Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
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: 9952466
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 43
Found at i:2171373 original size:71 final size:73
Alignment explanation
Indices: 2171298--2171621 Score: 257
Period size: 72 Copynumber: 4.6 Consensus size: 73
2171288 TGTTTTCTTA
* * * * * *
2171298 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
2171360 TTTCCCTTG
65 TTTCCCTTG
* *
2171369 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
2171433 TTCCCTTG
66 TTCCCTTG
* * * * *
2171441 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
*
2171497 TTTTCCTTG
65 TTTCCCTTG
* * ** * * * * *
2171506 AAACAAATTTCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
2171570 TTTCTCTTG
65 TTTCCCTTG
* * *
2171579 AAAC-AATTTTCGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTT-GTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
2171622 ACCTTTGAAT
Statistics
Matches: 207, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
64 2 0.01
65 47 0.23
66 5 0.02
70 8 0.04
71 25 0.12
72 78 0.38
73 40 0.19
74 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:2171383 original size:36 final size:36
Alignment explanation
Indices: 2171340--2171483 Score: 252
Period size: 36 Copynumber: 4.0 Consensus size: 36
2171330 ACTAGAAGAG
2171340 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
2171376 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
2171412 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2171448 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2171484 ATATTTGAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:2171442 original size:72 final size:71
Alignment explanation
Indices: 2171341--2171621 Score: 326
Period size: 72 Copynumber: 4.0 Consensus size: 71
2171331 CTAGAAGAGT
* *
2171341 TTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGA
1 TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
2171406 AACAAA
66 AACAAA
*
2171412 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
1 TTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
2171477 AAACAAA
65 AAACAAA
* * * * * **
2171484 -----ATAT-TTGA-ATATGTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTG
1 TTTGTCTATCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTG
* *
2171542 GAACTAAGT
65 AAAC-AA-A
* * *
2171551 TTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG
1 TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTT-GTCTCTCTTGAGACAGTTTCCCTTG
2171615 AAACAAA
65 AAACAAA
2171622 ACCTTTGAAT
Statistics
Matches: 173, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
64 2 0.01
65 47 0.27
66 5 0.03
71 3 0.02
72 74 0.43
73 40 0.23
74 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (71 bp):
TTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGA
AACAAA
Found at i:2171514 original size:65 final size:66
Alignment explanation
Indices: 2171359--2171789 Score: 259
Period size: 65 Copynumber: 6.3 Consensus size: 66
2171349 TCTTGAGACA
* * *
2171359 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
1 GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAA------ATATCT
*
2171424 TGAGACA-
60 TGA-ATAT
* * * *
2171431 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATAT-TTGAATA
1 GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTGAATA
2171495 T
66 T
* * * ** *
2171496 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AA------AATATC
*
2171561 TTGAGACA-
59 TTGA-ATAT
** * **
2171569 G-TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT-TTGAA
1 GTTTTC-CTTGAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTGAA
*
2171631 TTT
64 TAT
* * * * * *
2171634 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAA-ATCTTCAA-
1 GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA-AAATATCTTGAAT
2171697 AT
65 AT
* * * * *
2171699 TTATTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAACAGATATCTT
1 GT-TTT-CCTTGAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAA-A-ATATC-T
*
2171764 TGAGAT-C
60 TGA-ATAT
* *
2171771 GTTTCCCTTGAAACGAATT
1 GTTTTCCTTGAAACAAATT
2171790 CTATCTCTTT
Statistics
Matches: 283, Mismatches: 50, Indels: 55
0.73 0.13 0.14
Matches are distributed among these distances:
64 3 0.01
65 86 0.30
66 25 0.09
67 10 0.04
68 33 0.12
69 5 0.02
70 11 0.04
71 5 0.02
72 66 0.23
73 37 0.13
74 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.39
Consensus pattern (66 bp):
GTTTTCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAAATATCTTGAATA
T
Found at i:2171606 original size:36 final size:36
Alignment explanation
Indices: 2171498--2171620 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
2171488 TTGAATATGT
* *
2171498 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
* *
2171533 TTTCTTTTGGAACTAAGTTTT-GTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AA-TTTTCGTCTCTCTTGAGACAG
*
2171570 TTTCTCTTGAAACAATTTTCGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
*
2171606 TTTCCCTTGAAACAA
1 TTTCTCTTGAAACAA
2171621 AACCTTTGAA
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
35 8 0.11
36 37 0.49
37 28 0.37
38 3 0.04
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAATTTTCGTCTCTCTTGAGACAG
Found at i:2171608 original size:138 final size:137
Alignment explanation
Indices: 2171359--2171684 Score: 465
Period size: 138 Copynumber: 2.4 Consensus size: 137
2171349 TCTTGAGACA
*
2171359 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
* *
2171424 TGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATT
66 TGAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATT
2171489 TGAATAT
131 TGAATAT
* * * * * * *
2171496 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATC
* * *
2171561 TTGAGACAGTTTCTCTTGAAA-CAATTTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACC
65 TTGAGACAGTTTCCCTTGAAATAAATTTT-GTCTATCTTGAGACAGTTTCCCTTGAAACAAAACA
*
2171625 TTTGAATTT
129 TTTGAATAT
* * * *
2171634 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2171685 CAAAATCTTC
Statistics
Matches: 165, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
137 52 0.32
138 113 0.68
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (137 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
TGAGACAGTTTCCCTTGAAATAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATT
TGAATAT
Found at i:2171714 original size:67 final size:67
Alignment explanation
Indices: 2171570--2171752 Score: 210
Period size: 68 Copynumber: 2.7 Consensus size: 67
2171560 CTTGAGACAG
* * ** * **
2171570 TTTCTCTTGAAAC-AATTTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAAT
1 TTTCCCTTAAAACAAATTTT-GTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAAT
2171632 TTA
65 TTA
* * *
2171635 TTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATT
1 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATT
2171700 TA
66 TA
* * *
2171702 TTTCCCTTAAAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACA
1 TTTCCCTTAAAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2171753 ACAGATATCT
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
65 31 0.31
66 8 0.08
67 28 0.28
68 32 0.32
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (67 bp):
TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATT
TA
Found at i:2172579 original size:105 final size:105
Alignment explanation
Indices: 2172396--2172949 Score: 946
Period size: 105 Copynumber: 5.3 Consensus size: 105
2172386 GCACTCGATG
* * * * * *
2172396 CAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
2172461 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* * * *
2172502 CAACGTAATTTCAACTTCACGATGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2172567 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
*
2172607 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2172672 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
2172712 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
2172777 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCATA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
2172817 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2172882 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
*
2172922 CAACGCAAGTTCAACTTCACAACGAAGG
1 CAACGCAAGTTCAACTTCACGACGAAGG
2172950 ATATTGGACT
Statistics
Matches: 428, Mismatches: 20, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
105 390 0.91
106 38 0.09
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
Found at i:2172926 original size:24 final size:24
Alignment explanation
Indices: 2172897--2172967 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
2172887 TTTCAACTTC
2172897 ACAACGAAGGATATTGGACTTCAG
1 ACAACGAAGGATATTGGACTTCAG
**
2172921 ACAACGCAA-G---TTCAACTTC--
1 ACAACG-AAGGATATTGGACTTCAG
*
2172940 ACAACGAAGGATATTGGACTCCAG
1 ACAACGAAGGATATTGGACTTCAG
2172964 ACAA
1 ACAA
2172968 TGCAAGTTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 14
0.65 0.09 0.26
Matches are distributed among these distances:
18 2 0.06
19 7 0.20
21 7 0.20
22 6 0.17
24 11 0.31
25 2 0.06
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (24 bp):
ACAACGAAGGATATTGGACTTCAG
Found at i:2172936 original size:43 final size:43
Alignment explanation
Indices: 2172888--2172992 Score: 183
Period size: 43 Copynumber: 2.4 Consensus size: 43
2172878 CAGAGCCAAT
*
2172888 TTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
2172931 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
2172974 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
2172993 GACCGATGCT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2172954 original size:148 final size:148
Alignment explanation
Indices: 2172783--2173097 Score: 549
Period size: 148 Copynumber: 2.1 Consensus size: 148
2172773 CAGAGCCAAT
*
2172783 TTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
2172848 CGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
2172913 GACTTCAGACAACGCAAG
131 GACTCCAGACAACGCAAG
*
2172931 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
2172996 CGATGCTTGTCAACAACAGCTTCCCAATCTCAGAGCCAATTTCAACTTCACAATGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
2173061 GACTCCAGACAACGCAAG
131 GACTCCAGACAACGCAAG
*
2173079 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
2173098 GACCGCTGCT
Statistics
Matches: 158, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
148 158 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (148 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAG
Found at i:2172967 original size:253 final size:248
Alignment explanation
Indices: 2172678--2173197 Score: 862
Period size: 253 Copynumber: 2.1 Consensus size: 248
2172668 CAGAGCCAAT
* *
2172678 TTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
2172743 CGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
2172808 GACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC
* *
2172873 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAG
193 -A-TTCAGAGCCAATTTCAACTTCACAAAGAAGGATATTGGAC-TCGAGACAACACAAG
*
2172931 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
2172996 CGATGCTTGTCAACAACAGCTTCCCAATCTCAGAGCCAATTTCAACTTCACAATGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
2173061 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
**
2173126 CAGATTCAATTTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAG
196 CAGAGCCAATTTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAG
2173179 TTCAACTTCACAACGAAGG
1 TTCAACTTCACAACGAAGG
2173198 GACGGCTGGT
Statistics
Matches: 253, Mismatches: 13, Indels: 7
0.93 0.05 0.03
Matches are distributed among these distances:
247 2 0.01
248 67 0.26
249 1 0.00
250 2 0.01
251 2 0.01
252 2 0.01
253 177 0.70
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (248 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
CAGAGCCAATTTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAG
Found at i:2173040 original size:105 final size:102
Alignment explanation
Indices: 2172931--2173270 Score: 450
Period size: 100 Copynumber: 3.3 Consensus size: 102
2172921 ACAACGCAAG
*
2172931 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
2172996 CGATGCTTGTCAACAACAGCTTCCCAATCTCAGAGCCAAT
66 CGCTGCTTGTCAACAACA-ATTCCC-AT-TCAGAGCCAAT
*
2173036 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* **
2173101 CGCTGCTTGTCAACAA-AATT-TCATTCAGATTCAAT
66 CGCTGCTTGTCAACAACAATTCCCATTCAGAGCCAAT
* * * *
2173136 TTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
2173201 GGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
66 CGCTGCTTGTCAAC-AACAA-TTCCC-ATT-CAGAGCCAAT
* * *
2173242 TTCAACTTCACGACGGAGGATATTAGACT
1 TTCAACTTCACAACGAAGGATATTGGACT
2173271 TGGAACAATG
Statistics
Matches: 208, Mismatches: 21, Indels: 11
0.87 0.09 0.05
Matches are distributed among these distances:
100 82 0.39
101 4 0.02
102 3 0.01
103 4 0.02
104 2 0.01
105 80 0.38
106 33 0.16
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.23
Consensus pattern (102 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGCTTGTCAACAACAATTCCCATTCAGAGCCAAT
Found at i:2173862 original size:34 final size:36
Alignment explanation
Indices: 2173818--2173919 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
2173808 TTTCGTCCTA
*
2173818 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
2173853 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
2173888 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
2173920 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:2173943 original size:37 final size:37
Alignment explanation
Indices: 2173815--2173953 Score: 158
Period size: 37 Copynumber: 3.8 Consensus size: 37
2173805 ATTTTTCGTC
* *
2173815 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
2173852 -T--TAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
2173886 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
** * * *
2173923 CTACTATTATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2173954 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 31 0.35
35 1 0.01
36 1 0.01
37 55 0.62
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:2174334 original size:32 final size:33
Alignment explanation
Indices: 2174298--2174380 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 33
2174288 ATTATTCTTG
2174298 TTATATATGCATAT-TACTTTCTATTAATTTTA
1 TTATATATGCATATATACTTTCTATTAATTTTA
* ** * *
2174330 TTATATATGTATATATGTTTTTTATTAGTTTTA
1 TTATATATGCATATATACTTTCTATTAATTTTA
**
2174363 TATATATATATATATATA
1 T-TATATATGCATATATA
2174381 TATATTTATA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 13 0.31
33 15 0.36
34 14 0.33
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.58
Consensus pattern (33 bp):
TTATATATGCATATATACTTTCTATTAATTTTA
Found at i:2174366 original size:2 final size:2
Alignment explanation
Indices: 2174361--2174391 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2174351 TTATTAGTTT
*
2174361 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2174392 TTCCTATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:2174479 original size:20 final size:20
Alignment explanation
Indices: 2174454--2174491 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2174444 ATTATTATTA
2174454 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
2174474 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
2174492 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:2174523 original size:16 final size:18
Alignment explanation
Indices: 2174502--2174536 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2174492 TTTACTCATT
2174502 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
2174518 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
2174536 T
1 T
2174537 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:2177706 original size:32 final size:32
Alignment explanation
Indices: 2177670--2177742 Score: 78
Period size: 32 Copynumber: 2.3 Consensus size: 32
2177660 AGATCCAATC
* *
2177670 AAGAACAAAAAGGAA-AAGAAGCAAAA-AAAACA
1 AAGAA-AAAAAGAAACAAGAA-CAAAAGAAAAAA
*
2177702 AAGAAAAAGAGAAACAAGAACAAAAGAAAAAA
1 AAGAAAAAAAGAAACAAGAACAAAAGAAAAAA
*
2177734 AAGCAAAAA
1 AAGAAAAAA
2177743 TCAAAATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
31 12 0.35
32 22 0.65
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (32 bp):
AAGAAAAAAAGAAACAAGAACAAAAGAAAAAA
Found at i:2177709 original size:23 final size:24
Alignment explanation
Indices: 2177677--2177742 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
2177667 ATCAAGAACA
*
2177677 AAAAGGAAAAGAAGCAAAAAAAAC
1 AAAAGAAAAAGAAGCAAAAAAAAC
*
2177701 -AAAGAAAAAG-AG-AAACAAGAAC
1 AAAAGAAAAAGAAGCAAA-AAAAAC
*
2177723 AAAAGAAAAAAAAGCAAAAA
1 AAAAGAAAAAGAAGCAAAAA
2177743 TCAAAATGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
21 3 0.09
22 7 0.20
23 18 0.51
24 4 0.11
25 3 0.09
ACGTcount: A:0.77, C:0.08, G:0.15, T:0.00
Consensus pattern (24 bp):
AAAAGAAAAAGAAGCAAAAAAAAC
Found at i:2179381 original size:71 final size:73
Alignment explanation
Indices: 2179306--2179629 Score: 264
Period size: 72 Copynumber: 4.6 Consensus size: 73
2179296 TGTTTTCTTA
* * * * * *
2179306 AAACAAGA-TTTGTCTCGCTTGAGACCGTTTTCACTAG-AA-GAGTTTTGTCTCTCTTGAGACAG
1 AAACAA-ATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAG
2179368 TTTCCCTTG
65 TTTCCCTTG
* *
2179377 AAACAAATTTTGTCTCTCTTGAGACAG-TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
2179441 TTCCCTTG
66 TTCCCTTG
* * * * *
2179449 AAATAAATTTTGTCTCTCTTGAGACAG-TTTCCCTTGAAACAAA------ATAT-TTGA-ATATG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACA-G
*
2179505 TTTTCCTTG
65 TTTCCCTTG
* * ** * * * * *
2179514 AAACAAATTTCGTCTCCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAAC-AAATTTCGTCTATCTTGAGACAG
*
2179578 TTTCTCTTG
65 TTTCCCTTG
* * * *
2179587 AAACAATTTTTGTCTATCTTGAGACAG-TTTCCCTTGAAACAAA
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAA
2179630 ACCTTTGAAT
Statistics
Matches: 207, Mismatches: 33, Indels: 25
0.78 0.12 0.09
Matches are distributed among these distances:
64 2 0.01
65 47 0.23
66 5 0.02
70 8 0.04
71 25 0.12
72 73 0.35
73 45 0.22
74 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (73 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTTCACTAGAAACAAATTTCGTCTATCTTGAGACAGT
TTCCCTTG
Found at i:2179391 original size:36 final size:36
Alignment explanation
Indices: 2179348--2179491 Score: 252
Period size: 36 Copynumber: 4.0 Consensus size: 36
2179338 ACTAGAAGAG
2179348 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
*
2179384 TTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
* * *
2179420 TTTCGTCTATCTTGAGACAGTTTCCCTTGAAATAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2179456 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
1 TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
2179492 ATATTTGAAT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (36 bp):
TTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
Found at i:2179522 original size:65 final size:65
Alignment explanation
Indices: 2179439--2179796 Score: 245
Period size: 65 Copynumber: 5.3 Consensus size: 65
2179429 TCTTGAGACA
* * *
2179439 GTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATTTGAATAT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
* * ** * **
2179504 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-AA------AATCT-
*
2179569 TTGAGACA-
58 TTGA-ATAT
* * ** * *
2179577 GTTTCTCTTGAAACAATTTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCTTTGAATTT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
* * * * * **
2179642 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAAT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAAT
*
2179707 TT
64 AT
* * * * * *
2179709 ATTTCCCTTAAAACATAATTTT-TTTCCCTTGAGACCGTTTCTCATGAAACAACAGATATCTTTG
1 GTTTCCCTTGAAACA-AATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAAC-A-A-A-ATCTTTG
*
2179773 AGAT-C
61 A-ATAT
*
2179778 GTTTCCCTTGAAACGAATT
1 GTTTCCCTTGAAACAAATT
2179797 CTATCTCTTT
Statistics
Matches: 227, Mismatches: 48, Indels: 33
0.74 0.16 0.11
Matches are distributed among these distances:
64 1 0.00
65 86 0.38
66 9 0.04
67 49 0.22
68 11 0.05
69 18 0.08
70 2 0.01
72 4 0.02
73 45 0.20
74 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (65 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATAT
Found at i:2179607 original size:36 final size:36
Alignment explanation
Indices: 2179506--2179629 Score: 160
Period size: 36 Copynumber: 3.4 Consensus size: 36
2179496 TTGAATATGT
* *
2179506 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
2179541 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* *
2179578 TTTCTCTTGAAACAATTTTTGTCTATCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
2179614 TTTCCCTTGAAACAAA
1 TTTCTCTTGAAACAAA
2179630 ACCTTTGAAT
Statistics
Matches: 76, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
35 4 0.05
36 41 0.54
37 31 0.41
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:2179616 original size:138 final size:137
Alignment explanation
Indices: 2179367--2179692 Score: 472
Period size: 138 Copynumber: 2.4 Consensus size: 137
2179357 TCTTGAGACA
*
2179367 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
* * *
2179432 TGAGACAGTTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATATT
66 TGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATT
2179497 TGAATAT
131 TGAATAT
* * * * * * *
2179504 GTTTTCCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTC
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAAC-AAATTTCGTCTATC
* * *
2179569 TTGAGACAGTTTCTCTTGAAACAATTTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACCT
65 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACAT
*
2179634 TTGAATTT
130 TTGAATAT
* * * *
2179642 ATTTCCCCTAAAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
1 GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2179693 CAAAATCTTC
Statistics
Matches: 165, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
137 46 0.28
138 119 0.72
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.39
Consensus pattern (137 bp):
GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACAAATTTCGTCTATCT
TGAGACAGTTTCCCTTGAAACAAATTTTGTCTATCTTGAGACAGTTTCCCTTGAAACAAAACATT
TGAATAT
Found at i:2179737 original size:67 final size:67
Alignment explanation
Indices: 2179587--2179759 Score: 208
Period size: 67 Copynumber: 2.6 Consensus size: 67
2179577 GTTTCTCTTG
* ** * **
2179587 AAACAATTTTTGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAACCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCC
2179650 TA
66 TA
* * *
2179652 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCC
2179717 TA
66 TA
* * *
2179719 AAACATAATTTT-TTTCCCTTGAGACCGTTTCTCATGAAACA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
2179760 ACAGATATCT
Statistics
Matches: 92, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 31 0.34
66 2 0.02
67 53 0.58
68 6 0.07
ACGTcount: A:0.32, C:0.22, G:0.09, T:0.37
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAACCTTCAAATTTATTTCCCC
TA
Found at i:2180943 original size:43 final size:43
Alignment explanation
Indices: 2180895--2180999 Score: 174
Period size: 43 Copynumber: 2.4 Consensus size: 43
2180885 CAGAGCCAAT
*
2180895 TTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
* *
2180938 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAATGCAAG
1 TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
*
2180981 TTCAACTTCACGACGAAGG
1 TTCAACTTCACAACGAAGG
2181000 GACCGATGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (43 bp):
TTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:2180956 original size:105 final size:105
Alignment explanation
Indices: 2180403--2180948 Score: 939
Period size: 105 Copynumber: 5.2 Consensus size: 105
2180393 GCACTCGATG
* * * * *
2180403 CAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAATAACTTCTCAATTTCAG
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTCAATTTCAG
*
2180468 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
65 AGCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* * *
2180509 CAACGCAATTTCAACTTCACGATGAAGGGACCGCTGCCTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2180574 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
* *
2180614 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCCTGTCAACAATAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
*
2180679 GCCAATTTCAACTTCACAATGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
*
2180719 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGTTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
* *
2180784 GCCAATTTCAACTTCACAACGAAGGATATTGGACTCCATA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
2180824 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
1 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
2180889 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
66 GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
2180929 CAACGCAAGTTCAACTTCAC
1 CAACGCAAGTTCAACTTCAC
2180949 AATGAAGGAT
Statistics
Matches: 418, Mismatches: 22, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
105 380 0.91
106 38 0.09
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.23
Consensus pattern (105 bp):
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGA
GCCAATTTCAACTTCACAACGAAGGATATTGGACTTCAGA
Found at i:2180962 original size:148 final size:148
Alignment explanation
Indices: 2180790--2181104 Score: 540
Period size: 148 Copynumber: 2.1 Consensus size: 148
2180780 CAGAGCCAAT
* *
2180790 TTCAACTTCACAACGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
2180855 CGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
2180920 GACTTCAGACAACGCAAG
131 GACTCCAGACAACGCAAG
*
2180938 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
2181003 CGATGCTTGTCAACAACAGCTTCCCAATCTCAGAGCCAATTTCAACTTCACAATGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
2181068 GACTCCAGACAACGCAAG
131 GACTCCAGACAACGCAAG
*
2181086 TTCAACTTCACGATGAAGG
1 TTCAACTTCACAATGAAGG
2181105 GACCGCTGCT
Statistics
Matches: 157, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
148 157 1.00
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (148 bp):
TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAG
Found at i:2180974 original size:253 final size:248
Alignment explanation
Indices: 2180685--2181204 Score: 844
Period size: 253 Copynumber: 2.1 Consensus size: 248
2180675 CAGAGCCAAT
*
2180685 TTCAACTTCACAATGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * * *
2180750 CGCTGTTTGTCAACAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
2180815 GACTCCATACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTC
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-TC
* *
2180880 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTTC-AGACAACGCAAG
193 -A-TTCAGAGCCAATTTCAACTTCACAAAGAAGGATATTGGAC-TCGAGACAACACAAG
*
2180938 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
2181003 CGATGCTTGTCAACAACAGCTTCCCAATCTCAGAGCCAATTTCAACTTCACAATGAAGGATATTG
66 CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
*
2181068 GACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
131 GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
**
2181133 CAGATTCAATTTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAG
196 CAGAGCCAATTTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAG
*
2181186 TTCAACTTCACAACGAAGG
1 TTCAACTTCACAATGAAGG
2181205 GACGGCTGGT
Statistics
Matches: 251, Mismatches: 15, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
247 2 0.01
248 66 0.26
249 1 0.00
250 2 0.01
251 2 0.01
252 2 0.01
253 176 0.70
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (248 bp):
TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGATGCTTGTCAACAACAACTTCCCAATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTG
GACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAATTTCATT
CAGAGCCAATTTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAG
Found at i:2181047 original size:105 final size:102
Alignment explanation
Indices: 2180938--2181277 Score: 441
Period size: 100 Copynumber: 3.3 Consensus size: 102
2180928 ACAACGCAAG
*
2180938 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* *
2181003 CGATGCTTGTCAACAACAGCTTCCCAATCTCAGAGCCAAT
66 CGCTGCTTGTCAACAACA-ATTCCC-AT-TCAGAGCCAAT
*
2181043 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* **
2181108 CGCTGCTTGTCAACAA-AATT-TCATTCAGATTCAAT
66 CGCTGCTTGTCAACAACAATTCCCATTCAGAGCCAAT
* * * *
2181143 TTCAACTTCACAAAGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGAC
1 TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
* * *
2181208 GGCTGGTTGTCAACAAACAATTTCCCGGTTCCAGAGCCAAT
66 CGCTGCTTGTCAAC-AACAA-TTCCC-ATT-CAGAGCCAAT
* * * *
2181249 TTCAACTTCACGACGGAGGATATTAGACT
1 TTCAACTTCACAATGAAGGATATTGGACT
2181278 TGGAACAATG
Statistics
Matches: 207, Mismatches: 22, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
100 81 0.39
101 4 0.02
102 3 0.01
103 4 0.02
104 2 0.01
105 80 0.39
106 33 0.16
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (102 bp):
TTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAC
CGCTGCTTGTCAACAACAATTCCCATTCAGAGCCAAT
Found at i:2181869 original size:34 final size:36
Alignment explanation
Indices: 2181825--2181926 Score: 163
Period size: 34 Copynumber: 2.9 Consensus size: 36
2181815 TTTCGTCCTA
*
2181825 CTAGGATTCAAACTCCTAAAAATATGATAGAA-TTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
*
2181860 -TAGGATTCAAACTCCTAAAAATAGGATAAAATTTT
1 CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
2181895 GCTAGGATTCAAACTCCTAAAAATAGGATAGA
1 -CTAGGATTCAAACTCCTAAAAATAGGATAGA
2181927 GTTCTACTAT
Statistics
Matches: 61, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
34 29 0.48
35 3 0.05
37 29 0.48
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (36 bp):
CTAGGATTCAAACTCCTAAAAATAGGATAGAATTTT
Found at i:2181950 original size:37 final size:37
Alignment explanation
Indices: 2181822--2181960 Score: 158
Period size: 37 Copynumber: 3.8 Consensus size: 37
2181812 ATTTTTCGTC
* *
2181822 CTACTAGGATTCAAACTCCTAAAAATATGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
2181859 -T--TAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
2181893 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
** * * *
2181930 CTACTATTATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2181961 CCACAAGCAC
Statistics
Matches: 88, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
34 31 0.35
35 1 0.01
36 1 0.01
37 55 0.62
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:2182341 original size:32 final size:34
Alignment explanation
Indices: 2182305--2182378 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
2182295 ATTATTCTTG
2182305 TTATATATGCATAT-T-ACTTTCTATTAATTTTA
1 TTATATATGCATATATGACTTTCTATTAATTTTA
* ** * *
2182337 TTATATATGTATATATGTTTTTTTATTAGTTTTA
1 TTATATATGCATATATGACTTTCTATTAATTTTA
2182371 TTATATAT
1 TTATATAT
2182379 ATATATTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 13 0.37
33 1 0.03
34 21 0.60
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (34 bp):
TTATATATGCATATATGACTTTCTATTAATTTTA
Found at i:2182481 original size:20 final size:20
Alignment explanation
Indices: 2182456--2182493 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2182446 ATTATTATTA
2182456 TTTTACTTATATATATATGC
1 TTTTACTTATATATATATGC
* *
2182476 TTTTACTTTTTTATATAT
1 TTTTACTTATATATATAT
2182494 TTTACTCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTACTTATATATATATGC
Found at i:2182525 original size:16 final size:18
Alignment explanation
Indices: 2182504--2182538 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
2182494 TTTACTCATT
2182504 TATTTAT-CTAT-TTTTA
1 TATTTATCCTATATTTTA
2182520 TATTTATCCTATATTTTA
1 TATTTATCCTATATTTTA
2182538 T
1 T
2182539 GTTTTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.41
17 4 0.24
18 6 0.35
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.66
Consensus pattern (18 bp):
TATTTATCCTATATTTTA
Found at i:2185325 original size:37 final size:37
Alignment explanation
Indices: 2185275--2185375 Score: 130
Period size: 37 Copynumber: 2.7 Consensus size: 37
2185265 TTCGTCCTAG
* *
2185275 TAGGATTCAAACTCCTAAAAATAGGATAAAATTTTGC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* *
2185312 TAGGATTCAAACTCCTAAAAATAGGATAGAGTTCTAC
1 TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
* * * *
2185349 TAAGATTTAAATTCCTAAAGATAGGAT
1 TAGGATTCAAACTCCTAAAAATAGGAT
2185376 CCACAAACAC
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.30
Consensus pattern (37 bp):
TAGGATTCAAACTCCTAAAAATAGGATAAAATTCTAC
Found at i:2185770 original size:18 final size:17
Alignment explanation
Indices: 2185731--2185777 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
2185721 ATTATATGAA
*
2185731 TATT-TTATTATTTTAT
1 TATTATTATTATGTTAT
*
2185747 TTTTATTATTCATGTTAT
1 TATTATTATT-ATGTTAT
2185765 TATTATTA-TATGT
1 TATTATTATTATGT
2185778 GTATATATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 7 0.27
17 6 0.23
18 13 0.50
ACGTcount: A:0.26, C:0.02, G:0.04, T:0.68
Consensus pattern (17 bp):
TATTATTATTATGTTAT
Found at i:2192051 original size:183 final size:183
Alignment explanation
Indices: 2191743--2192279 Score: 943
Period size: 183 Copynumber: 2.9 Consensus size: 183
2191733 ATTAAATCTG
2191743 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
2191808 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
2191873 TTGT-ATGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCA-GGTCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* *
2191926 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTAGATTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
2191991 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTTGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
* *
2192056 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
2192109 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTAGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** * *
2192174 ATAGATTACATTCAAA-TCATGACATTGCTCGGATACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
2192238 TTTGTCAGGTCAAAGACTTTATGATGAGATGAACCCTTCAGT
130 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
2192280 TAAACCTGAT
Statistics
Matches: 336, Mismatches: 16, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
182 1 0.00
183 334 0.99
184 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:2193475 original size:36 final size:34
Alignment explanation
Indices: 2193435--2193548 Score: 95
Period size: 36 Copynumber: 3.2 Consensus size: 34
2193425 CACTCAAATT
2193435 TGTTTTTCTTAAAACATACTTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACA-A-TTTGTCTCACTTGAGAC
* * ** *
2193471 TGTTTTTCTTGAAAGA-AGATTTATTTCACTCAAGAT
1 TGTTTTTCTT-AAA-ACA-ATTTGTCTCACTTGAGAC
*
2193507 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAAC-A-ATTTGTCTCACTTGAGAC
*
2193543 CGTTTT
1 TGTTTT
2193549 CACTCGAAAG
Statistics
Matches: 61, Mismatches: 13, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
34 1 0.02
35 3 0.05
36 51 0.84
37 5 0.08
38 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.14, T:0.45
Consensus pattern (34 bp):
TGTTTTTCTTAAAACAATTTGTCTCACTTGAGAC
Found at i:2193511 original size:72 final size:76
Alignment explanation
Indices: 2193419--2193580 Score: 210
Period size: 72 Copynumber: 2.2 Consensus size: 76
2193409 ATGCAGATGA
* * * * *
2193419 TTATCTCACTCAA-ATTTGTTTTTCTTAAAACATA-CTTTGTCTCACTTGAGACTGTTTT-TCTT
1 TTATTTCACTCAAGATTTGTTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTCACTC
2193481 GAAAGAA-G-AT
65 GAAAGAAGGCAT
*
2193491 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCG
1 TTATTTCACTCAAGATTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCG
2193555 AAAGAAGGCAT
66 AAAGAAGGCAT
2193566 TTCATTTCACTCAAG
1 TT-ATTTCACTCAAG
2193581 GCTATTTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 8
0.85 0.07 0.09
Matches are distributed among these distances:
71 1 0.01
72 50 0.64
73 10 0.13
74 1 0.01
75 4 0.05
76 12 0.15
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.41
Consensus pattern (76 bp):
TTATTTCACTCAAGATTTGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCACTCG
AAAGAAGGCAT
Found at i:2193745 original size:39 final size:39
Alignment explanation
Indices: 2193688--2193762 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
2193678 CCTTGAAATT
* *
2193688 AATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAAAA
1 AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACAAAA
* *
2193727 AATTTTGTCTC-CCTTGAGACAGTTTCTCTTGAAACA
1 AATTTTGTCTCTCC-TGAGACAGTTTCCCTCGAAACA
2193763 TAAACAATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (39 bp):
AATTTTGTCTCTCCTGAGACAGTTTCCCTCGAAACAAAA
Found at i:2193774 original size:104 final size:103
Alignment explanation
Indices: 2193665--2193983 Score: 480
Period size: 105 Copynumber: 3.1 Consensus size: 103
2193655 ACAGTTTCTC
* *
2193665 TTGAAAACATTTCCCTTGAAATTAATTTTTTCTCTCCTGAGATAGTTTCCCTCGAAACAAAAAAT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAAC-AAAAAT
2193730 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 TTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * *
2193769 ATGAAAACATTTCCCTTGAAATGATTTTTTTTCTCTCTTGAGATAGTTTCCTTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGA-ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACA-AAAA
*
2193834 TTTTGTCTCCCTTGTGACAGTTTCTCTTGAAACATAAACA
64 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* * * *
2193874 TTGAAAACATTTCCCTTGAAATGAATTTTATCTCACTTGAGATAGTTTCCCTTGAAAC--GAATT
1 TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAAATT
** *
2193937 TTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
2193975 TTGAAAACA
1 TTGAAAACA
2193984 ATTTAACGAA
Statistics
Matches: 196, Mismatches: 17, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
101 47 0.24
104 52 0.27
105 97 0.49
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (103 bp):
TTGAAAACATTTCCCTTGAAATGAATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAAAAATT
TTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:2193930 original size:36 final size:36
Alignment explanation
Indices: 2193883--2193958 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
2193873 ATTGAAAACA
* *
2193883 TTTCCCTTGAAATGAATTTTATCTCACTTGAGATAG
1 TTTCCCTTGAAACGAATTTTATCTCACTTGAGACAG
* *
2193919 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTATCTCACTTGAGACAG
2193955 TTTC
1 TTTC
2193959 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTATCTCACTTGAGACAG
Found at i:2194358 original size:105 final size:105
Alignment explanation
Indices: 2194158--2194683 Score: 684
Period size: 105 Copynumber: 5.0 Consensus size: 105
2194148 ATATCGTGAC
* * * * *
2194158 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
*
2194223 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2194264 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTTCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
2194329 ATTTCAGAGCAAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** * * *
2194369 ACTTCAGACAACGCGTGTTCAACTTCACGACGAAGGGATCGCTTCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* *
2194434 ATCTCAGAGCCAATTTCAACTTCACAACGAATGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
2194474 ACTCCAGACAACGCAAGTTCAACTCCACGACGAAGGGACCGCTGCTTGTCAACAA-AA-TT-T-T
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
* * *
2194535 A-TTCAGAGTCAATTTCAACTTCACAGCAAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
2194574 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTTCTC
* * * * * *
2194639 AGTTCCATAGCCAATTTCAACTTCACGATGGAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
2194680 ACTC
1 ACTC
2194684 GGAACAATGC
Statistics
Matches: 366, Mismatches: 48, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
100 80 0.22
101 3 0.01
102 2 0.01
103 4 0.01
104 2 0.01
105 195 0.53
106 80 0.22
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:2195279 original size:37 final size:37
Alignment explanation
Indices: 2195226--2195330 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
2195216 CATTTTTGTC
2195226 CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
* * * *
2195263 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
* * * *
2195300 CTACTAAGATTTAAATTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
2195331 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
Found at i:2195725 original size:18 final size:17
Alignment explanation
Indices: 2195686--2195746 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
2195676 ATTATATGGA
*
2195686 TATT-TTATTATTTTAT
1 TATTATTATTATGTTAT
*
2195702 TTTTATTATTCATGTTAT
1 TATTATTATT-ATGTTAT
2195720 TATTATTA-TATGTATAT
1 TATTATTATTATGT-TAT
2195737 ATATATATTA
1 -TAT-TATTA
2195747 AATTATTTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 16 0.43
19 5 0.14
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTATTATTATGTTAT
Found at i:2202640 original size:28 final size:27
Alignment explanation
Indices: 2202590--2202683 Score: 100
Period size: 27 Copynumber: 3.4 Consensus size: 27
2202580 CGAATCGTTA
*
2202590 TAATTTATAAA-AAATTTTCCCTTTATTG
1 TAATTTATAAACAAATTAT-CCTTT-TTG
* *
2202618 TTATTTATAAACAACTTATCCTTTTTG
1 TAATTTATAAACAAATTATCCTTTTTG
* * *
2202645 TAATTTAGAAACAAATTGTCCTTTTTCC
1 TAATTTATAAACAAATTATCCTTTTT-G
2202673 TAATTTATAAA
1 TAATTTATAAA
2202684 AATTGTCCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
27 25 0.45
28 25 0.45
29 5 0.09
ACGTcount: A:0.35, C:0.13, G:0.04, T:0.48
Consensus pattern (27 bp):
TAATTTATAAACAAATTATCCTTTTTG
Found at i:2202686 original size:26 final size:25
Alignment explanation
Indices: 2202590--2202709 Score: 82
Period size: 27 Copynumber: 4.5 Consensus size: 25
2202580 CGAATCGTTA
* *
2202590 TAATTTATAAAAAATTTTCCCTTTATTG
1 TAATTTAT-AAAAATTGT-CCTTT-TTC
* * *
2202618 TTATTTATAAACAACTTATCCTTTTTG
1 TAATTTATAAA-AA-TTGTCCTTTTTC
*
2202645 TAATTTAGAAACAAATTGTCCTTTTTCC
1 TAATTTA-TAA-AAATTGTCCTTTTT-C
*
2202673 TAATTTATAAAAATTGTCCTAATTT-
1 TAATTTATAAAAATTGTCCT-TTTTC
2202698 TAATTTA-AAAAA
1 TAATTTATAAAAA
2202710 GGTTTTTATA
Statistics
Matches: 78, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
24 5 0.06
25 7 0.09
26 10 0.13
27 27 0.35
28 25 0.32
29 4 0.05
ACGTcount: A:0.38, C:0.12, G:0.04, T:0.47
Consensus pattern (25 bp):
TAATTTATAAAAATTGTCCTTTTTC
Found at i:2205860 original size:56 final size:58
Alignment explanation
Indices: 2205794--2205928 Score: 148
Period size: 60 Copynumber: 2.3 Consensus size: 58
2205784 AAGGAGGGCC
* * * * * * **
2205794 ATTTTATAAAATTAAAAAATAGAG-GGCC-TTAATTATAAAGGTAGGAAATGAGGATT
1 ATTTTATAAAATTAAAAAACACAGTGACCTTTAATAATAAAGGAAGAAAATGAGGACA
*
2205850 ATTTTATAAAATTGAAAAAAACACAGTGACCTTTAATAATTAAGGAAGAAAATGAGGACA
1 ATTTTATAAAATT--AAAAAACACAGTGACCTTTAATAATAAAGGAAGAAAATGAGGACA
2205910 ATTTTATAAAAGTTAAAAA
1 ATTTTATAAAA-TTAAAAA
2205929 CAGTAGGAGC
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
56 13 0.20
58 9 0.14
59 8 0.12
60 33 0.51
61 2 0.03
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.29
Consensus pattern (58 bp):
ATTTTATAAAATTAAAAAACACAGTGACCTTTAATAATAAAGGAAGAAAATGAGGACA
Found at i:2209128 original size:29 final size:29
Alignment explanation
Indices: 2209095--2209179 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
2209085 AGCAGGGGAT
* * **
2209095 GTCGCCGCGAGTGCATGGCGACCTCCTTG
1 GTCGCCGGGAGTGCATGGCGACCTACGAG
* *
2209124 GTCGCCGGGCGTGCATGGCGACCTAGGAG
1 GTCGCCGGGAGTGCATGGCGACCTACGAG
*
2209153 GTCGCTGGGAGTGCATGGCGACCTACG
1 GTCGCCGGGAGTGCATGGCGACCTACG
2209180 GCTACTGTTG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.13, C:0.29, G:0.40, T:0.18
Consensus pattern (29 bp):
GTCGCCGGGAGTGCATGGCGACCTACGAG
Found at i:2215002 original size:3 final size:3
Alignment explanation
Indices: 2214982--2215021 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
2214972 CTCTTCACTC
* *
2214982 TCA TCA TAA TCA TTA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
2215022 GGACACCAGC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (3 bp):
TCA
Found at i:2215374 original size:21 final size:21
Alignment explanation
Indices: 2215350--2215389 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2215340 TCTGAACCGA
*
2215350 ATGGCATATGAGGGTGATACG
1 ATGGCATATAAGGGTGATACG
*
2215371 ATGGCATCTAAGGGTGATA
1 ATGGCATATAAGGGTGATA
2215390 TAGTGGCATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (21 bp):
ATGGCATATAAGGGTGATACG
Found at i:2221683 original size:41 final size:41
Alignment explanation
Indices: 2221630--2221711 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
2221620 GGTACTATAT
2221630 GTAAGGATGCTTATCAAGTGAGTCGATCGTGAGTTAAGTAA
1 GTAAGGATGCTTATCAAGTGAGTCGATCGTGAGTTAAGTAA
*
2221671 GTAAGGATGCTTATCAAGTGAGTCGATCGTGAGTTGAGTAA
1 GTAAGGATGCTTATCAAGTGAGTCGATCGTGAGTTAAGTAA
2221712 TGCTTGACTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.29
Consensus pattern (41 bp):
GTAAGGATGCTTATCAAGTGAGTCGATCGTGAGTTAAGTAA
Found at i:2222217 original size:4 final size:4
Alignment explanation
Indices: 2222208--2222770 Score: 874
Period size: 4 Copynumber: 140.8 Consensus size: 4
2222198 ACCCCTAACC
2222208 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2222256 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2222304 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
2222352 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAC GTAC GTAT GTAC GTAC
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
2222400 GTAC GTAT GTAT ATAT GTAT GTAT GTAT ATAT GTAT GTAT ATAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
2222448 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * * * *
2222496 GTAC GTAT ATAT GTAT GTAC GTAT GTAC GTAT GTAC GTAC GTAC GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * *
2222544 GTAC GTAC GTAT GTAC GTAT GTAC GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* *
2222592 GTAT GTAT ATAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
2222640 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
*
2222688 GTAT GTAT GTAT GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
* * * * *
2222736 GTAT GTAT GTAC GTAC GTAC GTAC GTAT GCAT GTA
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTA
2222771 AAACTATCGG
Statistics
Matches: 521, Mismatches: 38, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 521 1.00
ACGTcount: A:0.26, C:0.04, G:0.24, T:0.47
Consensus pattern (4 bp):
GTAT
Found at i:2223046 original size:21 final size:21
Alignment explanation
Indices: 2223005--2223048 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2222995 ATCAAATAAC
*
2223005 CAGTATAAAATAATATAACAT
1 CAGTATAAAACAATATAACAT
*
2223026 CAGTAATAAAACATTAT-ACAT
1 CAGT-ATAAAACAATATAACAT
2223047 CA
1 CA
2223049 TAAAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.27
Consensus pattern (21 bp):
CAGTATAAAACAATATAACAT
Found at i:2224406 original size:63 final size:63
Alignment explanation
Indices: 2224339--2224478 Score: 158
Period size: 63 Copynumber: 2.2 Consensus size: 63
2224329 TGCACTTCAT
** * * *
2224339 GTGCATCGATGCATTAATTTAAA-AGAAAACATCGAATG-CTATCCGTGTATCGATGCACAGGTA
1 GTGCATCGATGCACCAACTTAAATA-AAAACATCGAATGAC-ATCCGTGTACCGATGCACAGGAA
** * **
2224402 GTGCATCGATGCACCCCCTTAAATATAAACATCGAATGACATTTGTGTACCGATGCACAGGAA
1 GTGCATCGATGCACCAACTTAAATAAAAACATCGAATGACATCCGTGTACCGATGCACAGGAA
2224465 GTGCATCGATGCAC
1 GTGCATCGATGCAC
2224479 ACATTAAGGA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
63 63 0.97
64 2 0.03
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (63 bp):
GTGCATCGATGCACCAACTTAAATAAAAACATCGAATGACATCCGTGTACCGATGCACAGGAA
Found at i:2225106 original size:24 final size:25
Alignment explanation
Indices: 2225074--2225137 Score: 85
Period size: 24 Copynumber: 2.6 Consensus size: 25
2225064 AAGGAGTTTA
*
2225074 TATGTGGTCCTTCGGGACAAA-TTC
1 TATGCGGTCCTTCGGGACAAATTTC
*
2225098 TATGCGGTCCTTCGGGATAAATTTC
1 TATGCGGTCCTTCGGGACAAATTTC
* *
2225123 TACGCGGTACTTCGG
1 TATGCGGTCCTTCGG
2225138 TGCAAAACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.33
Consensus pattern (25 bp):
TATGCGGTCCTTCGGGACAAATTTC
Found at i:2225129 original size:25 final size:24
Alignment explanation
Indices: 2225079--2225137 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 24
2225069 GTTTATATGT
*
2225079 GGTCCTTCGGGACAAATTCTATGC
1 GGTCCTTCGGGACAAATTCTACGC
*
2225103 GGTCCTTCGGGATAAATTTCTACGC
1 GGTCCTTCGGGACAAA-TTCTACGC
*
2225128 GGTACTTCGG
1 GGTCCTTCGG
2225138 TGCAAAACTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
24 15 0.48
25 16 0.52
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.31
Consensus pattern (24 bp):
GGTCCTTCGGGACAAATTCTACGC
Found at i:2225392 original size:3 final size:3
Alignment explanation
Indices: 2225384--2225454 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
2225374 ATTTCCTTGC
2225384 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2225432 TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
2225455 CATTACCTCA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2231379 original size:63 final size:63
Alignment explanation
Indices: 2231304--2231462 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 63
2231294 TTTGTTCTAG
* * ** * *
2231304 GTGTATCGATGCACATGAAGTGCATCGATGCATTAATTTAAA-AGAAAACATCAAATGATATCC
1 GTGTATCGATGCACAGGTAGTGCATCGATGCACCAACTTAAATA-AAAACATCAAATGACATCC
** * **
2231367 GTGTATCGATGCACAGGTAGTGCATCGATGCACCCCCTTAAATACAAACATCAAATGACATTT
1 GTGTATCGATGCACAGGTAGTGCATCGATGCACCAACTTAAATAAAAACATCAAATGACATCC
*
2231430 GTGTACCGATGCACAGGTAGTGCATCGATGCAC
1 GTGTATCGATGCACAGGTAGTGCATCGATGCAC
2231463 ACATTAAGGA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 82 0.99
64 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (63 bp):
GTGTATCGATGCACAGGTAGTGCATCGATGCACCAACTTAAATAAAAACATCAAATGACATCC
Found at i:2232086 original size:24 final size:25
Alignment explanation
Indices: 2232059--2232108 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
2232049 GTTTATATGT
2232059 GGTCCTTCAGGA-CAAATTCTACGC
1 GGTCCTTCAGGACCAAATTCTACGC
* *
2232083 GGTCCTTCGGGACCAATTTCTACGC
1 GGTCCTTCAGGACCAAATTCTACGC
2232108 G
1 G
2232109 ACACTTCGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (25 bp):
GGTCCTTCAGGACCAAATTCTACGC
Found at i:2232377 original size:3 final size:3
Alignment explanation
Indices: 2232369--2232523 Score: 310
Period size: 3 Copynumber: 51.7 Consensus size: 3
2232359 GGTTCCTTGC
2232369 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2232417 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2232465 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
2232513 TAT TAT TAT TA
1 TAT TAT TAT TA
2232524 CATTGCCTCA
Statistics
Matches: 152, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 152 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2240108 original size:24 final size:24
Alignment explanation
Indices: 2240053--2240109 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 24
2240043 GTAAATCAAG
2240053 AAATCATAATATTGATCAGAAAAA
1 AAATCATAATATTGATCAGAAAAA
*
2240077 AAATTCATAA-ATTGAATCA-AATAAC
1 AAA-TCATAATATTG-ATCAGAA-AAA
2240102 AAATCATA
1 AAATCATA
2240110 TTTTAGAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
24 14 0.48
25 15 0.52
ACGTcount: A:0.58, C:0.11, G:0.05, T:0.26
Consensus pattern (24 bp):
AAATCATAATATTGATCAGAAAAA
Found at i:2242244 original size:11 final size:11
Alignment explanation
Indices: 2242225--2242265 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
2242215 TCTCTATCAC
*
2242225 TTTCGTTTACA
1 TTTCATTTACA
2242236 TTTCATTTACA
1 TTTCATTTACA
2242247 TTTCATTTACA
1 TTTCATTTACA
2242258 TTTCATTT
1 TTTCATTT
2242266 TAGACATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.22, C:0.17, G:0.02, T:0.59
Consensus pattern (11 bp):
TTTCATTTACA
Found at i:2242920 original size:21 final size:21
Alignment explanation
Indices: 2242896--2242937 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2242886 CAAAAATACG
2242896 AATATATAA-AAAATATATTAA
1 AATA-ATAATAAAATATATTAA
*
2242917 AATAATAATACAATATATTAA
1 AATAATAATAAAATATATTAA
2242938 TTTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (21 bp):
AATAATAATAAAATATATTAA
Found at i:2243061 original size:30 final size:30
Alignment explanation
Indices: 2243025--2243093 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
2243015 TTTACATTTC
*
2243025 AAAATAAAATATATTTAATAGGTTAAGAAA
1 AAAATAAAATATATTTAATAAGTTAAGAAA
*
2243055 AAAATAAAATATATTTAATAAGTTAAGAAG
1 AAAATAAAATATATTTAATAAGTTAAGAAA
2243085 AAAATAAAA
1 AAAATAAAA
2243094 AAATATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.28
Consensus pattern (30 bp):
AAAATAAAATATATTTAATAAGTTAAGAAA
Found at i:2243113 original size:32 final size:33
Alignment explanation
Indices: 2243025--2243115 Score: 102
Period size: 30 Copynumber: 2.9 Consensus size: 33
2243015 TTTACATTTC
* *
2243025 AAAATAAAATATATTTAATAGGTT---AAGAAA
1 AAAATAAAATATATTTAAAAAGTTAAGAAGAAA
*
2243055 AAAATAAAATATATTTAATAAGTTAAGAAGAAA
1 AAAATAAAATATATTTAAAAAGTTAAGAAGAAA
*
2243088 ATAAA-AAAATAT-TTTAAAAATTTAAGAA
1 A-AAATAAAATATATTTAAAAAGTTAAGAA
2243116 TTAAGATGTA
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
30 23 0.43
32 14 0.26
33 14 0.26
34 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.08, T:0.30
Consensus pattern (33 bp):
AAAATAAAATATATTTAAAAAGTTAAGAAGAAA
Found at i:2243245 original size:13 final size:13
Alignment explanation
Indices: 2243227--2243251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2243217 TAAAAAATTA
2243227 ATATATTTTATTT
1 ATATATTTTATTT
2243240 ATATATTTTATT
1 ATATATTTTATT
2243252 AATGTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATATTTTATTT
Found at i:2243796 original size:3 final size:3
Alignment explanation
Indices: 2243765--2243813 Score: 55
Period size: 3 Copynumber: 15.7 Consensus size: 3
2243755 ATGAATTGAT
*
2243765 TTA TTT TTA TT- TTA TTTA GTTA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA
2243812 TT
1 TT
2243814 TTGATTTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 29 0.73
4 9 0.22
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:2250430 original size:13 final size:14
Alignment explanation
Indices: 2250414--2250447 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
2250404 AAACAAACGA
2250414 AAAAAAAATAAA-T
1 AAAAAAAATAAAGT
2250427 AAAAAAAATAAAGT
1 AAAAAAAATAAAGT
2250441 AAAAAAA
1 AAAAAAA
2250448 TGTATGTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAAAATAAAGT
Found at i:2250526 original size:14 final size:13
Alignment explanation
Indices: 2250486--2250538 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
2250476 CTAGACAAGA
*
2250486 AAAATAAATAAAT
1 AAAACAAATAAAT
2250499 AAAACAAGATAAAT
1 AAAACAA-ATAAAT
*
2250513 AAAAGAAATGAAAT
1 AAAACAAAT-AAAT
2250527 AACAACATAATA
1 AA-AACA-AATA
2250539 TATACAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.24
14 18 0.55
15 4 0.12
16 3 0.09
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAACAAATAAAT
Found at i:2252683 original size:105 final size:105
Alignment explanation
Indices: 2252256--2253136 Score: 1189
Period size: 105 Copynumber: 8.3 Consensus size: 105
2252246 TGTTTCGAGG
* * * * *
2252256 CCAATATCC-TCTACTGTGAAGTTGAAATTGGTTCTGGAACTGGGAAATTGTTTGTTGACAACCA
1 CCAATATCCTTC-GCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCA
** * *
2252320 -CCCTACCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTCGAGT
64 GCGGT-CCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * * ** * * ** *
2252362 GGCACGATATCCTCCGTTGTGGAA-TTGAAA-TCGCGGGTGTAACTGAAAAGTTGTTTGTTGATA
1 --C-CAATATCCTTCGCTGT-GAAGTTGAAATTGGC-TCTGAAATTGGGAAGTTG-TTGTTGACA
* * *
2252425 ACCAGTC-ATCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTCGAGT
60 ACCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * * *
2252471 CCAATATTCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGACAACCAG
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGACAACCAG
* *
2252536 CGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTTGAGT
65 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
2252577 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
* * *
2252642 GGTCCCTTCATTGTGAAGTTGAACTTGCGTTGTCTTGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
2252682 CCAATATCCTTCGTTGTGAATTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
*
2252747 GGTCCCTTCGTCGTGAAGTTAAACTTGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
2252787 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTGTTGACAGCCAG-
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
* * *
2252851 GTGTCCCTTCATCATGAAGTTGAACTTGTGTTGTCTGGAGT
66 G-GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
2252892 CCAATATCCTTCGCTGTAAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
*
2252957 GGTCCCTTCGTGGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* *
2252997 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAATTTGGGAAGTTGTTGTTGACAACCAAC
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
*
2253062 GGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
66 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
2253102 CCAATATCCTTCGATGTGAAGTTGAAATTGGCTCT
1 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT
2253137 AGGTAAAACT
Statistics
Matches: 690, Mismatches: 71, Indels: 27
0.88 0.09 0.03
Matches are distributed among these distances:
104 1 0.00
105 477 0.69
106 123 0.18
107 4 0.01
108 3 0.00
109 76 0.11
110 5 0.01
111 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGC
GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
Found at i:2253888 original size:14 final size:14
Alignment explanation
Indices: 2253866--2253915 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
2253856 CCCACCTTGT
2253866 TTTCTTTCTTTTTC
1 TTTCTTTCTTTTTC
*
2253880 TTTCGTTCTTTTTCC
1 TTTCTTTCTTTTT-C
2253895 TCTT-TTTCTTTTTC
1 T-TTCTTTCTTTTTC
2253909 TTT-TTTC
1 TTTCTTTC
2253916 AATTTAGGGC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
13 6 0.19
14 14 0.44
15 10 0.31
16 2 0.06
ACGTcount: A:0.00, C:0.22, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTCTTTCTTTTTC
Found at i:2253891 original size:23 final size:21
Alignment explanation
Indices: 2253872--2253913 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
2253862 TTGTTTTCTT
2253872 TCTTTTTCTTTCGTTCTTTTTCC
1 TCTTTTTCTTT--TTCTTTTTCC
2253895 TCTTTTTCTTTTTCTTTTT
1 TCTTTTTCTTTTTCTTTTT
2253914 TCAATTTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 8 0.42
23 11 0.58
ACGTcount: A:0.00, C:0.21, G:0.02, T:0.76
Consensus pattern (21 bp):
TCTTTTTCTTTTTCTTTTTCC
Found at i:2253965 original size:64 final size:67
Alignment explanation
Indices: 2253883--2254012 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 67
2253873 CTTTTTCTTT
* * *
2253883 CGTTCTTTTTCCTCTTTTTCTTTTTC-TTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCT
1 CGTTCTTTTTCCTCTTTTT-TTCTTCTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCT
2253947 AAA
65 AAA
* * *
2253950 CGTT-TTTTT-CT-TTTTTTTCTTCTTTTTTTCAACTTAGGATGTCCTTTCGGGTTTTCATCCTA
1 CGTTCTTTTTCCTCTTTTTTTCTTCTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTA
2254012 A
66 A
2254013 GCGGAGTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
63 5 0.09
64 40 0.71
65 2 0.04
66 5 0.09
67 4 0.07
ACGTcount: A:0.11, C:0.22, G:0.12, T:0.55
Consensus pattern (67 bp):
CGTTCTTTTTCCTCTTTTTTTCTTCTTTTTTTCAACTTAGGACGCCCTTTCGGGTTTTCACCCTA
AA
Found at i:2259700 original size:12 final size:12
Alignment explanation
Indices: 2259683--2259709 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2259673 TTTCGGGTAA
2259683 GGGGGATTTATT
1 GGGGGATTTATT
2259695 GGGGGATTTATT
1 GGGGGATTTATT
2259707 GGG
1 GGG
2259710 TTCATAGGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.48, T:0.37
Consensus pattern (12 bp):
GGGGGATTTATT
Found at i:2264358 original size:14 final size:13
Alignment explanation
Indices: 2264336--2264384 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
2264326 AGAAATAGAT
* *
2264336 GAAATAAAACAAA
1 GAAAAAAAATAAA
2264349 CGAAAAAAAATAAA
1 -GAAAAAAAATAAA
*
2264363 TAAAAAAAATAAA
1 GAAAAAAAATAAA
2264376 GTAAAAAAA
1 G-AAAAAAA
2264385 GTATGTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (13 bp):
GAAAAAAAATAAA
Found at i:2264367 original size:13 final size:14
Alignment explanation
Indices: 2264351--2264384 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
2264341 AAAACAAACG
2264351 AAAAAAAATAAA-T
1 AAAAAAAATAAAGT
2264364 AAAAAAAATAAAGT
1 AAAAAAAATAAAGT
2264378 AAAAAAA
1 AAAAAAA
2264385 GTATGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAAAAAATAAAGT
Found at i:2264462 original size:14 final size:13
Alignment explanation
Indices: 2264422--2264474 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
2264412 CTAGACAAGA
*
2264422 AAAATAAATAAAT
1 AAAACAAATAAAT
2264435 AAAACAAGATAAAT
1 AAAACAA-ATAAAT
*
2264449 AAAAGAAATGAAAT
1 AAAACAAAT-AAAT
2264463 AACAACATAATA
1 AA-AACA-AATA
2264475 TATACAAAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 8 0.24
14 18 0.55
15 4 0.12
16 3 0.09
ACGTcount: A:0.72, C:0.06, G:0.06, T:0.17
Consensus pattern (13 bp):
AAAACAAATAAAT
Found at i:2267385 original size:28 final size:28
Alignment explanation
Indices: 2267345--2267403 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
2267335 AAGACAAACA
2267345 TGCTTACTTCAGACAACAACTTGGCGTT
1 TGCTTACTTCAGACAACAACTTGGCGTT
2267373 TGCTTACTTCAGACAACAACTTGGCGTT
1 TGCTTACTTCAGACAACAACTTGGCGTT
2267401 TGC
1 TGC
2267404 AACTTTGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCTTACTTCAGACAACAACTTGGCGTT
Found at i:2275367 original size:43 final size:43
Alignment explanation
Indices: 2275294--2275395 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 43
2275284 TACCCTCCGA
* *
2275294 AGAGGATCCCA-ACAGAAACAGGATAAGGATATTGTCC-TCTGT
1 AGAGGATCCCATGCAGAAACACGATAAGGATATTG-CCTTCTGT
*
2275336 AGAGGATCCCATGCAGAAACACGATAGGGATATTGCCTTCTGT
1 AGAGGATCCCATGCAGAAACACGATAAGGATATTGCCTTCTGT
* * *
2275379 ATAGGAACTCATGCAGA
1 AGAGGATCCCATGCAGA
2275396 TGAAAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 13 0.25
43 39 0.75
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.22
Consensus pattern (43 bp):
AGAGGATCCCATGCAGAAACACGATAAGGATATTGCCTTCTGT
Found at i:2276113 original size:27 final size:27
Alignment explanation
Indices: 2276083--2276141 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 27
2276073 TCAACGAGTC
* *
2276083 AAAGTCAATGGCTCAGGTTAACGGATT
1 AAAGTCAACGGCTCAGGTCAACGGATT
* * * *
2276110 AAAGTTAACGGGTCAGGTCAATGGGTT
1 AAAGTCAACGGCTCAGGTCAACGGATT
2276137 AAAGT
1 AAAGT
2276142 TAACACAACG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (27 bp):
AAAGTCAACGGCTCAGGTCAACGGATT
Found at i:2282674 original size:22 final size:21
Alignment explanation
Indices: 2282649--2282707 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
2282639 TGTTTACTCG
*
2282649 TTTATATTATTAAATTTTTAAT
1 TTTA-ATTATTAAATTTTAAAT
* *
2282671 TTTAATAATTATAATATTAAAT
1 TTTAATTATTA-AATTTTAAAT
*
2282693 TTTAATTATAAAATT
1 TTTAATTATTAAATT
2282708 AGGGTAAATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
21 9 0.30
22 21 0.70
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTAATTATTAAATTTTAAAT
Found at i:2282718 original size:29 final size:29
Alignment explanation
Indices: 2282650--2282708 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
2282640 GTTTACTCGT
* *
2282650 TTATATTATTAAATTTTTAATTTTAATAA
1 TTATAATATTAAATTTTTAATTATAATAA
2282679 TTATAATATTAAA-TTTTAATTATAA-AA
1 TTATAATATTAAATTTTTAATTATAATAA
2282706 TTA
1 TTA
2282709 GGGTAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.18
28 11 0.39
29 12 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (29 bp):
TTATAATATTAAATTTTTAATTATAATAA
Found at i:2286109 original size:460 final size:461
Alignment explanation
Indices: 2285472--2286394 Score: 1524
Period size: 460 Copynumber: 2.0 Consensus size: 461
2285462 GGTAAGTAAC
* *
2285472 AGAGTAAGCTTTGAGAAGCTCAGTAATACAAAACTATCAGATGATGTTAAATGACAAGTAGATAT
1 AGAGTAAGCTTTGAAAAGCTCAGTAATACAAAACTATCAGATGATGTTAAATGAAAAGTAGATAT
2285537 AACACAAAGCATAAAACTTTCTTATTAATCCAGGCATATACAAGTTCCAATAATGAGTTGAGGTT
66 AACACAAAGCATAAAACTTTCTTATTAATCCAGGCATATACAAGTTCCAATAATGAGTTGAGGTT
* *
2285602 TATTAATTAATTCTTCAAGTAATAGTTAAGAAACATACAGTTCAGAGGAAGTGTTCAGAAAGACA
131 TATTAATTAATTCTTCAAGTAATAGTCAAGAAACATACAGTTCAGAGGAAGCGTTCAGAAAGACA
*
2285667 AATTCATGAGATTGAAATATGGGTATCTAACGTGTTCCCAGAAAAT-AAAAAATAAATGTGCAAG
196 AATTCATGAGATTGAAATAAGGGTATCTAACGTGTTCCCAGAAAATAAAAAAATAAATGTGCAAG
* *
2285731 TAGTTTAAAAATAGTAGTAGTTTATTTCAGTAAAACATATTTTAAAATCATAGTAATACCCTCCA
261 TAGTTTAAAAATAGTAGTAGTTTATTTCAGTAAAACAAATTTTAAAATCACAGTAATACCCTCCA
* * * *
2285796 ACCGAACATCGATATGCAGTTCCTTGAACTATATCCAAAATGACTTACCCTAGGCCCATTGGGTG
326 ACCGAACATCGATATGCAATTCCTTGAAATATATCCAAAAGGACTTACCCTAGGCCCATTGGGCG
* * *
2285861 TAGGTACCAACCTAAGGGAGTACCTTGGGGCATGTGTGTTGTAATACCCCAAAATTTTGATTAGT
391 TAGGTACCAACCTAAGGGAGAACCTTGGGGCATGTGGGCTGTAATACCCCAAAATTTTGATTAGT
2285926 GACCAA
456 GACCAA
* * *
2285932 AGAGTAAGCTTTGAAAATCTCAGTAATACAGAACTATCATATGATGTTAAATGAAAAGTAGATAT
1 AGAGTAAGCTTTGAAAAGCTCAGTAATACAAAACTATCAGATGATGTTAAATGAAAAGTAGATAT
*
2285997 AACACAAAGCATAAAACTTTCTTATTAATCCAGGCATATACAAGTTCCAATGATGAGTTGAGGTT
66 AACACAAAGCATAAAACTTTCTTATTAATCCAGGCATATACAAGTTCCAATAATGAGTTGAGGTT
*
2286062 TATTAATTAATTCTTCAAGTAATAGTCAAGAAACCTACAGTTCAGAGGAAGCGTTCAGAAAGACA
131 TATTAATTAATTCTTCAAGTAATAGTCAAGAAACATACAGTTCAGAGGAAGCGTTCAGAAAGACA
* * * * * * *
2286127 GATTCATGCGATTGAAATAAGGGTGTCTAATGTGTTCCCATAAAATAAAAAAAATAAGTTTGCAA
196 AATTCATGAGATTGAAATAAGGGTATCTAACGTGTTCCCAGAAAAT-AAAAAAATAAATGTGCAA
* *
2286192 GTAGTTTAAAAATAGTAGTAGTTTATTTCGGTAAAACAAATTTTAAAATCACAGTAATACCCTCG
260 GTAGTTTAAAAATAGTAGTAGTTTATTTCAGTAAAACAAATTTTAAAATCACAGTAATACCCTCC
* *
2286257 AACCGAACATCGATATGCAATTCCTTGAAATATATCCATAAGGACTTACCTTAGGCCCATTGGGC
325 AACCGAACATCGATATGCAATTCCTTGAAATATATCCAAAAGGACTTACCCTAGGCCCATTGGGC
* * *
2286322 GTAGTTACCAACCTAAGGGAGAACCTTGGGTCATGTGGGCTGTAATACCCCAAAATTTTGATTCG
390 GTAGGTACCAACCTAAGGGAGAACCTTGGGGCATGTGGGCTGTAATACCCCAAAATTTTGATTAG
*
2286387 TGGCCAA
455 TGACCAA
2286394 A
1 A
2286395 ATATAAATTT
Statistics
Matches: 427, Mismatches: 34, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
460 226 0.53
462 201 0.47
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (461 bp):
AGAGTAAGCTTTGAAAAGCTCAGTAATACAAAACTATCAGATGATGTTAAATGAAAAGTAGATAT
AACACAAAGCATAAAACTTTCTTATTAATCCAGGCATATACAAGTTCCAATAATGAGTTGAGGTT
TATTAATTAATTCTTCAAGTAATAGTCAAGAAACATACAGTTCAGAGGAAGCGTTCAGAAAGACA
AATTCATGAGATTGAAATAAGGGTATCTAACGTGTTCCCAGAAAATAAAAAAATAAATGTGCAAG
TAGTTTAAAAATAGTAGTAGTTTATTTCAGTAAAACAAATTTTAAAATCACAGTAATACCCTCCA
ACCGAACATCGATATGCAATTCCTTGAAATATATCCAAAAGGACTTACCCTAGGCCCATTGGGCG
TAGGTACCAACCTAAGGGAGAACCTTGGGGCATGTGGGCTGTAATACCCCAAAATTTTGATTAGT
GACCAA
Found at i:2289368 original size:19 final size:19
Alignment explanation
Indices: 2289346--2289412 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 19
2289336 GGCTATGAAC
*
2289346 TTGAAAGTAAACTATTAAT
1 TTGAAAGTAAACTATAAAT
* *
2289365 TTGAAAATAAGCTATAAAT
1 TTGAAAGTAAACTATAAAT
*** * * *
2289384 CCAAAATTAATCTATGAAT
1 TTGAAAGTAAACTATAAAT
2289403 TTGAAAGTAA
1 TTGAAAGTAA
2289413 GTTATGAACC
Statistics
Matches: 35, Mismatches: 13, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (19 bp):
TTGAAAGTAAACTATAAAT
Found at i:2290357 original size:54 final size:54
Alignment explanation
Indices: 2290083--2290339 Score: 361
Period size: 54 Copynumber: 4.8 Consensus size: 54
2290073 TATACTGTCA
* * ** * * *
2290083 TTCATAAACATATTATGAATTCCACGGGTTGCACACATAGTGCCTAAACAGTTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTG
* * *
2290137 TTCATCAAGATATGATGAATTCCTTGAGTTGCACCCATAGTGCCGAAACGGTTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTG
* *
2290191 TTCATTAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAATGGTTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTG
** * * *
2290245 TTCATCAACATATGATGAATTATGTGAGTTGCACACATAATGCCGAAAAGATTG
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTG
2290299 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGT
2290340 ACCCATACGG
Statistics
Matches: 180, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 180 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (54 bp):
TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAACGGTTG
Found at i:2290385 original size:108 final size:108
Alignment explanation
Indices: 2290083--2290390 Score: 300
Period size: 108 Copynumber: 2.9 Consensus size: 108
2290073 TATACTGTCA
* * ** * * * * *** *
2290083 TTCATAAACATATTATGAATTCCACGGGTTGCACACATAGTGCCTAAACAGTTGTTCATCAAGAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTACCCAAACGGAAATTCATCAACAT
* * * * *
2290148 ATGATGAATT-CCTTGAGTTGCACCCATAGTGCCGAAACGGTTG
66 ATGATGAATTATC-TGAGTTGCACACATAATGCCGAAAAGATTG
* * * * ***
2290191 TTCATTAACATATGATGAATTCCGTGAGTTGCACACATAGTGCCGAAATGGTTGTTCATCAACAT
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTACCCAAACGGAAATTCATCAACAT
*
2290256 ATGATGAATTATGTGAGTTGCACACATAATGCCGAAAAGATTG
66 ATGATGAATTATCTGAGTTGCACACATAATGCCGAAAAGATTG
*
2290299 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTACCCATACGGAAATTCAT-AAC-T
1 TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTACCCAAACGGAAATTCATCAACAT
* *
2290362 CATTATGAATT-TCTTAGTTTTGCACACAT
66 -ATGATGAATTATCTGAG--TTGCACACAT
2290391 GGTGCCATTT
Statistics
Matches: 170, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
106 5 0.03
107 12 0.07
108 153 0.90
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.31
Consensus pattern (108 bp):
TTCATCAACATATGATGAATTCCGTGAGTTGCACACATAGTACCCAAACGGAAATTCATCAACAT
ATGATGAATTATCTGAGTTGCACACATAATGCCGAAAAGATTG
Found at i:2294586 original size:95 final size:96
Alignment explanation
Indices: 2294403--2294591 Score: 276
Period size: 95 Copynumber: 2.0 Consensus size: 96
2294393 ATACCGTTAA
* * *
2294403 GGTAGTATCGATACCATTGTAAGGGTATTGATACCAAGCAAACATCGAATCTAATTTTGGTATCG
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
* **
2294468 ATACCGTAAGGGGTTATCAGTACCATAGTAT
66 ATACCGAAAGAAGTTATCAGTACCATAGTAT
2294499 GGTAGTATCGATACCATGGTAAGGGTATCGATACC-AG-ACAACATCGAACCTAATTTTGGTATC
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCA-AACATCGAACCTAATTTTGGTATC
*
2294562 GATACCCGAAAGAAG-TATCGGTACCATAGT
65 GATA-CCGAAAGAAGTTATCAGTACCATAGT
2294592 GTTGAAGTAT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
94 1 0.01
95 43 0.51
96 40 0.48
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (96 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTTGGTATCG
ATACCGAAAGAAGTTATCAGTACCATAGTAT
Found at i:2294626 original size:95 final size:95
Alignment explanation
Indices: 2294406--2294614 Score: 251
Period size: 95 Copynumber: 2.2 Consensus size: 95
2294396 CCGTTAAGGT
** * *
2294406 AGTATCGATACCATTGTAAGGGTATTGATACCA-AGCAAACATCGAATCTAATTTTGGTATCGAT
1 AGTATCGATACCAGGGTAAGGGTATCGATACCAGA-C-AACATCGAACCTAATTTTGGTATCGAT
* ** *
2294470 ACCGTAAGGGGTTATCAGTACCATAGTATGGT
64 ACCGAAAGAAGTTATCAGTACCATAGTATGGA
*
2294502 AGTATCGATACCATGGTAAGGGTATCGATACCAGACAACATCGAACCTAATTTTGGTATCGATAC
1 AGTATCGATACCAGGGTAAGGGTATCGATACCAGACAACATCGAACCTAATTTTGGTATCGATA-
* * *
2294567 CCGAAAGAAG-TATCGGTACCATAGTGTTGA
65 CCGAAAGAAGTTATCAGTACCATAGTATGGA
* *
2294597 AGTATCGGTACTAGGGTA
1 AGTATCGATACCAGGGTA
2294615 GTTGTATCGA
Statistics
Matches: 98, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
95 58 0.59
96 39 0.40
97 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.28
Consensus pattern (95 bp):
AGTATCGATACCAGGGTAAGGGTATCGATACCAGACAACATCGAACCTAATTTTGGTATCGATAC
CGAAAGAAGTTATCAGTACCATAGTATGGA
Found at i:2295123 original size:45 final size:45
Alignment explanation
Indices: 2295064--2295329 Score: 340
Period size: 45 Copynumber: 5.8 Consensus size: 45
2295054 TATTGGCATG
* * *
2295064 AAAGGATGCCATAGTTGAAATGCATATGGGTGCATTGTGAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
*
2295109 AAAGTATGCTATAGTTGAAATGCATATGGGTGC-TCTGTCAACAAA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCAT-TGTCAACAGA
* * * *
2295154 AAATTATAGC-ATAGTTGAAATGCATATGGGTGTATTATCAACAAAAAAA
1 AAAGTAT-GCTATAGTTGAAATGCATATGGGTGCATTGTCAAC----AGA
2295203 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
*
2295248 AAAGTATGCTATAATTGAAATGCATATGGGTGCATTGTCAACAGA
1 AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
* *
2295293 AAAGTATGTTATAGTTAAAAATGCATAAT-GGTGCATT
1 AAAGTATGCTATAGTT-GAAATGCAT-ATGGGTGCATT
2295330 ATGAACATGA
Statistics
Matches: 196, Mismatches: 15, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
44 1 0.01
45 133 0.68
46 19 0.10
47 2 0.01
48 2 0.01
49 39 0.20
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (45 bp):
AAAGTATGCTATAGTTGAAATGCATATGGGTGCATTGTCAACAGA
Found at i:2295231 original size:94 final size:92
Alignment explanation
Indices: 2295064--2295329 Score: 314
Period size: 94 Copynumber: 2.9 Consensus size: 92
2295054 TATTGGCATG
* * *
2295064 AAAGGATGCCATAGTTGAAATGCATATGGGTGCATTGTGAAC---AGAAAAGTATGCTATAGTTG
1 AAAGTATG-CATAGTTGAAATGCATATGGGTGCATTGTCAACAAAAAAAAAGTATGCTATAGTTG
2295126 AAATGCATATGGGTGC-TCTGTCAACAAA
65 AAATGCATATGGGTGCAT-TGTCAACAAA
* * *
2295154 AAATTATAGCATAGTTGAAATGCATATGGGTGTATTATCAACAAAAAAAAAAGTATGCTATAGTT
1 AAAGTAT-GCATAGTTGAAATGCATATGGGTGCATTGTCAAC-AAAAAAAAAGTATGCTATAGTT
*
2295219 GAAATGCATATGGGTGCATTGTCAACAGA
64 GAAATGCATATGGGTGCATTGTCAACAAA
* * *
2295248 AAAGTATGCTATAATTGAAATGCATATGGGTGCATTGTCAAC---AGAAAAGTATGTTATAGTTA
1 AAAGTATGC-ATAGTTGAAATGCATATGGGTGCATTGTCAACAAAAAAAAAGTATGCTATAGTT-
*
2295310 AAAATGCATAAT-GGTGCATT
64 GAAATGCAT-ATGGGTGCATT
2295330 ATGAACATGA
Statistics
Matches: 153, Mismatches: 14, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
90 52 0.34
91 17 0.11
92 2 0.01
93 2 0.01
94 79 0.52
95 1 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.29
Consensus pattern (92 bp):
AAAGTATGCATAGTTGAAATGCATATGGGTGCATTGTCAACAAAAAAAAAGTATGCTATAGTTGA
AATGCATATGGGTGCATTGTCAACAAA
Found at i:2297377 original size:29 final size:31
Alignment explanation
Indices: 2297345--2297403 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
2297335 AAAATTTTAA
2297345 TTAATGACCAAAATATAAA-TTTT-GAAAAT
1 TTAATGACCAAAATATAAAGTTTTGGAAAAT
* * *
2297374 TTAATGGCCTAAGTATAAAGTTTTGGAAAA
1 TTAATGACCAAAATATAAAGTTTTGGAAAA
2297404 GTACAAGGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 4 0.16
31 5 0.20
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.34
Consensus pattern (31 bp):
TTAATGACCAAAATATAAAGTTTTGGAAAAT
Found at i:2299409 original size:19 final size:19
Alignment explanation
Indices: 2299385--2299463 Score: 104
Period size: 19 Copynumber: 4.2 Consensus size: 19
2299375 GAACTTGAAA
2299385 GAATTTGAAAGTAAGCTAT
1 GAATTTGAAAGTAAGCTAT
* *
2299404 GAATTTGAAAATAAGATAT
1 GAATTTGAAAGTAAGCTAT
** *
2299423 GAATACGAAATTAAGCTAT
1 GAATTTGAAAGTAAGCTAT
*
2299442 GAATTTGAAAGTAAGTTAT
1 GAATTTGAAAGTAAGCTAT
2299461 GAA
1 GAA
2299464 CCAGGAAGTA
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (19 bp):
GAATTTGAAAGTAAGCTAT
Found at i:2299447 original size:38 final size:38
Alignment explanation
Indices: 2299391--2299463 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
2299381 GAAAGAATTT
2299391 GAAAGTAAGCTATGAATTTGAAAATAAGATATGAATAC
1 GAAAGTAAGCTATGAATTTGAAAATAAGATATGAATAC
* * *
2299429 GAAATTAAGCTATGAATTTGAAAGTAAGTTATGAA
1 GAAAGTAAGCTATGAATTTGAAAATAAGATATGAA
2299464 CCAGGAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.48, C:0.04, G:0.19, T:0.29
Consensus pattern (38 bp):
GAAAGTAAGCTATGAATTTGAAAATAAGATATGAATAC
Found at i:2300918 original size:15 final size:16
Alignment explanation
Indices: 2300882--2300912 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2300872 ATCAAGAAAT
*
2300882 TAAAATATTGATAAAA
1 TAAAATATTCATAAAA
2300898 TAAAATATTCATAAA
1 TAAAATATTCATAAA
2300913 TCAAATCGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAAATATTCATAAAA
Found at i:2317881 original size:791 final size:791
Alignment explanation
Indices: 2316360--2318735 Score: 4538
Period size: 791 Copynumber: 3.0 Consensus size: 791
2316350 ACGTGAAGAG
2316360 GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGTGGAGCAAG
1 GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGT-GAGCAAG
* * *
2316425 G-CTGCTGCTAAGGTCCTGTAATCAGGCTTTTACTGGTCAACTTTGTTTAGAGATGCCCAAGCAT
65 GACTGCTACTAAGGTCCTGCAATCAGGCTTTTACTGGCCAACTTTGTTTAGAGATGCCCAAGCAT
* *
2316489 TTTACAAAGGATGTGATCGATGCCAACAGACTGGAAACATCTCCAGACGACATGAGATGCCGCTG
130 TTTACAAAGGATGTGATCAATGCCAACGGACTGGAAACATCTCCAGACGACATGAGATGCCGCTG
*
2316554 CAAAATATTTTGGAGATAGAGCTGTTTGATATGTGGGGCATCGACTTCATGGGACCATTCCCATC
195 CAAAATATTTTGGAGATAGAGCTGTTTGATGTGTGGGGCATCGACTTCATGGGACCATTCCCATC
*
2316619 TTCTGAAGGAAAATTATATATATTGCTTGCTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAG
260 TTCTGAAGGAAAATTATATATATTGCTTGTTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAG
*
2316684 CAACATCAAGGAATTACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTT
325 CAACATCAAGGAATGACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTT
*
2316749 GGAGTACCTCGTGCTATCATCAATGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGC
390 GGAGTACCTCGTGCTATCATCAGTGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGC
* * * *
2316814 ATTGCTGAGATATGGAGTTCGACACAAGATTGCCACGGCATATCATCCGCAGACAAATGGCCAAG
455 ATTGCTGAGATATGAAGTTCGACACAAGTTTGCCACAGCATATCATCCTCAGACAAATGGCCAAG
*
2316879 CTGAGATATCTAATCGAGAGATCAAACAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGAT
520 CTGAGATATCTAATCGAGAGATCAAGCAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGAT
2316944 TGGTCGCCAAAGTTGGATGAAGCACTTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGAT
585 TGGTCGCCAAAGTTGGATGAAGCACTTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGAT
2317009 GTCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAGCTTGAACATAAAGCTT
650 GTCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAGCTTGAACATAAAGCTT
*
2317074 ATTAGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTAGGGAGCAGAGATTATTAGAACTT
715 ATTGGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTAGGGAGCAGAGATTATTAGAACTT
2317139 AATGAAATGGAA
780 AATGAAATGGAA
2317151 GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGTGAGCAAGG
1 GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGTGAGCAAGG
*
2317216 ACTGCTACTAAGGTCCTGCAATCAGGCTTTTACTAGCCAACTTTGTTTAGAGATGCCCAAGCATT
66 ACTGCTACTAAGGTCCTGCAATCAGGCTTTTACTGGCCAACTTTGTTTAGAGATGCCCAAGCATT
2317281 TTACAAAGGATGTGATCAATGCCAACGGACTGGAAACATCTCCAGACGACATGAGATGCCGCTGC
131 TTACAAAGGATGTGATCAATGCCAACGGACTGGAAACATCTCCAGACGACATGAGATGCCGCTGC
2317346 AAAATATTTTGGAGATAGAGCTGTTTGATGTGTGGGGCATCGACTTCATGGGACCATTCCCATCT
196 AAAATATTTTGGAGATAGAGCTGTTTGATGTGTGGGGCATCGACTTCATGGGACCATTCCCATCT
2317411 TCTGAAGGAAAATTATATATATTGCTTGTTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAGC
261 TCTGAAGGAAAATTATATATATTGCTTGTTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAGC
2317476 AACATCAAGGAATGACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTTG
326 AACATCAAGGAATGACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTTG
*
2317541 GAGTACCTTGTGCTATCATCAGTGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGCA
391 GAGTACCTCGTGCTATCATCAGTGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGCA
2317606 TTGCTGAGATATGAAGTTCGACACAAGTTTGCCACAGCATATCATCCTCAGACAAATGGCCAAGC
456 TTGCTGAGATATGAAGTTCGACACAAGTTTGCCACAGCATATCATCCTCAGACAAATGGCCAAGC
*
2317671 TGAGATATATAATCGAGAGATCAAGCAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGATT
521 TGAGATATCTAATCGAGAGATCAAGCAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGATT
2317736 GGTCGCCAAAGTTGGATGAAGCACTTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGATG
586 GGTCGCCAAAGTTGGATGAAGCACTTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGATG
2317801 TCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAGCTTGAACATAAAGCTTA
651 TCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAGCTTGAACATAAAGCTTA
*
2317866 TTGGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTAGGGAGAAGAGATTATTAGAACTTA
716 TTGGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTAGGGAGCAGAGATTATTAGAACTTA
2317931 ATGAAATGGAA
781 ATGAAATGGAA
2317942 GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGTGAGCAAGG
1 GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGTGAGCAAGG
2318007 ACTGCTACTAAGGTCCTGCAATCAGGCTTTTACTGGCCAACTTTGTTTAGAGATGCCCAAGCATT
66 ACTGCTACTAAGGTCCTGCAATCAGGCTTTTACTGGCCAACTTTGTTTAGAGATGCCCAAGCATT
2318072 TTACAAAGGATGTGATCAATGCCAACGGACTGGAAACATCTCCAGACGACATGAGATGCCGCTGC
131 TTACAAAGGATGTGATCAATGCCAACGGACTGGAAACATCTCCAGACGACATGAGATGCCGCTGC
2318137 AAAATATTTTGGAGATAGAGCTGTTTGATGTGTGGGGCATCGACTTCATGGGACCATTCCCATCT
196 AAAATATTTTGGAGATAGAGCTGTTTGATGTGTGGGGCATCGACTTCATGGGACCATTCCCATCT
2318202 TCTGAAGGAAAATTATATATATTGCTTGTTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAGC
261 TCTGAAGGAAAATTATATATATTGCTTGTTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAGC
2318267 AACATCAAGGAATGACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTTG
326 AACATCAAGGAATGACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTTG
2318332 GAGTACCTCGTGCTATCATCAGTGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGCA
391 GAGTACCTCGTGCTATCATCAGTGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGCA
2318397 TTGCTGAGATATGAAGTTCGACACAAGTTTGCCACAGCATATCATCCTCAGACAAATGGCCAAGC
456 TTGCTGAGATATGAAGTTCGACACAAGTTTGCCACAGCATATCATCCTCAGACAAATGGCCAAGC
2318462 TGAGATATCTAATCGAGAGATCAAGCAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGATT
521 TGAGATATCTAATCGAGAGATCAAGCAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGATT
*
2318527 GGTCGCCAAAGTTGGATGAAGCAATTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGATG
586 GGTCGCCAAAGTTGGATGAAGCACTTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGATG
*
2318592 TCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAACTTGAACATAAAGCTTA
651 TCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAGCTTGAACATAAAGCTTA
*
2318657 TTGGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTGGGGAGCAGAGATTATTAGAACTTA
716 TTGGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTAGGGAGCAGAGATTATTAGAACTTA
2318722 ATGAAATGGAA
781 ATGAAATGGAA
2318733 GAG
1 GAG
2318736 TTTAGAGCAC
Statistics
Matches: 1558, Mismatches: 26, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
790 8 0.01
791 1550 0.99
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (791 bp):
GAGCAAAGTGATATTTTGTACCATTGTCATTCGGCCCCAAGTGGAGGCCATTTTGGTGAGCAAGG
ACTGCTACTAAGGTCCTGCAATCAGGCTTTTACTGGCCAACTTTGTTTAGAGATGCCCAAGCATT
TTACAAAGGATGTGATCAATGCCAACGGACTGGAAACATCTCCAGACGACATGAGATGCCGCTGC
AAAATATTTTGGAGATAGAGCTGTTTGATGTGTGGGGCATCGACTTCATGGGACCATTCCCATCT
TCTGAAGGAAAATTATATATATTGCTTGTTGTGGATTATGTGTCAAAGTGGGTGGAAGCAATAGC
AACATCAAGGAATGACTCCAAGACCGTACTCAAGTTTTTGCACAAGTATATTTTCACTCGGTTTG
GAGTACCTCGTGCTATCATCAGTGATGAAGGAACCCATTTTGATAACAAGTTGATTGCCAAGGCA
TTGCTGAGATATGAAGTTCGACACAAGTTTGCCACAGCATATCATCCTCAGACAAATGGCCAAGC
TGAGATATCTAATCGAGAGATCAAGCAGATTTTAGAGAAAGTGGTGAACCCAAAGCGAAAGGATT
GGTCGCCAAAGTTGGATGAAGCACTTTGGGCGTACAGAACAGCATTCAAAACTCCTTTGGGGATG
TCACCCTTCAAGTTAGTGTATGGTAAAGCTTGTCATCTCCCGGTTGAGCTTGAACATAAAGCTTA
TTGGGCTATCAAGCGATTGAATTTCGATGCTCAACTAGCTAGGGAGCAGAGATTATTAGAACTTA
ATGAAATGGAA
Found at i:2325162 original size:65 final size:62
Alignment explanation
Indices: 2325093--2325273 Score: 188
Period size: 65 Copynumber: 2.8 Consensus size: 62
2325083 TTGGACCCTT
* *
2325093 AGTGCATCGGTGCACTAAGAGTGCATCGAATGCATCAAGTGCATTCGATGTTTCA-AAATAGCCA
1 AGTGCATCGATGCACT--GAGTGCATCG-ATGCATCAAATGCATTCGATGTTTCATAAA-AGCCA
*
2325157 G
62 C
* *
2325158 AGTGCATCGATGCATGGCTG-GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCT
1 AGTGCATCGATGCA---CTGAGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCCA
2325222 C
62 C
*
2325223 AGTGCATCGATGCA-TGGTATGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCACT-G-A-GTGCATCGATGCATCAAATGCATTCGATGTT
2325274 CAATTTAATT
Statistics
Matches: 101, Mismatches: 6, Indels: 19
0.80 0.05 0.15
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 22 0.22
65 71 0.70
66 4 0.04
68 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (62 bp):
AGTGCATCGATGCACTGAGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCCAC
Found at i:2325172 original size:73 final size:65
Alignment explanation
Indices: 2325113--2325273 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 65
2325103 TGCACTAAGA
* *
2325113 GTGCATCGAATGCATCAAGTGCATTCGATG-TTTCA-AAATAGCCAGAGTGCATCGATGCATGGC
1 GTGCATCG-ATGCATCAAATGCATTCGATGTTTTCATAAA-AGCCACAGTGCATCGATGCATGGC
2325176 TG
64 TG
* *
2325178 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGG-TA
1 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGGCT-
*
2325242 T
65 G
*
2325243 GTGCATCGATGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATCAAATGCATTCGATGTT
2325274 CAATTTAATT
Statistics
Matches: 87, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
64 21 0.24
65 63 0.72
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAAAGCCACAGTGCATCGATGCATGGCTG
Found at i:2327940 original size:21 final size:22
Alignment explanation
Indices: 2327885--2327963 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 22
2327875 CATGACCTTG
* * *
2327885 TGCATCAATGCGCATTCAAGGTG
1 TGCATCGATGCACATTCAAGG-A
* * *
2327908 TGCATCGGTGCACCTTCATGG-
1 TGCATCGATGCACATTCAAGGA
*
2327929 TGTATCGATGCACATTCAAGGA
1 TGCATCGATGCACATTCAAGGA
2327951 TGCATCGATGCAC
1 TGCATCGATGCAC
2327964 TGTTAGATGT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
21 17 0.38
22 12 0.27
23 16 0.36
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:2333909 original size:65 final size:63
Alignment explanation
Indices: 2333775--2333977 Score: 220
Period size: 65 Copynumber: 3.2 Consensus size: 63
2333765 CTAAGAGTGT
* * **
2333775 ATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGACAG-GCATCGATGCAT-GACTGGTGC
1 ATCGATGCATCAAATGCATTTGATGTTTCATAAA-ATTCAGTGCATCGATGCATGGACTGGTGC
2333836 ATCGATGCATCAAATGCATTTGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGTA-T-GT
1 ATCGATGCATCAAATGCATTTGATG-TTTCATAAAAT--TCAGTGCATCGATGCATGG-ACTGGT
2333899 GC
62 GC
* ** *
2333901 ATCGATGCATGAAATGCATTTGATG-TTCAATTTAATTCATGGTGCATCGATGCATGGATTGGTG
1 ATCGATGCATCAAATGCATTTGATGTTTC-ATAAAATTCA--GTGCATCGATGCATGGACTGGTG
2333965 C
63 C
2333966 ATCGATGCATCA
1 ATCGATGCATCA
2333978 CTTTGATAAA
Statistics
Matches: 122, Mismatches: 8, Indels: 20
0.81 0.05 0.13
Matches are distributed among these distances:
61 23 0.19
62 9 0.07
63 7 0.06
64 25 0.20
65 55 0.45
66 2 0.02
67 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
ATCGATGCATCAAATGCATTTGATGTTTCATAAAATTCAGTGCATCGATGCATGGACTGGTGC
Found at i:2355060 original size:16 final size:15
Alignment explanation
Indices: 2355039--2355069 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2355029 GGAGTTTGAT
2355039 TAATAAGTAAAATAAA
1 TAATAAGT-AAATAAA
2355055 TAATAAGTAAATAAA
1 TAATAAGTAAATAAA
2355070 AGTAGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (15 bp):
TAATAAGTAAATAAA
Found at i:2363821 original size:28 final size:28
Alignment explanation
Indices: 2363789--2363846 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
2363779 TCGTTCTTGA
2363789 ATGCAATCCTTAAAACGTGGCACAAGGT
1 ATGCAATCCTTAAAACGTGGCACAAGGT
2363817 ATGCAATCCTTAAAACGTGGCACAAGGT
1 ATGCAATCCTTAAAACGTGGCACAAGGT
2363845 AT
1 AT
2363847 AATGGCCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (28 bp):
ATGCAATCCTTAAAACGTGGCACAAGGT
Found at i:2372939 original size:21 final size:21
Alignment explanation
Indices: 2372906--2372946 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
2372896 TATTGCAAGA
* *
2372906 ATTACTCTCAGTATCGATACT
1 ATTACCCTCAGTATAGATACT
*
2372927 ATTACCCTTAGTATAGATAC
1 ATTACCCTCAGTATAGATAC
2372947 CCCTATATAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.10, T:0.37
Consensus pattern (21 bp):
ATTACCCTCAGTATAGATACT
Found at i:2376544 original size:18 final size:18
Alignment explanation
Indices: 2376521--2376568 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
2376511 ATCGGGTGGG
2376521 TAAAAATAGATGGATAGA
1 TAAAAATAGATGGATAGA
2376539 TAAAAATAGATGGATAGA
1 TAAAAATAGATGGATAGA
2376557 TAAAAATAGATG
1 TAAAAATAGATG
2376569 ATTAAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.21, T:0.23
Consensus pattern (18 bp):
TAAAAATAGATGGATAGA
Found at i:2384300 original size:139 final size:139
Alignment explanation
Indices: 2384050--2384329 Score: 479
Period size: 139 Copynumber: 2.0 Consensus size: 139
2384040 CCAACTGAGC
* *
2384050 TAAGGTTAAGATTATAACTCTAACAAGTCTCTAAAGCATTATCGTGGCATTTCATAGTTTAAAAT
1 TAAGGTCAAGATTATAACTCTAACAAGTCTCTAAAGCATTATCGTGACATTTCATAGTTTAAAAT
* *
2384115 TTTCATATTAGGTCATCATCAAAGTTCTACTAAAAATTTCATTGGTTCTATAATATTAAACATGT
66 TTTCATATTAGGTAATCATCAAAGTTATACTAAAAATTTCATTGGTTCTATAATATTAAACATGT
2384180 AGCATTACA
131 AGCATTACA
* * *
2384189 TAAGGTCAAGATTCTAACTCTAACATGTCTCTAAAGCATTCTCGTGACATTTCATAGTTTAAAAT
1 TAAGGTCAAGATTATAACTCTAACAAGTCTCTAAAGCATTATCGTGACATTTCATAGTTTAAAAT
* *
2384254 TTTTATCTTAGGTAATCATCAAAGTTATACTAAAAATTTCATTGGTTCTATAATATTAAACATGT
66 TTTCATATTAGGTAATCATCAAAGTTATACTAAAAATTTCATTGGTTCTATAATATTAAACATGT
2384319 AGCATTACA
131 AGCATTACA
2384328 TA
1 TA
2384330 TGTAGTTCTT
Statistics
Matches: 132, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
139 132 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (139 bp):
TAAGGTCAAGATTATAACTCTAACAAGTCTCTAAAGCATTATCGTGACATTTCATAGTTTAAAAT
TTTCATATTAGGTAATCATCAAAGTTATACTAAAAATTTCATTGGTTCTATAATATTAAACATGT
AGCATTACA
Found at i:2388510 original size:16 final size:16
Alignment explanation
Indices: 2388489--2388521 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
2388479 ACATTGTGGG
2388489 ATAACGTCAGTCGGAT
1 ATAACGTCAGTCGGAT
2388505 ATAACGTCAGTCGGAT
1 ATAACGTCAGTCGGAT
2388521 A
1 A
2388522 ACTCCGAGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (16 bp):
ATAACGTCAGTCGGAT
Found at i:2388522 original size:14 final size:14
Alignment explanation
Indices: 2388487--2388523 Score: 56
Period size: 16 Copynumber: 2.5 Consensus size: 14
2388477 CAACATTGTG
2388487 GGATAACGTCAGTC
1 GGATAACGTCAGTC
2388501 GGATATAACGTCAGTC
1 GG--ATAACGTCAGTC
2388517 GGATAAC
1 GGATAAC
2388524 TCCGAGGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
16 14 0.67
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (14 bp):
GGATAACGTCAGTC
Found at i:2396344 original size:3 final size:3
Alignment explanation
Indices: 2396336--2396370 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
2396326 AAATGCAAAT
*
2396336 AAC AAC AAC AAC AAC AAC AAC AAA AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
2396371 TGTTGGATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.71, C:0.29, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:2398533 original size:27 final size:27
Alignment explanation
Indices: 2398503--2398565 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
2398493 GTAATTAGCC
2398503 TAAGGAGTAGCCCAAGGAACCTCACCT
1 TAAGGAGTAGCCCAAGGAACCTCACCT
2398530 TAAGGAGTAGCCCAAGGAACCTCACCT
1 TAAGGAGTAGCCCAAGGAACCTCACCT
2398557 TAAGGAGTA
1 TAAGGAGTA
2398566 TAGTTCATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (27 bp):
TAAGGAGTAGCCCAAGGAACCTCACCT
Found at i:2414941 original size:44 final size:44
Alignment explanation
Indices: 2414892--2415194 Score: 367
Period size: 44 Copynumber: 6.9 Consensus size: 44
2414882 AACAGCTAAA
* * *
2414892 ATAAATGAAAATGCATAACGGTGCATTATTGTCAAAAAGTTGTC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGTTGTC
* * *
2414936 ATAAATGAAAACGCATAACAATGCATTATTGGCATAAAGGTGTC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGTTGTC
* ** * *
2414980 ATAAATGAAAATGCGTAATGGTACATTATTGGCAGAAA-TGTGTC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGT-TGTC
* * * *
2415024 ATAAATGAAAATGCATAACAATGCATTATTGACAGAAAGGTGTC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGTTGTC
* * *
2415068 ATAAATGAAAATGCATAACAGTGCATTATTGGTATAAAGATGCC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGTTGTC
* *
2415112 ATAAATTAAAATGCATAACAGTGCATTATTGGCATAAA-TGAGTC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGT-TGTC
** *
2415156 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAG
1 ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAG
2415195 GTGCCACTCA
Statistics
Matches: 219, Mismatches: 36, Indels: 7
0.84 0.14 0.03
Matches are distributed among these distances:
44 219 1.00
ACGTcount: A:0.43, C:0.11, G:0.19, T:0.27
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACAGTGCATTATTGGCATAAAGTTGTC
Found at i:2415073 original size:132 final size:132
Alignment explanation
Indices: 2414892--2415197 Score: 441
Period size: 132 Copynumber: 2.3 Consensus size: 132
2414882 AACAGCTAAA
* * *
2414892 ATAAATGAAAATGCATAACGGTGCATTATTGTCAAAAAGTTGTCATAAATGAAAACGCATAACAA
1 ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAAGGTGTCATAAATGAAAACGCATAACAA
* * * ** *
2414957 TGCATTATTGGCATAAAGGTGTCATAAATGAAAATGCGTAATGGTACATTATTGGCAGAAATGTG
66 TGCATTATTGGCATAAAGATGCCATAAATGAAAATGCATAACAGTACATTATTGGCAGAAATGAG
2415022 TC
131 TC
** * *
2415024 ATAAATGAAAATGCATAACAATGCATTATTGACAGAAAGGTGTCATAAATGAAAATGCATAACAG
1 ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAAGGTGTCATAAATGAAAACGCATAACAA
* * * *
2415089 TGCATTATTGGTATAAAGATGCCATAAATTAAAATGCATAACAGTGCATTATTGGCATAAATGAG
66 TGCATTATTGGCATAAAGATGCCATAAATGAAAATGCATAACAGTACATTATTGGCAGAAATGAG
2415154 TC
131 TC
* *
2415156 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTG
1 ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAAGGTG
2415198 CCACTCATGG
Statistics
Matches: 153, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
132 153 1.00
ACGTcount: A:0.42, C:0.11, G:0.20, T:0.27
Consensus pattern (132 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGACAGAAAGGTGTCATAAATGAAAACGCATAACAA
TGCATTATTGGCATAAAGATGCCATAAATGAAAATGCATAACAGTACATTATTGGCAGAAATGAG
TC
Found at i:2415200 original size:88 final size:88
Alignment explanation
Indices: 2414892--2415200 Score: 429
Period size: 88 Copynumber: 3.5 Consensus size: 88
2414882 AACAGCTAAA
* * * * *
2414892 ATAAATGAAAATGCATAACGGTGCATTATTGTCAAAAAGTTGTCATAAATGAAAACGCATAACAA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAA
2414957 TGCATTATTGGCATAAAGGTGTC
66 TGCATTATTGGCATAAAGGTGTC
* * * * *
2414980 ATAAATGAAAATGCGTAATGGTACATTATTGGCAGAAATGTGTCATAAATGAAAATGCATAACAA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAA
* *
2415045 TGCATTATTGACAGAAAGGTGTC
66 TGCATTATTGGCATAAAGGTGTC
* * * * * *
2415068 ATAAATGAAAATGCATAACAGTGCATTATTGGTATAAAGATGCCATAAATTAAAATGCATAACAG
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAA
* *
2415133 TGCATTATTGGCATAAATGAGTC
66 TGCATTATTGGCATAAAGGTGTC
*
2415156 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCCA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCA
2415201 CTCATGGTAT
Statistics
Matches: 191, Mismatches: 30, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 191 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.27
Consensus pattern (88 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAACAA
TGCATTATTGGCATAAAGGTGTC
Found at i:2415884 original size:20 final size:21
Alignment explanation
Indices: 2415851--2415897 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
2415841 GTGTTACATA
*
2415851 TTTT-TTTCCTTTTTTTATTT
1 TTTTATTTCCTTTTTTGATTT
2415871 TTTTATTTCC-TTTTTGATTT
1 TTTTATTTCCTTTTTTGATTT
*
2415891 ATTTATT
1 TTTTATT
2415898 GTTTTTCTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.11, C:0.09, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTATTTCCTTTTTTGATTT
Found at i:2426974 original size:35 final size:35
Alignment explanation
Indices: 2426935--2427014 Score: 160
Period size: 35 Copynumber: 2.3 Consensus size: 35
2426925 TGCTTGCTTA
2426935 TGATGCTTCAGAATAACAATCAATTTTTCTTCTTT
1 TGATGCTTCAGAATAACAATCAATTTTTCTTCTTT
2426970 TGATGCTTCAGAATAACAATCAATTTTTCTTCTTT
1 TGATGCTTCAGAATAACAATCAATTTTTCTTCTTT
2427005 TGATGCTTCA
1 TGATGCTTCA
2427015 AGCTTTGCTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 45 1.00
ACGTcount: A:0.28, C:0.17, G:0.10, T:0.45
Consensus pattern (35 bp):
TGATGCTTCAGAATAACAATCAATTTTTCTTCTTT
Found at i:2429118 original size:60 final size:60
Alignment explanation
Indices: 2429052--2429199 Score: 156
Period size: 60 Copynumber: 2.5 Consensus size: 60
2429042 ACGGATTTCA
* ** * * *
2429052 TCCTTAAACTTTTAAATATTTCAATTTTATCATTAAATTATGACTCTTATTCTAAATTAG
1 TCCTTAAACTTTTAAATATTTCAATTTCATCACCAAACTATAAATCTTATTCTAAATTAG
* * * *
2429112 TCCTTAAACTTTTGAACA-TTCAAATTTCATCCCCAAACTATAAATCTTATTTTAAATTAG
1 TCCTTAAACTTTTAAATATTTC-AATTTCATCACCAAACTATAAATCTTATTCTAAATTAG
* * *
2429172 TCCTTAAA-GTTTAGATCTTTCAATTTCA
1 TCCTTAAACTTTTAAATATTTCAATTTCA
2429200 CCTTCAAATT
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
59 14 0.20
60 57 0.80
ACGTcount: A:0.34, C:0.17, G:0.04, T:0.45
Consensus pattern (60 bp):
TCCTTAAACTTTTAAATATTTCAATTTCATCACCAAACTATAAATCTTATTCTAAATTAG
Found at i:2429331 original size:29 final size:29
Alignment explanation
Indices: 2429298--2429390 Score: 73
Period size: 29 Copynumber: 3.1 Consensus size: 29
2429288 AATGAGAATT
2429298 AAATATTCAAAAGTTTAAGGACTAATTTAGA
1 AAATATTCAAAAGTTTAAGGACTAATTT--A
* * * *
2429329 ATAATAGTC-ATAGTTTAATGA-TGAAATTA
1 A-AATATTCAAAAGTTTAAGGACT-AATTTA
* * *
2429358 AAATGTTTAAAAGTTTAAGGACTAATTTG
1 AAATATTCAAAAGTTTAAGGACTAATTTA
2429387 AAAT
1 AAAT
2429391 GAGGGTTATA
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
28 4 0.09
29 20 0.43
30 2 0.04
31 15 0.32
32 6 0.13
ACGTcount: A:0.46, C:0.04, G:0.14, T:0.35
Consensus pattern (29 bp):
AAATATTCAAAAGTTTAAGGACTAATTTA
Found at i:2429340 original size:60 final size:60
Alignment explanation
Indices: 2429222--2429385 Score: 158
Period size: 60 Copynumber: 2.7 Consensus size: 60
2429212 TCTTCAATAA
* * ** * * * *
2429222 TTTAAT-ATAAAATTGAAATATTCAATAAGTTTTGGGACCAATTAAGGATGATGATCATAG
1 TTTAATGATGAAATTAAAATATTCAA-AAGTTTAAGGACTAATTTAGAATAATGATCATAG
2429282 TTTGGGAATGA-G-AATT-AAATATTCAAAAGTTTAAGGACTAATTTAGAATAAT-AGTCATAG
1 TTT---AATGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAGAATAATGA-TCATAG
* *
2429342 TTTAATGATGAAATTAAAATGTTTAAAAGTTTAAGGACTAATTT
1 TTTAATGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTT
2429386 GAAATGAGGG
Statistics
Matches: 87, Mismatches: 9, Indels: 16
0.78 0.08 0.14
Matches are distributed among these distances:
57 5 0.06
58 1 0.01
59 5 0.06
60 58 0.67
61 10 0.11
62 4 0.05
63 3 0.03
64 1 0.01
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (60 bp):
TTTAATGATGAAATTAAAATATTCAAAAGTTTAAGGACTAATTTAGAATAATGATCATAG
Done.