Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008506.1 Hibiscus syriacus cultivar Beakdansim tig00111358_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: 1253200
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
File 4 of 6
Found at i:675488 original size:30 final size:30
Alignment explanation
Indices: 675452--675512 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
675442 TGTTTCTTCC
*
675452 CCTATGGATGAATCC-TCACCTAGTAGTCAT
1 CCTATGGATGAA-CCATCACCAAGTAGTCAT
*
675482 CCTATGGTTGAACCATCACCAAGTAGTCAT
1 CCTATGGATGAACCATCACCAAGTAGTCAT
675512 C
1 C
675513 ATGTGATTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 26 0.93
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (30 bp):
CCTATGGATGAACCATCACCAAGTAGTCAT
Found at i:678411 original size:14 final size:14
Alignment explanation
Indices: 678392--678461 Score: 86
Period size: 14 Copynumber: 4.9 Consensus size: 14
678382 TCCAATCACT
678392 GAGTCAACTCGTTC
1 GAGTCAACTCGTTC
* *
678406 GAGTCAACCCGTCC
1 GAGTCAACTCGTTC
* *
678420 GAGTCGACTCGGTC
1 GAGTCAACTCGTTC
678434 TGAGTCAACTCGTTC
1 -GAGTCAACTCGTTC
*
678449 GAGTCAACCCGTT
1 GAGTCAACTCGTT
678462 GACTTTGTTG
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.20, C:0.31, G:0.24, T:0.24
Consensus pattern (14 bp):
GAGTCAACTCGTTC
Found at i:678451 original size:29 final size:28
Alignment explanation
Indices: 678392--678456 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 28
678382 TCCAATCACT
*
678392 GAGTCAACTCGTTCGAGTCAACCCGTCC
1 GAGTCAACTCGGTCGAGTCAACCCGTCC
* * *
678420 GAGTCGACTCGGTCTGAGTCAACTCGTTC
1 GAGTCAACTCGGTC-GAGTCAACCCGTCC
678449 GAGTCAAC
1 GAGTCAAC
678457 CCGTTGACTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.22, C:0.31, G:0.25, T:0.23
Consensus pattern (28 bp):
GAGTCAACTCGGTCGAGTCAACCCGTCC
Found at i:688128 original size:45 final size:45
Alignment explanation
Indices: 688079--688189 Score: 168
Period size: 45 Copynumber: 2.5 Consensus size: 45
688069 CAGAACGACT
*
688079 CTAAACCTAATGCGGAGAATGATACCGAAGCCGATGGCAAGGAGC
1 CTAAACCTAATGCAGAGAATGATACCGAAGCCGATGGCAAGGAGC
* * * * *
688124 CTAAACCTAATACTGAGAATGCTATCGAAGCCGATGGCAAGGAGT
1 CTAAACCTAATGCAGAGAATGATACCGAAGCCGATGGCAAGGAGC
688169 CTAAACCTAATGCAGAGAATG
1 CTAAACCTAATGCAGAGAATG
688190 TCGTCGAAGA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 59 1.00
ACGTcount: A:0.37, C:0.21, G:0.25, T:0.17
Consensus pattern (45 bp):
CTAAACCTAATGCAGAGAATGATACCGAAGCCGATGGCAAGGAGC
Found at i:693114 original size:20 final size:19
Alignment explanation
Indices: 693089--693203 Score: 104
Period size: 20 Copynumber: 5.7 Consensus size: 19
693079 AATTGGGAAA
693089 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACT-ACT
693109 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAC-TACT
* *
693129 ATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTAC--T
* *
693150 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACT-ACT
* * *
693170 TTCGCAACGCGATAATACAT
1 ATCGCAATGCGATACTAC-T
693190 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
693204 TTTCAAAGCG
Statistics
Matches: 78, Mismatches: 11, Indels: 11
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.06
20 46 0.59
21 25 0.32
22 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.23
Consensus pattern (19 bp):
ATCGCAATGCGATACTACT
Found at i:693151 original size:61 final size:62
Alignment explanation
Indices: 693086--693203 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 62
693076 GTGAATTGGG
* * * *
693086 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTAC-T-ATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATA-ATACATAATCGCAATGCGATAATAC
*
693147 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATAATACATAATCGCAATGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATACATAATCGCAATGCGAT
693204 TTTCAAAGCG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
60 3 0.06
61 34 0.68
62 13 0.26
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (62 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATAATACATAATCGCAATGCGATAATAC
Found at i:693154 original size:41 final size:41
Alignment explanation
Indices: 693109--693203 Score: 136
Period size: 41 Copynumber: 2.3 Consensus size: 41
693099 GATACTGACT
* *
693109 ATCGCAATGCGATACTTACTATCGCAATGCGATAATACAAA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
* * * *
693150 ATCGCAACGAGATACTGACTTTCGCAACGCGATAATACATA
1 ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
693191 ATCGCAATGCGAT
1 ATCGCAATGCGAT
693204 TTTCAAAGCG
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
ATCGCAATGCGATACTGACTATCGCAACGCGATAATACAAA
Found at i:693717 original size:20 final size:20
Alignment explanation
Indices: 693663--693721 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
693653 TTTATTCTCT
**
693663 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
693683 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* **
693703 TGTTGCGATTTTCATTTTC
1 CGTTGCGATAGTCATTTTC
693722 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:693912 original size:25 final size:24
Alignment explanation
Indices: 693858--693912 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
693848 TGTTTATTAT
* *
693858 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
693882 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
693908 TGTTT
1 TGTTT
693913 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:695063 original size:18 final size:18
Alignment explanation
Indices: 695042--695086 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
695032 TCCACTTTGG
*
695042 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
695060 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
695078 GAGCCATCA
1 GAGCCATCA
695087 TCTGATCAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:696073 original size:19 final size:19
Alignment explanation
Indices: 696051--696181 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
696041 GGAAATTACT
696051 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
696070 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
696084 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
696103 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
* *
696117 TTCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
**
696136 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
696150 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
696169 ATCGCAACGCGAA
1 ATCGCAATGCGAA
696182 TTTAATTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 26 0.31
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.47
ACGTcount: A:0.44, C:0.20, G:0.22, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:696093 original size:33 final size:33
Alignment explanation
Indices: 696051--696177 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
696041 GGAAATTACT
696051 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
696084 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
696116 TTTCGCAATGCGAAATAAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
696150 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
696178 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
32 1 0.01
33 81 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:696158 original size:66 final size:66
Alignment explanation
Indices: 696052--696184 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
696042 GAAATTACTA
* *
696052 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
696117 T
66 T
*
696118 TCGCAATGCGAAATAAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
696183 T
66 T
696184 T
1 T
696185 AATTTCGCGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:696228 original size:33 final size:33
Alignment explanation
Indices: 696177--696258 Score: 128
Period size: 33 Copynumber: 2.5 Consensus size: 33
696167 AAATCGCAAC
* * *
696177 GCGAATTTAATTTCGCGTTGCGATTCTCTCATT
1 GCGATTTTCATTTCGCGTTGCGATCCTCTCATT
*
696210 GCGATTTTCATTTCGCGTTGCGATCCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATCCTCTCATT
696243 GCGATTTTCATTTCGC
1 GCGATTTTCATTTCGC
696259 ATTACGATAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATCCTCTCATT
Found at i:696392 original size:14 final size:14
Alignment explanation
Indices: 696373--696409 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
696363 CATCAATTAA
*
696373 ACAAATCAACTTTT
1 ACAAATCAACATTT
*
696387 ACAAATCACCATTT
1 ACAAATCAACATTT
696401 ACAAATCAA
1 ACAAATCAA
696410 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:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:697806 original size:21 final size:21
Alignment explanation
Indices: 697777--697857 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
697767 GAATGGTGGG
*
697777 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTCAACGATGAT
* * * **
697798 AGTGGCCTCTTGAACGGTGGG
1 AGGGGCCTCTTCAACGATGAT
* * *
697819 AGGGGACTC-TCGAGGAATGAT
1 AGGGGCCTCTTCAACG-ATGAT
697840 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
697858 AGGAGTACTC
Statistics
Matches: 41, Mismatches: 17, Indels: 4
0.66 0.27 0.06
Matches are distributed among these distances:
20 3 0.07
21 34 0.83
22 4 0.10
ACGTcount: A:0.23, C:0.21, G:0.33, T:0.22
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAT
Found at i:697821 original size:42 final size:41
Alignment explanation
Indices: 697762--697962 Score: 165
Period size: 42 Copynumber: 4.8 Consensus size: 41
697752 GTGAATCGGG
* *
697762 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGATAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGATAGTGGC
* *
697804 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGATAGTGGC
* * * * * * *
697846 CTCTTCAACGATAGGA-GTACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGATAGTGGC
* *
697886 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGATAGTGGC
* * * * *
697928 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGA
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGA
697963 CAGGCGAGTC
Statistics
Matches: 123, Mismatches: 28, Indels: 16
0.74 0.17 0.10
Matches are distributed among these distances:
40 27 0.22
41 11 0.09
42 78 0.63
43 7 0.06
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGATAGTGGC
Found at i:697920 original size:82 final size:83
Alignment explanation
Indices: 697792--697965 Score: 323
Period size: 82 Copynumber: 2.1 Consensus size: 83
697782 CCTCTTCAAC
*
697792 GATGATAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
697857 TAGGAGT-ACTCTTGAGG
66 TAGGAGTGACTCTTGAGG
697874 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
697939 TAGGAGTGGACTCTTGAGG
66 TAGGAGT-GACTCTTGAGG
697958 GATGACAG
1 GATGACAG
697966 GCGAGTCGGG
Statistics
Matches: 89, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
82 71 0.80
84 18 0.20
ACGTcount: A:0.24, C:0.17, G:0.37, T:0.22
Consensus pattern (83 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTGACTCTTGAGG
Found at i:698359 original size:91 final size:90
Alignment explanation
Indices: 698184--698368 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
698174 ATTTCAAACT
*
698184 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
698249 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
698277 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
698341 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
698368 T
1 T
698369 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:700118 original size:14 final size:14
Alignment explanation
Indices: 700099--700154 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
700089 GAAAATGACT
700099 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
700113 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
700130 TTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
700146 ATCGCAACG
1 ATCGCAACG
700155 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.23, G:0.25, T:0.12
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:700135 original size:33 final size:33
Alignment explanation
Indices: 700075--700171 Score: 158
Period size: 33 Copynumber: 2.9 Consensus size: 33
700065 ACGAGATAAT
*
700075 GAGAATCGCAACGCGAAAATGACTATCGCAACGA
1 GAGAATCGCAACGCG-AAATGAATATCGCAACGA
*
700109 GAGAATCGCAACGCGAAATGATTATCGCAACGA
1 GAGAATCGCAACGCGAAATGAATATCGCAACGA
*
700142 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGAATATCGCAA
700172 TGCGAAATGA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
33 45 0.75
34 15 0.25
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAATATCGCAACGA
Found at i:700137 original size:19 final size:18
Alignment explanation
Indices: 700050--700228 Score: 112
Period size: 19 Copynumber: 10.1 Consensus size: 18
700040 TCTTTTGGTT
*
700050 GAAATGAAAATCGCAACGA
1 GAAATG-AAATCGCAACGC
700069 GATAATGAGAATCGCAACGC
1 GA-AATGA-AATCGCAACGC
*
700089 GAAAATGACTATCGCAA--C
1 G-AAATGA-AATCGCAACGC
*
700107 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
700123 GAAATGATTATCGCAA--C
1 GAAATGA-AATCGCAACGC
*
700140 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
*
700156 GAAATGAAAATCGCAATGC
1 GAAATG-AAATCGCAACGC
700175 GAAATGAAAATCGCAA--C
1 GAAATG-AAATCGCAACGC
*
700192 GAGA-G-AATCGCAACGC
1 GAAATGAAATCGCAACGC
* *
700208 AAAATGAAAATCGCAATGC
1 GAAATG-AAATCGCAACGC
700227 GA
1 GA
700229 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 16, Indels: 36
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.17
16 14 0.11
17 13 0.10
18 2 0.02
19 47 0.37
20 27 0.21
21 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.23, T:0.13
Consensus pattern (18 bp):
GAAATGAAATCGCAACGC
Found at i:700178 original size:52 final size:52
Alignment explanation
Indices: 700051--700228 Score: 198
Period size: 52 Copynumber: 3.4 Consensus size: 52
700041 CTTTTGGTTG
* * * * * *
700051 AAATGAAAATCGCAACGAGATAATGAGAATCGCAACGCGAAAAT-GACTATCGCA
1 AAATGAAAATCGCAATGCGA-AATGAAAATCGCAACGAGAGAATCG-C-AACGCA
* * * ** *
700105 ACGA-GAGAATCGCAACGCGAAATGATTATCGCAACGAGAGAATCGCAACGCG
1 A-AATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCA
700157 AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCA
1 AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCA
700209 AAATGAAAATCGCAATGCGA
1 AAATGAAAATCGCAATGCGA
700229 TTTTGGTTTC
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.01
52 68 0.64
53 20 0.19
54 16 0.15
55 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (52 bp):
AAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCA
Found at i:700257 original size:19 final size:19
Alignment explanation
Indices: 700224--700290 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
700214 AAAATCGCAA
**
700224 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
700243 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
700262 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
700282 TGCGATTTT
1 TGCGATTTT
700291 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:700852 original size:20 final size:20
Alignment explanation
Indices: 700811--700922 Score: 118
Period size: 20 Copynumber: 5.5 Consensus size: 20
700801 GCTATGTAAA
* *
700811 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
700831 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * *
700851 TCGTATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
700872 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
* *
700892 TCACGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
700912 TCGCATTGCGA
1 TCGCATTGCGA
700923 ATTATGAAAA
Statistics
Matches: 75, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
19 3 0.04
20 55 0.73
21 17 0.23
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:700877 original size:41 final size:40
Alignment explanation
Indices: 700829--700922 Score: 116
Period size: 41 Copynumber: 2.3 Consensus size: 40
700819 CGATAGTAAG
* ** *
700829 ATTCGCATTGCGATTTACGTATTCGTATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCACATTGCGATTTACCT
* * *
700869 AATTCGCATTGCGATTTACTTAATCACGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCACATTGCGATTTACCT
700910 ATTCGCATTGCGA
1 ATTCGCATTGCGA
700923 ATTATGAAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 13 0.28
41 33 0.72
ACGTcount: A:0.21, C:0.20, G:0.18, T:0.40
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCACATTGCGATTTACCT
Found at i:700943 original size:21 final size:21
Alignment explanation
Indices: 700919--700974 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
700909 TATTCGCATT
*
700919 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
700940 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
700960 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
700975 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:700983 original size:21 final size:21
Alignment explanation
Indices: 700912--700984 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
700902 ATTTACGTAT
* *
700912 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
700933 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
700953 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
700974 TTGCATTGCGA
1 TCGCAATGCGA
700985 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:701060 original size:41 final size:41
Alignment explanation
Indices: 700897--701066 Score: 116
Period size: 41 Copynumber: 4.1 Consensus size: 41
700887 CTTAATCACG
*
700897 TTGCGATTTAC-GTATTCGCATTGCGAATTATGAAAATCGCA
1 TTGCGATTTACAGTA-TCGCATTGCGAATTAGGAAAATCGCA
** * * *
700938 ACGCGA-ATAC-GTAAATCGCAATGCGAATTAGGAAAATTGCA
1 TTGCGATTTACAGT--ATCGCATTGCGAATTAGGAAAATCGCA
* * * *** *
700979 TTGCGATAGT-CAGTATTGCATTGCGATTTTCCAAATTCGCA
1 TTGCGAT-TTACAGTATCGCATTGCGAATTAGGAAAATCGCA
* *
701020 TTGCGATTTAC-TTATCCGCATTGCGAATTGGGAAAATCGCA
1 TTGCGATTTACAGTAT-CGCATTGCGAATTAGGAAAATCGCA
*
701061 ATGCGA
1 TTGCGA
701067 AATTGGAAAA
Statistics
Matches: 96, Mismatches: 26, Indels: 14
0.71 0.19 0.10
Matches are distributed among these distances:
40 9 0.09
41 82 0.85
42 2 0.02
43 3 0.03
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (41 bp):
TTGCGATTTACAGTATCGCATTGCGAATTAGGAAAATCGCA
Found at i:701065 original size:21 final size:20
Alignment explanation
Indices: 701036--701087 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 20
701026 TTTACTTATC
701036 CGCATTGCGAATTGGGAAAAT
1 CGCATTGCGAATT-GGAAAAT
*
701057 CGCAATGCGAAATTGGAAAAT
1 CGCATTGCG-AATTGGAAAAT
701078 CGCATTGCGA
1 CGCATTGCGA
701088 TAGTCATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.82
22 4 0.14
ACGTcount: A:0.35, C:0.17, G:0.27, T:0.21
Consensus pattern (20 bp):
CGCATTGCGAATTGGAAAAT
Found at i:703729 original size:127 final size:128
Alignment explanation
Indices: 703385--703797 Score: 792
Period size: 128 Copynumber: 3.2 Consensus size: 128
703375 GAGTTTTAAA
*
703385 CCCCCTGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA
1 CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA
703450 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
66 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
*
703513 CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTATTGATATATCTAGTGTCCCCGA
1 CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA
703578 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
66 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
703641 -CCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA
1 CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA
703705 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
66 GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
*
703768 CCCCCGGGAACGCGCCTTTATGTGAATAGT
1 CCCCCGGGAACGCGCCTTCATGTGAATAGT
703798 ACTCCGATTA
Statistics
Matches: 280, Mismatches: 4, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
127 126 0.45
128 154 0.55
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.23
Consensus pattern (128 bp):
CCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGGTACTGATATATCTAGTGTCCCCGA
GGGACATGAGTGACATAATAGGGCAATGATAACATATTCTCTGACGAAATAATGGAAGGCGCG
Found at i:715137 original size:55 final size:55
Alignment explanation
Indices: 714802--715136 Score: 468
Period size: 55 Copynumber: 6.2 Consensus size: 55
714792 TCCACTATCA
** * * * *
714802 ATACGGAAATTCATAAACTTATTATGAATTTCTT-AGTTTTGCACACAAAGTGCTC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAG-TTTACACATAAAGTGCCC
* * *
714857 ATACGG-GATTCATCCACTTAGTATGAA--T-TT-A-TTTACACATAAAGTACTC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
*
714906 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACATATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
* *
714961 ATACAGAAATTCATCCACTTAGTATGAATTTCTTTAGTTTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
*
715016 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCTC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
* *
715071 ATACGGAAATTTATCCACATAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
1 ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
*
715126 ATACGAAAATT
1 ATACGGAAATT
715137 TTCTTAAGTT
Statistics
Matches: 253, Mismatches: 21, Indels: 12
0.88 0.07 0.04
Matches are distributed among these distances:
49 21 0.08
50 20 0.08
51 3 0.01
52 2 0.01
53 2 0.01
54 18 0.07
55 187 0.74
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (55 bp):
ATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATAAAGTGCCC
Found at i:715146 original size:37 final size:37
Alignment explanation
Indices: 715099--715173 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
715089 ATAGTATGAA
715099 TTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
1 TTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
*
715136 TTTCTTAAGTTTACACATAAAGTGCCCATACGGAAAT
1 TTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
715173 T
1 T
715174 CATAAACAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (37 bp):
TTTCTTAAGTTTACACATAAAGTGCCCATACGAAAAT
Found at i:715704 original size:21 final size:21
Alignment explanation
Indices: 715678--715730 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
715668 CCCCTCTTGG
*
715678 TATCGACACTACTTGAATCGA
1 TATCGATACTACTTGAATCGA
* *
715699 TTTCGATACCACTTGAATCGA
1 TATCGATACTACTTGAATCGA
715720 TATCGATACTA
1 TATCGATACTA
715731 TTTATAATGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (21 bp):
TATCGATACTACTTGAATCGA
Found at i:719639 original size:2 final size:2
Alignment explanation
Indices: 719632--719664 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
719622 TTTCCAGATT
719632 TA TA 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 TA TA T
719665 TTAAACATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:720343 original size:46 final size:46
Alignment explanation
Indices: 720243--720335 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
720233 AATATACCGC
*
720243 TATGCATTTTCATTTGTGGCATCCTTTCATGCCAATTATGCATTGT
1 TATGCATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGT
*
720289 TATGCATTTTCATTTATGTCATCCTTTCATGCCAATTATGCATTGT
1 TATGCATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGT
720335 T
1 T
720336 CTTCATTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.47
Consensus pattern (46 bp):
TATGCATTTTCATTTATGGCATCCTTTCATGCCAATTATGCATTGT
Found at i:720667 original size:55 final size:55
Alignment explanation
Indices: 720628--721083 Score: 689
Period size: 55 Copynumber: 8.3 Consensus size: 55
720618 AAACTTATTG
* * *
720628 TGAATTTCTT-AGTTTTGCACACAAAGTGCTCATACGGAAATTCATCCACTTAGTA
1 TGAATTTCTTAAG-TTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
720683 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
* *
720738 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGAAAATTCATCCACTTAGTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
* *
720793 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGAAAATTCATCCACTTAGTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
* * ** ** *
720848 TGAATTTATTAAGTTTACACATAAAGTGCCCATACAGAAATTCATAAACAAATTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
** *
720903 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACAAAAATTCATCCGCTTAGTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
*
720958 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAGTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
** ** *
721013 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTA
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
721068 TGAATTTCTTAAGTTT
1 TGAATTTCTTAAGTTT
721084 TTACACACTC
Statistics
Matches: 368, Mismatches: 32, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
55 366 0.99
56 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (55 bp):
TGAATTTCTTAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTA
Found at i:720907 original size:165 final size:165
Alignment explanation
Indices: 720628--721083 Score: 761
Period size: 165 Copynumber: 2.8 Consensus size: 165
720618 AAACTTATTG
* * * *
720628 TGAATTTCTT-AGTTTTGCACACAAAGTGCTCATACGGAAATTCATCCACTTAGTATGAATTTCT
1 TGAATTTCTTAAG-TTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAGTATGAATTTCT
** ** *
720692 TAAGTTTACACATAAAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACA
65 TAAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATGAATTTCTTAAGTTTACA
**
720757 CATAAAGTGCCCATATGAAAATTCATCCACTTAGTA
130 CATAAAGTGCCCATACAAAAATTCATCCACTTAGTA
* *
720793 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGAAAATTCATCCACTTAGTATGAATTTATT
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAGTATGAATTTCTT
*
720858 AAGTTTACACATAAAGTGCCCATACAGAAATTCATAAACAAATTATGAATTTCTTAAGTTTACAC
66 AAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATGAATTTCTTAAGTTTACAC
*
720923 ATAAAGTGCCCATACAAAAATTCATCCGCTTAGTA
131 ATAAAGTGCCCATACAAAAATTCATCCACTTAGTA
720958 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAGTATGAATTTCTT
1 TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAGTATGAATTTCTT
721023 AAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATGAATTTCTTAAGTTT
66 AAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATGAATTTCTTAAGTTT
721084 TTACACACTC
Statistics
Matches: 272, Mismatches: 18, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
165 270 0.99
166 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.34
Consensus pattern (165 bp):
TGAATTTCTTAAGTTTACACATAAAGTGCCCATATGGAAATTCATCCACTTAGTATGAATTTCTT
AAGTTTACACATAAAGTGCCCATACGGAAATTCATAAACAAATTATGAATTTCTTAAGTTTACAC
ATAAAGTGCCCATACAAAAATTCATCCACTTAGTA
Found at i:721405 original size:22 final size:20
Alignment explanation
Indices: 721359--721432 Score: 71
Period size: 20 Copynumber: 3.6 Consensus size: 20
721349 TTCTGGCTCA
**
721359 ATGGTATCGATACCCCTATT
1 ATGGTATCGATACTACTATT
721379 ATGGTATCGATACTACTATGTT
1 ATGGTATCGATACTACTA--TT
721401 ATGGTA-CTGATACTA-TATT
1 ATGGTATC-GATACTACTATT
* *
721420 ACGGTACCGATAC
1 ATGGTATCGATAC
721433 CATTTTTGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
19 12 0.26
20 17 0.36
21 3 0.06
22 15 0.32
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (20 bp):
ATGGTATCGATACTACTATT
Found at i:721416 original size:19 final size:19
Alignment explanation
Indices: 721392--721432 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
721382 GTATCGATAC
* * *
721392 TACTATGTTATGGTACTGA
1 TACTATATTACGGTACCGA
721411 TACTATATTACGGTACCGA
1 TACTATATTACGGTACCGA
721430 TAC
1 TAC
721433 CATTTTTGCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (19 bp):
TACTATATTACGGTACCGA
Found at i:723709 original size:189 final size:192
Alignment explanation
Indices: 723400--723752 Score: 586
Period size: 189 Copynumber: 1.8 Consensus size: 192
723390 GTCTTTTTTA
* * *
723400 CTTCTTACTTTGGTTGTGGATTTTTTTAAAAATATTTTGATTTTTAAATTCATTTTTTTCAATTA
1 CTTCTTACTTTGATTGTGAATTTTTTT--AAATATTTTAATTTTTAAATTCA-TTTTTTCAATTA
*
723465 TTTTTAACACTTCCAAACAAATTCTCTACTATTTGCTTTAGTACTTTCTTACACACCTACATCAT
63 TTTTTAACACTTCCAAACAAATTCTCCACTATTTGCTTTAGTACTTTCTTACACACCTACATCAT
723530 CTACTACATGCTTTACTACTTTTACTTACACTTTGAAACTATGCTTCCTCCAGTTGCCATCTTTG
128 CTACTACATGCTTTACTACTTTTACTTACACTTTGAAACTATGCTTCCTCCAGTTGCCATCTTTG
723595 CTTCTTACTTTGATTGTGAATTTTTTT-AATATTTTAATTTTTAAATTCA-TTTTTCAATTATTT
1 CTTCTTACTTTGATTGTGAATTTTTTTAAATATTTTAATTTTTAAATTCATTTTTTCAATTATTT
* * *
723658 TTAACACTTCCAAA-AAATTCTCCACTATTTGTTTTGGTACTTTCTTACACACTTACATCATCTA
66 TTAACACTTCCAAACAAATTCTCCACTATTTGCTTTAGTACTTTCTTACACACCTACATCATCTA
*
723722 CTACATGTTTTACTACTTTTACTTACACTTT
131 CTACATGCTTTACTACTTTTACTTACACTTT
723753 TTTTTTCAAA
Statistics
Matches: 150, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
189 76 0.51
190 28 0.19
192 21 0.14
195 25 0.17
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (192 bp):
CTTCTTACTTTGATTGTGAATTTTTTTAAATATTTTAATTTTTAAATTCATTTTTTCAATTATTT
TTAACACTTCCAAACAAATTCTCCACTATTTGCTTTAGTACTTTCTTACACACCTACATCATCTA
CTACATGCTTTACTACTTTTACTTACACTTTGAAACTATGCTTCCTCCAGTTGCCATCTTTG
Found at i:723919 original size:8 final size:8
Alignment explanation
Indices: 723908--723934 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
723898 AATAGAGTCA
723908 TTAAACTT
1 TTAAACTT
723916 TTAAACTT
1 TTAAACTT
723924 TTAAACTT
1 TTAAACTT
723932 TTA
1 TTA
723935 GTTCGTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (8 bp):
TTAAACTT
Found at i:727497 original size:16 final size:16
Alignment explanation
Indices: 727476--727507 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
727466 TTTTGTACAC
*
727476 TGCAAGTAAACAATAA
1 TGCAAGCAAACAATAA
727492 TGCAAGCAAACAATAA
1 TGCAAGCAAACAATAA
727508 AAACAACTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.56, C:0.16, G:0.12, T:0.16
Consensus pattern (16 bp):
TGCAAGCAAACAATAA
Found at i:736043 original size:2 final size:2
Alignment explanation
Indices: 736036--736068 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
736026 ACAAATTATC
736036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
736069 GACGTTTCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:736382 original size:14 final size:15
Alignment explanation
Indices: 736351--736387 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
736341 TCTATCTCAT
736351 TTTTGATTTCCTTTA
1 TTTTGATTTCCTTTA
*
736366 TTTTGTTTTCC-TTA
1 TTTTGATTTCCTTTA
736380 TTTT-ATTT
1 TTTTGATTT
736388 GTTTTTAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 3 0.15
14 7 0.35
15 10 0.50
ACGTcount: A:0.11, C:0.11, G:0.05, T:0.73
Consensus pattern (15 bp):
TTTTGATTTCCTTTA
Found at i:748553 original size:20 final size:20
Alignment explanation
Indices: 748502--748554 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
748492 AATGTTTTAA
*
748502 AGTATCGATAC-TTATATAG
1 AGTATCGATACTTTACATAG
* *
748521 AGTATTGAAACTTTAGCAT-G
1 AGTATCGATACTTTA-CATAG
748541 AGTATCGATACTTT
1 AGTATCGATACTTT
748555 CAATCTATTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 9 0.33
20 16 0.59
21 2 0.07
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (20 bp):
AGTATCGATACTTTACATAG
Found at i:749108 original size:17 final size:17
Alignment explanation
Indices: 749088--749122 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
749078 AGTAGAATAG
749088 AACAGATAATAGAACAA
1 AACAGATAATAGAACAA
* *
749105 AACAGTTAGTAGAACAA
1 AACAGATAATAGAACAA
749122 A
1 A
749123 TAGCAGTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.60, C:0.11, G:0.14, T:0.14
Consensus pattern (17 bp):
AACAGATAATAGAACAA
Found at i:751006 original size:29 final size:30
Alignment explanation
Indices: 750964--751020 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
750954 CTTTGGTTTT
750964 AATTTAGTGTCTAACATT-TATTTCGATTC
1 AATTTAGTGTCTAACATTCTATTTCGATTC
*
750993 AATTTGGTGTCTAACATTCTATTTCGAT
1 AATTTAGTGTCTAACATTCTATTTCGAT
751021 ACTCATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.47
Consensus pattern (30 bp):
AATTTAGTGTCTAACATTCTATTTCGATTC
Found at i:755537 original size:108 final size:107
Alignment explanation
Indices: 755348--755557 Score: 384
Period size: 108 Copynumber: 2.0 Consensus size: 107
755338 ACTTAGTAAT
755348 GCATAAACAAACCGACTATAGCATATCATAACTAATTCATATTATGCACATTTCATGTAATCATG
1 GCATAAACAAACCGACTATAGCATATCATAACTAATTCATATTATGCACATTTCATGTAATCATG
* *
755413 ATAAACCATAAAATGCATCTATATATATATATCATATACATAG
66 ATAAACCATAAAATGCATCCAAATATATATAT-ATATACATAG
*
755456 GCATAAACAAACCGACTATAGCATATCATAACTAATTCCTATTATGCACATTTCATGTAATCATG
1 GCATAAACAAACCGACTATAGCATATCATAACTAATTCATATTATGCACATTTCATGTAATCATG
755521 ATAAACCATAAAATGCATCCAAATATATATATATATA
66 ATAAACCATAAAATGCATCCAAATATATATATATATA
755558 TATATATATA
Statistics
Matches: 99, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
107 5 0.05
108 94 0.95
ACGTcount: A:0.44, C:0.18, G:0.07, T:0.31
Consensus pattern (107 bp):
GCATAAACAAACCGACTATAGCATATCATAACTAATTCATATTATGCACATTTCATGTAATCATG
ATAAACCATAAAATGCATCCAAATATATATATATATACATAG
Found at i:755550 original size:2 final size:2
Alignment explanation
Indices: 755543--755609 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
755533 ATGCATCCAA
755543 AT AT AT 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
*
755585 AT AT AT AT AT A- AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
755610 TATTTCACAA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:755978 original size:23 final size:22
Alignment explanation
Indices: 755952--756029 Score: 59
Period size: 23 Copynumber: 3.4 Consensus size: 22
755942 CACCACAGCT
755952 CGTATAAATGCACTGAAGTGCCA
1 CGTA-AAATGCACTGAAGTGCCA
* *
755975 CGTAGAATCGCACCT-AAGTGCCG
1 CGTAAAAT-GCA-CTGAAGTGCCA
* *
755998 CGTAGAAATGCACCGAAATGCCA
1 CGTA-AAATGCACTGAAGTGCCA
**
756021 TATAAAATG
1 CGTAAAATG
756030 TCCCTAAGGA
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
22 9 0.21
23 29 0.67
24 5 0.12
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.19
Consensus pattern (22 bp):
CGTAAAATGCACTGAAGTGCCA
Found at i:757757 original size:64 final size:64
Alignment explanation
Indices: 757626--757747 Score: 156
Period size: 64 Copynumber: 1.9 Consensus size: 64
757616 TCTTGAACAT
* *
757626 GTGCATCGATGCACTACCCATGCATCCATACACAAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCCATACACAAATCACATTCGATGTTTCCATTTTAAGGGG
* * * * **
757690 GTGCATCGATGCACT-CCTTATGCATCGATGCACTAATTGCATTCGATGTTTCCATTTT
1 GTGCATCGATGCACTACC-CATGCATCCATACACAAATCACATTCGATGTTTCCATTTT
757748 TAATGGGTGC
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 2 0.04
64 47 0.96
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (64 bp):
GTGCATCGATGCACTACCCATGCATCCATACACAAATCACATTCGATGTTTCCATTTTAAGGGG
Found at i:763238 original size:20 final size:20
Alignment explanation
Indices: 763213--763268 Score: 85
Period size: 20 Copynumber: 2.8 Consensus size: 20
763203 CATGTCGGGT
*
763213 TGACTCGGTTCGGGTTAGGA
1 TGACTCGGTTCGGGTCAGGA
* *
763233 TGACTCGGTTCAGGTCAGGG
1 TGACTCGGTTCGGGTCAGGA
763253 TGACTCGGTTCGGGTC
1 TGACTCGGTTCGGGTC
763269 GGGTTGGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.12, C:0.20, G:0.39, T:0.29
Consensus pattern (20 bp):
TGACTCGGTTCGGGTCAGGA
Found at i:763936 original size:7 final size:7
Alignment explanation
Indices: 763926--763981 Score: 112
Period size: 7 Copynumber: 8.0 Consensus size: 7
763916 AAAAATTTAA
763926 AAATTTT
1 AAATTTT
763933 AAATTTT
1 AAATTTT
763940 AAATTTT
1 AAATTTT
763947 AAATTTT
1 AAATTTT
763954 AAATTTT
1 AAATTTT
763961 AAATTTT
1 AAATTTT
763968 AAATTTT
1 AAATTTT
763975 AAATTTT
1 AAATTTT
763982 CACTTGTTAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AAATTTT
Found at i:765857 original size:16 final size:15
Alignment explanation
Indices: 765825--765893 Score: 52
Period size: 15 Copynumber: 4.5 Consensus size: 15
765815 TATTTTATAA
765825 TAATTTTTAAAATTT
1 TAATTTTTAAAATTT
765840 TAATTTTTGAATAATTT
1 TAATTTTT-AA-AATTT
* * * *
765857 AAAATTTTATAGTTT
1 TAATTTTTAAAATTT
765872 CTAA-TTTTATAAATTT
1 -TAATTTTTA-AAATTT
765888 T-ATTTT
1 TAATTTT
765894 ACTTTTAAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
14 1 0.02
15 21 0.50
16 9 0.21
17 11 0.26
ACGTcount: A:0.36, C:0.01, G:0.03, T:0.59
Consensus pattern (15 bp):
TAATTTTTAAAATTT
Found at i:765963 original size:18 final size:18
Alignment explanation
Indices: 765904--765967 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
765894 ACTTTTAAAT
*
765904 TTTTTAATAGTGTTTT-TA
1 TTTTTAATA-TTTTTTATA
* *
765922 TTTTTAATAACTTTCTA-A
1 TTTTTAAT-ATTTTTTATA
*
765940 TATTTAATATTTTTTATA
1 TTTTTAATATTTTTTATA
765958 TTTTT-ATATT
1 TTTTTAATATT
765968 GAAATTTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
17 11 0.31
18 24 0.67
19 1 0.03
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTTAATATTTTTTATA
Found at i:769394 original size:63 final size:63
Alignment explanation
Indices: 769295--769439 Score: 272
Period size: 63 Copynumber: 2.3 Consensus size: 63
769285 ATTAATTGTG
769295 TTACATGTTCTCTACATTTGTTTACTGAAATTGGTTCTAGGTTAATTATGTACTAAAATTTTC
1 TTACATGTTCTCTACATTTGTTTACTGAAATTGGTTCTAGGTTAATTATGTACTAAAATTTTC
* *
769358 TTACATGTTCTCTACATTTGTTTACTGAAATTGGTTCTAGGTTAATTGTGTACTGAAATTTTC
1 TTACATGTTCTCTACATTTGTTTACTGAAATTGGTTCTAGGTTAATTATGTACTAAAATTTTC
769421 TTACATGTTCTCTACATTT
1 TTACATGTTCTCTACATTT
769440 CAATTTCAGG
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 80 1.00
ACGTcount: A:0.25, C:0.14, G:0.13, T:0.48
Consensus pattern (63 bp):
TTACATGTTCTCTACATTTGTTTACTGAAATTGGTTCTAGGTTAATTATGTACTAAAATTTTC
Found at i:781535 original size:126 final size:126
Alignment explanation
Indices: 781377--781630 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
781367 ATCGATACTC
781377 ATTCAAGAGTATCGATACCGGGGTCACGGTCTCAAGACTCCCAGGCATGATATCGAGACCCATTT
1 ATTCAAGAGTATCGATACCGGGGTCACGGTCTCAAGACTCCCAGGCATGATATCGAGACCCATTT
781442 TCCAGTAGCCTTTTTAGTTTCGGTACTTTCATAGAGTATCGAAACTAAGTCAAGGGTACCG
66 TCCAGTAGCCTTTTTAGTTTCGGTACTTTCATAGAGTATCGAAACTAAGTCAAGGGTACCG
781503 ATTCAAGAGTATCGATACCGGGGTCACGGTCTCAAGACTCCCAGGCATGATATCGAGACCCATTT
1 ATTCAAGAGTATCGATACCGGGGTCACGGTCTCAAGACTCCCAGGCATGATATCGAGACCCATTT
*
781568 TCCAGTAGCCTTTTTAGTTTCGGTACTTTCATAGAGTATCGAAACTAAGTCAAGGGTATCG
66 TCCAGTAGCCTTTTTAGTTTCGGTACTTTCATAGAGTATCGAAACTAAGTCAAGGGTACCG
781629 AT
1 AT
781631 ACTGAAGGGT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (126 bp):
ATTCAAGAGTATCGATACCGGGGTCACGGTCTCAAGACTCCCAGGCATGATATCGAGACCCATTT
TCCAGTAGCCTTTTTAGTTTCGGTACTTTCATAGAGTATCGAAACTAAGTCAAGGGTACCG
Found at i:783127 original size:100 final size:100
Alignment explanation
Indices: 782949--783214 Score: 496
Period size: 100 Copynumber: 2.6 Consensus size: 100
782939 CAAGTAAAGG
*
782949 AAGATGATGCTTCAACCATAATAAAACACCATAGGCCATTTCAAGAATTGAAATACAGGTCCAAG
1 AAGA-GATGCTTCAACCATAATAAAACACCATAGGCCATTTCAAGAAGTGAAATACAGGTCCAAG
783014 ACATCACGCTTTGAAACAGTACAGCACGATGTTGAT
65 ACATCACGCTTTGAAACAGTACAGCACGATGTTGAT
*
783050 AAGAGATGCTTCAACCATAATAACACACCATAGGCCATTTCAAGAAGTGAAATACAGGTCCAAGA
1 AAGAGATGCTTCAACCATAATAAAACACCATAGGCCATTTCAAGAAGTGAAATACAGGTCCAAGA
*
783115 CATCACGCTTTGAAACAGTACATCACGATGTTGAT
66 CATCACGCTTTGAAACAGTACAGCACGATGTTGAT
783150 AAGAGATGCTTCAACCATAATAAAACACCATAGGCCATTTCAAGAAGTGAAATACAGGTCCAAGA
1 AAGAGATGCTTCAACCATAATAAAACACCATAGGCCATTTCAAGAAGTGAAATACAGGTCCAAGA
783215 GGGATAGTGA
Statistics
Matches: 161, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
100 157 0.98
101 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (100 bp):
AAGAGATGCTTCAACCATAATAAAACACCATAGGCCATTTCAAGAAGTGAAATACAGGTCCAAGA
CATCACGCTTTGAAACAGTACAGCACGATGTTGAT
Found at i:784046 original size:2 final size:2
Alignment explanation
Indices: 784039--784092 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
784029 CAACAGGCTG
784039 AT AT AT 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
784081 AT AT AT AT AT AT
1 AT AT AT AT AT AT
784093 CATTCTCCAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:787089 original size:22 final size:22
Alignment explanation
Indices: 787064--787105 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
787054 CAAGGGAAAG
787064 CATTGAACT-TCATAGAAAATTC
1 CATTGAA-TATCATAGAAAATTC
787086 CATTGAATATCATAGAAAAT
1 CATTGAATATCATAGAAAAT
787106 ACCACAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (22 bp):
CATTGAATATCATAGAAAATTC
Found at i:787153 original size:29 final size:29
Alignment explanation
Indices: 787121--787206 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
787111 AAAATTTTGG
* *
787121 TTAGTGACCAAAATATAATTATTGAAA-TT
1 TTAGTGACCAAAGTATAATT-TTGAAACGT
*
787150 TTAGTGGCCAAAGTATAAATTTTGGAAACGT
1 TTAGTGACCAAAGTAT-AATTTT-GAAACGT
*
787181 TTAGGGACCAAAGTATAATTTTGAAA
1 TTAGTGACCAAAGTATAATTTTGAAA
787207 AGTTATGTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
29 20 0.41
30 14 0.29
31 15 0.31
ACGTcount: A:0.41, C:0.08, G:0.17, T:0.34
Consensus pattern (29 bp):
TTAGTGACCAAAGTATAATTTTGAAACGT
Found at i:788048 original size:17 final size:18
Alignment explanation
Indices: 788004--788048 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
787994 AAAGTTAGGG
788004 TTTTGGTATGATGTTGAA
1 TTTTGGTATGATGTTGAA
* *
788022 TTTGGGTATGATTTTG-A
1 TTTTGGTATGATGTTGAA
*
788039 TTTTGATATG
1 TTTTGGTATG
788049 GTTAAGATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
17 9 0.39
18 14 0.61
ACGTcount: A:0.20, C:0.00, G:0.27, T:0.53
Consensus pattern (18 bp):
TTTTGGTATGATGTTGAA
Found at i:790290 original size:27 final size:27
Alignment explanation
Indices: 790227--790291 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
790217 ACAATACCTG
*
790227 TATATTCTATATGGCACTATATGTACAA
1 TATATT-TATATGGCACTAAATGTACAA
*
790255 -AT-TGGTTATATGGCACTAAATGTGCAA
1 TATAT--TTATATGGCACTAAATGTACAA
790282 TATATTTATA
1 TATATTTATA
790292 CTCATCATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
26 1 0.03
27 26 0.84
28 3 0.10
29 1 0.03
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (27 bp):
TATATTTATATGGCACTAAATGTACAA
Found at i:791540 original size:20 final size:20
Alignment explanation
Indices: 791495--791540 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
791485 AAAATATATT
791495 ATTTTATTATGAGTTAAAAA
1 ATTTTATTATGAGTTAAAAA
* *
791515 AATTTATTTATGAGTT-ATAA
1 ATTTTA-TTATGAGTTAAAAA
791535 ATTTTA
1 ATTTTA
791541 ATCAAATCTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (20 bp):
ATTTTATTATGAGTTAAAAA
Found at i:796569 original size:17 final size:17
Alignment explanation
Indices: 796547--796579 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
796537 TATTTTATGA
*
796547 AAGAAAAAGAATAAAAT
1 AAGAAAAAGAACAAAAT
796564 AAGAAAAAGAACAAAA
1 AAGAAAAAGAACAAAA
796580 AAATATGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (17 bp):
AAGAAAAAGAACAAAAT
Found at i:799578 original size:34 final size:34
Alignment explanation
Indices: 799535--799644 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 34
799525 GGTAAGAAAT
* * *
799535 TTATTTTTATGTTAGTAT-TTT-TTTAAATAGTTA
1 TTATTTTTATATTAATATATTTATGTAAATA-TTA
799568 TTATATTTTATATTAATATATTTATGTAAATATTA
1 TTAT-TTTTATATTAATATATTTATGTAAATATTA
* *
799603 TT-TTTTT-TATTAAAATAATATTTATATAATTATTA
1 TTATTTTTATATT--AAT-ATATTTATGTAAATATTA
799638 TTTATTT
1 -TTATTT
799645 AGAATTATTA
Statistics
Matches: 64, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
32 4 0.06
33 8 0.12
34 16 0.25
35 24 0.38
36 9 0.14
37 3 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (34 bp):
TTATTTTTATATTAATATATTTATGTAAATATTA
Found at i:799604 original size:35 final size:35
Alignment explanation
Indices: 799558--799644 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
799548 AGTATTTTTT
*
799558 TAAATAGTTATTATATTTTATATT-AAT-ATATTTATG
1 TAAATA-TTATT-TATTTT-TATTAAATAATATTTATA
799594 TAAATATTATTT-TTTTTATTAAAATAATATTTATA
1 TAAATATTATTTATTTTTATT-AAATAATATTTATA
*
799629 TAATTATTATTTATTT
1 TAAATATTATTTATTT
799645 AGAATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 4 0.09
33 4 0.09
34 4 0.09
35 24 0.53
36 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
TAAATATTATTTATTTTTATTAAATAATATTTATA
Found at i:799809 original size:17 final size:17
Alignment explanation
Indices: 799787--799840 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
799777 AATGTTAATA
799787 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
799804 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
799821 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
799838 TTT
1 TTT
799841 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:804029 original size:11 final size:11
Alignment explanation
Indices: 804013--804060 Score: 62
Period size: 11 Copynumber: 4.5 Consensus size: 11
804003 TTCATTTTTT
*
804013 TAAAAAATAAA
1 TAAAAAATGAA
804024 T-AAAAATGAA
1 TAAAAAATGAA
*
804034 TTAAAAATGAA
1 TAAAAAATGAA
*
804045 TTAAAAATGAA
1 TAAAAAATGAA
804056 TAAAA
1 TAAAA
804061 TTCAATACAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
10 9 0.26
11 25 0.74
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (11 bp):
TAAAAAATGAA
Found at i:805287 original size:16 final size:18
Alignment explanation
Indices: 805238--805288 Score: 61
Period size: 20 Copynumber: 2.8 Consensus size: 18
805228 TTTAATAAAA
805238 TTAAAATTTAATATTTAT
1 TTAAAATTTAATATTTAT
*
805256 TTAATATATTTTATATTT-T
1 TTAA-A-ATTTAATATTTAT
805275 TTAAAA-TTAATATT
1 TTAAAATTTAATATT
805289 AGAAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 7 0.24
17 1 0.03
18 5 0.17
19 6 0.21
20 10 0.34
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAAATTTAATATTTAT
Found at i:805393 original size:10 final size:10
Alignment explanation
Indices: 805338--805396 Score: 73
Period size: 10 Copynumber: 5.7 Consensus size: 10
805328 TTTACATTAT
*
805338 ATTTTTATTG
1 ATTTTTATTC
*
805348 AATTTTATTC
1 ATTTTTATTC
805358 ATTTTTAATTC
1 ATTTTT-ATTC
805369 ATTTTTATTGC
1 ATTTTTATT-C
*
805380 ATTTTTATTT
1 ATTTTTATTC
805390 ATTTTTA
1 ATTTTTA
805397 AAAAAGTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
10 23 0.53
11 20 0.47
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:805393 original size:21 final size:20
Alignment explanation
Indices: 805338--805396 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
805328 TTTACATTAT
* *
805338 ATTTTTATTGAATTTTATTC
1 ATTTTTATTCATTTTTATTC
805358 ATTTTTAATTCATTTTTATTGC
1 ATTTTT-ATTCATTTTTATT-C
*
805380 ATTTTTATTTATTTTTA
1 ATTTTTATTCATTTTTA
805397 AAAAAGTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.18
21 21 0.62
22 7 0.21
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (20 bp):
ATTTTTATTCATTTTTATTC
Found at i:806729 original size:3 final size:3
Alignment explanation
Indices: 806723--806761 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
806713 ATCTTTTATT
806723 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
806762 TATTTATGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:807166 original size:11 final size:11
Alignment explanation
Indices: 807118--807175 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
807108 AGTAACCAAC
807118 ATAACAAACTA
1 ATAACAAACTA
* *
807129 ATAACCAGCTA
1 ATAACAAACTA
**
807140 ATAAC-AACCC
1 ATAACAAACTA
807150 ATAACAAACTA
1 ATAACAAACTA
807161 ATAACAAACTA
1 ATAACAAACTA
807172 ATAA
1 ATAA
807176 TACTCTAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 7 0.18
11 32 0.82
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:810026 original size:11 final size:11
Alignment explanation
Indices: 809978--810035 Score: 73
Period size: 11 Copynumber: 5.4 Consensus size: 11
809968 AGTAACCAAC
809978 ATAACAAACTA
1 ATAACAAACTA
* *
809989 ATAACCAGCTA
1 ATAACAAACTA
**
810000 ATAAC-AACCC
1 ATAACAAACTA
810010 ATAACAAACTA
1 ATAACAAACTA
810021 ATAACAAACTA
1 ATAACAAACTA
810032 ATAA
1 ATAA
810036 TACTCTAACA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 7 0.18
11 32 0.82
ACGTcount: A:0.59, C:0.22, G:0.02, T:0.17
Consensus pattern (11 bp):
ATAACAAACTA
Found at i:815044 original size:2 final size:2
Alignment explanation
Indices: 815037--815069 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
815027 AACTTTTGGA
815037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
815070 AATAAGAGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:815449 original size:14 final size:14
Alignment explanation
Indices: 815408--815451 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
815398 TCGATTATAT
* *
815408 GTTCGTTTATGTTT
1 GTTCATTTATGTTC
815422 GTTCATTTATGTTC
1 GTTCATTTATGTTC
*
815436 GTTCATTTACGTTC
1 GTTCATTTATGTTC
815450 GT
1 GT
815452 GAACGTTAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.11, C:0.14, G:0.18, T:0.57
Consensus pattern (14 bp):
GTTCATTTATGTTC
Found at i:815449 original size:24 final size:27
Alignment explanation
Indices: 815394--815450 Score: 68
Period size: 24 Copynumber: 2.3 Consensus size: 27
815384 TCGTTCGTGA
*
815394 ACGTTCGATTATATGTTCGTTTATGTT
1 ACGTTCGATTATATGTTCGTTCATGTT
*
815421 -TGTTC-ATT-TATGTTCGTTCAT-TT
1 ACGTTCGATTATATGTTCGTTCATGTT
815444 ACGTTCG
1 ACGTTCG
815451 TGAACGTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
23 2 0.08
24 16 0.64
25 3 0.12
26 4 0.16
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.53
Consensus pattern (27 bp):
ACGTTCGATTATATGTTCGTTCATGTT
Found at i:815813 original size:24 final size:24
Alignment explanation
Indices: 815758--815839 Score: 112
Period size: 24 Copynumber: 3.5 Consensus size: 24
815748 GTGTTTGTGT
* *
815758 TGTTCGTTTATGTTCGTTTATT-G
1 TGTTCGTTTATATTCGTTCATTCG
* *
815781 TGTTTGTTTATATTCGTTCGTTCG
1 TGTTCGTTTATATTCGTTCATTCG
*
815805 TGTTCGTTTATATTCGTTCTTTCG
1 TGTTCGTTTATATTCGTTCATTCG
815829 TGTTCGTTTAT
1 TGTTCGTTTAT
815840 TGTTTAAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 18 0.35
24 34 0.65
ACGTcount: A:0.09, C:0.12, G:0.20, T:0.60
Consensus pattern (24 bp):
TGTTCGTTTATATTCGTTCATTCG
Found at i:815930 original size:16 final size:16
Alignment explanation
Indices: 815905--815945 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
815895 AAAAAAAATT
*
815905 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
815921 TGTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
815937 T-TT-ATTTAT
1 TGTTCATTTAT
815946 TAAATAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 6 0.25
15 2 0.08
16 16 0.67
ACGTcount: A:0.12, C:0.10, G:0.17, T:0.61
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:823021 original size:26 final size:23
Alignment explanation
Indices: 822969--823015 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
822959 CTATTGATTT
822969 TAAAACCTTGTTAATTATTAAGG
1 TAAAACCTTGTTAATTATTAAGG
822992 TAAAACCTTGTTAATTATTAAGG
1 TAAAACCTTGTTAATTATTAAGG
823015 T
1 T
823016 GATAAAGTCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
TAAAACCTTGTTAATTATTAAGG
Found at i:831477 original size:2 final size:2
Alignment explanation
Indices: 831470--831501 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
831460 TTTAAAAGAT
831470 TA TA TA TA TA TA TA TA TA TA TA TA TCA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
831502 CATACAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:834437 original size:25 final size:25
Alignment explanation
Indices: 834406--834455 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
834396 ATTTATTTTT
*
834406 AATTAAATTATATATTTATTATAAA
1 AATTAAACTATATATTTATTATAAA
834431 AATTAAACTATATATTTATTATAAA
1 AATTAAACTATATATTTATTATAAA
834456 CTTTTTACCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTAAACTATATATTTATTATAAA
Found at i:834561 original size:112 final size:114
Alignment explanation
Indices: 834439--834665 Score: 404
Period size: 112 Copynumber: 2.0 Consensus size: 114
834429 AAAATTAAAC
834439 TATATATTTATTATAAACTTTTTACCAAATTGATATTACGAGGTTAATCAGGTACC-A-AATTAG
1 TATATATTTATTATAAACTTTTTACCAAATTGATATTACGAGGTTAATCAGGTACCGATAATTAG
834502 AAAATGGTTAAAATATTTTTACTTTAAATGATAATTAATATAATTTGAT
66 AAAATGGTTAAAATATTTTTACTTTAAATGATAATTAATATAATTTGAT
*
834551 TATATATTTATTATAAACTTTTTTCCAAATTGATATTACGAGGTTAATCAGGTACCGATGTAATT
1 TATATATTTATTATAAACTTTTTACCAAATTGATATTACGAGGTTAATCAGGTACCGA--TAATT
*
834616 AGAAAATGGTTAAAATATTTTTACTTTAAATTATAATTAATATAATTTGA
64 AGAAAATGGTTAAAATATTTTTACTTTAAATGATAATTAATATAATTTGA
834666 GTGTTTTTAT
Statistics
Matches: 109, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
112 55 0.50
113 1 0.01
116 53 0.49
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (114 bp):
TATATATTTATTATAAACTTTTTACCAAATTGATATTACGAGGTTAATCAGGTACCGATAATTAG
AAAATGGTTAAAATATTTTTACTTTAAATGATAATTAATATAATTTGAT
Found at i:840745 original size:12 final size:12
Alignment explanation
Indices: 840728--840758 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
840718 ATTTTCGGCT
840728 ATTTAAAATAAA
1 ATTTAAAATAAA
840740 ATTTAAAATAAA
1 ATTTAAAATAAA
840752 ATTTAAA
1 ATTTAAA
840759 TATTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATTTAAAATAAA
Found at i:840988 original size:15 final size:15
Alignment explanation
Indices: 840968--840998 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
840958 AATACGGGCT
*
840968 TTTAAGCCCGCTCCG
1 TTTAAGCCCGCACCG
840983 TTTAAGCCCGCACCG
1 TTTAAGCCCGCACCG
840998 T
1 T
840999 CAAAACCCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.39, G:0.19, T:0.26
Consensus pattern (15 bp):
TTTAAGCCCGCACCG
Found at i:843757 original size:20 final size:20
Alignment explanation
Indices: 843734--843784 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
843724 CATTACCACC
843734 AAATGCAACTACATGGATCT
1 AAATGCAACTACATGGATCT
843754 AAATGCAACTACATGGATCT
1 AAATGCAACTACATGGATCT
843774 AAATGCAACTA
1 AAATGCAACTA
843785 TATGTAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.24
Consensus pattern (20 bp):
AAATGCAACTACATGGATCT
Found at i:846305 original size:70 final size:70
Alignment explanation
Indices: 846189--846336 Score: 219
Period size: 70 Copynumber: 2.1 Consensus size: 70
846179 AAAACAATCC
* *
846189 TCAATTTCATTCTAAACCATAAATTCCAAAGTAATTCAAATTCATTC-GAAACCACAAATTCCAA
1 TCAATTTCATTCTAAACCATAAATTCCAAAATAATTCAAATTCATTCTAAAACC-CAAATTCCAA
*
846253 AGTAAT
65 AATAAT
*
846259 TCAATTTCATTCTAAACCATAAATTCCAAAATAATTC-AATTACATTCTAAAACCCAAATTCTAA
1 TCAATTTCATTCTAAACCATAAATTCCAAAATAATTCAAATT-CATTCTAAAACCCAAATTCCAA
*
846323 AATACT
65 AATAAT
846329 TCAATTTC
1 TCAATTTC
846337 CGTCTTTTTT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
69 4 0.06
70 62 0.87
71 5 0.07
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (70 bp):
TCAATTTCATTCTAAACCATAAATTCCAAAATAATTCAAATTCATTCTAAAACCCAAATTCCAAA
ATAAT
Found at i:846318 original size:35 final size:35
Alignment explanation
Indices: 846189--846336 Score: 199
Period size: 35 Copynumber: 4.2 Consensus size: 35
846179 AAAACAATCC
* *
846189 TCAATTTCATTCTAAACCATAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
* * *
846224 TCAAATTCATTCGAAACCACAAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
*
846259 TCAATTTCATTCTAAACCATAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
* * *
846294 TCAATTACATTCTAAAACC-CAAATTCTAAAATACT
1 TCAATTTCATTCT-AAACCACAAATTCCAAAATAAT
846329 TCAATTTC
1 TCAATTTC
846337 CGTCTTTTTT
Statistics
Matches: 100, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
35 95 0.95
36 5 0.05
ACGTcount: A:0.44, C:0.22, G:0.02, T:0.32
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCACAAATTCCAAAATAAT
Found at i:847443 original size:35 final size:34
Alignment explanation
Indices: 847395--847506 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 34
847385 ATTCCTCCTT
* * *
847395 AAATTGAAATATTTTAGAATTTGGGTTTTAGATTG
1 AAATTGAATTATTTTGGAATTTGGG-TTTAGAATG
*
847430 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
*
847465 AAATTGAATTACTTTGGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTT-GGGTTTAGAATG
847500 AAATTGA
1 AAATTGA
847507 GTAATGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 66 0.96
36 3 0.04
ACGTcount: A:0.34, C:0.01, G:0.22, T:0.43
Consensus pattern (34 bp):
AAATTGAATTATTTTGGAATTTGGGTTTAGAATG
Found at i:855036 original size:31 final size:31
Alignment explanation
Indices: 854966--855043 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
854956 ATTCAACGTC
* * *
854966 TAAATGACCAAAACTTAATAAAACGATGACG
1 TAAATGACCAAAACTTAATAAAACAATAACA
*
854997 TAAATGACCAAAACTTAATAAAATAATAACA
1 TAAATGACCAAAACTTAATAAAACAATAACA
*
855028 TAAGTGACC-AAACTTA
1 TAAATGACCAAAACTTA
855044 TGTTTTATGA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 7 0.17
31 35 0.83
ACGTcount: A:0.54, C:0.15, G:0.09, T:0.22
Consensus pattern (31 bp):
TAAATGACCAAAACTTAATAAAACAATAACA
Found at i:855866 original size:182 final size:182
Alignment explanation
Indices: 855546--856147 Score: 920
Period size: 182 Copynumber: 3.3 Consensus size: 182
855536 AGTTAAAAAT
* * * * * *
855546 ATGACAAAATCGGTAAAGCGCTACCGGATATGTTGAAAGTATCGATTAGATTGAA-ATAAGTATC
1 ATGACAAAACCTGTAAAGCACTACCGGATATATTGAAAGTATCGA-TA-CTTTAATATAAGTATC
* * *
855610 GACACTTTGAGAATTTAAAAGAGAAGCAGTAATAGTGCCTATAAAGTGTCGATACTTAATAAAAA
64 GACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAA
* * **
855675 TGTATCGATCCATAACAATATAACAGGTAAAAATACGACAAAATCGGTCTAAAA
129 TGTATCGATCCATAACGATATAACAGGTAAAAATACGACAAAACCGGTCTCGAA
* *
855729 AAGATAAAACCTGTAAAGCACTACCGGATATATTGAAAGTATCGATACTTTAATATAAGTATCGA
1 ATGACAAAACCTGTAAAGCACTACCGGATATATTGAAAGTATCGATACTTTAATATAAGTATCGA
* *
855794 CACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCACCTATAAAGTGTCGATACTTTATAAAAATA
66 CACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATG
*
855859 TATCGATCCATAACGATATAACAGGTAAAAATACGACAAAACCGGTCCCGAA
131 TATCGATCCATAACGATATAACAGGTAAAAATACGACAAAACCGGTCTCGAA
* * * *
855911 ATGACAAAA-ATGGTAAAGCGCTACCGGATATATTCAAAGTGTCGATACTTTAATATAAGTATCG
1 ATGACAAAACCT-GTAAAGCACTACCGGATATATTGAAAGTATCGATACTTTAATATAAGTATCG
* *
855975 ACACTTTGGGAATTTAAACGAGATGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAAT
65 ACACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAAT
*
856040 GTATCGATCCATAACGATATAACAGGTAAAAATATGACAAAACCGGTCTCGAA
130 GTATCGATCCATAACGATATAACAGGTAAAAATACGACAAAACCGGTCTCGAA
* *
856093 ATGACAAAACCGGTAAAGCACTACCGGATATATTGAAAGTGTCGATACTTTAATA
1 ATGACAAAACCTGTAAAGCACTACCGGATATATTGAAAGTATCGATACTTTAATA
856148 AGTACGCGTA
Statistics
Matches: 382, Mismatches: 34, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
181 5 0.01
182 338 0.88
183 39 0.10
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (182 bp):
ATGACAAAACCTGTAAAGCACTACCGGATATATTGAAAGTATCGATACTTTAATATAAGTATCGA
CACTTTGGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTATAAAAATG
TATCGATCCATAACGATATAACAGGTAAAAATACGACAAAACCGGTCTCGAA
Found at i:859616 original size:25 final size:25
Alignment explanation
Indices: 859587--859636 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
859577 GATTAGGGGT
859587 ACTGAAGCATAAACATGTAGGGATA
1 ACTGAAGCATAAACATGTAGGGATA
*
859612 ACTGAAGCATAAACATGTAGTGATA
1 ACTGAAGCATAAACATGTAGGGATA
859637 TGGTGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (25 bp):
ACTGAAGCATAAACATGTAGGGATA
Found at i:860147 original size:18 final size:18
Alignment explanation
Indices: 860124--860167 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
860114 GTTCTACATG
860124 GTCCTACGGGACATAGGT
1 GTCCTACGGGACATAGGT
* *
860142 GTCCTACGGGATATATGT
1 GTCCTACGGGACATAGGT
*
860160 GTTCTACG
1 GTCCTACG
860168 TGGTCCTACG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (18 bp):
GTCCTACGGGACATAGGT
Found at i:860181 original size:46 final size:46
Alignment explanation
Indices: 860114--860246 Score: 198
Period size: 46 Copynumber: 2.9 Consensus size: 46
860104 AGAGTCGAGG
*
860114 GTTCTACATGGTCCTACGGGACATAGGTGTCCTACGGGATATATGT
1 GTTCTACATGGTCCTACGGGACATAGGTGTCCTACGGGACATATGT
* *
860160 GTTCTACGTGGTCCTACGGGACATAGG-GTTCCTACGGTACATATGT
1 GTTCTACATGGTCCTACGGGACATAGGTG-TCCTACGGGACATATGT
*
860206 GTTCTACATGGTCCTACGGGACATA-GTGGTCCTAGGGGACA
1 GTTCTACATGGTCCTACGGGACATAGGT-GTCCTACGGGACA
860247 AATTCTACGC
Statistics
Matches: 78, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
45 2 0.03
46 75 0.96
47 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
GTTCTACATGGTCCTACGGGACATAGGTGTCCTACGGGACATATGT
Found at i:860194 original size:28 final size:28
Alignment explanation
Indices: 860142--860195 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
860132 GGACATAGGT
* *
860142 GTCCTACGGGATATATGTGTTCTACGTG
1 GTCCTACGGGACATATGGGTTCTACGTG
860170 GTCCTACGGGACATA-GGGTTCCTACG
1 GTCCTACGGGACATATGGGTT-CTACG
860196 GTACATATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.19, C:0.22, G:0.30, T:0.30
Consensus pattern (28 bp):
GTCCTACGGGACATATGGGTTCTACGTG
Found at i:861363 original size:33 final size:33
Alignment explanation
Indices: 861326--861392 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
861316 AAATAGATGG
*
861326 AGTGGTGAAAGAAGTTGATGTATTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTATTGAGGGGTGA
*
861359 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTATTGAGGGGTGA
861392 A
1 A
861393 CTTAAGATGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.45, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTATTGAGGGGTGA
Found at i:863174 original size:19 final size:19
Alignment explanation
Indices: 863150--863198 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
863140 AATGTAGGGT
863150 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
863169 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
863188 TAATTTTGTAT
1 TAATTTTGTAT
863199 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:863999 original size:201 final size:200
Alignment explanation
Indices: 863646--865213 Score: 2325
Period size: 201 Copynumber: 7.8 Consensus size: 200
863636 GTAAACAGAT
*
863646 GTGTTGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
863711 GGTAATATTTCAATGTAACCGGTATAAATATACCGCTTTTATGAGAGAATAAGTCAACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCG-TTTTATGAGAGAATAGGTCTACATAATGT
* * * * *
863776 AACGACACTTTTGAAATTTGTGTTGATACGTTTTGTCCAGAATGAATACCCAAACTAGGTGCACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
*
863841 TATAAA
195 CATAAA
* * *
863847 GTGTCAAAACATTTATAAAAAGTATCGATCCTAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
863912 GGTAATTTTTCAATGTAACCGGTATAAATATATCAGTTTTATGTGAGAATAGATCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATA-CCGTTTTATGAGAGAATAGGTCTACATAATGT
* * *
863977 ATCAACACTTTTGAAATTTGTGTCGATAATTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
864042 CATAAA
195 CATAAA
* *
864048 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAATATCAAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
864113 GGTAAATTTCCAATGTAACCGATATAAATATACCGTTTTTATGAGAGAATAGGTCTATATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCG-TTTTATGAGAGAATAGGTCTACATAATGT
* * *
864178 ATCGACACTTTTTAAATTTGTATCGATACTTTTTGTCCAGAATAAATGCCTAAACTAGGTGCACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
*
864243 TATAAA
195 CATAAA
*
864249 GTGTCGATACATTTATAAAATGTATCGATCCCAAAAACATCGAAA-CCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
864313 GGTAATTTTTCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAATAGGTCTACATAATCTA
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * *
864378 TCAACACTTTTTAAATTTGTGTCGATA-TGTTTTGACCATAATGAATGCCCAAACTAGGTGCACA
131 TCGACACTTTTTAAATTTGTGTCGATACT-TTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
864442 CATAAA
195 CATAAA
* *
864448 GTGTCGATACATTTATAAAAAGTATCGATCTCAAAAGCATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
864513 GGTAAATTTCCAATGTAACCGGTATAAATATACCATTTTTAAGAGATAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACC-GTTTTATGAGAGAATAGGTCTACATAATGT
* *
864578 ATCGACACTTTTTAAATTTGTGTCGATGCTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACA
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
864643 CATAAA
195 CATAAA
** * * *
864649 GTGTTTATACATTTATAAAATGTATCAATCCAAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
864714 GGTAATTTTTCAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCAACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACC-GTTTTATGAGAGAATAGGTCTACATAATGT
* * * *
864779 AACGACACTTTTGAAATTTGTGTCGATACGTTTTGTCCAGAATGAATGCCCAAACTAGGTACACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
864844 CATAAA
195 CATAAA
* * *
864850 GTGTTGAAACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
864915 TGTAATTTTTCAATATAACCAGTATAAATATACCGTTTTTATTAGAGAATAGGTCTACATAATGT
66 GGTAATTTTTCAATGTAACCGGTATAAATATACCG-TTTTATGAGAGAATAGGTCTACATAATGT
* *
864980 ATCGACAC-TTTTAAATTCGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGAACG
130 ATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACG
865044 CATAAA
195 CATAAA
* * * * *
865050 GTGTCGATACCTTTATAAAAAGTATCGATCCCAAAACCATCGAAACCGATAATTAAAATATAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
865115 GGTAA-TTTTCTAATGTAACTGGTATAAATATACCAGTTTTAAGAGAGAATAGGTCTACACAATG
66 GGTAATTTTTC-AATGTAACCGGTATAAATATACC-GTTTTATGAGAGAATAGGTCTACATAATG
*
865179 CATCGACACTTTTTAAATTTGTGTCGATACTTTTT
129 TATCGACACTTTTTAAATTTGTGTCGATACTTTTT
865214 TAAATTTTAC
Statistics
Matches: 1227, Mismatches: 130, Indels: 20
0.89 0.09 0.01
Matches are distributed among these distances:
198 1 0.00
199 131 0.11
200 274 0.22
201 818 0.67
202 3 0.00
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (200 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTTCAATGTAACCGGTATAAATATACCGTTTTATGAGAGAATAGGTCTACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAACTAGGTGCACGC
ATAAA
Found at i:865459 original size:22 final size:21
Alignment explanation
Indices: 865423--865471 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
865413 TATTGGACTC
865423 TTTT-TTTTTTCTTAATGTGT
1 TTTTGTTTTTTCTTAATGTGT
865443 TTTTGTTTTTTCGTTAATGTGT
1 TTTTGTTTTTTC-TTAATGTGT
*
865465 TTGTGTT
1 TTTTGTT
865472 CCAATGTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 4 0.15
21 7 0.27
22 15 0.58
ACGTcount: A:0.08, C:0.04, G:0.16, T:0.71
Consensus pattern (21 bp):
TTTTGTTTTTTCTTAATGTGT
Found at i:865911 original size:2 final size:2
Alignment explanation
Indices: 865904--865935 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
865894 ATGGGGAATG
865904 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
865936 CCAGATACTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:866708 original size:3 final size:3
Alignment explanation
Indices: 866673--866725 Score: 61
Period size: 3 Copynumber: 17.7 Consensus size: 3
866663 CAAGCGGTCA
* * * * *
866673 ATG AAG ATG ACG ATG AAG ATG AAG 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
866721 ATG AT
1 ATG AT
866726 TCAAACAAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.42, C:0.02, G:0.30, T:0.26
Consensus pattern (3 bp):
ATG
Found at i:869742 original size:199 final size:199
Alignment explanation
Indices: 869402--870596 Score: 1548
Period size: 199 Copynumber: 6.0 Consensus size: 199
869392 TTCAGTAATC
* * * *
869402 TCCAGAATAAATGCCAAACCGAGGTGCACTAATAAAGTGTCGATACATTTATTAAAAGTATCGAT
1 TCCAGAATGAATGCCTAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * *
869467 CCCAAAAACATCGAATA-AGATAATTATAATGTAATAGGTAAATTTTCAATGTAACTGGTAGATA
65 CCCAAAAACATCGAA-ACAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAA
*
869531 TATACCGGTTAATTAGAAAATAGGTCTACATAATATATCGACACTTTTTAAA-TTGTGTCGATAC
129 TATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATAC
869595 TTTTTG
194 TTTTTG
869601 TCCAGAATGAATGACC-AACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGA
1 TCCAGAATGAATG-CCTAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGA
* * * * * *
869665 TCCCAAAAATATCGAATA-AGATAATTAAAATATAATACGTAATTTTTCAAAGTAACCGGTAGAA
64 TCCCAAAAACATCGAA-ACAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAA
* * *
869729 ATATATCGGTTAATTAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCGATA
128 ATATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATA
*
869794 CATTTTG
193 CTTTTTG
* * * * * *
869801 ACCAGAATGAATTTCC-AACAAGGTGCATGAATAAAGTGTCGATACATTTATAAAACGTATTGAT
1 TCCAGAATGAA-TGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * **
869865 CCCAAAAACATCGAAATCA-ATAAATATAATGTAATAGGTAAATTTTCAATGTAACATGTAGAAA
65 CCCAAAAACATCGAAA-CAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAA
* * * * ** *
869929 TATACCGATT--TTATGAAAGAATAGATCTACATCATGTATCGACACTTGTGGAATTTGTGTCGA
129 TATACCGGTTAATTA-G-AA-AATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGA
869992 TACTTTTTG
191 TACTTTTTG
* *
870001 TCCAGAATGAATGCCTAA-AAGAGTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGCCTAACGAG-GTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * **
870065 CCCAAAAACATCGAAACTGATAATTATAATGTAATAAGTAACTTTACAATGTAACCTATAGAAAT
65 CCCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAAT
* * * * * * * ** *
870130 AAACCGACTTTATGAGAGAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATAC
130 ATACCG-GTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATAC
870195 TTTTTG
194 TTTTTG
* *
870201 TCCAGAATGAATGCCTAAATGA-GTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGCCT-AACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * *
870265 CCCAAAAACATCGAAACCGATAATTATAATGTATTAGATAACTTTACAATGTAACCGGTAGAAAT
65 CCCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAAT
* * *
870330 ATATCGGTTAATTAGAAAATAGGTCTACATAAAGTATCGATACTTTTTAAAGTTGTGTCGATACT
130 ATACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACT
870395 TTTTG
195 TTTTG
* * * * ** *
870400 ACCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATATATTTA-AAATTGTATAGATC
1 TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* *
870464 CCAAAAAAATCGAAACCGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAATA
66 CCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAATA
* *
870529 TACCAGTTAATTAGAAAATAGGTCTATATAATGTATCGACACTTTTTAAAGTTGTGTCGATACTT
131 TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACTT
870594 TTT
196 TTT
870597 TTTTTAAATT
Statistics
Matches: 886, Mismatches: 93, Indels: 35
0.87 0.09 0.03
Matches are distributed among these distances:
197 3 0.00
198 141 0.16
199 368 0.42
200 364 0.41
201 6 0.01
202 2 0.00
203 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
TCCAGAATGAATGCCTAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
CCAAAAACATCGAAACAGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAATA
TACCGGTTAATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAAGTTGTGTCGATACTT
TTTG
Found at i:870044 original size:200 final size:198
Alignment explanation
Indices: 869402--870596 Score: 1492
Period size: 200 Copynumber: 6.0 Consensus size: 198
869392 TTCAGTAATC
* * *
869402 TCCAGAATAAATGCCAAACCGAGGTGCACTAATAAAGTGTCGATACATTTATTAAAAGTATCGAT
1 TCCAGAATGAATGCCAAA-CGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * *
869467 CCCAAAAACATCG-AATAAGATAATTATAATGTAATAGGTAAATTTTCAATGTAACTGGTAGATA
65 CCCAAAAACATCGAAATCA-ATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAA
* *
869531 TATACCGGTTAATTAGAAAATAGGTCTACATAATATATCGACACTTTTTAAA-TTGTGTCGATAC
129 TATACCGATT-ATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
869595 TTTTTG
193 TTTTTG
*
869601 TCCAGAATGAATGACCAACCGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATG-CCAAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * * * * *
869666 CCCAAAAATATCG-AATAAGATAATTAAAATATAATACGTAATTTTTCAAAGTAACCGGTAGAAA
65 CCCAAAAACATCGAAATCA-ATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAA
* * *
869730 TATATCGGTTAATTAGAAAATAGGTCTACATAATGTTTCGACACTTTTTAAATTTGTGTCGATAC
129 TATACCGATT-ATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATAC
*
869795 ATTTTG
193 TTTTTG
* * * * * *
869801 ACCAGAATGAATTTCC-AACAAGGTGCATGAATAAAGTGTCGATACATTTATAAAACGTATTGAT
1 TCCAGAATGAA-TGCCAAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * **
869865 CCCAAAAACATCGAAATCAATAAATATAATGTAATAGGTAAATTTTCAATGTAACATGTAGAAAT
65 CCCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAAT
* * * **
869930 ATACCGATT-TTATGAAAGAATAGATCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATA
130 ATACCGATTATTA-G-AA-AATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATA
869994 CTTTTTG
192 CTTTTTG
* *
870001 TCCAGAATGAATGCCTAAAAGA-GTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGCC-AAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * **
870065 CCCAAAAACATCGAAA-CTGATAATTATAATGTAATAAGTAACTTTACAATGTAACCTATAGAAA
65 CCCAAAAACATCGAAATC-AATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAA
* * * * * **
870129 TAAACCGACTTTATGAGAGAATAGGTCTACATCATGTATCGACACTTGTGGAATTTGTGTCGATA
129 TATACCGA--TTATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATA
870194 CTTTTTG
192 CTTTTTG
* *
870201 TCCAGAATGAATGCCTAAATGA-GTGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
1 TCCAGAATGAATGCC-AAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* * * * *
870265 CCCAAAAACATCGAAACCGATAATTATAATGTATTAGATAACTTTACAATGTAACCGGTAGAAAT
65 CCCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAAT
* * * * *
870330 ATATCGGTTAATTAGAAAATAGGTCTACATAAAGTATCGATACTTTTTAAAGTTGTGTCGATACT
130 ATACCGATT-ATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
870395 TTTTG
194 TTTTG
* * * * ** *
870400 ACCAGAATGAATGCCCAACGAGGTGCACGCATAAAGTGTCGATATATTTA-AAATTGTATAGATC
1 TCCAGAATGAATGCCAAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
* * *
870464 CCAAAAAAATCGAAACCGATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAATA
66 CCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAATA
* *
870529 TACC-AGTTAATTAGAAAATAGGTCTATATAATGTATCGACACTTTTTAAAGTTGTGTCGATACT
131 TACCGA-TT-ATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACT
870593 TTTT
194 TTTT
870597 TTTTTAAATT
Statistics
Matches: 884, Mismatches: 95, Indels: 35
0.87 0.09 0.03
Matches are distributed among these distances:
197 3 0.00
198 141 0.16
199 359 0.41
200 370 0.42
201 6 0.01
202 3 0.00
203 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (198 bp):
TCCAGAATGAATGCCAAACGAGGTGCACGAATAAAGTGTCGATACATTTATAAAAAGTATCGATC
CCAAAAACATCGAAATCAATAATTATAATGTAATAGGTAACTTTTCAATGTAACCGGTAGAAATA
TACCGATTATTAGAAAATAGGTCTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTT
TTG
Found at i:872197 original size:19 final size:19
Alignment explanation
Indices: 872173--872216 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
872163 ATGTAGGGGA
872173 AATTTTGTATACGATTCAT
1 AATTTTGTATACGATTCAT
*
872192 AATTTTGTATACGATTTAT
1 AATTTTGTATACGATTCAT
872211 AATTTT
1 AATTTT
872217 ATATGTGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.32, C:0.07, G:0.09, T:0.52
Consensus pattern (19 bp):
AATTTTGTATACGATTCAT
Found at i:875413 original size:199 final size:197
Alignment explanation
Indices: 874699--875416 Score: 807
Period size: 200 Copynumber: 3.6 Consensus size: 197
874689 CCTAAATATA
* * * *
874699 TGTCGATACATTTTCTAAAAGTATCGACCCCAAAAACATCGAAATCAATAATTATAATGTAATAG
1 TGTCGATACA-TTTATAAAA-TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * * * * * *
874764 GTAAACTAACAATGTAACCGGTATAAATATACCGGTTAATTAGAAAACAAGTCAACATAATGTAT
64 GTAAATTTACAATGTAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTCTACATAATATAT
* * * * *
874829 CGACAC-TTGTAGAATTTGTGTTAATACTTATTGTCCAGAAAAAATAACCAAACGAGGTGCACAC
129 CGACACTTTTTA-AATTTGTGTTGATACTTTTTGTCCAGAAAAAAT-GCCAAACGAGGTGCACTC
874893 ATAAAG
192 ATAAAG
*
874899 TGTCGATACATTTATTAAAAATATCGATCCCAAAAACATCGAAACTGATAATTATAATGTAATAG
1 TGTCGATACATTTA-T-AAAATATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * **
874964 GTAAATTTACAATGTAATCAGTATAAATATACCTGTTTTATGAGAAAATATAT-TAACATAATAT
64 GTAAATTTACAATGTAACCGGTATAAATATACC-GTTTTATGAGAAAATAGGTCT-ACATAATAT
* * * *
875028 ATCGACACTTTTTAAATTTGTGTTGATA-TATTTTGTCCAGAATAAATGTCAAATGGGGTGCACG
127 ATCGACACTTTTTAAATTTGTGTTGATACT-TTTTGTCCAGAAAAAATGCCAAACGAGGTGCAC-
875092 T-ATAAAG
190 TCATAAAG
* * *
875099 TGTCGATACATTTATTAAAAGTATCGATCCTAAAAACATCTAAACCGATAATTACAATGTAATAG
1 TGTCGATACATTTA-TAAAA-TATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * *
875164 GTAAATTTACAATGTACCCGATAGAAATATATCGGTTTTATGAGAAAATAGGTCTACATAATATA
64 GTAAATTTACAATGTAACCGGTATAAATATA-CCGTTTTATGAGAAAATAGGTCTACATAATATA
* * * * ** *
875229 TCAACACTTTTTAAGTTTGTGTCGATACTTTTTTTCCAGAAGGAATGCCCAACGAGGTGCACTCA
128 TCGACACTTTTTAAATTTGTGTTGATACTTTTTGTCCAGAAAAAATGCCAAACGAGGTGCACTCA
875294 TAAAG
193 TAAAG
* * *
875299 TGTCGATACATTTA-AAATTATATCGATCCTAAAAACATCGAAACCGATAATTTTAATGTAATAT
1 TGTCGATACATTTATAAA--ATATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
** * * * *
875363 GTAAATTTGTAATGTTATCGGTATAAATATACCGATTTAGTTAGAAAATAGGTC
64 GTAAATTTACAATGTAACCGGTATAAATATACCGTTTTA-TGAGAAAATAGGTC
875417 AATATAAGCG
Statistics
Matches: 441, Mismatches: 62, Indels: 31
0.83 0.12 0.06
Matches are distributed among these distances:
198 9 0.02
199 85 0.19
200 279 0.63
201 64 0.15
202 4 0.01
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (197 bp):
TGTCGATACATTTATAAAATATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
AAATTTACAATGTAACCGGTATAAATATACCGTTTTATGAGAAAATAGGTCTACATAATATATCG
ACACTTTTTAAATTTGTGTTGATACTTTTTGTCCAGAAAAAATGCCAAACGAGGTGCACTCATAA
AG
Found at i:884137 original size:14 final size:14
Alignment explanation
Indices: 884119--884169 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
884109 GAACGTAAAC
884119 GAACATAAATGAAT
1 GAACATAAATGAAT
*
884133 -AA-ACAAATGTAAT
1 GAACATAAATG-AAT
*
884146 CGAACATAAACGAAT
1 -GAACATAAATGAAT
884161 GAACATAAA
1 GAACATAAA
884170 ATTAATTGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
12 6 0.20
13 5 0.17
14 9 0.30
15 5 0.17
16 5 0.17
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.18
Consensus pattern (14 bp):
GAACATAAATGAAT
Found at i:884302 original size:17 final size:17
Alignment explanation
Indices: 884262--884303 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
884252 TTTTTTATTT
884262 GGATTTAAAATTAAATA
1 GGATTTAAAATTAAATA
* *
884279 GGTTTTAAAATATTAATA
1 GGATTTAAAAT-TAAATA
884297 -GATTTAA
1 GGATTTAA
884304 TGTTAAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (17 bp):
GGATTTAAAATTAAATA
Found at i:885895 original size:37 final size:37
Alignment explanation
Indices: 885841--885957 Score: 146
Period size: 37 Copynumber: 3.2 Consensus size: 37
885831 TTTGACCTTC
* * * *
885841 GAAACAAGTCAATCTTAAGCCTTCATGAAAGAGCAGT
1 GAAACAAATCAACCTTAAGCCTTCATGGAAGAGTAGT
* * *
885878 GAAACAATTCAACCTTAAGCCTTCACGGAAGAGTAAT
1 GAAACAAATCAACCTTAAGCCTTCATGGAAGAGTAGT
*
885915 GAAGCAAATC-ACCTATAAGCCTTCATGGAAGAGTAGT
1 GAAACAAATCAACCT-TAAGCCTTCATGGAAGAGTAGT
885952 GAAACA
1 GAAACA
885958 GACATGTTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
36 4 0.06
37 64 0.94
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.21
Consensus pattern (37 bp):
GAAACAAATCAACCTTAAGCCTTCATGGAAGAGTAGT
Found at i:886029 original size:56 final size:56
Alignment explanation
Indices: 885969--886521 Score: 580
Period size: 56 Copynumber: 9.9 Consensus size: 56
885959 ACATGTTTAT
* * * *
885969 TGAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACTCGTTTTGT
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
* * * * * *
886025 TGAAGATTGTTCGAGTTCTATACTCCCTGAACGAATAAGGTGCGGACCCATTTTAC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
* * * * ** *
886081 CGAAGATTATTCGAGCTCTATAATCCCTGAATAAATAGGAAGCAGACCCGTTTTTGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCG-TTTTGC
** * * ** * *
886138 CAAAGATTGTTCAAGTTCTATACTCTCTGAACAAATAGAGAGCGGACCCGTTTTGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
* * * * * *
886194 CGAAGATTGTTTGAGTTCTATACTCCCTGAACGAGTAGGAAGCGGACCCGTTTTGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
* *
886250 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGC-GAACCCG-TTGGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAG-ACCCGTTTTGC
* * * * *
886305 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGTAATAGGGAG-TGAACCCATTTTTC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAG-ACCCGTTTTGC
* *
886361 AGAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCAGACCCG-TTTGC
1 TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
* * * * * * *
886416 TAAAGATTGTTTGAG-TCTTATACTTCATGAACGAATAGGGAGCAGA-CCGGTTTGT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
*
886471 TGAAGATTGTTTGAG-TCTTATACTCCCTGAAGGAATAGGGAGCAGACCCGT
1 TGAAGATTGTTCGAGTTC-TATACTCCCTGAAGGAATAGGGAGCAGACCCGT
886522 CATTTGAAGA
Statistics
Matches: 420, Mismatches: 69, Indels: 16
0.83 0.14 0.03
Matches are distributed among these distances:
54 5 0.01
55 137 0.33
56 232 0.55
57 46 0.11
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.29
Consensus pattern (56 bp):
TGAAGATTGTTCGAGTTCTATACTCCCTGAAGGAATAGGGAGCAGACCCGTTTTGC
Found at i:886257 original size:169 final size:166
Alignment explanation
Indices: 885970--886423 Score: 529
Period size: 169 Copynumber: 2.7 Consensus size: 166
885960 CATGTTTATT
* * * * **
885970 GAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACTCGTTTTGTTGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGGGAGCGGACCCGTTTTGCAGAAGATTGT
* * * *
886035 TCGAGTTCTATACTCCCTGAACGAATAAGGTGCGGACCCATTTTACCGAAGATTATTCGAGCTCT
66 TCGAGTTCTATACTCCCTGAACGAAT-AGGAGCGGACCCGTTTTGCTGAAGATTATTCGAGCTCT
*
886100 ATAATCCCTGAATAAATAGGAAGC-AGACCCGTTTTTGCCA
130 ATAATCCCTGAAGAAATAGGAAGCGA-ACCCG---TTGCCA
* * * *
886140 -AAGATTGTTCAAGTTCTATACTCTCTGAACAAATAGAGAGCGGACCCGTTTTGCCGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGGGAGCGGACCCGTTTTGCAGAAGATTGT
* * * *
886204 TTGAGTTCTATACTCCCTGAACGAGTAGGAAGCGGACCCGTTTTGCTGAAGATTGTTCGAGTTCT
66 TCGAGTTCTATACTCCCTGAACGAATAGG-AGCGGACCCGTTTTGCTGAAGATTATTCGAGCTCT
* * * *
886269 ATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCA
130 ATAATCCCTGAAGAAATAGGAAGCGAACCCGTTGCCA
* * * * * *
886306 GAAGATTGTTCGAGTTCTATACTCCCTGAAGTAATAGGGAGTGAACCCATTTTTCAGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGGGAGCGGACCCGTTTTGCAGAAGATTGT
* *
886371 TCGAGTTCTATACTCCCTGAA-GCAATAGGGAGCAGACCCG-TTTGCTAAAGATT
66 TCGAGTTCTATACTCCCTGAACG-AATA-GGAGCGGACCCGTTTTGCTGAAGATT
886424 GTTTGAGTCT
Statistics
Matches: 243, Mismatches: 36, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
166 18 0.07
167 86 0.35
168 5 0.02
169 133 0.55
170 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (166 bp):
GAAGATTGTTCGAGTTCTATACTCTCTGAAGAAATAGGGAGCGGACCCGTTTTGCAGAAGATTGT
TCGAGTTCTATACTCCCTGAACGAATAGGAGCGGACCCGTTTTGCTGAAGATTATTCGAGCTCTA
TAATCCCTGAAGAAATAGGAAGCGAACCCGTTGCCA
Found at i:886373 original size:111 final size:110
Alignment explanation
Indices: 885970--886521 Score: 534
Period size: 111 Copynumber: 5.0 Consensus size: 110
885960 CATGTTTATT
* * * *
885970 GAAGATTGTTCGAGTCCTATACTCTCTGAAGGAATAGGGAGCAGACTCGTTTTGT-TGAAGATTG
1 GAAGATTGTTCGAGTTCTATACTCCCTGAA-GAATAGGGAGCAGACCCGTTTT-TCAGAAGATTG
* * * * * *
886034 TTCGAGTTCTATACTCCCTGAA-CGAATAAGGTGCGGACCCATTTTACC
64 TTCGAGTTCTATACTCCCTGAAGC-AATAGGGAGCGAACCC-GTTTGCA
* * * * *
886082 GAAGATTATTCGAGCTCTATAATCCCTGAATAAATAGGAAGCAGACCCGTTTTTGCCA-AAGATT
1 GAAGATTGTTCGAGTTCTATACTCCCTGAA-GAATAGGGAGCAGACCCGTTTTT--CAGAAGATT
* * * * *
886146 GTTCAAGTTCTATACTCTCTGAA-CAAATAGAGAGCGGACCCGTTTTGCC
63 GTTCGAGTTCTATACTCCCTGAAGC-AATAGGGAGCGAACCCG-TTTGCA
* * * * * *
886195 GAAGATTGTTTGAGTTCTATACTCCCTGAACGAGTAGGAAGCGGACCCGTTTTGCTGAAGATTGT
1 GAAGATTGTTCGAGTTCTATACTCCCTGAA-GAATAGGGAGCAGACCCGTTTTTCAGAAGATTGT
*
886260 TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTGGCA
65 TCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGCA
* *
886306 GAAGATTGTTCGAGTTCTATACTCCCTGAAGTAATAGGGAG-TGAACCCATTTTTCAGAAGATTG
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAG-AATAGGGAGCAG-ACCCGTTTTTCAGAAGATTG
886370 TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGC-AGACCCGTTTGCTA
64 TTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGA-ACCCGTTTGC-A
* * * *
886418 -AAGATTGTTTGAG-TCTTATACTTCATGAACGAATAGGGAGCAGACCGGTTTGTT--GAAGATT
1 GAAGATTGTTCGAGTTC-TATACTCCCTGAA-GAATAGGGAGCAGACCCGTTT-TTCAGAAGATT
* *
886479 GTTTGAG-TCTTATACTCCCTGAAGGAATAGGGAGC-AGACCCGT
63 GTTCGAGTTC-TATACTCCCTGAAGCAATAGGGAGCGA-ACCCGT
886522 CATTTGAAGA
Statistics
Matches: 375, Mismatches: 50, Indels: 32
0.82 0.11 0.07
Matches are distributed among these distances:
109 2 0.01
110 50 0.13
111 140 0.37
112 91 0.24
113 92 0.25
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.29
Consensus pattern (110 bp):
GAAGATTGTTCGAGTTCTATACTCCCTGAAGAATAGGGAGCAGACCCGTTTTTCAGAAGATTGTT
CGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTGCA
Found at i:887171 original size:126 final size:127
Alignment explanation
Indices: 886945--887205 Score: 443
Period size: 126 Copynumber: 2.1 Consensus size: 127
886935 TTTGAATGGA
* * * * *
886945 AATTAACCACTAGAAACGATGGAATATATCAGTTGACACGGCCAAAAAAAAGGGGGAATCATTCG
1 AATTAACCACTAGAAACGAGGGAATATATCAGTTGACACGACCAAAAAAAAGAGGGAATCATCCA
*
887010 AGAGATTATCAGTGATCACAGAAAAAAGAACGAGAAAGGATTACACAGAGAGAGATATCAAC
66 AGAGATTATCAGTGATCACAGAAAAAAGAACGAGAAAAGATTACACAGAGAGAGATATCAAC
887072 AATTAACCACTAGAAACGAGGGAATATATCAGTTGACACGACC-AAAAAAAGAGGGAATCATCCA
1 AATTAACCACTAGAAACGAGGGAATATATCAGTTGACACGACCAAAAAAAAGAGGGAATCATCCA
* *
887136 AGAGATTATCAGTGATCACAGAAAAAAGAACGAGAAAAGATTACACAGAGAGAGATATTAGC
66 AGAGATTATCAGTGATCACAGAAAAAAGAACGAGAAAAGATTACACAGAGAGAGATATCAAC
887198 AATTAACC
1 AATTAACC
887206 GAGAGCAAAA
Statistics
Matches: 126, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
126 85 0.67
127 41 0.33
ACGTcount: A:0.48, C:0.15, G:0.21, T:0.16
Consensus pattern (127 bp):
AATTAACCACTAGAAACGAGGGAATATATCAGTTGACACGACCAAAAAAAAGAGGGAATCATCCA
AGAGATTATCAGTGATCACAGAAAAAAGAACGAGAAAAGATTACACAGAGAGAGATATCAAC
Found at i:890386 original size:42 final size:42
Alignment explanation
Indices: 890334--890415 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
890324 GTAGAAAGAT
*
890334 GCGATCATGCACCGCGGCTTACGTCACGTGTTGAAAGGCGGC
1 GCGACCATGCACCGCGGCTTACGTCACGTGTTGAAAGGCGGC
* *
890376 GCGACCATGCACCGCGTCTTATGTCACGTGTTGAAAGGCG
1 GCGACCATGCACCGCGGCTTACGTCACGTGTTGAAAGGCG
890416 CGGCTCATGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.21
Consensus pattern (42 bp):
GCGACCATGCACCGCGGCTTACGTCACGTGTTGAAAGGCGGC
Found at i:891250 original size:21 final size:20
Alignment explanation
Indices: 891226--891283 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
891216 TTCATATATT
891226 TAAAATTCAATAAAAATACAA
1 TAAAATTCAATAAAAAT-CAA
*** * *
891247 TAAAAAAGAATTAAAAGTGAA
1 TAAAATTCAA-TAAAAATCAA
891268 TAAAATTCAATAAAAA
1 TAAAATTCAATAAAAA
891284 AAGAAGGTAA
Statistics
Matches: 27, Mismatches: 9, Indels: 3
0.69 0.23 0.08
Matches are distributed among these distances:
20 5 0.19
21 16 0.59
22 6 0.22
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.22
Consensus pattern (20 bp):
TAAAATTCAATAAAAATCAA
Found at i:894489 original size:21 final size:21
Alignment explanation
Indices: 894460--894501 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
894450 TCTCTCTTTT
* *
894460 TCCTCAATCCCAAATCTTAAA
1 TCCTAAATCCCAAACCTTAAA
*
894481 TCCTAAATCTCAAACCTTAAA
1 TCCTAAATCCCAAACCTTAAA
894502 ACCTTTGACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.31, G:0.00, T:0.29
Consensus pattern (21 bp):
TCCTAAATCCCAAACCTTAAA
Found at i:894592 original size:21 final size:21
Alignment explanation
Indices: 894541--894592 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
894531 CTTAAACCCC
*
894541 AAATTATAAATACTAAATCCT
1 AAATCATAAATACTAAATCCT
*
894562 AAACTC-TAAA-ACTTAAATCTT
1 AAA-TCATAAATAC-TAAATCCT
894583 AAATCATAAA
1 AAATCATAAA
894593 CCCTAACTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATCATAAATACTAAATCCT
Found at i:894999 original size:2 final size:2
Alignment explanation
Indices: 894992--895016 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
894982 TTCTAACCCC
894992 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
895017 TCTGTGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:900028 original size:24 final size:24
Alignment explanation
Indices: 899971--900028 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
899961 TCATATTTTT
*
899971 ATATAAGTTCAACTTAAATTATAG
1 ATATAAGTTTAACTTAAATTATAG
899995 ATATAAGTTTAACTTAAATTATAG
1 ATATAAGTTTAACTTAAATTATAG
900019 ATATAAGTTT
1 ATATAAGTTT
900029 TTAATCTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.41
Consensus pattern (24 bp):
ATATAAGTTTAACTTAAATTATAG
Done.