Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008274.1 Hibiscus syriacus cultivar Beakdansim tig00110931_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: 1661830
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 6
Found at i:933134 original size:42 final size:42
Alignment explanation
Indices: 933069--933149 Score: 144
Period size: 42 Copynumber: 1.9 Consensus size: 42
933059 TTTCATCATG
*
933069 TTTCTATTTTAATCATCTGATTATAAAAAATTCAATTTACTT
1 TTTCTATTTTAATCATCTAATTATAAAAAATTCAATTTACTT
*
933111 TTTCTATTTTAATCGTCTAATTATAAAAAATTCAATTTA
1 TTTCTATTTTAATCATCTAATTATAAAAAATTCAATTTA
933150 ATTACTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.49
Consensus pattern (42 bp):
TTTCTATTTTAATCATCTAATTATAAAAAATTCAATTTACTT
Found at i:938027 original size:46 final size:45
Alignment explanation
Indices: 937936--938027 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 45
937926 GTAAAATATT
* * * *
937936 AATTAACAATTTAATATTTTTTTATTGTTTATTAGAAAACTAATA
1 AATTAACAATTTAATATTCTTTTATTATCTATCAGAAAACTAATA
* *
937981 AATTAACAATTT-ATCATCTCTTTTATTATCTATCAGTAAATTAATA
1 AATTAACAATTTAAT-AT-TCTTTTATTATCTATCAGAAAACTAATA
938027 A
1 A
938028 TTTTTTTGAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 2 0.05
45 14 0.36
46 23 0.59
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (45 bp):
AATTAACAATTTAATATTCTTTTATTATCTATCAGAAAACTAATA
Found at i:943332 original size:31 final size:31
Alignment explanation
Indices: 943294--943387 Score: 154
Period size: 31 Copynumber: 3.0 Consensus size: 31
943284 AGGGTCGAGG
*
943294 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
943325 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
943356 GTTTACCTAGGTTCTTCGGGATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
943387 G
1 G
943388 GTCCTTCGGG
Statistics
Matches: 60, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
31 59 0.98
32 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:944137 original size:35 final size:34
Alignment explanation
Indices: 944098--944181 Score: 105
Period size: 35 Copynumber: 2.4 Consensus size: 34
944088 AATTGCATTC
* * *
944098 TAAACCCTAAATTTCAAAATACTTCAATTATATTA
1 TAAA-CCTAAATTCCAAAATACTTCAATTACATGA
944133 TAAACCTCAAATTCCAAAATACTTCAATTACATGA
1 TAAACCT-AAATTCCAAAATACTTCAATTACATGA
*
944168 TCAATCCTAAATTC
1 T-AAACCTAAATTC
944182 ATAATATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
34 3 0.07
35 35 0.81
36 5 0.12
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.33
Consensus pattern (34 bp):
TAAACCTAAATTCCAAAATACTTCAATTACATGA
Found at i:950572 original size:15 final size:15
Alignment explanation
Indices: 950552--950583 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
950542 TTATCCACAT
950552 GCAGAAAACACAAAA
1 GCAGAAAACACAAAA
950567 GCAGAAAACACAAAA
1 GCAGAAAACACAAAA
950582 GC
1 GC
950584 GAATTGCGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.22, G:0.16, T:0.00
Consensus pattern (15 bp):
GCAGAAAACACAAAA
Found at i:960186 original size:22 final size:23
Alignment explanation
Indices: 960160--960204 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
960150 TTTATTCCCC
* *
960160 ACATGTCAC-AAATAATTAATAA
1 ACATGACACAAAAGAATTAATAA
960182 ACATGACACGAAAAGAATTAATA
1 ACATGACAC-AAAAGAATTAATA
960205 TAAATAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 8 0.42
24 11 0.58
ACGTcount: A:0.56, C:0.13, G:0.09, T:0.22
Consensus pattern (23 bp):
ACATGACACAAAAGAATTAATAA
Found at i:960883 original size:79 final size:80
Alignment explanation
Indices: 960752--960909 Score: 248
Period size: 79 Copynumber: 2.0 Consensus size: 80
960742 CTAAATATAT
** * *
960752 CAAATCTTTTACTAAACCTATTATTTTTTTATCATTATGTTTTTTCCTTTTTTTTATTAAA-ATT
1 CAAATCTTTTACTAAACCTACCATTTTTTTATCACTATATTTTTTCCTTTTTTTTATTAAATATT
960816 TTTTATCATTATGTC
66 TTTTATCATTATGTC
*
960831 CAAATCTTTTACTAAACCTACCATTTTTTTATCACTATATTTTTT-CTATTTTTTTATTAAATTT
1 CAAATCTTTTACTAAACCTACCATTTTTTTATCACTATATTTTTTCCT-TTTTTTTATTAAATAT
960895 TTTTTATCATTATGT
65 TTTTTATCATTATGT
960910 AATAATGATG
Statistics
Matches: 72, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 2 0.03
79 54 0.75
80 16 0.22
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (80 bp):
CAAATCTTTTACTAAACCTACCATTTTTTTATCACTATATTTTTTCCTTTTTTTTATTAAATATT
TTTTATCATTATGTC
Found at i:960970 original size:18 final size:16
Alignment explanation
Indices: 960947--960982 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
960937 TAAAGTTTTC
960947 TATTAAAGTCTTTTTCAT
1 TATTAAAGT-TTTTT-AT
960965 TATTAAAGTTTTTTAT
1 TATTAAAGTTTTTTAT
960981 TA
1 TA
960983 AAATATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 5 0.28
18 9 0.50
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TATTAAAGTTTTTTAT
Found at i:960971 original size:31 final size:31
Alignment explanation
Indices: 960933--960996 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
960923 TTTTTATTTT
* *
960933 TTATTAAAGTTTTCTATTAAAGTCTTTTTCA
1 TTATTAAAGTTTTCTATTAAAATATTTTTCA
*
960964 TTATTAAAGTTTTTTATTAAAATATTTTTCA
1 TTATTAAAGTTTTCTATTAAAATATTTTTCA
960995 TT
1 TT
960997 TATTTATTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.06, G:0.05, T:0.58
Consensus pattern (31 bp):
TTATTAAAGTTTTCTATTAAAATATTTTTCA
Found at i:960976 original size:16 final size:16
Alignment explanation
Indices: 960933--960982 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
960923 TTTTTATTTT
960933 TTATTAAAG-TTTTC-
1 TTATTAAAGTTTTTCA
960947 -TATTAAAGTCTTTTTCA
1 TTATTAAAG--TTTTTCA
*
960964 TTATTAAAGTTTTTTA
1 TTATTAAAGTTTTTCA
960980 TTA
1 TTA
960983 AAATATTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
13 8 0.27
16 14 0.47
18 8 0.27
ACGTcount: A:0.30, C:0.06, G:0.06, T:0.58
Consensus pattern (16 bp):
TTATTAAAGTTTTTCA
Found at i:961706 original size:31 final size:31
Alignment explanation
Indices: 961669--961729 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
961659 TGAAGAAATA
* *
961669 AATGAAAAATACTTTAATA-ATAAACTTTAAC
1 AATGAAAAAGACCTTAATAGA-AAACTTTAAC
961700 AATGAAAAAGACCTTAATAGAAAACTTTAA
1 AATGAAAAAGACCTTAATAGAAAACTTTAA
961730 TAAAAAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.56, C:0.10, G:0.07, T:0.28
Consensus pattern (31 bp):
AATGAAAAAGACCTTAATAGAAAACTTTAAC
Found at i:961802 original size:38 final size:37
Alignment explanation
Indices: 961757--961887 Score: 111
Period size: 38 Copynumber: 3.4 Consensus size: 37
961747 TCATTATTAT
961757 ATAATGATAAAAAACTTTAATAAAAAAATGGAAAAAAC
1 ATAATGATAAAAAACTTTAATAAAAAAA-GGAAAAAAC
* * * * **** *
961795 ATAATGATAAAAAAATGGTAGGTTTAATAAAA-GATTTGGAT
1 ATAATGATAAAAAACT-TTA---ATAAAAAAAGGA-AAAAAC
961836 ATAATGATAAAAAACTTTAATAAAAAAAGGGAAAAAAC
1 ATAATGATAAAAAACTTTAATAAAAAAA-GGAAAAAAC
961874 ATAATGATAAAAAA
1 ATAATGATAAAAAA
961888 ATGGTAGGTT
Statistics
Matches: 68, Mismatches: 18, Indels: 14
0.68 0.18 0.14
Matches are distributed among these distances:
37 7 0.10
38 30 0.44
39 4 0.06
40 4 0.06
41 16 0.24
42 7 0.10
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (37 bp):
ATAATGATAAAAAACTTTAATAAAAAAAGGAAAAAAC
Found at i:961845 original size:79 final size:78
Alignment explanation
Indices: 961755--961916 Score: 297
Period size: 79 Copynumber: 2.1 Consensus size: 78
961745 CATCATTATT
*
961755 ATATAATGATAAAAAACTTTAATAAAAAAATGGAAAAAACATAATGATAAAAAAATGGTAGGTTT
1 ATATAATGATAAAAAACTTTAATAAAAAAAGGGAAAAAACATAATGATAAAAAAATGGTAGGTTT
961820 AATAAAAGATTTGG
66 AATAAAAGATTT-G
961834 ATATAATGATAAAAAACTTTAATAAAAAAAGGGAAAAAACATAATGATAAAAAAATGGTAGGTTT
1 ATATAATGATAAAAAACTTTAATAAAAAAAGGGAAAAAACATAATGATAAAAAAATGGTAGGTTT
*
961899 AGTAAAAGATTTG
66 AATAAAAGATTTG
961912 ATATA
1 ATATA
961917 TTTAAACTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
78 6 0.07
79 75 0.93
ACGTcount: A:0.57, C:0.02, G:0.14, T:0.27
Consensus pattern (78 bp):
ATATAATGATAAAAAACTTTAATAAAAAAAGGGAAAAAACATAATGATAAAAAAATGGTAGGTTT
AATAAAAGATTTG
Found at i:965098 original size:21 final size:21
Alignment explanation
Indices: 965047--965098 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
965037 GTTTCCAGAT
*
965047 TCGCAATTCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
965068 TCGC-ATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
965088 TCGCAATGCGA
1 TCGCAATGCGA
965099 TAGTCGAAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:965176 original size:23 final size:21
Alignment explanation
Indices: 965088--965162 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
965078 ACTTGGACTA
* *
965088 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
965109 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
965130 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
*
965151 TCGCGTTGCGAT
1 TCGCATTGCGAT
965163 TTATTCCAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:965236 original size:134 final size:131
Alignment explanation
Indices: 965055--965417 Score: 407
Period size: 134 Copynumber: 2.7 Consensus size: 131
965045 ATTCGCAATT
* * * *
965055 CGAACTTGGACTATCGCA-TGCGAACTTGGAC-TA-TCGCAATGCGATAGTCGAAGTTCGCATTG
1 CGAACTTCGACTATCGCATTGCG-A-TT-TACATATTCGCATTGCGATAGTCCAAGTTCGCATTG
* **
965117 CGATAGTCCAAGTTCGCATTGCGATAGTCCAAGTTCG-CGT-T-GCGATTTATTCCAAATTCGAC
63 CGATAGTCCAAGTTCGC-TTGCGATAGTCCAAATTCGAC-TATCGC-A---ACGCCAAATTCGAC
965179 TATCGCAACG
122 TATCGCAACG
*
965189 CGAACTTCGACTATCGCATTGCGATTTACATATTCGTATTGCGATAGTCCAAGTTCGCATTGCGA
1 CGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
* * * *
965254 TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGACTATCGCAACGCGAACTTCGACTATCGC
66 TAGTCCAAGTTCGC-TTGCGA--TAGTCCAAATTCGACTATCGCAACGCCAAATTCGACTATCGC
965319 AACG
128 AACG
* *
965323 CGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAATCCAAGTTCGCGTTGCGA
1 CGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
* *
965388 TTTATTCCAAATTCG-TTGCGATAGTCCAAA
66 --TAGTCCAAGTTCGCTTGCGATAGTCCAAA
965418 ATCGCAACGA
Statistics
Matches: 199, Mismatches: 20, Indels: 22
0.83 0.08 0.09
Matches are distributed among these distances:
132 10 0.05
133 4 0.02
134 154 0.77
135 4 0.02
136 22 0.11
137 3 0.02
138 2 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (131 bp):
CGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
TAGTCCAAGTTCGCTTGCGATAGTCCAAATTCGACTATCGCAACGCCAAATTCGACTATCGCAAC
G
Found at i:965250 original size:21 final size:21
Alignment explanation
Indices: 965221--965275 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
965211 GATTTACATA
*
965221 TTCGTATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
965242 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
965263 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
965276 TTATTCCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:965264 original size:113 final size:113
Alignment explanation
Indices: 965063--965402 Score: 485
Period size: 113 Copynumber: 3.0 Consensus size: 113
965053 TTCGAACTTG
* * *
965063 GACTATCGC-ATGCGAACTTGGACTATCGCAATGCGATAGTCGA-AGTTCGCATTGCGATAGTCC
1 GACTATCGCAACGCGAACTTCGACTATCGCAATGCGAT-TTCGATA-TTCGCATTGCGATAGTCC
965126 AAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
64 AAGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
* *
965176 GACTATCGCAACGCGAACTTCGACTATCGCATTGCGATTTAC-ATATTCGTATTGCGATAGTCCA
1 GACTATCGCAACGCGAACTTCGACTATCGCAATGCGATTT-CGATATTCGCATTGCGATAGTCCA
*
965240 AGTTCGCATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTC
65 AGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
* * * *
965289 GACTATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGACTA-TCGCATTGCGAT-TTAC
1 GACTATCGCAACGCGAACTTCGACTATCGCAATGCG-ATTTCGA-TATTCGCATTGCGATAGTCC
*
965352 ATA-TTCGCATTGCGATAATCCAAGTTCGCGTTGCGATTTATTCCAAATTC
64 A-AGTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
965402 G
1 G
965403 TTGCGATAGT
Statistics
Matches: 206, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
113 161 0.78
114 43 0.21
115 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (113 bp):
GACTATCGCAACGCGAACTTCGACTATCGCAATGCGATTTCGATATTCGCATTGCGATAGTCCAA
GTTCGCATTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTC
Found at i:965346 original size:21 final size:21
Alignment explanation
Indices: 965286--965340 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
965276 TTATTCCAAA
965286 TTCGACTATCGCAACGCGAAC
1 TTCGACTATCGCAACGCGAAC
965307 TTCGACTATCGCAACGCGAAC
1 TTCGACTATCGCAACGCGAAC
965328 TTCGACTATCGCA
1 TTCGACTATCGCA
965341 TTGCGATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.33, G:0.18, T:0.22
Consensus pattern (21 bp):
TTCGACTATCGCAACGCGAAC
Found at i:965402 original size:23 final size:22
Alignment explanation
Indices: 965354--965422 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 22
965344 CGATTTACAT
*
965354 ATTCGCATTGCGA-TAATCCAA
1 ATTCGCGTTGCGATTAATCCAA
* *
965375 GTTCGCGTTGCGATTTATTCCAA
1 ATTCGCGTTGCGA-TTAATCCAA
*
965398 ATT--CGTTGCGA-TAGTCCAA
1 ATTCGCGTTGCGATTAATCCAA
*
965417 AATCGC
1 ATTCGC
965423 AACGATGGTG
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
19 9 0.24
21 20 0.53
23 9 0.24
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (22 bp):
ATTCGCGTTGCGATTAATCCAA
Found at i:966023 original size:6 final size:6
Alignment explanation
Indices: 966007--966050 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
965997 TCTCGTCTCG
966007 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
966051 AATACGTGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.13
6 33 0.87
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:970033 original size:22 final size:22
Alignment explanation
Indices: 969999--970047 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
969989 AAGATTGTCA
969999 AATTATTATAAAAATTATTATT
1 AATTATTATAAAAATTATTATT
*
970021 AATT-TTATCAAAATTTATTATT
1 AATTATTAT-AAAAATTATTATT
970043 -ATTAT
1 AATTAT
970048 AACACCACGG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (22 bp):
AATTATTATAAAAATTATTATT
Found at i:972113 original size:81 final size:81
Alignment explanation
Indices: 972015--972169 Score: 310
Period size: 81 Copynumber: 1.9 Consensus size: 81
972005 CCAATTTTAC
972015 TTTCTTTTGTAAATATTAGTGTTTTTGTGAGCTTAATTTTGTAAACACCTACCTTATGAGGTTTT
1 TTTCTTTTGTAAATATTAGTGTTTTTGTGAGCTTAATTTTGTAAACACCTACCTTATGAGGTTTT
972080 CTTGTTTATATTCTTT
66 CTTGTTTATATTCTTT
972096 TTTCTTTTGTAAATATTAGTGTTTTTGTGAGCTTAATTTTGTAAACACCTACCTTATGAGGTTTT
1 TTTCTTTTGTAAATATTAGTGTTTTTGTGAGCTTAATTTTGTAAACACCTACCTTATGAGGTTTT
972161 CTTGTTTAT
66 CTTGTTTAT
972170 CTTAACCATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 74 1.00
ACGTcount: A:0.21, C:0.11, G:0.14, T:0.54
Consensus pattern (81 bp):
TTTCTTTTGTAAATATTAGTGTTTTTGTGAGCTTAATTTTGTAAACACCTACCTTATGAGGTTTT
CTTGTTTATATTCTTT
Found at i:973484 original size:21 final size:22
Alignment explanation
Indices: 973438--973478 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
973428 ATAAATTAAC
*
973438 AATTTTTTAATTTTTAAAAAAT
1 AATTTTATAATTTTTAAAAAAT
973460 AATTTTATAA-TTTTAAAAA
1 AATTTTATAATTTTTAAAAA
973479 TAAATTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AATTTTATAATTTTTAAAAAAT
Found at i:973491 original size:20 final size:21
Alignment explanation
Indices: 973449--973491 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
973439 ATTTTTTAAT
*
973449 TTTTAAAAAATAATTTTATAA
1 TTTTAAAAAATAATTGTATAA
973470 TTTT-AAAAATAAATTGTA-AA
1 TTTTAAAAAAT-AATTGTATAA
973490 TT
1 TT
973492 ACTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTAAAAAATAATTGTATAA
Found at i:973867 original size:20 final size:18
Alignment explanation
Indices: 973844--973890 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 18
973834 TTTTTATAAT
*
973844 ATATTTATCATTTTATTTTA
1 ATATTTAT-A-TTTAATTTA
973864 ATATATTATATTTAATTTA
1 ATAT-TTATATTTAATTTA
973883 A-ATTTATA
1 ATATTTATA
973891 ATAATGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 5 0.20
18 2 0.08
19 9 0.36
20 5 0.20
21 4 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTATATTTAATTTA
Found at i:973877 original size:19 final size:20
Alignment explanation
Indices: 973830--973883 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
973820 CGATTCATTA
*
973830 TATATTT-TTATAATATATT
1 TATATTTATTTTAATATATT
973849 TATCATTTTATTTTAATATA-T
1 TAT-A-TTTATTTTAATATATT
*
973870 TATATTTAATTTAA
1 TATATTTATTTTAA
973884 ATTTATAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 12 0.40
20 2 0.07
21 7 0.23
22 9 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTTATTTTAATATATT
Found at i:973983 original size:20 final size:22
Alignment explanation
Indices: 973958--974001 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
973948 AGAATATTTT
*
973958 TTAAATAA-AAT-TATTAAATA
1 TTAAATAAGAATATAGTAAATA
973978 TTAAATAAGAATATAGTAAATA
1 TTAAATAAGAATATAGTAAATA
974000 TT
1 TT
974002 TTTTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.38
21 3 0.14
22 10 0.48
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (22 bp):
TTAAATAAGAATATAGTAAATA
Found at i:974909 original size:2 final size:2
Alignment explanation
Indices: 974902--974927 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
974892 CATCATTATC
974902 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
974928 CCAGAGGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:980118 original size:60 final size:59
Alignment explanation
Indices: 979991--980121 Score: 151
Period size: 60 Copynumber: 2.2 Consensus size: 59
979981 TTCGATGACC
* ** * *
979991 AATTTAGAATGAAGGTCATCATTTGGGGATGAATTGAAATGTTCAAAAGTTTGAGGACT
1 AATTTAGAATGAAAGTCATCATTTAAGGATGAATTAAAATATTCAAAAGTTTGAGGACT
*
980050 AATGTAGAATGAAAGTCAT-AGTTTAAGGATGAACTTAAAATCATT-AAAAGTTT-AGGGACT
1 AATTTAGAATGAAAGTCATCA-TTTAAGGATGAA-TTAAAAT-ATTCAAAAGTTTGA-GGACT
980110 AATTTAGAATGA
1 AATTTAGAATGA
980122 TGATCACAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
58 1 0.02
59 28 0.46
60 30 0.49
61 2 0.03
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.31
Consensus pattern (59 bp):
AATTTAGAATGAAAGTCATCATTTAAGGATGAATTAAAATATTCAAAAGTTTGAGGACT
Found at i:980542 original size:29 final size:30
Alignment explanation
Indices: 980499--980563 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
980489 TGTGACCCTC
980499 ATTCTATATTAATCCCCAAAATTTTGAAT-
1 ATTCTATATTAATCCCCAAAATTTTGAATG
** *
980528 ATTCTA-ATTACATCCTTAAACTTTTGAATG
1 ATTCTATATTA-ATCCCCAAAATTTTGAATG
980558 ATTCTA
1 ATTCTA
980564 GTTTAGCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.13
29 21 0.68
30 6 0.19
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (30 bp):
ATTCTATATTAATCCCCAAAATTTTGAATG
Found at i:980591 original size:13 final size:13
Alignment explanation
Indices: 980573--980619 Score: 67
Period size: 13 Copynumber: 3.6 Consensus size: 13
980563 AGTTTAGCAT
*
980573 TGCTTTTAGGAAG
1 TGCTTTTAAGAAG
980586 TGCTTTTAAGAAG
1 TGCTTTTAAGAAG
* *
980599 TACTTTTAAAAAG
1 TGCTTTTAAGAAG
980612 TGCTTTTA
1 TGCTTTTA
980620 GATTATTTAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.43
Consensus pattern (13 bp):
TGCTTTTAAGAAG
Found at i:981728 original size:14 final size:14
Alignment explanation
Indices: 981711--981743 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
981701 AGAACAAGAG
981711 ATTTTATTTTATT-T
1 ATTTTATTTT-TTCT
981725 ATTTTATTTTTTCT
1 ATTTTATTTTTTCT
981739 ATTTT
1 ATTTT
981744 GTTGTTGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 2 0.11
14 16 0.89
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (14 bp):
ATTTTATTTTTTCT
Found at i:982497 original size:2 final size:2
Alignment explanation
Indices: 982490--982514 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
982480 CCATGAGTTT
982490 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
982515 AAGAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1014079 original size:23 final size:23
Alignment explanation
Indices: 1014029--1014079 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1014019 CCTCCACAAT
* *
1014029 GAATGGTGGAGATTACTTACATC
1 GAATGGTGGAGATTAATTACATA
*
1014052 CAATGGTGGAGATTAATTATC-TA
1 GAATGGTGGAGATTAATTA-CATA
1014075 GAATG
1 GAATG
1014080 CTCCACACAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.33, C:0.10, G:0.25, T:0.31
Consensus pattern (23 bp):
GAATGGTGGAGATTAATTACATA
Found at i:1014210 original size:50 final size:50
Alignment explanation
Indices: 1014153--1014253 Score: 148
Period size: 50 Copynumber: 2.0 Consensus size: 50
1014143 ATAAGGTTTC
* *
1014153 ACACATCTCCATAATATTCAAGAGGATTTCACACTCTTCCACAAGCTTCT
1 ACACATCTCCAGAATATTCAAGAGGATTCCACACTCTTCCACAAGCTTCT
* ** *
1014203 ACACATCTCTAGAATATTTTAGAGGATTCCACACTCTTTCACAAGCTTCT
1 ACACATCTCCAGAATATTCAAGAGGATTCCACACTCTTCCACAAGCTTCT
1014253 A
1 A
1014254 GAGAGTTTTA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.32
Consensus pattern (50 bp):
ACACATCTCCAGAATATTCAAGAGGATTCCACACTCTTCCACAAGCTTCT
Found at i:1024212 original size:17 final size:18
Alignment explanation
Indices: 1024190--1024228 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
1024180 GATTATTATT
*
1024190 ATTATTATTTA-ATAAAA
1 ATTATTAATTATATAAAA
*
1024207 ATTATTAATTATATTAAA
1 ATTATTAATTATATAAAA
1024225 ATTA
1 ATTA
1024229 AGAAATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTATTAATTATATAAAA
Found at i:1025028 original size:30 final size:31
Alignment explanation
Indices: 1024958--1025031 Score: 89
Period size: 31 Copynumber: 2.4 Consensus size: 31
1024948 TGGGGCCTGC
* *
1024958 GAGCCTACCCAAAACAATTCTCGGGGCCACA
1 GAGCTTACCCAAAACAATTCTCAGGGCCACA
*
1024989 AAGGCTTACCCAAGAA-AA-TCTCAGGGCCACA
1 GA-GCTTACCCAA-AACAATTCTCAGGGCCACA
1025020 GAGCTTACCCAA
1 GAGCTTACCCAA
1025032 TGCTCGACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 10 0.27
31 14 0.38
32 11 0.30
33 2 0.05
ACGTcount: A:0.35, C:0.32, G:0.19, T:0.14
Consensus pattern (31 bp):
GAGCTTACCCAAAACAATTCTCAGGGCCACA
Found at i:1026730 original size:2 final size:2
Alignment explanation
Indices: 1026718--1026766 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
1026708 TTCTTAGTGC
1026718 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1026759 AT AT AT AT
1 AT AT AT AT
1026767 TGTGGCAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1033058 original size:6 final size:6
Alignment explanation
Indices: 1033049--1033073 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1033039 TGGGTTCGGG
1033049 TATGGC TATGGC TATGGC TATGGC T
1 TATGGC TATGGC TATGGC TATGGC T
1033074 TTCTAGCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.32, T:0.36
Consensus pattern (6 bp):
TATGGC
Found at i:1035082 original size:22 final size:22
Alignment explanation
Indices: 1035023--1035090 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
1035013 TCAGGCAATG
* *
1035023 ATTTTATCAATATTATCATTTA
1 ATTTTATAAATAATATCATTTA
* *
1035045 ATTTTATTAATTATATCATTTA
1 ATTTTATAAATAATATCATTTA
*
1035067 ATTATT-TAAATAATATCAATTA
1 ATT-TTATAAATAATATCATTTA
1035089 AT
1 AT
1035091 CCATTTGTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 37 0.95
23 2 0.05
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTATAAATAATATCATTTA
Found at i:1040962 original size:66 final size:67
Alignment explanation
Indices: 1040848--1040982 Score: 200
Period size: 66 Copynumber: 2.0 Consensus size: 67
1040838 ATCGCATTCA
* * *
1040848 TTACTGAAGCTCGTCTGTTGCGGACATTGTCACTCTTCTAAATCTCCTAGGTAAATCCC-AAAAA
1 TTACCGAAGCTCGTCTCTTGCGGACATTGTCACTCTTCTAAATATCCTAGGTAAATCCCGAAAAA
1040912 AT
66 AT
* * * *
1040914 TTACCGAAGCTCGTCTCTTGTGGACATTGTCTCTCTTCTAAATATCCTAGGTACATCCCGAGAAA
1 TTACCGAAGCTCGTCTCTTGCGGACATTGTCACTCTTCTAAATATCCTAGGTAAATCCCGAAAAA
1040979 AT
66 AT
1040981 TT
1 TT
1040983 TCGGATGATT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
66 53 0.87
67 8 0.13
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (67 bp):
TTACCGAAGCTCGTCTCTTGCGGACATTGTCACTCTTCTAAATATCCTAGGTAAATCCCGAAAAA
AT
Found at i:1043171 original size:111 final size:110
Alignment explanation
Indices: 1042975--1043189 Score: 308
Period size: 111 Copynumber: 1.9 Consensus size: 110
1042965 CCAACCGCAA
* * * *
1042975 TAATTCACCTGAAACTCAAACTCGGATACGTTAAGAGATTAATTTCCTCACTCAGAACATCGACT
1 TAATTCACCCGAAACTCAAACTCGGATACGTTAAGAGACTAACTTCCTCACTCAGAACATCGACC
1043040 TCAATCATAAGAACAAACCATTGAAGATCTAATAACTAGCTGCCAC
66 TCAATCATAAGAACAAACCATTGAAGATCT-ATAACTAGCTGCCAC
* *
1043086 TAATTCACCCGAAACTCGAACTC-GACTACGTTAAGAGACTAACTTCCTCACT-TGAAACATCGA
1 TAATTCACCCGAAACTCAAACTCGGA-TACGTTAAGAGACTAACTTCCTCACTCAG-AACATCGA
* * *
1043149 CCTCAATCATATGAGCATACCATTGAAGATCTATAACTAGC
64 CCTCAATCATAAGAACAAACCATTGAAGATCTATAACTAGC
1043190 CACCCCTAAT
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
110 12 0.13
111 81 0.87
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (110 bp):
TAATTCACCCGAAACTCAAACTCGGATACGTTAAGAGACTAACTTCCTCACTCAGAACATCGACC
TCAATCATAAGAACAAACCATTGAAGATCTATAACTAGCTGCCAC
Found at i:1046299 original size:16 final size:16
Alignment explanation
Indices: 1046278--1046311 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1046268 CATGTTCGTT
1046278 CACGAACATAAACGAA
1 CACGAACATAAACGAA
1046294 CACGAACATAAACGAA
1 CACGAACATAAACGAA
1046310 CA
1 CA
1046312 AAAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.56, C:0.26, G:0.12, T:0.06
Consensus pattern (16 bp):
CACGAACATAAACGAA
Found at i:1046404 original size:16 final size:16
Alignment explanation
Indices: 1046381--1046457 Score: 118
Period size: 16 Copynumber: 4.8 Consensus size: 16
1046371 TAATAAATAA
1046381 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
1046397 ATGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
1046413 ACGAACATAAATGAGC
1 ACGAACATAAACGAAC
*
1046429 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
1046445 ACGAACATAAACG
1 ACGAACATAAACG
1046458 TTGGAGACAC
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.55, C:0.21, G:0.14, T:0.10
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:1048724 original size:3 final size:3
Alignment explanation
Indices: 1048716--1048764 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
1048706 TCTGCTCCTA
* * * * *
1048716 ATG ATG ATG ATG ACG GTG AAG GTG ATA ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1048764 A
1 A
1048765 GAGTGAGGAG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.35, C:0.02, G:0.35, T:0.29
Consensus pattern (3 bp):
ATG
Found at i:1051393 original size:60 final size:60
Alignment explanation
Indices: 1051297--1051415 Score: 166
Period size: 60 Copynumber: 2.0 Consensus size: 60
1051287 TTCCACGATG
* * * * *
1051297 TCGACATTTAGGTCGAACAAGCTAGTAGTTGCATGCCTTCCCCTTGAACTTGAAGGCATT
1 TCGACATTGAAGTCGAACAAGCTAGTAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATT
* * *
1051357 TCGACATTGAAGTCGAATAAGCTCGTAGTTGAATGCCTCCCCCTGGAGCTTGAAGGCAT
1 TCGACATTGAAGTCGAACAAGCTAGTAGTTGAATGCCTCCCCCTGGAACTTGAAGGCAT
1051416 CGTGTCAAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (60 bp):
TCGACATTGAAGTCGAACAAGCTAGTAGTTGAATGCCTCCCCCTGGAACTTGAAGGCATT
Found at i:1053547 original size:24 final size:25
Alignment explanation
Indices: 1053506--1053557 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
1053496 GTTATTAAAT
1053506 TTATCAACAGTTACAAAAT-AGTCA
1 TTATCAACAGTTACAAAATGAGTCA
* *
1053530 TTATCAAGATGTTA-AAAATGATTCA
1 TTATCAACA-GTTACAAAATGAGTCA
1053555 TTA
1 TTA
1053558 AATTTTATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.44, C:0.12, G:0.10, T:0.35
Consensus pattern (25 bp):
TTATCAACAGTTACAAAATGAGTCA
Found at i:1067689 original size:21 final size:19
Alignment explanation
Indices: 1067664--1067753 Score: 67
Period size: 18 Copynumber: 4.6 Consensus size: 19
1067654 AATTGTTTTT
1067664 TCTTTATTTTATTAGACCTTA
1 TCTTTATTTT-TTA-ACCTTA
** *
1067685 TCTTTATTTTTT-TTCTTG
1 TCTTTATTTTTTAACCTTA
* * **
1067703 TTTTTAATTTTTAATATT-
1 TCTTTATTTTTTAACCTTA
1067721 TCTTTATTTTATTAGACCTTA
1 TCTTTATTTT-TTA-ACCTTA
1067742 TCTTTATTTTTT
1 TCTTTATTTTTT
1067754 TTCTTGTTTT
Statistics
Matches: 54, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
18 21 0.39
19 6 0.11
20 7 0.13
21 20 0.37
ACGTcount: A:0.19, C:0.10, G:0.03, T:0.68
Consensus pattern (19 bp):
TCTTTATTTTTTAACCTTA
Found at i:1067725 original size:57 final size:57
Alignment explanation
Indices: 1067662--1067775 Score: 228
Period size: 57 Copynumber: 2.0 Consensus size: 57
1067652 TTAATTGTTT
1067662 TTTCTTTATTTTATTAGACCTTATCTTTATTTTTTTTCTTGTTTTTAATTTTTAATA
1 TTTCTTTATTTTATTAGACCTTATCTTTATTTTTTTTCTTGTTTTTAATTTTTAATA
1067719 TTTCTTTATTTTATTAGACCTTATCTTTATTTTTTTTCTTGTTTTTAATTTTTAATA
1 TTTCTTTATTTTATTAGACCTTATCTTTATTTTTTTTCTTGTTTTTAATTTTTAATA
1067776 ACTATACATT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 57 1.00
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.68
Consensus pattern (57 bp):
TTTCTTTATTTTATTAGACCTTATCTTTATTTTTTTTCTTGTTTTTAATTTTTAATA
Found at i:1068045 original size:45 final size:47
Alignment explanation
Indices: 1067981--1068075 Score: 167
Period size: 45 Copynumber: 2.0 Consensus size: 47
1067971 GGATACATCA
1067981 TTTGAGTTCGTGGATAATTTTCT-C-TCACTCGATTCTGATTTGTGG
1 TTTGAGTTCGTGGATAATTTTCTACGTCACTCGATTCTGATTTGTGG
1068026 TTTGAGTTCGTGGATAATTTTCTCACGTCACTCGATTCTGATTTGTGG
1 TTTGAGTTCGTGGATAATTTTCT-ACGTCACTCGATTCTGATTTGTGG
1068074 TT
1 TT
1068076 GTCGGGTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
45 23 0.49
47 1 0.02
48 23 0.49
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (47 bp):
TTTGAGTTCGTGGATAATTTTCTACGTCACTCGATTCTGATTTGTGG
Found at i:1072930 original size:4 final size:4
Alignment explanation
Indices: 1072921--1072963 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
1072911 AGAAGACAAT
*
1072921 ATAC ATAC ATAA ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1072964 GGAATGCAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.53, C:0.21, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:1073185 original size:120 final size:119
Alignment explanation
Indices: 1072933--1073177 Score: 343
Period size: 118 Copynumber: 2.1 Consensus size: 119
1072923 ACATACATAA
* * * *
1072933 ATACATACATACATACATACATACATACATAGGAATGCAGTTTGCAAACCGGCCCAAAAGTTCAG
1 ATACATACATACATACACATATATATATATAGGAATGCAGTTTGCAAACC-GCCCAAAAGTTCAG
* *
1072998 CTGTAGATAGAACAGACCAAGGTTTCTTTTTGTCATACAGACGGAAAAAGACAAT
65 CTGTAGATAGAACAGACCAAAGTTTCTTTTTGTCAAACAGACGGAAAAAGACAAT
* *
1073053 ATGCATACATACATACACATATATATATATAGGAATGTAGTGTT-CAAA-C-CCCAAAAGTTCAG
1 ATACATACATACATACACATATATATATATAGGAATGCAGT-TTGCAAACCGCCCAAAAGTTCAG
* * *
1073115 CTGTAGATAGAACAGACCCAAAGTTTCTTTTTGTCAAACAGATGGAAGAAGACACT
65 CTGTAGATAGAACAGA-CCAAAGTTTCTTTTTGTCAAACAGACGGAAAAAGACAAT
1073171 ATACATA
1 ATACATA
1073178 TATATACAAA
Statistics
Matches: 111, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
117 29 0.26
118 40 0.36
119 1 0.01
120 39 0.35
121 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (119 bp):
ATACATACATACATACACATATATATATATAGGAATGCAGTTTGCAAACCGCCCAAAAGTTCAGC
TGTAGATAGAACAGACCAAAGTTTCTTTTTGTCAAACAGACGGAAAAAGACAAT
Found at i:1076190 original size:2 final size:2
Alignment explanation
Indices: 1076183--1076225 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1076173 CACGTGCCGT
1076183 TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1076224 TA
1 TA
1076226 ACTTTAGGGT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1079940 original size:21 final size:21
Alignment explanation
Indices: 1079915--1079963 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
1079905 CTATTTAAAA
1079915 TATAATATTGTA-AATGTATTT
1 TATAATATT-TAGAATGTATTT
*
1079936 TATAAT-TTTAGATTGTATTT
1 TATAATATTTAGAATGTATTT
1079956 TAT-ATATT
1 TATAATATT
1079964 AAATAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.16
20 15 0.60
21 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (21 bp):
TATAATATTTAGAATGTATTT
Found at i:1081342 original size:60 final size:60
Alignment explanation
Indices: 1081240--1081418 Score: 288
Period size: 60 Copynumber: 3.0 Consensus size: 60
1081230 AAATATAGTC
* *
1081240 ACCTCGGAGTCGATTGGGAGGGAGTT-CGAAGCTCTTGAGTGTATTGCAGTGGGCTCATGT
1 ACCTCGGAGTCGATTGGGAGGGAGTTCCG-AGCTCTTGGGTGTATTGCAGTGGGCTCATAT
* *
1081300 ACCTTGGAGTCGATTGGGAGGGAGTTCCGAGCTCTTGGGTGTATTGCAGTGGGCACATAT
1 ACCTCGGAGTCGATTGGGAGGGAGTTCCGAGCTCTTGGGTGTATTGCAGTGGGCTCATAT
* *
1081360 ACCTCGGAGTTGATTGAGAGGGAGTTCCGAGCTCTTGGGTGTATTGCAGTGGGCTCATA
1 ACCTCGGAGTCGATTGGGAGGGAGTTCCGAGCTCTTGGGTGTATTGCAGTGGGCTCATA
1081419 GTTACGATAT
Statistics
Matches: 110, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
60 108 0.98
61 2 0.02
ACGTcount: A:0.18, C:0.17, G:0.36, T:0.28
Consensus pattern (60 bp):
ACCTCGGAGTCGATTGGGAGGGAGTTCCGAGCTCTTGGGTGTATTGCAGTGGGCTCATAT
Found at i:1093443 original size:42 final size:42
Alignment explanation
Indices: 1093384--1093467 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
1093374 AAGACCCAAG
1093384 TAGGAAGAAGGGAAAGAATCTCATTCGCAGTTTATTGCTCCC
1 TAGGAAGAAGGGAAAGAATCTCATTCGCAGTTTATTGCTCCC
1093426 TAGGAAGAAGGGAAAGAATCTCATTCGCAGTTTATTGCTCCC
1 TAGGAAGAAGGGAAAGAATCTCATTCGCAGTTTATTGCTCCC
1093468 GCCCACTCAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (42 bp):
TAGGAAGAAGGGAAAGAATCTCATTCGCAGTTTATTGCTCCC
Found at i:1096823 original size:73 final size:73
Alignment explanation
Indices: 1096704--1096851 Score: 296
Period size: 73 Copynumber: 2.0 Consensus size: 73
1096694 AAACGGTGAG
1096704 GTGTCATTGATGAAAACTTGTCATCTTCGAAAACCTCTGTACGCAATTTAATAGACGAGATCTTG
1 GTGTCATTGATGAAAACTTGTCATCTTCGAAAACCTCTGTACGCAATTTAATAGACGAGATCTTG
1096769 CCATTTAC
66 CCATTTAC
1096777 GTGTCATTGATGAAAACTTGTCATCTTCGAAAACCTCTGTACGCAATTTAATAGACGAGATCTTG
1 GTGTCATTGATGAAAACTTGTCATCTTCGAAAACCTCTGTACGCAATTTAATAGACGAGATCTTG
1096842 CCATTTAC
66 CCATTTAC
1096850 GT
1 GT
1096852 TGATTGAAAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 75 1.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (73 bp):
GTGTCATTGATGAAAACTTGTCATCTTCGAAAACCTCTGTACGCAATTTAATAGACGAGATCTTG
CCATTTAC
Found at i:1098020 original size:60 final size:59
Alignment explanation
Indices: 1097917--1098105 Score: 165
Period size: 60 Copynumber: 3.2 Consensus size: 59
1097907 TTGCAACACA
* *
1097917 CATCTTCAAACTATGACTTTCATTTTAAATTTG-TTCTCT-AACTTTTGAATATTTCAATTT
1 CATCTCCAAACTATGACTTT-ATTTTAAA-TTGATTC-CTAAACTTTTGAATATTACAATTT
*
1097977 CATCTCCAAACTATGACTATTATTTTAAATTGATTCCTAAACTTTTGAA-A-TACAAATT
1 CATCTCCAAACTATGACT-TTATTTTAAATTGATTCCTAAACTTTTGAATATTACAATTT
* * * * * * *
1098035 CATC-CCTTATA-TATGAATCTCATTCTAAATTGATCTCCAAAAATTTTGAATATTCCAATTT
1 CATCTCC--AAACTATGACT-TTATTTTAAATTGAT-TCCTAAACTTTTGAATATTACAATTT
*
1098096 CATCGCCAAA
1 CATCTCCAAA
1098106 TTATTGAACG
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
57 2 0.02
58 29 0.27
59 21 0.20
60 41 0.38
61 12 0.11
62 2 0.02
ACGTcount: A:0.34, C:0.19, G:0.05, T:0.42
Consensus pattern (59 bp):
CATCTCCAAACTATGACTTTATTTTAAATTGATTCCTAAACTTTTGAATATTACAATTT
Found at i:1100007 original size:38 final size:38
Alignment explanation
Indices: 1099947--1100045 Score: 128
Period size: 38 Copynumber: 2.6 Consensus size: 38
1099937 TACAATTAAA
* * *
1099947 TTTTAAATTATATTTTTCAAAAATACT-TTTATACAACAC
1 TTTTAAAAT-TATTTTTAAAAAATA-TGCTTATACAACAC
1099986 TTTTAAAATTATTTTTAAAAAATATGCTTATACAACAC
1 TTTTAAAATTATTTTTAAAAAATATGCTTATACAACAC
* *
1100024 TTTTAAAATCATTTTTTAAAAA
1 TTTTAAAATTATTTTTAAAAAA
1100046 CAATAGACAC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.02
38 45 0.83
39 8 0.15
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.45
Consensus pattern (38 bp):
TTTTAAAATTATTTTTAAAAAATATGCTTATACAACAC
Found at i:1107203 original size:27 final size:27
Alignment explanation
Indices: 1107173--1107226 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1107163 TTAATTGTCG
*
1107173 CATCAACTCCTCCCTTAAATGTTAACA
1 CATCAACTCCTCACTTAAATGTTAACA
* *
1107200 CATCAATTCCTCATTTAAATGTTAACA
1 CATCAACTCCTCACTTAAATGTTAACA
1107227 ATAAGTAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (27 bp):
CATCAACTCCTCACTTAAATGTTAACA
Found at i:1107645 original size:3 final size:3
Alignment explanation
Indices: 1107624--1107686 Score: 51
Period size: 3 Copynumber: 21.3 Consensus size: 3
1107614 TCTATAAAAA
* *
1107624 TAT TA- TAT T-T TAT TA- TAT TATT TATT TAT TAT TTT TAT TTT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TA-T TAT TAT TAT TAT TAT TAT
* *
1107668 TAA TAT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT T
1107687 TTTTATAGGT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
2 6 0.12
3 35 0.73
4 7 0.15
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1107663 original size:6 final size:6
Alignment explanation
Indices: 1107626--1107689 Score: 58
Period size: 6 Copynumber: 10.3 Consensus size: 6
1107616 TATAAAAATA
* * * *
1107626 TTATATT TTA-TT ATATTAT TTATTT ATTATTT TTATTT TTATTA ATATTA
1 TTAT-TT TTATTT TTATT-T TTATTT -TTATTT TTATTT TTATTT TTATTT
1107676 TTATTT TTATTT TT
1 TTATTT TTATTT TT
1107690 TATAGGTCCC
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
5 4 0.08
6 30 0.62
7 14 0.29
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (6 bp):
TTATTT
Found at i:1107679 original size:18 final size:17
Alignment explanation
Indices: 1107624--1107686 Score: 78
Period size: 18 Copynumber: 3.8 Consensus size: 17
1107614 TCTATAAAAA
1107624 TATTATATTTTATTATAT
1 TATTAT-TTTTATTATAT
*
1107642 TATT-TATTTATTAT-T
1 TATTATTTTTATTATAT
1107657 T-TTATTTTTATTAATAT
1 TATTATTTTTATT-ATAT
1107674 TATTATTTTTATT
1 TATTATTTTTATT
1107687 TTTTATAGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
14 2 0.05
15 9 0.23
16 10 0.26
17 3 0.08
18 15 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTATTTTTATTATAT
Found at i:1107692 original size:31 final size:32
Alignment explanation
Indices: 1107626--1107689 Score: 98
Period size: 31 Copynumber: 2.1 Consensus size: 32
1107616 TATAAAAATA
1107626 TTATATTTTATTATATTATTTATTTATTATTT
1 TTATATTTTATTATATTATTTATTTATTATTT
1107658 TTAT-TTTTATTAATATTA-TTATTT-TTATTT
1 TTATATTTTATT-ATATTATTTATTTATTATTT
1107688 TT
1 TT
1107690 TATAGGTCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
30 8 0.26
31 13 0.42
32 10 0.32
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (32 bp):
TTATATTTTATTATATTATTTATTTATTATTT
Found at i:1108223 original size:153 final size:153
Alignment explanation
Indices: 1107945--1108235 Score: 582
Period size: 153 Copynumber: 1.9 Consensus size: 153
1107935 ACAGTCCCGT
1107945 TTCATTTCTTGCAAAATGTCTATCCGTTTCAAATTCCTTGTTCTATCAACAAATCCTCCAACCCA
1 TTCATTTCTTGCAAAATGTCTATCCGTTTCAAATTCCTTGTTCTATCAACAAATCCTCCAACCCA
1108010 ACTATTTTCTGGTTCTTATCTAAGGCCTGCGTGTCAAAGCTTTGGGAGTGCAACTGCACCCACTT
66 ACTATTTTCTGGTTCTTATCTAAGGCCTGCGTGTCAAAGCTTTGGGAGTGCAACTGCACCCACTT
1108075 CCCATTCAATTCTAACAATTTAA
131 CCCATTCAATTCTAACAATTTAA
1108098 TTCATTTCTTGCAAAATGTCTATCCGTTTCAAATTCCTTGTTCTATCAACAAATCCTCCAACCCA
1 TTCATTTCTTGCAAAATGTCTATCCGTTTCAAATTCCTTGTTCTATCAACAAATCCTCCAACCCA
1108163 ACTATTTTCTGGTTCTTATCTAAGGCCTGCGTGTCAAAGCTTTGGGAGTGCAACTGCACCCACTT
66 ACTATTTTCTGGTTCTTATCTAAGGCCTGCGTGTCAAAGCTTTGGGAGTGCAACTGCACCCACTT
1108228 CCCATTCA
131 CCCATTCA
1108236 TTCAAGCGCC
Statistics
Matches: 138, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 138 1.00
ACGTcount: A:0.25, C:0.27, G:0.12, T:0.35
Consensus pattern (153 bp):
TTCATTTCTTGCAAAATGTCTATCCGTTTCAAATTCCTTGTTCTATCAACAAATCCTCCAACCCA
ACTATTTTCTGGTTCTTATCTAAGGCCTGCGTGTCAAAGCTTTGGGAGTGCAACTGCACCCACTT
CCCATTCAATTCTAACAATTTAA
Found at i:1109089 original size:14 final size:15
Alignment explanation
Indices: 1109049--1109082 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
1109039 TCCTTTTCTT
1109049 TATTTATTTTTTATC
1 TATTTATTTTTTATC
1109064 TATTTATTTTTTA-C
1 TATTTATTTTTTATC
1109078 TATTT
1 TATTT
1109083 TTCTTTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTATTTTTTATC
Found at i:1109089 original size:15 final size:15
Alignment explanation
Indices: 1109049--1109109 Score: 54
Period size: 15 Copynumber: 3.9 Consensus size: 15
1109039 TCCTTTTCTT
1109049 TATTTA-TTTTTTATC
1 TATTTATTTTTTTA-C
1109064 TATTTA-TTTTTTAC
1 TATTTATTTTTTTAC
*
1109078 TATTTTTCTTTTTTAC
1 TATTTAT-TTTTTTAC
1109094 TAACTTTCATTTTTTT
1 T-A-TTT-ATTTTTTT
1109110 GTCATCTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
14 6 0.15
15 13 0.33
16 9 0.23
17 1 0.03
18 9 0.23
19 1 0.03
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTATTTTTTTAC
Found at i:1109101 original size:16 final size:17
Alignment explanation
Indices: 1109069--1109108 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1109059 TTATCTATTT
**
1109069 ATTTTTTACTATTTTTC
1 ATTTTTTACTAACTTTC
1109086 -TTTTTTACTAACTTTC
1 ATTTTTTACTAACTTTC
1109102 ATTTTTT
1 ATTTTTT
1109109 TGTCATCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.70
Consensus pattern (17 bp):
ATTTTTTACTAACTTTC
Found at i:1109164 original size:11 final size:11
Alignment explanation
Indices: 1109150--1109188 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1109140 ATTATATTAA
1109150 TATTTTTTCTT
1 TATTTTTTCTT
*
1109161 TATTTTTT-TCA
1 TATTTTTTCT-T
1109172 TATTTTTTCTT
1 TATTTTTTCTT
1109183 TATTTT
1 TATTTT
1109189 ACAATCTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 1 0.04
11 22 0.92
12 1 0.04
ACGTcount: A:0.13, C:0.08, G:0.00, T:0.79
Consensus pattern (11 bp):
TATTTTTTCTT
Found at i:1120626 original size:186 final size:186
Alignment explanation
Indices: 1120322--1120664 Score: 467
Period size: 186 Copynumber: 1.8 Consensus size: 186
1120312 CATTTCTTTT
*** *
1120322 GCCTAGAACAGATTTGAAAACTGTGTTTTTATCTTATAAACGAGGGCCATTGAGATAAATTGATA
1 GCCTAGAACAGATAACAAAACTGTGTTTTTATCTTATAAACGAGGGCCATTGAGATAAATAGATA
* * * *
1120387 CATTTCAGCATCTGTTCTCTACAGTATGATCTTCCCTGTCTAATTTCGATAACCATCTTCTCTTT
66 CATTTCAACATCTGCTCTCTACAGTATGATCTTCCCAGTCGAATTTCGATAACCATCTTCTCTTT
* * *
1120452 TCATTATCCTTTTCATGACATGTTCAAGATAATGTCCCGAATGGCATCTTTCCGAA
131 TCATTACCCTATTAATGACATGTTCAAGATAATGTCCCGAATGGCATCTTTCCGAA
* * * *
1120508 GCCTAGAACAGATAACAGAACTGTGTTTTT-TCTTATATATGAGGGCC-TCTGAGATATATAGAT
1 GCCTAGAACAGATAACAAAACTGTGTTTTTATCTTATAAACGAGGGCCAT-TGAGATAAATAGAT
* ** *
1120571 ACGGTTTCAACATCTGCTCTCTGGAGTATGATCTTCTCAGTCGAATTAT-GATAACCATCTTCTC
65 AC-ATTTCAACATCTGCTCTCTACAGTATGATCTTCCCAGTCGAATT-TCGATAACCATCTTCTC
1120635 TTTTCATTACCCTATTAATGACATGTTCAA
128 TTTTCATTACCCTATTAATGACATGTTCAA
1120665 AGACAGTAGG
Statistics
Matches: 135, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
184 1 0.01
185 29 0.21
186 104 0.77
187 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.15, T:0.37
Consensus pattern (186 bp):
GCCTAGAACAGATAACAAAACTGTGTTTTTATCTTATAAACGAGGGCCATTGAGATAAATAGATA
CATTTCAACATCTGCTCTCTACAGTATGATCTTCCCAGTCGAATTTCGATAACCATCTTCTCTTT
TCATTACCCTATTAATGACATGTTCAAGATAATGTCCCGAATGGCATCTTTCCGAA
Found at i:1120729 original size:20 final size:20
Alignment explanation
Indices: 1120704--1120743 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
1120694 AACTCCTAGG
1120704 CCTAAACCAAATTACAAAAC
1 CCTAAACCAAATTACAAAAC
1120724 CCTAAACCAAATTACAAAAC
1 CCTAAACCAAATTACAAAAC
1120744 TATGTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (20 bp):
CCTAAACCAAATTACAAAAC
Found at i:1123183 original size:14 final size:15
Alignment explanation
Indices: 1123166--1123194 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1123156 TTTTATTGGT
1123166 TAAAAATTAT-TAAA
1 TAAAAATTATATAAA
1123180 TAAAAATTATATAAA
1 TAAAAATTATATAAA
1123195 ATCAATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAAAATTATATAAA
Found at i:1131232 original size:66 final size:66
Alignment explanation
Indices: 1131152--1131280 Score: 195
Period size: 66 Copynumber: 2.0 Consensus size: 66
1131142 ATGCGGAGCA
* * * *
1131152 TATTGATGAAAAGAATTCTGCCAAATTATCTTCCTCTGCTGTTGAGACTAACATAGATGTAGACC
1 TATTGATGAAAAGAATTCCGCCAAATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGACC
1131217 C
66 C
* **
1131218 TATTGATGAAAAGAATTCCGGCTCATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGA
1 TATTGATGAAAAGAATTCCGCCAAATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGA
1131281 GCATGCTGAT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
66 56 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.30
Consensus pattern (66 bp):
TATTGATGAAAAGAATTCCGCCAAATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGACC
C
Found at i:1131291 original size:66 final size:66
Alignment explanation
Indices: 1131150--1131293 Score: 180
Period size: 66 Copynumber: 2.2 Consensus size: 66
1131140 AGATGCGGAG
* * * * *
1131150 CATATTGATGAAAAGAATTCTGCCAAATTATCTTCCTCTGCTGTTGAGACTAACATAGATGTAGA
1 CATACTGATGAAAAGAATTCCGCCAAATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGA
1131215 C
66 C
* * * **
1131216 CCTATTGATGAAAAGAATTCCGGCTCATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGA
1 CATACTGATGAAAAGAATTCCGCCAAATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGA
*
1131281 G
66 C
*
1131282 CATGCTGATGAA
1 CATACTGATGAA
1131294 CAGATGGCTC
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (66 bp):
CATACTGATGAAAAGAATTCCGCCAAATTATCTGCCTCTGCTGTCGAGACTAACAGAGATGTAGA
C
Found at i:1133359 original size:125 final size:123
Alignment explanation
Indices: 1133131--1133378 Score: 469
Period size: 125 Copynumber: 2.0 Consensus size: 123
1133121 CCATCACAAC
1133131 CTAGGTACTGATATTTAACCAGTCAATTTTAATGCATTACTTCTGTTTTCTTTTTCCAAAAATAA
1 CTAGGTACTGATATTTAACCAGTCAATTTTAATGCATTACTTCTGTTTTCTTTTTCCAAAAATAA
1133196 AGGAAAAAACTTACAACTTTAATATTTTGTTGATCTTTAGTCCAGGGTTGCATATCAT
66 AGGAAAAAACTTACAACTTTAATATTTTGTTGATCTTTAGTCCAGGGTTGCATATCAT
*
1133254 CTAGGTACTGATATTTAACCAGTCAATTTTACTGCATTACTTCTGTTTTCTTTTTTTCCAAAAAT
1 CTAGGTACTGATATTTAACCAGTCAATTTTAATGCATTACTTCTGTTTTC--TTTTTCCAAAAAT
1133319 AAAGGAAAAAACTTACAACTTTAATATTTTGTTGATCTTTAGTCCAGGGTTGCATATCAT
64 AAAGGAAAAAACTTACAACTTTAATATTTTGTTGATCTTTAGTCCAGGGTTGCATATCAT
1133379 TCATATAGCC
Statistics
Matches: 122, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
123 49 0.40
125 73 0.60
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (123 bp):
CTAGGTACTGATATTTAACCAGTCAATTTTAATGCATTACTTCTGTTTTCTTTTTCCAAAAATAA
AGGAAAAAACTTACAACTTTAATATTTTGTTGATCTTTAGTCCAGGGTTGCATATCAT
Found at i:1137770 original size:21 final size:21
Alignment explanation
Indices: 1137699--1137771 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
1137689 TTTTCCCAAT
** *
1137699 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
*
1137719 TCGCAATGCAAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
1137740 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
1137761 TCGCAATGCGA
1 TCGCAATGCGA
1137772 TACTGACTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 11 0.23
21 36 0.77
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:1137785 original size:20 final size:20
Alignment explanation
Indices: 1137760--1137907 Score: 145
Period size: 20 Copynumber: 7.3 Consensus size: 20
1137750 AATTTGGAAA
*
1137760 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
1137780 ATCGCAACGTGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
1137801 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
1137821 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* **
1137841 TTCGCAACGCGATTTTGACT
1 ATCGCAACGCGATACTGACT
* * *
1137861 TTCGTAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
1137881 TTCGCAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
1137901 ATCGCAA
1 ATCGCAA
1137908 TGAGATAATA
Statistics
Matches: 110, Mismatches: 15, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.02
20 92 0.84
21 14 0.13
22 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1137913 original size:20 final size:20
Alignment explanation
Indices: 1137802--1137907 Score: 158
Period size: 20 Copynumber: 5.3 Consensus size: 20
1137792 TAATACAAAA
*
1137802 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
1137822 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATTCTGACTT
*
1137842 TCGCAACGCGATTTTGACTT
1 TCGCAACGCGATTCTGACTT
*
1137862 TCGTAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
* *
1137882 TCGCAACGAGATTCTGACTA
1 TCGCAACGCGATTCTGACTT
1137902 TCGCAA
1 TCGCAA
1137908 TGAGATAATA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 79 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:1138087 original size:12 final size:12
Alignment explanation
Indices: 1138070--1138101 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1138060 CTCCGGCGAC
1138070 ATCCGTTCCTAT
1 ATCCGTTCCTAT
1138082 ATCCGTTCCTAT
1 ATCCGTTCCTAT
1138094 ATCC-TTCC
1 ATCCGTTCC
1138102 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.16, C:0.38, G:0.06, T:0.41
Consensus pattern (12 bp):
ATCCGTTCCTAT
Found at i:1138684 original size:24 final size:24
Alignment explanation
Indices: 1138657--1138710 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1138647 GTATTCGAAA
*
1138657 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1138681 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1138705 TTTGAT
1 TTTGAT
1138711 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1140622 original size:182 final size:181
Alignment explanation
Indices: 1140313--1140680 Score: 711
Period size: 182 Copynumber: 2.0 Consensus size: 181
1140303 TGGAACATCG
1140313 TGTTACACCATGGACAGAAAAAAAGATAACGAAACGTGTTGTGAAGTCACGTCATGGAGAGTTGA
1 TGTTACACCATGGACAGAAAAAAAGATAACGAAACGTGTTGTGAAGTCACGTCATGGAGAGTTGA
1140378 ACCATGTTCAAACACTTGTTTGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATCTAAATGC
66 ACCATGTTCAAACACTTGTTTGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATCTAAATGC
1140443 AAAGACGTGTAGTTGTATGAAATGGCAAACATCTGGTTATCCGTGTGGCCA
131 AAAGACGTGTAGTTGTATGAAATGGCAAACATCTGGTTATCCGTGTGGCCA
1140494 -GTTACACCATGGACAGAAAAAAAGATAACGAAACGTGTTGTGAAGTCAACGTCATGGAGAGTTG
1 TGTTACACCATGGACAGAAAAAAAGATAACGAAACGTGTTGTGAAGTC-ACGTCATGGAGAGTTG
1140558 AACCATGTTCAAACACTTTGTTTGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATCTAAAT
65 AACCATGTTCAAACAC-TTGTTTGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATCTAAAT
1140623 GCAAAGACGTGTAGTTGTATGAAATGGCAAACATCTGGTTATCCGTGTGGCCA
129 GCAAAGACGTGTAGTTGTATGAAATGGCAAACATCTGGTTATCCGTGTGGCCA
1140676 TGTTA
1 TGTTA
1140681 TAAAAGTTTC
Statistics
Matches: 184, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
180 47 0.26
181 32 0.17
182 101 0.55
183 4 0.02
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (181 bp):
TGTTACACCATGGACAGAAAAAAAGATAACGAAACGTGTTGTGAAGTCACGTCATGGAGAGTTGA
ACCATGTTCAAACACTTGTTTGAAGTACTGGATAATAACTTAAATGGGCTTGTCGATCTAAATGC
AAAGACGTGTAGTTGTATGAAATGGCAAACATCTGGTTATCCGTGTGGCCA
Found at i:1141336 original size:20 final size:19
Alignment explanation
Indices: 1141313--1141430 Score: 85
Period size: 19 Copynumber: 6.7 Consensus size: 19
1141303 CTTAATGTCT
*
1141313 ATCGCAACGCGGAAATGACA
1 ATCGCAACGC-GAAATGAAA
*
1141333 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
1141352 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
1141366 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
1141385 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
* *
1141399 ATCACAAAGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1141418 ATCGCAACGCGAA
1 ATCGCAACGCGAA
1141431 TTTAGTTTCG
Statistics
Matches: 77, Mismatches: 11, Indels: 21
0.71 0.10 0.19
Matches are distributed among these distances:
14 18 0.23
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 38 0.49
20 9 0.12
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1141348 original size:19 final size:19
Alignment explanation
Indices: 1141313--1141391 Score: 87
Period size: 19 Copynumber: 4.4 Consensus size: 19
1141303 CTTAATGTCT
* *
1141313 ATCGCAACGCGGAAATGACA
1 ATCGCAATGC-GAAATGAAA
1141333 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1141352 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1141366 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1141385 ATCGCAA
1 ATCGCAA
1141392 CGAGGGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
14 10 0.20
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 25 0.50
20 9 0.18
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1141369 original size:33 final size:33
Alignment explanation
Indices: 1141332--1141426 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
1141322 CGGAAATGAC
1141332 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
*
1141365 AATCGCAATGCGAAATGAAAATCGCAACGAGGG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
* *
1141398 AATCACAAAGCGAAATGAAAATCGCAACG
1 AATCGCAATGCGAAATGAAAATCGCAACG
1141427 CGAATTTAGT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAG
Found at i:1141483 original size:33 final size:33
Alignment explanation
Indices: 1141441--1141539 Score: 119
Period size: 33 Copynumber: 2.8 Consensus size: 33
1141431 TTTAGTTTCG
*
1141441 CGTTGCGATTTT-AGTTTCGTGTTGCGATTTTAT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTTTAT
1141474 CGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTTT-A--T
*
1141510 CACGTTGCGATTTTCATTTCGCATTGCGAT
1 --CGTTGCGATTTTCATTTCGCGTTGCGAT
1141540 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
33 28 0.48
34 2 0.03
36 1 0.02
38 27 0.47
ACGTcount: A:0.13, C:0.18, G:0.21, T:0.47
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTTTAT
Found at i:1141546 original size:38 final size:38
Alignment explanation
Indices: 1141474--1141547 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
1141464 GCGATTTTAT
* **
1141474 CGTTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCA
1 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCA
1141512 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTT
1141548 TTGCCTTCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.15, C:0.20, G:0.19, T:0.46
Consensus pattern (38 bp):
CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCA
Found at i:1141547 original size:19 final size:19
Alignment explanation
Indices: 1141436--1141539 Score: 130
Period size: 19 Copynumber: 5.7 Consensus size: 19
1141426 GCGAATTTAG
1141436 TTTCGCGTTGCGATTTT-A
1 TTTCGCGTTGCGATTTTCA
*
1141454 GTTTCGTGTTGCGATTTT-A
1 -TTTCGCGTTGCGATTTTCA
1141473 --T--CGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
1141488 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
1141507 TTTCACGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
1141526 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
1141540 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
14 11 0.15
15 1 0.01
16 1 0.01
17 1 0.01
19 61 0.81
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:1141665 original size:14 final size:14
Alignment explanation
Indices: 1141646--1141682 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1141636 CATCAATTAA
1141646 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1141660 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1141674 ACAAATCAA
1 ACAAATCAA
1141683 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1143695 original size:19 final size:19
Alignment explanation
Indices: 1143631--1143726 Score: 147
Period size: 19 Copynumber: 4.9 Consensus size: 19
1143621 TCTTTTGGTT
*
1143631 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
1143650 GATAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
1143670 GGAAATGACTATCGCAACGC
1 -GAAATGAAAATCGCAACGC
1143690 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
1143709 GAAATGAAAATCGCAACG
1 GAAATGAAAATCGCAACG
1143727 AGAGAATCGC
Statistics
Matches: 70, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
19 37 0.53
20 31 0.44
21 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:1143761 original size:19 final size:19
Alignment explanation
Indices: 1143739--1143805 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
1143729 AGAATCGCAA
**
1143739 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTAATTTCGCGT
*
1143758 TGCGATTTTCATTTCGCGT
1 TGCGATTTTAATTTCGCGT
* * *
1143777 TGCGATAGTCATTTTCGCGT
1 TGCGAT-TTTAATTTCGCGT
1143797 TGCGATTTT
1 TGCGATTTT
1143806 CATTCTCGAA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 24 0.62
20 15 0.38
ACGTcount: A:0.10, C:0.18, G:0.25, T:0.46
Consensus pattern (19 bp):
TGCGATTTTAATTTCGCGT
Found at i:1143794 original size:20 final size:19
Alignment explanation
Indices: 1143750--1143802 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
1143740 GCGATTTTGG
**
1143750 TTTCGCGTTGCGATTTTCA
1 TTTCGCGTTGCGATAGTCA
1143769 TTTCGCGTTGCGATAGTCA
1 TTTCGCGTTGCGATAGTCA
1143788 TTTTCGCGTTGCGAT
1 -TTTCGCGTTGCGAT
1143803 TTTCATTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.11, C:0.21, G:0.25, T:0.43
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTCA
Found at i:1143808 original size:20 final size:20
Alignment explanation
Indices: 1143750--1143809 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
1143740 GCGATTTTGG
1143750 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATTTTCAT
**
1143769 TTTCGCGTTGCGATAGTCAT
1 TTTCGCGTTGCGATTTTCAT
1143789 TTTCGCGTTGCGATTTTCAT
1 TTTCGCGTTGCGATTTTCAT
1143809 T
1 T
1143810 CTCGAAACTA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGATTTTCAT
Found at i:1144373 original size:20 final size:20
Alignment explanation
Indices: 1144352--1144457 Score: 113
Period size: 20 Copynumber: 5.2 Consensus size: 20
1144342 ATAGTCAGAT
*
1144352 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAA
* *
1144372 TCGCATTGCGATTTTCCTAA
1 TCGCATTGCGATTTACGTAA
* * *
1144392 TTCGTATTGCAATTTACTTAA
1 -TCGCATTGCGATTTACGTAA
* *
1144413 TCGCGTTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAA
* *
1144433 TCGCAATGCGAATTACGTAA
1 TCGCATTGCGATTTACGTAA
1144453 TCGCA
1 TCGCA
1144458 ACGCGAATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
20 55 0.77
21 16 0.23
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:1144458 original size:20 final size:20
Alignment explanation
Indices: 1144405--1144466 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
1144395 GTATTGCAAT
** *
1144405 TTACTTAATCGCGTTGCGAT
1 TTACTTAATCGCAATGCGAA
1144425 TTACTTAATCGCAATGCGAA
1 TTACTTAATCGCAATGCGAA
* *
1144445 TTACGTAATCGCAACGCGAA
1 TTACTTAATCGCAATGCGAA
1144465 TT
1 TT
1144467 TGGGAAATCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (20 bp):
TTACTTAATCGCAATGCGAA
Found at i:1146542 original size:40 final size:40
Alignment explanation
Indices: 1146490--1146583 Score: 111
Period size: 40 Copynumber: 2.4 Consensus size: 40
1146480 TTTAAAACTT
* ** * *
1146490 AAATTATATAATTTAGTTTGTTATGGTGAAATAATTTTAAA
1 AAATTAGATAATTTAGAATGTTATAGTGAAAT-AGTTTAAA
*
1146531 AAATTA-ATAATTTAGAATGTTATAGTGAAATGGTTTAAA
1 AAATTAGATAATTTAGAATGTTATAGTGAAATAGTTTAAA
1146570 AAATTAGA-AATTTA
1 AAATTAGATAATTTA
1146584 AAAGGTGTGA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
39 18 0.38
40 23 0.49
41 6 0.13
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (40 bp):
AAATTAGATAATTTAGAATGTTATAGTGAAATAGTTTAAA
Found at i:1146644 original size:24 final size:24
Alignment explanation
Indices: 1146617--1146669 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1146607 TTAGGAATAA
* * *
1146617 AAAATCTAATATAAATAAAAATTT
1 AAAATATAAAATAAATAAAAATCT
*
1146641 AAAATATAAAATAGATAAAAATCT
1 AAAATATAAAATAAATAAAAATCT
1146665 AAAAT
1 AAAAT
1146670 GATTGAGAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.66, C:0.04, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATATAAAATAAATAAAAATCT
Found at i:1158204 original size:107 final size:107
Alignment explanation
Indices: 1158018--1158225 Score: 416
Period size: 107 Copynumber: 1.9 Consensus size: 107
1158008 AAATAAGAAC
1158018 TCAGTTTTACTTTGACACGTTCATATATAGGTATGGGATTATAATCCTCCAATATTGTTAACACT
1 TCAGTTTTACTTTGACACGTTCATATATAGGTATGGGATTATAATCCTCCAATATTGTTAACACT
1158083 TTGAAAGATTTGATTTGAGTATACCCGTGTCACACAAATAAT
66 TTGAAAGATTTGATTTGAGTATACCCGTGTCACACAAATAAT
1158125 TCAGTTTTACTTTGACACGTTCATATATAGGTATGGGATTATAATCCTCCAATATTGTTAACACT
1 TCAGTTTTACTTTGACACGTTCATATATAGGTATGGGATTATAATCCTCCAATATTGTTAACACT
1158190 TTGAAAGATTTGATTTGAGTATACCCGTGTCACACA
66 TTGAAAGATTTGATTTGAGTATACCCGTGTCACACA
1158226 CATATTATTT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 101 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (107 bp):
TCAGTTTTACTTTGACACGTTCATATATAGGTATGGGATTATAATCCTCCAATATTGTTAACACT
TTGAAAGATTTGATTTGAGTATACCCGTGTCACACAAATAAT
Found at i:1160214 original size:15 final size:16
Alignment explanation
Indices: 1160189--1160218 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1160179 TATTTTTAGT
1160189 TTTTAATTATTTTTTC
1 TTTTAATTATTTTTTC
1160205 TTTT-ATTATTTTTT
1 TTTTAATTATTTTTT
1160219 AATAAGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTAATTATTTTTTC
Found at i:1173108 original size:2 final size:2
Alignment explanation
Indices: 1173101--1173129 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1173091 GGAAGGTCAT
1173101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1173130 TTCATTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1173419 original size:36 final size:36
Alignment explanation
Indices: 1173372--1173440 Score: 138
Period size: 36 Copynumber: 1.9 Consensus size: 36
1173362 CCTTTTACGT
1173372 TAAAAAAATGACAGTCTTTTGAGATGAATGTTAGCG
1 TAAAAAAATGACAGTCTTTTGAGATGAATGTTAGCG
1173408 TAAAAAAATGACAGTCTTTTGAGATGAATGTTA
1 TAAAAAAATGACAGTCTTTTGAGATGAATGTTA
1173441 ACATGCTAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (36 bp):
TAAAAAAATGACAGTCTTTTGAGATGAATGTTAGCG
Found at i:1176426 original size:2 final size:2
Alignment explanation
Indices: 1176421--1176462 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1176411 AATATTAACT
1176421 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1176463 AATTACTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1179953 original size:214 final size:214
Alignment explanation
Indices: 1179122--1180055 Score: 955
Period size: 214 Copynumber: 4.3 Consensus size: 214
1179112 GAGATAGTGT
* * * *** * * * *
1179122 AACACGGAGAGCGCAAGGTTCATAAAAATTGTTCGTGGATAACCACAAAATCCTAAATCCTCCCC
1 AACACAGAGTGCGCGAGGTTCATAAAAAGCATTCGAGGAAAATCACAAAACCCTAAATCCTCCCC
* * *
1179187 AACCAAATAACTCTATTCACATTAACAAAGCTACAGCTCTGGTTTTATGAAAGGTATCCCTAAAC
66 AGCCAAATAACTCTATTCACATTAACAAAGCTACAGCTCTGGTTTTACGAAAGGTATCCTTAAAC
* * * * ** * * * **
1179252 CATAACCAT--CTCTCATCAAACACCACATCATTTATGATTCCAAACCATTCGATAAAGTAATCA
131 CATGACCCTCGCTCTCATCAAACACCATAACAACTATAATTCCGAACCATTAGATAAAGTAATTG
1179315 AAACGCTTAGAATCAATCA
196 AAACGCTTAGAATCAATCA
* * *
1179334 AACACAGAGTGCACGAGGTTCATAAAAAGCATTCGAGGATAATCACAAAACCCTAAATCCTCCCT
1 AACACAGAGTGCGCGAGGTTCATAAAAAGCATTCGAGGAAAATCACAAAACCCTAAATCCTCCCC
* * * *
1179399 AGCCATATAACTCTATTCACTTTAACAAAGCTTCAGCTCTGGTTTTACACTTTTACTAAAGGTAT
66 AGCCAAATAACTCTATTCACATTAACAAAGCTACAGCTCTGG--------TTTTACGAAAGGTAT
* * * *
1179464 CCTTCAACCAT-AGCCCTCACTCTCATCAAACGTCATAAGTTCATAACAACTATAATTCTGAACC
123 CCTTAAACCATGA-CCCTCGCTCTCATCAAA---C---A--CCATAACAACTATAATTCCGAACC
* * * *
1179528 ATTCGATAAAGTAACTGAAACGCTTATAATCGATCA
179 ATTAGATAAAGTAATTGAAACGCTTAGAATCAATCA
* * ** * *
1179564 AACACAGAGTGCGCAAGGTTCATAAAAAGCATTCGGGGATATAATCATGAAAGCCTACATCCTCC
1 AACACAGAGTGCGCGAGGTTCATAAAAAGCATTCGAGGA-A-AATCACAAAACCCTAAATCCTCC
* * * *
1179629 CTA-CACATATAACTCTATTCACATTAACATAGCTGCAGCTCTGGTTTTACGAAAGGTATCCTTA
64 CCAGC-CAAATAACTCTATTCACATTAACAAAGCTACAGCTCTGGTTTTACGAAAGGTATCCTTA
* * * * * *
1179693 AACCGTGACCCTTGCTCTCACCAAACATCATAATAACTATAATTCCGAACCATTAGATAAAGTGA
128 AACCATGACCCTCGCTCTCATCAAACACCATAACAACTATAATTCCGAACCATTAGATAAAGTAA
* * *
1179758 TTGAAATGTTTAGAATTAATCA
193 TTGAAACGCTTAGAATCAATCA
* * *
1179780 AACACAGAGTGCGTGAGGTTCATAAAAAGCATCCAAGGAAAATCACAAAACCCTAAATCCTCCCC
1 AACACAGAGTGCGCGAGGTTCATAAAAAGCATTCGAGGAAAATCACAAAACCCTAAATCCTCCCC
* * * *
1179845 AGCCAAATAAATATATTCATATTAACAAAGCTACATCTCTGGTTTTACGAAAGGTATCCTTAAAC
66 AGCCAAATAACTCTATTCACATTAACAAAGCTACAGCTCTGGTTTTACGAAAGGTATCCTTAAAC
* *
1179910 CATGACCCTCGCTCTCATCAAACACCATAACAACGAAAATTCCGAACCATTCA-ATAAAGTAATT
131 CATGACCCTCGCTCTCATCAAACACCATAACAACTATAATTCCGAACCATT-AGATAAAGTAATT
*
1179974 GAAACACTTAGAATCAATCA
195 GAAACGCTTAGAATCAATCA
* * * * * * *
1179994 AACTCAGAGCGTGCGAGGTT-A-AAAAAACATTTGAGGATAATCACGAAACCCTAAATCCTCCC
1 AACACAGAGTGCGCGAGGTTCATAAAAAGCATTCGAGGAAAATCACAAAACCCTAAATCCTCCC
1180056 TAGAAAGACA
Statistics
Matches: 598, Mismatches: 99, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
212 127 0.21
213 1 0.00
214 162 0.27
215 3 0.01
216 84 0.14
218 1 0.00
219 1 0.00
220 25 0.04
221 1 0.00
222 11 0.02
224 37 0.06
225 2 0.00
228 1 0.00
230 83 0.14
231 1 0.00
232 58 0.10
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.25
Consensus pattern (214 bp):
AACACAGAGTGCGCGAGGTTCATAAAAAGCATTCGAGGAAAATCACAAAACCCTAAATCCTCCCC
AGCCAAATAACTCTATTCACATTAACAAAGCTACAGCTCTGGTTTTACGAAAGGTATCCTTAAAC
CATGACCCTCGCTCTCATCAAACACCATAACAACTATAATTCCGAACCATTAGATAAAGTAATTG
AAACGCTTAGAATCAATCA
Found at i:1180222 original size:165 final size:164
Alignment explanation
Indices: 1179900--1180290 Score: 475
Period size: 165 Copynumber: 2.4 Consensus size: 164
1179890 TACGAAAGGT
* * *
1179900 ATCCTTAAACCATGACCCTCGCTCTCATCAAACACCATAACAACGAAAATTCCGAACCATTCAAT
1 ATCCTTTAACCATAACCCTCGCTCTCATCAAACACCATAACAACGATAATTCCGAACCATTCAAT
* * * * *
1179965 AAAGTAATTGAAACACTTAGAATCAATCAAACTCAGAGCGTGCGAGGTTAAAAAAACATTTGAGG
66 AAAGAAACTGAAACACTTAGAATCAATCAAACACAGAGCAT-CGAGGTTAAAAAAACATTCGAGG
*
1180030 ATAATCACGAAACCCTAAATCCTCCCTAGAAAGAC
130 ATAATAACGAAACCCTAAATCCTCCCTAGAAAGAC
* *
1180065 ATCCTTTAATCATAA-CCTCGCTCTCATCAAACACCATAACAAC-ATAATTCCGAACCATTCGAT
1 ATCCTTTAACCATAACCCTCGCTCTCATCAAACACCATAACAACGATAATTCCGAACCATTCAAT
* * * * * *
1180128 TAAGAAACTGAACCCCTTAGAATTAATCAAACACAGAATGCAT-GAGGTTCGTAAAAAGCATTCG
66 AAAGAAACTGAAACACTTAGAATCAATCAAACACAG-A-GCATCGAGGTT--AAAAAAACATTCG
**
1180192 AGGATAATAACGAAACCCTAAATCCTCCCTAGAAAGGT
127 AGGATAATAACGAAACCCTAAATCCTCCCTAGAAAGAC
* * * * * * *
1180230 GTCCTTTAACCATAACCCTTGTTCTCATC-AACACCATAATAGCTATAATTCCAAACCATTC
1 ATCCTTTAACCATAACCCTCGCTCTCATCAAACACCATAACAACGATAATTCCGAACCATTC
1180291 CGAACCATCT
Statistics
Matches: 194, Mismatches: 26, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
163 53 0.27
164 29 0.15
165 85 0.44
166 27 0.14
ACGTcount: A:0.40, C:0.26, G:0.11, T:0.23
Consensus pattern (164 bp):
ATCCTTTAACCATAACCCTCGCTCTCATCAAACACCATAACAACGATAATTCCGAACCATTCAAT
AAAGAAACTGAAACACTTAGAATCAATCAAACACAGAGCATCGAGGTTAAAAAAACATTCGAGGA
TAATAACGAAACCCTAAATCCTCCCTAGAAAGAC
Found at i:1188993 original size:21 final size:21
Alignment explanation
Indices: 1188941--1189022 Score: 114
Period size: 21 Copynumber: 3.9 Consensus size: 21
1188931 CGTTGCGATT
*
1188941 TTGGACTATCGCAA--CGAAT
1 TTGGACTATCGCAATGCGAAC
*
1188960 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAATGCGAAC
1188983 TTGGACTATCGCAATGCGAAC
1 TTGGACTATCGCAATGCGAAC
1189004 TTGGACTATCGCAATGCGA
1 TTGGACTATCGCAATGCGA
1189023 TAGTCGAAGT
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.11
21 40 0.71
23 10 0.18
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (21 bp):
TTGGACTATCGCAATGCGAAC
Found at i:1191410 original size:29 final size:30
Alignment explanation
Indices: 1191363--1191419 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
1191353 TTAAGTAACG
*
1191363 AAATGAAACGTTAGACACCAAACTGAAATA
1 AAATGAAACATTAGACACCAAACTGAAATA
1191393 AAAT-AAACATTAGACACCAAACTGAAA
1 AAATGAAACATTAGACACCAAACTGAAA
1191420 AAGTAGGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.56, C:0.18, G:0.11, T:0.16
Consensus pattern (30 bp):
AAATGAAACATTAGACACCAAACTGAAATA
Found at i:1192742 original size:22 final size:22
Alignment explanation
Indices: 1192716--1192758 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1192706 TAATAAATTA
1192716 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1192738 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1192759 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1192767 original size:22 final size:22
Alignment explanation
Indices: 1192718--1192766 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1192708 ATAAATTATT
**
1192718 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1192740 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1192763 TAAA
1 TAAA
1192767 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1192770 original size:54 final size:54
Alignment explanation
Indices: 1192706--1193439 Score: 689
Period size: 54 Copynumber: 13.4 Consensus size: 54
1192696 ACAACTACAA
1192706 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
** * * *
1192760 TAATAAATTATTTAAAATAAATCAATCCATATAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATAT-TTTAAAATAAATCAATCCATAC
1192813 T-AT--A-T-TTTAAAATAAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C---C--AT--A-T-TTTAAAATAAATCAATCCATAC
*
1192872 TAATAAATTATTTAAAATAAATTAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
1192926 TAATAAATTATTTAAAATGAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** ** * ** ** *
1192983 TTTTGAAA-TAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATTCATAC
1 TAAT-AAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
1193038 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* **
1193092 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * * * *
1193149 TTTTAAAATAAAT-CAATCAATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCCATAC
*
1193208 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*** * * *
1193262 TAATAAATTATTTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C
1 TAATAAATTATTTAAAATAAATCAATCCATA-TTTTAAAATAAATCAATCCATAC
* *
1193315 -CAT--A-T-TTTAAAATAAATCAATACATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1193364 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1193418 TAATAAATTATTTAAAATAAAT
1 TAATAAATTATTTAAAATAAAT
1193440 TATTTTAAAA
Statistics
Matches: 551, Mismatches: 82, Indels: 94
0.76 0.11 0.13
Matches are distributed among these distances:
47 5 0.01
48 45 0.08
49 4 0.01
50 4 0.01
52 6 0.01
53 4 0.01
54 292 0.53
55 22 0.04
56 22 0.04
57 32 0.06
58 71 0.13
59 14 0.03
60 12 0.02
62 1 0.00
63 2 0.00
64 15 0.03
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:1192776 original size:32 final size:32
Alignment explanation
Indices: 1192738--1193293 Score: 393
Period size: 32 Copynumber: 19.7 Consensus size: 32
1192728 CAATCCATAT
1192738 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1192770 TTTAAAATAAATCAATCCATA-TAACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
1192800 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1192825 -------TAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1192850 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1192882 TTTAAAATAAATTAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1192904 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1192936 TTTAAAATGAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
1192966 --T--AATAAATCAATCC--A-T-AT------
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1192984 TTTGAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1193016 TTTAAAATAAATCAATTCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1193048 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1193070 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1193102 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
**
1193132 --T--AATAAATCAATCCATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1193157 --T-AAATCAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1193186 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1193218 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1193240 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1193272 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
1193294 AACTACAATA
Statistics
Matches: 428, Mismatches: 30, Indels: 132
0.73 0.05 0.22
Matches are distributed among these distances:
20 1 0.00
22 74 0.17
23 11 0.03
24 5 0.01
25 10 0.02
26 70 0.16
27 4 0.01
28 12 0.03
29 1 0.00
30 6 0.01
31 14 0.03
32 220 0.51
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1192843 original size:18 final size:18
Alignment explanation
Indices: 1192822--1192879 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
1192812 CTATATTTTA
1192822 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
* *
1192840 AAATAAAT-TAT--TTA-
1 AAATAAATCAATCCATAC
1192854 AAATAAATCAATCCATAC
1 AAATAAATCAATCCATAC
*
1192872 TAATAAAT
1 AAATAAAT
1192880 TATTTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
14 8 0.26
15 4 0.13
17 4 0.13
18 15 0.48
ACGTcount: A:0.57, C:0.14, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAATCAATCCATAC
Found at i:1192860 original size:112 final size:112
Alignment explanation
Indices: 1192738--1193239 Score: 459
Period size: 112 Copynumber: 4.5 Consensus size: 112
1192728 CAATCCATAT
1192738 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAATAA
1192803 TAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTA
66 TAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTA
* ** *
1192850 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATTAATCCATAT-TTTAAAATAA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAAT-A
* * * * *
1192914 ATCAATCCATACTAATAAATTATTTAAAATGAATCAATCCATACAACTACA--A
65 ATAAATCAAT-CT-AT--A-T-TTTAAAATAAATCAATCCATACAAATAAATTA
* * *
1192966 --T--AATAAATCAAT-C---C--AT--AT--TTTGAAATAAATCAATCCATACAAATA-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAA-TA
* * * * * * ** * * *
1193016 TTTAAAATAAATC-A-ATTCATACTAATAAATTATTTAAAATAAATCAATCCATA
65 -AT-AAATCAATCTATATT-TTA-AAATAAATCAATCCATACAAATAAAT---TA
*
1193069 TTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATACAACTACAATA
1 -TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAATA
*
1193134 ATAAATCAATCCATATTTTAAAATAAATCAATCAATCCATACAAATAAATTA
65 ATAAATCAATCTATATTTTAAAAT--A--AATCAATCCATACAAATAAATTA
1193186 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATAT
1193240 TTTAAAATAA
Statistics
Matches: 306, Mismatches: 44, Indels: 76
0.72 0.10 0.18
Matches are distributed among these distances:
96 1 0.00
97 3 0.01
98 15 0.05
101 1 0.00
102 22 0.07
103 6 0.02
104 7 0.02
106 3 0.01
108 12 0.04
109 1 0.00
111 6 0.02
112 74 0.24
113 2 0.01
114 5 0.02
116 68 0.22
117 7 0.02
118 57 0.19
119 2 0.01
120 14 0.05
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (112 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCCATATAACTACAATAA
TAAATCAATCTATATTTTAAAATAAATCAATCCATACAAATAAATTA
Found at i:1192897 original size:22 final size:22
Alignment explanation
Indices: 1192872--1192915 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1192862 CAATCCATAC
1192872 TAATAAAT-TATTTAAAATAAAT
1 TAATAAATAT-TTTAAAATAAAT
**
1192894 TAATCCATATTTTAAAATAAAT
1 TAATAAATATTTTAAAATAAAT
1192916 CAATCCATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
TAATAAATATTTTAAAATAAAT
Found at i:1192920 original size:22 final size:22
Alignment explanation
Indices: 1192882--1192924 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1192872 TAATAAATTA
*
1192882 TTTAAAATAAATTAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1192904 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1192925 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1192933 original size:22 final size:22
Alignment explanation
Indices: 1192884--1192932 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1192874 ATAAATTATT
* **
1192884 TAAAATAAATTAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1192906 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1192929 TAAA
1 TAAA
1192933 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1193023 original size:14 final size:14
Alignment explanation
Indices: 1193006--1193059 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
1192996 CAATCCATAC
1193006 AAATAAATTATTTA
1 AAATAAATTATTTA
*
1193020 AAATAAATCAATTCATA
1 AAATAAAT-TATT--TA
*
1193037 CTAATAAATTATTTA
1 -AAATAAATTATTTA
1193052 AAATAAAT
1 AAATAAAT
1193060 CAATCCATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
14 15 0.47
15 5 0.16
17 5 0.16
18 7 0.22
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATAAATTATTTA
Found at i:1193074 original size:22 final size:22
Alignment explanation
Indices: 1193048--1193090 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
1193038 TAATAAATTA
1193048 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
1193070 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
1193091 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:1193099 original size:22 final size:22
Alignment explanation
Indices: 1193050--1193098 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
1193040 ATAAATTATT
**
1193050 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
1193072 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
1193095 TAAA
1 TAAA
1193099 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1193244 original size:22 final size:22
Alignment explanation
Indices: 1193218--1193260 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
1193208 TAATAAATTA
*
1193218 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATACATAT
1193240 TTTAAAATAAATCAATACATA
1 TTTAAAATAAATCAATACATA
1193261 CTAATAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATACATAT
Found at i:1193268 original size:170 final size:166
Alignment explanation
Indices: 1192706--1193439 Score: 1299
Period size: 166 Copynumber: 4.5 Consensus size: 166
1192696 ACAACTACAA
1192706 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
1192771 TTAAAATAAATCAATCCATATAACTACAATAATAAATCAATCTATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
1192836 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
*
1192872 TAATAAATTATTTAAAATAAATTAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* *
1192937 TTAAAATGAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTGAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
1193002 ATACAAATAAATTATTTAAAATAAATCAATTCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
1193038 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1193103 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCA
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAT--A--AATCA
1193168 ATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
127 ATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
*
1193208 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATACATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1193273 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATC-A---
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
1193334 ATAC--AT--A-T-TTTAAAATAAATCAATCCATAC
131 ATACAAATAAATTATTTAAAATAAATCAATCCATAC
1193364 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1193429 TTAAAATAAAT
66 TTAAAATAAAT
1193440 TATTTTAAAA
Statistics
Matches: 552, Mismatches: 12, Indels: 18
0.95 0.02 0.03
Matches are distributed among these distances:
156 97 0.18
157 1 0.00
158 1 0.00
160 2 0.00
162 4 0.01
165 1 0.00
166 281 0.51
168 2 0.00
170 163 0.30
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (166 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAATCCATAC
Done.