Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008397.1 Hibiscus syriacus cultivar Beakdansim tig00111166_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: 2560905
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 13
Found at i:1036965 original size:3 final size:3
Alignment explanation
Indices: 1036957--1037003 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
1036947 AATTATTTAT
* * *
1036957 TAA TAA TAA TAA TAA -AA TAA TTA TAA TAA TAA TAA TTA TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1037004 AATCGGGATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1036972 original size:26 final size:27
Alignment explanation
Indices: 1036943--1037003 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
1036933 ATTGGGCCTG
* *
1036943 TAAAAATTATT-TATTAATAATAATAA
1 TAAAAATAATTATAATAATAATAATAA
*
1036969 T-AAAATAATTATAATAATAATAATTA
1 TAAAAATAATTATAATAATAATAATAA
1036995 TAAAAATAA
1 TAAAAATAA
1037004 AATCGGGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 8 0.27
26 15 0.50
27 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAAAATAATTATAATAATAATAATAA
Found at i:1041998 original size:3 final size:3
Alignment explanation
Indices: 1041990--1042032 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
1041980 ACTGTTTGTA
* **
1041990 AAT AAT AAT TAT AAT -AT AAT AAT AAT TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1042033 AAACAAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:1042345 original size:75 final size:76
Alignment explanation
Indices: 1042191--1042394 Score: 329
Period size: 75 Copynumber: 2.7 Consensus size: 76
1042181 GAGGTCTTAA
* *
1042191 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1042256 AGGCTTTTTGG
66 AGGCTTTTTGG
*
1042267 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1042331 AGGCTTTTTGG
66 AGGCTTTTTGG
* * ** *
1042342 AAACATCCTGCACTACAGGGTTTACGGATGACCCGAAGGCTTTGAAAACATCA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCA
1042395 TGCACTGAAG
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
75 69 0.58
76 50 0.42
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:1042399 original size:45 final size:45
Alignment explanation
Indices: 1042326--1042439 Score: 149
Period size: 45 Copynumber: 2.5 Consensus size: 45
1042316 TCAAAAAGCT
* * ** *
1042326 CCCGAAGGCTTTTTGGAAACATCCTGCACT-ACAGGGTTTACGGATGA
1 CCCGAAGGC--TTTGAAAACATCATGCACTGA-AGGACTTACAGATGA
1042373 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
1042418 CCCGAAGGCTTTGAAAACATCA
1 CCCGAAGGCTTTGAAAACATCA
1042440 AAAGCTCCCG
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
45 51 0.84
46 1 0.02
47 9 0.15
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (45 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGA
Found at i:1042415 original size:120 final size:120
Alignment explanation
Indices: 1042251--1042514 Score: 415
Period size: 120 Copynumber: 2.2 Consensus size: 120
1042241 TCAAAAAGCT
* *
1042251 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGG-TTTGAAAAC
1 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* * * *
1042315 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCCTGCACT-ACAGGGTTTACGGATGA
64 ATC-AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGA-AGGGCTTACAGATGA
1042373 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
1 CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
1042438 CAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
66 CAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
*
1042493 CCCTAAGGCTTTGAAAACATCA
1 CCCGAAGGCTTTGAAAACATCA
1042515 AAAAGCTCCC
Statistics
Matches: 133, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
120 111 0.83
121 13 0.10
122 9 0.07
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (120 bp):
CCCGAAGGCTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACAT
CAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGA
Found at i:1042524 original size:196 final size:196
Alignment explanation
Indices: 1042190--1042590 Score: 660
Period size: 196 Copynumber: 2.0 Consensus size: 196
1042180 AGAGGTCTTA
* * *
1042190 AAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGTTTTGAAAACATCAAAAAGCTCCCG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
* *
1042255 AAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAA
66 AAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAA
* ** *
1042320 AAAGCTCCCGAAGGCTTTTTGGAAACATCCTGCACTACAGGGTTTACGGATGACCCGAAGGCTTT
131 AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCGAAGGCTTT
1042385 G
196 G
1042386 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATC-AAAAGCTCCCG
1 AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
* *
1042450 AAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAACATCA
66 AAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGG-TTTGAAAACATCA
** *
1042515 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTT
130 AAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCGAAGGCTT
1042580 TG
195 TG
1042582 AAAACATCA
1 AAAACATCA
1042591 AAAAGCTCCC
Statistics
Matches: 190, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
195 58 0.31
196 132 0.69
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (196 bp):
AAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
AAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTTTGAAAACATCAA
AAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTACAGGACTTACAGATGACCCGAAGGCTTT
G
Found at i:1042542 original size:151 final size:151
Alignment explanation
Indices: 1042373--1043022 Score: 1054
Period size: 151 Copynumber: 4.3 Consensus size: 151
1042363 TTACGGATGA
* *
1042373 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
*
1042436 ATC-AAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAG
66 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
1042500 GCTTTGAAAACATCAAAAAGCT
131 G-TTTGAAAACATCAAAAAGCT
* *
1042522 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* *
1042587 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAG
66 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
1042652 GTTTGAAAACATCAAAAAGCT
131 GTTTGAAAACATCAAAAAGCT
* * *
1042673 CCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATAACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* *
1042738 ATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAG
66 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
1042803 GTTTGAAAACATCAAAAAGCT
131 GTTTGAAAACATCAAAAAGCT
*
1042824 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
* *
1042889 ATCAAAAAGCTCCCGAAGGCTTTTTGAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAA
66 ATCAAAAAGCTCCCGAAGGCTTTTTG-AAAACATCATGCACTGAAGGACTTACAGATGACCCTAA
*
1042954 GGTTTTGAAAATATCAAAAAGCT
130 GG-TTTGAAAACATCAAAAAGCT
** * * * *
1042977 CTTGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATG
1043023 TGGGAAATAG
Statistics
Matches: 470, Mismatches: 26, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
149 9 0.02
151 308 0.66
152 95 0.20
153 58 0.12
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (151 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
ATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAG
GTTTGAAAACATCAAAAAGCT
Found at i:1042562 original size:76 final size:76
Alignment explanation
Indices: 1042373--1043022 Score: 1040
Period size: 76 Copynumber: 8.6 Consensus size: 76
1042363 TTACGGATGA
* *
1042373 CCCGAAGGC--TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042436 ATC-AAAAGCT
66 ATCAAAAAGCT
* *
1042446 CCCGAAGGCTTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042511 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1042522 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042587 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1042598 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042662 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1042673 CCCAAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATAACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042738 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1042749 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGACCCTAAGG-TTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042813 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1042824 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042889 ATCAAAAAGCT
66 ATCAAAAAGCT
* * * *
1042900 CCCGAAGGCTTTTTGAAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAA
1 CCCGAAGGCTTTTTG-GAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAA
*
1042965 TATCAAAAAGCT
65 CATCAAAAAGCT
** * * * * *
1042977 CTTGAAGGCTTTTTGAAAACATCCTGCACTGCAGGGCTTACGGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATG
1043023 TGGGAAATAG
Statistics
Matches: 549, Mismatches: 22, Indels: 9
0.95 0.04 0.02
Matches are distributed among these distances:
73 9 0.02
75 200 0.36
76 271 0.49
77 69 0.13
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1043906 original size:22 final size:22
Alignment explanation
Indices: 1043878--1043932 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1043868 TATAAAGCTT
1043878 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1043900 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1043922 TCATCTTTGAA
1 TCATCTTTGAA
1043933 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1045421 original size:76 final size:75
Alignment explanation
Indices: 1045276--1045452 Score: 194
Period size: 76 Copynumber: 2.3 Consensus size: 75
1045266 AGGATGTTGT
* * * * * * * *
1045276 GGGCCTTCAGTATGCCCCAATATTTGCTGATATGAGCGTTCAAAATACATCAATATTCTTCATTT
1 GGGCTTTCAGCATGCCCCAATATTTGCTGATATAAACATTCAAAATACATCAACATTCCTCATTC
1045341 TGATTGA-AA
66 TGATTGACAA
* * ** *
1045350 GGGGCTTTCAGCATGCCCTAGTATTTTGCTGATATAAACATTCAGGATACATCAACATTCCTGAT
1 -GGGCTTTCAGCATGCCCCAATA-TTTGCTGATATAAACATTCAAAATACATCAACATTCCTCAT
1045415 TCTGATTGACAA
64 TCTGATTGACAA
* *
1045427 GGGTTTTCAGCATGCCCCAACATTTG
1 GGGCTTTCAGCATGCCCCAATATTTG
1045453 TTTCTTGTTA
Statistics
Matches: 83, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
75 22 0.27
76 59 0.71
77 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (75 bp):
GGGCTTTCAGCATGCCCCAATATTTGCTGATATAAACATTCAAAATACATCAACATTCCTCATTC
TGATTGACAA
Found at i:1046562 original size:114 final size:114
Alignment explanation
Indices: 1046403--1046618 Score: 344
Period size: 114 Copynumber: 1.9 Consensus size: 114
1046393 ATGCAGTTCA
* * * * *
1046403 TCTTTTAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTTAAAGAACAC
1 TCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
*
1046468 TTCCAGAAGATGCTATT-GGGTCTCCTTATTTATACTATGAGCAAATTCG
66 TTCCAGAAGATACTATTAGGG-CTCCTTATTTATACTATGAGCAAATTCG
*
1046517 TCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
1 TCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
*
1046582 TTCCAGAAGATACTATTAGGGCTCCTTATTTCTACTA
66 TTCCAGAAGATACTATTAGGGCTCCTTATTTATACTA
1046619 CAAGAACGTG
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
114 90 0.97
115 3 0.03
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (114 bp):
TCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACAC
TTCCAGAAGATACTATTAGGGCTCCTTATTTATACTATGAGCAAATTCG
Found at i:1053732 original size:16 final size:17
Alignment explanation
Indices: 1053697--1053734 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
1053687 AAATAGGGAC
*
1053697 TAAAACTATTAAATAAA
1 TAAAAATATTAAATAAA
1053714 TAAAAATATTAAA-AAA
1 TAAAAATATTAAATAAA
1053730 TAAAA
1 TAAAA
1053735 TTTACAGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (17 bp):
TAAAAATATTAAATAAA
Found at i:1054960 original size:26 final size:26
Alignment explanation
Indices: 1054931--1054985 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
1054921 TCTGGTTGGT
* *
1054931 CTGGGCCGGTTCTGTTTTGTTTGTAA
1 CTGGGCCGGTCCAGTTTTGTTTGTAA
1054957 CTGGGCCGGTCCAGTTTTGTTTGTAA
1 CTGGGCCGGTCCAGTTTTGTTTGTAA
1054983 CTG
1 CTG
1054986 TTTGTAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.09, C:0.18, G:0.31, T:0.42
Consensus pattern (26 bp):
CTGGGCCGGTCCAGTTTTGTTTGTAA
Found at i:1055000 original size:3 final size:3
Alignment explanation
Indices: 1054992--1055053 Score: 72
Period size: 3 Copynumber: 20.7 Consensus size: 3
1054982 ACTGTTTGTA
* *
1054992 AAT AAT AAT TAT AAT -AT AAT AAT AAT ATTT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT
**
1055037 TTT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
1055054 AAACAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
AAT
Found at i:1065543 original size:148 final size:148
Alignment explanation
Indices: 1065255--1065551 Score: 562
Period size: 149 Copynumber: 2.0 Consensus size: 148
1065245 CCATCAAGTA
1065255 TTTAACATCGTTACATCCTCAGTAATCCAAATTCAAAATCTTTAAAATATCCATATCGATTAAAA
1 TTTAACATCGTTACATCCTCAGTAATCCAAATTCAAAATCTTTAAAATATCCATATCGATTAAAA
1065320 AACTAATTATTTTAGGCAACTACATGGTGGGATATTAATATCGAAGGAGCAGATGAGCGAGACAA
66 AACTAATTATTTTAGGCAACTACATGGTGGGATATTAATATCGAAGGAGCAGATGAGCGAGACAA
1065385 TAAAACTTGCAGATCCGC
131 TAAAACTTGCAGATCCGC
1065403 TTTAACATCGTTACATCCTCAGTAATCCAAA-TCAAAATCTTTAAAATAATCCATATCGATTAAA
1 TTTAACATCGTTACATCCTCAGTAATCCAAATTCAAAATCTTTAAAAT-ATCCATATCGATT-AA
1065467 AAAACTAATTATTTTAGGCAACTACATGGTGGGATATTAATATCGAAGGAGCAGATGAGCGAGAC
64 AAAACTAATTATTTTAGGCAACTACATGGTGGGATATTAATATCGAAGGAGCAGATGAGCGAGAC
1065532 -ATAAAACTTGCAGATCCGC
129 AATAAAACTTGCAGATCCGC
1065551 T
1 T
1065552 GGTGTAACAG
Statistics
Matches: 147, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
147 16 0.11
148 64 0.44
149 67 0.46
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (148 bp):
TTTAACATCGTTACATCCTCAGTAATCCAAATTCAAAATCTTTAAAATATCCATATCGATTAAAA
AACTAATTATTTTAGGCAACTACATGGTGGGATATTAATATCGAAGGAGCAGATGAGCGAGACAA
TAAAACTTGCAGATCCGC
Found at i:1081370 original size:21 final size:21
Alignment explanation
Indices: 1081276--1081370 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
1081266 GTTTCCAGAT
* *
1081276 TCGCAACGCGAACTTCAACTA
1 TCGCAATGCGAACTTCGACTA
*
1081297 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
1081318 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTCGACTA
*
1081339 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTCGACTA
*
1081360 TCGCATTGCGA
1 TCGCAATGCGA
1081371 TTTACATATT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 67 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAACTTCGACTA
Found at i:1081410 original size:21 final size:21
Alignment explanation
Indices: 1081379--1081608 Score: 194
Period size: 21 Copynumber: 10.6 Consensus size: 21
1081369 GATTTACATA
*
1081379 TTCGCAATGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
* *
1081400 TTCGCGTTGCGATAGTTGAAG
1 TTCGCATTGCGATAGTCGAAG
* *
1081421 TTCGCATTTCGATAGTCAAAG
1 TTCGCATTGCGATAGTCGAAG
1081442 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
1081463 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
* ** *
1081484 TTTGCATTGCGATTTTCCAAATTTG
1 TTCGCATTGCGATAGT-CGAA---G
** * *
1081509 ACTATCGCAACGCGA-ACTTCG-AC
1 --T-TCGCATTGCGATA-GTCGAAG
*
1081532 TATCGCATTGCGATAGTCCAAG
1 T-TCGCATTGCGATAGTCGAAG
* *
1081554 TTCGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCGAAG
* *
1081575 TTCGCGTTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCGAAG
*
1081596 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
1081609 TTTCCAAATT
Statistics
Matches: 174, Mismatches: 25, Indels: 20
0.79 0.11 0.09
Matches are distributed among these distances:
21 154 0.89
22 6 0.03
25 1 0.01
26 1 0.01
27 2 0.01
28 10 0.06
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.30
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:1081615 original size:42 final size:42
Alignment explanation
Indices: 1081534--1081620 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
1081524 ACTTCGACTA
*
1081534 TCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAAT
* **
1081576 TCGCGTTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAAT
1081618 TCG
1 TCG
1081621 TGCGATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (42 bp):
TCGCATTGCGATAGTCCAAGTTCGCGTTGCGATAGTCCAAAT
Found at i:1081738 original size:6 final size:6
Alignment explanation
Indices: 1081727--1081765 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
1081717 GACACGTATT
* * *
1081727 ACCACG ACCACG ACCACG GCCACG GCCACG GCCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1081766 CGAGACGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.26, C:0.51, G:0.23, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1081744 original size:12 final size:12
Alignment explanation
Indices: 1081727--1081765 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1081717 GACACGTATT
*
1081727 ACCACGACCACG
1 ACCACGGCCACG
1081739 ACCACGGCCACG
1 ACCACGGCCACG
*
1081751 GCCACGGCCACG
1 ACCACGGCCACG
1081763 ACC
1 ACC
1081766 CGAGACGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.26, C:0.51, G:0.23, T:0.00
Consensus pattern (12 bp):
ACCACGGCCACG
Found at i:1082264 original size:42 final size:42
Alignment explanation
Indices: 1082199--1082380 Score: 237
Period size: 42 Copynumber: 4.3 Consensus size: 42
1082189 CGTTGCGATT
*
1082199 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
1082241 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
1082283 TTGGACTATCGCAACGAATTTGGAATAAATCGCAA--CGAAT
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* * *
1082323 TTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAACTTGGAATAAATCGCAACGCGAAC
1082367 TTGGACTATCGCAA
1 TTGGACTATCGCAA
1082381 TGCGATAGTC
Statistics
Matches: 123, Mismatches: 11, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
40 10 0.08
42 94 0.76
44 19 0.15
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:1082296 original size:63 final size:63
Alignment explanation
Indices: 1082227--1082380 Score: 231
Period size: 63 Copynumber: 2.4 Consensus size: 63
1082217 TTTGGAATAA
* *
1082227 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
* * *
1082290 ATCGCAA--CGAATTTGGAATAAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACT
1 ATCGCAACGCGAACTTGGACT--ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
1082353 ATCGCAACGCGAACTTGGACTATCGCAA
1 ATCGCAACGCGAACTTGGACTATCGCAA
1082381 TGCGATAGTC
Statistics
Matches: 80, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
61 9 0.11
63 61 0.76
65 10 0.12
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (63 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT
Found at i:1082356 original size:21 final size:21
Alignment explanation
Indices: 1082199--1082385 Score: 156
Period size: 21 Copynumber: 8.9 Consensus size: 21
1082189 CGTTGCGATT
*
1082199 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
*
1082218 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1082241 TTCGACTATCGCAA--CGAAC
1 TTGGACTATCGCAACGCGAAC
*
1082260 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1082283 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAACGCGAAC
* *
1082302 TTGGAATAAATCGCAA--CGAAT
1 TTGGACT--ATCGCAACGCGAAC
*
1082323 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACGCGAAC
*
1082346 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACGCGAAC
*
1082367 TTGGACTATCGCAATGCGA
1 TTGGACTATCGCAACGCGA
1082386 TAGTCGAAGT
Statistics
Matches: 142, Mismatches: 14, Indels: 22
0.80 0.08 0.12
Matches are distributed among these distances:
19 26 0.18
21 87 0.61
23 29 0.20
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (21 bp):
TTGGACTATCGCAACGCGAAC
Found at i:1085950 original size:17 final size:17
Alignment explanation
Indices: 1085928--1085961 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1085918 TAACCCAAAC
1085928 CTAAACTCTAAACTCTA
1 CTAAACTCTAAACTCTA
1085945 CTAAACTCTAAACTCTA
1 CTAAACTCTAAACTCTA
1085962 AACCCTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.29, G:0.00, T:0.29
Consensus pattern (17 bp):
CTAAACTCTAAACTCTA
Found at i:1093526 original size:29 final size:29
Alignment explanation
Indices: 1093491--1093549 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
1093481 ATCTAAAAAC
1093491 ATATTTAAATCACACAACTGACAAAAGTG
1 ATATTTAAATCACACAACTGACAAAAGTG
1093520 ATATTTAAATCACACAACTGACAAAAGTG
1 ATATTTAAATCACACAACTGACAAAAGTG
1093549 A
1 A
1093550 ATTAAGTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.17, G:0.10, T:0.24
Consensus pattern (29 bp):
ATATTTAAATCACACAACTGACAAAAGTG
Found at i:1095505 original size:2 final size:2
Alignment explanation
Indices: 1095500--1095532 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1095490 TTTTATTATT
1095500 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1095533 GTTGAAATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1095622 original size:13 final size:13
Alignment explanation
Indices: 1095604--1095629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1095594 TAATATATGG
1095604 TTTTTGAAAACAT
1 TTTTTGAAAACAT
1095617 TTTTTGAAAACAT
1 TTTTTGAAAACAT
1095630 ATATTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTTTGAAAACAT
Found at i:1095746 original size:37 final size:37
Alignment explanation
Indices: 1095651--1095895 Score: 131
Period size: 36 Copynumber: 7.1 Consensus size: 37
1095641 TTTTTGAATT
* * * *
1095651 TTTTTGAAACCATATATATTATAT-TTTTTAAAACCA
1 TTTTTGAAAACTTATATAATATATAGTTTTAAAACCA
*
1095687 TTTTTGAAAACTTATATAATATATAGTTTTAAAATCA
1 TTTTTGAAAACTTATATAATATATAGTTTTAAAACCA
* ** *
1095724 -TTTT-AAAATTTATATAATATATAGTTAAAAAAAACA
1 TTTTTGAAAACTTATATAATATATAGTT-TTAAAACCA
* *
1095760 -TTTTG-AAAC--ATAT-ATA-GT--TTTTAAAA-CG
1 TTTTTGAAAACTTATATAATATATAGTTTTAAAACCA
* *
1095788 TTTTTGAAAAC---TATAACATATAGTTTTAAAA-CG
1 TTTTTGAAAACTTATATAATATATAGTTTTAAAACCA
* * *
1095821 TTTTT-TAAATTTATATAATATAT-GATTTTGAAAA-TA
1 TTTTTGAAAACTTATATAATATATAG-TTTT-AAAACCA
* *
1095857 TCTTTG-AAA--TATATATATATAAAGTTTTAAAA-CA
1 TTTTTGAAAACTTATATA-ATATATAGTTTTAAAACCA
1095891 TTTTT
1 TTTTT
1095896 ATCATATAGT
Statistics
Matches: 167, Mismatches: 25, Indels: 36
0.73 0.11 0.16
Matches are distributed among these distances:
28 1 0.01
29 12 0.07
30 8 0.05
31 1 0.01
32 4 0.02
33 18 0.11
34 20 0.12
35 43 0.26
36 50 0.30
37 10 0.06
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAACTTATATAATATATAGTTTTAAAACCA
Found at i:1095842 original size:33 final size:35
Alignment explanation
Indices: 1095771--1095895 Score: 107
Period size: 33 Copynumber: 3.6 Consensus size: 35
1095761 TTTGAAACAT
* *
1095771 ATATAGTTTTTAAAACGTTTTTGAAA-ACTATA-AC
1 ATATAGATTTTAAAACATTTTTGAAATA-TATATAC
* * *
1095805 ATATAG-TTTTAAAACGTTTTTTAAATTTATATA-
1 ATATAGATTTTAAAACATTTTTGAAATATATATAC
* * *
1095838 ATATATGATTTTGAAAATATCTTTGAAATATATATAT
1 ATATA-GATTTT-AAAACATTTTTGAAATATATATAC
*
1095875 ATAAAG-TTTTAAAACATTTTT
1 ATATAGATTTTAAAACATTTTT
1095896 ATCATATAGT
Statistics
Matches: 75, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
33 27 0.36
34 17 0.23
35 8 0.11
36 19 0.25
37 4 0.05
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.46
Consensus pattern (35 bp):
ATATAGATTTTAAAACATTTTTGAAATATATATAC
Found at i:1095931 original size:7 final size:6
Alignment explanation
Indices: 1095916--1095961 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
1095906 ATTTTATTCC
*
1095916 TTTTTA TTTATTA -TTTTA TTTTT- TTTTTG TTTTTA TTATTTA TTTT
1 TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TT-TTTA TTTT
1095962 ATCGTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
5 8 0.23
6 18 0.51
7 9 0.26
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:1095939 original size:29 final size:29
Alignment explanation
Indices: 1095907--1095963 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1095897 TCATATAGTA
1095907 TTTTATTCCTTTTTATT-TATTATTTTATT
1 TTTTATTCCTTTTTATTAT-TTATTTTATT
* **
1095936 TTTTTTTTGTTTTTATTATTTATTTTAT
1 TTTTATTCCTTTTTATTATTTATTTTAT
1095964 CGTTTTTTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.79
Consensus pattern (29 bp):
TTTTATTCCTTTTTATTATTTATTTTATT
Found at i:1095969 original size:29 final size:29
Alignment explanation
Indices: 1095916--1095971 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
1095906 ATTTTATTCC
**
1095916 TTTTTATTTATTATTTTATTTTTTTTTTG
1 TTTTTATTTATTATTTTATCGTTTTTTTG
1095945 TTTTTA-TTATTTATTTTATCGTTTTTT
1 TTTTTATTTA-TTATTTTATCGTTTTTT
1095972 GGGTGTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 21 0.88
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (29 bp):
TTTTTATTTATTATTTTATCGTTTTTTTG
Found at i:1098319 original size:48 final size:48
Alignment explanation
Indices: 1098262--1098359 Score: 162
Period size: 48 Copynumber: 2.0 Consensus size: 48
1098252 TAACTTCCGT
*
1098262 GTATCCTTCTCTTCATGTTCCCTCTTTTTAAATTTAG-CTAGGACTTAC
1 GTATCCTTCTCTTCATGTTCCATCTTTTTAAATTTAGTC-AGGACTTAC
*
1098310 GTATCCTTCTCTTCATGTTCCATCTTTTTAAATTTTGTCAGGACTTAC
1 GTATCCTTCTCTTCATGTTCCATCTTTTTAAATTTAGTCAGGACTTAC
1098358 GT
1 GT
1098360 TTCTGTCTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
48 46 0.98
49 1 0.02
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.47
Consensus pattern (48 bp):
GTATCCTTCTCTTCATGTTCCATCTTTTTAAATTTAGTCAGGACTTAC
Found at i:1103407 original size:22 final size:21
Alignment explanation
Indices: 1103350--1103407 Score: 53
Period size: 23 Copynumber: 2.6 Consensus size: 21
1103340 TATTTTATAA
*
1103350 ATATTGTATTTTAATTAAATT
1 ATATTATATTTTAATTAAATT
* *
1103371 ATATTTAGATTTTTAATTAATTT
1 ATA-TTATA-TTTTAATTAAATT
*
1103394 TTATTATATATTTA
1 ATATTATAT-TTTA
1103408 TTACTTTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 4 0.14
22 11 0.38
23 14 0.48
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.60
Consensus pattern (21 bp):
ATATTATATTTTAATTAAATT
Found at i:1109096 original size:28 final size:30
Alignment explanation
Indices: 1109064--1109123 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 30
1109054 ATACTCGTTT
*
1109064 TTCCAG-TTAGTATCTAACGTTT-ATTTCG
1 TTCCAGTTTAGTATCTAACGTTTCATTCCG
* *
1109092 TTCCAGTTTGGTGTCTAACGTTTCATTCCG
1 TTCCAGTTTAGTATCTAACGTTTCATTCCG
1109122 TT
1 TT
1109124 ACTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 6 0.22
29 14 0.52
30 7 0.26
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.47
Consensus pattern (30 bp):
TTCCAGTTTAGTATCTAACGTTTCATTCCG
Found at i:1117258 original size:8 final size:8
Alignment explanation
Indices: 1117245--1117285 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
1117235 CTCATTTTCA
1117245 GAGAATTT
1 GAGAATTT
1117253 GAGAATTT
1 GAGAATTT
*
1117261 -AGAGTTT
1 GAGAATTT
*
1117268 GGGAATTT
1 GAGAATTT
1117276 GAGAATTT
1 GAGAATTT
1117284 GA
1 GA
1117286 AAGATTGTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (8 bp):
GAGAATTT
Found at i:1117704 original size:125 final size:126
Alignment explanation
Indices: 1117353--1117830 Score: 922
Period size: 126 Copynumber: 3.8 Consensus size: 126
1117343 CTATAATCGG
*
1117353 TTCACTATTCACATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
1117418 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATTAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1117479 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1117544 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1117605 TTCACTATTCACATGAAGGCGCGTTCCC-GGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1117669 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1117730 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1117795 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGA
1117831 ATAACTTAAA
Statistics
Matches: 348, Mismatches: 3, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
125 125 0.36
126 223 0.64
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (126 bp):
TTCACTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:1117797 original size:251 final size:252
Alignment explanation
Indices: 1117353--1117830 Score: 922
Period size: 251 Copynumber: 1.9 Consensus size: 252
1117343 CTATAATCGG
*
1117353 TTCACTATTCACATGAAGGCGCGTTCCTGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCTCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
* *
1117418 TCATTGCCCTATTATGTCATTCATGTCCCTCGGGGACACTAGATATATTAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
1117483 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
1117548 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
1117605 TTCACTATTCACATGAAGGCGCGTTCC-CGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1 TTCACTATTCACATGAAGGCGCGTTCCTCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
1117669 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
66 TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
1117734 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
131 CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
1117799 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
196 TGCCCTATTATGTCACTCATGTCCCTCGGGGA
1117831 ATAACTTAAA
Statistics
Matches: 223, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
251 196 0.88
252 27 0.12
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.32
Consensus pattern (252 bp):
TTCACTATTCACATGAAGGCGCGTTCCTCGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTA
TCATTGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTATTTCA
CTATTCACATGAAGGCGCGTTCCCGGGGGCGCGCCTTCCATTATTTCGTCAGAGAATATTATCAT
TGCCCTATTATGTCACTCATGTCCCTCGGGGACACTAGATATATCAGTACCTATTAT
Found at i:1118279 original size:33 final size:34
Alignment explanation
Indices: 1118218--1118311 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 34
1118208 AAATTTAATG
*
1118218 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
1118252 TTAAATTT-GAAT-A-AT-A-TTAT-TTTT-ATT
1 TTAAATTTCGAATAATATAATTTATATTTTAAAT
*
1118279 TTAAATTTCGAATAATATAATTTGTATTTTAAA
1 TTAAATTTCGAATAATATAATTTATATTTTAAA
1118312 AACATTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
27 10 0.20
28 8 0.16
29 5 0.10
30 3 0.06
31 3 0.06
32 3 0.06
33 8 0.16
34 9 0.18
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTAAATTTCGAATAATATAATTTATATTTTAAAT
Found at i:1118281 original size:27 final size:28
Alignment explanation
Indices: 1118218--1118311 Score: 100
Period size: 28 Copynumber: 3.2 Consensus size: 28
1118208 AAATTTAATG
*
1118218 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATA--AT-A-TTAT-TTTT-ATT
1118252 TTAAATTT-GAATAATATTATTTTTATT
1 TTAAATTTCGAATAATATTATTTTTATT
* *
1118279 TTAAATTTCGAATAATATAATTTGTATT
1 TTAAATTTCGAATAATATTATTTTTATT
1118307 TTAAA
1 TTAAA
1118312 AACATTTATC
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
27 10 0.18
28 26 0.46
29 4 0.07
30 1 0.02
31 2 0.04
33 5 0.09
34 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (28 bp):
TTAAATTTCGAATAATATTATTTTTATT
Found at i:1118918 original size:21 final size:21
Alignment explanation
Indices: 1118830--1118923 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
1118820 TATGGTATAA
*
1118830 AACCCTGCGGGCTAGGCATGT
1 AACCCTGCGGGCTAGGAATGT
*
1118851 AA-CCTGGCGGGCTAGGCATGT
1 AACCCT-GCGGGCTAGGAATGT
1118872 AA-CCTGGCGGGCTAGGAATGT
1 AACCCT-GCGGGCTAGGAATGT
*
1118893 AACCCTGCGGGCTCGGAATGT
1 AACCCTGCGGGCTAGGAATGT
1118914 AACCCTGCGG
1 AACCCTGCGG
1118924 AGATGGCATA
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
20 3 0.04
21 63 0.91
22 3 0.04
ACGTcount: A:0.20, C:0.27, G:0.35, T:0.18
Consensus pattern (21 bp):
AACCCTGCGGGCTAGGAATGT
Found at i:1120739 original size:31 final size:33
Alignment explanation
Indices: 1120697--1120771 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 33
1120687 ATAATTCTAA
* * *
1120697 ATAAATAATAATTATATAAAT-ATTATTTTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
* *
1120729 A-AAAAAATAA-TATTTACATAAATATATTAAT
1 ATAAAAAATAATTATATAAATAAATATATTAAT
1120760 ATAAAAAATAAT
1 ATAAAAAATAAT
1120772 AACTATTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
30 7 0.20
31 18 0.51
32 10 0.29
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAAAATAATTATATAAATAAATATATTAAT
Found at i:1120739 original size:34 final size:31
Alignment explanation
Indices: 1120694--1120782 Score: 97
Period size: 34 Copynumber: 2.7 Consensus size: 31
1120684 TTTATAATTC
*
1120694 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAAAAAATAATAATTATATAAATA-TA--TTAA
* *
1120728 TAAAAAAATAATATTTACATAAATATATTAA
1 TAAAAAAATAATAATTATATAAATATATTAA
* *
1120759 TATAAAAAATAATAACTATTTAAA
1 TA-AAAAAATAATAATTATATAAA
1120783 AAAATACTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
31 6 0.13
32 17 0.36
33 2 0.04
34 22 0.47
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TAAAAAAATAATAATTATATAAATATATTAA
Found at i:1121248 original size:19 final size:19
Alignment explanation
Indices: 1121224--1121261 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
1121214 CATCACATAG
1121224 TATGAAAGGAACAAATCCC
1 TATGAAAGGAACAAATCCC
1121243 TATGAAAGGAACAAATCCC
1 TATGAAAGGAACAAATCCC
1121262 AAATTTTAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.21, G:0.16, T:0.16
Consensus pattern (19 bp):
TATGAAAGGAACAAATCCC
Found at i:1125214 original size:40 final size:39
Alignment explanation
Indices: 1125170--1125387 Score: 249
Period size: 40 Copynumber: 5.4 Consensus size: 39
1125160 CGCGAACATA
* * *
1125170 TAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCG
1 TAAATCGCAACGCGATACGT-A-AATCGCAACGCGTATCCG
*
1125210 TAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-CGATACGT-AAATCGCAACGCGTATCCG
* * *
1125251 TAAATCGCAACGAGAATACGTAAATCGCAACTCGTATCTG
1 TAAATCGCAACGCG-ATACGTAAATCGCAACGCGTATCCG
* * *
1125291 TAAATCGCAACGAGAATACGTAAATCACAATGCGTATCCG
1 TAAATCGCAACGCG-ATACGTAAATCGCAACGCGTATCCG
**
1125331 TAAATCGCAACGATAATACGTAAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-CGATACGT-AAATCGCAACGCGTATCCG
1125372 TAAATCGCAACGCGAT
1 TAAATCGCAACGCGAT
1125388 TTTTAAAGCG
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
40 85 0.55
41 67 0.44
42 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (39 bp):
TAAATCGCAACGCGATACGTAAATCGCAACGCGTATCCG
Found at i:1125216 original size:20 final size:20
Alignment explanation
Indices: 1125193--1125383 Score: 204
Period size: 20 Copynumber: 9.4 Consensus size: 20
1125183 GATTCTGACT
1125193 ATCGCAACGAGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
** *
1125213 ATCGCAACGACAATACGTAAA
1 ATCGCAACGAGTATCCGT-AA
*
1125234 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
* *
1125254 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
** *
1125274 ATCGCAACTCGTATCTGTAA
1 ATCGCAACGAGTATCCGTAA
* *
1125294 ATCGCAACGAGAATACGTAA
1 ATCGCAACGAGTATCCGTAA
* * *
1125314 ATCACAATGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
*
1125334 ATCGCAACGA-TAATACGTAAA
1 ATCGCAACGAGT-ATCCGT-AA
*
1125355 ATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGTATCCGTAA
1125375 ATCGCAACG
1 ATCGCAACG
1125384 CGATTTTTAA
Statistics
Matches: 136, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
19 1 0.01
20 102 0.75
21 32 0.24
22 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
ATCGCAACGAGTATCCGTAA
Found at i:1126005 original size:21 final size:21
Alignment explanation
Indices: 1125944--1126022 Score: 94
Period size: 20 Copynumber: 3.9 Consensus size: 21
1125934 TTCTAAACTT
1125944 AAAATCGCAAC-ATGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
1125964 AAAATCGCAAC-ACGA-AAATG
1 AAAATCGCAACGA-GAGAAATG
**
1125984 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
1126005 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
1126023 TCGCAACGCG
Statistics
Matches: 52, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
20 30 0.58
21 22 0.42
ACGTcount: A:0.52, C:0.18, G:0.19, T:0.11
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:1126045 original size:19 final size:19
Alignment explanation
Indices: 1125944--1126065 Score: 92
Period size: 20 Copynumber: 6.5 Consensus size: 19
1125934 TTCTAAACTT
**
1125944 AAAATCGCAACATGAAAATG
1 AAAATCGCAACGCG-AAATG
*
1125964 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** *
1125984 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAAC--GCGAAATG
1126005 AAAATCGCAA--CG--A-G
1 AAAATCGCAACGCGAAATG
*
1126019 AGAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
**
1126038 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATG
1126057 AAAATCGCA
1 AAAATCGCA
1126066 TTGCGATTTT
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.02
17 1 0.01
18 1 0.01
19 26 0.31
20 28 0.34
21 13 0.16
22 1 0.01
ACGTcount: A:0.49, C:0.21, G:0.19, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:1126152 original size:20 final size:20
Alignment explanation
Indices: 1126090--1126145 Score: 87
Period size: 20 Copynumber: 2.8 Consensus size: 20
1126080 TCGCGTTGCG
1126090 ATTCTCTCGTTGCGATAGTC
1 ATTCTCTCGTTGCGATAGTC
*
1126110 ATT-TCCGCGTTGCGATAGTC
1 ATTCT-CTCGTTGCGATAGTC
1126130 ATTCTCTCGTTGCGAT
1 ATTCTCTCGTTGCGAT
1126146 TTTCATTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATAGTC
Found at i:1129473 original size:14 final size:14
Alignment explanation
Indices: 1129454--1129489 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1129444 ATTGTTTAAT
1129454 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1129468 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1129482 TGATTTGT
1 TGATTTGT
1129490 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1129633 original size:33 final size:33
Alignment explanation
Indices: 1129596--1129675 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
1129586 AAAAATGACT
* * *
1129596 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1129629 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1129662 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
1129676 CTAAATTCGC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.46, C:0.20, G:0.21, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1129652 original size:19 final size:19
Alignment explanation
Indices: 1129596--1129654 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
1129586 AAAAATGACT
1129596 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1129615 ATCGCAAT--G--A-GAGA
1 ATCGCAATGCGAAATGAAA
1129629 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1129648 ATCGCAA
1 ATCGCAA
1129655 CGACAAAATC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 11 0.33
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 18 0.55
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1129729 original size:33 final size:33
Alignment explanation
Indices: 1129685--1129851 Score: 165
Period size: 33 Copynumber: 4.8 Consensus size: 33
1129675 ACTAAATTCG
* *
1129685 CGTTGCAATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1129718 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC----CCT
* * ***
1129757 CGTTGCGATTTT-AGTTTCTCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCCCT
*
1129790 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
1129823 CGTTGCGATTTTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
1129852 AGACATTAAG
Statistics
Matches: 111, Mismatches: 14, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
33 70 0.63
34 11 0.10
35 2 0.02
37 1 0.01
38 1 0.01
39 26 0.23
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:1129744 original size:19 final size:19
Alignment explanation
Indices: 1129681--1129851 Score: 104
Period size: 19 Copynumber: 9.7 Consensus size: 19
1129671 CGAAACTAAA
*
1129681 TTCGCGTTGCAATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1129700 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1129715 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
1129733 TTCGCATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
1129752 TTCCGCGTTGCGATTTT-AGT
1 TT-CGCGTTGCGATTTTCA-T
*
1129772 TTCTCGTTGCGA-TTT--T
1 TTCGCGTTGCGATTTTCAT
*
1129788 GT--CGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1129805 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1129820 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
1129838 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1129852 AGACATTAAG
Statistics
Matches: 114, Mismatches: 20, Indels: 35
0.67 0.12 0.21
Matches are distributed among these distances:
14 25 0.22
15 3 0.03
16 8 0.07
17 8 0.07
18 3 0.03
19 43 0.38
20 24 0.21
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.45
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1129794 original size:14 final size:14
Alignment explanation
Indices: 1129775--1129801 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1129765 TTTTAGTTTC
1129775 TCGTTGCGATTTTG
1 TCGTTGCGATTTTG
1129789 TCGTTGCGATTTT
1 TCGTTGCGATTTT
1129802 CATTTCGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.07, C:0.15, G:0.26, T:0.52
Consensus pattern (14 bp):
TCGTTGCGATTTTG
Found at i:1129897 original size:20 final size:20
Alignment explanation
Indices: 1129824--1129897 Score: 53
Period size: 20 Copynumber: 3.6 Consensus size: 20
1129814 CGATTCTCTC
** *
1129824 GTTGCGATTTTCATTTCCGC
1 GTTGCGATAGTCATTTCCGT
* **
1129844 GTTGCGATAGACA-TTAAGAT
1 GTTGCGATAGTCATTTCCG-T
1129864 GATTGCGA-ACGTCATTTCCGT
1 G-TTGCGATA-GTCATTTCCGT
1129885 GTTGCGATAGTCA
1 GTTGCGATAGTCA
1129898 AATGAATGCC
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.55
21 12 0.30
22 3 0.08
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (20 bp):
GTTGCGATAGTCATTTCCGT
Found at i:1132392 original size:24 final size:24
Alignment explanation
Indices: 1132358--1132411 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1132348 CTGAAAAATC
1132358 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1132382 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1132406 ATCAAA
1 ATCAAA
1132412 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1132425 original size:24 final size:24
Alignment explanation
Indices: 1132358--1132425 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1132348 CTGAAAAATC
* * *
1132358 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
1132382 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
1132406 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
1132426 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:1133296 original size:20 final size:20
Alignment explanation
Indices: 1133273--1133399 Score: 191
Period size: 20 Copynumber: 6.3 Consensus size: 20
1133263 CAGAATCTCG
1133273 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1133293 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1133313 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
1133333 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACGTATTCGCA
* ** **
1133353 TTGCGATTTTTCAAATTCGTG
1 TTGCGA-TTTACGTATTCGCA
1133374 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
1133394 TTGCGA
1 TTGCGA
1133400 ATTAGAAAAA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
20 80 0.85
21 14 0.15
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:1133298 original size:40 final size:39
Alignment explanation
Indices: 1133252--1133361 Score: 118
Period size: 40 Copynumber: 2.7 Consensus size: 39
1133242 GAAATTCAGT
1133252 ATTGCGATAGTCA-GAATCTCG-TTGCGATTTACGTATTCGC
1 ATTGCGAT--TCACGAAT-TCGATTGCGATTTACGTATTCGC
* *
1133292 ATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGC
1 ATTGCGATTCACGAATTCG-ATTGCGATTTACGTATTCGC
*
1133332 ATTGCGATTTACGTAA-TCGCATTGCGATTT
1 ATTGCGATTCACG-AATTCG-ATTGCGATTT
1133362 TTCAAATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
38 5 0.08
39 3 0.05
40 54 0.86
41 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.38
Consensus pattern (39 bp):
ATTGCGATTCACGAATTCGATTGCGATTTACGTATTCGC
Found at i:1133396 original size:61 final size:60
Alignment explanation
Indices: 1133273--1133399 Score: 191
Period size: 61 Copynumber: 2.1 Consensus size: 60
1133263 CAGAATCTCG
* **
1133273 TTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCATTGCGATTTACAAATTCGCATTGCGATTTACGTATTCGCA
* **
1133333 TTGCGATTTACGTAATCGCATTGCGATTTTTCAAATTCGTGTTGCGATTTACGTATTCGCA
1 TTGCGATTTACGTAATCGCATTGCGA-TTTACAAATTCGCATTGCGATTTACGTATTCGCA
1133394 TTGCGA
1 TTGCGA
1133400 ATTAGAAAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
60 25 0.42
61 35 0.58
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (60 bp):
TTGCGATTTACGTAATCGCATTGCGATTTACAAATTCGCATTGCGATTTACGTATTCGCA
Found at i:1133420 original size:21 final size:21
Alignment explanation
Indices: 1133396--1133441 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1133386 TATTCGCATT
1133396 GCGAATTAGAAAAATCGCAAC
1 GCGAATTAGAAAAATCGCAAC
* ** *
1133417 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGAAAAATCGCAAC
1133438 GCGA
1 GCGA
1133442 TAGTCAGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGAAAAATCGCAAC
Found at i:1135802 original size:35 final size:35
Alignment explanation
Indices: 1135729--1135804 Score: 109
Period size: 35 Copynumber: 2.2 Consensus size: 35
1135719 TAAAGCAAAG
*
1135729 TGCATCAGCTTGATTGTAACCCTAAAAGAGAATAA
1 TGCATCAGCTTGATTGTAACCCTAAAAGAGAAAAA
* *
1135764 TGCATCAGCTTGATTGTAA-CCTTAAAGATAAAACA
1 TGCATCAGCTTGATTGTAACCCTAAAAGAGAAAA-A
1135799 TGCATC
1 TGCATC
1135805 CTAAGAATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
34 11 0.30
35 26 0.70
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (35 bp):
TGCATCAGCTTGATTGTAACCCTAAAAGAGAAAAA
Found at i:1138296 original size:21 final size:21
Alignment explanation
Indices: 1138267--1138319 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
1138257 ATTCTGACTA
1138267 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
1138288 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
1138309 TCGCAATGCGA
1 TCGCATTGCGA
1138320 ATACGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:1138341 original size:20 final size:20
Alignment explanation
Indices: 1138309--1138382 Score: 87
Period size: 20 Copynumber: 3.6 Consensus size: 20
1138299 TTTTCCTAAT
1138309 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * *
1138329 TCGTAACGCGAATTTA-GAAAA
1 TCGCAATGCGAA--TACGTAAA
*
1138350 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
1138370 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1138383 CTGACTATCA
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.05
20 26 0.60
21 13 0.30
22 2 0.05
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.23
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1139283 original size:24 final size:24
Alignment explanation
Indices: 1139256--1139309 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1139246 GTATTCGAAA
1139256 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1139280 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1139304 TTTGAT
1 TTTGAT
1139310 GATTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1141743 original size:20 final size:20
Alignment explanation
Indices: 1141718--1141809 Score: 132
Period size: 20 Copynumber: 4.6 Consensus size: 20
1141708 GACATTCATT
1141718 TGACTATCGCAACGC-GAATA
1 TGACTATCGCAACGCGGAA-A
* *
1141738 TGACTATCGCAACACAGAAA
1 TGACTATCGCAACGCGGAAA
*
1141758 TGACTATCGCAACGCGGAAT
1 TGACTATCGCAACGCGGAAA
*
1141778 TTACTATCGCAACGCGGAAA
1 TGACTATCGCAACGCGGAAA
1141798 TGACTATCGCAA
1 TGACTATCGCAA
1141810 AGAGAGAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
20 61 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
TGACTATCGCAACGCGGAAA
Found at i:1141934 original size:14 final size:14
Alignment explanation
Indices: 1141915--1141968 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
1141905 CATTTTTGCT
1141915 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
1141929 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
1141946 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
1141962 TTGCGAT
1 TTGCGAT
1141969 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:1141957 original size:33 final size:33
Alignment explanation
Indices: 1141894--1141977 Score: 123
Period size: 33 Copynumber: 2.5 Consensus size: 33
1141884 TTAGTTTCGG
* *
1141894 GTTGCGATTTTCATTTTTGCTTTGCGATTCTCTC
1 GTTGCGATTTTCA-TTTCGCATTGCGATTCTCTC
1141928 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
**
1141961 GTTGCGATAGTCATTTC
1 GTTGCGATTTTCATTTC
1141978 CGCGTTACGA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.72
34 13 0.28
ACGTcount: A:0.12, C:0.21, G:0.19, T:0.48
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:1142114 original size:14 final size:14
Alignment explanation
Indices: 1142095--1142131 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1142085 CATCAATTAA
1142095 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1142109 ACAAATCATCTTTT
1 ACAAATCAACATTT
1142123 ACAAATCAA
1 ACAAATCAA
1142132 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1143563 original size:42 final size:42
Alignment explanation
Indices: 1143484--1143576 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
1143474 CCTCTTCAAC
* * *
1143484 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
* * **
1143526 GATGATAGGGGCCTCTTGAACGATAGGG-GAGGCCTCTTGAAC
1 GATGACAGGGGCCTCTTGAACGAT-GGGAGAGGACTCTTGAGG
1143568 GATGACAGG
1 GATGACAGG
1143577 TGAGTCGGGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
42 39 0.93
43 3 0.07
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGATGGGAGAGGACTCTTGAGG
Found at i:1144102 original size:20 final size:20
Alignment explanation
Indices: 1144055--1144121 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
1144045 GAAACTTAAA
* **
1144055 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAATTTGACT
1144075 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAATTTGACT
* *
1144095 ATCGCAATGTGAATTTAACT
1 ATCGCAATGCGAATTTGACT
1144115 ATCGCAA
1 ATCGCAA
1144122 CGAGAGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGAATTTGACT
Found at i:1144193 original size:20 final size:20
Alignment explanation
Indices: 1144168--1144251 Score: 132
Period size: 20 Copynumber: 4.2 Consensus size: 20
1144158 GATTCTTTCG
* **
1144168 TTGCGATAATCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
1144188 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
1144208 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1144228 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
1144248 TTGC
1 TTGC
1144252 AATTTTGTTG
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1144226 original size:40 final size:39
Alignment explanation
Indices: 1144130--1144324 Score: 138
Period size: 34 Copynumber: 5.4 Consensus size: 39
1144120 AACGAGAGAA
* **
1144130 TCGCAATGCGATTTTCATTTCGCATTGCGAT--TC--TT
1 TCGCATTGCGATAATCATTTCGCATTGCGATAGTCATTT
*
1144165 TCG--TTGCGATAATCAAATTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAATC-ATTTCGCATTGCGATAGTCATTT
*
1144203 TCGCATTGCGATAGTCATTTTCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAATCA-TTTCGCATTGCGATAGTCATTT
* ** **
1144243 TCGCGTTGC---AAT--TTT-GTTGTTGCGATTTTCA-TT
1 TCGCATTGCGATAATCATTTCG-CATTGCGATAGTCATTT
*
1144276 TCGCATTGCGAT--TC-TCTCG--TTGCGATAGTCATTT
1 TCGCATTGCGATAATCATTTCGCATTGCGATAGTCATTT
1144310 TCGCATTGCGATAAT
1 TCGCATTGCGATAAT
1144325 AAACTATTCT
Statistics
Matches: 127, Mismatches: 16, Indels: 33
0.72 0.09 0.19
Matches are distributed among these distances:
33 29 0.23
34 42 0.33
35 5 0.04
36 4 0.03
37 2 0.02
38 5 0.04
39 1 0.01
40 39 0.31
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (39 bp):
TCGCATTGCGATAATCATTTCGCATTGCGATAGTCATTT
Found at i:1146196 original size:20 final size:20
Alignment explanation
Indices: 1146138--1146207 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
1146128 GAAACTTTAA
* **
1146138 ATCGCAACACGAAAATGAAA
1 ATCGCAACGCGAAAATGACT
*
1146158 ATCGCAACACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
1146178 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
1146198 ATCGCAACGC
1 ATCGCAACGC
1146208 AAGAATCGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:1146611 original size:22 final size:22
Alignment explanation
Indices: 1146583--1146633 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1146573 ATAATTTCGC
*
1146583 CGGAGATGGAGATTGATATCGT
1 CGGAGATGGAGACTGATATCGT
* *
1146605 CGGAGATGGGGACTGATTTCGT
1 CGGAGATGGAGACTGATATCGT
1146627 CGGAGAT
1 CGGAGAT
1146634 AGGGACGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.24, C:0.12, G:0.39, T:0.25
Consensus pattern (22 bp):
CGGAGATGGAGACTGATATCGT
Found at i:1146638 original size:22 final size:21
Alignment explanation
Indices: 1146576--1146639 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
1146566 ACCGTGAATA
* *
1146576 ATTTCGCCGGAGATGGAGATTG
1 ATTTCGTCGGAGATGG-GACTG
*
1146598 ATATCGTCGGAGATGGGGACTG
1 ATTTCGTCGGAGAT-GGGACTG
1146620 ATTTCGTCGGAGATAGGGAC
1 ATTTCGTCGGAGAT-GGGAC
1146640 GGATGTCGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 34 0.94
23 2 0.06
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.25
Consensus pattern (21 bp):
ATTTCGTCGGAGATGGGACTG
Found at i:1146843 original size:20 final size:20
Alignment explanation
Indices: 1146818--1146950 Score: 149
Period size: 20 Copynumber: 6.5 Consensus size: 20
1146808 GCTATGTAAA
1146818 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
1146838 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* **
1146858 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
* *
1146879 TCGCGTTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAT
* * **
1146899 TCGCATTACGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
**
1146920 TCGTGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
1146940 TCGCATTGCGA
1 TCGCATTGCGA
1146951 ATTAGGAAAA
Statistics
Matches: 89, Mismatches: 22, Indels: 4
0.77 0.19 0.03
Matches are distributed among these distances:
20 60 0.67
21 29 0.33
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:1146891 original size:41 final size:41
Alignment explanation
Indices: 1146818--1146950 Score: 196
Period size: 41 Copynumber: 3.3 Consensus size: 41
1146808 GCTATGTAAA
* ** *
1146818 TCGCATTGCGA-TTTACGTATTCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAT
*
1146858 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAA
1 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAT
* *
1146899 TCGCATTACGATTTTCCAAATTCGTGTTGCGATTTACGTAT
1 TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAT
1146940 TCGCATTGCGA
1 TCGCATTGCGA
1146951 ATTAGGAAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 11 0.13
41 72 0.87
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTAT
Found at i:1146942 original size:61 final size:61
Alignment explanation
Indices: 1146818--1146950 Score: 151
Period size: 61 Copynumber: 2.2 Consensus size: 61
1146808 GCTATGTAAA
* * ** *
1146818 TCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTACGTAATCGCATTACGATTTACAAATTCGCATTGCGATTTTACAAAT
* * ** **
1146879 TCGCGTTGCGATTTACGTAATCGCATTACGATTTTCCAAATTCGTGTTGCGA-TTTACGTAT
1 TCGCATTGCGATTTACGTAATCGCATTACGA-TTTACAAATTCGCATTGCGATTTTACAAAT
1146940 TCGCATTGCGA
1 TCGCATTGCGA
1146951 ATTAGGAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 44 0.75
62 15 0.25
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (61 bp):
TCGCATTGCGATTTACGTAATCGCATTACGATTTACAAATTCGCATTGCGATTTTACAAAT
Found at i:1146971 original size:21 final size:21
Alignment explanation
Indices: 1146947--1146992 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
1146937 TATTCGCATT
*
1146947 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCACAAC
* *
1146968 GCGAATTTGGAAAATCACAAT
1 GCGAATTAGGAAAATCACAAC
1146989 GCGA
1 GCGA
1146993 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCACAAC
Found at i:1147389 original size:23 final size:22
Alignment explanation
Indices: 1147358--1147408 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
1147348 ATTATATAAA
* *
1147358 TATAAAATATTAAAAATATTATT
1 TATATAATATTAAAAA-ATAATT
1147381 TATATAATATTAAAAAATAATT
1 TATATAATATTAAAAAATAATT
1147403 TA-ATAA
1 TATATAA
1147409 ATTTTAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 4 0.15
22 7 0.27
23 15 0.58
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TATATAATATTAAAAAATAATT
Found at i:1147415 original size:22 final size:22
Alignment explanation
Indices: 1147362--1147415 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
1147352 TATAAATATA
*
1147362 AAATATTAAAAATATTATTTAT
1 AAATATTAAAAATATAATTTAT
1147384 ATAATATTAAAAA-ATAATTTAAT
1 A-AATATTAAAAATATAATTT-AT
*
1147407 AAATTTTAA
1 AAATATTAA
1147416 TTGAATTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 14 0.50
23 14 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATATTAAAAATATAATTTAT
Found at i:1147808 original size:3 final size:3
Alignment explanation
Indices: 1147800--1147835 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
1147790 CGGTATGTTT
1147800 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TCTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T-TC TT
1147836 TGCATCTTGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:1157496 original size:336 final size:337
Alignment explanation
Indices: 1156882--1157556 Score: 1325
Period size: 336 Copynumber: 2.0 Consensus size: 337
1156872 ACTAAACTAT
1156882 GTTAATCTTTTAGCCGAATGAATCCTTCCCACAATTGGGATTTGATCGGCGACCCCTTCGTTCAT
1 GTTAATCTTTTAGCCGAATGAATCCTTCCCACAATTGGGATTTGATCGGCGACCCCTTCGTTCAT
1156947 CCAGAATTTTGCCTTGGTGGAGGCTGCAAATTTGAAACTTGAAGAGTTTTTTTAGGGGGAAAATA
66 CCAGAATTTTGCCTTGGTGGAGGCTGCAAATTTGAAACTTGAAGAGTTTTTTTAGGGGGAAAATA
1157012 CATTAACGTACCATATCAGCTCTCTTAACGGCAATTAATGACAGTGACCATAATGAAAATGAATT
131 CATTAACGTACCATATCAGCTCTCTTAACGGCAATTAATGACAGTGACCATAATGAAAATGAATT
1157077 ACAAGTTTTAAAAGTTTAGTGATAAGAAAATGAATGTGCCTTAAAAGTTCAATGTCTAGTAGTGT
196 ACAAGTTTTAAAAGTTTAGTGATAAGAAAATGAATGTGCCTTAAAAGTTCAATGTCTAGTAGTGT
*
1157142 AGTTTACCCTTAATGTTATTATTAACAAGTTATATGATACCAATTCGATCTAAGAAAATCATGTA
261 AGTTTACCCTTAATGTTATTATTAACAAGTTATATGATACCAATTCGATCTAAGAAAATCATATA
1157207 GAATTGTCAGAC
326 GAATTGTCAGAC
1157219 GTTAATCTTTTAGCCGAATGAATCCTTCCCACAATTGGGA-TTGATCGGCGACCCCTTCGTTCAT
1 GTTAATCTTTTAGCCGAATGAATCCTTCCCACAATTGGGATTTGATCGGCGACCCCTTCGTTCAT
1157283 CCAGAATTTTGCCTTGGTGGAGGCTGCAAATTTGAAACTTGAAGAGTTTTTTTAGGGGGAAAATA
66 CCAGAATTTTGCCTTGGTGGAGGCTGCAAATTTGAAACTTGAAGAGTTTTTTTAGGGGGAAAATA
*
1157348 CATTAACGTACCATATCAGCTCTCTTAACGGCAGTTAATGACAGTGACCATAATGAAAATGAATT
131 CATTAACGTACCATATCAGCTCTCTTAACGGCAATTAATGACAGTGACCATAATGAAAATGAATT
1157413 ACAAGTTTTAAAAGTTTAGTGATAAGAAAATGAATGTGCCTTAAAAGTTCAATGTCTAGTAGTGT
196 ACAAGTTTTAAAAGTTTAGTGATAAGAAAATGAATGTGCCTTAAAAGTTCAATGTCTAGTAGTGT
1157478 AGTTTACCCTTAATGTTATTATTAACAAGTTATATGATACCAATTCGATCTAAGAAAATCATATA
261 AGTTTACCCTTAATGTTATTATTAACAAGTTATATGATACCAATTCGATCTAAGAAAATCATATA
1157543 GAATTGTCAGAC
326 GAATTGTCAGAC
1157555 GT
1 GT
1157557 GCATTGAATG
Statistics
Matches: 336, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
336 296 0.88
337 40 0.12
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (337 bp):
GTTAATCTTTTAGCCGAATGAATCCTTCCCACAATTGGGATTTGATCGGCGACCCCTTCGTTCAT
CCAGAATTTTGCCTTGGTGGAGGCTGCAAATTTGAAACTTGAAGAGTTTTTTTAGGGGGAAAATA
CATTAACGTACCATATCAGCTCTCTTAACGGCAATTAATGACAGTGACCATAATGAAAATGAATT
ACAAGTTTTAAAAGTTTAGTGATAAGAAAATGAATGTGCCTTAAAAGTTCAATGTCTAGTAGTGT
AGTTTACCCTTAATGTTATTATTAACAAGTTATATGATACCAATTCGATCTAAGAAAATCATATA
GAATTGTCAGAC
Found at i:1160852 original size:3 final size:3
Alignment explanation
Indices: 1160844--1160992 Score: 226
Period size: 3 Copynumber: 49.7 Consensus size: 3
1160834 AATATATATT
* *
1160844 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1160892 TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
1160940 TAA TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA TAA GGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1160988 TAA TA
1 TAA TA
1160993 TGGATAAAAA
Statistics
Matches: 130, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 130 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1161447 original size:113 final size:111
Alignment explanation
Indices: 1161246--1161986 Score: 1060
Period size: 113 Copynumber: 6.6 Consensus size: 111
1161236 TCTTGATGAG
* * * *
1161246 TTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAATTTTACCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-CTCAACTG
* * * * * * *
1161311 GCAATGTTGATCCATCAAATGATGAATTCAAGCAAAAGGTTGAACAAA
65 GAAAAGATGATCCA-CCAATGATGGATTCAGGTAAAAGGTTGAACAAA
*
1161359 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTC-TCT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-C-TCAACT
* * *
1161423 GGCAAAA-ATAATCCATCAAGTGATGAATTCAGGTAAAAGGTTGAACAAA
64 GG-AAAAGATGATCCACCAA-TGATGGATTCAGGTAAAAGGTTGAACAAA
* ***
1161472 TTCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TCAACTG
1161537 GAAAAGATGATCCACCAAATGATGGATTCAGGTAAAAGGTTGAACAAA
65 GAAAAGATGATCCACC-AATGATGGATTCAGGTAAAAGGTTGAACAAA
*
1161585 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-AACTG
*
1161650 GAAAAGATGATCCACCTAATGATGGATTTAGGTAAAAGGTTGAACAAA
65 GAAAAGATGATCCACC-AATGATGGATTCAGGTAAAAGGTTGAACAAA
*
1161698 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTACGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-AACTG
1161763 GAAAAGATGATCCACCTAATGATGGATTCAGGTAAAAGGTTGAACAAA
65 GAAAAGATGATCCACC-AATGATGGATTCAGGTAAAAGGTTGAACAAA
*
1161811 TTCTTCTCATTACGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACTG
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-AACTG
* *
1161876 GAAAA-ACTGATCCACCAGATGATGGATT-TGAGCAAAAGGTTGAACAAA
65 GAAAAGA-TGATCCACCA-ATGATGGATTCAG-GTAAAAGGTTGAACAAA
*
1161924 TTCTTCTCATTATGAA-TTTTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCGAACT
1 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTC-AACT
1161987 AGTACTGTTG
Statistics
Matches: 586, Mismatches: 32, Indels: 21
0.92 0.05 0.03
Matches are distributed among these distances:
112 59 0.10
113 522 0.89
114 5 0.01
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (111 bp):
TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCAACTGG
AAAAGATGATCCACCAATGATGGATTCAGGTAAAAGGTTGAACAAA
Found at i:1162944 original size:81 final size:81
Alignment explanation
Indices: 1162747--1163433 Score: 1241
Period size: 81 Copynumber: 8.5 Consensus size: 81
1162737 CCTACTGAAT
* * * *
1162747 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACACATTCATCTTCCAAATTCAA
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TG-GACATTCATCTTCTAAACTCAC
* *
1162812 TGATCG-TTCTGTCCAAC
64 TGATTGATTCTGTTCAAC
*
1162829 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACATTCATCTTCTAAACTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
*
1162894 CTTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
*
1162910 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGTTATGGACATTCATCTTCTAAACTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1162975 ATTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
*
1162991 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAATTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1163056 ATTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
1163072 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1163137 ATTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
1163153 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1163218 ATTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
*
1163234 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAATTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1163299 ATTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
*
1163315 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAATTCACTG
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
1163380 ATTGATTCTGTTCAAC
66 ATTGATTCTGTTCAAC
1163396 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1 CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCT
1163434 TGGTTCTGTC
Statistics
Matches: 589, Mismatches: 15, Indels: 3
0.97 0.02 0.00
Matches are distributed among these distances:
80 22 0.04
81 528 0.90
82 39 0.07
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.28
Consensus pattern (81 bp):
CAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGGACATTCATCTTCTAAACTCACTG
ATTGATTCTGTTCAAC
Found at i:1164451 original size:1 final size:1
Alignment explanation
Indices: 1164447--1164495 Score: 62
Period size: 1 Copynumber: 49.0 Consensus size: 1
1164437 TTTTTCCCTC
* * * *
1164447 TTTTTTTTTCTTTTTTTTCTTTTTTTTTCTTTTTTTTTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1164496 CTTCAAGCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (1 bp):
T
Found at i:1164456 original size:21 final size:19
Alignment explanation
Indices: 1164431--1164498 Score: 91
Period size: 21 Copynumber: 3.4 Consensus size: 19
1164421 CTTGACCCCC
*
1164431 TTTTCTTTTTTCCCTCTTTTT
1 TTTTCTTTTTT--TTCTTTTT
1164452 TTTTCTTTTTTTTCTTTTT
1 TTTTCTTTTTTTTCTTTTT
1164471 TTTTCTTTTTTTTTTCTTTTT
1 TTTTC--TTTTTTTTCTTTTT
1164492 TTTTCTT
1 TTTTCTT
1164499 CAAGCATAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 14 0.32
21 30 0.68
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTCTTTTTTTTCTTTTT
Found at i:1164460 original size:19 final size:19
Alignment explanation
Indices: 1164438--1164479 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1164428 CCCTTTTCTT
1164438 TTTTCCCTCTTTTTTTTTC
1 TTTTCCCTCTTTTTTTTTC
***
1164457 TTTTTTTTCTTTTTTTTTC
1 TTTTCCCTCTTTTTTTTTC
1164476 TTTT
1 TTTT
1164480 TTTTTTCTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTCCCTCTTTTTTTTTC
Found at i:1164461 original size:11 final size:10
Alignment explanation
Indices: 1164431--1164498 Score: 93
Period size: 10 Copynumber: 6.7 Consensus size: 10
1164421 CTTGACCCCC
1164431 TTTTCTTTTT
1 TTTTCTTTTT
**
1164441 TCCCTCTTTTT
1 T-TTTCTTTTT
1164452 TTTTC-TTTT
1 TTTTCTTTTT
1164461 TTTTCTTTTT
1 TTTTCTTTTT
1164471 TTTTCTTTTTT
1 TTTTC-TTTTT
1164482 TTTTCTTTTT
1 TTTTCTTTTT
1164492 TTTTCTT
1 TTTTCTT
1164499 CAAGCATAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
9 9 0.18
10 24 0.47
11 18 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:1175122 original size:13 final size:15
Alignment explanation
Indices: 1175100--1175136 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
1175090 TAGACAGAAA
1175100 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
1175112 AAATAAAATACTTGC
1 AAATAAAATACTTGC
1175127 AAATAAAATA
1 AAATAAAATA
1175137 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:1177345 original size:3 final size:3
Alignment explanation
Indices: 1177337--1177488 Score: 232
Period size: 3 Copynumber: 50.7 Consensus size: 3
1177327 AATATATATT
* *
1177337 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1177385 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * **
1177433 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAT TAA TAA TAA TAA GGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1177481 TAA TAA TA
1 TAA TAA TA
1177489 TGGATAAAAA
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 133 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1179348 original size:20 final size:19
Alignment explanation
Indices: 1179325--1179368 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1179315 ATTTATTAAA
*
1179325 TTTTGGCAATTTATATTATT
1 TTTTAGCAATTTA-ATTATT
*
1179345 TTTTATCAATTTAATTATT
1 TTTTAGCAATTTAATTATT
1179364 TTTTA
1 TTTTA
1179369 TAATATTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.64
Consensus pattern (19 bp):
TTTTAGCAATTTAATTATT
Found at i:1179361 original size:19 final size:20
Alignment explanation
Indices: 1179331--1179369 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
1179321 TAAATTTTGG
1179331 CAATTTATATTATTTTTTAT
1 CAATTTATATTATTTTTTAT
1179351 CAATTTA-ATTATTTTTTAT
1 CAATTTATATTATTTTTTAT
1179370 AATATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
CAATTTATATTATTTTTTAT
Found at i:1180570 original size:32 final size:33
Alignment explanation
Indices: 1180491--1180579 Score: 117
Period size: 32 Copynumber: 2.7 Consensus size: 33
1180481 GAAATATATT
* *
1180491 GGGGCCTCAAAGCCTACCCAAGGGAAGCACCTT
1 GGGGCCTAAAAGCCTACCCAAGGGAAGCACCTC
* * * *
1180524 GGGGCTTGAGAGCCTACCCAAGGGAA-CATCTC
1 GGGGCCTAAAAGCCTACCCAAGGGAAGCACCTC
1180556 GGGGCCTAAAAGCCTACCCAAGGG
1 GGGGCCTAAAAGCCTACCCAAGGG
1180580 TCATGTTAGG
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
32 25 0.52
33 23 0.48
ACGTcount: A:0.27, C:0.30, G:0.30, T:0.12
Consensus pattern (33 bp):
GGGGCCTAAAAGCCTACCCAAGGGAAGCACCTC
Found at i:1182428 original size:15 final size:15
Alignment explanation
Indices: 1182408--1182445 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1182398 TCGATTACAC
1182408 GATAACATATATGAT
1 GATAACATATATGAT
1182423 GATAACATATATGAT
1 GATAACATATATGAT
*
1182438 GACAACAT
1 GATAACAT
1182446 GTACATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.29
Consensus pattern (15 bp):
GATAACATATATGAT
Found at i:1182650 original size:18 final size:20
Alignment explanation
Indices: 1182602--1182660 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1182592 CACTGAATAT
1182602 TTGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
* *
1182622 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGGACCACTGA
1182641 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGGACCACTGA
1182660 T
1 T
1182661 AATCCCTCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 15 0.45
19 2 0.06
20 16 0.48
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (20 bp):
TTGTCCCGAAGGACCACTGA
Found at i:1188930 original size:18 final size:20
Alignment explanation
Indices: 1188882--1188940 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
1188872 CATTGAATAT
1188882 TTGTCCCGAAGAACCACTGA
1 TTGTCCCGAAGAACCACTGA
*
1188902 TTGTTCCGAAGAACCACT-A
1 TTGTCCCGAAGAACCACTGA
*
1188921 -TGTCCCGAAGGACCACTGA
1 TTGTCCCGAAGAACCACTGA
1188940 T
1 T
1188941 AATCCCTCGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.44
19 2 0.06
20 17 0.50
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (20 bp):
TTGTCCCGAAGAACCACTGA
Found at i:1189579 original size:19 final size:19
Alignment explanation
Indices: 1189555--1189605 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
1189545 TTTAAACGAG
1189555 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
1189574 TGCATCGATGCACTCCTTA
1 TGCATCGATGCACTCCTTA
1189593 TGCATCGATGCAC
1 TGCATCGATGCAC
1189606 AATGGCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (19 bp):
TGCATCGATGCACTCCTTA
Found at i:1190986 original size:90 final size:93
Alignment explanation
Indices: 1190858--1191037 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 93
1190848 TAATCCTGAA
* * *
1190858 TATTTAATTTTAATTAATTAAATATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATAAG
1 TATTAAATTCTAATTAATTAAATATATAGATTTAATTAATTTGAAATAATAAAAGCCCTAATAAG
1190923 ATT-AGGGTAACCTGGATATAAAAGGAT
66 ATTAAGGGTAACCTGGATATAAAAGGAT
*
1190950 TATTAAATTCTAATTAATT-AA-ATATAGATTTAATTAATTTGAAATAATAAAAGCCCTAATATG
1 TATTAAATTCTAATTAATTAAATATATAGATTTAATTAATTTGAAATAATAAAAGCCCTAATAAG
* *
1191013 ATTAGAGGGTAACTTGGCTATAAAA
66 ATTA-AGGGTAACCTGGATATAAAA
1191038 TGGTGTGTTA
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
90 43 0.54
91 2 0.03
92 35 0.44
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (93 bp):
TATTAAATTCTAATTAATTAAATATATAGATTTAATTAATTTGAAATAATAAAAGCCCTAATAAG
ATTAAGGGTAACCTGGATATAAAAGGAT
Found at i:1197009 original size:10 final size:10
Alignment explanation
Indices: 1196994--1197064 Score: 65
Period size: 10 Copynumber: 6.7 Consensus size: 10
1196984 ACCTTCCAGG
1196994 CATCCGAGGC
1 CATCCGAGGC
1197004 CATCCGACCGAGGC
1 CAT-C--C-GAGGC
*
1197018 CATCCGAAAG-
1 CATCCG-AGGC
1197028 CATCCGAGGC
1 CATCCGAGGC
1197038 CATCCGAGAG-
1 CATCCGAG-GC
1197048 CATCCGAGGC
1 CATCCGAGGC
1197058 CATCCGA
1 CATCCGA
1197065 CCGAAGCCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
9 3 0.06
10 33 0.65
11 5 0.10
13 2 0.04
14 8 0.16
ACGTcount: A:0.25, C:0.38, G:0.27, T:0.10
Consensus pattern (10 bp):
CATCCGAGGC
Found at i:1197016 original size:14 final size:14
Alignment explanation
Indices: 1196997--1197024 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1196987 TTCCAGGCAT
1196997 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1197011 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1197025 AAGCATCCGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.43, G:0.29, T:0.07
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:1197036 original size:20 final size:20
Alignment explanation
Indices: 1197011--1197064 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
1197001 GGCCATCCGA
1197011 CCGAGGCCATCCGAAAGCAT
1 CCGAGGCCATCCGAAAGCAT
*
1197031 CCGAGGCCATCCGAGAGCAT
1 CCGAGGCCATCCGAAAGCAT
1197051 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
1197065 CCGAAGCCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (20 bp):
CCGAGGCCATCCGAAAGCAT
Found at i:1197079 original size:10 final size:10
Alignment explanation
Indices: 1197011--1197064 Score: 67
Period size: 10 Copynumber: 5.4 Consensus size: 10
1197001 GGCCATCCGA
1197011 CCGAGGCCAT
1 CCGAGGCCAT
*
1197021 CCGAAAG-CAT
1 CCG-AGGCCAT
1197031 CCGAGGCCAT
1 CCGAGGCCAT
1197041 CCGAGAG-CAT
1 CCGAG-GCCAT
1197051 CCGAGGCCAT
1 CCGAGGCCAT
1197061 CCGA
1 CCGA
1197065 CCGAAGCCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
9 3 0.08
10 32 0.84
11 3 0.08
ACGTcount: A:0.26, C:0.37, G:0.28, T:0.09
Consensus pattern (10 bp):
CCGAGGCCAT
Found at i:1197124 original size:23 final size:24
Alignment explanation
Indices: 1197073--1197125 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
1197063 GACCGAAGCC
* * *
1197073 ATCCGAACGAGCTATGCGAGGGCA
1 ATCCGAGCGAACTATGCGAAGGCA
1197097 A-CCGAGCGAACTATGCGAAGG-A
1 ATCCGAGCGAACTATGCGAAGGCA
1197119 ATCCGAG
1 ATCCGAG
1197126 GACAACCGAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 22 0.88
24 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.32, T:0.11
Consensus pattern (24 bp):
ATCCGAGCGAACTATGCGAAGGCA
Found at i:1197278 original size:16 final size:18
Alignment explanation
Indices: 1197240--1197279 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 18
1197230 TTTATGAAAG
*
1197240 AGAGAATAAGAAAGGTAT
1 AGAGAAGAAGAAAGGTAT
1197258 A-AGAAGAA-AAAGGT-T
1 AGAGAAGAAGAAAGGTAT
1197273 AGAGAAG
1 AGAGAAG
1197280 TGAAAAGAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
15 2 0.10
16 11 0.55
17 6 0.30
18 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.30, T:0.12
Consensus pattern (18 bp):
AGAGAAGAAGAAAGGTAT
Found at i:1197606 original size:3 final size:3
Alignment explanation
Indices: 1197598--1197686 Score: 142
Period size: 3 Copynumber: 29.7 Consensus size: 3
1197588 TTTTTATTCA
* * *
1197598 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1197646 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1197687 AAAATATTAA
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 78 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1197726 original size:20 final size:19
Alignment explanation
Indices: 1197703--1197744 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
1197693 TTAAATACAT
* *
1197703 ATAAATATTATTAAAAATAA
1 ATAAATAATAATAAAAA-AA
1197723 ATAAATAATAATAAAAAAA
1 ATAAATAATAATAAAAAAA
1197742 ATA
1 ATA
1197745 TAATTACAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (19 bp):
ATAAATAATAATAAAAAAA
Found at i:1197735 original size:26 final size:28
Alignment explanation
Indices: 1197679--1197737 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
1197669 TTATTACTAT
*
1197679 TATTATTAAAAATATTAAATACATATAAA
1 TATTATTAAAAATAATAAATA-ATATAAA
1197708 TATTATTAAAAATAAATAAATAATAATAAA
1 TATTATTAAAAAT-AATAAATAAT-ATAAA
1197738 AAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (28 bp):
TATTATTAAAAATAATAAATAATATAAA
Found at i:1198229 original size:19 final size:18
Alignment explanation
Indices: 1198197--1198248 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
1198187 AAAAGGGGAG
*
1198197 ACAGAAACCAGAGACAGAA
1 ACAGAAAACAGAGA-AGAA
*
1198216 ACAGAAAACGGAGAAGAA
1 ACAGAAAACAGAGAAGAA
*
1198234 A-AAAAACACAGAGAA
1 ACAGAAA-ACAGAGAA
1198249 AGGAAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 4 0.14
18 12 0.43
19 12 0.43
ACGTcount: A:0.63, C:0.15, G:0.21, T:0.00
Consensus pattern (18 bp):
ACAGAAAACAGAGAAGAA
Found at i:1199231 original size:22 final size:25
Alignment explanation
Indices: 1199203--1199249 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1199193 AAATATATGA
1199203 TAAAT-AA-TAATTT-ATATTTTTT
1 TAAATAAATTAATTTAATATTTTTT
*
1199225 TAAATAAATTATTTTAATATTTTTT
1 TAAATAAATTAATTTAATATTTTTT
1199250 CAATATCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 5 0.24
23 2 0.10
24 5 0.24
25 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TAAATAAATTAATTTAATATTTTTT
Found at i:1199430 original size:17 final size:18
Alignment explanation
Indices: 1199405--1199457 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 18
1199395 GGATATTTTT
1199405 AAATAAATATAATTTTGA
1 AAATAAATATAATTTTGA
* *
1199423 AAAT-AATAGAATTAT-A
1 AAATAAATATAATTTTGA
* *
1199439 AATTAAATATATTTTTGA
1 AAATAAATATAATTTTGA
1199457 A
1 A
1199458 TTTTTAAAAT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
16 4 0.15
17 17 0.63
18 6 0.22
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.40
Consensus pattern (18 bp):
AAATAAATATAATTTTGA
Found at i:1201945 original size:22 final size:22
Alignment explanation
Indices: 1201883--1201956 Score: 112
Period size: 22 Copynumber: 3.4 Consensus size: 22
1201873 TACACTCTTT
*
1201883 AAAGATGATAGATTCTCTCTTC
1 AAAGATGATAGATTCTCTTTTC
*
1201905 AAAGATGATAGATTCTCTTTTT
1 AAAGATGATAGATTCTCTTTTC
*
1201927 AAAGATGATAAATTCTCTTTTC
1 AAAGATGATAGATTCTCTTTTC
*
1201949 AAATATGA
1 AAAGATGA
1201957 AAGCTTTATG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (22 bp):
AAAGATGATAGATTCTCTTTTC
Found at i:1202520 original size:112 final size:113
Alignment explanation
Indices: 1202391--1203451 Score: 1729
Period size: 112 Copynumber: 9.4 Consensus size: 113
1202381 CTTTTCCAGA
1202391 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1202456 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1202504 GAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
*
1202568 GATGGATTATCATTGCCAGAGAAGGTTCATAATAAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
* *
1202616 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1202681 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
*
1202729 GAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1202793 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1202841 GAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1202905 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
***
1202953 GAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
* * * *
1203017 GATGGATCATCATTTCCAGAGAAAGTTCATAATGGGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
* ** * *
1203065 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACTTGAA-TCTATTATT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTC-ATCACT
* * * *
1203129 TGATGGATCATCATTTCCAGAGAAAGTTCATAATGGGAAGAACTCATCT
65 TGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
* *
1203178 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
**
1203243 GATGGATTATTTTTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
* * * ** *
1203291 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCACTT
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
** * * *
1203356 GATGGAGCAGCTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
* * *
1203403 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACTTTTTG
1 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTG
1203452 CATAATTCTA
Statistics
Matches: 902, Mismatches: 42, Indels: 9
0.95 0.04 0.01
Matches are distributed among these distances:
112 510 0.57
113 390 0.43
114 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (113 bp):
GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCT
Found at i:1202783 original size:225 final size:225
Alignment explanation
Indices: 1202391--1203451 Score: 1727
Period size: 225 Copynumber: 4.7 Consensus size: 225
1202381 CTTTTCCAGA
* *
1202391 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
1202456 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
*
1202521 TCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTTGATGGATTATCATTGCCA
131 TCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATCATTGCCA
*
1202586 GAGAAGGTTCATAATAAGAAGAACTCATCT
196 GAGAAGGTTCATAATGAGAAGAACTCATCT
1202616 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
1202681 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
* *
1202746 TCATAATGAGAAGAATTTGTTCAACCTTTTTTTTGAATTCATCACTTGATGGATTATCATTGCCA
131 TCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATCATTGCCA
1202811 GAGAAGGTTCATAATGAGAAGAACTCATCT
196 GAGAAGGTTCATAATGAGAAGAACTCATCT
* *
1202841 GAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCACTT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
1202905 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
66 GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
** * *
1202970 TCATAATGAGAAGAATTTGTTCAACCTTTTACCTGAATTCATCACTTGATGGATCATCATTTCCA
131 TCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATCATTGCCA
* *
1203035 GAGAAAGTTCATAATGGGAAGAACTCATCT
196 GAGAAGGTTCATAATGAGAAGAACTCATCT
* * *
1203065 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-ACTTGAA-TCTATTAT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTC-TGAATTC-ATCAC
* * * *
1203128 TTGATGGATCATCATTTCCAGAGAAAGTTCATAATGGGAAGAACTCATCTGAAGAAGGAAGAAGA
64 TTGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGA
* **
1203193 AGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATTTTTG
128 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATCATTG
1203258 CCAGAGAAGGTTCATAATGAGAAGAACTCATCT
193 CCAGAGAAGGTTCATAATGAGAAGAACTCATCT
* * *
1203291 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTG-CTCAAATCCATCACT
1 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCT-GAATTCATCACT
** * * *
1203355 TGATGGAGCAGCTTTTCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAA
65 TGATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAA
* * *
1203419 GTTCATAATAAGAAGAATTTGTTCAACTTTTTG
129 ATTCATAATGAGAAGAATTTGTTCAACCTTTTG
1203452 CATAATTCTA
Statistics
Matches: 787, Mismatches: 42, Indels: 14
0.93 0.05 0.02
Matches are distributed among these distances:
224 217 0.28
225 395 0.50
226 174 0.22
227 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (225 bp):
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTT
GATGGATTATCATTGCCAGAGAAGGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAAT
TCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTCATCACTTGATGGATTATCATTGCCA
GAGAAGGTTCATAATGAGAAGAACTCATCT
Found at i:1203957 original size:76 final size:76
Alignment explanation
Indices: 1203856--1204040 Score: 334
Period size: 76 Copynumber: 2.4 Consensus size: 76
1203846 ACTATTTCCC
*
1203856 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTTATGTTTTCA
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1203921 AAGCCTTCGGG
66 AAGCCTTCGGG
*
1203932 TCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1203997 AAGCCTTCGGG
66 AAGCCTTCGGG
*
1204008 TCATCTGTAAGCCCCTCAGTGCATGATGCTTTC
1 TCATCTGTAAGCCCTTCAGTGCATGATG-TTTC
1204041 AACATTTCCA
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
76 100 0.96
77 4 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (76 bp):
TCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
AAGCCTTCGGG
Found at i:1204175 original size:3 final size:3
Alignment explanation
Indices: 1204167--1204207 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
1204157 TCAGTTCATT
*
1204167 TTA TTA TTA TTAA TTA TTA AT- TTA TTA -TA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1204208 AAAAATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 3 0.09
3 27 0.82
4 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Done.