explanation
Indices: 1161807--1161987 Score: 258
Period size: 78 Copynumber: 2.3 Consensus size: 78
1161797 TATCTAATCC
* * **
1161807 CTAGAGGATATTGATGCATCACATGGCCAAGATGGGCACTTCCCACTCACTTCCAGTTGTATCCC
1 CTAGATGATATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACTCACTTCCAGTCATATCCC
1161872 TCATTCTTAAAC-A
66 TCATTCTT-AACTA
* *
1161885 CTAGATGATATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACTCACTTCTAGTCATATCCT
1 CTAGATGATATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACTCACTTCCAGTCATATCCC
* *
1161950 TCTTTCTTAACTC
66 TCATTCTTAACTA
*
1161963 CTAGATGGTATTGATGCATCA-ATGG
1 CTAGATGATATTGATGCATCACATGG
1161988 GGTAAGGTGC
Statistics
Matches: 93, Mismatches: 9, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
77 7 0.08
78 86 0.92
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (78 bp):
CTAGATGATATTGATGCATCACATGGCCAAGAGGGGCACTTCCCACTCACTTCCAGTCATATCCC
TCATTCTTAACTA
Found at i:1162690 original size:43 final size:43
Alignment explanation
Indices: 1162641--1163567 Score: 779
Period size: 43 Copynumber: 21.6 Consensus size: 43
1162631 ATACTTTAAT
* * * * *
1162641 CTTAAGTTTGCTTGTCGGCTTTGACCTTAGAGACTTCTTCACC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * * *
1162684 ATTAAGTCTACCTGTCGACTTTGACCCTGGAGACTTTTTCGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * ** * * * * *
1162727 CTTAAGTTTGTCTGTTAGCTTTGATCCTGGAAACTTCCTCACT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * * * **
1162770 GTTAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTTTTTGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* ** *
1162813 CTTAAGTCTGCCTGTCGGCTTTAACCCTATATACTTCTTCCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * **
1162856 CTTAAGTCTGCCTATCGACTTTGACCCTAGAGACTTCTTTGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * **
1162899 TTTAAGTCTGCCTGTCGGCTTTAACCCTAGAGACTT-TTTGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * *
1162941 CTTAAGTCTGCCTGTCAGCTTTGATCCTAGAGACTTTTTCCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * * *
1162984 TTTAAGTCTGCTTATCGGCTTTGACCCTGGAAACTT-TTCCCT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * ** **
1163026 TTTAAGTCTGCCTATTTGCTTT-ACCCTGGAGACTTCTTTGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * **
1163068 CTTAAGTCTGTCTATCAGCTTTGACCCTAAAGACTTCTTCCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * *
1163111 CTTATGTCTACCTGTCGGCTTTAACCCTAGAGACTTCTTCCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * *
1163154 CTTAAGTCTGCCTGTCAGCTTTCACCCTGGAGACTT-TTTCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * *
1163196 CTTCAAGTCTACCTGTCGACTTTGACCCTCGAGACTTCTTCCCC
1 CTT-AAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * * *
1163240 CTTAAGTCTGCTTGTCAGTTTTGACTCAGGAGACTT-TCTCCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCT-TCCCC
* * * ** *
1163283 CTCAAGTATGCCTGTCGACTTTGACGATGGAGACTTCGTT-GCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTC-TTCCCC
* * * * **
1163326 TTTAAGTCTGCTTGTCAGTTTTGACCCTGGAGACTTCTTTGCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * *
1163369 CTTAAGTTTGCCTGTTGGCTTTGACCTTGGAGATTTCTTCCCC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* * * *
1163412 CTTAAGTTTGCCTGTCAGCTTTAACCCTGGAGACTTTCTTCACC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGAC-TTCTTCCCC
* * * *
1163456 CTTAAGTCTGCTTGTTGGCTTTGACCCTGGAGATTTTCTTCACC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGA-CTTCTTCCCC
* ** * * *
1163500 CTTAAGTCTACCTAACGACTTTGACCTTGGAGACTTCTTCACC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
* ** *
1163543 CTT-TGTCTGCCCATCAGCTTTGACC
1 CTTAAGTCTGCCTGTCGGCTTTGACC
1163568 TACGAGACTT
Statistics
Matches: 705, Mismatches: 168, Indels: 23
0.79 0.19 0.03
Matches are distributed among these distances:
41 12 0.02
42 110 0.16
43 502 0.71
44 80 0.11
45 1 0.00
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (43 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCCTGGAGACTTCTTCCCC
Found at i:1163690 original size:42 final size:43
Alignment explanation
Indices: 1163592--1163707 Score: 128
Period size: 42 Copynumber: 2.7 Consensus size: 43
1163582 ATCTTTTGTT
** * * **
1163592 TGCCCGTCGACTTTGACCCGGGAGACTTCTTTCATCTTTCGTC
1 TGCCCGTCGACTCAGAACTGGGAGACTTCTTTCATCAATCGTC
* *
1163635 TACCCGTCAACTCAGAACTGGGAGACTTCTTT-ATCAATCGTC
1 TGCCCGTCGACTCAGAACTGGGAGACTTCTTTCATCAATCGTC
*
1163677 TGCCCGTCGACTCA-AACTCAGGAGACTTCTT
1 TGCCCGTCGACTCAGAACT-GGGAGACTTCTT
1163708 CATTTTTCAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
41 4 0.07
42 31 0.51
43 26 0.43
ACGTcount: A:0.20, C:0.31, G:0.19, T:0.30
Consensus pattern (43 bp):
TGCCCGTCGACTCAGAACTGGGAGACTTCTTTCATCAATCGTC
Found at i:1164043 original size:42 final size:42
Alignment explanation
Indices: 1163956--1164051 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
1163946 AAACTTAGGG
* * *
1163956 GACTCTTTCATCTTTTTTCTGCCCATCGGCTTTAACTCAGAA
1 GACTCCTTCATCTTTCTTCTGCCCATCGACTTTAACTCAGAA
* * * *
1163998 GACTCCTTCACTCTTTCTT-TGCCCATCTACTTTGACTCGGGA
1 GACTCCTTCA-TCTTTCTTCTGCCCATCGACTTTAACTCAGAA
*
1164040 GACTTCTTCATC
1 GACTCCTTCATC
1164052 CATCGTTTGC
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
41 2 0.04
42 36 0.80
43 7 0.16
ACGTcount: A:0.17, C:0.31, G:0.12, T:0.40
Consensus pattern (42 bp):
GACTCCTTCATCTTTCTTCTGCCCATCGACTTTAACTCAGAA
Found at i:1165679 original size:165 final size:165
Alignment explanation
Indices: 1165444--1165903 Score: 556
Period size: 165 Copynumber: 2.8 Consensus size: 165
1165434 ATTCTTCATA
* * * * *
1165444 TTTTCAAATAACGAGATTTTCTTA-TCCGTAATTTTTTTCGAGAGGAGTTTTCTTAATTTTTAAA
1 TTTTAAAAT-ACGAGATTTTC-TACTCCGTAATTTTTTT--AGAGGATTTTTCCTAGTTTTTAAT
* * *
1165508 TTTTAAAATTTATCAAATATTATTATTTATTTCATATTAAATCAGTTTTCAAAAATTAATTCATT
62 TTTTAAAATTCATCAAATATTATAATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATT
* *
1165573 TACATGAGTTTTTG-ATTTTTTCTTTGAAATTTCCC-TTT
127 TACATGAGCTTTTGAATTTTTTCCTTGAAA-TTCCCTTTT
* * *
1165611 TTTTAAAATACGAGGTTTTCTACTCTGTAATTTTTTTAAGAGGATTTTTCCTAGTTTTCAATTTT
1 TTTTAAAATACGAGATTTTCTACTCCGTAATTTTTTT-AGAGGATTTTTCCTAGTTTTTAATTTT
* * * *
1165676 TAAAATTCATCAAATATTATCATTTATTTCATATTAATTTAGTTTTCAAAAATTCAA-TAATTTT
65 TAAAATTCATCAAATATTATAATTTATTTCATATTAATTCAGTTTTCAAAAATT-AATTCATTTA
1165740 CATGAGCTTTTGAATTTTTTCCTTGAAATTCCCTTTT
129 CATGAGCTTTTGAATTTTTTCCTTGAAATTCCCTTTT
* * * *
1165777 TTTTAAAACACG-GTATTTTTTACTCCGTAATTTTTTTAGGGGATTTTT-CAAGGTTTTTAATTT
1 TTTTAAAATACGAG-ATTTTCTACTCCGTAATTTTTTTAGAGGATTTTTCCTA-GTTTTTAATTT
* * * *
1165840 TTAGAATTCATCAAACATCATAATTTGA-TTCATATTAATTCAGTTTTCAAAAATTCATTCATTT
64 TTAAAATTCATCAAATATTATAATTT-ATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTT
1165904 TTGAATTTTT
Statistics
Matches: 254, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
164 3 0.01
165 169 0.67
166 74 0.29
167 8 0.03
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (165 bp):
TTTTAAAATACGAGATTTTCTACTCCGTAATTTTTTTAGAGGATTTTTCCTAGTTTTTAATTTTT
AAAATTCATCAAATATTATAATTTATTTCATATTAATTCAGTTTTCAAAAATTAATTCATTTACA
TGAGCTTTTGAATTTTTTCCTTGAAATTCCCTTTT
Found at i:1166595 original size:13 final size:12
Alignment explanation
Indices: 1166552--1166597 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
1166542 TGGTTCAGCT
*
1166552 GAAAAACAAGAGA
1 GAAAAA-AAGAAA
1166565 GAAAAAAAGAAA
1 GAAAAAAAGAAA
*
1166577 GGAAAAAAGAAA
1 GAAAAAAAGAAA
1166589 GAAAAAAAG
1 GAAAAAAAG
1166598 GAAAAAATAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
12 24 0.80
13 6 0.20
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:1166597 original size:20 final size:20
Alignment explanation
Indices: 1166564--1166604 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
1166554 AAAACAAGAG
1166564 AGAAAAAAAGAAAGGAAAAA
1 AGAAAAAAAGAAAGGAAAAA
1166584 AGAAAGAAAA-AAAGGAAAAA
1 AGAAA-AAAAGAAAGGAAAAA
1166604 A
1 A
1166605 TAGAAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAGAAAGGAAAAA
Found at i:1170804 original size:48 final size:48
Alignment explanation
Indices: 1170745--1170848 Score: 174
Period size: 48 Copynumber: 2.2 Consensus size: 48
1170735 AGCTATGGTA
* *
1170745 TTGAGGGGAAATGGTTTGGAGCAGTGTATGAGCTAAGGAGAAAA-TGTT
1 TTGAGGTGAAATGGTTTGAAGCAGTGTATGAGCTAAGGA-AAAAGTGTT
1170793 TTGAGGTGAAATGGTTTGAAGCAGTGTATGAGCTAAGGAAAAAGTGTT
1 TTGAGGTGAAATGGTTTGAAGCAGTGTATGAGCTAAGGAAAAAGTGTT
1170841 TTGAGGTG
1 TTGAGGTG
1170849 TTTGTGGGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
47 4 0.08
48 49 0.92
ACGTcount: A:0.31, C:0.04, G:0.37, T:0.29
Consensus pattern (48 bp):
TTGAGGTGAAATGGTTTGAAGCAGTGTATGAGCTAAGGAAAAAGTGTT
Found at i:1172205 original size:52 final size:49
Alignment explanation
Indices: 1172140--1172319 Score: 219
Period size: 43 Copynumber: 3.7 Consensus size: 49
1172130 GGTGCTAATG
* *
1172140 TGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATGACAAAGGCGCCCATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGCGCCAATA
* *
1172192 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATA
* *
1172241 TGCTGATTCAAGGCCAGCAACATTGGACTT----A--AAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATA
*
1172284 TGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1172320 AGATGCCACT
Statistics
Matches: 115, Mismatches: 8, Indels: 14
0.84 0.06 0.10
Matches are distributed among these distances:
43 40 0.35
45 1 0.01
48 1 0.01
49 38 0.33
52 35 0.30
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGCGCCAATA
Found at i:1172266 original size:49 final size:49
Alignment explanation
Indices: 1172128--1172319 Score: 234
Period size: 52 Copynumber: 4.0 Consensus size: 49
1172118 AAAAGTGATA
* * *
1172128 AAGGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGAACTTAAAGATG
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
* * *
1172177 ACAAAGGCGCCCATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG
1 ---AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*
1172229 AAGGTGCCAATATGCTGATTCAAGGCCAGCAACATTGGACTT----A--
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
*
1172272 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGA
1172320 AGATGCCACT
Statistics
Matches: 123, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
43 40 0.33
45 1 0.01
48 1 0.01
49 38 0.31
52 43 0.35
ACGTcount: A:0.33, C:0.19, G:0.26, T:0.23
Consensus pattern (49 bp):
AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
Found at i:1172296 original size:21 final size:21
Alignment explanation
Indices: 1172229--1172296 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1172219 CTTAAAGATG
1172229 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
* * *
1172250 AAGG-CCAGCAACAT--TGGACTTA
1 AAGGTGC--CAATATGCT-GA-TTC
1172272 AAGGTGCCAATATGCTGATTC
1 AAGGTGCCAATATGCTGATTC
1172293 AAGG
1 AAGG
1172297 CCAGCGATAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
20 2 0.06
21 17 0.50
22 13 0.38
23 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (21 bp):
AAGGTGCCAATATGCTGATTC
Found at i:1172403 original size:27 final size:27
Alignment explanation
Indices: 1172323--1172602 Score: 298
Period size: 27 Copynumber: 10.0 Consensus size: 27
1172313 TAGAAGAAGA
1172323 TGCCACTAACTTGTGTAGGCTTTTGAAAGGGT
1 TGCCACTAACTTGTG--GGC-TTTG-AA-GGT
* *
1172355 TG-CACCAACTTGTGTGCTTTTGAAGGT
1 TGCCACTAACTTGTGGGC-TTTGAAGGT
**
1172382 TGCCACTGCCTTGTGGGCTTTGAAGGT
1 TGCCACTAACTTGTGGGCTTTGAAGGT
1172409 TGCCACTAACTTGTGGGCTTTGAAGGT
1 TGCCACTAACTTGTGGGCTTTGAAGGT
1172436 TGCCACTAACTTGTGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTG--AAGGT
*
1172464 TGCCACTAACTTGTGGGGTTTTGAAGGT
1 TGCCACTAACTTGT-GGGCTTTGAAGGT
* *
1172492 TGCTACTGACTTGTGGGCTTTGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTG--AAGGT
* *
1172520 TGCCACTAACTTATGGGCTTTGAAAGT
1 TGCCACTAACTTGTGGGCTTTGAAGGT
* *
1172547 TGCCACTGACTTGTGGGCTTCGAAAAGG-
1 TGCCACTAACTTGTGGGCTTTG--AAGGT
*
1172575 TGTCACTAACTTGTGGGCTTTGGAAGGT
1 TGCCACTAACTTGTGGGCTTT-GAAGGT
1172603 GAGGAATGTC
Statistics
Matches: 213, Mismatches: 23, Indels: 28
0.81 0.09 0.11
Matches are distributed among these distances:
26 3 0.01
27 95 0.45
28 76 0.36
29 26 0.12
31 11 0.05
32 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (27 bp):
TGCCACTAACTTGTGGGCTTTGAAGGT
Found at i:1172429 original size:55 final size:55
Alignment explanation
Indices: 1172323--1172602 Score: 343
Period size: 55 Copynumber: 5.0 Consensus size: 55
1172313 TAGAAGAAGA
* * *
1172323 TGCCACTAACTTGTGTAGGCTTTTGAAAGGGTTG-CACCAACTTGTGTGCTTTTGAAGGT
1 TGCCACTGACTTGTG--GGC-TTTGAAA-GG-TGCCACTAACTTGTGGGCTTTTGAAGGT
*
1172382 TGCCACTGCCTTGTGGGCTTTG-AAGGTTGCCACTAACTTGTGGGC-TTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTGAAAGG-TGCCACTAACTTGTGGGCTTTTGAAGGT
* *
1172436 TGCCACTAACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGGTTTTGAAGGT
1 TGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTAACTTGTGGGCTTTTGAAGGT
* * *
1172492 TGCTACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTATGGGC-TTTGAAAGT
1 TGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTAACTTGTGGGCTTTTGAAGGT
* * *
1172547 TGCCACTGACTTGTGGGCTTCGAAAAGGTGTCACTAACTTGTGGGCTTTGGAAGGT
1 TGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTAACTTGTGGGCTTTTGAAGGT
1172603 GAGGAATGTC
Statistics
Matches: 198, Mismatches: 18, Indels: 13
0.86 0.08 0.06
Matches are distributed among these distances:
54 34 0.17
55 82 0.41
56 66 0.33
57 3 0.02
59 13 0.07
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (55 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGTGCCACTAACTTGTGGGCTTTTGAAGGT
Found at i:1173003 original size:37 final size:37
Alignment explanation
Indices: 1172961--1173045 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
1172951 AAAGATGAAG
*
1172961 CACAAATGCATTATGCAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
*
1172998 CACAAATGCATCATGCAAAATGAAATGTTATGAGTGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
1173035 CACAAATGCAT
1 CACAAATGCAT
1173046 GATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATGT
Found at i:1174137 original size:155 final size:154
Alignment explanation
Indices: 1173383--1174471 Score: 1005
Period size: 154 Copynumber: 7.0 Consensus size: 154
1173373 TTTTCGTATT
* * ** *
1173383 TTTTTAGAACCAACTCCTAGGTCATCACCGGGTTTGCTTTTATGCCAAAGGTGGGCATTTAGGAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGAT
* ** * * *
1173448 AGGTTCATCCCTTTTATGGGTCTTTTTAAGTCCTTTAAGGTTA-CTAGGATACTTTTACATCGAA
66 AGGTTCATCCATTTTA-AAGTCTTTTTAAGTCCTTTAGGGTTACCGA-GATACTTTTACGTCGAA
** * *
1173512 GGTATACTTCTAAGGGCATTTTGGTAAA
129 GGTAT-CCCCTAGGGGCATTTTTGT-AA
* *
1173540 TTTTTTTAGAACCAACTCCTAGGTCATCACCGAGTCCGCTTTTATGCCGAAGGTAGGCATTTAGG
1 --TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGG
* ** * * ** * *
1173605 ATAGGTTCATACCATCTCT-AACCCTTTTTAATTCCTTTAGGGGTACTTAGATACTTTCATGTCG
64 ATAGGTTCAT-CCAT-TTTAAAGTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCG
* * * *
1173669 AAGATATCCCTTAGAGGCATTTTCGTAA
127 AAGGTATCCCCTAGGGGCATTTTTGTAA
** ** * * * * *
1173697 TATCCTAGAACTGAGTCCTAGGTTGTCACCGAGTCCACTTTTATGCCAAAGGTGGGTATTTAGGA
1 T-TTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGA
* ** * ** *
1173762 TAGGTTCA-CCTTTTTCTAGTCTTTCTAAGTCCTTTAGGGTTGTCG-GGTACTTTTACGTCGAAG
65 TAGGTTCATCCATTTTAAAGTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCGAAG
*
1173825 GTATACCCATAGGGGCATTTTTGTAA
130 GTAT-CCCCTAGGGGCATTTTTGTAA
** * * * * * *
1173851 TTTTTTAGAACTGAGTCCTAAGTTGTCATCGAGTTCGCTTTTATGCTGAAGGTGGGCATTTAGGA
1 -TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGA
* * * * * * * *
1173916 TAGGTTCACCCATTTTCTAA-TCTTTTTAGGTCTTTTAGGGATACCGGGATACTTTCATGTCGAA
65 TAGGTTCATCCATTTT-AAAGTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCGAA
1173980 GGTATCCCCTAGGGGCATTTTTGTAA
129 GGTATCCCCTAGGGGCATTTTTGTAA
* * * ** *
1174006 TTTTTAGAACCAACTCTTAGGTCATCACCGAGTCCGTTTTTATGCAAAAGGTGGGTATTTAGGAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGAT
* * * * *
1174071 AGTTTCATCCATTTTAAAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACTTTCATGTCAAAG
66 AGGTTCATCCATTTTAAAGTC-TTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCGAAG
* *
1174136 GTAT-CCCTAAGGGCATTTTCGTAA
130 GTATCCCCTAGGGGCATTTTTGTAA
* * * * * * *
1174160 TTTTTAGAATCAACTCTTAGGTCGTCACCGGGTTCACTTTTATGTCGAA---GGGCATTTAGGGT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGAT
* * * * *
1174222 AGGTTCATACC-TTTTATGAGTCTTTTTAAGTCTTTTAGGGTTGCCAAGATACTTTTACATCGAA
66 AGGTTCAT-CCATTTTA-AAGTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCGAA
* * * *
1174286 GCTATACTCCTAGAGGCATTTTGGTAA
129 GGTAT-CCCCTAGGGGCATTTTTGTAA
* *
1174313 TTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCCAC-TTT-TGCCGAAGGTGGGCATTTAGGA
1 TTTT-TAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGA
* * * * * * *
1174376 TAGGTTCATCCTTTTTATGAGTCTTTTTAAGCCCTTTAGGGTTGCTGGGATACTTTTACATCGAA
65 TAGGTTCATCCATTTTA-AAGTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCGAA
* *
1174441 AGAATCCCCTAGGGGCATTTTTGTAA
129 GGTATCCCCTAGGGGCATTTTTGTAA
1174467 TTTTT
1 TTTTT
1174472 TTGAACTTAG
Statistics
Matches: 767, Mismatches: 142, Indels: 48
0.80 0.15 0.05
Matches are distributed among these distances:
151 61 0.08
152 12 0.02
153 46 0.06
154 281 0.37
155 160 0.21
156 80 0.10
157 2 0.00
158 13 0.02
159 105 0.14
160 5 0.01
161 2 0.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (154 bp):
TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGGCATTTAGGAT
AGGTTCATCCATTTTAAAGTCTTTTTAAGTCCTTTAGGGTTACCGAGATACTTTTACGTCGAAGG
TATCCCCTAGGGGCATTTTTGTAA
Found at i:1174324 original size:308 final size:305
Alignment explanation
Indices: 1173372--1174477 Score: 1118
Period size: 308 Copynumber: 3.6 Consensus size: 305
1173362 CCGTAGAGAA
* * * **
1173372 ATTTTCGTATTTTTTTAGAACCAACTCCTAGGTCATCACCGGGTTTGCTTTTATGCCAAAGGTGG
1 ATTTTCGTAATTTTCTAGAACCAACTCCTAGGTCATCACCGAGTCCGCTTTTATGCCAAAGGTGG
* * * *
1173437 GCATTTAGGATAGGTTCATCCCTTTTATGGGTCTTTTTAAGTCCTTTAAGGTTACTAGGATACTT
66 GCATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACGA-GATACTT
* * * *
1173502 TTACATCGAAGGTATACTTCTAAGGGCATTTTGGTAAATTTTTTTAGAACCAACTCCTAGGTCAT
130 TTACGTCGAAGGTATAC-CCTAAGGGCATTTTCGT-AA-TTTTTTAGAA-CAACTCCTAGGTCGT
* * * *
1173567 CACCGAGTCCGCTTTTATGCCGAAGGTAGGCATTTAGGATAGGTTCATACCATCTCTAACCCTTT
191 CACCGAGTTCGCTTTTATG-CGAAGG--GGCATTTAGGATAGGTTCATACCTTTTCTAA-TCTTT
* * * **
1173632 TTAATTCCTTTAGGGGTACTTAGATACTTTCATGTCGAAGATATCCCTTAGAGGC
252 TTAAGTCTTTTAGGGATACCAAGATACTTTCATGTCGAAGATATCCC-TAGAGGC
* * ** * ** *
1173687 ATTTTCGTAATATCCTAGAACTGAGTCCTAGGTTGTCACCGAGTCCACTTTTATGCCAAAGGTGG
1 ATTTTCGTAATTTTCTAGAACCAACTCCTAGGTCATCACCGAGTCCGCTTTTATGCCAAAGGTGG
* * * * *
1173752 GTATTTAGGATAGGTTCA-CCTTTTTCT-AGTCTTTCTAAGTCCTTTAGGGTTGTCG-GGTACTT
66 GCATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTTTAGGGTT-ACGAGATACTT
* * * * * *
1173814 TTACGTCGAAGGTATACCCATAGGGGCATTTTTGTAATTTTTTAGAACTGAGTCCTAAGTTGTCA
130 TTACGTCGAAGGTATACCC-TAAGGGCATTTTCGTAATTTTTTAGAAC-AACTCCTAGGTCGTCA
* *
1173879 TCGAGTTCGCTTTTATGCTGAAGGTGGGCATTTAGGATAGGTTCA-CCCATTTTCTAATCTTTTT
193 CCGAGTTCGCTTTTATGC-GAA-G-GGGCATTTAGGATAGGTTCATACC-TTTTCTAATCTTTTT
* ** * *
1173943 AGGTCTTTTAGGGATACCGGGATACTTTCATGTCGAAGGTATCCCCTAGGGGC
254 AAGTCTTTTAGGGATACCAAGATACTTTCATGTCGAAGATAT-CCCTAGAGGC
* * * *
1173996 ATTTTTGTAATTTT-TAGAACCAACTCTTAGGTCATCACCGAGTCCGTTTTTATGCAAAAGGTGG
1 ATTTTCGTAATTTTCTAGAACCAACTCCTAGGTCATCACCGAGTCCGCTTTTATGCCAAAGGTGG
* * * * *
1174060 GTATTTAGGATAGTTTCATCCATTTTA-AAGTCTTTTTTAAGTCCTTTAGGGGTACCGAGATACT
66 GCATTTAGGATAGGTTCATCCTTTTTATGAGTC-TTTTTAAGTCCTTTAGGGTTA-CGAGATACT
* * * *
1174124 TTCATGTCAAAGGTAT-CCCTAAGGGCATTTTCGTAA-TTTTTAGAATCAACTCTTAGGTCGTCA
129 TTTACGTCGAAGGTATACCCTAAGGGCATTTTCGTAATTTTTTAGAA-CAACTCCTAGGTCGTCA
* * * * *
1174187 CCGGGTTCACTTTTATGTCGAA-GGGCATTTAGGGTAGGTTCATACCTTTTATGAGTCTTTTTAA
193 CCGAGTTCGCTTTTATG-CGAAGGGGCATTTAGGATAGGTTCATACCTTTTCT-AATCTTTTTAA
* * * ** *
1174251 GTCTTTTAGGGTTGCCAAGATACTTTTACATCGAAGCTATACTCCTAGAGGC
256 GTCTTTTAGGGATACCAAGATACTTTCATGTCGAAGATAT-C-CCTAGAGGC
* * * * *
1174303 ATTTTGGTAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCCAC-TTT-TGCCGAAGGTGG
1 ATTTTCGTAATTTTCTAGAACCAACTCCTAGGTCATCACCGAGTCCGCTTTTATGCCAAAGGTGG
* * *
1174366 GCATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGCCCTTTAGGGTTGCTGGGATACTT
66 GCATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTAC-GAGATACTT
* * * * * * *
1174431 TTACATCGAAAGAATCCCCTAGGGGCATTTTTGTAATTTTTTTGAAC
130 TTACGTCGAAGGTATACCCTAAGGGCATTTTCGTAATTTTTTAGAAC
1174478 TTAGCTTTTT
Statistics
Matches: 650, Mismatches: 118, Indels: 54
0.79 0.14 0.07
Matches are distributed among these distances:
305 25 0.04
306 113 0.17
307 47 0.07
308 131 0.20
309 88 0.14
310 90 0.14
311 22 0.03
312 36 0.06
313 21 0.03
314 8 0.01
315 69 0.11
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (305 bp):
ATTTTCGTAATTTTCTAGAACCAACTCCTAGGTCATCACCGAGTCCGCTTTTATGCCAAAGGTGG
GCATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTACGAGATACTTT
TACGTCGAAGGTATACCCTAAGGGCATTTTCGTAATTTTTTAGAACAACTCCTAGGTCGTCACCG
AGTTCGCTTTTATGCGAAGGGGCATTTAGGATAGGTTCATACCTTTTCTAATCTTTTTAAGTCTT
TTAGGGATACCAAGATACTTTCATGTCGAAGATATCCCTAGAGGC
Found at i:1177285 original size:17 final size:17
Alignment explanation
Indices: 1177265--1177299 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
1177255 CGGAGAAATG
1177265 AGGAACATAGAGATATA
1 AGGAACATAGAGATATA
1177282 AGGAACATAGAGATATA
1 AGGAACATAGAGATATA
1177299 A
1 A
1177300 AATAATCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.23, T:0.17
Consensus pattern (17 bp):
AGGAACATAGAGATATA
Found at i:1180910 original size:60 final size:60
Alignment explanation
Indices: 1180799--1181309 Score: 410
Period size: 60 Copynumber: 8.5 Consensus size: 60
1180789 ACCATCCTCG
* * * ** * * *
1180799 CTTGACTGTATTCGGTCAA-ATCTATCCTTATTTGATTGTACTCAATGAAATCTGACCTTT
1 CTTGACTGTATTCGGTCAAGA-CTTTCCTCATTTGACTGTACTTGATCAAATCTTACCCTT
* * * *
1180859 ATTGACTGTATTCGGTCAAGACTATCCTCGTTTGACTGTACTTGGTCAAATCTTACCCTT
1 CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACTTGATCAAATCTTACCCTT
* * * ** * * ** *
1180919 -TTGACTATATTCAGTTAAGTTTTTCCTCATTTGATTGTACTCGGCCAAATCTTACCCCT
1 CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACTTGATCAAATCTTACCCTT
* * * * *
1180978 CTTGACTGTATTCAGTCAAGACCTTCTTCATTTGACTTTA-TTCGATCAAAT-TTCACCCTCG
1 CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACTT-GATCAAATCTT-ACCCT-T
* * * * * * *
1181039 CTTGACTGCATTCAGTCAAGCCTTTCCTTATTTGACTATAC-TCAGTCAAATCATACCCTT
1 CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACTTGA-TCAAATCTTACCCTT
* ** * *
1181099 CTTGACTGTATTCAGTCAAGACAATCTTCATTCGACTGTACTCTG-TCAAATCTTA-CCTT
1 CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACT-TGATCAAATCTTACCCTT
* * * * * *
1181158 ACTCGACTGTATTCGGTTAA-ATCTTTCTTCATTTAACTGTACTTGATCAAATCTTACCGTG
1 -CTTGACTGTATTCGGTCAAGA-CTTTCCTCATTTGACTGTACTTGATCAAATCTTACCCTT
* * * *
1181219 CTTGATTGTATTCGGTCAAGTCTTTCTTCATTTGACTATACTTGATCAAATCTTA-CCTT
1 CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACTTGATCAAATCTTACCCTT
* * *
1181278 ACTTAATTGTATTCGGTCAAGCCTTTCCTCAT
1 -CTTGACTGTATTCGGTCAAGACTTTCCTCAT
1181310 CTGCCTACAT
Statistics
Matches: 362, Mismatches: 73, Indels: 32
0.78 0.16 0.07
Matches are distributed among these distances:
59 60 0.17
60 251 0.69
61 49 0.14
62 2 0.01
ACGTcount: A:0.23, C:0.24, G:0.13, T:0.40
Consensus pattern (60 bp):
CTTGACTGTATTCGGTCAAGACTTTCCTCATTTGACTGTACTTGATCAAATCTTACCCTT
Found at i:1181210 original size:30 final size:30
Alignment explanation
Indices: 1181123--1181272 Score: 87
Period size: 30 Copynumber: 5.0 Consensus size: 30
1181113 GTCAAGACAA
*
1181123 TCTTCATTCGACTGTACTCTG-TCAAATCTT
1 TCTTCATTTGACTGTACT-TGATCAAATCTT
* * * * *
1181153 ACCTT-ACTCGACTGTA-TTCGGTTAAATCTT
1 -TCTTCATTTGACTGTACTT-GATCAAATCTT
*
1181183 TCTTCATTTAACTGTACTTGATCAAATCTT
1 TCTTCATTTGACTGTACTTGATCAAATCTT
* * * * *
1181213 AC--CGTGCTTGATTGTA-TTCGGTCAAGTCTT
1 TCTTCAT--TTGACTGTACTT-GATCAAATCTT
*
1181243 TCTTCATTTGACTATACTTGATCAAATCTT
1 TCTTCATTTGACTGTACTTGATCAAATCTT
1181273 ACCTTACTTA
Statistics
Matches: 88, Mismatches: 21, Indels: 21
0.68 0.16 0.16
Matches are distributed among these distances:
28 3 0.03
29 7 0.08
30 69 0.78
31 7 0.08
32 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.12, T:0.43
Consensus pattern (30 bp):
TCTTCATTTGACTGTACTTGATCAAATCTT
Found at i:1181959 original size:16 final size:16
Alignment explanation
Indices: 1181938--1181993 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
1181928 TACATACCCT
1181938 AAAAAATCAAGTATTC
1 AAAAAATCAAGTATTC
* * *
1181954 AAAAAAT-ATATCTCTTG
1 AAAAAATCA-A-GTATTC
1181971 AAAAAATCAAGTATTC
1 AAAAAATCAAGTATTC
1181987 AAAAAAT
1 AAAAAAT
1181994 ATATCTCTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
15 1 0.03
16 18 0.58
17 11 0.35
18 1 0.03
ACGTcount: A:0.57, C:0.11, G:0.05, T:0.27
Consensus pattern (16 bp):
AAAAAATCAAGTATTC
Found at i:1181974 original size:17 final size:17
Alignment explanation
Indices: 1181954--1182003 Score: 50
Period size: 16 Copynumber: 3.0 Consensus size: 17
1181944 TCAAGTATTC
1181954 AAAAAATATATCTCTTG
1 AAAAAATATATCTCTTG
* * *
1181971 AAAAAATCA-A-GTATTC
1 AAAAAAT-ATATCTCTTG
1181987 AAAAAATATATCTCTTG
1 AAAAAATATATCTCTTG
1182004 GCATTTTATA
Statistics
Matches: 24, Mismatches: 6, Indels: 6
0.67 0.17 0.17
Matches are distributed among these distances:
15 1 0.04
16 11 0.46
17 11 0.46
18 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.32
Consensus pattern (17 bp):
AAAAAATATATCTCTTG
Found at i:1181980 original size:33 final size:33
Alignment explanation
Indices: 1181938--1182003 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
1181928 TACATACCCT
1181938 AAAAAATCAAGTATTCAAAAAATATATCTCTTG
1 AAAAAATCAAGTATTCAAAAAATATATCTCTTG
1181971 AAAAAATCAAGTATTCAAAAAATATATCTCTTG
1 AAAAAATCAAGTATTCAAAAAATATATCTCTTG
1182004 GCATTTTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (33 bp):
AAAAAATCAAGTATTCAAAAAATATATCTCTTG
Found at i:1183113 original size:13 final size:13
Alignment explanation
Indices: 1183095--1183119 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1183085 TTTGGGACAA
1183095 TGTATCGATACAT
1 TGTATCGATACAT
1183108 TGTATCGATACA
1 TGTATCGATACA
1183120 ATGTGCCATG
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:1184333 original size:166 final size:164
Alignment explanation
Indices: 1184045--1184344 Score: 361
Period size: 166 Copynumber: 1.8 Consensus size: 164
1184035 AAAAACTGAA
* * * * * *
1184045 TTTTCTATCCCATAAATGTTTTCGAGGGGTTTTCTTCGGTTTAAAATTTTTATAATTTATCTAAT
1 TTTTCTATCCCATAAATATTTTAGAGGGATTTTCTTCGGTCTAAAATTTTTAAAATGTATCTAAT
** * * * **
1184110 AATGTCATGGAGTTGCCATTAAATCAGTTTTGAAAATATAATTCATTTTCATGAATTTTGGATTT
66 AATGTCATGGAACTGCCATTAAATCAGTTTTAAAAATATAATTAACTTT-ATGAATTTTAAATTT
1184175 TTTTCTTTGAAATCCCATTTTCTCAAAAAATGGAG
130 TTTTCTTTGAAATCCCATTTTCTCAAAAAATGGAG
* *
1184210 TTTTCTATTCCATAAATATTTCTAGAGGGATTTTCTTTGGTCTAAAATTTTTAAAATGTATCTAA
1 TTTTCTATCCCATAAATATTT-TAGAGGGATTTTCTTCGGTCTAAAATTTTTAAAATGTATCTAA
* * * * *
1184275 TATTGTCATTGAACT-CTTATTAATTCAGTTTTAAAAATTTTAATTTAACTTT-TGAATTTTAAA
65 TAATGTCATGGAACTGC-CATTAAATCAGTTTTAAAAA-TATAA-TTAACTTTATGAATTTTAAA
1184338 TTTTTTT
127 TTTTTTT
1184345 GTATATATCG
Statistics
Matches: 111, Mismatches: 20, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
165 20 0.18
166 81 0.73
167 4 0.04
168 6 0.05
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.48
Consensus pattern (164 bp):
TTTTCTATCCCATAAATATTTTAGAGGGATTTTCTTCGGTCTAAAATTTTTAAAATGTATCTAAT
AATGTCATGGAACTGCCATTAAATCAGTTTTAAAAATATAATTAACTTTATGAATTTTAAATTTT
TTTCTTTGAAATCCCATTTTCTCAAAAAATGGAG
Found at i:1184859 original size:10 final size:10
Alignment explanation
Indices: 1184842--1184887 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
1184832 TTTGGCTGGT
1184842 GAGAAAAAAA
1 GAGAAAAAAA
*
1184852 GGGAAAAAAA
1 GAGAAAAAAA
1184862 -AGAAAAAAA
1 GAGAAAAAAA
1184871 TGAGAAAAAAA
1 -GAGAAAAAAA
*
1184882 AAGAAA
1 GAGAAA
1184888 TATAGCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
9 8 0.26
10 14 0.45
11 9 0.29
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (10 bp):
GAGAAAAAAA
Found at i:1189854 original size:18 final size:18
Alignment explanation
Indices: 1189828--1189868 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1189818 TCTCTCTCTC
*
1189828 TTTTCTTTTTCCTTTTTT
1 TTTTGTTTTTCCTTTTTT
**
1189846 TTTTGTTTTTTTTTTTTT
1 TTTTGTTTTTCCTTTTTT
1189864 TTTTG
1 TTTTG
1189869 GCAGAGACAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.07, G:0.05, T:0.88
Consensus pattern (18 bp):
TTTTGTTTTTCCTTTTTT
Found at i:1190979 original size:20 final size:20
Alignment explanation
Indices: 1190954--1190994 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
1190944 TTTTCTAAGA
1190954 TAATAGTTTCTTCACTATGC
1 TAATAGTTTCTTCACTATGC
*
1190974 TAATAGTTTTTTCACTATGC
1 TAATAGTTTCTTCACTATGC
1190994 T
1 T
1190995 GTAAATGGCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.10, T:0.49
Consensus pattern (20 bp):
TAATAGTTTCTTCACTATGC
Found at i:1192582 original size:16 final size:16
Alignment explanation
Indices: 1192563--1192630 Score: 66
Period size: 16 Copynumber: 4.3 Consensus size: 16
1192553 TTCGAACCCA
* *
1192563 AAATGATCCGAACTTG
1 AAATGACCCGAACCTG
**
1192579 AAATGACCCGAACCCA
1 AAATGACCCGAACCTG
1192595 AAAT-ACCCGAACCTG
1 AAATGACCCGAACCTG
* * *
1192610 AAATTATCCGAACCCG
1 AAATGACCCGAACCTG
1192626 AAATG
1 AAATG
1192631 TCTCGAACAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
15 13 0.31
16 29 0.69
ACGTcount: A:0.41, C:0.28, G:0.15, T:0.16
Consensus pattern (16 bp):
AAATGACCCGAACCTG
Found at i:1192604 original size:15 final size:16
Alignment explanation
Indices: 1192555--1192630 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
1192545 TCGACCGATT
*
1192555 CGAACCCAAAATGATC
1 CGAACCCAAAATGACC
***
1192571 CGAACTTGAAATGACC
1 CGAACCCAAAATGACC
1192587 CGAACCCAAAAT-ACC
1 CGAACCCAAAATGACC
** * *
1192602 CGAACCTGAAATTATC
1 CGAACCCAAAATGACC
*
1192618 CGAACCCGAAATG
1 CGAACCCAAAATG
1192631 TCTCGAACAA
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
15 13 0.28
16 34 0.72
ACGTcount: A:0.41, C:0.30, G:0.14, T:0.14
Consensus pattern (16 bp):
CGAACCCAAAATGACC
Found at i:1192612 original size:31 final size:32
Alignment explanation
Indices: 1192555--1192630 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 32
1192545 TCGACCGATT
* *
1192555 CGAACCCAAAATGATCCGAACTTGAAATGACC
1 CGAACCCAAAATGACCCGAACCTGAAATGACC
* *
1192587 CGAACCCAAAAT-ACCCGAACCTGAAATTATC
1 CGAACCCAAAATGACCCGAACCTGAAATGACC
*
1192618 CGAACCCGAAATG
1 CGAACCCAAAATG
1192631 TCTCGAACAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
31 26 0.68
32 12 0.32
ACGTcount: A:0.41, C:0.30, G:0.14, T:0.14
Consensus pattern (32 bp):
CGAACCCAAAATGACCCGAACCTGAAATGACC
Found at i:1192667 original size:21 final size:22
Alignment explanation
Indices: 1192624--1192667 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
1192614 TATCCGAACC
1192624 CGAAATGTCTCGAACAATTAAAT
1 CGAAATGTCTCGAAC-ATTAAAT
1192647 CGAAATGATC-CGAAC-TTAAAT
1 CGAAATG-TCTCGAACATTAAAT
1192668 TTACTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.30
23 12 0.60
24 2 0.10
ACGTcount: A:0.43, C:0.18, G:0.14, T:0.25
Consensus pattern (22 bp):
CGAAATGTCTCGAACATTAAAT
Done.