Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold119
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: 3173904
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 20
Found at i:1603780 original size:12 final size:11
Alignment explanation
Indices: 1603757--1603794 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
1603747 ACATTCTTTT
1603757 AAAAAA-AACA
1 AAAAAACAACA
1603767 AAAAAACAACCA
1 AAAAAACAA-CA
1603779 AAAAAACAA-A
1 AAAAAACAACA
1603789 AAAAAA
1 AAAAAA
1603795 AAGCCCGCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 13 0.50
11 2 0.08
12 11 0.42
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAACAACA
Found at i:1603795 original size:12 final size:12
Alignment explanation
Indices: 1603757--1603795 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
1603747 ACATTCTTTT
1603757 AAAAA-AAACAA
1 AAAAACAAACAA
*
1603768 AAAAACAACCAA
1 AAAAACAAACAA
1603780 AAAAACAAA-AA
1 AAAAACAAACAA
1603791 AAAAA
1 AAAAA
1603796 AGCCCGCTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 12 0.48
12 13 0.52
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAACAAACAA
Found at i:1604954 original size:100 final size:100
Alignment explanation
Indices: 1604765--1604963 Score: 213
Period size: 100 Copynumber: 2.0 Consensus size: 100
1604755 CCTTTCACTT
* * *
1604765 TTTAGTCCTCAAAGAGTAAGACGCCTTCTCCTTTTAAAACCCACACAAGTTGGTGGCACTTCCCA
1 TTTAGTCCTCAAAGAGCAAGACGCATTCTCCTTTCAAAACCCACACAAGTTGGTGGCACTTCCCA
*
1604830 GTCCCCAAAGAGCAGGACGCTC-TTTCTTTTCACCC
66 GTCCCCAAAGAGCAGGA-GATCTTTTCTTTTCACCC
* * * * * * * *
1604865 TTTAGTCCTCAAATAGCAAGACGCATTTTCCTTTCGAAGCTCATACAAGTTGGTGGCACATTTCT
1 TTTAGTCCTCAAAGAGCAAGACGCATTCTCCTTTCAAAACCCACACAAGTTGGTGGCAC-TTCCC
** *
1604930 AGTCCTTAAAGAGTAGG-GTATCTTTTTCTTTTCA
65 AGTCCCCAAAGAGCAGGAG-ATC-TTTTCTTTTCA
1604964 AAGAGCAGGG
Statistics
Matches: 80, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
99 1 0.01
100 52 0.65
101 17 0.21
102 10 0.12
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (100 bp):
TTTAGTCCTCAAAGAGCAAGACGCATTCTCCTTTCAAAACCCACACAAGTTGGTGGCACTTCCCA
GTCCCCAAAGAGCAGGAGATCTTTTCTTTTCACCC
Found at i:1604967 original size:26 final size:26
Alignment explanation
Indices: 1604937--1604992 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
1604927 TCTAGTCCTT
*
1604937 AAAGAGTAGGGTATCTTTTTCTTTTC
1 AAAGAGCAGGGTATCTTTTTCTTTTC
1604963 AAAGAGCAGGGTATCTTTTTCTTTTC
1 AAAGAGCAGGGTATCTTTTTCTTTTC
1604989 AAAG
1 AAAG
1604993 CCCACACAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.41
Consensus pattern (26 bp):
AAAGAGCAGGGTATCTTTTTCTTTTC
Found at i:1605116 original size:63 final size:62
Alignment explanation
Indices: 1604977--1605361 Score: 495
Period size: 62 Copynumber: 6.2 Consensus size: 62
1604967 AGCAGGGTAT
* ** * *
1604977 CTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCCTTAGTCCTTAAAGAGCAGGATGC
1 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* * *
1605039 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAAAGTAGGACAC
1 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACGC
* * * *
1605102 CTTTTTCTTTTCAAAGCCCACACAAGCTAGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCC
1 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACG-C
* * * * * *
1605165 CTTTTCCTTTT-AAAGCCTACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACAC
1 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-TAGTCCTCAAAGAGCAGGACGC
* * * *
1605227 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATCTTTTAGTCCTCAAAAAGCAGGATGC
1 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* *
1605289 C-TTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGACGC
1 CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
* *
1605350 ATTTTCCTTTTC
1 CTTTTTCTTTTC
1605362 TCCTTTTCCC
Statistics
Matches: 281, Mismatches: 37, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
61 56 0.20
62 117 0.42
63 108 0.38
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (62 bp):
CTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGACGC
Found at i:1605116 original size:125 final size:125
Alignment explanation
Indices: 1604977--1605361 Score: 551
Period size: 125 Copynumber: 3.1 Consensus size: 125
1604967 AGCAGGGTAT
* *
1604977 CTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCCTTAGTCCTTAAAGAGCAGGATGCCTT
1 CTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTT
*
1605042 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAAAGTAGGACAC
66 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACAC
* * *
1605102 CTTTTTCTTTTCAAAGCCCACACAAGCTAGTGGCACCCTTTAGTCCTCAAAGAGTAGGACGCCCT
1 CTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATG-CCT
* * * *
1605167 TTTCCTTTT-AAAGCCTACACAGGTTGGTGGCACTTTTCTAGTCCTCAAAGAGTAGGACAC
65 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACAC
* * * * *
1605227 CTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCATCTTTTAGTCCTCAAAAAGCAGGATGCC-T
1 CTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTT
* * * *
1605291 TTTCTTTTCAAAGCCCACACGAGTTGGTGGCA-CTTTTTAGTCCTCAAAGAGCAGGACGC
66 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACAC
* *
1605350 ATTTTCCTTTTC
1 CTTTTTCTTTTC
1605362 TCCTTTTCCC
Statistics
Matches: 230, Mismatches: 28, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
123 41 0.18
124 22 0.10
125 156 0.68
126 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.18, T:0.31
Consensus pattern (125 bp):
CTTTTTCTTTTCAAAGCCCACACAAGCTGGTGGCACCCTTTAGTCCTCAAAGAGCAGGATGCCTT
TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCTAGTCCTCAAAGAGTAGGACAC
Found at i:1605377 original size:38 final size:37
Alignment explanation
Indices: 1605332--1605409 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
1605322 ACTTTTTAGT
* * *
1605332 CCTCAAAGAGCAGGACGCATTTTCCTTTTCTCCTTTTC
1 CCTCAAAGAGCAGGACACA-TTTCATTTCCTCCTTTTC
*
1605370 CCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTC
1 CCTCAAAGAGCAGGACACATTTCATTTCCTCCTTTTC
1605407 CCT
1 CCT
1605410 TTTGTCCTCA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 18 0.50
38 18 0.50
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.36
Consensus pattern (37 bp):
CCTCAAAGAGCAGGACACATTTCATTTCCTCCTTTTC
Found at i:1605476 original size:22 final size:22
Alignment explanation
Indices: 1605446--1605489 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1605436 ATTCTCCTTT
1605446 TTCCATTGTCCTCAAAGAGTAG
1 TTCCATTGTCCTCAAAGAGTAG
*
1605468 TTCCTTTGTCCTCAAAGAGTAG
1 TTCCATTGTCCTCAAAGAGTAG
1605490 GACATATTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (22 bp):
TTCCATTGTCCTCAAAGAGTAG
Found at i:1605524 original size:46 final size:45
Alignment explanation
Indices: 1605472--1605582 Score: 143
Period size: 46 Copynumber: 2.4 Consensus size: 45
1605462 GAGTAGTTCC
* *
1605472 TTTGTCCTCAAAGAGTAGGACATA-TTCCATTCCCTTCTTTTCCTCT
1 TTTGTCCTCAAAGAGTAGGACACACTT-CATTCCCTTC-TTTCCCCT
* * *
1605518 TTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTTCTTTCCCCT
1 TTTGTCCTCAAAGAGTAGGACACACTTCATTCCCTTCTTTCCCCT
*
1605563 TTTGTCCTCAAAGAGCAGGA
1 TTTGTCCTCAAAGAGTAGGA
1605583 TGCACTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 26 0.45
46 30 0.52
47 2 0.03
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.38
Consensus pattern (45 bp):
TTTGTCCTCAAAGAGTAGGACACACTTCATTCCCTTCTTTCCCCT
Found at i:1605574 original size:45 final size:42
Alignment explanation
Indices: 1605468--1605839 Score: 243
Period size: 45 Copynumber: 8.8 Consensus size: 42
1605458 CAAAGAGTAG
* ** *
1605468 TTCC-TTTGTCCTCAAAGAGTAGGACATA-TTCCATTCCCTTCTT
1 TTCCTTTTGTCCTCAAAGAGCAGGACGCACTT-CATTTCC-T-TT
* *
1605511 TTCCTCTTTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTTCT
1 TT-C-CTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT-T
* *
1605556 TTCCCCTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTT
1 TT--CCTTTTGTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTTT
* * * * *
1605601 TT-CTTTGGTCTTCAAAGAGCAGGACACATTTCGTTTTCCTTTTT
1 TTCCTTTTGTCCTCAAAGAGCAGGACGCACTTC-ATTTCC--TTT
* * *
1605645 TTCC-TTTGTCCTTGAAA-AGCAGGATG----T-A--CCCTTT
1 TTCCTTTTGTCC-TCAAAGAGCAGGACGCACTTCATTTCCTTT
*
1605679 TTCC-TTTGTCCTCAAAGAGAAGGACGCACTTCATTTCCTTATT
1 TTCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCC-T-TT
* *
1605722 TTCCCTTTTGTCCTCAAAGAGCATGACGCACTTTAGTTTCCTTT
1 TT-CCTTTTGTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTTT
* * *
1605766 TT-CTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCCTTT
1 TTCCTTTTGTCCTCAAAGAGCAGGACGCACTTC-ATTTCCTTT
* * *
1605808 TTTCTTTTGTCCTTGAAA-AGCAGGACGTACTT
1 TTCCTTTTGTCC-TCAAAGAGCAGGACGCACTT
1605840 TTTTTCACTT
Statistics
Matches: 263, Mismatches: 38, Indels: 56
0.74 0.11 0.16
Matches are distributed among these distances:
33 4 0.02
34 21 0.08
36 2 0.01
38 1 0.00
39 1 0.00
40 1 0.00
41 2 0.01
42 66 0.25
43 26 0.10
44 29 0.11
45 68 0.26
46 40 0.15
47 2 0.01
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.41
Consensus pattern (42 bp):
TTCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTT
Found at i:1605622 original size:42 final size:43
Alignment explanation
Indices: 1605516--1605855 Score: 241
Period size: 42 Copynumber: 8.0 Consensus size: 43
1605506 TTCTTTTCCT
* * *
1605516 CTTTTGTCCTCAAAGAGTAGGACGCACTTCA-TTTCTTTCTTTCCC
1 CTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTT-TTT--C
*
1605561 CTTTTGTCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTT-
1 CTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTTC
* * * *
1605603 CTTTGGTCTTCAAAGAGCAGGACACA-TTTCGTTTTCCTTTTTTTC
1 CTTTTGTCCTCAAAGAGCAGGACGCACTTT-ATTTTCC--TTTTTC
* * *
1605648 C-TTTGTCCTTGAAA-AGCA-G--G-A-TGTA---CCCTTTTTC
1 CTTTTGTCC-TCAAAGAGCAGGACGCACTTTATTTTCCTTTTTC
* *
1605682 C-TTTGTCCTCAAAGAGAAGGACGCACTTCA-TTTCCTTATTTTCC
1 CTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCC-T-TTTT-C
* *
1605726 CTTTTGTCCTCAAAGAGCATGACGCACTTTAGTTTCCTTTTT-
1 CTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTTC
* * *
1605768 CTTTTGTCCTCAAAGAGTAGGACGCA-TTTCGTTTTCCTTTTTT
1 CTTTTGTCCTCAAAGAGCAGGACGCACTTT-ATTTTCCTTTTTC
* * *
1605811 CTTTTGTCCTTGAAA-AGCAGGACGTACTTT-TTTTCACTTTGTC
1 CTTTTGTCC-TCAAAGAGCAGGACGCACTTTATTTTC-CTTTTTC
1605854 CT
1 CT
1605856 CAAGAAACAG
Statistics
Matches: 238, Mismatches: 33, Indels: 50
0.74 0.10 0.16
Matches are distributed among these distances:
33 4 0.02
34 17 0.07
35 1 0.00
36 2 0.01
37 1 0.00
38 1 0.00
39 2 0.01
40 3 0.01
41 8 0.03
42 68 0.29
43 30 0.13
44 27 0.11
45 63 0.26
46 11 0.05
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (43 bp):
CTTTTGTCCTCAAAGAGCAGGACGCACTTTATTTTCCTTTTTC
Found at i:1605625 original size:87 final size:84
Alignment explanation
Indices: 1605515--1605820 Score: 301
Period size: 87 Copynumber: 3.6 Consensus size: 84
1605505 CTTCTTTTCC
1605515 TCTTTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTTCTTTCCCCTTTTGTCCTCAAAGAGCA
1 TCTTTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTT-TTT-CCCTTTTGTCCTCAAAGAGCA
1605580 GGATGCACTTTATTTTCCTTTT
64 GGATGCACTTTA-TTTCCTTTT
* * * * * * * *
1605602 TCTTTGGTCTTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTTCC-TTTGTCCTTGAAA-AGC
1 TCTTTTGTCCTCAAAGAGTAGGACGCACTTC-ATTT-CTTTTTTCCCTTTTGTCC-TCAAAGAGC
*
1605665 AGGATG-----TA--CCCTTTT
63 AGGATGCACTTTATTTCCTTTT
* *
1605680 TCCTTTGTCCTCAAAGAGAAGGACGCACTTCATTTCCTTATTTTCCCTTTTGTCCTCAAAGAGCA
1 TCTTTTGTCCTCAAAGAGTAGGACGCACTTCATTT-CTT-TTTTCCCTTTTGTCCTCAAAGAGCA
* *
1605745 TGACGCACTTTAGTTTCCTTTT
64 GGATGCACTTTA-TTTCCTTTT
* *
1605767 TCTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCCTTTTTT--CTTTTGTCCT
1 TCTTTTGTCCTCAAAGAGTAGGACGCACTTC-ATTT-CTTTTTTCCCTTTTGTCCT
1605821 TGAAAAGCAG
Statistics
Matches: 179, Mismatches: 25, Indels: 32
0.76 0.11 0.14
Matches are distributed among these distances:
77 7 0.04
78 41 0.23
79 14 0.08
81 2 0.01
84 2 0.01
85 10 0.06
86 16 0.09
87 70 0.39
88 13 0.07
89 4 0.02
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.43
Consensus pattern (84 bp):
TCTTTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTTTTTCCCTTTTGTCCTCAAAGAGCAGG
ATGCACTTTATTTCCTTTT
Found at i:1605798 original size:165 final size:165
Alignment explanation
Indices: 1605518--1605858 Score: 531
Period size: 165 Copynumber: 2.1 Consensus size: 165
1605508 CTTTTCCTCT
* * *
1605518 TTTGTCCTCAAAGAGTAGGACGCACTTCATTTCTTTCTTTCCCCTTTTGTCCTCAAAGAGCAGGA
1 TTTGTCCTCAAAGAGAAGGACGCACTTCATTTCCTTATTTCCCCTTTTGTCCTCAAAGAGCAGGA
* * *
1605583 TGCACTTTATTTTCCTTTTTCTTTGGTCTTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTTC
66 CGCACTTTAGTTTCCTTTTTCTTTGGTCCTCAAAGAGCAGGACACATTTCGTTTTCC-TTTTTTC
*
1605648 CTTTGTCCTTGAAAAGCAGGATGTACCCTTTTTC-C
130 CTTTGTCCTTGAAAAGCAGGACGTACCCTTTTTCAC
* *
1605683 TTTGTCCTCAAAGAGAAGGACGCACTTCATTTCCTTATTTTCCCTTTTGTCCTCAAAGAGCATGA
1 TTTGTCCTCAAAGAGAAGGACGCACTTCATTTCCTTATTTCCCCTTTTGTCCTCAAAGAGCAGGA
* * * *
1605748 CGCACTTTAGTTTCCTTTTTCTTTTGTCCTCAAAGAGTAGGACGCATTTCGTTTTCCTTTTTTCT
66 CGCACTTTAGTTTCCTTTTTCTTTGGTCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCC
**
1605813 TTTGTCCTTGAAAAGCAGGACGTACTTTTTTTCAC
131 TTTGTCCTTGAAAAGCAGGACGTACCCTTTTTCAC
1605848 TTTGTCCTCAA
1 TTTGTCCTCAA
1605859 GAAACAGGAC
Statistics
Matches: 160, Mismatches: 15, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
164 37 0.23
165 123 0.77
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (165 bp):
TTTGTCCTCAAAGAGAAGGACGCACTTCATTTCCTTATTTCCCCTTTTGTCCTCAAAGAGCAGGA
CGCACTTTAGTTTCCTTTTTCTTTGGTCCTCAAAGAGCAGGACACATTTCGTTTTCCTTTTTTCC
TTTGTCCTTGAAAAGCAGGACGTACCCTTTTTCAC
Found at i:1606543 original size:20 final size:20
Alignment explanation
Indices: 1606518--1606663 Score: 141
Period size: 20 Copynumber: 6.8 Consensus size: 20
1606508 TTTTTACAAT
1606518 TTGTATCGATACATTCTTCA
1 TTGTATCGATACATTCTTCA
1606538 TTGTATCGATACATTCTGGGTTTTACCTA
1 TTGTATCGATACATTC------TT--C-A
* *
1606567 GATGTATCGATACATTATTCA
1 -TTGTATCGATACATTCTTCA
*
1606588 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTCTTCA
*
1606608 TTGTATCGATACATTGTTCA
1 TTGTATCGATACATTCTTCA
1606628 TTGTATCGATACAATT-TTCA
1 TTGTATCGATAC-ATTCTTCA
*
1606648 ATGTATCGATACATTC
1 TTGTATCGATACATTC
1606664 ATGCATTTTT
Statistics
Matches: 109, Mismatches: 5, Indels: 24
0.79 0.04 0.17
Matches are distributed among these distances:
19 3 0.03
20 81 0.74
21 4 0.04
22 1 0.01
24 2 0.02
26 2 0.02
28 1 0.01
29 1 0.01
30 14 0.13
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTCTTCA
Found at i:1606628 original size:40 final size:40
Alignment explanation
Indices: 1606568--1606662 Score: 156
Period size: 40 Copynumber: 2.4 Consensus size: 40
1606558 TTTTACCTAG
1606568 ATGTATCGATACATTATTCATTGTATCGATAC-ATTGTTCA
1 ATGTATCGATACATTATTCATTGTATCGATACAATT-TTCA
* *
1606608 TTGTATCGATACATTGTTCATTGTATCGATACAATTTTCA
1 ATGTATCGATACATTATTCATTGTATCGATACAATTTTCA
1606648 ATGTATCGATACATT
1 ATGTATCGATACATT
1606663 CATGCATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
40 48 0.94
41 3 0.06
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (40 bp):
ATGTATCGATACATTATTCATTGTATCGATACAATTTTCA
Found at i:1609105 original size:79 final size:79
Alignment explanation
Indices: 1609012--1609215 Score: 275
Period size: 79 Copynumber: 2.6 Consensus size: 79
1609002 CTTTCATGTT
** * * *
1609012 TTTATTTCCGAAACACCAATTTTTTACAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGAT
1 TTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGAT
* *
1609077 ACTCCAACCTCGGT
66 ACTCCAACCCCGGC
* * *
1609091 TTTATTT-TAAAAACACAAATTTTTCATAATCAGGGATACTCCAACCCCGTTATTTCCAAAGGGA
1 TTTATTTCT-AAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGA
1609155 TACTCCAACCCCGGC
65 TACTCCAACCCCGGC
* * *
1609170 TTTATTTCTAAAACATCAATTTTCCACAATCGGGGATACTCTAACC
1 TTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACC
1609216 TCGGTTTTAT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
79 106 0.99
80 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (79 bp):
TTTATTTCTAAAACACCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGAT
ACTCCAACCCCGGC
Found at i:1609225 original size:51 final size:51
Alignment explanation
Indices: 1609151--1609264 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
1609141 TATTTCCAAA
*
1609151 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTCCACAATCG
1 GGGATACTCTAACCCCGGCTTTATTTCTAAAACATCAATTTTCCACAATCG
* * *
1609202 GGGATACTCTAACCTCGGTTTTATTTCTAAAACATCAATTTTCCACCATCG
1 GGGATACTCTAACCCCGGCTTTATTTCTAAAACATCAATTTTCCACAATCG
1609253 GGGATACTCTAA
1 GGGATACTCTAA
1609265 TCGTGTTATT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (51 bp):
GGGATACTCTAACCCCGGCTTTATTTCTAAAACATCAATTTTCCACAATCG
Found at i:1609304 original size:130 final size:130
Alignment explanation
Indices: 1609071--1609427 Score: 472
Period size: 130 Copynumber: 2.7 Consensus size: 130
1609061 TTATTTCCGA
* * * *
1609071 GGGGATACTCCAACCTCGGTTTTATTTTAAAAACA-CAAATTTTTCATAATCAGGGATACTCCAA
1 GGGGATACTCTAACCTCGGTTTTATTTTAAAAACATC-AATTTTCCACAATCGGGGATACTCCAA
*
1609135 CCCCGTTATTTCCAAAGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTCCACAAT
65 CCCCGTTATTTCCAAAGGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTCCACAAT
1609200 C
130 C
* *
1609201 GGGGATACTCTAACCTCGGTTTTATTTCT-AAAACATCAATTTTCCACCATCGGGGATACTCTAA
1 GGGGATACTCTAACCTCGGTTTTATTT-TAAAAACATCAATTTTCCACAATCGGGGATACTCCAA
* ** * * * * *
1609265 TCGTGTTATTTCCAAGGGGATACTCCAATCCCGATTTTATTTTTAAAACATCAATTTTTCACAAT
65 CCCCGTTATTTCCAAAGGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTCCACAAT
1609330 C
130 C
* *
1609331 GGGGATACTCTAA-CTCCGATTTTATTTTCAAAACATCAA-TTTCTCACAATCGGGGATACTCCA
1 GGGGATACTCTAACCT-CGGTTTTATTTTAAAAACATCAATTTTC-CACAATCGGGGATACTCCA
*
1609394 ACCCCGTTATTT-CATCAGGGATACTCCAACCCCG
64 ACCCCGTTATTTCCA-AAGGGATACTCCAACCCCG
1609428 TTATTTCATC
Statistics
Matches: 197, Mismatches: 24, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
129 9 0.05
130 186 0.94
131 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.32
Consensus pattern (130 bp):
GGGGATACTCTAACCTCGGTTTTATTTTAAAAACATCAATTTTCCACAATCGGGGATACTCCAAC
CCCGTTATTTCCAAAGGGATACTCCAACCCCGACTTTATTTCTAAAACATCAATTTTCCACAATC
Found at i:1609356 original size:51 final size:51
Alignment explanation
Indices: 1609280--1609399 Score: 188
Period size: 51 Copynumber: 2.4 Consensus size: 51
1609270 TTATTTCCAA
* *
1609280 GGGGATACTCCAATCCCGATTTTATTTTTAAAACATCAATTTTTCACAATC
1 GGGGATACTCCAATCCCGATTTTATTTTCAAAACATCAATTTCTCACAATC
*
1609331 GGGGATACTCTAA-CTCCGATTTTATTTTCAAAACATCAATTTCTCACAATC
1 GGGGATACTCCAATC-CCGATTTTATTTTCAAAACATCAATTTCTCACAATC
*
1609382 GGGGATACTCCAACCCCG
1 GGGGATACTCCAATCCCG
1609400 TTATTTCATC
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
50 1 0.02
51 61 0.97
52 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAATCCCGATTTTATTTTCAAAACATCAATTTCTCACAATC
Found at i:1609423 original size:28 final size:28
Alignment explanation
Indices: 1609383--1609482 Score: 166
Period size: 28 Copynumber: 3.6 Consensus size: 28
1609373 CTCACAATCG
1609383 GGGATACTCCAACCCCGTTATTTCATCA
1 GGGATACTCCAACCCCGTTATTTCATCA
1609411 GGGATACTCCAACCCCGTTATTTCATCA
1 GGGATACTCCAACCCCGTTATTTCATCA
*
1609439 GGGATACTCCAACCCCGTTATTTC-TGA
1 GGGATACTCCAACCCCGTTATTTCATCA
*
1609466 GGGGATACTCCAGCCCC
1 -GGGATACTCCAACCCC
1609483 ATTGTTATCT
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
27 2 0.03
28 67 0.97
ACGTcount: A:0.23, C:0.33, G:0.18, T:0.26
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATTTCATCA
Found at i:1613362 original size:31 final size:31
Alignment explanation
Indices: 1613324--1613398 Score: 150
Period size: 31 Copynumber: 2.4 Consensus size: 31
1613314 ACATTGAATA
1613324 ATGTATCGATACATCTGGGTAAAATTCCCAG
1 ATGTATCGATACATCTGGGTAAAATTCCCAG
1613355 ATGTATCGATACATCTGGGTAAAATTCCCAG
1 ATGTATCGATACATCTGGGTAAAATTCCCAG
1613386 ATGTATCGATACA
1 ATGTATCGATACA
1613399 AAGATCATTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (31 bp):
ATGTATCGATACATCTGGGTAAAATTCCCAG
Found at i:1614449 original size:49 final size:50
Alignment explanation
Indices: 1614283--1615091 Score: 614
Period size: 52 Copynumber: 16.8 Consensus size: 50
1614273 CGAAGAATGA
* * * * * *
1614283 CAATGTGCTGATTCATGGCCAGTGACATTAGACTTGAAGAAG-AA--TGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* ** * * * *
1614330 CAATGTGCTGAGACAAGGCCAACGACATTAGG-CATAGGAATG-TTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTA--AA-GATGAAAGGTGC
* ** ** *
1614382 CAATATGCTGATTTAAGGCCAATGATTTTGGACTTAAAGGTG-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* * *
1614431 TAATGTGCTGATTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGC
* * *
1614483 TAATATGCTGATTCAAGACCAGCGATATTGGACTTAAAGATG-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* * * *
1614532 CAATGTGCTGATTCAAGGCTAGCGACATTAGACTTAAAGATGACAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGC
*
1614584 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* *
1614633 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGC
* ** **
1614685 CAATATGTTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACAAAGGCAC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG--AAAGGTGC
*
1614737 CAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* * * *
1614776 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAATAAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT--GAAAGGTGC
* * *
1614828 TAATATGCTGATTCAAGGCCAGCGATATTTGAC-T-----T-----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* * *
1614867 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGAT--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* * *
1614915 CAATATGCTGATTCAAGGCCAGTGATATTGG-GTT-----T-----GTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
* * * *
1614954 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTCAAAGA--CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
*
1615002 CAATATGCTGATTCAAGGCCAGCGATATTGGAC--ACAAGATGGTAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTA-AAGAT-G-AAAGGTGC
* *
1615053 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
1615092 GTGCCACGAA
Statistics
Matches: 615, Mismatches: 90, Indels: 109
0.76 0.11 0.13
Matches are distributed among these distances:
39 95 0.15
40 3 0.00
42 1 0.00
45 2 0.00
46 3 0.00
47 32 0.05
48 67 0.11
49 130 0.21
50 6 0.01
51 43 0.07
52 232 0.38
53 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (50 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAAGGTGC
Found at i:1614488 original size:101 final size:101
Alignment explanation
Indices: 1614283--1615091 Score: 641
Period size: 101 Copynumber: 8.4 Consensus size: 101
1614273 CGAAGAATGA
* * * * * * * **
1614283 CAATGTGCTGATTCATGGCCAGTGACATTAGACTTGAAGAAGAA--TGCCAATGTGCTGAGACAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * * ** *
1614346 GGCCAACGACATTAGG-CAT-AGGAATGTTAAAGATGC
66 GGCCAGCGACATT-GGACTTAAAG-ATGACAAAGGTGC
* ** * * *
1614382 CAATATGCTGATTTAAGGCCAATGATTTTGGACTTAAAGGTGAAGGTGCTAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
1614447 GGCCAGCAACATTGGACTTAAAGATGACAAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* *
1614483 TAATATGCTGATTCAAGACCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
1614548 GGCTAGCGACATTAGACTTAAAGATGACAAAGGCGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
1614584 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
*
1614649 GGCCAGTGACATTGGACTTAAAGATGACAAAGGTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * ** ** *
1614685 CAATATGTTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACAAAGGCACCAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATGTGCTGATT
*
1614750 CAAGGCCAGCGATATTGGAC-T-----T-------GTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * * * * * *
1614776 CAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAATAAAGGCGCTAATATGCTGATT
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG---ATGAAGGTGCCAATGTGCTGATT
**
1614841 CAAGGCCAGCG--A-T--A-TT-----TGAC--TTGTGC
63 CAAGGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * * * *
1614867 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGAT-AAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* * *
1614931 GGCCAGTGATATTGG-GTT-----T-------GTGC
66 GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
* * * * * *
1614954 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTCAAAGA-CAAGGTGCCAATATGCTGATTCAA
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
* **
1615018 GGCCAGCGATATTGGAC--ACAAGATGGTAAAGGTGC
66 GGCCAGCGACATTGGACTTA-AAGATGACAAAGGTGC
*
1615053 CAATATGCTGATTCAAGGCTAGCGATATTGGACTTAAAG
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1615092 GTGCCACGAA
Statistics
Matches: 603, Mismatches: 70, Indels: 74
0.81 0.09 0.10
Matches are distributed among these distances:
86 3 0.00
87 107 0.18
88 3 0.00
89 2 0.00
90 1 0.00
91 107 0.18
92 4 0.01
94 2 0.00
98 1 0.00
99 72 0.12
100 2 0.00
101 261 0.43
102 2 0.00
103 1 0.00
104 35 0.06
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (101 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
GGCCAGCGACATTGGACTTAAAGATGACAAAGGTGC
Found at i:1614617 original size:153 final size:149
Alignment explanation
Indices: 1614379--1615091 Score: 633
Period size: 153 Copynumber: 5.0 Consensus size: 149
1614369 ATGTTAAAGA
* ** ** * * * *
1614379 TGCCAATATGCTGATTTAAGGCCAATGATTTTGGACTTAAAGGTG--AAGGTGCTAATGTGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGCGCCAATATGCTGA
* * * *
1614442 TTCAAGGCCAGCAACATTGGACTTAAAGATGACAAAGGTGCTAATATGCTGATTCAAGACCAGCG
66 TTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCG
1614507 ATATTGGACTTAAAGATGAAGG
128 ATATTGGACTTAAAGATGAAGG
* * *
1614529 TGCCAATGTGCTGATTCAAGGCTAGCGACATTAGACTTAAAGATGACAAAGGCGCCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAGGCGCCAATATGCTG
* * *
1614594 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGTGAC
65 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
1614659 ATTGGACTTAAAGATGACAAAGG
130 ATTGGACTTAAAGATG---AAGG
* ** *
1614682 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACAAAGGCACCAATATGCTG
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAC-AAGGCGCCAATATGCTG
* * *
1614747 ATTCAAGGCCAGCGATATTGGAC-T-----T----GTGCCAATGTGCTGATTCAAGGCTAGCGAC
65 ATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGAT
*
1614802 ATTGGACTTAAAGATAATAAAGG
130 ATTGGACTTAAAG---ATGAAGG
* * * * *
1614825 CGCTAATATGCTGATTCAAGGCCAGCGATATTTGACTT---G-T--------GCCAATGTGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGCGCCAATATGCTGA
* * * *
1614878 TTCAAGGCCAGCGACATTGGTCTTAGAGAT-AAGGTGCCAATATGCTGATTCAAGGCCAGTGATA
66 TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
*
1614942 TTGG-GTT-----T----G
131 TTGGACTTAAAGATGAAGG
* * * *
1614951 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC-TCAA-A-GACAAGGTGCCAATATGCTGA
1 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGCGCCAATATGCTGA
*
1615013 TTCAAGGCCAGCGATATTGGAC--ACAAGATGGTAAAGGTGCCAATATGCTGATTCAAGGCTAGC
66 TTCAAGGCCAGCGATATTGGACTTA-AAGAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGC
1615076 GATATTGGACTTAAAG
127 GATATTGGACTTAAAG
1615092 GTGCCACGAA
Statistics
Matches: 465, Mismatches: 58, Indels: 87
0.76 0.10 0.14
Matches are distributed among these distances:
125 1 0.00
126 31 0.07
130 32 0.07
131 1 0.00
133 1 0.00
134 4 0.01
135 32 0.07
136 1 0.00
138 38 0.08
139 34 0.07
140 1 0.00
143 76 0.16
146 2 0.00
147 1 0.00
150 80 0.17
152 1 0.00
153 129 0.28
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.26
Consensus pattern (149 bp):
TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAGGCGCCAATATGCTGA
TTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA
TTGGACTTAAAGATGAAGG
Found at i:1614790 original size:39 final size:39
Alignment explanation
Indices: 1614736--1614810 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
1614726 GACAAAGGCA
*
1614736 CCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTG
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTGTG
* *
1614775 CCAATGTGCTGATTCAAGGCTAGCGACATTGGACTT
1 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
1614811 AAAGATAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.28
Consensus pattern (39 bp):
CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTGTG
Found at i:1614836 original size:91 final size:90
Alignment explanation
Indices: 1614681--1615034 Score: 495
Period size: 91 Copynumber: 4.0 Consensus size: 90
1614671 GATGACAAAG
* * * * *
1614681 GTGCCAATATGTTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACAAAGGCACCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-GATAAAGGCGCCAATATGCT
1614746 GATTCAAGGCCAGCGATATTGGACTT
65 GATTCAAGGCCAGCGATATTGGACTT
* * * *
1614772 GTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTTAAAGATAATAAAGGCGCTAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-GATAAAGGCGCCAATATGCT
*
1614837 GATTCAAGGCCAGCGATATTTGACTT
65 GATTCAAGGCCAGCGATATTGGACTT
*
1614863 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGAGAT-AAGGTGCCAATATGCTG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAGATAAAGGCGCCAATATGCTG
* **
1614925 ATTCAAGGCCAGTGATATTGGGTTT
66 ATTCAAGGCCAGCGATATTGGACTT
* * *
1614950 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTC-TCAA-AGA-CAAGGTGCCAATATGCTG
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAGATAAAGGCGCCAATATGCTG
1615012 ATTCAAGGCCAGCGATATTGGAC
66 ATTCAAGGCCAGCGATATTGGAC
1615035 ACAAGATGGT
Statistics
Matches: 238, Mismatches: 22, Indels: 10
0.88 0.08 0.04
Matches are distributed among these distances:
86 1 0.00
87 113 0.47
88 3 0.01
89 3 0.01
91 118 0.50
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (90 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAGATAAAGGCGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTT
Found at i:1614887 original size:39 final size:39
Alignment explanation
Indices: 1614833--1614978 Score: 139
Period size: 39 Copynumber: 3.5 Consensus size: 39
1614823 GGCGCTAATA
*
1614833 TGCTGATTCAAGGCCAGCGATATTTGACTTGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTTGAATTGTGCCAATG
* * *
1614872 TGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCG--A-T-AT-TT-GA-AT--TGTGCCAATG
* * **
1614920 TGCTGATTCAAGGCCAGTGATATTGGGTTTGTGCCAATG
1 TGCTGATTCAAGGCCAGCGATATTTGAATTGTGCCAATG
1614959 TGCTGATTCAAGGCCAGCGA
1 TGCTGATTCAAGGCCAGCGA
1614979 CATTGGTCTC
Statistics
Matches: 86, Mismatches: 12, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
39 46 0.53
41 2 0.02
42 2 0.02
43 2 0.02
44 3 0.03
45 3 0.03
46 2 0.02
48 26 0.30
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (39 bp):
TGCTGATTCAAGGCCAGCGATATTTGAATTGTGCCAATG
Found at i:1614934 original size:48 final size:48
Alignment explanation
Indices: 1614863--1615088 Score: 227
Period size: 48 Copynumber: 4.8 Consensus size: 48
1614853 TATTTGACTT
* * *
1614863 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATAAG
* *
1614911 GTGCCAATATGCTGATTCAAGGCCAGTGATATTGG-GTT-----T---
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATAAG
* * * * * *
1614950 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTCAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATAAG
** *
1614998 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACACAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-TTAGA-GAT-AAG
*
1615049 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1615089 AAGGTGCCAC
Statistics
Matches: 145, Mismatches: 21, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
39 32 0.22
40 1 0.01
42 1 0.01
47 2 0.01
48 66 0.46
49 2 0.01
50 2 0.01
51 39 0.27
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATAAG
Found at i:1615070 original size:51 final size:48
Alignment explanation
Indices: 1614950--1615085 Score: 184
Period size: 51 Copynumber: 2.8 Consensus size: 48
1614940 TATTGGGTTT
* * * *
1614950 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTCAAAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACACAAAGACAAG
1614998 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACACAAGATGGTA-AAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACACAA-A--G-ACAAG
*
1615049 GTGCCAATATGCTGATTCAAGGCTAGCGATATTGGAC
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1615086 TTAAAGGTGC
Statistics
Matches: 79, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
48 37 0.47
49 1 0.01
51 40 0.51
52 1 0.01
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACACAAAGACAAG
Found at i:1615203 original size:32 final size:32
Alignment explanation
Indices: 1615092--1615560 Score: 370
Period size: 34 Copynumber: 14.8 Consensus size: 32
1615082 GGACTTAAAG
* * *
1615092 GTGCCACGAAATTGTGGACTTACAA-GAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * ** *
1615123 GGGATGCCACAGAGGTGTGGGTTTAAAAGGGAAAAGG
1 --G-TGCCACGGAGTTGTGGACTTAAAA-GGAAAA-A
* * *
1615160 GTGCCACGGAGTCGTGGACTTAAAAAGAAAAT
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
1615192 GTGCCATGGAGTTGTGGACTTAAAAGGAACAAC
1 GTGCCACGGAGTTGTGGACTTAAAAGGAA-AAA
*
1615225 GTGCCA-TGATGTTGTGGACTTAAAAGGAAAAA
1 GTGCCACGGA-GTTGTGGACTTAAAAGGAAAAA
*
1615257 GATGCCACGGAGTTATGGACTTAAAAGG-----
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
1615285 GTGCCGCAGAGTTGTGGACTTAAAAGGAACAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAA-AA-A
* *
1615319 GTGCCACAGAGTTGTGGACTTAAAATG-----
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
1615346 GTGCCACGGAGTTATGGACTTAAAAGGAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
1615378 GATACCACTGAGTTGTGGACTTAAAA-G----A
1 G-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
1615406 GTGCCACAGAGTTATGGACTTAAAAGGAAACA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
1615438 GATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 G-TGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
*
1615472 TGTGCCATGGAGTTGTGGACTTAAAAGG-----
1 -GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* *
1615500 GTGCCACGGAGTTATGGACTTAAAAGAAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAG-GAAAA-A
1615534 GTGCCACGGAGTTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
1615561 GTGCCACGGA
Statistics
Matches: 350, Mismatches: 50, Indels: 72
0.74 0.11 0.15
Matches are distributed among these distances:
27 92 0.26
28 4 0.01
32 35 0.10
33 97 0.28
34 115 0.33
35 2 0.01
36 5 0.01
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (32 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAA
Found at i:1615239 original size:33 final size:31
Alignment explanation
Indices: 1615145--1615560 Score: 244
Period size: 33 Copynumber: 13.3 Consensus size: 31
1615135 AGGTGTGGGT
* * *
1615145 TTAAAAGGGAAAAGGGTGCCACGGAGTCGTGGAC
1 TTAAAA-GGAAAA-AGTGCCA-TGAGTTGTGGAC
* *
1615179 TTAAAAAGAAAATGTGCCATGGAGTTGTGGAC
1 TTAAAAGGAAAAAGTGCCAT-GAGTTGTGGAC
*
1615211 TTAAAAGGAACAACGTGCCATGATGTTGTGGAC
1 TTAAAAGGAA-AAAGTGCCATGA-GTTGTGGAC
* *
1615244 TTAAAAGGAAAAAGATGCCACGGAGTTATGGAC
1 TTAAAAGGAAAAAG-TGCCA-TGAGTTGTGGAC
1615277 TTAAAAGG-----GTGCCGCA-GAGTTGTGGAC
1 TTAAAAGGAAAAAGTG-C-CATGAGTTGTGGAC
*
1615304 TTAAAAGGAACAAGAGTGCCACAGAGTTGTGGAC
1 TTAAAAGGAA-AA-AGTGCCA-TGAGTTGTGGAC
* * *
1615338 TTAAAATG-----GTGCCACGGAGTTATGGAC
1 TTAAAAGGAAAAAGTGCCA-TGAGTTGTGGAC
*
1615365 TTAAAAGGAAAAAGATACCACTGAGTTGTGGAC
1 TTAAAAGGAAAAAG-TGCCA-TGAGTTGTGGAC
* *
1615398 TTAAAA-G----AGTGCCACAGAGTTATGGAC
1 TTAAAAGGAAAAAGTGCCA-TGAGTTGTGGAC
* * *
1615425 TTAAAAGGAAACAGATGCCACGGAGTTGTGGGC
1 TTAAAAGGAAAAAG-TGCCA-TGAGTTGTGGAC
*
1615458 TTTAAAAAGAAAAATGTGCCATGGAGTTGTGGAC
1 -TTAAAAGGAAAAA-GTGCCAT-GAGTTGTGGAC
* *
1615492 TTAAAAGG-----GTGCCACGGAGTTATGGAC
1 TTAAAAGGAAAAAGTGCCA-TGAGTTGTGGAC
* *
1615519 TTAAAAGAAAAAAGAGTGCCACGGAGTTGTGGAC
1 TTAAAAG-GAAAA-AGTGCCA-TGAGTTGTGGAC
1615553 TTAAAAGG
1 TTAAAAGG
1615561 GTGCCACGGA
Statistics
Matches: 310, Mismatches: 33, Indels: 79
0.73 0.08 0.19
Matches are distributed among these distances:
27 88 0.28
28 5 0.02
29 2 0.01
32 36 0.12
33 98 0.32
34 80 0.26
35 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (31 bp):
TTAAAAGGAAAAAGTGCCATGAGTTGTGGAC
Found at i:1615282 original size:27 final size:27
Alignment explanation
Indices: 1615252--1615581 Score: 149
Period size: 27 Copynumber: 11.0 Consensus size: 27
1615242 ACTTAAAAGG
*
1615252 AAAAAGATGCCACGGAGTTATGGACTT
1 AAAAAGATGCCACGGAGTTGTGGACTT
* * * *
1615279 AAAAGGGTGCCGCAGAGTTGTGGACTT
1 AAAAAGATGCCACGGAGTTGTGGACTT
*
1615306 AAAAGGAACAAGAGTGCCACAGAGTTGTGGACTT
1 ---A--AA-AAGA-TGCCACGGAGTTGTGGACTT
* * *
1615340 AAAATGGTGCCACGGAGTTATGGACTT
1 AAAAAGATGCCACGGAGTTGTGGACTT
* *
1615367 AAAAGGAAAAAGATACCACTGAGTTGTGGACTT
1 ------AAAAAGATGCCACGGAGTTGTGGACTT
* *
1615400 -AAAAGAGTGCCACAGAGTTATGGACTT
1 AAAAAGA-TGCCACGGAGTTGTGGACTT
*
1615427 AAAAGGAAACAGATGCCACGGAGTTGTGGGCTTT
1 ---A--AAA-AGATGCCACGGAGTTGTGGAC-TT
*
1615461 AAAAAGAAAAATGTGCCATGGAGTTGTGGACTT
1 AAAAAG----A--TGCCACGGAGTTGTGGACTT
* * *
1615494 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAAGATGCCACGGAGTTGTGGACTT
1615521 AAAAGAAAAAAGAGTGCCACGGAGTTGTGGACTT
1 ------AAAAAGA-TGCCACGGAGTTGTGGACTT
* * * *
1615555 AAAAGGGTGCCACGGAATTGTAGACTT
1 AAAAAGATGCCACGGAGTTGTGGACTT
1615582 TGAGAAGAGA
Statistics
Matches: 232, Mismatches: 36, Indels: 70
0.69 0.11 0.21
Matches are distributed among these distances:
26 6 0.03
27 93 0.40
28 9 0.04
29 5 0.02
30 1 0.00
31 2 0.01
32 3 0.01
33 54 0.23
34 59 0.25
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (27 bp):
AAAAAGATGCCACGGAGTTGTGGACTT
Found at i:1615306 original size:60 final size:60
Alignment explanation
Indices: 1615154--1615464 Score: 356
Period size: 60 Copynumber: 5.1 Consensus size: 60
1615144 TTTAAAAGGG
* * * * *
1615154 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAAATG-TGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* *
1615213 AAAAGGAACAACGTGCCA-TGATGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGAC
1 AAAAGG------GTGCCACAGA-GTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGAC
1615277 TT
59 TT
* * *
1615279 AAAAGGGTGCCGCAGAGTTGTGGACTTAAAAGGAACAAGAGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACGGAGTTGTGGACTT
* * * * *
1615340 AAAATGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATACCACTGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
* * * *
1615400 AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGGCTTT
1 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TT
1615461 AAAA
1 AAAA
1615465 AGAAAAATGT
Statistics
Matches: 216, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
59 6 0.03
60 97 0.45
61 61 0.28
64 2 0.01
65 26 0.12
66 24 0.11
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTGTGGACTT
Found at i:1615403 original size:154 final size:149
Alignment explanation
Indices: 1615119--1615567 Score: 487
Period size: 154 Copynumber: 2.9 Consensus size: 149
1615109 ACTTACAAGA
* * * *
1615119 AAAAGGGATGCCACAGAGGTGTGGGTTTAAAAGGGAAAAGGGTGCCACGGAGTCGTGGACTTAAA
1 AAAAGGGATGCCACAGAGTTGTGGGCTTAAAA-GGAAAAGAGTGCCACGGAGTTGTGGACTTAAA
* * *
1615184 AAGAAAATGTGCCATGGAGTTGTGGACTTAAAAGGAACAACG-TGCCA-TGATGTTGTGGACTTA
65 AAG-----GTGCCACGGAGTTATGGACTTAAAAGGAA-AAAGATGCCACTGA-GTTGTGGACTTA
*
1615247 AAAGGAAAAAGATGCCACGGAGTTATGGACTT
123 AAAGG----AG-TGCCACAGAGTTATGGACTT
* * *
1615279 AAAAGGG-TGCCGCAGAGTTGTGGACTTAAAAGGAACAAGAGTGCCACAGAGTTGTGGACTTAAA
1 AAAAGGGATGCCACAGAGTTGTGGGCTTAAAAGGAA-AAGAGTGCCACGGAGTTGTGGACTTAAA
* *
1615343 ATGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATACCACTGAGTTGTGGACTTAAAA-GAG
65 AAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACTGAGTTGTGGACTTAAAAGGAG
1615407 TGCCACAGAGTTATGGACTT
130 TGCCACAGAGTTATGGACTT
* * *
1615427 AAAAGGAAACAGATGCCACGGAGTTGTGGGCTTTAAAAAGAAAA-ATGTGCCATGGAGTTGTGGA
1 AAAAGG-----GATGCCACAGAGTTGTGGGC-TTAAAAGGAAAAGA-GTGCCACGGAGTTGTGGA
* * *
1615491 CTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGAAAAAAGAGTGCCACGGAGTTGTGGACTTA
59 CTTAAAAAGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGA-TGCCACTGAGTTGTGGACTTA
1615556 AAAGG-GTGCCAC
123 AAAGGAGTGCCAC
1615568 GGAATTGTAG
Statistics
Matches: 253, Mismatches: 23, Indels: 31
0.82 0.07 0.10
Matches are distributed among these distances:
148 25 0.10
149 2 0.01
153 6 0.02
154 120 0.47
155 41 0.16
156 1 0.00
158 4 0.02
159 47 0.19
160 7 0.03
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (149 bp):
AAAAGGGATGCCACAGAGTTGTGGGCTTAAAAGGAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
AGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATGCCACTGAGTTGTGGACTTAAAAGGAGT
GCCACAGAGTTATGGACTT
Found at i:1615470 original size:94 final size:92
Alignment explanation
Indices: 1615315--1615558 Score: 304
Period size: 94 Copynumber: 2.7 Consensus size: 92
1615305 TAAAAGGAAC
* * * *
1615315 AAGAGTGCCACAGAGTTGTGGACTTAAAATG----G-TGCCACGGAGTTATGGACTTAAAAGGAA
1 AAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAA
1615375 AAA-GATACCACT-GAGTTGTGGACTTAA
66 AAATG-TACCA-TGGAGTTGTGGACTTAA
*
1615402 AAGAGTGCCACAGAGTTATGGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAGAGTGCCACAGAGTTATGGACTTAAAAGGAAA-AGATGCCACGGAGTTGTGGAC-TTAAAAAG
*
1615467 AAAAATGTGCCATGGAGTTGTGGACTTAA
64 AAAAATGTACCATGGAGTTGTGGACTTAA
* * *
1615496 AAGGGTGCCACGGAGTTATGGACTTAAAAGAAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
1 AAGAGTGCCACAGAGTTATGGACTTAAAAG-GAAAAGA-TGCCACGGAGTTGTGGACTTAAAA
1615559 GGGTGCCACG
Statistics
Matches: 136, Mismatches: 10, Indels: 15
0.84 0.06 0.09
Matches are distributed among these distances:
87 29 0.21
92 1 0.01
93 17 0.12
94 68 0.50
95 21 0.15
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.22
Consensus pattern (92 bp):
AAGAGTGCCACAGAGTTATGGACTTAAAAGGAAAAGATGCCACGGAGTTGTGGACTTAAAAAGAA
AAATGTACCATGGAGTTGTGGACTTAA
Found at i:1615505 original size:61 final size:61
Alignment explanation
Indices: 1615400--1615581 Score: 206
Period size: 61 Copynumber: 2.9 Consensus size: 61
1615390 TTGTGGACTT
* * *
1615400 AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGGCTTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGG-----G-TGCCACGGAGTTGTGGAC-TTAAAA
1615465 -AGA
59 GA-A
* * *
1615468 AAAA-TGTGCCATGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGAA
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAA
* *
1615528 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTAGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1615582 TGAGAAGAGA
Statistics
Matches: 101, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
60 11 0.11
61 61 0.60
62 1 0.01
67 24 0.24
68 4 0.04
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (61 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAA
Found at i:1615512 original size:121 final size:120
Alignment explanation
Indices: 1615154--1615526 Score: 370
Period size: 121 Copynumber: 3.0 Consensus size: 120
1615144 TTTAAAAGGG
* * * * *
1615154 AAAAGGGTGCCACGGAGTCGTGGACTTAAAAAGAAA-ATG-TGCCATGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAACA-GATGCCACGGAGTTGTGGACTTAAAA
*
1615217 GGAACAACGTGCCAT-GATGTTGTGGACTTAAAAGGAAAAAGATGCCACGGAGTTATGGACTT
65 AGAA-AA-GTGCCATGGA-GTTGTGGACTTAAAAGG----AGATGCCACGGAGTTATGGACTT
* * *
1615279 AAAAGGGTGCCGCAGAGTTGTGGACTTAAAAGG-AACAAGAGTGCCACAGAGTTGTGGACTTAAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAAC-AGA-TGCCACGGAGTTGTGGACTTAAA
* * * * * *
1615343 ATG----GTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATACCACTGAGTTGTGGACTT
64 AAGAAAAGTGCCATGGAGTTGTGGACTTAAAAGG----AGATGCCACGGAGTTATGGACTT
* *
1615400 AAAAGAGTGCCACAGAGTTATGGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGGCTTTAAAA
1 AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGAC-TTAAAA
1615465 AGAAAAATGTGCCATGGAGTTGTGGACTTAAAAGG-G-TGCCACGGAGTTATGGACTT
65 AG-AAAA-GTGCCATGGAGTTGTGGACTTAAAAGGAGATGCCACGGAGTTATGGACTT
1615521 AAAAGA
1 AAAAGA
1615527 AAAAAGAGTG
Statistics
Matches: 212, Mismatches: 23, Indels: 30
0.80 0.09 0.11
Matches are distributed among these distances:
120 16 0.08
121 109 0.51
122 6 0.03
124 2 0.01
125 30 0.14
126 1 0.00
127 48 0.23
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.21
Consensus pattern (120 bp):
AAAAGAGTGCCACAGAGTTGTGGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGACTTAAAAA
GAAAAGTGCCATGGAGTTGTGGACTTAAAAGGAGATGCCACGGAGTTATGGACTT
Found at i:1615659 original size:30 final size:30
Alignment explanation
Indices: 1615577--1616304 Score: 632
Period size: 30 Copynumber: 23.5 Consensus size: 30
1615567 CGGAATTGTA
* * **
1615577 GACTTTGAGAAGAGATTGCTACTAAGTTATG
1 GACTTTGAGAAGAGA-TGCCACTGAGTCGTG
* *
1615608 GACTTTGAGAAAAGGGATGCCACTGAGTTGTG
1 GACTTTGAG--AAGAGATGCCACTGAGTCGTG
1615640 GACTTTGAGAAGAGATGCCACTGAGTCGTG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* *
1615670 AACTTTGAAGAAAAAAGATGCCACTGAGTCGTG
1 GACTTTG-AG--AAGAGATGCCACTGAGTCGTG
* * *
1615703 GACTTGGAAGAAAAAGATGCCA-TAAGTCGTG
1 GACTTTG-AG-AAGAGATGCCACTGAGTCGTG
* * *
1615734 GACTTAGAAAAGAGATGCCACTGAGTTGTG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* * *
1615764 GACTTTAAAGAAAAGATGTCACTGAGTCGTG
1 GACTTT-GAGAAGAGATGCCACTGAGTCGTG
* *
1615795 GACTTTGGGAAGAGATGCCACTGAGTTGTG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* * *
1615825 GATTTTGAAGAAAAGATGCCACTGAGTCATG
1 GACTTTG-AGAAGAGATGCCACTGAGTCGTG
*
1615856 GACTTTGAAGAAAAAAGATGCCACTGAGTCGTG
1 GACTTTG-AG--AAGAGATGCCACTGAGTCGTG
* * * *
1615889 GACTTGGAAGAAAAGGATGCCACTGACTCATG
1 GACTTTG-AGAAGA-GATGCCACTGAGTCGTG
* * * *
1615921 GCCTTAGAAAAGAGATGCCACTGAGTTGTG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
*
1615951 GACTTTGAAGAAAAGATGCCACTGAGTCGTG
1 GACTTTG-AGAAGAGATGCCACTGAGTCGTG
* * *
1615982 GACTTTGGGAAGAGATGCCATTGAGTCTTG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* * *
1616012 GATTTTGAAGAAAAGATGCCACTGAGTCATG
1 GACTTTG-AGAAGAGATGCCACTGAGTCGTG
* *
1616043 GACTTTGGGAAGAGATGCCACTGAGTCATG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* * * * *
1616073 GATTTTGAAAAAAAAAATGCCACTAAGTCGTG
1 GACTTTG--AGAAGAGATGCCACTGAGTCGTG
* * *
1616105 GACTTTGGGAAGAGATGCCACTAAGTCATG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* * *
1616135 GATTTTGAAAAAAAGATGCCACTGAGTCGTG
1 GACTTTG-AGAAGAGATGCCACTGAGTCGTG
*
1616166 GACTTT-AGGAAGAGATGCCACTGAGTCATG
1 GACTTTGA-GAAGAGATGCCACTGAGTCGTG
* * * * *
1616196 GACTTAGAAGGAAAAGAGTGCCACGGATTTGTG
1 GACTTTG-A-GAAGAGA-TGCCACTGAGTCGTG
* * * * *
1616229 GACTTAGATAAGAGATGTCACTAAGTTGTG
1 GACTTTGAGAAGAGATGCCACTGAGTCGTG
* * *
1616259 GACTTTGAAGAAAATATGCCACTGAGTTGTG
1 GACTTTG-AGAAGAGATGCCACTGAGTCGTG
1616290 GACTTTGAGAAGAGA
1 GACTTTGAGAAGAGA
1616305 GATTTGAAGA
Statistics
Matches: 572, Mismatches: 104, Indels: 43
0.80 0.14 0.06
Matches are distributed among these distances:
29 11 0.02
30 205 0.36
31 191 0.33
32 85 0.15
33 80 0.14
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (30 bp):
GACTTTGAGAAGAGATGCCACTGAGTCGTG
Found at i:1615685 original size:155 final size:151
Alignment explanation
Indices: 1615523--1616170 Score: 462
Period size: 154 Copynumber: 4.2 Consensus size: 151
1615513 ATGGACTTAA
* * * * * *
1615523 AAGAAAAAAGAGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAA-TTGTAGACTTTGAG
1 AAGAAAAAAGA-TGCCACGGAGTCGTGGACTTGAAAAAGATGCCA--GAAGTCGTAGACTTAGAA
* * *
1615586 AAGAGATTGCTACTAAGTTATGGACTTT-GAGAAAAGGGATGCCACTGAGTTGTGGACTTTGAGA
63 AAGAGA-TGCCACTAAGTTATGGACTTTAAAGAAAA--GATGCCACTGAGTCGTGGACTTTGAGA
1615650 AGAGATGCCACTGAGTCGTGAACTTTG
125 AGAGATGCCACTGAGTCGTGAACTTTG
* * *
1615677 AAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCATAAGTCGTGGACTTAGA
1 AAGAAAAAAGATGCCACGGAGTCGTGGACTT----GAAAAAGATGCCAGAAGTCGTAGACTTAGA
* * * *
1615742 AAAGAGATGCCACTGAGTTGTGGACTTTAAAGAAAAGATGTCACTGAGTCGTGGACTTTGGGAAG
62 AAAGAGATGCCACTAAGTTATGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAG
* * *
1615807 AGATGCCACTGAGTTGTGGATTTTG
127 AGATGCCACTGAGTCGTGAACTTTG
* * *
1615832 AAG--AAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTG-AGTCGTGGACTT
1 AAGAAAAAAGATGCCACGGAGTCGTGGAC-TT---G-AAAAAGATGCCA--GAAGTCGTAGACTT
* * * * * *
1615894 GGAAGAAAAG-GATGCCACTGACTCATGG-CCTTAGAA-AAGAGATGCCACTGAGTTGTGGACTT
59 ---AGAAAAGAGATGCCACTAAGTTATGGACTTTA-AAGAAAAGATGCCACTGAGTCGTGGACTT
* *
1615956 TGAAGAAAAGATGCCACTGAGTCGTGGACTTTG
120 TG-AGAAGAGATGCCACTGAGTCGTGAACTTTG
* * ** * * * * *
1615989 --G-GAAGAGATGCCATTGAGTCTTGGATTTTGAAGAAAAGATGCCACTG-AGTCATGGACTTTG
1 AAGAAAAAAGATGCCACGGAGTCGTGGA-CTTG-A-AAAAGATGCCA--GAAGTCGTAGACTTAG
** * * * * * * *
1616050 GGAAGAGATGCCACTGAGTCATGGATTTTGAAAAAAAAAATGCCACTAAGTCGTGGACTTTGGGA
61 AAAAGAGATGCCACTAAGTTATGGACTTT-AAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGA
* * * *
1616115 AGAGATGCCACTAAGTCATGGATTTTG
125 AGAGATGCCACTGAGTCGTGAACTTTG
*
1616142 -A-AAAAAAGATGCCACTGAGTCGTGGACTT
1 AAGAAAAAAGATGCCACGGAGTCGTGGACTT
1616171 TAGGAAGAGA
Statistics
Matches: 412, Mismatches: 57, Indels: 51
0.79 0.11 0.10
Matches are distributed among these distances:
151 4 0.01
152 17 0.04
153 79 0.19
154 95 0.23
155 64 0.16
156 71 0.17
157 65 0.16
158 17 0.04
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (151 bp):
AAGAAAAAAGATGCCACGGAGTCGTGGACTTGAAAAAGATGCCAGAAGTCGTAGACTTAGAAAAG
AGATGCCACTAAGTTATGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGAGAAGAGAT
GCCACTGAGTCGTGAACTTTG
Found at i:1615691 original size:248 final size:247
Alignment explanation
Indices: 1615359--1616304 Score: 649
Period size: 248 Copynumber: 3.8 Consensus size: 247
1615349 CCACGGAGTT
** * * * * *
1615359 ATGGACTTAAAAGGAAAAAGATACCACTGAGTTGTGGAC-TT-AAAAGAG-TGCCACAGAGTTAT
1 ATGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCAT
* * * * * *
1615421 GGACTTAAAAGGAAACAGATGCCACGGAGTTGTGGGCTTTAAAAAGAAAAATG-TGCCATGGAGT
66 -GACTT-TAAGAAAAAAGATGCCACTGAGTTGTGGACTTT-AAAAGAAAAA-GATGCCAT-AAGT
* * *
1615485 TGTGGACTT-AAAAG-GGTGCCACGGAGTTATGGACTTAAAAGAAAAAAGAGTGCCACGGAGTTG
126 CGTGGACTTAAAAAGAGATGCCACGGAGTTATGGACTTAAAAG--AAAAGA-TGCCACGGAGTCG
* * * *
1615548 TGGAC-TT-AAAAG-GGTGCCACGGAATTGTAGACTTTG-AGAAGAGATTGCTACTAAGTT
188 TGGACTTTGAAAAGAGATGCCACGGAATTGTAGACTTTGAAGAAAAGA-TGCCACTAAGTC
** *
1615605 ATGGACTTTG-AGAAAAGGGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCGT
1 ATGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCAT
* **
1615669 GAACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGAC-TTGGAAGAAAAAGATGCCATAAGTCGT
66 G-ACTTT-AAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAAGTCGT
* * * * *
1615733 GGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTAAAGAAAAGATGTCACTGAGTCGTGGAC
129 GGACTTA-AAAAGAGATGCCACGGAGTTATGGACTTAAAAGAAAAGATGCCACGGAGTCGTGGAC
** * * * * *
1615798 TTTGGGAAGAGATGCCACTGAGTTGTGGATTTTGAAGAAAAGATGCCACTGAGTC
193 TTTGAAAAGAGATGCCACGGAATTGTAGACTTTGAAGAAAAGATGCCACTAAGTC
* * * *
1615853 ATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTGACTC
1 ATGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGGACTTTG-AGAAGA-GATGCCACTGAGTC
* * * * *
1615918 ATGGCCTT-AGAAAAGAGATGCCACTGAGTTGTGGACTTT-GAAG-AAAAGATGCCACTGAGTCG
64 ATGACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGAAAAAGATGCCA-TAAGTCG
*** ** * ** * *
1615980 TGGACTTTGGGAAGAGATGCCATTGAGTCT-TGGATTTTGAAGAAAAGATGCCACTGAGTCATGG
128 TGGAC-TTAAAAAGAGATGCCACGGAGT-TATGGACTTAAAAGAAAAGATGCCACGGAGTCGTGG
** * * ** * * * *
1616044 ACTTTGGGAAGAGATGCCACTGAGTCATGGATTTTGAAAAAAAAAATGCCACTAAGTC
191 ACTTTGAAAAGAGATGCCACGGAATTGTAGACTTTG-AAGAAAAGATGCCACTAAGTC
* * * * ** * * * *
1616102 GTGGACTTTG--G-GAAGAGATGCCACTAAGTCATGGATTTTGAAAAAAAGATGCCACTGAGTCG
1 ATGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGGACTTTG-AGAAGAGATGCCACTGAGTCA
* * ** * * ** * *
1616164 TGGACTTT-AG-GAAGAGATGCCACTGAGTCATGGAC-TTAGAAGGAAAAGAGTGCCACGGATTT
65 T-GACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGAAAAAGA-TGCCA-TAAGTC
* * ** * ** * * *
1616226 GTGGACTTAGATAAGAGATGTCACTAAGTTGTGGACTTTGAAGAAAATATGCCACTGAGTTGTGG
127 GTGGACTTA-AAAAGAGATGCCACGGAGTTATGGACTTAAAAGAAAAGATGCCACGGAGTCGTGG
*
1616291 ACTTTGAGAAGAGA
191 ACTTTGAAAAGAGA
1616305 GATTTGAAGA
Statistics
Matches: 581, Mismatches: 92, Indels: 53
0.80 0.13 0.07
Matches are distributed among these distances:
244 2 0.00
245 91 0.16
246 76 0.13
247 101 0.17
248 221 0.38
249 67 0.12
250 8 0.01
251 15 0.03
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.24
Consensus pattern (247 bp):
ATGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCAT
GACTTTAAGAAAAAAGATGCCACTGAGTTGTGGACTTTAAAAGAAAAAGATGCCATAAGTCGTGG
ACTTAAAAAGAGATGCCACGGAGTTATGGACTTAAAAGAAAAGATGCCACGGAGTCGTGGACTTT
GAAAAGAGATGCCACGGAATTGTAGACTTTGAAGAAAAGATGCCACTAAGTC
Found at i:1615754 original size:61 final size:61
Alignment explanation
Indices: 1615528--1616304 Score: 740
Period size: 61 Copynumber: 12.6 Consensus size: 61
1615518 CTTAAAAGAA
* * * * * * *
1615528 AAAAGAGTGCCACGGAGTTGTGGACTTA-A-AAG-GGTGCCACGGAATTGTAGACTTTG-AG
1 AAAAGA-TGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * ** * * *
1615586 AAGAGATTGCTACTAAGTTATGGACTTTGAGAAAAGGGATGCCACTGAGTTGTGGACTTTG-AG
1 AAAAGA-TGCCACTGAGTCGTGGAC-TT-AGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
1615649 AAGAGATGCCACTGAGTCGTGAACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGAC-TT--AGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
1615713 AAAAAGATGCCA-TAAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTAAAG
1 -AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
1615774 AAAAGATGTCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTTGTGGATTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
1615835 AAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGAC-TT--AGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
1615899 AAAAGGATGCCACTGACTCATGGCCTTAGAAAAGAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
1615961 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCATTGAGTCTTGGATTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * * *
1616022 AAAAGATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCATGGATTTTGAAAA
1 AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTG-AAG
* * * * * * * *
1616084 AAAAAATGCCACTAAGTCGTGGACTTTGGGAAGAGATGCCACTAAGTCATGGATTTTGAAA
1 AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* *
1616145 AAAAGATGCCACTGAGTCGTGGACTTTAG-GAAGAGATGCCACTGAGTCATGGACTTAGAAGG
1 AAAAGATGCCACTGAGTCGTGGAC-TTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAA-G
* * * * * * *
1616207 AAAAGAGTGCCACGGATTTGTGGACTTAGATAAGAGATGTCACTAAGTTGTGGACTTTGAAG
1 AAAAGA-TGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
1616269 AAAATATGCCACTGAGTTGTGGACTTTGAGAAGAGA
1 AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGA
1616305 GATTTGAAGA
Statistics
Matches: 614, Mismatches: 87, Indels: 33
0.84 0.12 0.04
Matches are distributed among these distances:
58 19 0.03
59 2 0.00
60 11 0.02
61 278 0.45
62 132 0.21
63 98 0.16
64 46 0.07
65 28 0.05
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (61 bp):
AAAAGATGCCACTGAGTCGTGGACTTAGAGAAGAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:1615799 original size:187 final size:187
Alignment explanation
Indices: 1615623--1616304 Score: 837
Period size: 187 Copynumber: 3.7 Consensus size: 187
1615613 TGAGAAAAGG
* * *
1615623 GATGCCACTGAGTTGTGGACTTTG-AGAAGAGATGCCACTGAGTCGTGAACTTTGAAGAAAAAAG
1 GATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAG
1615687 ATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCA-TAAGTCGTGGACTTAGAAAAGAGATG
66 ATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATG
*
1615751 CCACTGAGTTGTGGACTTTAAAGAAAAGATGTCACTGAGTCGTGGACTTTGGGAAGA
131 CCACTGAGTTGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGA
*
1615808 GATGCCACTGAGTTGTGGATTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAG
1 GATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAG
* * * * *
1615873 ATGCCACTGAGTCGTGGACTTGGAAGAAAAGGATGCCACTGACTCATGGCCTTAGAAAAGAGATG
66 ATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATG
*
1615938 CCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGA
131 CCACTGAGTTGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGA
* * * *
1615995 GATGCCATTGAGTCT-TGGATTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTG--G-GAAGA
1 GATGCCACTGAGT-TGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAA
* * * * * * **
1616056 GATGCCACTGAGTCATGGATTTTGAAAAAAAAAATGCCACTAAGTCGTGGACTTTGGGAAGAGAT
65 GATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGAT
* ** * *
1616121 GCCACTAAGTCATGGATTTTGAAA-AAAAGATGCCACTGAGTCGTGGACTTTAGGAAGA
130 GCCACTGAGTTGTGGACTTT-AAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGA
** * * * ** * *
1616179 GATGCCACTGAGTCATGGACTTAGAAGGAAAAGAGTGCCACGGATTTGTGGAC-TT--AGATAAG
1 GATGCCACTGAGTTGTGGACTTTGAA-GAAAAGA-TGCCACTGAGTCATGGACTTTGAAGAAAAA
* * * * * * * * *
1616241 AGATGTCACTAAGTTGTGGACTTTGAAG-AAAATATGCCACTGAGTTGTGGACTTTGAGAAGAGA
64 AGATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGA
1616305 GATTTGAAGA
Statistics
Matches: 436, Mismatches: 52, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
184 125 0.29
185 68 0.16
186 113 0.26
187 129 0.30
188 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (187 bp):
GATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAG
ATGCCACTGAGTCGTGGACTTGGAAGAAAAAGATGCCACTAAGTCGTGGACTTAGAAAAGAGATG
CCACTGAGTTGTGGACTTTAAAGAAAAGATGCCACTGAGTCGTGGACTTTGGGAAGA
Found at i:1617636 original size:29 final size:30
Alignment explanation
Indices: 1617577--1617637 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
1617567 CTTTGCATTC
***
1617577 TTTTTTTTGTGTGTTTTTCTGTTTTTGTTT
1 TTTTTTTTGTGTGTTTTTCTGTTTGACTTT
1617607 TTTTTTTTG-GTGTTTTTACT-TTTGACTTT
1 TTTTTTTTGTGTGTTTTT-CTGTTTGACTTT
1617636 TT
1 TT
1617638 CATCATTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.03, C:0.05, G:0.15, T:0.77
Consensus pattern (30 bp):
TTTTTTTTGTGTGTTTTTCTGTTTGACTTT
Found at i:1625332 original size:19 final size:20
Alignment explanation
Indices: 1625290--1625332 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
1625280 TGATGGAACG
*
1625290 AAAGAAGATCCTATATTTTTCA
1 AAAGAAGATCCTATA--TTACA
1625312 AAAGAAGATCCTATA-TACA
1 AAAGAAGATCCTATATTACA
1625331 AA
1 AA
1625333 GGCTCGATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 5 0.25
22 15 0.75
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (20 bp):
AAAGAAGATCCTATATTACA
Found at i:1630247 original size:48 final size:48
Alignment explanation
Indices: 1630115--1630247 Score: 212
Period size: 48 Copynumber: 2.8 Consensus size: 48
1630105 AGAGGAGTGC
* * * * *
1630115 CAATGTGCTAATTCAAGGCTAACGACATCGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATGGAAAAGTGGA
1630163 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATGGAAAAGTGGA
*
1630211 CAATGTGCTGATTCAAGGCCAGCGATATTGAGCTAAT
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAAT
1630248 AAAGGTGCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 79 1.00
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATGGAAAAGTGGA
Found at i:1630375 original size:32 final size:31
Alignment explanation
Indices: 1630339--1631112 Score: 401
Period size: 32 Copynumber: 25.2 Consensus size: 31
1630329 TTTTTTTTTT
* *
1630339 AAAAAGG-TGCAACTAACTTGTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* * *
1630370 AAAAAAGTTGCCACCGACTCGTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACT-TTGTGGGCTTTG
* *
1630402 --AAAGGGTGCCACTGAC-TTGTGGGCTTCG
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
* *
1630430 --AAAGGATGCCACTAAC-TTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
*
1630458 -AAAAGAG-TGCCACTGA-TTTGTAGGCTTTG
1 AAAAAG-GTTGCCACTGACTTTGTGGGCTTTG
*
1630487 --AAAGGGTGCCACTGAC-TTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
* * *
1630515 --AAAGGATGCCACTGAC-TTATGAGCTTTG
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
* *
1630543 AAATAGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* **
1630575 AAATAGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
** **
1630607 AAATGGGTTGCCACCAACTTGTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* *
1630639 -AAATGAGTTGCCACCGA-TTTGTGCAGGCTTTG
1 AAAAAG-GTTGCCACTGACTTTGTG--GGCTTTG
* *
1630671 --AAATGATGCCACTGAC-TTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
** *
1630699 AAATGGGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
** ** *
1630731 AAATGGGTTGCCACCAACTTGTGTGGGCTTTC
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
** **
1630763 AAATGGGTTGCCACCAACTTGTGTGGGCTTT-
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* * *
1630794 CAAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAAG-GTTGCCACTGACTT-TGTGGGCTTTG
** ** *
1630827 AAATGGGTTGCCACCAACTTGTGTGGGCTTTC
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* *
1630859 AAATGAA--TTGCCACCGACTTGTGTAGGCTTTG
1 AAA--AAGGTTGCCACTGACTT-TGTGGGCTTTG
** * * *
1630891 AAATGGGTTACCATTGACTTGTGTGGGCTTTC
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
** **
1630923 AAATGGGTTGCCACCAACTTGTGTGGGCTTT-
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* * * *
1630954 CATATGAGTTGCCA-TCGACTTGTGTAGGCTTTG
1 AAAAAG-GTTGCCACT-GACTT-TGTGGGCTTTG
** **
1630987 AAATGGGTTGCCACCAACTTGTGTGGGCTTT-
1 AAAAAGGTTGCCACTGACTT-TGTGGGCTTTG
* * *
1631018 CAAATGAGTTGCCACCGACTTGTGTGGGCTTTG
1 AAAAAG-GTTGCCACTGACTT-TGTGGGCTTTG
* * *
1631051 --AAATGATGCCATTGAC-TTGTGGGCTTTG
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
* * *
1631079 --AAATGATGCCACTAAC-TTGTGGGCTTT-
1 AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
1631106 AAAAAGG
1 AAAAAGG
1631113 CACTGCCACG
Statistics
Matches: 619, Mismatches: 91, Indels: 68
0.80 0.12 0.09
Matches are distributed among these distances:
27 1 0.00
28 127 0.21
29 28 0.05
30 65 0.11
31 25 0.04
32 368 0.59
33 5 0.01
ACGTcount: A:0.22, C:0.18, G:0.29, T:0.31
Consensus pattern (31 bp):
AAAAAGGTTGCCACTGACTTTGTGGGCTTTG
Found at i:1630616 original size:64 final size:63
Alignment explanation
Indices: 1630354--1631083 Score: 754
Period size: 64 Copynumber: 11.8 Consensus size: 63
1630344 GGTGCAACTA
*** * * *
1630354 ACTTGTGTGGGCTTTGAAAAAAGTTGCCACCGACTCGTGTGGGCTTTGAAA-GGGTGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCG
* * ** * *
1630416 AC-T-TGTGGGCTTCGAAA--GGATGCCACTAAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCG
* * * *
1630473 A-TT-TGTAGGCTTTGAAA-GGG-TGCCACTGAC-T-TGTGGGCTTTGAAA-GGATGCCACTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCG
* * * *
1630529 AC-T-TATGAGCTTTGAAATAGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
*
1630591 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCG
* ** * *
1630655 ATTTGTGCAGGCTTTGAAAT--GATGCCACTGAC-T-TGTGGGCTTTGAAATGGGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* * *
1630715 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* * *
1630779 ACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCA
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* ** * * **
1630843 ACTTGTGTGGGCTTTCAAATGAATTGCCACCGACTTGTGTAGGCTTTGAAATGGGTTACCATTG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* * * * *
1630907 ACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTTTCATATGAGTTGCCATCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCG
* * *
1630971 ACTTGTGTAGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAGTTGCCACCG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCG
* **
1631035 ACTTGTGTGGGCTTTGAAAT--GATGCCATTGAC-T-TGTGGGCTTTGAAATG
1 ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATG
1631084 ATGCCACTAA
Statistics
Matches: 583, Mismatches: 64, Indels: 44
0.84 0.09 0.06
Matches are distributed among these distances:
55 1 0.00
56 36 0.06
57 49 0.08
58 21 0.04
59 1 0.00
60 84 0.14
61 4 0.01
62 38 0.07
63 4 0.01
64 345 0.59
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (63 bp):
ACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCG
Found at i:1630651 original size:96 final size:95
Alignment explanation
Indices: 1630353--1631099 Score: 781
Period size: 96 Copynumber: 8.1 Consensus size: 95
1630343 AGGTGCAACT
** * * *
1630353 AACTTGTGTGGGCTTTGAAAAAAGTTGCCACCGACTCGTGTGGGCTTTGAAA-GGGTGCCACTGA
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGA
* * *
1630417 C-T-TGTGGGCTTCGAAA--GGATGCCACT
66 CTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * * *
1630443 AAC-T-TGTGGGCTTTGAAAAGAG-TGCCACTGA-TT-TGTAGGCTTTGAAA-GGGTGCCACTGA
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGA
* *
1630502 C-T-TGTGGGCTTTGAAA--GGATGCCACT
66 CTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * *
1630528 GAC-T-TATGAGCTTTGAAAT-AGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACC
1 AACTTGTGTGGGCTTTGAAATGA-GTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACC
*
1630590 AACTTGTGTGGGCTTTGAAATGGGTTGCCACC
64 GACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* ** * *
1630622 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGATTTGTGCAGGCTTTGAAAT-GATGCCACTGA
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGA
1630686 C-T-TGTGGGCTTTGAAATGGGTTGCCACC
66 CTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * * *
1630714 GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGGGTTGCCACCA
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCG
* *
1630779 ACTTGTGTGGGCTTTCAAATGAGTTGCCACC
65 ACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * * *
1630810 GACTTGTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTCAAATGAATTGCCACCG
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCG
* * **
1630875 ACTTGTGTAGGCTTTGAAATGGGTTACCATT
65 ACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * * * * * *
1630906 GACTTGTGTGGGCTTTCAAATGGGTTGCCACCAACTTGTGTGGGCTTTCATATGAGTTGCCATCG
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATG-GTTGCCACCG
*
1630971 ACTTGTGTAGGCTTTGAAATGGGTTGCCACC
65 ACTTGTGTGGGCTTTGAAATGGGTTGCCACC
* * **
1631002 AACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GATGCCATTGA
1 AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGA
* *
1631066 C-T-TGTGGGCTTTGAAAT--GATGCCACT
66 CTTGTGTGGGCTTTGAAATGGGTTGCCACC
1631092 AACTTGTG
1 AACTTGTG
1631100 GGCTTTAAAA
Statistics
Matches: 577, Mismatches: 62, Indels: 36
0.85 0.09 0.05
Matches are distributed among these distances:
84 1 0.00
85 66 0.11
86 9 0.02
87 10 0.02
88 30 0.05
89 1 0.00
90 28 0.05
91 1 0.00
92 100 0.17
93 2 0.00
94 38 0.07
95 3 0.01
96 287 0.50
97 1 0.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (95 bp):
AACTTGTGTGGGCTTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGA
CTTGTGTGGGCTTTGAAATGGGTTGCCACC
Found at i:1631229 original size:28 final size:28
Alignment explanation
Indices: 1631040--1631495 Score: 469
Period size: 28 Copynumber: 16.4 Consensus size: 28
1631030 CACCGACTTG
* * * ** *
1631040 TGTGGGCTTTGAAATGATGCCATTGACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * * ** *
1631068 TGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1631096 TGTGGGCTTTAAAAAGGCACTGCCACGGAGT
1 TGTGGACTTT-AAAAGG-A-TGCCACGGAGT
* *
1631127 TGTGGAC-TTAAAAGGATGCCATGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1631154 TGTAGAC-TTAAAAGGATGCCACAGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1631181 TATGGAC-TTAAAAGGGT-CCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1631207 GGTGGACTTTAAAA-AAGTGCCACGGTGT
1 TGTGGACTTTAAAAGGA-TGCCACGGAGT
*
1631235 TGTGGACTTTAAAACGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1631263 TGTGAACTTTAAAAGGGTGCCATGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1631291 TGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1631319 TGTGAAC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * * *
1631346 GGTGGACTTTAAAAGGGTGTCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* *
1631374 TGTGGACTTT-AAAGGGTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1631401 TATGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
* * *
1631428 GGTGGACTTTAAAAGGGTGCCACGAAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
*
1631456 GGTGGACTTTAAAAGGATGCCACGGAGT
1 TGTGGACTTTAAAAGGATGCCACGGAGT
1631484 TGTGGACTTTAA
1 TGTGGACTTTAA
1631496 TGTTGTGGAC
Statistics
Matches: 365, Mismatches: 53, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
26 14 0.04
27 120 0.33
28 203 0.56
29 11 0.03
30 3 0.01
31 14 0.04
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (28 bp):
TGTGGACTTTAAAAGGATGCCACGGAGT
Found at i:1631421 original size:165 final size:165
Alignment explanation
Indices: 1631116--1631492 Score: 528
Period size: 165 Copynumber: 2.3 Consensus size: 165
1631106 AAAAAGGCAC
* *
1631116 TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCATGAAGTTGT-AGACTTAAAAGGATGCCACAGA
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGA-ACTTAAAAGGATGCCACAGA
* ** *
1631179 GTTATGGACTTAAAAGGGTCCACGAAGTGGTGGACTTTAAAAAAGTGCCACGGTGTTGTGGACTT
65 GTGATGGACTTAAAAGGGTCCACGAAGTGGTGGACTTTAAAAAAGTGCCACGAAGTTATGGACTT
*
1631244 TAAAACGATGCCACGGAGTTGTGAACTTTAAAAGGG
130 TAAAACGATGCCACGGAGTGGTGAACTTTAAAAGGG
* *
1631280 TGCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGAACTTAAAAGGATGCCACGGAG
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGAACTTAAAAGGATGCCACAGAG
* * * **
1631345 TGGTGGACTTTAAAAGGGTGTCACGAAGTTGTGGACTTT-AAAGGGTGCCACGAAGTTATGGAC-
66 TGATGGAC-TTAAAAGGGT-CCACGAAGTGGTGGACTTTAAAAAAGTGCCACGAAGTTATGGACT
* *
1631408 TTAAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGG
129 TTAAAACGATGCCACGGAGTGGTGAACTTTAAAAGGG
* * *
1631445 TGCCACGAAGTGGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
1 TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGAACTT
1631493 TAATGTTGTG
Statistics
Matches: 189, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
164 17 0.09
165 125 0.66
166 30 0.16
167 17 0.09
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (165 bp):
TGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGAACTTAAAAGGATGCCACAGAG
TGATGGACTTAAAAGGGTCCACGAAGTGGTGGACTTTAAAAAAGTGCCACGAAGTTATGGACTTT
AAAACGATGCCACGGAGTGGTGAACTTTAAAAGGG
Found at i:1631517 original size:42 final size:43
Alignment explanation
Indices: 1631457--1631537 Score: 155
Period size: 42 Copynumber: 1.9 Consensus size: 43
1631447 CCACGAAGTG
1631457 GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAATGTT
1 GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAATGTT
1631500 GTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAA
1 GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAA
1631538 AAGGGTGCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
42 32 0.84
43 6 0.16
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (43 bp):
GTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTTAATGTT
Found at i:1631546 original size:28 final size:28
Alignment explanation
Indices: 1631497--1631648 Score: 191
Period size: 28 Copynumber: 5.4 Consensus size: 28
1631487 GGACTTTAAT
*
1631497 GTTGTGGAC-TTAAAAGGATGCCACGGA
1 GTTGTGGACTTTAAAAGGATGCCACAGA
* *
1631524 GTTGTGGACTTTAAAAGGGTGCCATAGA
1 GTTGTGGACTTTAAAAGGATGCCACAGA
1631552 GTTGTGGACTTTAAAAGGATGCCACAGA
1 GTTGTGGACTTTAAAAGGATGCCACAGA
* *
1631580 GTTGTGGAC-TTAAAAAGATACCACAGA
1 GTTGTGGACTTTAAAAGGATGCCACAGA
* * *
1631607 GTTATGGACTTTGAAAAGAAATGCCACTGA
1 GTTGTGGACTTT-AAAAG-GATGCCACAGA
*
1631637 ATTGTGGACTTT
1 GTTGTGGACTTT
1631649 GAAGAGTCGC
Statistics
Matches: 107, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
27 33 0.31
28 52 0.49
29 4 0.04
30 18 0.17
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.27
Consensus pattern (28 bp):
GTTGTGGACTTTAAAAGGATGCCACAGA
Found at i:1631547 original size:70 final size:71
Alignment explanation
Indices: 1631429--1631565 Score: 213
Period size: 70 Copynumber: 1.9 Consensus size: 71
1631419 CCACGGAGTG
* *
1631429 GTGGACTTTAAAAGGGTGCCACGAAGTGGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTT
1 GTGGACTTTAAAAGGATGCCACGAAGTGGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTT
1631494 AATGTT
66 AATGTT
* * * *
1631500 GTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATAGAGTTGTGGACTTT
1 GTGGACTTTAAAAGGATGCCACGAAGTGGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTT
1631564 AA
66 AA
1631566 AAGGATGCCA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
70 54 0.90
71 6 0.10
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (71 bp):
GTGGACTTTAAAAGGATGCCACGAAGTGGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTT
AATGTT
Found at i:1631572 original size:98 final size:98
Alignment explanation
Indices: 1631403--1631590 Score: 324
Period size: 98 Copynumber: 1.9 Consensus size: 98
1631393 CACGAAGTTA
*
1631403 TGGACTTAAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCACGAAGTGGTGGACTTTAA
1 TGGACTTAAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCAAGAAGTGGTGGACTTTAA
*
1631468 AAGGATGCCACGGAGTTGTGGACTTTAATGTTG
66 AAGGATGCCACAGAGTTGTGGACTTTAATGTTG
* *
1631501 TGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATAG-AGTTGTGGACTTTA
1 TGGACTTAAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCA-AGAAGTGGTGGACTTTA
1631565 AAAGGATGCCACAGAGTTGTGGACTT
65 AAAGGATGCCACAGAGTTGTGGACTT
1631591 AAAAAGATAC
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
98 84 0.99
99 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.26
Consensus pattern (98 bp):
TGGACTTAAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCAAGAAGTGGTGGACTTTAA
AAGGATGCCACAGAGTTGTGGACTTTAATGTTG
Found at i:1631594 original size:55 final size:55
Alignment explanation
Indices: 1631497--1631647 Score: 187
Period size: 55 Copynumber: 2.7 Consensus size: 55
1631487 GGACTTTAAT
* * * * *
1631497 GTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATAGA
1 GTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGAC-TTAAAAAGATACCACAGA
1631552 GTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATACCACAGA
1 GTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATACCACAGA
* * * *
1631607 GTTATGGACTTTGAAAAGAAATGCCACTGAATTGTGGACTT
1 GTTGTGGACTTT-AAAAG-GATGCCACAGAGTTGTGGACTT
1631648 TGAAGAGTCG
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
55 34 0.40
56 31 0.37
57 19 0.23
ACGTcount: A:0.32, C:0.13, G:0.28, T:0.26
Consensus pattern (55 bp):
GTTGTGGACTTTAAAAGGATGCCACAGAGTTGTGGACTTAAAAAGATACCACAGA
Found at i:1651185 original size:12 final size:12
Alignment explanation
Indices: 1651168--1651197 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1651158 AGAACCAGAT
1651168 AAAAAATGAAAA
1 AAAAAATGAAAA
*
1651180 AAAAAATTAAAA
1 AAAAAATGAAAA
1651192 AAAAAA
1 AAAAAA
1651198 GGATGTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (12 bp):
AAAAAATGAAAA
Found at i:1651368 original size:15 final size:16
Alignment explanation
Indices: 1651342--1651388 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 16
1651332 TTACGTAAAC
1651342 AAAAGTAATAATATTTT
1 AAAA-TAATAATATTTT
*
1651359 AATA-AAT-A-ATTTT
1 AAAATAATAATATTTT
1651372 AAAATAATAATATTTT
1 AAAATAATAATATTTT
1651388 A
1 A
1651389 TTAATTATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 4 0.16
16 6 0.24
17 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (16 bp):
AAAATAATAATATTTT
Found at i:1651847 original size:21 final size:21
Alignment explanation
Indices: 1651818--1651878 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
1651808 ATTTTGTTTG
1651818 AAATTTTAAACCTTAAACCTT
1 AAATTTTAAACCTTAAACCTT
* **
1651839 AACTTTTAAATTTTAAACCTT
1 AAATTTTAAACCTTAAACCTT
*
1651860 AAATTTTAACAGCTTAAAC
1 AAATTTTAA-ACCTTAAAC
1651879 GTAATTAGCA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.43, C:0.16, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATTTTAAACCTTAAACCTT
Found at i:1651877 original size:15 final size:14
Alignment explanation
Indices: 1651818--1651868 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
1651808 ATTTTGTTTG
1651818 AAATTTTAAACCTT
1 AAATTTTAAACCTT
** *
1651832 AAACCTT-AACTTTT
1 AAATTTTAAAC-CTT
1651846 AAATTTTAAACCTT
1 AAATTTTAAACCTT
1651860 AAATTTTAA
1 AAATTTTAA
1651869 CAGCTTAAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
13 3 0.10
14 23 0.79
15 3 0.10
ACGTcount: A:0.43, C:0.14, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTTTAAACCTT
Found at i:1652672 original size:22 final size:22
Alignment explanation
Indices: 1652602--1652672 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
1652592 ATTTTTATAA
* *
1652602 TTAAATTTAAATAAAAAAATTA
1 TTAAATTTAAATAAAATAATTT
** ** *
1652624 TTATTTTTTTATATTAAT-ATTT
1 TTAAATTTAAATA-AAATAATTT
*
1652646 ATAAATTTAAATAAAATAATTT
1 TTAAATTTAAATAAAATAATTT
1652668 TTAAA
1 TTAAA
1652673 ATCTTTTTTT
Statistics
Matches: 33, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
21 3 0.09
22 28 0.85
23 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATTTAAATAAAATAATTT
Found at i:1654546 original size:13 final size:14
Alignment explanation
Indices: 1654530--1654563 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
1654520 ATAAACATGA
*
1654530 AAAAAAAGGAAT-T
1 AAAAAAAGAAATAT
1654543 AAAAAAAGAAATAT
1 AAAAAAAGAAATAT
1654557 AAAAAAA
1 AAAAAAA
1654564 ACAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.79, C:0.00, G:0.09, T:0.12
Consensus pattern (14 bp):
AAAAAAAGAAATAT
Found at i:1654546 original size:14 final size:15
Alignment explanation
Indices: 1654510--1654564 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 15
1654500 AACAGTGTTA
* *
1654510 ATAAACAAAAATAAAC
1 ATAAA-AAAAAGAAAT
*
1654526 ATGAAAAAAAAGGAAT
1 AT-AAAAAAAAGAAAT
1654542 -T-AAAAAAAGAAAT
1 ATAAAAAAAAGAAAT
1654555 ATAAAAAAAA
1 ATAAAAAAAA
1654565 CAAAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
13 11 0.34
14 1 0.03
15 8 0.25
16 9 0.28
17 3 0.09
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.13
Consensus pattern (15 bp):
ATAAAAAAAAGAAAT
Found at i:1658190 original size:52 final size:52
Alignment explanation
Indices: 1658131--1658303 Score: 215
Period size: 52 Copynumber: 3.3 Consensus size: 52
1658121 CTATAAATTC
* *
1658131 AATGTATCGATACATTTGGGTCAAAAACTCAGAATGTATCGATATAATGAAA
1 AATGTATCGATACATTTAGGTCAAAAACTCAGAATGTATCGATAAAATGAAA
* * *
1658183 AATGTATCGATACATTTAGGTCAAAAAC-CTAGAATGAATCAATAAAATAAAA
1 AATGTATCGATACATTTAGGTCAAAAACTC-AGAATGTATCGATAAAATGAAA
* * * *
1658235 AATGTATCGATACATTTAAGTTAACAA-TCCAGAATGTATCGATACAATGAAA
1 AATGTATCGATACATTTAGGTCAAAAACT-CAGAATGTATCGATAAAATGAAA
* *
1658287 AATGTATCAATATATTT
1 AATGTATCGATACATTT
1658304 TCTTTTCAGA
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
51 1 0.01
52 102 0.98
53 1 0.01
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (52 bp):
AATGTATCGATACATTTAGGTCAAAAACTCAGAATGTATCGATAAAATGAAA
Found at i:1659285 original size:26 final size:25
Alignment explanation
Indices: 1659255--1659311 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
1659245 TCATTTATTC
*
1659255 TTTATTTTAAATTTAATATTTAATAT
1 TTTATTTTAAATTTAA-ATTTAAAAT
**
1659281 TTTATTTTATTTTTAAATTTAAAAT
1 TTTATTTTAAATTTAAATTTAAAAT
1659306 TATTAT
1 T-TTAT
1659312 GTGTTCTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 9 0.33
26 18 0.67
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTATTTTAAATTTAAATTTAAAAT
Found at i:1660424 original size:25 final size:24
Alignment explanation
Indices: 1660383--1660432 Score: 57
Period size: 25 Copynumber: 2.0 Consensus size: 24
1660373 AAAGAGTATA
*
1660383 TATATTTTTTGTTATTATAAAATAT
1 TATATTTTTTGTCATTA-AAAATAT
*
1660408 TATATTTATTTG-CATTAAATATAT
1 TATATTT-TTTGTCATTAAAAATAT
1660432 T
1 T
1660433 TGAGAGATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 7 0.32
25 11 0.50
26 4 0.18
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (24 bp):
TATATTTTTTGTCATTAAAAATAT
Found at i:1663171 original size:23 final size:24
Alignment explanation
Indices: 1663121--1663171 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1663111 CATTTCAAAG
*
1663121 ATTTTAATCAGAATTTTTAATTTC
1 ATTTTAATCAGAATTTTAAATTTC
*
1663145 ATTTTAATTA-AACTTTTAAATTT-
1 ATTTTAATCAGAA-TTTTAAATTTC
1663168 ATTT
1 ATTT
1663172 ACTTAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTTAATCAGAATTTTAAATTTC
Found at i:1663455 original size:21 final size:22
Alignment explanation
Indices: 1663430--1663479 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
1663420 TATTTTTGTC
*
1663430 TTAAATAAATATTTA-CTCAAA
1 TTAAATAAATATATATCTCAAA
* *
1663451 TTAAATATATATATATCTTAAA
1 TTAAATAAATATATATCTCAAA
1663473 -TAAATAA
1 TTAAATAA
1663480 TACAAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAATAAATATATATCTCAAA
Found at i:1667671 original size:24 final size:23
Alignment explanation
Indices: 1667627--1667671 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1667617 ATTATTTTTA
* *
1667627 CTTGAAAAACATTTGATTTATTG
1 CTTGAAAAACATTTAACTTATTG
1667650 CTTGAAAAACATTTAAACTTAT
1 CTTGAAAAACATTT-AACTTAT
1667672 CTCTAAAACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.40, C:0.11, G:0.09, T:0.40
Consensus pattern (23 bp):
CTTGAAAAACATTTAACTTATTG
Found at i:1668450 original size:19 final size:19
Alignment explanation
Indices: 1668426--1668492 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
1668416 ATTCAACGAT
*
1668426 TTGTATCAATACATAAGTA
1 TTGTATCGATACATAAGTA
1668445 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
1668459 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
1668477 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1668493 TTAGCTACTG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
13 11 0.28
14 1 0.03
16 2 0.05
19 26 0.65
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1668463 original size:32 final size:32
Alignment explanation
Indices: 1668427--1668489 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
1668417 TTCAACGATT
1668427 TGTATCAATACATAAGTATTGTATCGATACAA
1 TGTATCAATACATAAGTATTGTATCGATACAA
* *
1668459 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCAATACATAAGTATTGTATCGATACA
1668490 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TGTATCAATACATAAGTATTGTATCGATACAA
Found at i:1668464 original size:13 final size:13
Alignment explanation
Indices: 1668446--1668470 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1668436 ACATAAGTAT
1668446 TGTATCGATACAA
1 TGTATCGATACAA
1668459 TGTATCGATACA
1 TGTATCGATACA
1668471 TAAGTGTTGT
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:1670690 original size:24 final size:26
Alignment explanation
Indices: 1670663--1670716 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
1670653 CAAAAAATTT
1670663 ATTCAT-C-GGGGACACTCCAACCCC
1 ATTCATCCAGGGGACACTCCAACCCC
*
1670687 ATTCTTCCGAGGGGACACTCCAACCCC
1 ATTCATCC-AGGGGACACTCCAACCCC
1670714 ATT
1 ATT
1670717 TTCAACCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 5 0.19
25 1 0.04
27 20 0.77
ACGTcount: A:0.24, C:0.39, G:0.17, T:0.20
Consensus pattern (26 bp):
ATTCATCCAGGGGACACTCCAACCCC
Found at i:1675112 original size:104 final size:104
Alignment explanation
Indices: 1674991--1675206 Score: 405
Period size: 104 Copynumber: 2.1 Consensus size: 104
1674981 GCTTTTGATA
*
1674991 ATTTAAAAACATGATTTGAAAATAAAAGATTTTCAAAATCGAAAGGTTGTTCCATATAGACCTCC
1 ATTTGAAAACATGATTTGAAAATAAAAGATTTTCAAAATCGAAAGGTTGTTCCATATAGACCTCC
1675056 TCATTTATAAAACAATTTAGAAAAGCACTTTTGACATCC
66 TCATTTATAAAACAATTTAGAAAAGCACTTTTGACATCC
* *
1675095 ATTTGAAAACATGATTTGGAAATAAAGGATTTTCAAAATCGAAAGGTTGTTCCATATAGACCTCC
1 ATTTGAAAACATGATTTGAAAATAAAAGATTTTCAAAATCGAAAGGTTGTTCCATATAGACCTCC
1675160 TCATTTATAAAACAATTTAGAAAAGCACTTTTGACATCC
66 TCATTTATAAAACAATTTAGAAAAGCACTTTTGACATCC
1675199 ATTTGAAA
1 ATTTGAAA
1675207 TAGCTTGAAA
Statistics
Matches: 109, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 109 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (104 bp):
ATTTGAAAACATGATTTGAAAATAAAAGATTTTCAAAATCGAAAGGTTGTTCCATATAGACCTCC
TCATTTATAAAACAATTTAGAAAAGCACTTTTGACATCC
Found at i:1675904 original size:33 final size:33
Alignment explanation
Indices: 1675862--1675925 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
1675852 AAAAAATTCC
*
1675862 TTTATCACTTTGGCATCAAATTTACCAAGTTTT
1 TTTAGCACTTTGGCATCAAATTTACCAAGTTTT
*
1675895 TTTAGCACTTTGGCATTAAATTTACCAAGTT
1 TTTAGCACTTTGGCATCAAATTTACCAAGTT
1675926 CTTCTTTTCC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (33 bp):
TTTAGCACTTTGGCATCAAATTTACCAAGTTTT
Found at i:1677878 original size:24 final size:24
Alignment explanation
Indices: 1677847--1677903 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
1677837 CACCATAGCT
*
1677847 TTTTTCTTTGTCTTATTTATATTC
1 TTTTTCTTCGTCTTATTTATATTC
1677871 TTTTTCTTCGTCTTATTTATATTC
1 TTTTTCTTCGTCTTATTTATATTC
1677895 TTTTTCTTC
1 TTTTTCTTC
1677904 AACGTTGGAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.04, T:0.70
Consensus pattern (24 bp):
TTTTTCTTCGTCTTATTTATATTC
Found at i:1678106 original size:12 final size:12
Alignment explanation
Indices: 1678089--1678119 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1678079 GTCAACTTCT
1678089 TCATCATCCTCA
1 TCATCATCCTCA
*
1678101 TCATCATCTTCA
1 TCATCATCCTCA
1678113 TCATCAT
1 TCATCAT
1678120 TGATGGTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.35, G:0.00, T:0.39
Consensus pattern (12 bp):
TCATCATCCTCA
Found at i:1680625 original size:2 final size:2
Alignment explanation
Indices: 1680618--1680650 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1680608 GATTTTCAAA
*
1680618 AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1680651 AATAAAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:1681048 original size:10 final size:10
Alignment explanation
Indices: 1681034--1681078 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
1681024 TTTCATATGT
1681034 TTTTTC-TT-
1 TTTTTCTTTC
1681042 TTTTT-TTTC
1 TTTTTCTTTC
1681051 TTTTTCTTTC
1 TTTTTCTTTC
*
1681061 TTTTTCTTCC
1 TTTTTCTTTC
1681071 TTTTTCTT
1 TTTTTCTT
1681079 CATCTTCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
8 7 0.21
9 5 0.15
10 21 0.64
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:1681049 original size:11 final size:11
Alignment explanation
Indices: 1681033--1681065 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
1681023 ATTTCATATG
1681033 TTTTTTCTTTT
1 TTTTTTCTTTT
1681044 TTTTTTC-TTT
1 TTTTTTCTTTT
*
1681054 TTCTTTCTTTT
1 TTTTTTCTTTT
1681065 T
1 T
1681066 CTTCCTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:1681064 original size:16 final size:16
Alignment explanation
Indices: 1681036--1681078 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
1681026 TCATATGTTT
1681036 TTTCTTTTT-TTTTTC
1 TTTCTTTTTCTTTTTC
1681051 TTT-TTCTTTCTTTTTC
1 TTTCTT-TTTCTTTTTC
*
1681067 TTCCTTTTTCTT
1 TTTCTTTTTCTT
1681079 CATCTTCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 2 0.08
15 6 0.25
16 14 0.58
17 2 0.08
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTTTTCTTTTTC
Found at i:1682183 original size:52 final size:49
Alignment explanation
Indices: 1682113--1682232 Score: 123
Period size: 52 Copynumber: 2.4 Consensus size: 49
1682103 CCGTGTGTAG
* * * **
1682113 ATTCAAGGCCTGCAACATTAGACTTAAAGATGAGAGGAGTGCCAATGTGCCA
1 ATTCAAGGCCAGCGACATTAGACTAAAAGAAAAGAGGA---CCAATGTGCCA
* * * *
1682165 ATTCAAGGCCAGCGACATTGGGCTAAAAGAAAAGTGGACCAATGTGCTA
1 ATTCAAGGCCAGCGACATTAGACTAAAAGAAAAGAGGACCAATGTGCCA
*
1682214 ATTCAAGGCCAACGACATT
1 ATTCAAGGCCAGCGACATT
1682233 GGGCTAATAA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
49 28 0.48
52 30 0.52
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (49 bp):
ATTCAAGGCCAGCGACATTAGACTAAAAGAAAAGAGGACCAATGTGCCA
Found at i:1685192 original size:36 final size:32
Alignment explanation
Indices: 1685113--1685205 Score: 116
Period size: 36 Copynumber: 2.8 Consensus size: 32
1685103 CAACACTTTC
*
1685113 TTTCAAGGCTAAGATAGAAAC-CTCCCTATCT
1 TTTCAAGGCTAAGATAGAACCTCTCCCTATCT
*
1685144 TTTCACGAGCTAAGATAGAACCTCTCTCCTTATCTT
1 TTTCAAG-GCTAAGATAGAACCTCTC-CC-TATC-T
1685180 TTTCAAAGGCTAAGATAGAACCTCTC
1 TTTC-AAGGCTAAGATAGAACCTCTC
1685206 AATCACTTCG
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
31 6 0.11
32 13 0.25
33 3 0.06
34 2 0.04
35 4 0.08
36 23 0.43
37 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (32 bp):
TTTCAAGGCTAAGATAGAACCTCTCCCTATCT
Found at i:1685667 original size:20 final size:20
Alignment explanation
Indices: 1685642--1685717 Score: 91
Period size: 20 Copynumber: 3.7 Consensus size: 20
1685632 CCGTTGGACT
1685642 TAATGTATCGATACTATTCA
1 TAATGTATCGATACTATTCA
*
1685662 TAATGTATCGATACATGAAT-A
1 TAATGTATCGATAC-T-ATTCA
*
1685683 GTGATGTATCGATACTATTCA
1 -TAATGTATCGATACTATTCA
*
1685704 CAATGTATCGATAC
1 TAATGTATCGATAC
1685718 ATAAACAGTG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
20 28 0.60
21 4 0.09
22 15 0.32
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (20 bp):
TAATGTATCGATACTATTCA
Found at i:1685703 original size:42 final size:42
Alignment explanation
Indices: 1685644--1685730 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
1685634 GTTGGACTTA
* * *
1685644 ATGTATCGATACTATTCATAATGTATCGATACATGAATAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATAAACAGTG
1685686 ATGTATCGATACTATTCACAATGTATCGATACATAAACAGTG
1 ATGTATCGATACTATTCACAATGTATCGATACATAAACAGTG
1685728 ATG
1 ATG
1685731 AATAGTGATG
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGTATCGATACTATTCACAATGTATCGATACATAAACAGTG
Found at i:1688779 original size:21 final size:21
Alignment explanation
Indices: 1688753--1688812 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
1688743 TTTTTATTAG
1688753 CTAACTCA-TCATTTTCATTTT
1 CTAACTCATTCATTTTC-TTTT
1688774 GC-AACTCATTTC-TTTTCTTTT
1 -CTAACTCA-TTCATTTTCTTTT
1688795 CTAACTCATTCATTTTCT
1 CTAACTCATTCATTTTCT
1688813 CCTCTAATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
20 4 0.12
21 22 0.65
22 6 0.18
23 2 0.06
ACGTcount: A:0.20, C:0.25, G:0.02, T:0.53
Consensus pattern (21 bp):
CTAACTCATTCATTTTCTTTT
Found at i:1688818 original size:21 final size:21
Alignment explanation
Indices: 1688776--1688819 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1688766 TTCATTTTGC
**
1688776 AACTCATTTCTTTTCTTTTCT
1 AACTCATTTCTTTTCTCCTCT
1688797 AACTCA-TTCATTTTCTCCTCT
1 AACTCATTTC-TTTTCTCCTCT
1688818 AA
1 AA
1688820 TTCACTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.20, C:0.27, G:0.00, T:0.52
Consensus pattern (21 bp):
AACTCATTTCTTTTCTCCTCT
Found at i:1690946 original size:20 final size:20
Alignment explanation
Indices: 1690921--1690995 Score: 98
Period size: 20 Copynumber: 3.6 Consensus size: 20
1690911 CGTTGGACTC
1690921 AATGTATCGATACTATTCAT
1 AATGTATCGATACTATTCAT
*
1690941 AATGTATCGATACATGAAT-AGT
1 AATGTATCGATAC-T-ATTCA-T
*
1690963 GATGTATCGATACTATTCAT
1 AATGTATCGATACTATTCAT
1690983 AATGTATCGATAC
1 AATGTATCGATAC
1690996 ATAAACAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
20 28 0.60
21 4 0.09
22 15 0.32
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACTATTCAT
Found at i:1691008 original size:42 final size:42
Alignment explanation
Indices: 1690922--1691008 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
1690912 GTTGGACTCA
* * *
1690922 ATGTATCGATACTATTCATAATGTATCGATACATGAATAGTG
1 ATGTATCGATACTATTCATAATGTATCGATACATAAACAATG
1690964 ATGTATCGATACTATTCATAATGTATCGATACATAAACAATG
1 ATGTATCGATACTATTCATAATGTATCGATACATAAACAATG
1691006 ATG
1 ATG
1691009 AATAGTGATA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (42 bp):
ATGTATCGATACTATTCATAATGTATCGATACATAAACAATG
Found at i:1699216 original size:22 final size:22
Alignment explanation
Indices: 1699188--1699242 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
1699178 TGGACATGTT
1699188 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1699210 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1699232 AAAAATGCATG
1 AAAAATGCATG
1699243 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1700202 original size:20 final size:20
Alignment explanation
Indices: 1700155--1700229 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1700145 AAAAAGACAT
*
1700155 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1700174 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1700195 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1700215 AATGTATCGATACAT
1 AATGTATCGATACAT
1700230 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1700223 original size:40 final size:39
Alignment explanation
Indices: 1700152--1700229 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1700142 GGTAAAAAGA
* *
1700152 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1700191 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1700230 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1702468 original size:21 final size:20
Alignment explanation
Indices: 1702422--1702474 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
1702412 GTAGCCAAAC
**
1702422 TTGTATCGATACACCAAGTA
1 TTGTATCGATACACCAAAAA
1702442 -TGTATCGATACACCAAAAAA
1 TTGTATCGATACACC-AAAAA
1702462 TTGTATCGATACA
1 TTGTATCGATACA
1702475 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 14 0.48
20 3 0.10
21 12 0.41
ACGTcount: A:0.40, C:0.19, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACCAAAAA
Found at i:1704705 original size:22 final size:21
Alignment explanation
Indices: 1704680--1704731 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
1704670 TTGCAAGTTG
*
1704680 AAATAAAAAATTTAGCTAATAA
1 AAATAAAAAA-TTAGCTAAGAA
**
1704702 AAATAATGAATTAGCTAAGAA
1 AAATAAAAAATTAGCTAAGAA
1704723 AAATAAAAA
1 AAATAAAAA
1704732 CTTGCATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.23
Consensus pattern (21 bp):
AAATAAAAAATTAGCTAAGAA
Found at i:1705961 original size:20 final size:20
Alignment explanation
Indices: 1705907--1705963 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
1705897 AAAACCCTTA
*
1705907 AAAGTATCGATACACGATTC
1 AAAGTATCGATACATGATTC
1705927 AAAGTATCGATACATG-TTGC
1 AAAGTATCGATACATGATT-C
*
1705947 AATGTATCGATACATGA
1 AAAGTATCGATACATGA
1705964 AAAATATGTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.28
Consensus pattern (20 bp):
AAAGTATCGATACATGATTC
Found at i:1712414 original size:20 final size:20
Alignment explanation
Indices: 1712371--1712416 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1712361 AAATCTTTTG
1712371 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1712392 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1712412 CAAAA
1 CAAAA
1712417 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1712734 original size:21 final size:20
Alignment explanation
Indices: 1712692--1712734 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1712682 GGCAGCACCA
* * *
1712692 CCAGGTCGCGACCGGCACTC
1 CCAGGTCACAACCGGCAATC
1712712 CCAGGTCACAACCGGGCAATC
1 CCAGGTCACAACC-GGCAATC
1712733 CC
1 CC
1712735 CATACTAGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.21, C:0.44, G:0.26, T:0.09
Consensus pattern (20 bp):
CCAGGTCACAACCGGCAATC
Found at i:1714832 original size:13 final size:13
Alignment explanation
Indices: 1714814--1714839 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1714804 TACACCAAGT
1714814 ATGTATCGATACA
1 ATGTATCGATACA
1714827 ATGTATCGATACA
1 ATGTATCGATACA
1714840 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1721026 original size:13 final size:13
Alignment explanation
Indices: 1721008--1721046 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1720998 ACATTTTTCG
1721008 TTGTATCGATACA
1 TTGTATCGATACA
1721021 TTGTATCGATACA
1 TTGTATCGATACA
*
1721034 CTGTATCGATACA
1 TTGTATCGATACA
1721047 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1721191 original size:21 final size:20
Alignment explanation
Indices: 1721167--1721213 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
1721157 AAATCTTTTG
*
1721167 CAAAATACTT-GTTTTTCACTT
1 CAAAATACTTCATTTTTCA--T
*
1721188 CAAATTACTTCATTTTTCAT
1 CAAAATACTTCATTTTTCAT
1721208 CAAAAT
1 CAAAAT
1721214 TAGCTTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 6 0.27
21 9 0.41
22 7 0.32
ACGTcount: A:0.34, C:0.19, G:0.02, T:0.45
Consensus pattern (20 bp):
CAAAATACTTCATTTTTCAT
Found at i:1722920 original size:38 final size:39
Alignment explanation
Indices: 1722877--1722963 Score: 97
Period size: 39 Copynumber: 2.3 Consensus size: 39
1722867 TTTTTTATAA
**
1722877 AAGGGGAGAATGCGTGAATTTGCTAAAATTACCTT-ATT
1 AAGGGGAGAATGCACGAATTTGCTAAAATTACCTTGATT
* * **
1722915 AAGGGGGAGAATGTACGAATTTGTTAAAATTATTTTGATT
1 AA-GGGGAGAATGCACGAATTTGCTAAAATTACCTTGATT
1722955 AA-GGGAGAA
1 AAGGGGAGAA
1722964 AGAAAAGAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 9 0.22
39 27 0.66
40 5 0.12
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (39 bp):
AAGGGGAGAATGCACGAATTTGCTAAAATTACCTTGATT
Found at i:1723524 original size:20 final size:20
Alignment explanation
Indices: 1723482--1723534 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
1723472 CCCTTAAAAA
*
1723482 TATCGATACACGATTCAAAG
1 TATCGATACATGATTCAAAG
*
1723502 TATCGATACATG-TTGCAATG
1 TATCGATACATGATT-CAAAG
*
1723522 TATTGATACATGA
1 TATCGATACATGA
1723535 AAAATATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (20 bp):
TATCGATACATGATTCAAAG
Found at i:1723621 original size:13 final size:13
Alignment explanation
Indices: 1723603--1723628 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1723593 TACACCAAGT
1723603 ATGTATCGATACA
1 ATGTATCGATACA
1723616 ATGTATCGATACA
1 ATGTATCGATACA
1723629 CCAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1725462 original size:886 final size:886
Alignment explanation
Indices: 1723648--1726163 Score: 4683
Period size: 886 Copynumber: 2.8 Consensus size: 886
1723638 TGTATCGATA
* *
1723648 CATTGGCTTGTAACGGCTAGAAACGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
1 CATTGGCTTGTAACGGCTAGTAATGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
* * *
1723713 TCGATACATTTGCACGGGAAATCATTAAAATAAGCTCCAAACAAGCCAATAACGGCTAGAAACTC
66 TCGATACATTTACACGGGAAATCATTAAAATAAGCTCC-AACAAGTCAATAACGGCTATAAACTC
* *
1723778 CACTAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGAGCTTCCAGTAGCAAA
130 CACCAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGAGCTTCCAGCAGCAAA
* * * *
1723843 ACACAACAAGAGAGAAGTAGAATCAAGCAAAAAACATCTAG----C--A---TTCAAAGATCAAA
195 ACCCAAGAAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGTTTTCAAAGATCAAA
*
1723899 GCGTTTTATATTTTTCAAGAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTT
260 GTGTTTTATATTTTTCAAGAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTT
*
1723964 GATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGAAAAAT
325 GATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGAAAACT
*
1724029 CTTTGTTGTCATAAGGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTC
390 CTTTGTTGTCATAATGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTC
* *
1724094 GCAAAGAGATTGTAAGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTG
455 GCAAAGAGATTATACGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTG
1724159 CCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAATGTCGAGGAGAG
520 CCTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAATGTCGAGGAGAG
1724224 AGGACGTAAGTGTCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTA
585 AGGACGTAAGTGTCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTA
1724289 ATCTCTTTTCATTTCGAATTGTTTTGTTTCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAACC
650 ATCTCTTTTCATTTCGAATTGTTTTGTTTCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAACC
1724354 AATTCACCCCCTCTTGGTTCGTTGCTTGATAAGCTTCCAATTGGTATCAGAGCCTAACCTCCGTT
715 AATTCACCCCCTCTTGGTTCGTTGCTTGATAAGCTTCCAATTGGTATCAGAGCCTAACCTCCGTT
1724419 CAATAGATTCACACTCGGGAGAGACGATCAATTTCAAATCAAGAATGGAAGGTGCAATGATCAAC
780 CAATAGATTCACACTCGGGAGAGACGATCAATTTCAAATCAAGAATGGAAGGTGCAATGATCAAC
1724484 AACTCAATTTTGATGAACCAAGAAGAAATATGTCTATATTTT
845 AACTCAATTTTGATGAACCAAGAAGAAATATGTCTATATTTT
1724526 CATTGGCTTGTAACGGCTAGTAATGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
1 CATTGGCTTGTAACGGCTAGTAATGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
1724591 TCGATACATTTACACGGGAAATCATTAAAATAAGCTCCAACAAGTCAATAACGGCTATAAACTCC
66 TCGATACATTTACACGGGAAATCATTAAAATAAGCTCCAACAAGTCAATAACGGCTATAAACTCC
*
1724656 ACCAATCAAACTCCAACGGCTACAACAACATTGAAGCCTACAAATAAGAGCTTCCAGCAGCAAAA
131 ACCAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGAGCTTCCAGCAGCAAAA
1724721 CCCAAGAAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGTTTTCAAAGATCAAAG
196 CCCAAGAAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGTTTTCAAAGATCAAAG
*
1724786 TGTTTTATATTTTTCAAAAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTTG
261 TGTTTTATATTTTTCAAGAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTTG
1724851 ATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGAAAACTC
326 ATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGAAAACTC
1724916 TTTGTTGTCATAATGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTCG
391 TTTGTTGTCATAATGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTCG
1724981 CAAAGAGATTATACGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTGC
456 CAAAGAGATTATACGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTGC
1725046 CTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAATGTCGAGGAGAGA
521 CTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAATGTCGAGGAGAGA
1725111 GGACGTAAGTGTCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAA
586 GGACGTAAGTGTCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAA
1725176 TCTCTTTTCATTTCGAATTGTTTTGTTTCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAACCA
651 TCTCTTTTCATTTCGAATTGTTTTGTTTCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAACCA
1725241 ATTCACCCCCTCTTGGTTCGTTGCTTGATAAGCTTCCAATTGGTATCAGAGCCTAACCTCCGTTC
716 ATTCACCCCCTCTTGGTTCGTTGCTTGATAAGCTTCCAATTGGTATCAGAGCCTAACCTCCGTTC
1725306 AATAGATTCACACTCGGGAGAGACGATCAATTTCAAATCAAGAATGGAAGGTGCAATGATCAACA
781 AATAGATTCACACTCGGGAGAGACGATCAATTTCAAATCAAGAATGGAAGGTGCAATGATCAACA
1725371 ACTCAATTTTGATGAACCAAGAAGAAATATGTCTATATTTT
846 ACTCAATTTTGATGAACCAAGAAGAAATATGTCTATATTTT
1725412 CATTGGCTTGTAACGGCTAGTAATGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
1 CATTGGCTTGTAACGGCTAGTAATGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
1725477 TCGATACATTTACACGGGAAATCATTAAAATAAGCTCCAACAAGTCAATAACGGCTATAAACTCC
66 TCGATACATTTACACGGGAAATCATTAAAATAAGCTCCAACAAGTCAATAACGGCTATAAACTCC
1725542 ACCAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGAGCTTCCAGCAGCAAAA
131 ACCAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGAGCTTCCAGCAGCAAAA
1725607 CCCAAGAAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGTTTTCAAAGATCAAAG
196 CCCAAGAAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGTTTTCAAAGATCAAAG
1725672 TGTTTTATATTTTTCAAGAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTTG
261 TGTTTTATATTTTTCAAGAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTTG
1725737 ATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAA-TTTGTTTGTAGAAAACTC
326 ATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGAAAACTC
1725801 TTTGTTGTCATAATGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTCG
391 TTTGTTGTCATAATGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTCG
1725866 CAAAGAGATTATACGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTGC
456 CAAAGAGATTATACGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTGC
* *
1725931 CTTAAAGGTAATCAATTCAGTTAGTGAATTGGGTAATCACTCGACAAGGAAGTGTCGAGGAGAGA
521 CTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAATGTCGAGGAGAGA
* *
1725996 GGACGTAGGTGCCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAA
586 GGACGTAAGTGTCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAA
* * *
1726061 TCCCTTTTTCATTTCGAATTGTTTTGTTTCAAATTTGCTCAAAACCCGAAAATTCGAAAAGAACC
651 TCTC-TTTTCATTTCGAATTGTTTTGTTTCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAACC
* *
1726126 AATTCATCCCCCCTCTTGGTTCGTTACTTCATAAGCTT
715 AATTCA--CCCCCTCTTGGTTCGTTGCTTGATAAGCTT
1726164 TCATTTATAG
Statistics
Matches: 1597, Mismatches: 29, Indels: 14
0.97 0.02 0.01
Matches are distributed among these distances:
877 123 0.08
878 100 0.06
881 1 0.00
883 1 0.00
885 277 0.17
886 1067 0.67
888 28 0.02
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (886 bp):
CATTGGCTTGTAACGGCTAGTAATGGCTATATTTTCAAATATGTATCGATACATCAAAAATTGTA
TCGATACATTTACACGGGAAATCATTAAAATAAGCTCCAACAAGTCAATAACGGCTATAAACTCC
ACCAATCAAACTCCAACGGCTACAACAACATTGAAGCCTATAAATAAGAGCTTCCAGCAGCAAAA
CCCAAGAAGAGAGAAGTAGAACCAAGCAAGAAACATCTAGCATTCAAAGTTTTCAAAGATCAAAG
TGTTTTATATTTTTCAAGAGCTTTTGTTCATATTGTTATTATTTTTCTAAGCTCTTTGTATTTTG
ATTTCGAGCTTAAATTCCCACAAACACAAGCCTAGTTAGAGGCAAACTTTGTTTGTAGAAAACTC
TTTGTTGTCATAATGTTGTGGTAAACCTTGAGAGAGAATCTCTTTGGAACTTGTGGTATAGTTCG
CAAAGAGATTATACGGTTGGTATCTAAGCCCGTAAAAGATACGAGTTGTAAGGTTATACCTTTGC
CTTAAAGGTAATCAATTCGGTTAGTGAATTGGGTAATCACTCGACAAGGAAATGTCGAGGAGAGA
GGACGTAAGTGTCGTGTTTGGACCGAACCTCTATAAATATCTTGTGTCAAGTTTTCCTTCCCTAA
TCTCTTTTCATTTCGAATTGTTTTGTTTCAAATTTGTTCAAAACCCAAAAATTCGAAAAGAACCA
ATTCACCCCCTCTTGGTTCGTTGCTTGATAAGCTTCCAATTGGTATCAGAGCCTAACCTCCGTTC
AATAGATTCACACTCGGGAGAGACGATCAATTTCAAATCAAGAATGGAAGGTGCAATGATCAACA
ACTCAATTTTGATGAACCAAGAAGAAATATGTCTATATTTT
Found at i:1726803 original size:13 final size:13
Alignment explanation
Indices: 1726785--1726810 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1726775 CATTACTCAA
1726785 TGTATCGATACAT
1 TGTATCGATACAT
1726798 TGTATCGATACAT
1 TGTATCGATACAT
1726811 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1730492 original size:46 final size:46
Alignment explanation
Indices: 1730442--1730530 Score: 133
Period size: 46 Copynumber: 1.9 Consensus size: 46
1730432 AAGTAAGGCA
* * *
1730442 CTTCTTAAAATTAGGAACATAGAAACAGCTTTTCAATAAAATAGTT
1 CTTCTTAAAACTAAGAACATAAAAACAGCTTTTCAATAAAATAGTT
**
1730488 CTTCTTAAAACTAAGAACATAAAAACATTTTTTCAATAAAATA
1 CTTCTTAAAACTAAGAACATAAAAACAGCTTTTCAATAAAATA
1730531 AATCTAAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.47, C:0.13, G:0.07, T:0.33
Consensus pattern (46 bp):
CTTCTTAAAACTAAGAACATAAAAACAGCTTTTCAATAAAATAGTT
Found at i:1731312 original size:66 final size:66
Alignment explanation
Indices: 1731206--1731334 Score: 249
Period size: 66 Copynumber: 2.0 Consensus size: 66
1731196 ATGATTCTTT
*
1731206 ATCAAAGTACTTGCCTTTTGTTCACTATTTATTAAACTCGTAATAGTGGCCTGTTTAGTTAAAAG
1 ATCAAAGTACTTGCCTTTTGTTCACTATTTATTAAACTCGTAATAGTGGACTGTTTAGTTAAAAG
1731271 A
66 A
1731272 ATCAAAGTACTTGCCTTTTGTTCACTATTTATTAAACTCGTAATAGTGGACTGTTTAGTTAAA
1 ATCAAAGTACTTGCCTTTTGTTCACTATTTATTAAACTCGTAATAGTGGACTGTTTAGTTAAA
1731335 TTGACTTGGC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (66 bp):
ATCAAAGTACTTGCCTTTTGTTCACTATTTATTAAACTCGTAATAGTGGACTGTTTAGTTAAAAG
A
Found at i:1732519 original size:13 final size:13
Alignment explanation
Indices: 1732503--1732527 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1732493 ATCATGTATC
1732503 GATACAATGTACT
1 GATACAATGTACT
1732516 GATACAATGTAC
1 GATACAATGTAC
1732528 CATGTATCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (13 bp):
GATACAATGTACT
Found at i:1732520 original size:33 final size:33
Alignment explanation
Indices: 1732474--1732542 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
1732464 CCGTTACAAG
*
1732474 CAATGTATCGATACAAT-TCATCATGTATCGATA
1 CAATGTATCGATACAATGT-ACCATGTATCGATA
1732507 CAATGTA-CTGATACAATGTACCATGTATCGATA
1 CAATGTATC-GATACAATGTACCATGTATCGATA
1732540 CAA
1 CAA
1732543 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 1 0.03
33 31 0.94
34 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATGTATCGATA
Found at i:1732596 original size:20 final size:19
Alignment explanation
Indices: 1732570--1732643 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
1732560 ATTGCCAGTT
1732570 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAA-TGA
1732589 TCCATGTATCGATACAATGA
1 T-CATGTATCGATACAATGA
* *
1732609 TCATATATCGATACAAAGCA
1 TCATGTATCGATACAATG-A
*
1732629 TAATGTATCGATACA
1 TCATGTATCGATACA
1732644 TCTGGGTGTG
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 18 0.38
20 30 0.62
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.31
Consensus pattern (19 bp):
TCATGTATCGATACAATGA
Found at i:1735201 original size:13 final size:13
Alignment explanation
Indices: 1735180--1735219 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
1735170 ATAGTAACCC
1735180 ATGTATCGATACA
1 ATGTATCGATACA
*
1735193 ATGTGTCGATACA
1 ATGTATCGATACA
*
1735206 ATGTATCAATACA
1 ATGTATCGATACA
1735219 A
1 A
1735220 GGAATGTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1741305 original size:52 final size:51
Alignment explanation
Indices: 1741208--1741705 Score: 218
Period size: 49 Copynumber: 9.9 Consensus size: 51
1741198 AATGATAAAA
* * * ** *
1741208 AATGCCATTGTACTGATTCACGGCCAACAACATTAATGTTGAAGATGAGAAG
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATG-GAAG
* * *
1741260 AATGCCAATGTATTGAATCAAGGCCAACGATATTAAACTTAAAGAT-GAAG
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
* * * * *
1741310 GA-GCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAAATGGTAA-
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGG-AAG
* * * ** * *
1741360 AGGTGCCAATATGA-TGATTCAAGGCCAACGATATTGGACTT-AAGA--AAAA
1 A-ATGCCAATGT-ACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
** * *** *
1741409 AAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAG
1 AA--TGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
* * ** * ** ** *
1741462 -A-GCTAATATGTTGATTCAAGGCTAGTGACATTGGAGTTAAAGAT-GAA-
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
* * * * ** *
1741509 AGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGGTAA-
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGG-AAG
* * * ** * *** *
1741560 AGGTGCTAATATGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAAT-GAAG
1 A-ATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
* * ** *
1741611 GA-GCCAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAAAT-GAAG
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
* * * * **
1741660 -GTTCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
1 AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATG
1741706 AAGGTTTCAA
Statistics
Matches: 361, Mismatches: 65, Indels: 42
0.77 0.14 0.09
Matches are distributed among these distances:
48 4 0.01
49 189 0.52
50 41 0.11
51 13 0.04
52 111 0.31
53 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (51 bp):
AATGCCAATGTACTGATTCAAGGCCAACGACATTAAACTTAAAGATGGAAG
Found at i:1741335 original size:49 final size:49
Alignment explanation
Indices: 1741262--1741794 Score: 503
Period size: 49 Copynumber: 10.7 Consensus size: 49
1741252 ATGAGAAGAA
* * * * ** *
1741262 TGCCAATGTATTGAATCAAGGCCAACGATATTAAACTTAAAGATGAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
* * ** *
1741311 AGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAAATGGTAAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAAT-G--AAGG
* * * * **
1741363 TGCCAATATGATGATTCAAGGCCAACGATATTGGACTTAAGAAAAAAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAA-AAATGAAGG
* * *
1741413 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
* * * * * * * *
1741462 AGCTAATATGTTGATTCAAGGCTAGTGACATTGGAGTTAAAGATGAAAG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
* *
1741511 TGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGGTAAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAAT-G--AAGG
* * *
1741563 TGCTAATATGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
* ** * *
1741612 AGCCAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAAATGAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
* * *
1741661 TTCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
** * *
1741710 TTTCAATGTGTTGATTC-AGAGCCAGCAACATTGGACTTAAGAAA-GCCAAAGA
1 TGCCAATGTGTTGATTCAAG-GCCAGCGACATTGGACTTAA-AAATG---AAGG
* * *
1741762 TGCTAATGTGCTAATTCAAGGCCAGCGACATTG
1 TGCCAATGTGTTGATTCAAGGCCAGCGACATTG
1741795 AGCTTAGAAG
Statistics
Matches: 403, Mismatches: 68, Indels: 23
0.82 0.14 0.05
Matches are distributed among these distances:
48 2 0.00
49 243 0.60
50 43 0.11
51 1 0.00
52 109 0.27
53 5 0.01
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCCAATGTGTTGATTCAAGGCCAGCGACATTGGACTTAAAAATGAAGG
Found at i:1741367 original size:101 final size:99
Alignment explanation
Indices: 1741262--1741794 Score: 534
Period size: 101 Copynumber: 5.3 Consensus size: 99
1741252 ATGAGAAGAA
* * * * * ** *
1741262 TGCCAATGTATTGAATCAAGGCCAACGATATTAAACTTAAAGATGAAGGAGCCAATGTGCTGATT
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* *
1741327 CAAGGCCAATGACATTAGACTTAAAAATGGTAAAGG
66 CAAGGCCAACGACATTGGACTTAAAAAT-G-AAAGG
* * * * ** *
1741363 TGCCAATATGATGATTCAAGGCCAACGATATTGGACTTAAGAAAAAAAGGTGCCAATGTGTTGAT
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAA-AGATGAAGGTGCCAATGTGCTGAT
* * *
1741428 TCAAGGCCAGCGACATTGGGCTTAAAGATGAAA-G
65 TCAAGGCCAACGACATTGGACTTAAAAATGAAAGG
* * * * * * *
1741462 AGCTAATATGTTGATTCAAGGCTAGTGACATTGGAGTTAAAGATGAAAGTGCCAATATGCTGATT
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
*
1741527 CAAGGCCAGCGACATTGGACTTAAAAATGGTAAAGG
66 CAAGGCCAACGACATTGGACTTAAAAAT-G-AAAGG
* * * * *
1741563 TGCTAATATGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGAAGGAGCCAATGTACTGATT
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
*
1741628 CAAGGCTAACGACATTGGACTTAAAAATG-AAGG
66 CAAGGCCAACGACATTGGACTTAAAAATGAAAGG
* * * ** *
1741661 TTCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTTTCAATGTGTTGATT
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
* * *
1741726 C-AGAGCCAGCAACATTGGACTTAAGAAA-GCCAAAGA
66 CAAG-GCCAACGACATTGGACTTAA-AAATG--AAAGG
* * * *
1741762 TGCTAATGTGCTAATTCAAGGCCAGCGACATTG
1 TGCCAATATGTTGATTCAAGGCCAGCGACATTG
1741795 AGCTTAGAAG
Statistics
Matches: 361, Mismatches: 62, Indels: 18
0.82 0.14 0.04
Matches are distributed among these distances:
97 2 0.01
98 122 0.34
99 37 0.10
100 7 0.02
101 150 0.42
102 43 0.12
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.25
Consensus pattern (99 bp):
TGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATT
CAAGGCCAACGACATTGGACTTAAAAATGAAAGG
Found at i:1741525 original size:200 final size:199
Alignment explanation
Indices: 1741277--1741707 Score: 556
Period size: 200 Copynumber: 2.2 Consensus size: 199
1741267 ATGTATTGAA
* * ** * * *
1741277 TCAAGGCCAACGATATTAAACTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCCAATGACAT
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAGCCAATATGCTGATTCAAGGCCAACGACAT
*
1741342 TAGACTTAAAAATGGTAAAGGTGCCAATATGATGATTCAAGGCCAACGATATTGGACTTAAGAAA
66 TAGACTTAAAAATGGTAAAGGTGCCAATATGATGATTCAAGGCCAACGACATTGGACTTAA-AAA
* ** * * * *
1741407 AAAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAGAGCTAATATG
130 AAAAGGAGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAAGAGCCAATATG
*
1741472 TTGAT
195 CTGAT
* * * * *
1741477 TCAAGGCTAGTGACATTGGAGTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGACAT
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAGCCAATATGCTGATTCAAGGCCAACGACAT
* * * * * *
1741542 TGGACTTAAAAATGGTAAAGGTGCTAATATGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAAT
66 TAGACTTAAAAATGGTAAAGGTGCCAATATGATGATTCAAGGCCAACGACATTGGACTTAAAAAA
* * * ** *
1741607 GAAGGAGCCAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAAATGAAGGTTCCAATGTGC
131 AAAGGAGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAAGAGCCAATATGC
1741672 TGAT
196 TGAT
1741676 TCAAGGCCAGCGACATTGGACTTAAAGATGAA
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAA
1741708 GGTTTCAATG
Statistics
Matches: 195, Mismatches: 36, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
199 87 0.45
200 108 0.55
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.24
Consensus pattern (199 bp):
TCAAGGCCAGCGACATTGGACTTAAAGATGAAAGAGCCAATATGCTGATTCAAGGCCAACGACAT
TAGACTTAAAAATGGTAAAGGTGCCAATATGATGATTCAAGGCCAACGACATTGGACTTAAAAAA
AAAGGAGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAAGAGCCAATATGC
TGAT
Found at i:1741597 original size:150 final size:147
Alignment explanation
Indices: 1741297--1741749 Score: 566
Period size: 150 Copynumber: 3.0 Consensus size: 147
1741287 CGATATTAAA
* *
1741297 CTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAAATGGTAAAG
1 CTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAAAT-G-AAA-
* * * *
1741362 GTGCCAATATGATGATTCAAGGCCAACGATATTGGACTTAAGAAAAAAAGGTGCCAATGTGTTGA
63 GTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAA-AAAAAAAGGTGCCAATATGTTGA
1741427 TTCAAGGCCAGCGACATTGGG
127 TTCAAGGCCAGCGACATTGGG
* * * * * * *
1741448 CTTAAAGATGAAAGAGCTAATATGTTGATTCAAGGCTAGTGACATTGGAGTTAAAGATGAAAGTG
1 CTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAAATGAAAGTG
* *
1741513 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAATGGTAAAGGTGCTAATATGTTGAT
66 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAA---AAAAGGTGCCAATATGTTGAT
1741578 TCAAGGCCAGCGACATTGGG
128 TCAAGGCCAGCGACATTGGG
* * * * *
1741598 CTTAAAAATGAAGGAGCCAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAAATGAAGGTT
1 CTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAAATGAAAGTG
* * ** ** *
1741663 CCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTTTCAATGTGTTGATTC-
66 CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAAAAGGTGCCAATATGTTGATTCA
* *
1741727 AGAGCCAGCAACATTGGA
131 AG-GCCAGCGACATTGGG
1741745 CTTAA
1 CTTAA
1741750 GAAAGCCAAA
Statistics
Matches: 262, Mismatches: 36, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
146 2 0.01
147 39 0.15
148 38 0.15
149 3 0.01
150 131 0.50
151 49 0.19
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (147 bp):
CTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCTAATGACATTGGACTTAAAAATGAAAGTG
CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAAAAAAAGGTGCCAATATGTTGATTCA
AGGCCAGCGACATTGGG
Found at i:1741727 original size:199 final size:200
Alignment explanation
Indices: 1741277--1741800 Score: 613
Period size: 199 Copynumber: 2.6 Consensus size: 200
1741267 ATGTATTGAA
* * ** * **
1741277 TCAAGGCCAACGATATTAAACTTAAAGATGAAGGAGCCAATGTGCTGATTCAAGGCCAATGACAT
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
* * * * *
1741342 TAGACTTAAAAATGGTAAAGGTGCCAATATGATGATTCAAGGCCAACGATATTGGACTTAAGAAA
66 TGGACTTAAAAATGGTAAAGGTGCTAATATGATGATTCAAGGCCAGCGACATTGGGCTTAAGAAA
* ** * * * *
1741407 AAAAGGTGCCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAGAGCTAATATG
131 AAAAGGAGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAAGAGCCAATATG
*
1741472 TTGAT
196 CTGAT
* * * * *
1741477 TCAAGGCTAGTGACATTGGAGTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGACAT
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
*
1741542 TGGACTTAAAAATGGTAAAGGTGCTAATATGTTGATTCAAGGCCAGCGACATTGGGCTTAA-AAA
66 TGGACTTAAAAATGGTAAAGGTGCTAATATGATGATTCAAGGCCAGCGACATTGGGCTTAAGAAA
** * * ** *
1741606 TGAAGGAGCCAATGTACTGATTCAAGGCTAACGACATTGGACTTAAAAATGAAGGTTCCAATGTG
131 AAAAGGAGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAAGAGCCAATATG
1741671 CTGAT
196 CTGAT
** * *
1741676 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTTTCAATGTGTTGATTC-AGAGCCAGCAACA
1 TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAG-GCCAGCGACA
** * * * * *
1741740 TTGGACTTAAGAAA-GCCAAAGATGCTAATGTGCTAATTCAAGGCCAGCGACATTGAGCTTA
65 TTGGACTTAA-AAATGGTAAAGGTGCTAATATGATGATTCAAGGCCAGCGACATTGGGCTTA
1741801 GAAGGGTTGC
Statistics
Matches: 273, Mismatches: 49, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
198 2 0.01
199 160 0.59
200 111 0.41
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (200 bp):
TCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
TGGACTTAAAAATGGTAAAGGTGCTAATATGATGATTCAAGGCCAGCGACATTGGGCTTAAGAAA
AAAAGGAGCCAATGTACTGATTCAAGGCCAACGACATTGGACTTAAAAATGAAAGAGCCAATATG
CTGAT
Found at i:1741770 original size:150 final size:146
Alignment explanation
Indices: 1741264--1741794 Score: 542
Period size: 150 Copynumber: 3.5 Consensus size: 146
1741254 GAGAAGAATG
* * * * *** * * *
1741264 CCAATGTATTGAATCAAGGCCAACGATATTAAACTTAAAGATGAAGGAGCCAATGTGCTGATTCA
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAA-AAGAAAGAGCTAATGTGCTGATTCA
* * * * *
1741329 AGGCCAATGACATTAGACTTAAAAATGGTAAAGGTGCCAATATGATGATTCAAGGCCAACGATAT
65 AGGCCAACGACATTGGACTTAAAAAT-G--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACAT
** *
1741394 TGGACTTAAGAAAAAAAGGTG
127 TGGACTTAA-AAATGAAGGTT
* * *
1741415 CCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGAAAGAGCTAATATGTTGATTCA
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAA-AAGAAAGAGCTAATGTGCTGATTCA
* ** * * *
1741480 AGGCTAGTGACATTGGAGTTAAAGATGAAAGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
65 AGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
*
1741545 ACTTAAAAATGGTAAAGGTG
130 ACTTAAAAAT-G--AAGGTT
* * * * *
1741565 CTAATATGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAATGAAGGAGCCAATGTACTGATTCA
1 CCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAA-GAAAGAGCTAATGTGCTGATTCA
* * *
1741630 AGGCTAACGACATTGGACTTAAAAATGAAGGTTCCAATGTGCTGATTCAAGGCCAGCGACATTGG
65 AGGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGG
*
1741695 ACTTAAAGATGAAGGTT
130 ACTTAAAAATGAAGGTT
* * * *
1741712 TCAATGTGTTGATTC-AGAGCCAGCAACATTGGACTTAAGAAAGCCAAAGATGCTAATGTGCTAA
1 CCAATGTGTTGATTCAAG-GCCAGCGACATTGGGCTTAA-AAAG--AAAGA-GCTAATGTGCTGA
*
1741776 TTCAAGGCCAGCGACATTG
61 TTCAAGGCCAACGACATTG
1741795 AGCTTAGAAG
Statistics
Matches: 321, Mismatches: 50, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
146 2 0.01
147 39 0.12
148 43 0.13
149 6 0.02
150 156 0.49
151 75 0.23
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (146 bp):
CCAATGTGTTGATTCAAGGCCAGCGACATTGGGCTTAAAAAGAAAGAGCTAATGTGCTGATTCAA
GGCCAACGACATTGGACTTAAAAATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGA
CTTAAAAATGAAGGTT
Found at i:1741870 original size:32 final size:32
Alignment explanation
Indices: 1741802--1741876 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
1741792 TTGAGCTTAG
* * *
1741802 AAGGGTTGCCACCGACTTTGTGGGCTTTAGAG
1 AAGGGTTGCCACCGACTTTCTAGGCTTTAGAA
* *
1741834 AAGGGTTGCCGCTGACTTGTCTAGGCTTTA-AA
1 AAGGGTTGCCACCGACTT-TCTAGGCTTTAGAA
*
1741866 AAGGGGTGCCA
1 AAGGGTTGCCA
1741877 TTGAGTTGTA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
32 26 0.74
33 9 0.26
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (32 bp):
AAGGGTTGCCACCGACTTTCTAGGCTTTAGAA
Found at i:1741904 original size:27 final size:28
Alignment explanation
Indices: 1741864--1741922 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
1741854 CTAGGCTTTA
* *
1741864 AAAAGGGGTGCCATTGAGTTGTAGACTT
1 AAAAGGGGTACCATAGAGTTGTAGACTT
*
1741892 AAAA-GGGTACCATAGAGTTGTGGACTT
1 AAAAGGGGTACCATAGAGTTGTAGACTT
1741919 AAAA
1 AAAA
1741923 AGAAAAAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.36, C:0.10, G:0.29, T:0.25
Consensus pattern (28 bp):
AAAAGGGGTACCATAGAGTTGTAGACTT
Found at i:1741963 original size:27 final size:27
Alignment explanation
Indices: 1741925--1742307 Score: 239
Period size: 27 Copynumber: 13.2 Consensus size: 27
1741915 ACTTAAAAAG
* *
1741925 AAAAAGGTGCCACAGAGTCATGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
**
1741952 AAAAGGGTGCCATGGAGTTATAGG-CTT
1 AAAAGGGTGCCACAGAGTTAT-GGACTT
* * *
1741979 AAAAGGGTGCCACGGAATTATGGGCTTT
1 AAAAGGGTGCCACAGAGTTATGGAC-TT
*
1742007 GAAAAGAAAAAGGTGCCACAGAGTTGTGGACTT
1 -AAAAG-----GGTGCCACAGAGTTATGGACTT
* *
1742040 AAAAGGGTGCCACAGAGTTGTGCACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
* *
1742067 AAAAAGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
* *
1742094 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
*
1742121 AAAAGGAAAAGGTGCCACAGAGTTATGAACTT
1 AAAA-G----GGTGCCACAGAGTTATGGACTT
* * *
1742153 AAAAGGTGAAAGAATGCCACGGAGTTGTGGGCTT
1 AAAA-G-G---G--TGCCACAGAGTTATGGACTT
* * *
1742187 AAAAGGGTGCCACGGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
* * *
1742214 TAAAGGGTGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACAGAGTTATGGACTT
** *
1742241 AACAGGAAAAAGGGTGTGACAGAGTTGTGGACTT
1 -------AAAAGGGTGCCACAGAGTTATGGACTT
* *
1742275 AAAAGGGTGCTAC-GAAGTTGTGGACTT
1 AAAAGGGTGCCACAG-AGTTATGGACTT
1742302 AAAAGG
1 AAAAGG
1742308 AAAAAGGGTA
Statistics
Matches: 294, Mismatches: 35, Indels: 54
0.77 0.09 0.14
Matches are distributed among these distances:
26 3 0.01
27 185 0.63
28 5 0.02
29 7 0.02
32 32 0.11
33 3 0.01
34 59 0.20
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTATGGACTT
Done.