Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 29 of 144
Found at i:7188978 original size:18 final size:18
Alignment explanation
Indices: 7188955--7188991 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7188945 CAGCACCCCT
*
7188955 TCCCTCACCCTCATCACC
1 TCCCTCACCCTCAACACC
7188973 TCCCTCACCCTCAACACC
1 TCCCTCACCCTCAACACC
7188991 T
1 T
7188992 TCACTAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.59, G:0.00, T:0.22
Consensus pattern (18 bp):
TCCCTCACCCTCAACACC
Found at i:7189019 original size:54 final size:54
Alignment explanation
Indices: 7188924--7189028 Score: 133
Period size: 54 Copynumber: 1.9 Consensus size: 54
7188914 TCACCCTTAA
* * * * *
7188924 CACCTTCAACACTTTCACTAACAGCACCCCTTCCCTCACCCTCATCACCTCCCT
1 CACCCTCAACACCTTCACTAACACCACCCCTTCACTCACCCTCACCACCTCCCT
7188978 CACCCTCAACACCTTCACTAACACCA-CCCTT-ACTCGAACCCTCACCACCTC
1 CACCCTCAACACCTTCACTAACACCACCCCTTCACTC--ACCCTCACCACCTC
7189029 TCAAACCCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
52 3 0.07
53 5 0.11
54 36 0.82
ACGTcount: A:0.25, C:0.52, G:0.02, T:0.21
Consensus pattern (54 bp):
CACCCTCAACACCTTCACTAACACCACCCCTTCACTCACCCTCACCACCTCCCT
Found at i:7189025 original size:21 final size:21
Alignment explanation
Indices: 7188999--7189050 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 21
7188989 CCTTCACTAA
*
7188999 CACCACCCTTACTCGAACCCT
1 CACCACCCTTACTCAAACCCT
7189020 CACCA-CC-T-CTCAAACCCT
1 CACCACCCTTACTCAAACCCT
7189038 CACCACCCTTACT
1 CACCACCCTTACT
7189051 GCCATAATCC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.52
19 3 0.11
20 3 0.11
21 7 0.26
ACGTcount: A:0.25, C:0.54, G:0.02, T:0.19
Consensus pattern (21 bp):
CACCACCCTTACTCAAACCCT
Found at i:7189037 original size:54 final size:54
Alignment explanation
Indices: 7188929--7189044 Score: 128
Period size: 54 Copynumber: 2.1 Consensus size: 54
7188919 CTTAACACCT
* * * * **
7188929 TCAACACTTTCACTAACAGCACCCCTTCCCTCACCCTCATCACCTCCCTCACCC
1 TCAACACCTTCACTAACACCACCCCTTCACTCACCCTCACCACCTCCCAAACCC
*
7188983 TCAACACCTTCACTAACACCA-CCCTT-ACTCGAACCCTCACCACCTCTCAAACCC
1 TCAACACCTTCACTAACACCACCCCTTCACTC--ACCCTCACCACCTCCCAAACCC
*
7189037 TCACCACC
1 TCAACACC
7189045 CTTACTGCCA
Statistics
Matches: 52, Mismatches: 8, Indels: 4
0.81 0.12 0.06
Matches are distributed among these distances:
52 3 0.06
53 5 0.10
54 44 0.85
ACGTcount: A:0.26, C:0.53, G:0.02, T:0.20
Consensus pattern (54 bp):
TCAACACCTTCACTAACACCACCCCTTCACTCACCCTCACCACCTCCCAAACCC
Found at i:7189181 original size:18 final size:18
Alignment explanation
Indices: 7189160--7189195 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7189150 CCTTCCCTCA
*
7189160 CCCTCACCCTCACCACCT
1 CCCTCACCCTCAACACCT
7189178 CCCTCACCCTCAACACCT
1 CCCTCACCCTCAACACCT
7189196 TCACTAACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.64, G:0.00, T:0.17
Consensus pattern (18 bp):
CCCTCACCCTCAACACCT
Found at i:7189223 original size:60 final size:63
Alignment explanation
Indices: 7189084--7189230 Score: 189
Period size: 60 Copynumber: 2.4 Consensus size: 63
7189074 CAACACCCTT
*
7189084 ACCCTTACTCGAACCCTCACCACCACCATCACCCTCAACACCTACAACACCTTCACTAACAAC
1 ACCCTTACTCGAACCCTCACCACCACCACCACCCTCAACACCTACAACACCTTCACTAACAAC
* * *
7189147 ACCCCTTCCCTC--ACCCTCACC-CTCACCACCTCCCTC-AC-CCT-CAACACCTTCACTAACAG
1 A-CCCTT-ACTCGAACCCTCACCAC-CACCACCACCCTCAACACCTACAACACCTTCACTAACAA
7189206 C
63 C
7189207 ACCCTTACTCGAACCCTCACCACC
1 ACCCTTACTCGAACCCTCACCACC
7189231 TTTCAAACCC
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
58 3 0.04
59 5 0.07
60 29 0.40
61 4 0.05
62 3 0.04
63 21 0.29
64 5 0.07
65 3 0.04
ACGTcount: A:0.27, C:0.54, G:0.02, T:0.17
Consensus pattern (63 bp):
ACCCTTACTCGAACCCTCACCACCACCACCACCCTCAACACCTACAACACCTTCACTAACAAC
Found at i:7189241 original size:204 final size:198
Alignment explanation
Indices: 7188897--7189285 Score: 634
Period size: 204 Copynumber: 1.9 Consensus size: 198
7188887 CCTTTACCCA
* * * * * *
7188897 AACCCTCACCACCTCCTTCACCCTTAACACCTTCAACACTTTCACTAACAGCACCCCTTCCCTCA
1 AACCCTCACCACCACCATCACCCTCAACACCTACAACACCTTCACTAACAACACCCCTTCCCTCA
7188962 CCCTCATCACCTCCCTCACCCTCAACACCTTCACTAACACCACCCTTACTCGAACCCTCACCACC
66 CCCTCATCACCTCCCTCACCCTCAACACCTTCACTAACACCACCCTTACTCGAACCCTCACCACC
7189027 TCTCAAACCCTCACCACCCTTACTGCCATAATCCAAACCCTCACCCTCAACACCCTTACCCTTAC
131 TCTCAAACCCTCACCACCCTTACTGCCATAATCCAAACCCTCACCCTCAACACCCTTACCCTTAC
7189092 TCG
196 TCG
7189095 AACCCTCACCACCACCATCACCCTCAACACCTACAACACCTTCACTAACAACACCCCTTCCCTCA
1 AACCCTCACCACCACCATCACCCTCAACACCTACAACACCTTCACTAACAACACCCCTTCCCTCA
*
7189160 CCCTCACCCTCACCACCTCCCTCACCCTCAACACCTTCACTAACAGCACCCTTACTCGAACCCTC
66 CCCTCA---T---CACCTCCCTCACCCTCAACACCTTCACTAACACCACCCTTACTCGAACCCTC
* * *
7189225 ACCACCTTTCAAACCCTCACTACCCTTACTGCCATCATCCAAACCCTCACCCTCAACACCC
125 ACCACCTCTCAAACCCTCACCACCCTTACTGCCATAATCCAAACCCTCACCCTCAACACCC
7189286 GAACCCTCAA
Statistics
Matches: 175, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
198 65 0.37
201 1 0.01
204 109 0.62
ACGTcount: A:0.27, C:0.52, G:0.02, T:0.20
Consensus pattern (198 bp):
AACCCTCACCACCACCATCACCCTCAACACCTACAACACCTTCACTAACAACACCCCTTCCCTCA
CCCTCATCACCTCCCTCACCCTCAACACCTTCACTAACACCACCCTTACTCGAACCCTCACCACC
TCTCAAACCCTCACCACCCTTACTGCCATAATCCAAACCCTCACCCTCAACACCCTTACCCTTAC
TCG
Found at i:7189309 original size:18 final size:17
Alignment explanation
Indices: 7189271--7189317 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 17
7189261 ATCCAAACCC
*
7189271 TCACCCTCAACACCCGA
1 TCACCCTCAACACCCCA
7189288 --ACCCTCAACACCACCA
1 TCACCCTCAACACC-CCA
*
7189304 TCACCCTCACCACC
1 TCACCCTCAACACC
7189318 TTTATTACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
15 12 0.48
16 2 0.08
18 11 0.44
ACGTcount: A:0.30, C:0.57, G:0.02, T:0.11
Consensus pattern (17 bp):
TCACCCTCAACACCCCA
Found at i:7191000 original size:44 final size:43
Alignment explanation
Indices: 7190926--7191014 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
7190916 CTAAGTCCCG
* *
7190926 AAAATCCCCAAATTTTTAAACTTAAACCAAAATCTCCAAACCC
1 AAAATCCCCAAATTTTTAAACCTAAACCAAAATCCCCAAACCC
* *
7190969 AAAATCCCCAAATTTCTTAAACCTAAACCAAATTCCCCTAACCC
1 AAAATCCCCAAATTT-TTAAACCTAAACCAAAATCCCCAAACCC
7191013 AA
1 AA
7191015 CAACCCTAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 15 0.37
44 26 0.63
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (43 bp):
AAAATCCCCAAATTTTTAAACCTAAACCAAAATCCCCAAACCC
Found at i:7198293 original size:20 final size:20
Alignment explanation
Indices: 7198265--7198305 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7198255 ATTGCTTCTC
*
7198265 AAAAGCACTTTTGAGATAAA
1 AAAAACACTTTTGAGATAAA
*
7198285 AAAAACACTTTTGTGATAAA
1 AAAAACACTTTTGAGATAAA
7198305 A
1 A
7198306 GCATTACTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (20 bp):
AAAAACACTTTTGAGATAAA
Found at i:7201053 original size:32 final size:33
Alignment explanation
Indices: 7201017--7201083 Score: 109
Period size: 32 Copynumber: 2.1 Consensus size: 33
7201007 ATGTTATTAA
7201017 TTCATAGTTTCAACATATT-TTTTATACATTTT
1 TTCATAGTTTCAACATATTCTTTTATACATTTT
**
7201049 TTCATAGTTTCAGTATATTCTTTTATACATTTT
1 TTCATAGTTTCAACATATTCTTTTATACATTTT
7201082 TT
1 TT
7201084 TTGAAGTTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.25, C:0.12, G:0.04, T:0.58
Consensus pattern (33 bp):
TTCATAGTTTCAACATATTCTTTTATACATTTT
Found at i:7201596 original size:36 final size:36
Alignment explanation
Indices: 7201549--7201617 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
7201539 CCAAAATACT
7201549 CTTCCTCTCATTTTTCAACCCTACTGTTGATACACG
1 CTTCCTCTCATTTTTCAACCCTACTGTTGATACACG
7201585 CTTCCTCTCATTTTTCAACCCTACTGTTGATAC
1 CTTCCTCTCATTTTTCAACCCTACTGTTGATAC
7201618 CGTGTATCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.19, C:0.33, G:0.07, T:0.41
Consensus pattern (36 bp):
CTTCCTCTCATTTTTCAACCCTACTGTTGATACACG
Found at i:7202247 original size:29 final size:29
Alignment explanation
Indices: 7202189--7202249 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 29
7202179 ACACTTTAAC
* *
7202189 TTTTTAAAAATAATAAAAATTTAATTTAA
1 TTTTTAAAAATAATAAAAATATAATATAA
*
7202218 TTTTTAAAAAATTATAAAAATATAA-ATAA
1 TTTTT-AAAAATAATAAAAATATAATATAA
7202247 TTT
1 TTT
7202250 AATTTTGATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
TTTTTAAAAATAATAAAAATATAATATAA
Found at i:7208567 original size:58 final size:58
Alignment explanation
Indices: 7208493--7208609 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
7208483 TAATTCACCC
*
7208493 AGAAAATTATAGCTGATTGAGTCTCAACTCGATTGGCATGAGTATTGTTGTCAATGCA
1 AGAAAATTATAGCTGATTGAATCTCAACTCGATTGGCATGAGTATTGTTGTCAATGCA
7208551 AGAAAATTATAGCTGATTGAATCTCAACTCGATTGGCATGAGTATTGTTGTCAATGCA
1 AGAAAATTATAGCTGATTGAATCTCAACTCGATTGGCATGAGTATTGTTGTCAATGCA
7208609 A
1 A
7208610 AGGAACGTGA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.32
Consensus pattern (58 bp):
AGAAAATTATAGCTGATTGAATCTCAACTCGATTGGCATGAGTATTGTTGTCAATGCA
Found at i:7213376 original size:21 final size:21
Alignment explanation
Indices: 7213350--7213401 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
7213340 AACCCGACCT
7213350 GTTGACCGTT-GACAGTTGATC
1 GTTGACCGTTGGA-AGTTGATC
*
7213371 GTTGACCATTGGAAGTTGATC
1 GTTGACCGTTGGAAGTTGATC
7213392 GTTGACCGTT
1 GTTGACCGTT
7213402 ACCAATGTCT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.19, C:0.17, G:0.29, T:0.35
Consensus pattern (21 bp):
GTTGACCGTTGGAAGTTGATC
Found at i:7214483 original size:22 final size:21
Alignment explanation
Indices: 7214458--7214498 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
7214448 TTAATTATAG
7214458 TTATTTTATTTCATCTTTTATC
1 TTATTTTATTTCAT-TTTTATC
*
7214480 TTATTTTATTTTATTTTTA
1 TTATTTTATTTCATTTTTA
7214499 GGTTTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (21 bp):
TTATTTTATTTCATTTTTATC
Found at i:7220517 original size:20 final size:20
Alignment explanation
Indices: 7220488--7220525 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7220478 CTCGTTAACC
7220488 GTTGACCGTTGACTTTTTAG
1 GTTGACCGTTGACTTTTTAG
*
7220508 GTTGATCGTTGACTTTTT
1 GTTGACCGTTGACTTTTT
7220526 TTGAGTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.13, G:0.24, T:0.50
Consensus pattern (20 bp):
GTTGACCGTTGACTTTTTAG
Found at i:7221998 original size:16 final size:15
Alignment explanation
Indices: 7221977--7222022 Score: 60
Period size: 14 Copynumber: 3.1 Consensus size: 15
7221967 CATATAGAAA
7221977 TATGATTCATCATATT
1 TATGATTCAT-ATATT
7221993 TATGATTCAT-TATAT
1 TATGATTCATATAT-T
7222008 TAT-ATTCATATATT
1 TATGATTCATATATT
7222022 T
1 T
7222023 TACTTTAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 11 0.39
15 7 0.25
16 10 0.36
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (15 bp):
TATGATTCATATATT
Found at i:7222019 original size:13 final size:14
Alignment explanation
Indices: 7221977--7222021 Score: 56
Period size: 16 Copynumber: 3.1 Consensus size: 14
7221967 CATATAGAAA
7221977 TATGATTCATCATATT
1 TATGATTCAT-ATA-T
7221993 TATGATTCATTATAT
1 TATGATTCA-TATAT
7222008 TAT-ATTCATATAT
1 TATGATTCATATAT
7222021 T
1 T
7222022 TTACTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
13 6 0.21
14 5 0.18
15 4 0.14
16 12 0.43
17 1 0.04
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (14 bp):
TATGATTCATATAT
Found at i:7222946 original size:44 final size:43
Alignment explanation
Indices: 7222896--7223098 Score: 192
Period size: 43 Copynumber: 4.7 Consensus size: 43
7222886 CCGCAAAAAA
*
7222896 TAGCGGCG-TTTATGCGAAAAAGCGCCGGTAAAGAACATGTTCTT
1 TAGCGGCGCTTTAT-C-AAAAAGCGCCGCTAAAGAACATGTTCTT
* * *
7222940 TAGCGGCGCTTTATCCACAAGCGCCGCTGAAGAACATGTTCTT
1 TAGCGGCGCTTTATCAAAAAGCGCCGCTAAAGAACATGTTCTT
* * * * * **
7222983 TAGTGGCGCTTTATCCATAAGCGCCGTTGAAGGCCATGTTCTT
1 TAGCGGCGCTTTATCAAAAAGCGCCGCTAAAGAACATGTTCTT
* * * * * **
7223026 TACCGGCGCTTTTTCCACAAGCGCCGCTGAAGGCCATGTTCTT
1 TAGCGGCGCTTTATCAAAAAGCGCCGCTAAAGAACATGTTCTT
* **
7223069 TAGCGGCGCTTTCTCATCAAGCGCCGCTAA
1 TAGCGGCGCTTTATCAAAAAGCGCCGCTAA
7223099 TATAACAGAT
Statistics
Matches: 139, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
43 125 0.90
44 9 0.06
45 5 0.04
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (43 bp):
TAGCGGCGCTTTATCAAAAAGCGCCGCTAAAGAACATGTTCTT
Found at i:7222965 original size:43 final size:43
Alignment explanation
Indices: 7222915--7223096 Score: 240
Period size: 43 Copynumber: 4.2 Consensus size: 43
7222905 TTATGCGAAA
* *
7222915 AAGCGCCGGTAAAGAACATGTTCTTTAGCGGCGCTTTATCCAC
1 AAGCGCCGCTGAAGAACATGTTCTTTAGCGGCGCTTTATCCAC
* *
7222958 AAGCGCCGCTGAAGAACATGTTCTTTAGTGGCGCTTTATCCAT
1 AAGCGCCGCTGAAGAACATGTTCTTTAGCGGCGCTTTATCCAC
* ** * *
7223001 AAGCGCCGTTGAAGGCCATGTTCTTTACCGGCGCTTTTTCCAC
1 AAGCGCCGCTGAAGAACATGTTCTTTAGCGGCGCTTTATCCAC
** *
7223044 AAGCGCCGCTGAAGGCCATGTTCTTTAGCGGCGCTTTCT-CATC
1 AAGCGCCGCTGAAGAACATGTTCTTTAGCGGCGCTTTATCCA-C
7223087 AAGCGCCGCT
1 AAGCGCCGCT
7223097 AATATAACAG
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 2 0.02
43 122 0.98
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.27
Consensus pattern (43 bp):
AAGCGCCGCTGAAGAACATGTTCTTTAGCGGCGCTTTATCCAC
Found at i:7223434 original size:21 final size:21
Alignment explanation
Indices: 7223410--7223449 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7223400 CTTCCTTCGA
*
7223410 TTGCCTCGTTGCTGCCTCCGC
1 TTGCCTCGCTGCTGCCTCCGC
7223431 TTGCCTCGCTGCTGCCTCC
1 TTGCCTCGCTGCTGCCTCC
7223450 ACTTTAAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.45, G:0.23, T:0.33
Consensus pattern (21 bp):
TTGCCTCGCTGCTGCCTCCGC
Found at i:7223551 original size:66 final size:66
Alignment explanation
Indices: 7223445--7223592 Score: 217
Period size: 66 Copynumber: 2.2 Consensus size: 66
7223435 CTCGCTGCTG
* *
7223445 CCTCCACTTTAAGTTGTATGTGGAGTTCTTCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
1 CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
7223510 A
66 A
* * **
7223511 CCTCCTCTTTAAGTTTTA-GATGGAGTTCATCATATTTTTTTTGAGCCTCTGCTTCTCTCGTTGC
1 CCTCCTCTTTAAGTTGTATG-TGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGC
*
7223575 AG
65 AA
7223577 CCTCCTCTTTAAGTTG
1 CCTCCTCTTTAAGTTG
7223593 AGCGATTTGC
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
65 1 0.01
66 72 0.99
ACGTcount: A:0.16, C:0.24, G:0.16, T:0.45
Consensus pattern (66 bp):
CCTCCTCTTTAAGTTGTATGTGGAGTTCATCATATTTTTTTTGAGACTCTGCTTCTCTCACTGCA
A
Found at i:7224427 original size:14 final size:14
Alignment explanation
Indices: 7224408--7224437 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7224398 AAGATAGGTT
7224408 CAATTATATATTCC
1 CAATTATATATTCC
7224422 CAATTATATATTCC
1 CAATTATATATTCC
7224436 CA
1 CA
7224438 TTCAACAGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (14 bp):
CAATTATATATTCC
Found at i:7225215 original size:12 final size:12
Alignment explanation
Indices: 7225198--7225223 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7225188 TTACACTACC
7225198 AATGAAAGAAGT
1 AATGAAAGAAGT
7225210 AATGAAAGAAGT
1 AATGAAAGAAGT
7225222 AA
1 AA
7225224 CAGATTCAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.23, T:0.15
Consensus pattern (12 bp):
AATGAAAGAAGT
Found at i:7226336 original size:41 final size:41
Alignment explanation
Indices: 7226282--7226595 Score: 315
Period size: 41 Copynumber: 7.6 Consensus size: 41
7226272 GAAAGAATTA
* *
7226282 AATGATCCTACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCT
1 AATGACCCGACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCT
* *
7226323 AATGACCCGACCTTTTAGTGGCGCTTTAGGGAAAGCGCCGCT
1 AATGACCCGACC-TTTAGCGGCGCTTGAGGGAAAGCGCCGCT
* ** * ** *
7226365 AATGATCATACCTTTAGCGGCACTTGAGTTAAAGCACCGCT
1 AATGACCCGACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCT
* * * *
7226406 AATTACCTGACCTTTAGCGGCGCTTGAGGAAAAGCACCGCT
1 AATGACCCGACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCT
* *** *
7226447 AATTACAATACCTTTAGCGGCGCATT-AGAGAAAGCGCCGCT
1 AATGACCCGACCTTTAGCGGCGC-TTGAGGGAAAGCGCCGCT
** * **
7226488 AATGACTTGAACTTTAGCGGCGCTTGAGATAAAGCGCCGCT
1 AATGACCCGACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCT
* ** ** *
7226529 AATTACATGACCTTTAGCGGCGCTTTTGGGTAAATCGCCGCT
1 AATGACCCGACCTTTAGCGGCGCTTGAGGG-AAAGCGCCGCT
7226571 AATGACCCGACCTTTAGCGGCGCTT
1 AATGACCCGACCTTTAGCGGCGCTT
7226596 TTGTTAAGCG
Statistics
Matches: 226, Mismatches: 43, Indels: 7
0.82 0.16 0.03
Matches are distributed among these distances:
40 2 0.01
41 154 0.68
42 70 0.31
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (41 bp):
AATGACCCGACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCT
Found at i:7226605 original size:82 final size:80
Alignment explanation
Indices: 7226290--7226676 Score: 366
Period size: 82 Copynumber: 4.8 Consensus size: 80
7226280 TAAATGATCC
* * *
7226290 TACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCTTTTAGTGGCGCTTTAGGGA
1 TACCTTTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCCGACC-TTTAGCGGCGCTTT-GGTA
*
7226355 AAGCGCCGCTAATGATCA
64 AAGCGCCGCTAATTA-CA
* * ** * * * * *
7226373 TACCTTTAGCGGCACTTGAGTTAAAGCACCGCTAATTACCTGACCTTTAGCGGCGCTTGAGGAAA
1 TACCTTTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTT-TGGTAA
*
7226438 AGCACCGCTAATTACAA
65 AGCGCCGCTAATTAC-A
* * ** *
7226455 TACCTTTAGCGGCGCATTAGAGAAAGCGCCGCTAATGACTTGAACTTTAGCGGCGC-TTGAGATA
1 TACCTTTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTG-G-TA
7226519 AAGCGCCGCTAATTACA
64 AAGCGCCGCTAATTACA
* * * *
7226536 TGACCTTTAGCGGCGCTTTTGGGTAAATCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTTGTT
1 T-ACCTTTAGCGGCGCTTTAGGG-AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTGGTA
* *
7226601 AAGCGCCGCTAA-TGCTT
64 AAGCGCCGCTAATTAC-A
* * * * *** *
7226618 TACCTTTTGCGGCGCATTAAGAAAAGCGCCGCTAATG-CTTTACCTTTTGCGGCGCTTTG
1 TACCTTTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTG
7226677 TTTCCAAACG
Statistics
Matches: 251, Mismatches: 45, Indels: 20
0.79 0.14 0.06
Matches are distributed among these distances:
79 17 0.07
80 15 0.06
81 23 0.09
82 124 0.49
83 70 0.28
84 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (80 bp):
TACCTTTAGCGGCGCTTTAGGGAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTGGTAAA
GCGCCGCTAATTACA
Found at i:7226605 original size:123 final size:121
Alignment explanation
Indices: 7226291--7226675 Score: 425
Period size: 123 Copynumber: 3.1 Consensus size: 121
7226281 AAATGATCCT
** *
7226291 ACCTTTAGCGGCGCTTGAGGGAAAGCGCCGCTAATGACCCGACCTTTTAGTGGCGCTTTAGGGAA
1 ACCTTTAGCGGCGCTTTTGGGAAAGCGCCGCTAATGACCCGACC-TTTAGCGGCGCTTTA-GGAA
* * * * *
7226356 AGCGCCGCTAATGATCATACCTTTAGCGGCACTTGAGTTAAAGCACCGCTAATTACCTG
64 AGCGCCGCTAATGA-CTTACCTTTAGCGGCGCTTGAGATAAAGCGCCGCTAATTACATG
** * * * *** *
7226415 ACCTTTAGCGGCGCTTGAGGAAAAGCACCGCTAATTACAATACCTTTAGCGGCGCATTAGAGAAA
1 ACCTTTAGCGGCGCTTTTGGGAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAG-GAAA
*
7226480 GCGCCGCTAATGACTTGAACTTTAGCGGCGCTTGAGATAAAGCGCCGCTAATTACATG
65 GCGCCGCTAATGACTT-ACCTTTAGCGGCGCTTGAGATAAAGCGCCGCTAATTACATG
* * **
7226538 ACCTTTAGCGGCGCTTTTGGGTAAATCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTTGTTAA
1 ACCTTTAGCGGCGCTTTTGGG-AAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAGGAAA
* * * * *
7226603 GCGCCGCTAATG-CTTTACCTTTTGCGGCGCATTAAGA-AAAGCGCCGCTAA-TGCTTT
65 GCGCCGCTAATGAC-TTACCTTTAGCGGCGC-TTGAGATAAAGCGCCGCTAATTACATG
*
7226659 ACCTTTTGCGGCGCTTT
1 ACCTTTAGCGGCGCTTT
7226676 GTTTCCAAAC
Statistics
Matches: 222, Mismatches: 34, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
121 19 0.09
122 29 0.13
123 105 0.47
124 69 0.31
ACGTcount: A:0.24, C:0.25, G:0.25, T:0.26
Consensus pattern (121 bp):
ACCTTTAGCGGCGCTTTTGGGAAAGCGCCGCTAATGACCCGACCTTTAGCGGCGCTTTAGGAAAG
CGCCGCTAATGACTTACCTTTAGCGGCGCTTGAGATAAAGCGCCGCTAATTACATG
Found at i:7228104 original size:12 final size:12
Alignment explanation
Indices: 7228089--7228131 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
7228079 TATTATTTAT
7228089 TATTTAAATTTG
1 TATTTAAATTTG
7228101 TATTTAAATTATG
1 TATTTAAATT-TG
* **
7228114 TATATATTTTTG
1 TATTTAAATTTG
7228126 TATTTA
1 TATTTA
7228132 TCTTTTAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (12 bp):
TATTTAAATTTG
Found at i:7228115 original size:13 final size:13
Alignment explanation
Indices: 7228085--7228116 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
7228075 AGGATATTAT
7228085 TTAT-TATTTAAA
1 TTATGTATTTAAA
7228097 TT-TGTATTTAAA
1 TTATGTATTTAAA
7228109 TTATGTAT
1 TTATGTAT
7228117 ATATTTTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 1 0.06
12 12 0.67
13 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (13 bp):
TTATGTATTTAAA
Found at i:7229293 original size:62 final size:62
Alignment explanation
Indices: 7229177--7229292 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 62
7229167 TTAATATAAT
* * *
7229177 ATTTGGTACCTGAATTTGACATTTTTTTCCTTAATTTGGTACCTAAACTTTTTTTGGACCTA
1 ATTTGGTACCTGAACTTCACATTTTTTTCCTCAATTTGGTACCTAAACTTTTTTTGGACCTA
* * **
7229239 ATTTGGTACTTGAACTTCACA-TTTTTTCAC-CAATTTGGTATCTAAGTTTTTTTT
1 ATTTGGTACCTGAACTTCACATTTTTTTC-CTCAATTTGGTACCTAAACTTTTTTT
7229293 TTAAAGATTC
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
61 27 0.59
62 19 0.41
ACGTcount: A:0.22, C:0.16, G:0.12, T:0.50
Consensus pattern (62 bp):
ATTTGGTACCTGAACTTCACATTTTTTTCCTCAATTTGGTACCTAAACTTTTTTTGGACCTA
Found at i:7229556 original size:31 final size:32
Alignment explanation
Indices: 7229521--7229582 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
7229511 AAAAGTTGAA
* *
7229521 GTACCAACTTAA-AAAAAAGTGTCAAGTTTAG
1 GTACCAAATTAAGAAAAAAATGTCAAGTTTAG
7229552 GTACCAAATTAAGAAAAAAATGTCAAGTTTA
1 GTACCAAATTAAGAAAAAAATGTCAAGTTTA
7229583 AGTATCAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
31 11 0.39
32 17 0.61
ACGTcount: A:0.48, C:0.11, G:0.15, T:0.26
Consensus pattern (32 bp):
GTACCAAATTAAGAAAAAAATGTCAAGTTTAG
Found at i:7231822 original size:17 final size:17
Alignment explanation
Indices: 7231790--7231823 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7231780 ACTTGAGATT
*
7231790 TTTGAATTTATATTAAG
1 TTTGAATTAATATTAAG
*
7231807 TTTGAATTAATTTTAAG
1 TTTGAATTAATATTAAG
7231824 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGAATTAATATTAAG
Found at i:7231875 original size:17 final size:17
Alignment explanation
Indices: 7231811--7231875 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 17
7231801 ATTAAGTTTG
* *
7231811 AATTAATTTTAAGATTT
1 AATTAAATTTAAAATTT
* *
7231828 ATTTAAATTTAAATTTT
1 AATTAAATTTAAAATTT
** *
7231845 TTTTGAATTT-AAATTT
1 AATTAAATTTAAAATTT
7231861 AATTAAATTTAAAAT
1 AATTAAATTTAAAAT
7231876 GGTTTTAAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
16 12 0.32
17 25 0.68
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
AATTAAATTTAAAATTT
Found at i:7231890 original size:33 final size:33
Alignment explanation
Indices: 7231819--7231895 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
7231809 TGAATTAATT
* * ** * *
7231819 TTAAGATTTATTTAAATTTAAATTTTTTTTGAAT
1 TTAA-ATTTAATTAAATTTAAAATGGTTTTAAAC
7231853 TTAAATTTAATTAAATTTAAAATGGTTTTAAAC
1 TTAAATTTAATTAAATTTAAAATGGTTTTAAAC
*
7231886 TTAAACTTAA
1 TTAAATTTAA
7231896 ATTTAAAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 32 0.89
34 4 0.11
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.51
Consensus pattern (33 bp):
TTAAATTTAATTAAATTTAAAATGGTTTTAAAC
Found at i:7232585 original size:19 final size:19
Alignment explanation
Indices: 7232563--7232607 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7232553 TTATATTAGG
7232563 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
7232582 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
7232601 ATTTAAT
1 ATTTAAT
7232608 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:7239113 original size:13 final size:13
Alignment explanation
Indices: 7239095--7239152 Score: 57
Period size: 13 Copynumber: 4.5 Consensus size: 13
7239085 GGCAACCCAA
7239095 TTATTTTTATTTT
1 TTATTTTTATTTT
7239108 TTATTTTT-TATTT
1 TTATTTTTAT-TTT
* * *
7239121 TTATTTTTCTATC
1 TTATTTTTATTTT
7239134 TTA-TTTTATTTAT
1 TTATTTTTATTT-T
7239147 TTATTT
1 TTATTT
7239153 ATTTTTGTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
12 7 0.19
13 26 0.72
14 3 0.08
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:7239147 original size:4 final size:4
Alignment explanation
Indices: 7239100--7239156 Score: 52
Period size: 4 Copynumber: 14.8 Consensus size: 4
7239090 CCCAATTATT
7239100 TTTA TTT- TTTA TTT- TTTA -TT- TTTA TTT- TTCTA TCTTA TTTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT-TA T-TTA -TTTA TTTA
7239146 TTTA TTTA TTT
1 TTTA TTTA TTT
7239157 TTGTCCAGGA
Statistics
Matches: 45, Mismatches: 0, Indels: 16
0.74 0.00 0.26
Matches are distributed among these distances:
3 12 0.27
4 25 0.56
5 6 0.13
6 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:7240619 original size:19 final size:19
Alignment explanation
Indices: 7240597--7240641 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7240587 TTATATTAGG
7240597 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
7240616 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
7240635 ATTTAAT
1 ATTTAAT
7240642 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:7242120 original size:3 final size:3
Alignment explanation
Indices: 7242105--7242156 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
7242095 AACGTTTTGT
* * * * *
7242105 TAA TAA CAA TAA TAA TAA TAT TAA TAA TAT TAA TAAA TAA TAT TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
7242151 TAA TAA
1 TAA TAA
7242157 AAAACGTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:7242129 original size:9 final size:9
Alignment explanation
Indices: 7242112--7242156 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
7242102 TGTTAATAAC
*
7242112 AATAATAAT
1 AATATTAAT
7242121 AATATTAAT
1 AATATTAAT
7242130 AATATTAAT
1 AATATTAAT
7242139 AA-A-TAAT
1 AATATTAAT
*
7242146 ATTATTAAT
1 AATATTAAT
7242155 AA
1 AA
7242157 AAAACGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATTAAT
Found at i:7242151 original size:16 final size:16
Alignment explanation
Indices: 7242106--7242157 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
7242096 ACGTTTTGTT
* *
7242106 AATAACAATAATAATA
1 AATAATAATATTAATA
7242122 ATATTAATAATATTAATA
1 A-A-TAATAATATTAATA
*
7242140 AATAATATTATTAATA
1 AATAATAATATTAATA
7242156 AA
1 AA
7242158 AAACGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 16 0.52
17 2 0.06
18 13 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATAATATTAATA
Found at i:7243137 original size:162 final size:162
Alignment explanation
Indices: 7242964--7243301 Score: 606
Period size: 162 Copynumber: 2.1 Consensus size: 162
7242954 GGTTTTCAAT
*
7242964 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCCACGTGTCAC-CTTTTGGCTTATTTATGT
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTG-CACGTGTCACTCTTTTGGCTTATTTACGT
7243028 ATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACA
65 ATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACA
*
7243093 AATTTGGCCCAAGAATATTTCAAGATTTATAAA
130 AAATTGGCCCAAGAATATTTCAAGATTTATAAA
* * *
7243126 TTAGTCCTTTGACTGTTTGACTGCGCTAGAGGCTGCACGTGTCACTTTTTTGGCTTATTTACGTA
1 TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCACGTGTCACTCTTTTGGCTTATTTACGTA
7243191 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
66 TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
*
7243256 AATTGGCCCAAGAATTTTTCAAGATTTATAAA
131 AATTGGCCCAAGAATATTTCAAGATTTATAAA
7243288 TTAGTCCTTTGACT
1 TTAGTCCTTTGACT
7243302 TCTGGATGCC
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
161 10 0.06
162 159 0.94
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (162 bp):
TTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTGCACGTGTCACTCTTTTGGCTTATTTACGTA
TCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTTAAATCAACTTTTATTTAATTACAA
AATTGGCCCAAGAATATTTCAAGATTTATAAA
Found at i:7243465 original size:28 final size:27
Alignment explanation
Indices: 7243361--7243708 Score: 125
Period size: 29 Copynumber: 12.0 Consensus size: 27
7243351 GTTTATAGGT
** *
7243361 CCCCAAACAGTCCAAAAATTACATTTTGA
1 CCCCAAACTTTCC-AAAATTCCATTTT-A
* * * **
7243390 CCCTAAAATTTCAAAAAATTATATTTTAA
1 CCCCAAACTTTC-CAAAATTCCATTTT-A
*
7243419 CCCTGAAAC-TTCCAAAAATTACCA-TTTA
1 CCC-CAAACTTTCC-AAAATT-CCATTTTA
*
7243447 CCCCAAAACTTTCCAAAATTCTATTTTA
1 CCCC-AAACTTTCCAAAATTCCATTTTA
* * *
7243475 ACCCTAA-TTTCATAAAAAATTACCATTTTA
1 CCCCAAACTTTC---CAAAATT-CCATTTTA
7243505 CCCCCAAACTTTCCAAAATTCCATTTTTA
1 -CCCCAAACTTTCCAAAATTCCA-TTTTA
* ** * *
7243534 ACCCTGATTTTACTAAAAATTACCATTTTA
1 CCCCAAACTTT-C-CAAAATT-CCATTTTA
* * *
7243564 CCCTCGAACTTTCTAAAACTCCATTTTTAA
1 CCC-CAAACTTTCCAAAATTCCA-TTTT-A
*
7243594 CCTC-AA-TTTCACCAAAAATTACCATTTTA
1 CCCCAAACTTT--CC-AAAATT-CCATTTTA
* *
7243623 CCCTCGAACTTTCCAAAATTCTATTTTTAA
1 CCC-CAAACTTTCCAAAATTCCA-TTTT-A
* *
7243653 CCTC-GA-TTTCACCAAAAATTACCATTTTA
1 CCCCAAACTTT--CC-AAAATT-CCATTTTA
7243682 CCCCCAAACTTTCCAAAATTCCATTTT
1 -CCCCAAACTTTCCAAAATTCCATTTT
7243709 TAACCCCGAT
Statistics
Matches: 241, Mismatches: 42, Indels: 73
0.68 0.12 0.21
Matches are distributed among these distances:
26 4 0.02
27 10 0.04
28 46 0.19
29 92 0.38
30 58 0.24
31 21 0.09
32 10 0.04
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (27 bp):
CCCCAAACTTTCCAAAATTCCATTTTA
Found at i:7243552 original size:59 final size:59
Alignment explanation
Indices: 7243432--7243746 Score: 424
Period size: 59 Copynumber: 5.4 Consensus size: 59
7243422 TGAAACTTCC
* * *
7243432 AAAAATTACCA-TTTACCCCAAAACTTTCCAAAATTCTA-TTTTAACCCTAATTTCA-T
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACT
*
7243488 AAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACT
1 -AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACT
* * * * * *
7243548 AAAAATTACCATTTTACCCTCGAACTTTCTAAAACTCCATTTTTAA-CCTCAATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCACT
* * * *
7243607 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCTATTTTTAA-CCTCGATTTCACC
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCT-GATTTCACT
*
7243666 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACT
7243725 AAAAAATTACCATTTTACCCCC
1 -AAAAATTACCATTTTACCCCC
7243747 GGGTATCCAA
Statistics
Matches: 232, Mismatches: 20, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
57 11 0.05
58 28 0.12
59 169 0.73
60 24 0.10
ACGTcount: A:0.35, C:0.28, G:0.02, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTCACT
Found at i:7243563 original size:30 final size:31
Alignment explanation
Indices: 7243519--7243740 Score: 125
Period size: 29 Copynumber: 7.4 Consensus size: 31
7243509 CAAACTTTCC
7243519 AAAATTCCATTTTTAACCCT-GATTTTACTA
1 AAAATTCCATTTTTAACCCTCGATTTTACTA
*
7243549 AAAATTACCA-TTTT-ACCCTCGAACTTT-CT-
1 AAAATT-CCATTTTTAACCCTCG-ATTTTACTA
* * * *
7243578 AAAACTCCATTTTTAA-CCTCAATTTCACCA
1 AAAATTCCATTTTTAACCCTCGATTTTACTA
* *
7243608 AAAATTACCA-TTTT-ACCCTCGAACTTT-C-C
1 AAAATT-CCATTTTTAACCCTCG-ATTTTACTA
* * *
7243637 AAAATTCTATTTTTAA-CCTCGATTTCACCA
1 AAAATTCCATTTTTAACCCTCGATTTTACTA
* * * *
7243667 AAAATTACCA-TTTT-ACCCCCAAACTTT-C-C
1 AAAATT-CCATTTTTAACCCTC-GATTTTACTA
*
7243696 AAAATTCCATTTTTAACCC-CGATTTCACTAA
1 AAAATTCCATTTTTAACCCTCGATTTTACT-A
7243727 AAAATTACCATTTT
1 AAAATT-CCATTTT
7243741 ACCCCCGGGT
Statistics
Matches: 144, Mismatches: 25, Indels: 44
0.68 0.12 0.21
Matches are distributed among these distances:
28 17 0.12
29 49 0.34
30 47 0.33
31 24 0.17
32 7 0.05
ACGTcount: A:0.34, C:0.27, G:0.02, T:0.37
Consensus pattern (31 bp):
AAAATTCCATTTTTAACCCTCGATTTTACTA
Found at i:7243756 original size:59 final size:59
Alignment explanation
Indices: 7243432--7243782 Score: 390
Period size: 59 Copynumber: 5.9 Consensus size: 59
7243422 TGAAACTTCC
** * **
7243432 AAAAATTACCA-TTTACCCCAAAACTTTCCAAAATTCTA-TTTTAACCCTAATTTCA-TA
1 AAAAATTACCATTTTACCCC-CGACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
* * *
7243489 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTTACT-
1 AAAAATTACCATTTTACCCCC-GACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
* * * * * *
7243548 AAAAATTACCATTTTACCCTCGAACTTTCTAAAACTCCATTTTTAACCTCAATTTCAC-C
1 AAAAATTACCATTTTACCCCCG-ACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
* * * *
7243607 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATTCTATTTTTAACCTCGATTTCAC-C
1 AAAAATTACCATTTTACCCCCG-ACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
*
7243666 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
1 AAAAATTACCATTTTACCCCC-GACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
** * * *
7243726 AAAAATTACCATTTTACCCCCGGGTATCCAAAAGTCCCATTTTCAACCCCGATTTCA
1 AAAAATTACCATTTTACCCCCGACTTTCCAAAA-TTCCATTTTTAACCCCGATTTCA
7243783 TCGTTTCTTC
Statistics
Matches: 258, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
57 11 0.04
58 24 0.09
59 180 0.70
60 43 0.17
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCGACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTA
Found at i:7243756 original size:118 final size:117
Alignment explanation
Indices: 7243430--7243782 Score: 444
Period size: 118 Copynumber: 3.0 Consensus size: 117
7243420 CCTGAAACTT
* * *
7243430 CCAAAAATTACCA-TTTACCCCAAAACTTTCCAAAATTCTA-TTTTAACCCTAATTTCA-TAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACTAAAA
* *
7243492 AATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCTGATTTTA
66 AATTACCATTTTACCCCC-GACTTTCCAAAATTCCATTTTTAACCC-GATTTCA
* * * * * * *
7243546 CTAAAAATTACCATTTTACCCTCGAACTTTCTAAAACTCCATTTTTAACCTCAATTTCAC-CAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACTAAAA
* *
7243610 AATTACCATTTTACCCTCGAACTTTCCAAAATTCTATTTTTAACCTCGATTTCA
66 AATTACCATTTTACCCCCG-ACTTTCCAAAATTCCATTTTTAACC-CGATTTCA
*
7243664 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACTAAAA
1 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACTAAAA
** * * *
7243729 AATTACCATTTTACCCCCGGGTATCCAAAAGTCCCATTTTCAACCCCGATTTCA
66 AATTACCATTTTACCCCCGACTTTCCAAAA-TTCCATTTTTAA-CCCGATTTCA
7243783 TCGTTTCTTC
Statistics
Matches: 200, Mismatches: 29, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
116 12 0.06
117 21 0.10
118 126 0.63
119 39 0.19
120 2 0.01
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACTAAAA
AATTACCATTTTACCCCCGACTTTCCAAAATTCCATTTTTAACCCGATTTCA
Found at i:7255880 original size:77 final size:76
Alignment explanation
Indices: 7255661--7256128 Score: 792
Period size: 76 Copynumber: 6.1 Consensus size: 76
7255651 ATCAGACCGC
* * * * *
7255661 AGCAAGATCATTCCCAATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
7255726 ATTGAAGTAAG
66 ATTGAAGTAAG
* *
7255737 AGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
7255802 ATTGAAGTAAG
66 ATTGAAGTAAG
7255813 AGCAAGATCTTTTCCTATCCCCTTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAAGATCTTTTCCTATCCCC-TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
7255878 AATTGAAGTAAG
65 AATTGAAGTAAG
7255890 AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
7255955 ATTGAAGTAAG
66 ATTGAAGTAAG
*
7255966 AGCAAGATCTTTTCCTATCCCCCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGA
1 AGCAAGATCTTTTCCTAT-CCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
7256031 AATTGAAGTAAG
65 AATTGAAGTAAG
** *
7256043 AGCAAGATCTTTTCCTATCTGCTTGAAATTGAAGTAGAGATGGATAACAAGTCTTTATCTCTCTG
1 AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTA--TCTCTG
7256108 AAATTGAAGTAAG
64 AAATTGAAGTAAG
*
7256121 AGCTAGAT
1 AGCAAGAT
7256129 AATGCATTAA
Statistics
Matches: 377, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
76 200 0.53
77 151 0.40
78 26 0.07
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (76 bp):
AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAG
Found at i:7255961 original size:153 final size:152
Alignment explanation
Indices: 7255661--7256128 Score: 792
Period size: 153 Copynumber: 3.1 Consensus size: 152
7255651 ATCAGACCGC
* * * * *
7255661 AGCAAGATCATTCCCAATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTTATCTCTGAA
1 AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
* *
7255726 ATTGAAGTAAGAGCAAGATCATTTCCTATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
66 ATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
7255791 TTATCTCTGAAATTGAAGTAAG
131 TTATCTCTGAAATTGAAGTAAG
7255813 AGCAAGATCTTTTCCTATCCCCTTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
1 AGCAAGATCTTTTCCTATCCCC-TTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
7255878 AATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
65 AATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
7255943 TTTATCTCTGAAATTGAAGTAAG
130 TTTATCTCTGAAATTGAAGTAAG
*
7255966 AGCAAGATCTTTTCCTATCCCCCTTGAAATTGAAGTAGAGTTGGATAACAAATCTTTATCTCTGA
1 AGCAAGATCTTTTCCTAT-CCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGA
** *
7256031 AATTGAAGTAAGAGCAAGATCTTTTCCTATCTGCTTGAAATTGAAGTAGAGATGGATAACAAGTC
65 AATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTC
7256096 TTTATCTCTCTGAAATTGAAGTAAG
130 TTTA--TCTCTGAAATTGAAGTAAG
*
7256121 AGCTAGAT
1 AGCAAGAT
7256129 AATGCATTAA
Statistics
Matches: 300, Mismatches: 12, Indels: 5
0.95 0.04 0.02
Matches are distributed among these distances:
152 18 0.06
153 252 0.84
154 4 0.01
155 26 0.09
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (152 bp):
AGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCTTTATCTCTGAA
ATTGAAGTAAGAGCAAGATCTTTTCCTATCCCCTTGAAATTGAAGTAGAGTTGGATAACAAGTCT
TTATCTCTGAAATTGAAGTAAG
Found at i:7256284 original size:50 final size:50
Alignment explanation
Indices: 7256192--7256286 Score: 138
Period size: 50 Copynumber: 1.9 Consensus size: 50
7256182 ACAAGCCTTC
* * *
7256192 GTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTT
1 GTCCCTCTGAAATTGAAGTAAGAGCAAGACGAAGCACAAACATCATTTTT
*
7256242 GTCCCTTTGAAATTGAAGTAAGAGCAAGACGAAGC-CTAAACATCA
1 GTCCCTCTGAAATTGAAGTAAGAGCAAGACGAAGCAC-AAACATCA
7256287 AACCTTACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (50 bp):
GTCCCTCTGAAATTGAAGTAAGAGCAAGACGAAGCACAAACATCATTTTT
Found at i:7256564 original size:17 final size:17
Alignment explanation
Indices: 7256532--7256565 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7256522 ACTTGAGATT
*
7256532 TTTGAATTTATATTAAG
1 TTTGAATTAATATTAAG
*
7256549 TTTGAATTAATTTTAAG
1 TTTGAATTAATATTAAG
7256566 ATTTATTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (17 bp):
TTTGAATTAATATTAAG
Found at i:7256617 original size:17 final size:16
Alignment explanation
Indices: 7256553--7256615 Score: 63
Period size: 17 Copynumber: 3.8 Consensus size: 16
7256543 ATTAAGTTTG
*
7256553 AATTAATTTTAAGATTT
1 AATTAAATTTAA-ATTT
*
7256570 ATTTAAATTTAAATTT
1 AATTAAATTTAAATTT
** *
7256586 GCTTTGAATTTAAATTT
1 -AATTAAATTTAAATTT
7256603 AATTAAATTTAAA
1 AATTAAATTTAAA
7256616 ATGGTTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
16 14 0.37
17 24 0.63
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (16 bp):
AATTAAATTTAAATTT
Found at i:7256632 original size:33 final size:33
Alignment explanation
Indices: 7256561--7256637 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 33
7256551 TGAATTAATT
* * * * *
7256561 TTAAGATTTATTTAAATTTAAATTTGCTTTGAAT
1 TTAA-ATTTAATTAAATTTAAAATGGCTTTAAAC
*
7256595 TTAAATTTAATTAAATTTAAAATGGTTTTAAAC
1 TTAAATTTAATTAAATTTAAAATGGCTTTAAAC
*
7256628 TTAAACTTAA
1 TTAAATTTAA
7256638 ATTTAAAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
33 32 0.89
34 4 0.11
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (33 bp):
TTAAATTTAATTAAATTTAAAATGGCTTTAAAC
Found at i:7257490 original size:3 final size:3
Alignment explanation
Indices: 7257475--7257526 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
7257465 AACGTTTTGT
* * * * *
7257475 TAA TAA CAA TAA TAA TAA TAT TAA TAA TAT TAA TAAA TAA TAT TAT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA
7257521 TAA TAA
1 TAA TAA
7257527 AAAACGTTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:7257499 original size:9 final size:9
Alignment explanation
Indices: 7257482--7257526 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
7257472 TGTTAATAAC
*
7257482 AATAATAAT
1 AATATTAAT
7257491 AATATTAAT
1 AATATTAAT
7257500 AATATTAAT
1 AATATTAAT
7257509 AA-A-TAAT
1 AATATTAAT
*
7257516 ATTATTAAT
1 AATATTAAT
7257525 AA
1 AA
7257527 AAAACGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
7 5 0.16
8 2 0.06
9 24 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AATATTAAT
Found at i:7257521 original size:16 final size:16
Alignment explanation
Indices: 7257476--7257527 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
7257466 ACGTTTTGTT
* *
7257476 AATAACAATAATAATA
1 AATAATAATATTAATA
7257492 ATATTAATAATATTAATA
1 A-A-TAATAATATTAATA
*
7257510 AATAATATTATTAATA
1 AATAATAATATTAATA
7257526 AA
1 AA
7257528 AAACGTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 16 0.52
17 2 0.06
18 13 0.42
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (16 bp):
AATAATAATATTAATA
Found at i:7258664 original size:29 final size:29
Alignment explanation
Indices: 7258587--7258857 Score: 161
Period size: 29 Copynumber: 9.3 Consensus size: 29
7258577 CCAAACAGTC
* *
7258587 CAAAAATTA-CATTTTAACCCTAAATTTT
1 CAAAAATTACCATTTTACCCCTAAACTTT
* *
7258615 CAAAAAATTA-TATTTTGACCCCAAAACTTT
1 C-AAAAATTACCATTTT-ACCCCTAAACTTT
* *
7258645 GAAAAATTACCATTTTACCCTTAAACTTT
1 CAAAAATTACCATTTTACCCCTAAACTTT
* * *
7258674 CCAAAATT-CCATTTTTAACCCC--GATTTT
1 CAAAAATTACCA-TTTT-ACCCCTAAACTTT
* *
7258702 ACCAAAAATTACCATTTTACCCCTGAACTCT
1 --CAAAAATTACCATTTTACCCCTAAACTTT
* * *
7258733 CCAAAATT-CCATTTTAACCCT-AATTTCAT
1 CAAAAATTACCATTTTACCCCTAAACTT--T
*
7258762 CAAAAATTACCATTTTACCCCCAAACTTT
1 CAAAAATTACCATTTTACCCCTAAACTTT
* * *
7258791 CCAAAATT-CTATTTTTAACCCC--GA-TTT
1 CAAAAATTACCA-TTTT-ACCCCTAAACTTT
7258818 CACCAAAAATTACCATTTTACCCCCT-AACTTT
1 ---CAAAAATTACCATTTTA-CCCCTAAACTTT
*
7258850 CCAAAATT
1 CAAAAATT
7258858 CTATTTTTAA
Statistics
Matches: 188, Mismatches: 32, Indels: 45
0.71 0.12 0.17
Matches are distributed among these distances:
27 6 0.03
28 23 0.12
29 82 0.44
30 61 0.32
31 13 0.07
32 3 0.02
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.35
Consensus pattern (29 bp):
CAAAAATTACCATTTTACCCCTAAACTTT
Found at i:7258711 original size:59 final size:59
Alignment explanation
Indices: 7258646--7258900 Score: 361
Period size: 59 Copynumber: 4.3 Consensus size: 59
7258636 CAAAACTTTG
* *
7258646 AAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * ** *
7258705 AAAAATTACCATTTTACCCCTGAACTCTCCAAAATTCCA-TTTTAACCCTAATTTCATC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
7258763 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* * *
7258822 AAAAATTACCATTTTACCCCCT-AACTTTCCAAAATTCTATTTTTAACCCTGATTTCACT
1 AAAAATTACCATTTTA-CCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
* *
7258881 AAAATTTACCATTTTGCCCC
1 AAAAATTACCATTTTACCCC
7258901 CGAGTATCCA
Statistics
Matches: 175, Mismatches: 19, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
58 54 0.31
59 117 0.67
60 4 0.02
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACC
Found at i:7258792 original size:117 final size:118
Alignment explanation
Indices: 7258646--7258901 Score: 392
Period size: 117 Copynumber: 2.2 Consensus size: 118
7258636 CAAAACTTTG
** *
7258646 AAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
7258711 TACCATTTTA-CCCCTGAACTCTCCAAAATTCCA-TTTTAACCCTAATTTCA-T
66 TACCATTTTACCCCCT-AACTCTCCAAAATTCCATTTTTAACCCTAATTTCACT
*
7258762 CAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAA
1 -AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAA
* * *
7258827 TTACCATTTTACCCCCTAACTTTCCAAAATTCTATTTTTAACCCTGATTTCACT
65 TTACCATTTTACCCCCTAACTCTCCAAAATTCCATTTTTAACCCTAATTTCACT
* *
7258881 AAAATTTACCATTTTGCCCCC
1 AAAAATTACCATTTTACCCCC
7258902 GAGTATCCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
117 86 0.68
118 40 0.31
119 1 0.01
ACGTcount: A:0.33, C:0.29, G:0.02, T:0.36
Consensus pattern (118 bp):
AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTTACCCCCTAACTCTCCAAAATTCCATTTTTAACCCTAATTTCACT
Found at i:7258884 original size:29 final size:28
Alignment explanation
Indices: 7258671--7258886 Score: 88
Period size: 29 Copynumber: 7.4 Consensus size: 28
7258661 ACCCTTAAAC
* *
7258671 TTTC-CAAAATTCCATTTTTAACCCCGA
1 TTTCACAAAATTCTATTTTTAACCCTGA
* * *
7258698 TTTTACCAAAAATTACCA-TTTTACCCCTGAA
1 TTTCA-C-AAAATT-CTATTTTTAACCCTG-A
* * *
7258729 CTCTC-CAAAATTCCA-TTTTAACCCTAA
1 -TTTCACAAAATTCTATTTTTAACCCTGA
* * **
7258756 TTTCATCAAAAATTACCA-TTTTACCCCCAAA
1 TTTCA-C-AAAATT-CTATTTTTA-ACCCTGA
*
7258787 CTTTC-CAAAATTCTATTTTTAACCCCGA
1 -TTTCACAAAATTCTATTTTTAACCCTGA
* * *
7258815 TTTCACCAAAAATTACCA-TTTTACCCCCTAA
1 TTTCA-C-AAAATT-CTATTTTTA-ACCCTGA
7258846 CTTTC-CAAAATTCTATTTTTAACCCTGA
1 -TTTCACAAAATTCTATTTTTAACCCTGA
7258874 TTTCACTAAAATT
1 TTTCAC-AAAATT
7258887 TACCATTTTG
Statistics
Matches: 146, Mismatches: 21, Indels: 42
0.70 0.10 0.20
Matches are distributed among these distances:
26 3 0.02
27 12 0.08
28 27 0.18
29 42 0.29
30 37 0.25
31 15 0.10
32 10 0.07
ACGTcount: A:0.33, C:0.28, G:0.02, T:0.37
Consensus pattern (28 bp):
TTTCACAAAATTCTATTTTTAACCCTGA
Found at i:7258911 original size:117 final size:117
Alignment explanation
Indices: 7258646--7258937 Score: 374
Period size: 117 Copynumber: 2.5 Consensus size: 117
7258636 CAAAACTTTG
** * *
7258646 AAAAATTACCATTTTACCCTTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTATCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
7258711 TACCATTTTACCCCTGAACTCTCCAAAATTCCATTTTAACCCTAATTTCATC
66 TACCATTTTACCCCTGAACTCTCCAAAATTCCATTTTAACCCTAATTTCATC
* *
7258763 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCCCAAACTATCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
* * *
7258828 TACCATTTTACCCCCT-AACTTTCCAAAATTCTATTTTTAACCCTGATTTCA-C
66 TACCATTTTA-CCCCTGAACTCTCCAAAATTCCA-TTTTAACCCTAATTTCATC
* * * * * * * *
7258880 TAAAATTTACCATTTTGCCCCC-GAGTATCCAAAAGTCCCGTTTTCAACCCTGATTTCA
1 -AAAAATTACCATTTTACCCCCAAACTATCCAAAA-TTCCATTTTTAACCCCGATTTCA
7258938 TCGTTTCTTC
Statistics
Matches: 154, Mismatches: 17, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
117 96 0.62
118 58 0.38
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (117 bp):
AAAAATTACCATTTTACCCCCAAACTATCCAAAATTCCATTTTTAACCCCGATTTCACCAAAAAT
TACCATTTTACCCCTGAACTCTCCAAAATTCCATTTTAACCCTAATTTCATC
Found at i:7258929 original size:59 final size:59
Alignment explanation
Indices: 7258646--7258937 Score: 313
Period size: 59 Copynumber: 5.0 Consensus size: 59
7258636 CAAAACTTTG
* * * * *
7258646 AAAAATTACCATTTTA-CCCTTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTTACC
1 AAAAATTACCATTTTACCCCCT-AACTATCCAAAATCCCATTTTTAACCCTGATTTCACC
* * * *
7258705 AAAAATTACCATTTTA-CCCCTGAACTCTCCAAAATTCCA-TTTTAACCCTAATTTCATC
1 AAAAATTACCATTTTACCCCCT-AACTATCCAAAATCCCATTTTTAACCCTGATTTCACC
* * * * *
7258763 AAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCTATTTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCCCTAACTATCCAAAATCCCATTTTTAACCCTGATTTCACC
* * * *
7258822 AAAAATTACCATTTTACCCCCTAACTTTCCAAAATTCTATTTTTAACCCTGATTTCACT
1 AAAAATTACCATTTTACCCCCTAACTATCCAAAATCCCATTTTTAACCCTGATTTCACC
* * * * * *
7258881 AAAATTTACCATTTTGCCCCC-GAGTATCCAAAAGTCCCGTTTTCAACCCTGATTTCA
1 AAAAATTACCATTTTACCCCCTAACTATCCAAAA-TCCCATTTTTAACCCTGATTTCA
7258938 TCGTTTCTTC
Statistics
Matches: 205, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
58 55 0.27
59 150 0.73
ACGTcount: A:0.33, C:0.29, G:0.03, T:0.35
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCCCTAACTATCCAAAATCCCATTTTTAACCCTGATTTCACC
Found at i:7262008 original size:21 final size:21
Alignment explanation
Indices: 7261970--7262009 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7261960 TACCTTGTAC
*
7261970 TTCTACCGATAAATGTATGGG
1 TTCTACCGATAAAAGTATGGG
7261991 TTCTACCGA-AACAAGTATG
1 TTCTACCGATAA-AAGTATG
7262010 CAGAATCTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (21 bp):
TTCTACCGATAAAAGTATGGG
Found at i:7273361 original size:158 final size:158
Alignment explanation
Indices: 7273082--7273392 Score: 462
Period size: 158 Copynumber: 2.0 Consensus size: 158
7273072 GATTACAGGT
* * *
7273082 TATATGGGTGCTGGCTTTAGATGTCTTACTGATGACTGATATCTGACAATTATTACGGATTCTCC
1 TATATGGGTGCTGGCTTTAGATGTCCTACCGATGACTGAGATCTGACAATTATTACGGATTCTCC
* * *
7273147 ACAACTCGTGTAAGCAGCATCGTGTAGCTCAACATCTCGACCGACAGCTCGTGTGAGTAGGCCCA
66 ACAACTCGTATAAGCAGCATCGTGTAGCTCAACATCTCGACCCACAGCTCGTGTGAGTAGACCCA
*
7273212 TTTCACAACTCGTGTGAGCATTACAACG
131 TTTCACAACTCGTGTGAGAATTACAACG
* * *
7273240 TATATGGGTGCTAG-TCTTAGATGTCCTACCGATGGCTGAGATCTGGCAATTATTACGGATTCTC
1 TATATGGGTGCTGGCT-TTAGATGTCCTACCGATGACTGAGATCTGACAATTATTACGGATTCTC
* * *
7273304 CACAACTCTTATGAGCAGCATCGTGTAGCTCAACATTTCGACCCACAGCTCGTGTGAGTAGACCC
65 CACAACTCGTATAAGCAGCATCGTGTAGCTCAACATCTCGACCCACAGCTCGTGTGAGTAGACCC
* * *
7273369 GTTTCACAGCTTGTGTGAGAATTA
130 ATTTCACAACTCGTGTGAGAATTA
7273393 TAGGATATGG
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
157 1 0.01
158 135 0.99
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.30
Consensus pattern (158 bp):
TATATGGGTGCTGGCTTTAGATGTCCTACCGATGACTGAGATCTGACAATTATTACGGATTCTCC
ACAACTCGTATAAGCAGCATCGTGTAGCTCAACATCTCGACCCACAGCTCGTGTGAGTAGACCCA
TTTCACAACTCGTGTGAGAATTACAACG
Found at i:7275771 original size:21 final size:21
Alignment explanation
Indices: 7275733--7275781 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
7275723 TATTGGTTTT
* *
7275733 AATCTCATCACTATAATACTC
1 AATCTCATCACTACAATAATC
** *
7275754 AATCTCATTTCTACAATAATT
1 AATCTCATCACTACAATAATC
7275775 AATCTCA
1 AATCTCA
7275782 CTGCGATTGT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (21 bp):
AATCTCATCACTACAATAATC
Found at i:7275869 original size:17 final size:17
Alignment explanation
Indices: 7275847--7275886 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
7275837 AGTCTTAGAG
*
7275847 TGACTTTAACTTGAAAA
1 TGACTTGAACTTGAAAA
* *
7275864 TGACTTGAATTTGAAAT
1 TGACTTGAACTTGAAAA
7275881 TGACTT
1 TGACTT
7275887 CAACCAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (17 bp):
TGACTTGAACTTGAAAA
Found at i:7278160 original size:23 final size:23
Alignment explanation
Indices: 7278133--7278227 Score: 95
Period size: 23 Copynumber: 4.0 Consensus size: 23
7278123 AACACTAGCA
7278133 TGCTCTCCGATTAGCACTGTGTG
1 TGCTCTCCGATTAGCACTGTGTG
* *
7278156 TGCTCTCCGTTTAGCAC-GTCTCG
1 TGCTCTCCGATTAGCACTGTGT-G
*
7278179 TGCTTTCCGTTATTAGCACT-TCGTG
1 TGCTCTCCG--ATTAGCACTGT-GTG
*
7278204 TGCTCTCTGATTAGCACTGATGTG
1 TGCTCTCCGATTAGCACTG-TGTG
7278228 CTCAGTACTT
Statistics
Matches: 58, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
22 3 0.05
23 34 0.59
24 3 0.05
25 17 0.29
26 1 0.02
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (23 bp):
TGCTCTCCGATTAGCACTGTGTG
Found at i:7278615 original size:2 final size:2
Alignment explanation
Indices: 7278608--7278632 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7278598 TAAATGATAA
7278608 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7278633 AAAGGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7284132 original size:30 final size:30
Alignment explanation
Indices: 7284093--7284294 Score: 323
Period size: 30 Copynumber: 6.7 Consensus size: 30
7284083 TGAGAATGTA
*
7284093 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
7284123 TCTAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
*
7284153 TCTAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
7284183 TCCGAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
7284213 TCCAAAATTATATTTTAACCCCGAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
7284243 TCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTATATTTTGACCCCAAAACTTT
* *
7284273 TCCAAAATTACATTTTAACCCC
1 TCCAAAATTATATTTTGACCCC
7284295 GATTTCACCG
Statistics
Matches: 161, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 161 1.00
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.37
Consensus pattern (30 bp):
TCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:7284317 original size:30 final size:29
Alignment explanation
Indices: 7284213--7284376 Score: 103
Period size: 30 Copynumber: 5.6 Consensus size: 29
7284203 CCAAAACTTT
*
7284213 TCCAAAATTA-TATTTTAACCCCGAAACTTT-
1 TCCAAAATTACCATTTTAACCCCG--A-TTTC
* * *
7284243 TCCAAAATTA-TATTTTGACCCCAAAACTTT-
1 TCCAAAATTACCATTTTAACCCC--GA-TTTC
7284273 TCCAAAATTA-CATTTTAACCCCGATTTC
1 TCCAAAATTACCATTTTAACCCCGATTTC
*
7284301 ACCGAAAATTACCATTTT-ACCCCTGAATCTT-
1 TCC-AAAATTACCATTTTAACCCC-G-AT-TTC
* *
7284332 T-TAAAATT-CCATTTTTAACCCCGATTAC
1 TCCAAAATTACCA-TTTTAACCCCGATTTC
7284360 TCCAAAATTACCATTTT
1 TCCAAAATTACCATTTT
7284377 GCCCCCGGGT
Statistics
Matches: 111, Mismatches: 10, Indels: 27
0.75 0.07 0.18
Matches are distributed among these distances:
27 4 0.04
28 9 0.08
29 33 0.30
30 61 0.55
31 2 0.02
32 2 0.02
ACGTcount: A:0.34, C:0.26, G:0.04, T:0.37
Consensus pattern (29 bp):
TCCAAAATTACCATTTTAACCCCGATTTC
Found at i:7284318 original size:60 final size:58
Alignment explanation
Indices: 7284093--7284369 Score: 267
Period size: 60 Copynumber: 4.7 Consensus size: 58
7284083 TGAGAATGTA
* * *
7284093 TCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCC--GACTTTTCCAAAATTATATTTTGACCCCAAAACTTT
* * * * * *
7284153 TCTAAAATTATATTTTGACCCCAAAACTTTTCCGAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCC--GACTTTTCCAAAATTATATTTTGACCCCAAAACTTT
*
7284213 TCCAAAATTATATTTTAACCCCGAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTAACCCCG--ACTTTTCCAAAATTATATTTTGACCCCAAAACTTT
* * * *
7284273 TCCAAAATTACATTTTAACCCCGA-TTTCACCGAAAATTACCATTTT-ACCCCTGAATCTTT
1 TCCAAAATTACATTTTAACCCCGACTTT-TCC-AAAATTA-TATTTTGACCCC-AAAACTTT
* *
7284333 T--AAAATTCCATTTTTAACCCCGA-TTACTCCAAAATTA
1 TCCAAAATTACA-TTTTAACCCCGACTT-TTCCAAAATTA
7284370 CCATTTTGCC
Statistics
Matches: 191, Mismatches: 18, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
57 3 0.02
58 18 0.09
59 28 0.15
60 142 0.74
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (58 bp):
TCCAAAATTACATTTTAACCCCGACTTTTCCAAAATTATATTTTGACCCCAAAACTTT
Found at i:7284318 original size:90 final size:88
Alignment explanation
Indices: 7284093--7284333 Score: 297
Period size: 90 Copynumber: 2.7 Consensus size: 88
7284083 TGAGAATGTA
* * * * *
7284093 TCCAAAATTACATTTTGACCCCAAAACTTTTCTAAAATTATATTTTGACCCCAAAACTTTTCTAA
1 TCCAAAATTACATTTTAACCCC-AAACTTTACCAAAATTATATTTT-ACCCCGAAACTTTTCCAA
7284158 AATTATATTTTGACCCCAAAACTTT
64 AATTATATTTTGACCCCAAAACTTT
* * *
7284183 TCCGAAATTATATTTTAACCCCAAAACTTTTCCAAAATTATATTTTAACCCCGAAACTTTTCCAA
1 TCCAAAATTACATTTTAACCCC-AAACTTTACCAAAATTATATTTT-ACCCCGAAACTTTTCCAA
7284248 AATTATATTTTGACCCCAAAACTTT
64 AATTATATTTTGACCCCAAAACTTT
* * *
7284273 TCCAAAATTACATTTTAACCCC-GA-TTTCACCGAAAATTACCATTTTACCCCTGAATCTTTT
1 TCCAAAATTACATTTTAACCCCAAACTTT-ACC-AAAATTA-TATTTTACCCC-GAAACTTTT
7284334 AAAATTCCAT
Statistics
Matches: 134, Mismatches: 13, Indels: 8
0.86 0.08 0.05
Matches are distributed among these distances:
87 3 0.02
88 3 0.02
89 12 0.09
90 116 0.87
ACGTcount: A:0.35, C:0.24, G:0.04, T:0.37
Consensus pattern (88 bp):
TCCAAAATTACATTTTAACCCCAAACTTTACCAAAATTATATTTTACCCCGAAACTTTTCCAAAA
TTATATTTTGACCCCAAAACTTT
Found at i:7284383 original size:29 final size:28
Alignment explanation
Indices: 7284273--7284376 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 28
7284263 CCAAAACTTT
7284273 TCCAAAATTA-CATTTTAACCCCGATTTC
1 TCCAAAATTACCATTTTAACCCCGA-TTC
* *
7284301 ACCGAAAATTACCATTTT-ACCCCTGAATC
1 TCC-AAAATTACCATTTTAACCCC-GATTC
**
7284330 TTTTAAAATT-CCATTTTTAACCCCGATTAC
1 -TCCAAAATTACCA-TTTTAACCCCGATT-C
7284360 TCCAAAATTACCATTTT
1 TCCAAAATTACCATTTT
7284377 GCCCCCGGGT
Statistics
Matches: 60, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
28 5 0.08
29 38 0.63
30 17 0.28
ACGTcount: A:0.33, C:0.27, G:0.04, T:0.37
Consensus pattern (28 bp):
TCCAAAATTACCATTTTAACCCCGATTC
Found at i:7296512 original size:31 final size:31
Alignment explanation
Indices: 7296470--7296589 Score: 91
Period size: 31 Copynumber: 3.7 Consensus size: 31
7296460 TAACACGTCT
7296470 TCAT-CTC-TGAAATTGAAGTAAGAGCAACC
1 TCATCCTCTTGAAATTGAAGTAAGAGCAACC
* **
7296499 TCATCCTCTTGAAAGTGAAGTAGAGTTGGATAAACC
1 TCATCCTCTTGAAATTGAAGTA-A----GAGCAACC
* * * *
7296535 GTCTTCGTCTCTAAAATTGAAGTAAGAGCAATC
1 -TCATCCTCT-TGAAATTGAAGTAAGAGCAACC
*
7296568 TCATCCTCTCGAAATTGAAGTA
1 TCATCCTCTTGAAATTGAAGTA
7296590 GAGTTGGATA
Statistics
Matches: 68, Mismatches: 14, Indels: 16
0.69 0.14 0.16
Matches are distributed among these distances:
29 4 0.06
30 3 0.04
31 23 0.34
32 8 0.12
33 5 0.07
36 6 0.09
37 8 0.12
38 11 0.16
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (31 bp):
TCATCCTCTTGAAATTGAAGTAAGAGCAACC
Found at i:7296538 original size:69 final size:70
Alignment explanation
Indices: 7296420--7296606 Score: 299
Period size: 69 Copynumber: 2.7 Consensus size: 70
7296410 CAGACCAAAC
* *
7296420 AAGATCAACCTCATCCTCTCGAAATTGAAGTAGAGTTGGAT-AACACGTCTTCATCTCTGAAATT
1 AAGAGCAACCTCATCCTCTCGAAATTGAAGTAGAGTTGGATAAACACGTCTTCATCTCTAAAATT
7296484 GAAGT
66 GAAGT
* * *
7296489 AAGAGCAACCTCATCCTCTTGAAAGTGAAGTAGAGTTGGATAAAC-CGTCTTCGTCTCTAAAATT
1 AAGAGCAACCTCATCCTCTCGAAATTGAAGTAGAGTTGGATAAACACGTCTTCATCTCTAAAATT
7296553 GAAGT
66 GAAGT
*
7296558 AAGAGCAATCTCATCCTCTCGAAATTGAAGTAGAGTTGGAT-AACACGTC
1 AAGAGCAACCTCATCCTCTCGAAATTGAAGTAGAGTTGGATAAACACGTC
7296607 AAGAGCAACA
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
68 3 0.03
69 102 0.94
70 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (70 bp):
AAGAGCAACCTCATCCTCTCGAAATTGAAGTAGAGTTGGATAAACACGTCTTCATCTCTAAAATT
GAAGT
Found at i:7296704 original size:117 final size:118
Alignment explanation
Indices: 7296489--7296717 Score: 309
Period size: 117 Copynumber: 1.9 Consensus size: 118
7296479 AAATTGAAGT
* * * * *
7296489 AAGAGCAACCTCATCCTCTTGAAAGTGAAGTAGAGTTGGATAAACCGTCTTCGTCTCTAAAATTG
1 AAGAGCAACATCACCCCCTTGAAAGTGAAGTAGAGTTGGATAAACAGTCTTCATCTCTAAAATTG
* * * *
7296554 AAGTAAGAGCAATCTCATCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTC
66 AAATAAGAGCAACCTCATCCTCTCGAAAGTGAAGTAGAGTTAGATAACACGTC
* * *
7296607 AAGAGCAACATCACCCCCTTGAAATTGAAGTAGAG-TGGAT-AACAAGTTTTCATCTCTGAAATT
1 AAGAGCAACATCACCCCCTTGAAAGTGAAGTAGAGTTGGATAAAC-AGTCTTCATCTCTAAAATT
* *
7296670 GAAATAAGAGCAACCTCATCCTTTTGAAAGTGAAGTAGAGTTAGATAA
65 GAAATAAGAGCAACCTCATCCTCTCGAAAGTGAAGTAGAGTTAGATAA
7296718 ACCGTCTTCG
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
116 3 0.03
117 62 0.65
118 31 0.32
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (118 bp):
AAGAGCAACATCACCCCCTTGAAAGTGAAGTAGAGTTGGATAAACAGTCTTCATCTCTAAAATTG
AAATAAGAGCAACCTCATCCTCTCGAAAGTGAAGTAGAGTTAGATAACACGTC
Found at i:7296749 original size:69 final size:69
Alignment explanation
Indices: 7296607--7297110 Score: 294
Period size: 68 Copynumber: 7.1 Consensus size: 69
7296597 ATAACACGTC
* * * * *
7296607 AAGAGCAACATCACCCCCTTGAAATTGAAGTAGAG-TGGATAACAAGTTTTCATCTCTGAAATTG
1 AAGAGCAACCTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTG
7296671 AAAT
66 AAAT
* * * *
7296675 AAGAGCAACCTCATCCTTTTGAAAGTGAAGTAGAGTTAGATAA-ACCGTCTTCGTCTCTGAAATT
1 AAGAGCAACCTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACA-CGTCTTCATCTCTGAAATT
*
7296739 GAAGT
65 GAAAT
* *
7296744 AAGAGCAATCTCATCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTCTTGAGCAACATCATCC
1 AAGAGCAACCTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTT------CATC-T--
*
7296809 CCTTGAAATTGAAGT
57 -C-TGAAATTGAAAT
* * * ** * * * * * * **
7296824 AGAGTGGATAACAAGTTTTCATTTCTAAAATTGAAGTA-AG--AG-CAACA--TCATCCCCT-TG
1 A-AG-AG-CAAC--CTCATCCTCT-TGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTG
*
7296882 AAATTGAAGT
60 AAATTGAAAT
* * * ** * * *
7296892 AGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAGAG-TGGGTAACAAGTCTTCATCTCTG
1 A-AG-AG-CAAC--CTCATCCTCT-TGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTG
*
7296956 AAATTGAAGT
60 AAATTGAAAT
* * * *
7296966 AAGAGCAACGTCATCCCCTTGAAATTGAAGTAAAG-TGTATAACACGTC-TCTATCTCTGAAATT
1 AAGAGCAACCTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTC-ATCTCTGAAATT
7297029 GAAAT
65 GAAAT
* * * *
7297034 AAGAGCAACGTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACAAGCCTTTATCTCTGAAATTG
1 AAGAGCAACCTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTG
*
7297099 AAGT
66 AAAT
7297103 AAGAGCAA
1 AAGAGCAA
7297111 AATCGTTTCC
Statistics
Matches: 351, Mismatches: 56, Indels: 57
0.76 0.12 0.12
Matches are distributed among these distances:
67 2 0.01
68 153 0.44
69 112 0.32
70 3 0.01
71 7 0.02
72 1 0.00
73 9 0.03
74 15 0.04
75 3 0.01
76 1 0.00
79 1 0.00
80 16 0.05
81 2 0.01
82 5 0.01
83 3 0.01
85 7 0.02
86 11 0.03
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (69 bp):
AAGAGCAACCTCATCCTCTTGAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTG
AAAT
Found at i:7296770 original size:186 final size:186
Alignment explanation
Indices: 7296440--7297151 Score: 800
Period size: 186 Copynumber: 3.9 Consensus size: 186
7296430 TCATCCTCTC
* *
7296440 GAAATTGAAGTAGAGTTGGATAACACGTCTTCATCTCTGAAATTGAAGTAAGAGCAACCTCATCC
1 GAAATTGAAGTAGAG-TGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACCTCATCC
*
7296505 TCTTGAAAGTGAAGTAGAGTTGGATAAACCGTCTTCGTCTCTAAAATTGAAGTAAGAGCAATCTC
65 TCTTGAAAGTGAAGTAGAGTTGGATAAACCGTCTTCGTCTCTGAAATTGAAGTAAGAGCAATCTC
7296570 ATCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTCAAGAGCAACATCACCCCCTT
130 ATCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTCAAGAGCAACATCACCCCCTT
*
7296627 GAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAATAAGAGCAACCTCATCCT
1 GAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACCTCATCCT
* *
7296692 TTTGAAAGTGAAGTAGAGTTAGATAAACCGTCTTCGTCTCTGAAATTGAAGTAAGAGCAATCTCA
66 CTTGAAAGTGAAGTAGAGTTGGATAAACCGTCTTCGTCTCTGAAATTGAAGTAAGAGCAATCTCA
** *
7296757 TCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTCTTGAGCAACATCATCCCCTT
131 TCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTCAAGAGCAACATCACCCCCTT
* * * *
7296813 GAAATTGAAGTAGAGTGGATAACAAGTTTTCATTTCTAAAATTGAAGTAAGAGCAACATCATCCC
1 GAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACCTCATCCT
* * * * * *
7296878 CTTGAAATTGAAGTAGAG-TGGAT-AACAAGTTTTCATCTCTGAAATTGAAGTAGAGTGGGTAA-
66 CTTGAAAGTGAAGTAGAGTTGGATAAAC-CGTCTTCGTCTCTGAAATTGAAGTA-A--GAGCAAT
* ** * *
7296940 C-AAGT-CT-TC-ATCTCTG-A--A-A-TT-G---A-A-GT-AAGAGCAACGTCATCCCCTT
127 CTCA-TCCTCTCGAAAT-TGAAGTAGAGTTGGATAACACGTCAAGAGCAACATCACCCCCTT
* * * * * *
7296986 GAAATTGAAGTAAAGTGTATAACACG-TCTCTATCTCTGAAATTGAAATAAGAGCAACGTCATCC
1 GAAATTGAAGTAGAGTGGATAACAAGTTTTC-ATCTCTGAAATTGAAGTAAGAGCAACCTCATCC
* * * **
7297050 TCTTGAAATTGAAGTAGAGTTGGAT-AACAAGCCTTTATCTCTGAAATTGAAGTAAGAGCAAAAT
65 TCTTGAAAGTGAAGTAGAGTTGGATAAAC-CGTCTTCGTCTCTGAAATTGAAGTAAGAGC--AAT
* *
7297114 CGTTTCCTATCCTCTAGAAATTGAAGTAAAGTTGGATA
127 C---T-C-ATCCTCTCGAAATTGAAGTAGAGTTGGATA
7297152 GCAAAGTTTT
Statistics
Matches: 450, Mismatches: 46, Indels: 55
0.82 0.08 0.10
Matches are distributed among these distances:
171 2 0.00
172 3 0.01
173 90 0.20
174 34 0.08
175 1 0.00
176 1 0.00
179 2 0.00
180 5 0.01
181 4 0.01
182 4 0.01
184 7 0.02
185 31 0.07
186 244 0.54
187 18 0.04
188 4 0.01
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (186 bp):
GAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTCTGAAATTGAAGTAAGAGCAACCTCATCCT
CTTGAAAGTGAAGTAGAGTTGGATAAACCGTCTTCGTCTCTGAAATTGAAGTAAGAGCAATCTCA
TCCTCTCGAAATTGAAGTAGAGTTGGATAACACGTCAAGAGCAACATCACCCCCTT
Found at i:7296923 original size:37 final size:37
Alignment explanation
Indices: 7296812--7297103 Score: 208
Period size: 37 Copynumber: 8.4 Consensus size: 37
7296802 ATCATCCCCT
* *
7296812 TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATTTC
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
* * * * **
7296849 TAAAATTGAAGTA-AG-AG-CAAC-A-TCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
*
7296880 TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
*
7296917 TGAAATTGAAGTAGAGTGGGTAACAAGTCTTCATCTC
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
* * * **
7296954 TGAAATTGAAGTA-AG-AG-CAAC--GTCATCCCCT-
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
* * *
7296985 TGAAATTGAAGTAAAGTGTATAACACGTC-TCTATCTC
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTC-ATCTC
* * * * *
7297022 TGAAATTGAAATA-AG-AG-CAAC--GTCATCCTCT-
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
* *
7297053 TGAAATTGAAGTAGAGTTGGATAACAAGCCTTTATCTC
1 TGAAATTGAAGTAGAG-TGGATAACAAGTCTTCATCTC
7297091 TGAAATTGAAGTA
1 TGAAATTGAAGTA
7297104 AGAGCAAAAT
Statistics
Matches: 195, Mismatches: 39, Indels: 41
0.71 0.14 0.15
Matches are distributed among these distances:
31 37 0.19
32 23 0.12
33 4 0.02
34 16 0.08
35 8 0.04
36 16 0.08
37 78 0.40
38 13 0.07
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (37 bp):
TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTC
Found at i:7296989 original size:31 final size:31
Alignment explanation
Indices: 7296947--7297065 Score: 109
Period size: 31 Copynumber: 3.7 Consensus size: 31
7296937 TAACAAGTCT
7296947 TCAT-CTC-TGAAATTGAAGTAAGAGCAACG
1 TCATCCTCTTGAAATTGAAGTAAGAGCAACG
* **
7296976 TCATCCCCTTGAAATTGAAGTAAAGTGTATAACACG
1 TCATCCTCTTGAAATTGAAGT-AA--G-AGCA-ACG
* *
7297012 TC-TCTATCTCTGAAATTGAAATAAGAGCAACG
1 TCATC-CTCT-TGAAATTGAAGTAAGAGCAACG
7297044 TCATCCTCTTGAAATTGAAGTA
1 TCATCCTCTTGAAATTGAAGTA
7297066 GAGTTGGATA
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
29 4 0.06
30 2 0.03
31 24 0.34
32 10 0.14
33 4 0.06
34 2 0.03
35 4 0.06
36 9 0.13
37 11 0.16
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (31 bp):
TCATCCTCTTGAAATTGAAGTAAGAGCAACG
Found at i:7296994 original size:105 final size:105
Alignment explanation
Indices: 7296812--7297031 Score: 343
Period size: 105 Copynumber: 2.1 Consensus size: 105
7296802 ATCATCCCCT
* *
7296812 TGAAATTGAAGTAGAGTGGATAACAAGTTTTCATTTCTAAAATTGAAGTAAGAGCAACATCATCC
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTAAAATTGAAGTAAGAGCAACATCATCC
* *
7296877 CCTTGAAATTGAAGTAGAGTGGATAACAAGT-TTTCATCTC
66 CCTTGAAATTGAAGTAAAGTGGATAACAAGTCTCT-ATCTC
* * *
7296917 TGAAATTGAAGTAGAGTGGGTAACAAGTCTTCATCTCTGAAATTGAAGTAAGAGCAACGTCATCC
1 TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTAAAATTGAAGTAAGAGCAACATCATCC
* *
7296982 CCTTGAAATTGAAGTAAAGTGTATAACACGTCTCTATCTC
66 CCTTGAAATTGAAGTAAAGTGGATAACAAGTCTCTATCTC
7297022 TGAAATTGAA
1 TGAAATTGAA
7297032 ATAAGAGCAA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
105 103 0.98
106 2 0.02
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (105 bp):
TGAAATTGAAGTAGAGTGGATAACAAGTCTTCATCTCTAAAATTGAAGTAAGAGCAACATCATCC
CCTTGAAATTGAAGTAAAGTGGATAACAAGTCTCTATCTC
Found at i:7297461 original size:17 final size:17
Alignment explanation
Indices: 7297441--7297510 Score: 77
Period size: 17 Copynumber: 4.0 Consensus size: 17
7297431 TTGGATTCTG
* *
7297441 TTTATTTTAAGATTAAT
1 TTTATTTTAAGTTTAAA
**
7297458 TTTATTTTTTATTTTTAAA
1 TTTA--TTTTAAGTTTAAA
7297477 TTTATTTTAAGTTTAAA
1 TTTATTTTAAGTTTAAA
*
7297494 TTTATTTTAAATTTAAA
1 TTTATTTTAAGTTTAAA
7297511 AATAATATTA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
17 31 0.70
19 13 0.30
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (17 bp):
TTTATTTTAAGTTTAAA
Found at i:7298274 original size:19 final size:19
Alignment explanation
Indices: 7298219--7298279 Score: 68
Period size: 19 Copynumber: 3.1 Consensus size: 19
7298209 TAAAAATATT
7298219 ATTAATGATTAATAATTATA
1 ATTAAT-ATTAATAATTATA
* * *
7298239 ATTAATATTTATGATTATG
1 ATTAATATTAATAATTATA
*
7298258 GTTAATATTAATAATTAATA
1 ATTAATATTAATAATT-ATA
7298278 AT
1 AT
7298280 ATTGAAATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
19 23 0.72
20 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.48
Consensus pattern (19 bp):
ATTAATATTAATAATTATA
Found at i:7298277 original size:13 final size:14
Alignment explanation
Indices: 7298219--7298276 Score: 52
Period size: 13 Copynumber: 4.4 Consensus size: 14
7298209 TAAAAATATT
7298219 ATTAATGATTAATA
1 ATTAATGATTAATA
*
7298233 ATT-ATAATTAAT-
1 ATTAATGATTAATA
* *
7298245 ATTTATGATT-ATG
1 ATTAATGATTAATA
*
7298258 GTTAAT-ATTAATA
1 ATTAATGATTAATA
7298271 ATTAAT
1 ATTAAT
7298277 AATATTGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
12 8 0.23
13 24 0.69
14 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (14 bp):
ATTAATGATTAATA
Found at i:7299441 original size:30 final size:30
Alignment explanation
Indices: 7299401--7299577 Score: 304
Period size: 30 Copynumber: 5.9 Consensus size: 30
7299391 GCTTATAGGT
*
7299401 CCCC-AAACTTTTCCAAAATTATATTTTGA
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
7299430 CCCCAAAACTTTTCCAAAATTACATTTTGA
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
7299460 CCCC-AAACTTTTCCAAAATTACATTTTGA
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
*
7299489 CCCCAAAACTTTTCCAAAATTATATTTTGA
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
*
7299519 CCCCAAAACTTTTCCAAAATTATATTTTGA
1 CCCCAAAACTTTTCCAAAATTACATTTTGA
7299549 CCCCAAAAACTTTTCCAAAATTACATTTT
1 CCCC-AAAACTTTTCCAAAATTACATTTT
7299578 AACCTCGATT
Statistics
Matches: 142, Mismatches: 3, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
29 33 0.23
30 86 0.61
31 23 0.16
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (30 bp):
CCCCAAAACTTTTCCAAAATTACATTTTGA
Found at i:7299493 original size:59 final size:59
Alignment explanation
Indices: 7299401--7299577 Score: 318
Period size: 59 Copynumber: 3.0 Consensus size: 59
7299391 GCTTATAGGT
7299401 CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGA
1 CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGA
* *
7299460 CCCCAAACTTTTCCAAAATTACATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGA
1 CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGA
7299519 CCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAAACTTTTCCAAAATTACATTTT
1 CCCC-AAACTTTTCCAAAATTATATTTTGACCCC-AAAACTTTTCCAAAATTACATTTT
7299578 AACCTCGATT
Statistics
Matches: 112, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
59 61 0.54
60 28 0.25
61 23 0.21
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (59 bp):
CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGA
Found at i:7299509 original size:89 final size:89
Alignment explanation
Indices: 7299401--7299577 Score: 320
Period size: 89 Copynumber: 2.0 Consensus size: 89
7299391 GCTTATAGGT
7299401 CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCC-A
1 CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAA
7299465 AACTTTTCCAAAATTACATTTTGA
66 AACTTTTCCAAAATTACATTTTGA
*
7299489 CCCCAAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTATATTTTGACCCCA
1 CCCC-AAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCC-
7299554 AAAACTTTTCCAAAATTACATTTT
64 AAAACTTTTCCAAAATTACATTTT
7299578 AACCTCGATT
Statistics
Matches: 85, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
88 4 0.05
89 58 0.68
91 23 0.27
ACGTcount: A:0.36, C:0.25, G:0.03, T:0.36
Consensus pattern (89 bp):
CCCCAAACTTTTCCAAAATTATATTTTGACCCCAAAACTTTTCCAAAATTACATTTTGACCCCAA
AACTTTTCCAAAATTACATTTTGA
Found at i:7299663 original size:30 final size:28
Alignment explanation
Indices: 7299563--7299665 Score: 86
Period size: 29 Copynumber: 3.6 Consensus size: 28
7299553 AAAAACTTTT
*
7299563 CCAAAATTA-CATTTTAACCTCGATTTCA
1 CCAAAATTACCATTTTAACCCCGA-TTCA
* *
7299591 CCAAAAATTACCATTTT-ACCCCTGAATCTT
1 CC-AAAATTACCATTTTAACCCC-GATTC-A
**
7299621 TTAAAATT-CCATTTTTAACCCCGATTACA
1 CCAAAATTACCA-TTTTAACCCCGATT-CA
7299650 CCAAAATTACCATTTT
1 CCAAAATTACCATTTT
7299666 GCCCCCGGGT
Statistics
Matches: 58, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
28 5 0.09
29 36 0.62
30 17 0.29
ACGTcount: A:0.35, C:0.26, G:0.03, T:0.36
Consensus pattern (28 bp):
CCAAAATTACCATTTTAACCCCGATTCA
Found at i:7302754 original size:6 final size:6
Alignment explanation
Indices: 7302743--7302767 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7302733 CATCTCAACA
7302743 ATAAAT ATAAAT ATAAAT ATAAAT A
1 ATAAAT ATAAAT ATAAAT ATAAAT A
7302768 CATTGAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATAAAT
Found at i:7304338 original size:97 final size:95
Alignment explanation
Indices: 7304220--7304397 Score: 320
Period size: 97 Copynumber: 1.9 Consensus size: 95
7304210 TGGATCTAAA
**
7304220 ATTTTACTCAAATTCACCCATATTTGCAAAAGATTAACCCAAGTCTATTTTATGCCCGTCCATAT
1 ATTTTACTCAAATTCACCCATATTTGCAAAAGATTAACCCAAACCTATTTTATGCCCGTCCATAT
7304285 TATTTTTAATTTTTTTAAAAAATATTTATTTT
66 TA--TTTAATTTTTTTAAAAAATATTTATTTT
7304317 ATTTTACTCAAATTCACCCATATTTGCAAAAGATTAACCCAAACCTATTTTATGCCCGTCCATAT
1 ATTTTACTCAAATTCACCCATATTTGCAAAAGATTAACCCAAACCTATTTTATGCCCGTCCATAT
7304382 TATTTAATTTTTTTAA
66 TATTTAATTTTTTTAA
7304398 TTTTTTTTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
95 14 0.18
97 65 0.82
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (95 bp):
ATTTTACTCAAATTCACCCATATTTGCAAAAGATTAACCCAAACCTATTTTATGCCCGTCCATAT
TATTTAATTTTTTTAAAAAATATTTATTTT
Found at i:7310898 original size:29 final size:30
Alignment explanation
Indices: 7310840--7310900 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
7310830 TGTTTATATA
*
7310840 TTTATAATTTTTAAAAAATTAAATTAAATT
1 TTTATAATTTTTAAAAAATAAAATTAAATT
* *
7310870 TTTATTATTTTT-AAAGATAAAA-TATAATT
1 TTTATAATTTTTAAAAAATAAAATTA-AATT
7310899 TT
1 TT
7310901 ATTTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.07
29 14 0.52
30 11 0.41
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTATAATTTTTAAAAAATAAAATTAAATT
Found at i:7323320 original size:15 final size:15
Alignment explanation
Indices: 7323289--7323334 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
7323279 ATTTGACAAC
7323289 AAAAAA-AT-TAATA
1 AAAAAATATATAATA
* *
7323302 AAAAATTATATAATT
1 AAAAAATATATAATA
7323317 AAAAAATATATTAATA
1 AAAAAATATA-TAATA
7323333 AA
1 AA
7323335 CGAAAATACA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
13 5 0.19
14 2 0.08
15 13 0.50
16 6 0.23
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAAATATATAATA
Found at i:7324709 original size:6 final size:7
Alignment explanation
Indices: 7324692--7324717 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7324682 ATAAAGTATT
7324692 TTTTTTG
1 TTTTTTG
7324699 TTTTTTG
1 TTTTTTG
7324706 TTTTTTG
1 TTTTTTG
7324713 TTTTT
1 TTTTT
7324718 AACACCTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:7324796 original size:59 final size:60
Alignment explanation
Indices: 7324727--7324856 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 60
7324717 TAACACCTAT
* * *
7324727 TGGTCTGCACCAC-TTTTTCAGTAC-CTGAGAATTTTTTTCGCTAGTTTTTACCCTTTTA-A
1 TGGTCGGCACCACTTTTTTCAGTACTC-GAAAATTTTTTTCGCTAGTTTTTACCC-TATAGA
* * *
7324786 TGGTCGGCACCACTTTTTTCAGTACTCGAAAATTTTTTTTGCTGGTTTTTATCCTATAGA
1 TGGTCGGCACCACTTTTTTCAGTACTCGAAAATTTTTTTCGCTAGTTTTTACCCTATAGA
7324846 TGGTCGGCACC
1 TGGTCGGCACC
7324857 CCAATAGTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
59 15 0.24
60 46 0.74
61 1 0.02
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (60 bp):
TGGTCGGCACCACTTTTTTCAGTACTCGAAAATTTTTTTCGCTAGTTTTTACCCTATAGA
Found at i:7325989 original size:16 final size:17
Alignment explanation
Indices: 7325968--7326010 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
7325958 TCGGGATGAG
7325968 AATAAATTT-TTAATTA
1 AATAAATTTATTAATTA
7325984 AATAAATTTAATTAATTA
1 AATAAATTT-ATTAATTA
7326002 AA-AAATTTA
1 AATAAATTTA
7326011 AATTAATTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 10 0.40
17 6 0.24
18 9 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAAATTTATTAATTA
Found at i:7326000 original size:18 final size:18
Alignment explanation
Indices: 7325968--7326019 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
7325958 TCGGGATGAG
7325968 AATAAATTT--TTAATTA
1 AATAAATTTAATTAATTA
7325984 AATAAATTTAATTAATTA
1 AATAAATTTAATTAATTA
7326002 AA-AAATTTAAATTAATTA
1 AATAAATTT-AATTAATTA
7326020 CACCTTGAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.27
17 6 0.18
18 18 0.55
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
AATAAATTTAATTAATTA
Found at i:7326277 original size:16 final size:15
Alignment explanation
Indices: 7326242--7326284 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
7326232 GTAATACTTT
*
7326242 AAATATAATTGACTA
1 AAATATAATTGACAA
*
7326257 AAATATAATCTGAGAA
1 AAATATAAT-TGACAA
*
7326273 AAATAAAATTGA
1 AAATATAATTGA
7326285 TTATTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.58, C:0.05, G:0.09, T:0.28
Consensus pattern (15 bp):
AAATATAATTGACAA
Found at i:7327173 original size:23 final size:22
Alignment explanation
Indices: 7327138--7327180 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
7327128 TGTTAGTTAA
*
7327138 TTTGATTATTTTAAGTTTTTTGT
1 TTTGATTAATTTAA-TTTTTTGT
*
7327161 TTTGTTTAATTTAATTTTTT
1 TTTGATTAATTTAATTTTTT
7327181 AATTGATTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.19, C:0.00, G:0.09, T:0.72
Consensus pattern (22 bp):
TTTGATTAATTTAATTTTTTGT
Found at i:7328047 original size:14 final size:15
Alignment explanation
Indices: 7328028--7328073 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
7328018 AACCTAGCTA
7328028 ATTAATTACCAAAAT
1 ATTAATTACCAAAAT
*
7328043 A-TAATATA-AAAAAT
1 ATTAAT-TACCAAAAT
7328057 AATTAATTACCAAAAT
1 -ATTAATTACCAAAAT
7328073 A
1 A
7328074 ATATCCCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
14 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (15 bp):
ATTAATTACCAAAAT
Found at i:7328071 original size:16 final size:16
Alignment explanation
Indices: 7328026--7328075 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
7328016 TAAACCTAGC
7328026 TAATTAATTACCAAAA
1 TAATTAATTACCAAAA
*
7328042 T-A-TAATATA-AAAAA
1 TAATTAAT-TACCAAAA
7328056 TAATTAATTACCAAAA
1 TAATTAATTACCAAAA
7328072 TAAT
1 TAAT
7328076 ATCCCCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 9 0.32
15 6 0.21
16 13 0.46
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATTAATTACCAAAA
Found at i:7328178 original size:17 final size:17
Alignment explanation
Indices: 7328156--7328221 Score: 78
Period size: 17 Copynumber: 3.9 Consensus size: 17
7328146 AACTTTTAAT
*
7328156 TTTTAAATTTTAATTTA
1 TTTTAAATTTAAATTTA
*
7328173 TTTTAAATTTAAATTCA
1 TTTTAAATTTAAATTTA
* * *
7328190 TATTGAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
*
7328207 TTTTAAATTTGAATT
1 TTTTAAATTTAAATT
7328222 AAAAAACTAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.58
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:7330195 original size:30 final size:30
Alignment explanation
Indices: 7330155--7330407 Score: 239
Period size: 29 Copynumber: 8.6 Consensus size: 30
7330145 TCCTAAAATG
* *
7330155 TCCAAGAATTATATTTTTGACCCCAAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
*
7330185 TCCAAAAATTACA-TTTTGACCCTAAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
** * * *
7330214 TTTAAAAATTA-TTTTTTTATCCC-AAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* * *
7330242 TCCAAAAATTCCATTTTTAACCCCGAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* *
7330272 TCTAAAAATTCCATTTTT-ACCCCCAAAA-T
1 TCCAAAAATTACATTTTTGA-CCCCAAAACT
* * *
7330301 TCCAAAAATTCCATCTTTTGACACCGAAACT
1 TCCAAAAATTACAT-TTTTGACCCCAAAACT
**
7330332 TCCAAAAATTACATTTTT-ACCCCTGAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
* **
7330361 TCCAAAAATTCCATTTTTGACCTTAAAACT
1 TCCAAAAATTACATTTTTGACCCCAAAACT
**
7330391 TTTAAAAATTACATTTT
1 TCCAAAAATTACATTTT
7330408 ACCTCTGAAC
Statistics
Matches: 183, Mismatches: 32, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
28 13 0.07
29 80 0.44
30 75 0.41
31 15 0.08
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.36
Consensus pattern (30 bp):
TCCAAAAATTACATTTTTGACCCCAAAACT
Found at i:7330308 original size:59 final size:58
Alignment explanation
Indices: 7330161--7330407 Score: 271
Period size: 59 Copynumber: 4.2 Consensus size: 58
7330151 AATGTCCAAG
* * * *
7330161 AATTATATTTTTGACCCCAAAACTTCCAAAAATTACA-TTTTGACCCTAAAACTTTTAAA
1 AATTACATTTTT-ACCCCAAAA-TTCCAAAAATTCCATTTTTGACCCCAAAACTTCTAAA
** * * * *
7330220 AATTATTTTTTTATCCCAAACTTCCAAAAATTCCATTTTTAACCCCGAAACTTCTAAA
1 AATTACATTTTTACCCCAAAATTCCAAAAATTCCATTTTTGACCCCAAAACTTCTAAA
* * * *
7330278 AATTCCATTTTTACCCCCAAAATTCCAAAAATTCCATCTTTTGACACCGAAACTTCCAAA
1 AATTACATTTTTA-CCCCAAAATTCCAAAAATTCCAT-TTTTGACCCCAAAACTTCTAAA
* * ** *
7330338 AATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTTAAAACTTTTAAA
1 AATTACATTTTTACCCC-AAAATTCCAAAAATTCCATTTTTGACCCCAAAACTTCTAAA
7330397 AATTACATTTT
1 AATTACATTTT
7330408 ACCTCTGAAC
Statistics
Matches: 159, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
57 13 0.08
58 35 0.22
59 63 0.40
60 48 0.30
ACGTcount: A:0.37, C:0.23, G:0.03, T:0.36
Consensus pattern (58 bp):
AATTACATTTTTACCCCAAAATTCCAAAAATTCCATTTTTGACCCCAAAACTTCTAAA
Found at i:7330459 original size:58 final size:59
Alignment explanation
Indices: 7330161--7330438 Score: 181
Period size: 58 Copynumber: 4.7 Consensus size: 59
7330151 AATGTCCAAG
* ** * * * * *
7330161 AATTATATTTTTGACCCCAAAACTTCCAAAAATTACA-TTTTGACCCTAAAACTTTTAAA
1 AATTACATTTTT-ACCCCTGAACGTCCAAAAACTCCATTTTTGACCTTAAAACTCTTAAA
** * * * * * ***
7330220 AATTATTTTTTTATCCC-AAACTTCCAAAAATTCCATTTTTAACCCCGAAACT-TCTAAA
1 AATTACATTTTTACCCCTGAACGTCCAAAAACTCCATTTTTGACCTTAAAACTCT-TAAA
* ** ** * ** *
7330278 AATTCCATTTTTACCCCCAAAATTCCAAAAATTCCATCTTTTGACAC-CGAAACT-TCCAAA
1 AATTACATTTTTACCCCTGAACGTCCAAAAACTCCAT-TTTTGAC-CTTAAAACTCT-TAAA
* * *
7330338 AATTACATTTTTACCCCTGAACTTCCAAAAATTCCATTTTTGACCTTAAAACTTTTAAA
1 AATTACATTTTTACCCCTGAACGTCCAAAAACTCCATTTTTGACCTTAAAACTCTTAAA
* *
7330397 AATTACA-TTTTACCTCTGAACGTCCAAAAACTCTATTTTTGA
1 AATTACATTTTTACCCCTGAACGTCCAAAAACTCCATTTTTGA
7330439 TCCTAATTTC
Statistics
Matches: 188, Mismatches: 24, Indels: 15
0.83 0.11 0.07
Matches are distributed among these distances:
57 18 0.10
58 66 0.35
59 51 0.27
60 52 0.28
61 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.04, T:0.36
Consensus pattern (59 bp):
AATTACATTTTTACCCCTGAACGTCCAAAAACTCCATTTTTGACCTTAAAACTCTTAAA
Found at i:7332720 original size:43 final size:43
Alignment explanation
Indices: 7332638--7332722 Score: 109
Period size: 43 Copynumber: 2.0 Consensus size: 43
7332628 ATTAACATGT
* *
7332638 TAAATTATATTACTTGACTCGCGTTAATATGGTTGCATGTTAC
1 TAAATTATATTACTTGACTCGCATTAATATGCTTGCATGTTAC
* **
7332681 TAAATTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAATTATATTACTTGACTCGCATTAATATGCTTG-CATGTTA
7332723 TTAATTGTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
42 3 0.08
43 33 0.92
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.46
Consensus pattern (43 bp):
TAAATTATATTACTTGACTCGCATTAATATGCTTGCATGTTAC
Found at i:7333358 original size:45 final size:45
Alignment explanation
Indices: 7333287--7333468 Score: 319
Period size: 45 Copynumber: 4.0 Consensus size: 45
7333277 CCCTAGCTCA
* * *
7333287 TCAAGCCAAAGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGGCTGAGTTTGACGAGCCACCGCAATAC
*
7333332 TCAAGCCAAGGATATCAGGCTAAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGGCTGAGTTTGACGAGCCACCGCAATAC
7333377 TCAAGCCAAGGATATCAGGCTGAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGGCTGAGTTTGACGAGCCACCGCAATAC
*
7333422 TCAAGCCAAGGATATCAGGCTGAGTTTGACGAACCACCGCAATAC
1 TCAAGCCAAGGATATCAGGCTGAGTTTGACGAGCCACCGCAATAC
7333467 TC
1 TC
7333469 TACTCCTCCG
Statistics
Matches: 132, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 132 1.00
ACGTcount: A:0.32, C:0.28, G:0.21, T:0.18
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGGCTGAGTTTGACGAGCCACCGCAATAC
Found at i:7333743 original size:14 final size:14
Alignment explanation
Indices: 7333700--7333757 Score: 64
Period size: 14 Copynumber: 4.1 Consensus size: 14
7333690 TAAATTTCAT
7333700 AACCTTAAACCCTAA
1 AACCTTAAA-CCTAA
*
7333715 AA-CTTAAACCCAA
1 AACCTTAAACCTAA
*
7333728 AACCTTAAACTTAA
1 AACCTTAAACCTAA
*
7333742 AACCATAAAGCCTAA
1 AACCTTAAA-CCTAA
7333757 A
1 A
7333758 CCCTAGAGTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 6 0.17
14 23 0.64
15 7 0.19
ACGTcount: A:0.52, C:0.28, G:0.02, T:0.19
Consensus pattern (14 bp):
AACCTTAAACCTAA
Found at i:7333758 original size:21 final size:20
Alignment explanation
Indices: 7333700--7333758 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 20
7333690 TAAATTTCAT
*
7333700 AACCTTAAACCCTAAAACTTAA
1 AACCATAAA-CCT-AAACTTAA
*
7333722 ACCCA-AAACCTTAAACTTAA
1 AACCATAAACC-TAAACTTAA
7333742 AACCATAAAGCCTAAAC
1 AACCATAAA-CCTAAAC
7333759 CCTAGAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 14 0.45
21 12 0.39
22 5 0.16
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.19
Consensus pattern (20 bp):
AACCATAAACCTAAACTTAA
Found at i:7333778 original size:28 final size:27
Alignment explanation
Indices: 7333712--7333780 Score: 66
Period size: 28 Copynumber: 2.5 Consensus size: 27
7333702 CCTTAAACCC
*
7333712 TAAAACTTAAACCCAAAACCTTAAACT
1 TAAAACTTAAACCCAAAACCCTAAACT
* * * * *
7333739 TAAAACCATAAAGCCTAAACCCTAGAGT
1 TAAAA-CTTAAACCCAAAACCCTAAACT
7333767 TAAAACTTTAAACC
1 TAAAAC-TTAAACC
7333781 TTAAATCCTA
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.49, C:0.25, G:0.04, T:0.22
Consensus pattern (27 bp):
TAAAACTTAAACCCAAAACCCTAAACT
Found at i:7336801 original size:4 final size:4
Alignment explanation
Indices: 7336781--7336824 Score: 61
Period size: 4 Copynumber: 11.0 Consensus size: 4
7336771 AAACACATTA
* * *
7336781 TCTT TCTC TCCT TCTT TCTT TCTT TTTT TCTT TCTT TCTT TCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT
7336825 GTTTATTTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:7338814 original size:55 final size:55
Alignment explanation
Indices: 7338703--7338814 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 55
7338693 CAAAAAATAA
* * *
7338703 TTATTCGTGTTTTTTTGTGCCAGCCATTAGCTGTCAAACACCCAAAAATATTTTT
1 TTATTCGTGTTTTTTGGTGCCAGCCATTAGCTGGCAAACACCCAAAAATATATTT
* * **
7338758 TTATTCGTGTTTTTTGGTGTC-GACCATTAGGTGGCAAACACCCAAATTTATATTT
1 TTATTCGTGTTTTTTGGTGCCAG-CCATTAGCTGGCAAACACCCAAAAATATATTT
7338813 TT
1 TT
7338815 TCAAAAACTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
54 1 0.02
55 48 0.98
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.43
Consensus pattern (55 bp):
TTATTCGTGTTTTTTGGTGCCAGCCATTAGCTGGCAAACACCCAAAAATATATTT
Found at i:7345990 original size:55 final size:54
Alignment explanation
Indices: 7345880--7345990 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 54
7345870 CAAAAAAAAA
* * * *
7345880 TTATTCATGTTTTTTTTGTCGGCCATTAGCTGTCAAACACCTAAAAATATTTTT
1 TTATTCATGTTTTTTGTGTCGACCATTAGCTGGCAAACACCTAAAAATATATTT
* * **
7345934 TTATTCGTGTTTTTTGGTGTCGACCATTAGGTGGCAAACACCTAAATTTATATTT
1 TTATTCATGTTTTTT-GTGTCGACCATTAGCTGGCAAACACCTAAAAATATATTT
7345989 TT
1 TT
7345991 TCAAAAATTG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
54 14 0.29
55 34 0.71
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.46
Consensus pattern (54 bp):
TTATTCATGTTTTTTGTGTCGACCATTAGCTGGCAAACACCTAAAAATATATTT
Found at i:7353395 original size:26 final size:25
Alignment explanation
Indices: 7353330--7353405 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
7353320 AAATAAATTT
7353330 AATTTATATTTATTTCAATTTTTAG
1 AATTTATATTTATTTCAATTTTTAG
*
7353355 AATTATATATATATTTCTACATTTTTA-
1 AATT-TATATTTATTTC-A-ATTTTTAG
**
7353382 ATATTTAT-TTTATTTTTATTTTTA
1 A-ATTTATATTTATTTCAATTTTTA
7353406 AATATACTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
24 7 0.16
25 4 0.09
26 17 0.40
27 5 0.12
28 10 0.23
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (25 bp):
AATTTATATTTATTTCAATTTTTAG
Found at i:7355449 original size:2 final size:2
Alignment explanation
Indices: 7355442--7355466 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7355432 AAAATGCACT
7355442 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
7355467 GAGGTTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7360001 original size:20 final size:19
Alignment explanation
Indices: 7359978--7360054 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 19
7359968 TTTTTAACTG
7359978 TTTTGGTGTTCTTTTTGTTA
1 TTTTGGTGTT-TTTTTGTTA
7359998 TTTTGGTGCTGTTTTTTGCTGT-
1 TTTTGGTG-T-TTTTTTG-T-TA
*
7360020 TTTTGGT-TTTTTGTGTTA
1 TTTTGGTGTTTTTTTGTTA
*
7360038 TTTTGATGTTGTTTTTG
1 TTTTGGTGTT-TTTTTG
7360055 CTGTTGTTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 14
0.73 0.05 0.22
Matches are distributed among these distances:
17 1 0.02
18 7 0.15
19 8 0.17
20 14 0.30
21 7 0.15
22 9 0.19
23 1 0.02
ACGTcount: A:0.04, C:0.04, G:0.23, T:0.69
Consensus pattern (19 bp):
TTTTGGTGTTTTTTTGTTA
Found at i:7360051 original size:40 final size:41
Alignment explanation
Indices: 7359978--7360059 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
7359968 TTTTTAACTG
* *
7359978 TTTTGGTGTTCTTTTTGTTATTTTGGTGCTGTTTTTTGCTGT
1 TTTTGGTGTTCTTTGTGTTATTTTGATGCTG-TTTTTGCTGT
*
7360020 TTTTGGT-TT-TTTGTGTTATTTTGATGTTGTTTTTGCTGT
1 TTTTGGTGTTCTTTGTGTTATTTTGATGCTGTTTTTGCTGT
7360059 T
1 T
7360060 GTTTTACTAC
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 11 0.30
40 17 0.46
41 2 0.05
42 7 0.19
ACGTcount: A:0.04, C:0.05, G:0.23, T:0.68
Consensus pattern (41 bp):
TTTTGGTGTTCTTTGTGTTATTTTGATGCTGTTTTTGCTGT
Found at i:7360075 original size:23 final size:23
Alignment explanation
Indices: 7360049--7360099 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
7360039 TTTGATGTTG
7360049 TTTTTGCTGTTGTTTTACTACTA
1 TTTTTGCTGTTGTTTTACTACTA
* **
7360072 TTTTTGTTGTTGTTTTACTGTTA
1 TTTTTGCTGTTGTTTTACTACTA
7360095 TTTTT
1 TTTTT
7360100 TTGTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.10, C:0.08, G:0.14, T:0.69
Consensus pattern (23 bp):
TTTTTGCTGTTGTTTTACTACTA
Found at i:7360113 original size:31 final size:31
Alignment explanation
Indices: 7360072--7360131 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
7360062 TTTACTACTA
*
7360072 TTTTTGTTGTTGTTTTACTGTTATTTTTTTG
1 TTTTTGTTGTTGTTTGACTGTTATTTTTTTG
* *
7360103 TTTTTTTTGTTGTTTGAGTGTTATTTTTT
1 TTTTTGTTGTTGTTTGACTGTTATTTTTT
7360132 ATGCGATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.07, C:0.02, G:0.17, T:0.75
Consensus pattern (31 bp):
TTTTTGTTGTTGTTTGACTGTTATTTTTTTG
Found at i:7363327 original size:59 final size:59
Alignment explanation
Indices: 7363235--7363348 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 59
7363225 TTAGCACTTG
* * * ***
7363235 AACTTGACACTTTTTCTTAATTTGATACCTAAACTTTTTTTTGTCCAATTTGGTATTCA
1 AACTTAACACTTTTTCTTAAGTTGATACATAAACTTTTTGAGGTCCAATTTGGTATTCA
*
7363294 AACTTAACACTTTTTCTTAAGTTGGTACATAAACTTTTTGAGGTCCAATTTGGTA
1 AACTTAACACTTTTTCTTAAGTTGATACATAAACTTTTTGAGGTCCAATTTGGTA
7363349 CTGAACTTGA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 48 1.00
ACGTcount: A:0.27, C:0.16, G:0.11, T:0.46
Consensus pattern (59 bp):
AACTTAACACTTTTTCTTAAGTTGATACATAAACTTTTTGAGGTCCAATTTGGTATTCA
Done.