Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold214
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: 1307275
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 88184 characters in sequence are not A, C, G, or T
File 3 of 5
Found at i:643193 original size:84 final size:84
Alignment explanation
Indices: 643088--643279 Score: 221
Period size: 84 Copynumber: 2.3 Consensus size: 84
643078 CGGCTTTATA
* * * *
643088 CTTCAGTTTAGCCGATGATGCACTTATGTACCAATAT-ATTCGCTTC-AGTT-TAGCTGATGATG
1 CTTCGGTTTAGCCAATGATGCACTTATGTACCAATATAATT-GCCTCGACTTGT--CTGATGATG
643150 AACTTATGTGCCAGTATA-TTC
63 AACTTATGTGCCAGTATATTTC
* * * * * *
643171 GCTTTGTTTTAGCTAATGATGCACTTATGTGCCAGTATAATTGCCTCGACTTGTCTGATGATGCA
1 -CTTCGGTTTAGCCAATGATGCACTTATGTACCAATATAATTGCCTCGACTTGTCTGATGATGAA
643236 CTTATGTGCCAGTATATTTC
65 CTTATGTGCCAGTATATTTC
*
643256 CTTCGGTTTATCCAATGATGCACT
1 CTTCGGTTTAGCCAATGATGCACT
643280 GTGGTGCTAG
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
84 80 0.89
85 9 0.10
86 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.39
Consensus pattern (84 bp):
CTTCGGTTTAGCCAATGATGCACTTATGTACCAATATAATTGCCTCGACTTGTCTGATGATGAAC
TTATGTGCCAGTATATTTC
Found at i:649064 original size:19 final size:19
Alignment explanation
Indices: 649022--649064 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
649012 CCACAGAATA
*
649022 TTTTTTCTTTTTTTCTCAT
1 TTTTTTCTATTTTTCTCAT
*
649041 ATTTTTCTATTTTTC-CAT
1 TTTTTTCTATTTTTCTCAT
649059 TTTTTT
1 TTTTTT
649065 AATATTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTCTATTTTTCTCAT
Found at i:650388 original size:17 final size:19
Alignment explanation
Indices: 650366--650407 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
650356 AATAAATAAG
650366 ATAAAT-AAAA-TAGAATA
1 ATAAATCAAAACTAGAATA
*
650383 ATAAATCAAAACTTATAATA
1 ATAAATCAAAAC-TAGAATA
650403 ATAAA
1 ATAAA
650408 GAAGACAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 6 0.29
18 4 0.19
20 11 0.52
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
ATAAATCAAAACTAGAATA
Found at i:658077 original size:23 final size:23
Alignment explanation
Indices: 658035--658078 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
658025 GATTTAAACA
*
658035 TTCATATTTATATTATTAAAATT
1 TTCATATTTATAATATTAAAATT
658058 TTCATATTTTATAATA-TAAAA
1 TTCATA-TTTATAATATTAAAA
658079 CATTTATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (23 bp):
TTCATATTTATAATATTAAAATT
Found at i:658848 original size:63 final size:63
Alignment explanation
Indices: 658765--658893 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
658755 TATCGATGTT
* * *
658765 TTTAAATATTTTTCACATATATATTTATAATCTAATTTTTAATTTCTTGATAAATTATATA-TA
1 TTTAAATATTTTTCACATATATATTTATAATCGAAATTTTAATTT-TTAATAAATTATATATTA
** ** *
658828 TTTAAATATTTTTCGTATATATATTTATTGTCGAAATTTTAGTTTTTAATAAATTATATATTA
1 TTTAAATATTTTTCACATATATATTTATAATCGAAATTTTAATTTTTAATAAATTATATATTA
658891 TTT
1 TTT
658894 TGGTGAAAAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
62 14 0.25
63 43 0.75
ACGTcount: A:0.36, C:0.05, G:0.04, T:0.56
Consensus pattern (63 bp):
TTTAAATATTTTTCACATATATATTTATAATCGAAATTTTAATTTTTAATAAATTATATATTA
Found at i:671923 original size:24 final size:24
Alignment explanation
Indices: 671896--671954 Score: 70
Period size: 21 Copynumber: 2.6 Consensus size: 24
671886 AGAAGATGCT
*
671896 CCAAAAGCAGGAGTGCTTGAACCC
1 CCAAAAGCAGGAGTACTTGAACCC
* *
671920 CCAAAAGCA-GA--ACTTGAAGCT
1 CCAAAAGCAGGAGTACTTGAACCC
671941 CCAAAAGCAGGAGT
1 CCAAAAGCAGGAGT
671955 TGTGGAAGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
21 16 0.55
22 2 0.07
23 2 0.07
24 9 0.31
ACGTcount: A:0.39, C:0.25, G:0.24, T:0.12
Consensus pattern (24 bp):
CCAAAAGCAGGAGTACTTGAACCC
Found at i:672102 original size:24 final size:24
Alignment explanation
Indices: 672075--672224 Score: 176
Period size: 24 Copynumber: 6.2 Consensus size: 24
672065 TTCCAGTTGA
* *
672075 ACCAAATGCAGGGGTGCTCGTGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
*
672099 ACCAAACGCGGGGGTGCTTGTGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
* * *
672123 ACCAAAAGCAGGGGTACTTGAGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
672147 ACCAAACGCAGGGGTGCTTGTGGC
1 ACCAAACGCAGGGGTGCTTGTGGC
* * *
672171 ACCGAAAC-CTGGAGTGCTTGAGGC
1 ACC-AAACGCAGGGGTGCTTGTGGC
* * *
672195 GCCAAACGCAAGGGTGCTTGTCGC
1 ACCAAACGCAGGGGTGCTTGTGGC
672219 ACCAAA
1 ACCAAA
672225 AGCCGGGCTA
Statistics
Matches: 104, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
23 4 0.04
24 96 0.92
25 4 0.04
ACGTcount: A:0.25, C:0.25, G:0.35, T:0.15
Consensus pattern (24 bp):
ACCAAACGCAGGGGTGCTTGTGGC
Found at i:672248 original size:48 final size:47
Alignment explanation
Indices: 672096--672254 Score: 176
Period size: 48 Copynumber: 3.3 Consensus size: 47
672086 GGGTGCTCGT
* *
672096 GGCACCAAACGCGGGGGTGCTTGTGGCACCAAAAGCAGGGGTACTTGA
1 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGC-CGGGTACTTGA
* *
672144 GGCACCAAACGCAGGGGTGCTTGTGGCACCGAAA-CCTGGAGTGCTTGA
1 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCC-GG-GTACTTGA
* * * * *
672192 GGCGCCAAACGCAAGGGTGCTTGTCGCACCAAAAGCCGGGCTACTAGT
1 GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGG-TACTTGA
* *
672240 GGAACCAAAGGCAGG
1 GGCACCAAACGCAGG
672255 ACTAGAACCA
Statistics
Matches: 92, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
47 4 0.04
48 86 0.93
49 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.35, T:0.14
Consensus pattern (47 bp):
GGCACCAAACGCAGGGGTGCTTGTGGCACCAAAAGCCGGGTACTTGA
Found at i:679192 original size:123 final size:123
Alignment explanation
Indices: 678866--679239 Score: 518
Period size: 126 Copynumber: 3.0 Consensus size: 123
678856 AGGTTTTTAA
** *
678866 GTCATGGAAGAAATAATTTCGAGTTGACGTTTCTGATA-AAATAGTATAAAATCGCTTCTAGCAG
1 GTCATGGAAGAAATAATTT--TTTTGACGTTTCTGA-ACAAATAATATAAAATCGCTTCTAGCAG
* * *
678930 GATTCTATTTGAGAAGAATTTGTGAAATCGCGCCCTTGTGGACGCGCTTTTGCTATAGTAG
63 GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
* *
678991 GTCACGGAAGAAATAATTATTTTTTTGACGTTTCTGAACAAATAATATAAAATCACTTCTAGCAG
1 GTCATGGAAGAAAT-A--ATTTTTTTGACGTTTCTGAACAAATAATATAAAATCGCTTCTAGCAG
* * *
679056 GATGCTATTTGAGAAGAATTTGTGAAATCGCGGCCTCGT-CAGCGTGCTTTTGCTACAGTAG
63 GATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGA-CGCGCTTTTGCTACAGTAG
* * *
679117 GTCATGTAAGAAATAATTTTTTTGACGTTTCTGAGCAAATAATATAAAATCGTTTCTAGCAGGAT
1 GTCATGGAAGAAATAATTTTTTTGACGTTTCTGAACAAATAATATAAAATCGCTTCTAGCAGGAT
* * *
679182 GCTATTTGAGAAGAATTTGTTAAATCGTGCCCTCGTGGACACGCTTTTGCTACAGTAG
66 GCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
679240 CATGTTTGGG
Statistics
Matches: 221, Mismatches: 22, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
123 97 0.44
124 1 0.00
125 16 0.07
126 103 0.47
128 4 0.02
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.33
Consensus pattern (123 bp):
GTCATGGAAGAAATAATTTTTTTGACGTTTCTGAACAAATAATATAAAATCGCTTCTAGCAGGAT
GCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
Found at i:683133 original size:23 final size:23
Alignment explanation
Indices: 683106--683202 Score: 97
Period size: 23 Copynumber: 4.0 Consensus size: 23
683096 TTAGGGTTAG
683106 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
683129 GGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTTTTAATTAAATTA
* * *
683152 GGTTAAGGTTAATGTT-TTTAAGTTAA
1 GGTTAGGGTT--T-TTAATTAAATT-A
683178 GGGTTTAGGGTTTTTAATTAAATTA
1 -GG-TTAGGGTTTTTAATTAAATTA
683203 NNNNNNNNNN
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
23 31 0.52
25 10 0.17
26 10 0.17
27 2 0.03
28 7 0.12
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:684238 original size:23 final size:23
Alignment explanation
Indices: 684208--684290 Score: 121
Period size: 23 Copynumber: 3.6 Consensus size: 23
684198 NNNNNNNNNG
684208 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
684231 GGTTAGGGTTTTTAATTAATTTA
1 GGTTAGGGTTTTTAATTAAATTA
****
684254 GGTTAGGGTTTAGGGTTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
684277 GGTTAGGGTTTTTA
1 GGTTAGGGTTTTTA
684291 TTACATCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.25, C:0.00, G:0.28, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:684314 original size:25 final size:25
Alignment explanation
Indices: 684286--684378 Score: 159
Period size: 25 Copynumber: 3.7 Consensus size: 25
684276 AGGTTAGGGT
684286 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
684311 TTTTATTACATCAAATAAACTCCTA
1 TTTTATTACATCAAATAAACTTCTA
*
684336 TTTTATTAGATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTCTA
*
684361 TTTTAGTACATCAAATAA
1 TTTTATTACATCAAATAA
684379 TATCAAAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 63 1.00
ACGTcount: A:0.41, C:0.15, G:0.02, T:0.42
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTCTA
Found at i:684415 original size:44 final size:45
Alignment explanation
Indices: 684346--684432 Score: 131
Period size: 44 Copynumber: 2.0 Consensus size: 45
684336 TTTTATTAGA
*
684346 TCAAATAAACTTCTATTTTAGTACATCAAATAATATCAAAATAAC
1 TCAAATAAACTTCTATTTTAGTACATAAAATAATATCAAAATAAC
* **
684391 TCAAA-AAATTTCTATTTTTTTACATAAAATAATATCAAAATA
1 TCAAATAAACTTCTATTTTAGTACATAAAATAATATCAAAATA
684433 TTTGTACAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
44 33 0.87
45 5 0.13
ACGTcount: A:0.49, C:0.13, G:0.01, T:0.37
Consensus pattern (45 bp):
TCAAATAAACTTCTATTTTAGTACATAAAATAATATCAAAATAAC
Found at i:685535 original size:7 final size:7
Alignment explanation
Indices: 685525--685549 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
685515 TTATATACAT
685525 AATACTA
1 AATACTA
685532 AATACTA
1 AATACTA
685539 AATACTA
1 AATACTA
685546 AATA
1 AATA
685550 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:686643 original size:22 final size:22
Alignment explanation
Indices: 686618--686673 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
686608 AAATATGGAT
686618 TTGAGAGAATTTTGGAAAGAAA
1 TTGAGAGAATTTTGGAAAGAAA
*
686640 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAAGAAA
686662 TTGAGAGGAATT
1 TTGAGA-GAATT
686674 GAGAGGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.84
23 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAAGAAA
Found at i:686690 original size:12 final size:11
Alignment explanation
Indices: 686656--686690 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
686646 GAATTTTGGA
686656 AGGAAATTGAG
1 AGGAAATTGAG
686667 AGG-AATTGAG
1 AGGAAATTGAG
686677 AGGAAATATGAG
1 AGGAAAT-TGAG
686689 AG
1 AG
686691 AGGATTTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.37, T:0.17
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:689793 original size:16 final size:16
Alignment explanation
Indices: 689772--689805 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
689762 ACAGTTCCAT
*
689772 CATTAGTGTTATATTA
1 CATTAGTGTCATATTA
689788 CATTAGTGTCATATTA
1 CATTAGTGTCATATTA
689804 CA
1 CA
689806 CTTACTCATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
CATTAGTGTCATATTA
Found at i:693152 original size:102 final size:102
Alignment explanation
Indices: 692976--693171 Score: 293
Period size: 102 Copynumber: 1.9 Consensus size: 102
692966 TTGAAAGAAC
* * * * *
692976 GAGTTTATGTTTTTAAGCTATTTTGAACCCTGAAAATGAAAATAATCCATTCAACCATAGTGAAT
1 GAGTTTATGTTTTTAAGCTATTTTGAACCCCGAAAATAAAAATAAACCATTCAACCACAGTGAAC
693041 ATGTTGAGTTGTGAAATACTAAATATTTTTTGGAAAT
66 ATGTTGAGTTGTGAAATACTAAATATTTTTTGGAAAT
* * ***
693078 GAGTTTATGTTTTTAAGTTGTTTTGAACCCCGAAAATAAAAATAAACCATTCGGTCACAGTGAAC
1 GAGTTTATGTTTTTAAGCTATTTTGAACCCCGAAAATAAAAATAAACCATTCAACCACAGTGAAC
*
693143 ATGTTGAGTTGTGAAATATTAAATATTTT
66 ATGTTGAGTTGTGAAATACTAAATATTTT
693172 CTGAAAAAAT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 83 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (102 bp):
GAGTTTATGTTTTTAAGCTATTTTGAACCCCGAAAATAAAAATAAACCATTCAACCACAGTGAAC
ATGTTGAGTTGTGAAATACTAAATATTTTTTGGAAAT
Found at i:699491 original size:16 final size:16
Alignment explanation
Indices: 699470--699501 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
699460 TGATTGAAAG
*
699470 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
699486 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
699502 GCAACAAAAT
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:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:703121 original size:72 final size:73
Alignment explanation
Indices: 702996--703144 Score: 291
Period size: 72 Copynumber: 2.1 Consensus size: 73
702986 TTGATTCACT
702996 TTATTTCTCTCTATCTCTTGCAATTTTACTCTTTTTATGTTATTTTATTTCCTTAGTTTAAGAAA
1 TTATTTCTCTCTATCTCTTGCAATTTTACTCTTTTTATGTTATTTTATTTCCTTAGTTTAAGAAA
703061 CCTTAAAA
66 CCTTAAAA
703069 TTATTTC-CTCTATCTCTTGCAATTTTACTCTTTTTATGTTATTTTATTTCCTTAGTTTAAGAAA
1 TTATTTCTCTCTATCTCTTGCAATTTTACTCTTTTTATGTTATTTTATTTCCTTAGTTTAAGAAA
703133 CCTTAAAA
66 CCTTAAAA
703141 TTAT
1 TTAT
703145 CTCTTATTTT
Statistics
Matches: 76, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
72 69 0.91
73 7 0.09
ACGTcount: A:0.25, C:0.16, G:0.05, T:0.54
Consensus pattern (73 bp):
TTATTTCTCTCTATCTCTTGCAATTTTACTCTTTTTATGTTATTTTATTTCCTTAGTTTAAGAAA
CCTTAAAA
Found at i:712292 original size:13 final size:13
Alignment explanation
Indices: 712274--712298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
712264 TTGAATAAAA
712274 GGTAAAAGTTTAG
1 GGTAAAAGTTTAG
712287 GGTAAAAGTTTA
1 GGTAAAAGTTTA
712299 AAATATCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (13 bp):
GGTAAAAGTTTAG
Found at i:712894 original size:54 final size:51
Alignment explanation
Indices: 712820--712929 Score: 132
Period size: 54 Copynumber: 2.1 Consensus size: 51
712810 ATACGAAACG
* *
712820 GTTATATGAAATGGTTATATAAAGTAG-ATGTACAAAATGATCATATGAATCA
1 GTTATATGAAATAGTTATATAAAGT-GTATATACAAAATGATCATATGAAT-A
* * *
712872 GTTATATGGAAAATAGTTATATAAAGTGTTTATACAAAATGTTGATATGAATA
1 GTTATAT-G-AAATAGTTATATAAAGTGTATATACAAAATGATCATATGAATA
712925 GTTAT
1 GTTAT
712930 GAAAAAAGGG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
52 7 0.14
53 8 0.16
54 35 0.70
ACGTcount: A:0.43, C:0.04, G:0.17, T:0.36
Consensus pattern (51 bp):
GTTATATGAAATAGTTATATAAAGTGTATATACAAAATGATCATATGAATA
Found at i:712958 original size:13 final size:13
Alignment explanation
Indices: 712940--712964 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
712930 GAAAAAAGGG
712940 ACATTTGAAATGA
1 ACATTTGAAATGA
712953 ACATTTGAAATG
1 ACATTTGAAATG
712965 CTAAATGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (13 bp):
ACATTTGAAATGA
Found at i:730075 original size:33 final size:33
Alignment explanation
Indices: 730036--730100 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
730026 AATAACCAGA
730036 ATATTATAAATTTTTTTTATTTACAAAAATATT
1 ATATTATAAATTTTTTTTATTTACAAAAATATT
*
730069 ATATTATAAATTTTTTTTATTTACCAAAATAT
1 ATATTATAAATTTTTTTTATTTACAAAAATAT
730101 ACCAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.54
Consensus pattern (33 bp):
ATATTATAAATTTTTTTTATTTACAAAAATATT
Found at i:730127 original size:15 final size:15
Alignment explanation
Indices: 730108--730137 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
730098 TATACCAAAA
730108 AAAAACAAAAACCTGC
1 AAAAA-AAAAACCTGC
730124 AAAAAAAAAACCTG
1 AAAAAAAAAACCTG
730138 TGGCGGCACC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.20, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAAAAAAACCTGC
Found at i:730168 original size:27 final size:27
Alignment explanation
Indices: 730138--730192 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
730128 AAAAAACCTG
730138 TGGCGGCACCAAAGGTGCCAAAGAGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
* *
730165 TGGCGGCACCAATGGTGCCAAAGGGAT
1 TGGCGGCACCAAAGGTGCCAAAGAGAT
730192 T
1 T
730193 AAAATTAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.35, T:0.15
Consensus pattern (27 bp):
TGGCGGCACCAAAGGTGCCAAAGAGAT
Found at i:731266 original size:27 final size:28
Alignment explanation
Indices: 731213--731275 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
731203 TTTTTTTGGT
*
731213 ATATTTTGGTAAATAAAAAAATTTTATA
1 ATATTTTGGTAAATAAAAAAATGTTATA
731241 ATATTTTGGTAAATAAAAAAA-GTTATA
1 ATATTTTGGTAAATAAAAAAATGTTATA
731268 ATATTTTG
1 ATATTTTG
731276 ATTATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 13 0.38
28 21 0.62
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.43
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAATGTTATA
Found at i:731643 original size:21 final size:22
Alignment explanation
Indices: 731609--731649 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
731599 TCAAATTGTG
731609 CATTAAAACCTATTAATTTTTA
1 CATTAAAACCTATTAATTTTTA
*
731631 CATTAAAA-TTATTAATTTT
1 CATTAAAACCTATTAATTTT
731650 ACTTGACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (22 bp):
CATTAAAACCTATTAATTTTTA
Found at i:744747 original size:27 final size:29
Alignment explanation
Indices: 744684--744751 Score: 95
Period size: 27 Copynumber: 2.4 Consensus size: 29
744674 AAAATCCTTC
** *
744684 AAACCCTAAACATTAATTTATTTTTTTAA
1 AAACCCTAAACCCTAATTTATTTTCTTAA
744713 AAACCCTAAACCCT-ATTTA-TTTCTTAA
1 AAACCCTAAACCCTAATTTATTTTCTTAA
744740 AAACCCTAAACC
1 AAACCCTAAACC
744752 AGCGTCGCCC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
27 19 0.53
28 5 0.14
29 12 0.33
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (29 bp):
AAACCCTAAACCCTAATTTATTTTCTTAA
Found at i:745078 original size:14 final size:15
Alignment explanation
Indices: 745053--745081 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
745043 AACTGTCATC
745053 TATTTACATTTATCT
1 TATTTACATTTATCT
745068 TATTTAC-TTTATCT
1 TATTTACATTTATCT
745082 AGCTTTTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.24, C:0.14, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTTACATTTATCT
Found at i:745655 original size:123 final size:116
Alignment explanation
Indices: 745359--745777 Score: 476
Period size: 114 Copynumber: 3.6 Consensus size: 116
745349 GTTTATTTGT
* * * * * *
745359 AAGCGCCGCAAAATACCTTAACCAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
* * * * *
745424 GTTTACGG-GAA-A-ACGCCGCTAAAGAACAGTATTAGCGGCGTTTTACAAA
66 GCTT-GGGAGAACATACGCCGCTAAAGCACAGTATTAGCGGCATTTTACAAG
*
745473 AAGCGCCGCAAAAGATCTTAACCAAAATGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
745538 GCTTGGGAGAACACGCCGCTTACGCCGCTAAAGCACAGTATTAGCGGCATTTTACAAG
66 GCTTGGGAGAACA-------TACGCCGCTAAAGCACAGTATTAGCGGCATTTTACAAG
*
745596 AAGCGCCGCAAAATATCTTAACCAAAACGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
1 AAGCGCCGCAAAATATCTTAACCAAAATGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
* * ** * *
745661 GTTTGGGAGAACAT--GCTGCTAAAGCACAGTATTAGCGGCGCCTGT-C-TG
66 GCTTGGGAGAACATACGCCGCTAAAGCACAGTATTAGCGGC-ATTTTACAAG
* * * *
745709 AACGCGCTGCAAAATATCTT-ACCTAAAATGCAGCGTTTAGTCTTGAGGTAGATTAGAATTAGTG
1 AA-GCGCCGCAAAATATCTTAACC-AAAATGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTG
745773 GCGCT
64 GCGCT
745778 AGGAAAAACG
Statistics
Matches: 266, Mismatches: 26, Indels: 26
0.84 0.08 0.08
Matches are distributed among these distances:
113 8 0.03
114 145 0.55
115 3 0.01
116 1 0.00
123 109 0.41
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (116 bp):
AAGCGCCGCAAAATATCTTAACCAAAATGCACCGTTTGGTCTTGAGGTAGATTAGAGTTAGTGGC
GCTTGGGAGAACATACGCCGCTAAAGCACAGTATTAGCGGCATTTTACAAG
Found at i:746576 original size:13 final size:14
Alignment explanation
Indices: 746541--746577 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
746531 ATAAGGTAAT
746541 TTAGGGGTTAGTAG
1 TTAGGGGTTAGTAG
*
746555 TTAGGGGTTAGTGG
1 TTAGGGGTTAGTAG
746569 TT-GGGGTTA
1 TTAGGGGTTA
746578 AAGGTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.16, C:0.00, G:0.46, T:0.38
Consensus pattern (14 bp):
TTAGGGGTTAGTAG
Found at i:748998 original size:28 final size:29
Alignment explanation
Indices: 748940--748999 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
748930 TACCAATTTA
*
748940 TTTTGTTTAGGGTATTAAGCAGTAAATAT
1 TTTTGTTTAGGGTATTAAGCAGTAAACAT
748969 TTTTGTTTAGGGTATTAAGCAGT-AACAT
1 TTTTGTTTAGGGTATTAAGCAGTAAACAT
748997 TTT
1 TTT
749000 GACAAGTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 7 0.23
29 23 0.77
ACGTcount: A:0.28, C:0.05, G:0.20, T:0.47
Consensus pattern (29 bp):
TTTTGTTTAGGGTATTAAGCAGTAAACAT
Found at i:754648 original size:139 final size:141
Alignment explanation
Indices: 754472--754751 Score: 521
Period size: 139 Copynumber: 2.0 Consensus size: 141
754462 TATTTGTTCC
754472 AAAGTCTTGGAGAACCAATCGGCAAAGTTGAAATTGCAGAATTAGATCATTTGTCGTGGGTATAA
1 AAAGTCTTGGAGAACCAATCGGCAAAGTTGAAATTGCAGAATTAGATCATTTGTCGTGGGTATAA
754537 GCACATCGATATGTTTTGTTTCACCACGA-ATCAATGAAACCTTTACGGAAGTAAGTTCTACAAA
66 GCACATCGATATGTTTTGTTTCACCAC-ACATCAATGAAACCTTTACGGAAGTAAGTTCTACAAA
754601 TTTGATAAATAT
130 TTTGATAAATAT
754613 AAAGTCTT-G-GAACCAATCGGCAAAGTTGAAATTGCAGAATTAGATCATTTGTCGTGGGTATAA
1 AAAGTCTTGGAGAACCAATCGGCAAAGTTGAAATTGCAGAATTAGATCATTTGTCGTGGGTATAA
*
754676 GCACATCGATATGTTTTGTTTCACCACACGTCAATGAAACCTTTACGGAAGTAAGTTCTACAAAT
66 GCACATCGATATGTTTTGTTTCACCACACATCAATGAAACCTTTACGGAAGTAAGTTCTACAAAT
754741 TTGATAAATAT
131 TTGATAAATAT
754752 TTATCAAATT
Statistics
Matches: 137, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
138 1 0.01
139 127 0.93
140 1 0.01
141 8 0.06
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (141 bp):
AAAGTCTTGGAGAACCAATCGGCAAAGTTGAAATTGCAGAATTAGATCATTTGTCGTGGGTATAA
GCACATCGATATGTTTTGTTTCACCACACATCAATGAAACCTTTACGGAAGTAAGTTCTACAAAT
TTGATAAATAT
Found at i:757889 original size:28 final size:28
Alignment explanation
Indices: 757833--757895 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
757823 TTAATTCCAG
* *
757833 GGTT-AGGGTTTAGGGTTTGTTGTTCAA
1 GGTTAAGGGTTAAGGGTTTGTGGTTCAA
*
757860 GGTTAAGGGTTAAGGG-TTGATGGTTTAA
1 GGTTAAGGGTTAAGGGTTTG-TGGTTCAA
*
757888 GGGTAAGG
1 GGTTAAGG
757896 ATATGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 23 0.77
ACGTcount: A:0.21, C:0.02, G:0.41, T:0.37
Consensus pattern (28 bp):
GGTTAAGGGTTAAGGGTTTGTGGTTCAA
Found at i:766960 original size:19 final size:19
Alignment explanation
Indices: 766910--766965 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
766900 AACTAATGTA
*
766910 AATTATGTTTATATTTTAATT
1 AATTATGTTTA-A-TTAAATT
* *
766931 -ATTAAGGTTAATTAAATT
1 AATTATGTTTAATTAAATT
766949 AATTATGTTTAATTAAA
1 AATTATGTTTAATTAAA
766966 GGTTAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 6 0.21
19 15 0.52
20 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (19 bp):
AATTATGTTTAATTAAATT
Found at i:772126 original size:41 final size:41
Alignment explanation
Indices: 771982--772141 Score: 114
Period size: 41 Copynumber: 3.9 Consensus size: 41
771972 TCAATATTAG
* * * *
771982 CGCCGCTAATGCTGAGACCTTTAACGGCGTTTTTGACTATA
1 CGCCGCTAATGCTGGGACTTTTATCGGCGTTTTTGAGTATA
* * *
772023 CGCCGCTAATGATAGGG--TTTTTTGCGGCATTTTT-A-TAATA
1 CGCCGCTAATGCT-GGGACTTTTAT-CGGCGTTTTTGAGT-ATA
* * **
772063 GCGCCGCAAATTCTATGACTTTTATCGGCGTTTTTGAGTATA
1 -CGCCGCTAATGCTGGGACTTTTATCGGCGTTTTTGAGTATA
* * *
772105 CGCCGCTAATGGTGGGTCTTTTAGT-GGCGTTTGTGAG
1 CGCCGCTAATGCTGGGACTTTTA-TCGGCGTTTTTGAG
772142 AAACCGCCAG
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
39 1 0.01
40 8 0.09
41 68 0.76
42 12 0.13
43 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (41 bp):
CGCCGCTAATGCTGGGACTTTTATCGGCGTTTTTGAGTATA
Found at i:772411 original size:84 final size:84
Alignment explanation
Indices: 772287--772444 Score: 289
Period size: 84 Copynumber: 1.9 Consensus size: 84
772277 TTATGTATGT
*
772287 GCCGTTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
1 GCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
*
772352 GCGGCGTTTCTATCCTAGC
66 GCAGCGTTTCTATCCTAGC
*
772371 GCCGCTATTGGTTGGGGTTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
1 GCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
772436 GCAGCGTTT
66 GCAGCGTTT
772445 GGTTTTAAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
84 71 1.00
ACGTcount: A:0.17, C:0.16, G:0.31, T:0.36
Consensus pattern (84 bp):
GCCGCTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
GCAGCGTTTCTATCCTAGC
Found at i:772468 original size:84 final size:84
Alignment explanation
Indices: 772287--772470 Score: 262
Period size: 84 Copynumber: 2.2 Consensus size: 84
772277 TTATGTATGT
* *
772287 GCCGTTATTGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
1 GCCGCTATAGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
* **
772352 GCGGCGTTTCTATCCTAGC
66 GCAGCGTTTCTATCAAAGC
* *
772371 GCCGCTATTGGTTGGGGTTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
1 GCCGCTATAGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
* * *
772436 GCAGCGTTTGGTTTTAAAGC
66 GCAGCGTTT-CTATCAAAGC
772456 GCCGCTA-AGGTTGGG
1 GCCGCTATAGGTTGGG
772471 TTTTTTGCGG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
84 78 0.87
85 12 0.13
ACGTcount: A:0.17, C:0.16, G:0.32, T:0.35
Consensus pattern (84 bp):
GCCGCTATAGGTTGGGGGTGATAGTGGCGTGTTTTGGTCAATCGCCACTAATGTTAAGGTATTTA
GCAGCGTTTCTATCAAAGC
Found at i:773247 original size:15 final size:15
Alignment explanation
Indices: 773207--773249 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
773197 GGGTTTGGGA
773207 TTAAGG-TTTAGGGG
1 TTAAGGATTTAGGGG
*
773221 TTAAGGACTTAGGGG
1 TTAAGGATTTAGGGG
* *
773236 TTATGTATTTAGGG
1 TTAAGGATTTAGGG
773250 TTTGAGGTCT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 6 0.25
15 18 0.75
ACGTcount: A:0.23, C:0.02, G:0.37, T:0.37
Consensus pattern (15 bp):
TTAAGGATTTAGGGG
Found at i:773780 original size:16 final size:17
Alignment explanation
Indices: 773753--773788 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
773743 GTATACTTAG
*
773753 TAATTAAAAGATACAAT
1 TAATTAAAAGATAAAAT
773770 TAATT-AAAGATAAAAT
1 TAATTAAAAGATAAAAT
773786 TAA
1 TAA
773789 GAAATAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (17 bp):
TAATTAAAAGATAAAAT
Found at i:774018 original size:23 final size:24
Alignment explanation
Indices: 773972--774029 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
773962 CAACACTTAG
773972 CCAAAATTCCCCCCAAATTAT-CC
1 CCAAAATTCCCCCCAAATTATCCC
* *
773995 CCAAAATTCCCCCCCAATTTTCCC
1 CCAAAATTCCCCCCAAATTATCCC
*
774019 CCAAAAATCCC
1 CCAAAATTCCC
774030 ACAATTCTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
23 19 0.61
24 12 0.39
ACGTcount: A:0.33, C:0.47, G:0.00, T:0.21
Consensus pattern (24 bp):
CCAAAATTCCCCCCAAATTATCCC
Found at i:774451 original size:12 final size:12
Alignment explanation
Indices: 774434--774459 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
774424 AGTTTGAAAC
774434 TGTTCATAATTT
1 TGTTCATAATTT
774446 TGTTCATAATTT
1 TGTTCATAATTT
774458 TG
1 TG
774460 ACTATCCTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.08, G:0.12, T:0.58
Consensus pattern (12 bp):
TGTTCATAATTT
Found at i:774523 original size:12 final size:12
Alignment explanation
Indices: 774508--774547 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
774498 TGTAATACTG
774508 TTTGTTCATAAT
1 TTTGTTCATAAT
774520 TTTGTT-ACTAAT
1 TTTGTTCA-TAAT
*
774532 TTTGTTCATAAG
1 TTTGTTCATAAT
774544 TTTG
1 TTTG
774548 AAACTGTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (12 bp):
TTTGTTCATAAT
Found at i:775963 original size:21 final size:20
Alignment explanation
Indices: 775939--775977 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
775929 CTATATTTAA
775939 ATATTGTTAATAATAAATTTT
1 ATATTGTTAA-AATAAATTTT
* *
775960 ATATTTTTAAAATTAATT
1 ATATTGTTAAAATAAATT
775978 GTACATGTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
ATATTGTTAAAATAAATTTT
Found at i:776023 original size:70 final size:70
Alignment explanation
Indices: 775939--776076 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
775929 CTATATTTAA
*
775939 ATATTGTTAATAATAAATTTTATATTTTTAAAATTAATTGTACATGTTATTTTTCTAAATATTAA
1 ATATTGTTAATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTAA
776004 CATAT
66 CATAT
776009 ATATT-TTCAATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTA
1 ATATTGTT-AATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTA
776073 ACAT
65 ACAT
776077 NNNNNNNNNN
Statistics
Matches: 66, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
69 2 0.03
70 64 0.97
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.51
Consensus pattern (70 bp):
ATATTGTTAATAATAAATTTTATATTTTTAAAACTAATTGTACATGTTATTTTTCTAAATATTAA
CATAT
Found at i:777062 original size:9 final size:9
Alignment explanation
Indices: 777044--777146 Score: 105
Period size: 9 Copynumber: 12.3 Consensus size: 9
777034 AACTTGTCGG
*
777044 ACTTGCATA
1 ACTTACATA
*
777053 ACTTATATA
1 ACTTACATA
*
777062 A--TACTTA
1 ACTTACATA
777069 ACTTACATA
1 ACTTACATA
*
777078 ACGTACATA
1 ACTTACATA
777087 ACTTACATA
1 ACTTACATA
777096 A--TACATA
1 ACTTACATA
777103 ACTTACATA
1 ACTTACATA
777112 A--TACATA
1 ACTTACATA
*
777119 ACTTACGTA
1 ACTTACATA
777128 A--TACATA
1 ACTTACATA
777135 ACTTACATA
1 ACTTACATA
777144 ACT
1 ACT
777147 CATATATACT
Statistics
Matches: 77, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
7 25 0.32
9 52 0.68
ACGTcount: A:0.45, C:0.19, G:0.03, T:0.33
Consensus pattern (9 bp):
ACTTACATA
Found at i:777150 original size:16 final size:16
Alignment explanation
Indices: 777049--777144 Score: 147
Period size: 16 Copynumber: 5.9 Consensus size: 16
777039 GTCGGACTTG
*
777049 CATAACTTATATAATA
1 CATAACTTACATAATA
*
777065 CTTAACTTACATAACGTA
1 CATAACTTACATAA--TA
777083 CATAACTTACATAATA
1 CATAACTTACATAATA
777099 CATAACTTACATAATA
1 CATAACTTACATAATA
*
777115 CATAACTTACGTAATA
1 CATAACTTACATAATA
777131 CATAACTTACATAA
1 CATAACTTACATAA
777145 CTCATATATA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
16 58 0.79
18 15 0.21
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (16 bp):
CATAACTTACATAATA
Found at i:782988 original size:43 final size:44
Alignment explanation
Indices: 782941--783088 Score: 140
Period size: 43 Copynumber: 3.4 Consensus size: 44
782931 AAGTTGTTCA
* * * * *
782941 ATTTAGCGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTTAATG-C
1 ATTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAAGGTC
* * * *
782984 ATTTAGTGACGTTT-TTATGAAAAGCGTCGCTAAAAGTCAAGGTC
1 ATTTAGCGGCGTTTGTGA-GAAAAGCGCCGCTAAAAGTCAAGGTC
* * *
783028 TTTTCGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAGGGT-
1 ATTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAAGGTC
*
783071 TTTTAGCGGCGCTTTGTG
1 ATTTAGCGGCG-TTTGTG
783089 CAAAGCACCG
Statistics
Matches: 84, Mismatches: 17, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
42 1 0.01
43 41 0.49
44 40 0.48
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.30
Consensus pattern (44 bp):
ATTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCAAGGTC
Found at i:783081 original size:204 final size:204
Alignment explanation
Indices: 782678--783066 Score: 634
Period size: 204 Copynumber: 1.9 Consensus size: 204
782668 TAGTTTCTTC
* * * *
782678 TGATTTTTTGTTACAGGTGGTATAAAAATATATAAAATATTCTTTTATAAAGCTGCTCAATTTAT
1 TGATTTGTTGTTACAGGAGGTATAAAAATATAGAAAATATTCTTTTATAAAGCTGCTCAATTTAG
*
782743 CGGCGTTTGTGGGAAAAGTGCCGCTAAAGATTAATGCATTTAGTGGCGTTTTCATAAAAAGCGTC
66 CGGCGTTTGTGGGAAAAGTGCCGCTAAAGATTAATGCATTTAGTGACGTTTTCATAAAAAGCGTC
* *
782808 GCTAAAAGCCAAGGTCTTTTAGCGGCGTTTGTGACCAAAGCGCCGCTAAAGGTCAACATATATAG
131 GCTAAAAGCCAAGGTCTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAAGTCAACATATATAG
782873 CGGCGTTTT
196 CGGCGTTTT
* * *
782882 TGATTTGTTGTTACAGGAGGTCTAAAAATATAGAAAATATTCTTTTATAAAGTTGTTCAATTTAG
1 TGATTTGTTGTTACAGGAGGTATAAAAATATAGAAAATATTCTTTTATAAAGCTGCTCAATTTAG
* * *
782947 CGGCGTTTGTGGGAAAAGTGCCGCTAAAGGTTAATGCATTTAGTGACGTTTTTATGAAAAGCGTC
66 CGGCGTTTGTGGGAAAAGTGCCGCTAAAGATTAATGCATTTAGTGACGTTTTCATAAAAAGCGTC
* * *
783012 GCTAAAAGTCAAGGTCTTTTCGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCA
131 GCTAAAAGCCAAGGTCTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAAGTCA
783067 GGGTTTTTAG
Statistics
Matches: 169, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
204 169 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (204 bp):
TGATTTGTTGTTACAGGAGGTATAAAAATATAGAAAATATTCTTTTATAAAGCTGCTCAATTTAG
CGGCGTTTGTGGGAAAAGTGCCGCTAAAGATTAATGCATTTAGTGACGTTTTCATAAAAAGCGTC
GCTAAAAGCCAAGGTCTTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAAGTCAACATATATAG
CGGCGTTTT
Found at i:783172 original size:43 final size:43
Alignment explanation
Indices: 783107--783332 Score: 255
Period size: 43 Copynumber: 5.2 Consensus size: 43
783097 CGCTATTATC
783107 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCTTGACT
1 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCTTGACT
* * * * * *
783150 TTTAGCGGCGCTTCCACT-ACAAACGCCGCAAAATACCTTGACC
1 TTTAGCGGCGCTT-AAGTCACAAACGCCGCTAAAGAGCTTGACT
* * *
783193 TTTAGCGGCGCTT-TGATCACAAACGCCGCTAAA-AGGCACT-AGGT
1 TTTAGCGGCGCTTAAG-TCACAAACGCCGCTAAAGA-GC-TTGA-CT
783237 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCTTGACT
1 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCTTGACT
* * *
783280 TTTAGCGGCGCTTAAGTCACAAACACCGCTAAAG-GCCGTGACC
1 TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAG-CTTGACT
783323 TTTAGCGGCG
1 TTTAGCGGCG
783333 TTTGTTTCTA
Statistics
Matches: 154, Mismatches: 19, Indels: 20
0.80 0.10 0.10
Matches are distributed among these distances:
42 3 0.02
43 113 0.73
44 36 0.23
45 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (43 bp):
TTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCTTGACT
Found at i:783348 original size:87 final size:85
Alignment explanation
Indices: 783106--783357 Score: 267
Period size: 87 Copynumber: 2.9 Consensus size: 85
783096 CCGCTATTAT
* * *
783106 CTTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGAGCTTGACTTTTAGCGGCGCTTCCACTACA
1 CTTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAG-GCCTGACTTTTAGCGGCGCTTACTCTACA
* *
783171 AACGCCGCAAAATACCTTGAC
65 AACGCCGCTAAAGACCTTGAC
* * *
783192 CTTTAGCGGCGCTT-TGATCACAAACGCCGCTAAAAGGCACT-AGGTTTTAGCGGCGCTTAAGTC
1 CTTTAGCGGCGCTTAAG-TCACAAACGCCGCT-AAAGGC-CTGA-CTTTTAGCGGCGCTT-ACTC
*
783255 -ACAAACGCCGCTAAAGAGCTTGAC
61 TACAAACGCCGCTAAAGACCTTGAC
* * * * ** *
783279 TTTTAGCGGCGCTTAAGTCACAAACACCGCTAAAGGCCGTGACCTTTAGCGGCGTTTGTTTCTAT
1 CTTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGGCC-TGACTTTTAGCGGCGCTT-ACTCTAC
783344 AAACGCCGCTAAAG
64 AAACGCCGCTAAAG
783358 TTAACGACGC
Statistics
Matches: 138, Mismatches: 19, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
85 2 0.01
86 52 0.38
87 82 0.59
88 2 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.23
Consensus pattern (85 bp):
CTTTAGCGGCGCTTAAGTCACAAACGCCGCTAAAGGCCTGACTTTTAGCGGCGCTTACTCTACAA
ACGCCGCTAAAGACCTTGAC
Found at i:783419 original size:14 final size:14
Alignment explanation
Indices: 783400--783438 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
783390 TTATTTTACT
783400 GATTCGTAAAAATC
1 GATTCGTAAAAATC
783414 GATTCGTAAAAATC
1 GATTCGTAAAAATC
783428 GATTCGTAAAA
1 GATTCGTAAAA
783439 GAAATTTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (14 bp):
GATTCGTAAAAATC
Found at i:788256 original size:4 final size:4
Alignment explanation
Indices: 788247--788273 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
788237 CTTTATCAAT
788247 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
788274 TATCATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:789876 original size:109 final size:109
Alignment explanation
Indices: 789554--790088 Score: 851
Period size: 109 Copynumber: 4.9 Consensus size: 109
789544 AATTTTTTTT
*
789554 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGTTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
*
789619 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
* * * * *
789663 ACATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAATCGTG-CATTATGTGCTGGGTTTCGTTT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
*
789727 TTTCTCGTTCGACCATATAGCCAAATATCCTTTTAAAAATTTCA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
*
789771 ACATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* *
789836 TTTCTCGTTCGAACAAATAACCAAATATCCTTTTAAAAATTTCA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
*
789880 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTTGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* * *
789945 TTTCTCGCTCGACCAAATAGCTAAATATCCTTTCAAAAATTTCA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
* * * * *
789989 AAATAAGGTAATGTTTTGCGTTTGGAAACTCGAGAAAACTTGCTCTAATGCGCTGGGTTTCGA--
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
* *
790052 TTTCTCGTTGGACCAAATAGCCAAATATCCTCTTAAA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
790089 TCTTAATCCA
Statistics
Matches: 392, Mismatches: 33, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
107 32 0.08
108 101 0.26
109 259 0.66
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
Found at i:793307 original size:12 final size:12
Alignment explanation
Indices: 793290--793314 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
793280 GGTGTTCAGT
793290 CGGTTAACCGAC
1 CGGTTAACCGAC
793302 CGGTTAACCGAC
1 CGGTTAACCGAC
793314 C
1 C
793315 CGAAATTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:793491 original size:9 final size:9
Alignment explanation
Indices: 793475--793602 Score: 148
Period size: 9 Copynumber: 13.6 Consensus size: 9
793465 TTTGGTTAAA
793475 AATTACCCG
1 AATTACCCG
*
793484 ACTTACCCG
1 AATTACCCG
*
793493 ACTTACCCG
1 AATTACCCG
793502 AATTACCCG
1 AATTACCCG
793511 AATTACCCG
1 AATTACCCG
793520 AAAATTACCCG
1 --AATTACCCG
793531 AATTACCCG
1 AATTACCCG
* *
793540 AAAATGACCCA
1 --AATTACCCG
*
793551 AATTACCCA
1 AATTACCCG
793560 AATTACCCG
1 AATTACCCG
*
793569 AAAATTACCCA
1 --AATTACCCG
793580 AATTACCCG
1 AATTACCCG
793589 AATTACCCG
1 AATTACCCG
793598 AATTA
1 AATTA
793603 AATCACTACA
Statistics
Matches: 105, Mismatches: 8, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
9 81 0.77
11 24 0.23
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.21
Consensus pattern (9 bp):
AATTACCCG
Found at i:793527 original size:20 final size:19
Alignment explanation
Indices: 793475--793599 Score: 150
Period size: 20 Copynumber: 6.6 Consensus size: 19
793465 TTTGGTTAAA
*
793475 AATTACCCG-ACTTACCCG
1 AATTACCCGAAATTACCCG
*
793493 ACTTACCCG-AATTACCCG
1 AATTACCCGAAATTACCCG
793511 AATTACCCGAAAATTACCCG
1 AATTACCCG-AAATTACCCG
* *
793531 AATTACCCGAAAATGACCCA
1 AATTACCCG-AAATTACCCG
793551 AATTACCC-AAATTACCCG
1 AATTACCCGAAATTACCCG
793569 AAAATTACCC-AAATTACCCG
1 --AATTACCCGAAATTACCCG
793589 AATTACCCGAA
1 AATTACCCGAA
793600 TTAAATCACT
Statistics
Matches: 95, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
18 40 0.42
19 2 0.02
20 53 0.56
ACGTcount: A:0.38, C:0.33, G:0.09, T:0.20
Consensus pattern (19 bp):
AATTACCCGAAATTACCCG
Found at i:793537 original size:29 final size:27
Alignment explanation
Indices: 793476--793602 Score: 155
Period size: 29 Copynumber: 4.5 Consensus size: 27
793466 TTGGTTAAAA
* * *
793476 ATTACCCGACTTACCCGACTTACCCGA
1 ATTACCCGAATTACCCAAATTACCCGA
793503 ATTACCCGAATTACCCGAAAATTACCCGA
1 ATTACCCGAATTACCC--AAATTACCCGA
* *
793532 ATTACCCGAAAATGACCCAAATTACCCAA
1 ATTACCCG--AATTACCCAAATTACCCGA
793561 ATTACCCGAAAATTACCCAAATTACCCGA
1 ATTACCCG--AATTACCCAAATTACCCGA
793590 ATTACCCGAATTA
1 ATTACCCGAATTA
793603 AATCACTACA
Statistics
Matches: 89, Mismatches: 7, Indels: 8
0.86 0.07 0.08
Matches are distributed among these distances:
27 20 0.22
29 62 0.70
31 7 0.08
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.21
Consensus pattern (27 bp):
ATTACCCGAATTACCCAAATTACCCGA
Found at i:793631 original size:17 final size:17
Alignment explanation
Indices: 793609--793669 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
793599 ATTAAATCAC
793609 TACATAATTAAAAACAT
1 TACATAATTAAAAACAT
** * *
793626 TACATAAATATTTGAATCAC
1 TACAT--A-ATTAAAAACAT
*
793646 TACATAATTAAAAATAT
1 TACATAATTAAAAACAT
793663 TACATAA
1 TACATAA
793670 GTCTTNNNNN
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 18 0.56
18 1 0.03
19 1 0.03
20 12 0.38
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.33
Consensus pattern (17 bp):
TACATAATTAAAAACAT
Found at i:798427 original size:18 final size:19
Alignment explanation
Indices: 798392--798440 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
798382 AACCGACCGC
798392 TTAACCGAATTCGGTCGG-
1 TTAACCGAATTCGGTCGGT
***
798410 TTAACCGAATTTTTTCGGTT
1 TTAACCGAATTCGGTCGG-T
798430 TTAACCGAATT
1 TTAACCGAATT
798441 ATGCACACCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 15 0.58
20 11 0.42
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (19 bp):
TTAACCGAATTCGGTCGGT
Found at i:798988 original size:21 final size:20
Alignment explanation
Indices: 798958--799022 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
798948 TAAAAAAGAG
*
798958 AGAGAGAAAAAAGAAGGAAAA
1 AGAGAAAAAAAAGAA-GAAAA
* *
798979 AGAGAAAAAATAGAAAGAAGA
1 AGAGAAAAAAAAG-AAGAAAA
*
799000 AGAAGAAAAGAAA-AAGAAAA
1 AG-AGAAAAAAAAGAAGAAAA
799020 AGA
1 AGA
799023 AAAGGAGAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 8 0.22
21 17 0.47
22 10 0.28
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.02
Consensus pattern (20 bp):
AGAGAAAAAAAAGAAGAAAA
Found at i:799004 original size:6 final size:6
Alignment explanation
Indices: 798974--799025 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
798964 AAAAAAGAAG
* * *
798974 GAAAAA GAGAAA -AAATA GAAAGAA GAAGAA G-AAAA GAAAAA GAAAAA
1 GAAAAA GAAAAA GAAAAA GAAA-AA GAAAAA GAAAAA GAAAAA GAAAAA
799021 GAAAA
1 GAAAA
799026 GGAGAGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
5 7 0.19
6 26 0.70
7 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:800508 original size:132 final size:131
Alignment explanation
Indices: 800278--800774 Score: 649
Period size: 132 Copynumber: 3.8 Consensus size: 131
800268 TGGAGCCATT
* * * * *
800278 AGTCCTATCTCCCTGATCAGCAGTGGAGTAGATTGAAGATTGTAGATTCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGT
* * * *
800343 AGTGAAGCAGATTGAAGATGGTGAATCTTATCTTCCCGAGATAGTGGAGAAACAGATTTAAGCCA
66 AGTGAAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAG-TAGTGGAGAAGCAGATTTAAACCA
**
800408 TA
130 CC
* * * *
800410 AATCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCTCCCTAAGAAGT
1 AGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGT
* *
800475 AGTGAAACAGATCGAAGATGGTGAATCTTATCTTCCCAAGTTAGTGGAGAAGTAGATTTAAACCA
66 AGTGAAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAG-TAGTGGAGAAGCAGATTTAAACCA
800540 CC
130 CC
* *
800542 AGTCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGTAGT
1 AGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGT
* * *
800607 AGTGGAGCAGATCAAAGACGGCT-AATCTTATCTTCCCAATGTAGTAGG-GAAGCAGATTTAAAC
66 AGTGAAGCAGATCGAAGATGG-TGAATCTTATCTTCCCAA-GTAGT-GGAGAAGCAGATTTAAAC
800670 CACC
128 CACC
* * * * *
800674 AGTCCTATCTCCCTAAGTAGTAGTGGAGTAGGTCGAAGATTGTAAATCCTGTCTCCCTAAGCAGT
1 AGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGT
* * * *
800739 AGTGGAGCAGATCGAAGATAGCGAATTTTA-CTTCCC
66 AGTGAAGCAGATCGAAGATGGTGAATCTTATCTTCCC
800775 TAGCGGTGCA
Statistics
Matches: 325, Mismatches: 36, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
131 6 0.02
132 315 0.97
133 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
AGTCCTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAGT
AGTGAAGCAGATCGAAGATGGTGAATCTTATCTTCCCAAGTAGTGGAGAAGCAGATTTAAACCAC
C
Found at i:800600 original size:44 final size:44
Alignment explanation
Indices: 800280--800757 Score: 166
Period size: 44 Copynumber: 10.9 Consensus size: 44
800270 GAGCCATTAG
* * *
800280 TCCTATCTCCCTGA-TCAGCAGTGGAGTAGATTGAAGATTGTAGA
1 TCCTATCTCCCTAAGT-AGTAGTGGAGTAGATTGAAGATTGCAGA
* * * * *
800324 TTCTGTCTCCCTAAGCAGTAGTGAAGCAGATTGAAGATGGTG-A-A
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGAT--TGCAGA
* * * * *
800368 TCTTATCTTCCC-GAG-A-TAGTGGAGAAACAGATTTAAGCCA-T--AAA
1 TCCTATC-TCCCTAAGTAGTAGTGGAG---TAGATTGAAG--ATTGCAGA
* * * *
800412 TCTTATCTCCCTAAGCAGCAGTGGAGTAGGTTGAAGATTGCAGA
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATTGCAGA
* * * * ** *
800456 TTCTGTCTCCCTAAGAAGTAGTGAAACAGATCGAAGATGGTG-A-A
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGAT--TGCAGA
* * * * * ***
800500 TCTTATCTTCCC-AAGTTAGTGGAGAAGTAGATTTAA-ACCACCAG-
1 TCCTATC-TCCCTAAG-TAGTAGTGGAGTAGATTGAAGA-TTGCAGA
* *
800544 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGA
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATTGCAGA
* * ** **
800588 TCCTGTCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGCTA-A
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATTGC-AGA
* * * ***
800632 TCTTATCTTCCC-AATGTAGTAG-GGAAGCAGATTTAA-ACCACCAG-
1 TCCTATC-TCCCTAA-GTAGTAGTGG-AGTAGATTGAAGA-TTGCAGA
* * * *
800676 TCCTATCTCCCTAAGTAGTAGTGGAGTAGGTCGAAGATTGTAAA
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATTGCAGA
* * * *
800720 TCCTGTCTCCCTAAGCAGTAGTGGAGCAGATCGAAGAT
1 TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGAT
800758 AGCGAATTTT
Statistics
Matches: 318, Mismatches: 80, Indels: 72
0.68 0.17 0.15
Matches are distributed among these distances:
41 1 0.00
42 8 0.03
43 53 0.17
44 188 0.59
45 56 0.18
46 11 0.03
47 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (44 bp):
TCCTATCTCCCTAAGTAGTAGTGGAGTAGATTGAAGATTGCAGA
Found at i:801089 original size:99 final size:99
Alignment explanation
Indices: 800759--801450 Score: 929
Period size: 99 Copynumber: 7.0 Consensus size: 99
800749 ATCGAAGATA
* * * * * *
800759 GCGAATTTTACTTCCCTA-GCGGTGCAGTGGAATAGATTGAAGCTACAATGACGAATCTGGCTTC
1 GCGAATCTTACTTCCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTC
* * *
800823 CTCGATATTGCAATTAAAAGATTGAGGCCTCAACG
65 CCCGACATTGCAATTAAAAGATTGAGGCCACAACG
* * * * * * * * *
800858 ACAAATCTTATTTCCCTGGTGGTGCAGTAGAGCAGATTGAAGCTACAACTGCAAATCTTGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
* *
800923 CTGACATTGCAATTAAAAAATTTGAGGCCACAACG
66 CCGACATTGCAATTAAAAGA-TTGAGGCCACAACG
* *
800958 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
*
801023 CCGACATTGCAATTAAGAGATTGAGGCCACAACG
66 CCGACATTGCAATTAAAAGATTGAGGCCACAACG
*
801057 GCGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
* * *
801122 TCGACATTGCAATTAAAAAAATTGAAGCCACAACG
66 CCGACATTGCAATT-AAAAGATTGAGGCCACAACG
** * * * * * ** *
801157 ATGAATCTTACTTCTCTGGCGGTGTAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGC-TCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
*
801221 CCTAACATTGCAATTAAAAAGATTGAGGCCACAACG
66 CC-GACATTGCAATT-AAAAGATTGAGGCCACAACG
* * * *
801257 GCGAATCTTACTTCCCTGGCGGGGCAGGGGAACAGATTGAAGCTACAATGGCAAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
801322 CCGACATTGCAATTAAAAGATTGAGGCCACAACG
66 CCGACATTGCAATTAAAAGATTGAGGCCACAACG
* *
801356 GCGAATCTTACTTCTCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
801421 CCGACATTGCAATTAAAAGATTGAGGCCAC
66 CCGACATTGCAATTAAAAGATTGAGGCCAC
801451 GAATAGATTG
Statistics
Matches: 520, Mismatches: 68, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
99 268 0.52
100 247 0.47
101 5 0.01
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (99 bp):
GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
CCGACATTGCAATTAAAAGATTGAGGCCACAACG
Found at i:801113 original size:199 final size:198
Alignment explanation
Indices: 800759--801450 Score: 967
Period size: 199 Copynumber: 3.5 Consensus size: 198
800749 ATCGAAGATA
* * * *
800759 GCGAATTTTACTTCCCTA-GCGGTGCAGTGGAATAGATTGAAGCTACAATGACGAATCTGGCTTC
1 GCGAATCTTACTTCCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTC
* * * * * * * *
800823 CTCGATATTGCAATTAAAAGATTGAGGCCTCAACGACAAATCTTATTTCCCTGGTGGTGCAGTAG
65 CCCGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGG
* * *
800888 AGCAGATTGAAGCTACAACTGCAAATCTTGCTTCCCTGACATTGCAATTAAAAAATTTGAGGCCA
130 AACAGATTGAAGCTACAACGGCAAATCTCGCTTCCCTGACATTGCAATTAAAAAA-TTGAGGCCA
800953 CAACG
194 CAACG
*
800958 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTTGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCC
* * *
801023 CCGACATTGCAATTAAGAGATTGAGGCCACAACGGCGAATCTTACTTCCCAGGCGGTGTAGTGGA
66 CCGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGA
*
801088 ACAGATTGAAGCTACAACGGCAAATCTCGCTT-CCTCGACATTGCAATTAAAAAAATTGAAGCCA
131 ACAGATTGAAGCTACAACGGCAAATCTCGCTTCCCT-GACATTGCAATT-AAAAAATTGAGGCCA
801152 CAACG
194 CAACG
** * * * * * **
801157 ATGAATCTTACTTCTCTGGCGGTGTAGTGGAATAGATTGAAGCTACAATGGTGAATCTTGC-TCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCC
* * *
801221 CCTAACATTGCAATTAAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGGGCAGGG
66 CC-GACATTGCAATT-AAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTG
* * *
801286 GAACAGATTGAAGCTACAATGGCAAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCA
129 GAACAGATTGAAGCTACAACGGCAAATCTCGCTTCCCTGACATTGCAATTAAAAAATTGAGGCCA
801351 CAACG
194 CAACG
* * *
801356 GCGAATCTTACTTCTCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCC
801421 CCGACATTGCAATTAAAAGATTGAGGCCAC
66 CCGACATTGCAATTAAAAGATTGAGGCCAC
801451 GAATAGATTG
Statistics
Matches: 437, Mismatches: 49, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
198 25 0.06
199 310 0.71
200 100 0.23
201 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (198 bp):
GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACGAATCTTGCTTCC
CCGACATTGCAATTAAAAGATTGAGGCCACAACGGCGAATCTTACTTCCCTGGCGGTGCAGTGGA
ACAGATTGAAGCTACAACGGCAAATCTCGCTTCCCTGACATTGCAATTAAAAAATTGAGGCCACA
ACG
Found at i:801303 original size:299 final size:299
Alignment explanation
Indices: 800759--801438 Score: 1008
Period size: 299 Copynumber: 2.3 Consensus size: 299
800749 ATCGAAGATA
* * * * *
800759 GCGAATTTTACTTCCCTA-GCGGTGCAGTGGAATAGATTGAAGCTACAATGACGAATCTGGCTTC
1 GCGAATCTTACTTCCC-AGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTC
* * * * * *
800823 CTCGATATTGCAATT-AAAAGATTGAGGCCTCAACGACAAATCTTATTTCCCTGGTGGTGCAGTA
65 CTCGACATTGCAATTAAAAAAATTGAAGCCACAACGACAAATCTTACTTCCCTGGCGGTGCAGTA
* * *
800887 GAGCAGATTGAAGCTACAACTGCAAATCTTGCTTCCCTGACATTGCAATTAAAAAATTTGAGGCC
130 GAACAGATTGAAGCTACAACTGCAAATCTTGCTCCCCTAACATTGCAATTAAAAAATTTGAGGCC
* * *
800952 ACAACGGCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGACAAATCTT
195 ACAACGGCGAATCTTACTTCCCAGGCGGGGCAGGGGAACAGATTGAAGCTACAACGACAAATCTC
*
801017 GCTTCCCCGACATTGCAATTAAGAGATTGAGGCCACAACG
260 GCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACG
* *
801057 GCGAATCTTACTTCCCAGGCGGTGTAGTGGAACAGATTGAAGCTACAACGGCAAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
** * * *
801122 TCGACATTGCAATTAAAAAAATTGAAGCCACAACGATGAATCTTACTTCTCTGGCGGTGTAGTGG
66 TCGACATTGCAATTAAAAAAATTGAAGCCACAACGACAAATCTTACTTCCCTGGCGGTGCAGTAG
* **
801187 AATAGATTGAAGCTACAA-TGGTGAATCTTGCTCCCCTAACATTGCAATTAAAAAGA-TTGAGGC
131 AACAGATTGAAGCTACAACT-GCAAATCTTGCTCCCCTAACATTGCAATTAAAAA-ATTTGAGGC
* * *
801250 CACAACGGCGAATCTTACTTCCCTGGCGGGGCAGGGGAACAGATTGAAGCTACAATGGCAAATCT
194 CACAACGGCGAATCTTACTTCCCAGGCGGGGCAGGGGAACAGATTGAAGCTACAACGACAAATCT
801315 CGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACG
259 CGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACG
*
801356 GCGAATCTTACTTCTCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
1 GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
*
801421 CCGACATTGCAATTAAAA
66 TCGACATTGCAATTAAAA
801439 GATTGAGGCC
Statistics
Matches: 343, Mismatches: 35, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
297 1 0.00
298 70 0.20
299 271 0.79
300 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.24
Consensus pattern (299 bp):
GCGAATCTTACTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGCGAATCTCGCTTCC
TCGACATTGCAATTAAAAAAATTGAAGCCACAACGACAAATCTTACTTCCCTGGCGGTGCAGTAG
AACAGATTGAAGCTACAACTGCAAATCTTGCTCCCCTAACATTGCAATTAAAAAATTTGAGGCCA
CAACGGCGAATCTTACTTCCCAGGCGGGGCAGGGGAACAGATTGAAGCTACAACGACAAATCTCG
CTTCCCCGACATTGCAATTAAAAGATTGAGGCCACAACG
Found at i:801522 original size:66 final size:66
Alignment explanation
Indices: 801389--801513 Score: 169
Period size: 66 Copynumber: 1.9 Consensus size: 66
801379 GCAGTGGAAC
* *
801389 AGATTGAAGCTACAACGGCGAATCTCGCTTCCCCGACATTGCAATTAAAAGATTGAGGCCACGAA
1 AGATTGAAGCTACAACGGCGAATCTCGCTTACCCGACATTGCAATTAAAAGATTGAAGCCACGAA
801454 T
66 T
* * ** * *
801455 AGATTGAAGCTACAATGGCGAATTTTTCTTACTCGACATTGCAGTTAAATAGATTGAAG
1 AGATTGAAGCTACAACGGCGAATCTCGCTTACCCGACATTGCAATTAAA-AGATTGAAG
801514 TTACAATAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
66 42 0.84
67 8 0.16
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (66 bp):
AGATTGAAGCTACAACGGCGAATCTCGCTTACCCGACATTGCAATTAAAAGATTGAAGCCACGAA
T
Found at i:803848 original size:109 final size:109
Alignment explanation
Indices: 803657--804083 Score: 653
Period size: 109 Copynumber: 3.9 Consensus size: 109
803647 AAATTTTTTT
* * * *
803657 AAATAAGGCAATGTTTTGGGTTTGGAAATTCGAGAAAACGTGCCATAATGTGGTGGGTTTCAATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTGGGTTTCGATT
803722 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
* * * *
803766 AAATAAGACAATATTTTGCGTTTGGAAATTTGAGAAAACGTGCCTTAATGTGCTGGGTTTCGATC
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTGGGTTTCGATT
* *
803831 TTTCTCGTTCGACCAAATAACCAAATATCCTTTTAAAAATTTTA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
*
803875 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGGGTTTCGATT
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTGGGTTTCGATT
* * *
803940 TTTCTCGCTCGACCAAATAGCTAAATATCCTTTCAAAAATTTCA
66 TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
* *
803984 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACTTG-CTCTAATGCGCTGGGTTTCGA-
1 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCT-TAATGTGCTGGGTTTCGAT
* * *
804047 -TTTCTCGTTGGACCAAATAGCCGAATATCCTCTTAAA
65 TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAA
804084 TCTTAATCCA
Statistics
Matches: 288, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
107 31 0.11
108 1 0.00
109 256 0.89
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (109 bp):
AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCTTAATGTGCTGGGTTTCGATT
TTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAAATTTCA
Found at i:805060 original size:30 final size:30
Alignment explanation
Indices: 805026--805096 Score: 133
Period size: 30 Copynumber: 2.4 Consensus size: 30
805016 GCGTGATTAA
*
805026 ACAAAAGATTCTTATTGTCTGGAAAAAAAC
1 ACAAAAGATTCTTATTGTCCGGAAAAAAAC
805056 ACAAAAGATTCTTATTGTCCGGAAAAAAAC
1 ACAAAAGATTCTTATTGTCCGGAAAAAAAC
805086 ACAAAAGATTC
1 ACAAAAGATTC
805097 GTCTGTTGTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.48, C:0.15, G:0.13, T:0.24
Consensus pattern (30 bp):
ACAAAAGATTCTTATTGTCCGGAAAAAAAC
Found at i:808982 original size:21 final size:20
Alignment explanation
Indices: 808958--809033 Score: 75
Period size: 21 Copynumber: 3.8 Consensus size: 20
808948 TTTTTTATGA
808958 TTTTATATAAATTTTAATACT
1 TTTTATA-AAATTTTAATACT
*** *
808979 TTTTAT-TGTTTTTATTA-T
1 TTTTATAAAATTTTAATACT
*
808997 TTTTATAGAATTTTAATACAT
1 TTTTATAAAATTTTAATAC-T
809018 TTTTATAAAATTTTAA
1 TTTTATAAAATTTTAA
809034 ATATGTTTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
18 7 0.16
19 14 0.33
21 22 0.51
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTATAAAATTTTAATACT
Found at i:808991 original size:19 final size:20
Alignment explanation
Indices: 808958--809033 Score: 77
Period size: 19 Copynumber: 3.9 Consensus size: 20
808948 TTTTTTATGA
808958 TTTTATATA-AATTTTAATAC
1 TTTT-TATAGAATTTTAATAC
* * *
808978 TTTTTATTG-TTTTTATTA-
1 TTTTTATAGAATTTTAATAC
808996 TTTTTATAGAATTTTAATAC
1 TTTTTATAGAATTTTAATAC
*
809016 ATTTTTATAAAATTTTAA
1 -TTTTTATAGAATTTTAA
809034 ATATGTTTTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
18 8 0.18
19 17 0.38
20 4 0.09
21 16 0.36
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (20 bp):
TTTTTATAGAATTTTAATAC
Found at i:808999 original size:38 final size:39
Alignment explanation
Indices: 808949--809023 Score: 118
Period size: 38 Copynumber: 1.9 Consensus size: 39
808939 CAATTCAGTT
808949 TTTTTATGATTTTATATA-AATTTTAATAC-TTTTTATTG
1 TTTTTATGATTTT-TATAGAATTTTAATACATTTTTATTG
*
808987 TTTTTATTATTTTTATAGAATTTTAATACATTTTTAT
1 TTTTTATGATTTTTATAGAATTTTAATACATTTTTAT
809024 AAAATTTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
37 4 0.12
38 23 0.68
39 7 0.21
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.64
Consensus pattern (39 bp):
TTTTTATGATTTTTATAGAATTTTAATACATTTTTATTG
Found at i:809109 original size:9 final size:9
Alignment explanation
Indices: 808949--809109 Score: 60
Period size: 9 Copynumber: 16.7 Consensus size: 9
808939 CAATTCAGTT
*
808949 TTTTTATGA
1 TTTTTATAA
808958 TTTTATATAAA
1 TTTT-TAT-AA
* *
808969 TTTTAATAC
1 TTTTTATAA
**
808978 TTTTTATTG
1 TTTTTATAA
*
808987 TTTTTATTA
1 TTTTTATAA
808996 TTTTTATAGAA
1 TTTTTAT--AA
*
809007 TTTTAATACA
1 TTTTTATA-A
809017 TTTTTATAAA
1 TTTTTAT-AA
* *
809027 ATTTTAAATA
1 TTTTTATA-A
809037 TGTTTTATTAA
1 T-TTTTA-TAA
809048 -TTTTATAA
1 TTTTTATAA
*
809056 TTTATTA-GA
1 TTT-TTATAA
809065 TTTATTAT-A
1 TTT-TTATAA
809074 TTTTTGATAGTA
1 TTTTT-ATA--A
*
809086 TTTATTAT-T
1 TTT-TTATAA
809095 TTTTTATAA
1 TTTTTATAA
809104 TTTTTA
1 TTTTTA
809110 AAAGTTTAAA
Statistics
Matches: 117, Mismatches: 17, Indels: 36
0.69 0.10 0.21
Matches are distributed among these distances:
8 9 0.08
9 58 0.50
10 22 0.19
11 19 0.16
12 7 0.06
13 2 0.02
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTATAA
Found at i:818578 original size:3 final size:3
Alignment explanation
Indices: 818546--818615 Score: 62
Period size: 3 Copynumber: 24.3 Consensus size: 3
818536 TTATACTCAT
818546 TTA TTCA TTA TTA -TA TT- TCTA -TA TTA -TA TTA TTA TT- TT- TGTA
1 TTA TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA T-TA
*
818588 TTA TTA TTA TTA TTA TTA TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
818616 AGTTGCTCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 16
0.76 0.03 0.21
Matches are distributed among these distances:
2 10 0.18
3 43 0.75
4 4 0.07
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:818646 original size:21 final size:21
Alignment explanation
Indices: 818622--818664 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
818612 TTATAGTTGC
*
818622 TCTTACATATATACGTATATT
1 TCTTACATATATACATATATT
**
818643 TCTTTTATATATACATATATT
1 TCTTACATATATACATATATT
818664 T
1 T
818665 TTCTAGATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (21 bp):
TCTTACATATATACATATATT
Found at i:820307 original size:17 final size:16
Alignment explanation
Indices: 820281--820312 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
820271 TCAAGCAAAT
820281 CAAAACAAGATTCAAC
1 CAAAACAAGATTCAAC
820297 CAAATACAAGATTCAA
1 CAAA-ACAAGATTCAA
820313 GGACGAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.56, C:0.22, G:0.06, T:0.16
Consensus pattern (16 bp):
CAAAACAAGATTCAAC
Found at i:821178 original size:12 final size:12
Alignment explanation
Indices: 821163--821187 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
821153 TCTTTCCATC
821163 TTTCTTCTTTAT
1 TTTCTTCTTTAT
821175 TTTCTTCTTTAT
1 TTTCTTCTTTAT
821187 T
1 T
821188 AATTCTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTCTTTAT
Found at i:823358 original size:41 final size:41
Alignment explanation
Indices: 823307--823418 Score: 161
Period size: 41 Copynumber: 2.7 Consensus size: 41
823297 CTTAATTATA
*
823307 CCCTGAATTGCACTTATGTGCCCCTGTTTATACTTCAGTAC
1 CCCTGAATTGCACTTATGTGCCACTGTTTATACTTCAGTAC
* * *
823348 CCCTAAATTGCACTTATGTGCCACTGTTTGTACTTCGGTAC
1 CCCTGAATTGCACTTATGTGCCACTGTTTATACTTCAGTAC
* * *
823389 CCCTGAATTGCACATACGTGCCATTGTTTA
1 CCCTGAATTGCACTTATGTGCCACTGTTTA
823419 CACTCCGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.36
Consensus pattern (41 bp):
CCCTGAATTGCACTTATGTGCCACTGTTTATACTTCAGTAC
Found at i:826684 original size:33 final size:32
Alignment explanation
Indices: 826580--826692 Score: 156
Period size: 32 Copynumber: 3.5 Consensus size: 32
826570 TAGAGGAATA
*
826580 TTGTTATCATTTAACAAAATTAAAGTTGATAT
1 TTGTTATCATTTCACAAAATTAAAGTTGATAT
* *
826612 TTTTTATCATTTTACAAAATTAAAGTTG-TAAT
1 TTGTTATCATTTCACAAAATTAAAGTTGAT-AT
* *
826644 TTGTTATCATTTCACAAAATGAAAAGCTGATAT
1 TTGTTATCATTTCACAAAAT-TAAAGTTGATAT
826677 TTGTTATCATTTCACA
1 TTGTTATCATTTCACA
826693 GAACCACACG
Statistics
Matches: 72, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
31 1 0.01
32 46 0.64
33 24 0.33
34 1 0.01
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (32 bp):
TTGTTATCATTTCACAAAATTAAAGTTGATAT
Found at i:831385 original size:51 final size:51
Alignment explanation
Indices: 831330--831773 Score: 353
Period size: 51 Copynumber: 8.7 Consensus size: 51
831320 GTGAAAGTGT
* *
831330 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * ** * * * *
831381 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* * * *
831432 TGGTCACGTGTGTAGTACTGTGTGAAGGCTATTAAGTGAATCGATAAATAA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * ** * * * * *
831483 TGGTCACATGTGTAGTACTAAGTGAAAGCTACAATATGTACCAAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* * ** *
831534 TGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
* * * * ** * * * *
831585 TGGTCACATGTGTAGTACTAAGTGAAAGCTACAATATGTACCGAGAAGCT-T
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAA-ATAA
* * *
831636 TGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAACCG-TAAA-ACT
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATA-A
* * * *
831686 TGATCATGTATGTAGTACTATGTGAAGGCTATTACGTGAACCG-TAAA-AA
1 TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
*
831735 TTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
1 -TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTG
831774 TATCGAATGA
Statistics
Matches: 298, Mismatches: 87, Indels: 17
0.74 0.22 0.04
Matches are distributed among these distances:
50 82 0.28
51 213 0.71
52 3 0.01
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.29
Consensus pattern (51 bp):
TGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACCGATAAATAA
Found at i:831488 original size:102 final size:102
Alignment explanation
Indices: 831329--831675 Score: 622
Period size: 102 Copynumber: 3.4 Consensus size: 102
831319 AGTGAAAGTG
*
831329 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
831394 AGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAAGCTACAATATGTACCGAGAAGCT
* * *
831431 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTATTAAGTGAATCGATAAATAATGGTCACATGTGT
1 TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
*
831496 AGTACTAAGTGAAAGCTACAATATGTACCAAGAAGCT
66 AGTACTAAGTGAAAGCTACAATATGTACCGAGAAGCT
* *
831533 TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGT
1 TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
831598 AGTACTAAGTGAAAGCTACAATATGTACCGAGAAGCT
66 AGTACTAAGTGAAAGCTACAATATGTACCGAGAAGCT
831635 TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAA
1 TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAA
831676 CCGTAAAACT
Statistics
Matches: 235, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 235 1.00
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (102 bp):
TTGGTCACGTGCGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGT
AGTACTAAGTGAAAGCTACAATATGTACCGAGAAGCT
Found at i:832686 original size:5 final size:5
Alignment explanation
Indices: 832676--832738 Score: 72
Period size: 5 Copynumber: 12.6 Consensus size: 5
832666 TGCTTGATGA
* * * * *
832676 AATGG AATGG AATGG AATGG TATGA AATGG AATAG TATAG AATGG AATGG
1 AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG AATGG
*
832726 TATGG AATGG AAT
1 AATGG AATGG AAT
832739 ATACATATAT
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
5 48 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.25
Consensus pattern (5 bp):
AATGG
Found at i:832977 original size:40 final size:40
Alignment explanation
Indices: 832933--833060 Score: 114
Period size: 40 Copynumber: 3.2 Consensus size: 40
832923 AGCGGCGTTT
*
832933 TTAGCGGCGCTTGGACAAAAACGCCACTAAAAATCGAGCA
1 TTAGCGGCGCTTGGACAAAAACGCCACTAAAAATAGAGCA
** * * * **
832973 TTAGCGGCGCTTTTATAAAAATGCCTCTAAAGGTAGAGCA
1 TTAGCGGCGCTTGGACAAAAACGCCACTAAAAATAGAGCA
*** * **
833013 TTAGCGGCGCTTCTCCGAAAACGCTGCTAAAAATA-AGCA
1 TTAGCGGCGCTTGGACAAAAACGCCACTAAAAATAGAGCA
*
833052 TTAGGGGCG
1 TTAGCGGCG
833061 TTTTCTGAAA
Statistics
Matches: 70, Mismatches: 18, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
39 12 0.17
40 58 0.83
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (40 bp):
TTAGCGGCGCTTGGACAAAAACGCCACTAAAAATAGAGCA
Found at i:833083 original size:38 final size:39
Alignment explanation
Indices: 832950--833083 Score: 101
Period size: 40 Copynumber: 3.4 Consensus size: 39
832940 CGCTTGGACA
* * * ***
832950 AAAACGCCACTAAAAATCGAGCATTAGCGGCGCTTTTATA
1 AAAACGCCGCTAAAAAT-AAGCATTAGCGGCGCTTCTCCG
* * **
832990 AAAATGCCTCTAAAGGTAGAGCATTAGCGGCGCTTCTCCG
1 AAAACGCCGCTAAAAATA-AGCATTAGCGGCGCTTCTCCG
* * * *
833030 AAAACGCTGCTAAAAATAAGCATTAGGGGCG-TTTTCTG
1 AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTCTCCG
833068 AAAAGCGCCGC-AAAAA
1 AAAA-CGCCGCTAAAAA
833084 GCCTAAGCCA
Statistics
Matches: 74, Mismatches: 18, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
38 14 0.19
39 17 0.23
40 43 0.58
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (39 bp):
AAAACGCCGCTAAAAATAAGCATTAGCGGCGCTTCTCCG
Found at i:833177 original size:41 final size:41
Alignment explanation
Indices: 833120--833237 Score: 209
Period size: 41 Copynumber: 2.9 Consensus size: 41
833110 GAGTTTTTGG
833120 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
* *
833161 GGCCTTTAGCGGCGTTTTTGAAGAAGCACCGTTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
833202 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
833238 AATAATCAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.30
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
Found at i:834189 original size:7 final size:7
Alignment explanation
Indices: 834149--834291 Score: 59
Period size: 7 Copynumber: 20.6 Consensus size: 7
834139 ATTAAATAAT
834149 GTTTAAGG
1 GTTT-AGG
834157 G-TTAGG
1 GTTTAGG
*
834163 GATTTTGG
1 G-TTTAGG
834171 G-TT-GG
1 GTTTAGG
834176 G-TTAGG
1 GTTTAGG
834182 GTTTAGG
1 GTTTAGG
*
834189 GATTAGG
1 GTTTAGG
834196 GATTTAGG
1 G-TTTAGG
*
834204 G--TCGG
1 GTTTAGG
834209 G-TTAGG
1 GTTTAGG
* *
834215 ATTTAAG
1 GTTTAGG
834222 GTTTATGG
1 GTTTA-GG
*
834230 G-TTAAG
1 GTTTAGG
*
834236 ATTTAGAG
1 GTTTAG-G
834244 GTTTAAGG
1 GTTT-AGG
834252 GTTTAGGG
1 GTTTA-GG
* *
834260 GTTAAGA
1 GTTTAGG
*
834267 GTTAAGG
1 GTTTAGG
* *
834274 ATTTAGA
1 GTTTAGG
834281 GTTTAGG
1 GTTTAGG
834288 GTTT
1 GTTT
834292 CATGGGTCGA
Statistics
Matches: 102, Mismatches: 21, Indels: 25
0.69 0.14 0.17
Matches are distributed among these distances:
5 9 0.09
6 13 0.13
7 49 0.48
8 29 0.28
9 2 0.02
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.38
Consensus pattern (7 bp):
GTTTAGG
Found at i:834195 original size:33 final size:32
Alignment explanation
Indices: 834149--834224 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
834139 ATTAAATAAT
* *
834149 GTTTAAGGGTTAGGGATTTTGGGTTGGGTTAGG
1 GTTT-AGGGTTAGGGATTTAGGGTCGGGTTAGG
834182 GTTTAGGGATTAGGGATTTAGGGTCGGGTTAGG
1 GTTTAGGG-TTAGGGATTTAGGGTCGGGTTAGG
* *
834215 ATTTAAGGTT
1 GTTTAGGGTT
834225 TATGGGTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 6 0.16
33 32 0.84
ACGTcount: A:0.18, C:0.01, G:0.42, T:0.38
Consensus pattern (32 bp):
GTTTAGGGTTAGGGATTTAGGGTCGGGTTAGG
Found at i:834573 original size:21 final size:20
Alignment explanation
Indices: 834539--834589 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
834529 TATGGATTTA
*
834539 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
834559 GGGATTTAAGGTTTAGGGGTT
1 GGGA-TTAAGGTTTAAGGGTT
*
834580 AGGGGTTAAG
1 -GGGATTAAG
834590 AACTAGGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.15
21 19 0.73
22 3 0.12
ACGTcount: A:0.22, C:0.00, G:0.43, T:0.35
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:839655 original size:42 final size:42
Alignment explanation
Indices: 839608--839753 Score: 125
Period size: 42 Copynumber: 3.3 Consensus size: 42
839598 AGGTTATGTT
839608 TTTAGCGACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTC
1 TTTAGCGACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTC
* * * ** * *
839650 TTTAGCGGCGTTTGTGAC-A-AAACGCCGCTAAAGATCATATTC
1 TTTAGCGACGTTTTTG-CTAGAAGCGTGGCTAAAGCT-TTATTC
839692 TTTAGTGGCGTTTGACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTC
1 TTTA---GC----GACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTC
*
839741 TTTAGCGGCGTTT
1 TTTAGCGACGTTT
839754 GTGACAAAAC
Statistics
Matches: 78, Mismatches: 15, Indels: 22
0.68 0.13 0.19
Matches are distributed among these distances:
41 12 0.15
42 30 0.38
43 1 0.01
45 2 0.03
46 2 0.03
48 1 0.01
49 18 0.23
50 12 0.15
ACGTcount: A:0.21, C:0.17, G:0.25, T:0.37
Consensus pattern (42 bp):
TTTAGCGACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTC
Found at i:839769 original size:91 final size:91
Alignment explanation
Indices: 839614--839796 Score: 366
Period size: 91 Copynumber: 2.0 Consensus size: 91
839604 TGTTTTTAGC
839614 GACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTCTTTAGCGGCGTTTGTGACAAAACGCCGCT
1 GACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTCTTTAGCGGCGTTTGTGACAAAACGCCGCT
839679 AAAGATCATATTCTTTAGTGGCGTTT
66 AAAGATCATATTCTTTAGTGGCGTTT
839705 GACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTCTTTAGCGGCGTTTGTGACAAAACGCCGCT
1 GACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTCTTTAGCGGCGTTTGTGACAAAACGCCGCT
839770 AAAGATCATATTCTTTAGTGGCGTTT
66 AAAGATCATATTCTTTAGTGGCGTTT
839796 G
1 G
839797 TGGCTAAAGC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (91 bp):
GACGTTTTTGCTAGAAGCGTGGCTAAAGCTTTATTCTTTAGCGGCGTTTGTGACAAAACGCCGCT
AAAGATCATATTCTTTAGTGGCGTTT
Found at i:839875 original size:43 final size:43
Alignment explanation
Indices: 839738--839924 Score: 232
Period size: 43 Copynumber: 4.4 Consensus size: 43
839728 TAAAGCTTTA
* *
839738 TTCTTTAGCGGCGTTTGTGACAAAA-CGCCGCTAAAGATCATA
1 TTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATG
* * * ** *
839780 TTCTTTAGTGGCGTTTGTGGCTAAAGCGCCGCTAAAACTCACG
1 TTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATG
* * *
839823 ATCTGTAGCGGTGTTTGTGACAAAAGCGCCGCTAAAGGTCATG
1 TTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATG
* * *
839866 TTCTTTAGCGGCGTTTGTTATAAAAGCGCCACTAAAGGTCATG
1 TTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATG
*
839909 ATCTTTAGCGGCGTTT
1 TTCTTTAGCGGCGTTT
839925 TTTCACATAA
Statistics
Matches: 121, Mismatches: 23, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 22 0.18
43 99 0.82
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.30
Consensus pattern (43 bp):
TTCTTTAGCGGCGTTTGTGACAAAAGCGCCGCTAAAGGTCATG
Found at i:841486 original size:18 final size:19
Alignment explanation
Indices: 841465--841500 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
841455 GTATACAGAG
*
841465 GTAATAATAG-TTTGGAAA
1 GTAAAAATAGTTTTGGAAA
841483 GTAAAAATAGTTTTGGAA
1 GTAAAAATAGTTTTGGAA
841501 GAAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (19 bp):
GTAAAAATAGTTTTGGAAA
Found at i:841559 original size:16 final size:16
Alignment explanation
Indices: 841540--841576 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
841530 TAAAACTATT
841540 AAATATTAAATTAAAA
1 AAATATTAAATTAAAA
*
841556 AAATA-TAATTTAAAA
1 AAATATTAAATTAAAA
841571 AAATAT
1 AAATAT
841577 GGGTGGACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATTAAATTAAAA
Found at i:841562 original size:31 final size:31
Alignment explanation
Indices: 841505--841563 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
841495 TTGGAAGAAA
* *
841505 TATTAAATTTTAATGATAAAATATATAAAAC
1 TATTAAATTTAAATGATAAAAAATATAAAAC
*
841536 TATTAAATATTAAATTA-AAAAAATATAA
1 TATTAAAT-TTAAATGATAAAAAATATAA
841564 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 18 0.75
32 6 0.25
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (31 bp):
TATTAAATTTAAATGATAAAAAATATAAAAC
Found at i:842473 original size:18 final size:19
Alignment explanation
Indices: 842452--842487 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
842442 GTATACAGAG
*
842452 GTAATAATAG-TTTGGAAA
1 GTAAAAATAGTTTTGGAAA
842470 GTAAAAATAGTTTTGGAA
1 GTAAAAATAGTTTTGGAA
842488 TAAATATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.22, T:0.33
Consensus pattern (19 bp):
GTAAAAATAGTTTTGGAAA
Found at i:842628 original size:16 final size:15
Alignment explanation
Indices: 842603--842633 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
842593 GTTTGCTGAA
842603 ATTAACCTAGAAAAT
1 ATTAACCTAGAAAAT
842618 ATTAGACCTAGAAAAT
1 ATTA-ACCTAGAAAAT
842634 GAGCTTAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.52, C:0.13, G:0.10, T:0.26
Consensus pattern (15 bp):
ATTAACCTAGAAAAT
Found at i:842901 original size:16 final size:16
Alignment explanation
Indices: 842882--842918 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
842872 TAAAACTATT
842882 AAATATTAAATTAAAA
1 AAATATTAAATTAAAA
*
842898 AAATA-TAATTTAAAA
1 AAATATTAAATTAAAA
842913 AAATAT
1 AAATAT
842919 GGGTGGACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATTAAATTAAAA
Found at i:843841 original size:107 final size:107
Alignment explanation
Indices: 843699--844125 Score: 573
Period size: 107 Copynumber: 4.0 Consensus size: 107
843689 AAGAAAAACG
843699 AAAA-AAAA-TTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTT
1 AAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTT
843762 TTTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAA
66 TTTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAA
* * **
843804 AAAATAAAATTTTTTTTTGGTGTTGGCCTGTCAATGGCTAGCACCCAGTACAATTTAAAATTTTT
1 AAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTT-AAATTTTT
* *
843869 TTCTT-TTTTTTTT-G-GCTCAGAATCAGATACCAGTATATGAAA
65 TT-TTCTTTTTTTTCGTG-TCAGAATCAGATATCAGTATACGAAA
* * * *
843911 AAATTAAATTTTTTTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCCAGTACAAATTAAAATTTT
1 AAAATAAA-ATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-AATTTAAATTTT
* * * *
843976 TTATTCTTTTTTTCCGTGTCAAAATCAAATATCAGTATACGAAA
64 TTTTTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAA
****
844020 AAAATAAAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTAC-ATTTAAA--TTT
1 AAAAT-AAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTT
*
844082 TTTTCTTTTTTTTCGTGTCAGAATCATATATCAGTATACGAAA
65 TTTTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAA
844125 A
1 A
844126 TTTTTCTTTT
Statistics
Matches: 279, Mismatches: 32, Indels: 22
0.84 0.10 0.07
Matches are distributed among these distances:
105 47 0.17
106 5 0.02
107 82 0.29
108 71 0.25
109 70 0.25
110 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (107 bp):
AAAATAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACAATTTAAATTTTTT
TTTCTTTTTTTTCGTGTCAGAATCAGATATCAGTATACGAAA
Found at i:844259 original size:106 final size:100
Alignment explanation
Indices: 844132--844316 Score: 271
Period size: 100 Copynumber: 1.8 Consensus size: 100
844122 AAAATTTTTC
*
844132 TTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGATTTTTTTAAATTGTAC
1 TTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC------AAAGATTTTTTTAAATTGTAC
*
844197 TGGGTGCCAGCCATTGACAGACCAACTTCCAAATTCTTTAT
60 TGGGTGCCAGCAATTGACAGACCAACTTCCAAATTCTTTAT
**
844238 TTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAATTTTTTTTTAAATTGTACTGGGTG
1 TTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAGATTTTTTTAAATTGTACTGGGTG
*
844303 CCGGCAATTGACAG
66 CCAGCAATTGACAG
844317 GCCAGCACCC
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
100 37 0.50
106 37 0.50
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.42
Consensus pattern (100 bp):
TTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAGATTTTTTTAAATTGTACTGGGTG
CCAGCAATTGACAGACCAACTTCCAAATTCTTTAT
Found at i:844340 original size:106 final size:100
Alignment explanation
Indices: 844123--844345 Score: 265
Period size: 100 Copynumber: 2.2 Consensus size: 100
844113 CAGTATACGA
* *
844123 AAATT-TTTCTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGATTTTTT
1 AAATTCTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-----AAAAGATTTTTT
* **
844187 TAAATTGTACTGGGTGCCAGCCATTGACAGACCAACTTCC
61 TAAATTGTACTGGGTGCCAGCAATTGACAGACCAACACCC
**
844227 AAATTCTTTATTTTTATTTTTTTCGTATACTGATATCTGACTCTGACAC-AAATTTTTTTTTAAA
1 AAATTCTTT-TTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAAGATTTTTTTAAA
* * *
844291 TTGTACTGGGTGCCGGCAATTGACAGGCCAGCACCC
65 TTGTACTGGGTGCCAGCAATTGACAGACCAACACCC
*
844327 AAATT-TTTTTTCT-TTTTTT
1 AAATTCTTTTTTTTATTTTTT
844346 CCCTTTTTCG
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
97 6 0.06
98 4 0.04
99 3 0.03
100 48 0.45
104 5 0.05
105 3 0.03
106 37 0.35
ACGTcount: A:0.26, C:0.17, G:0.13, T:0.43
Consensus pattern (100 bp):
AAATTCTTTTTTTTATTTTTTTCGTATACTGATATCTGACTCTGACACAAAAGATTTTTTTAAAT
TGTACTGGGTGCCAGCAATTGACAGACCAACACCC
Found at i:845625 original size:18 final size:16
Alignment explanation
Indices: 845602--845647 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
845592 AGAAAAAAAA
845602 ATATTTTTATTAATTTAT
1 ATATTTTTATT-ATTT-T
845620 ATATTTTTATGTATTTT
1 ATATTTTTAT-TATTTT
*
845637 TTATTTTTATT
1 ATATTTTTATT
845648 TATGTTTTCC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 10 0.38
18 14 0.54
19 1 0.04
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (16 bp):
ATATTTTTATTATTTT
Found at i:845655 original size:18 final size:17
Alignment explanation
Indices: 845603--845655 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
845593 GAAAAAAAAA
* *
845603 TATTTTTATTAATTTATA
1 TATTTTTATTTATTT-TT
*
845621 TATTTTTATGTATTTTT
1 TATTTTTATTTATTTTT
*
845638 TATTTTTATTTATGTTT
1 TATTTTTATTTATTTTT
845655 T
1 T
845656 CCACATGGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.74
Consensus pattern (17 bp):
TATTTTTATTTATTTTT
Found at i:846570 original size:24 final size:24
Alignment explanation
Indices: 846542--846593 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
846532 TTACAACTTC
846542 ATCTTCGAGATGTCGAAAGATTCA
1 ATCTTCGAGATGTCGAAAGATTCA
* *
846566 ATCTTCGGGATGTTGAAAGATTCA
1 ATCTTCGAGATGTCGAAAGATTCA
846590 ATCT
1 ATCT
846594 CAGAATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (24 bp):
ATCTTCGAGATGTCGAAAGATTCA
Found at i:857426 original size:3 final size:3
Alignment explanation
Indices: 857420--857484 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
857410 GTTATCTTTG
* *
857420 TTA TTA -TA TTA TATA TTA CTA TTA TTA TTA TTA -TA TTAA TTA TTG
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA
*
857465 TTA TTT TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
857485 TTAATACATA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
2 4 0.08
3 42 0.81
4 6 0.12
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:857453 original size:27 final size:27
Alignment explanation
Indices: 857420--857480 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
857410 GTTATCTTTG
857420 TTATTATATT-ATATATTACTATTATTA
1 TTATTATATTAAT-TATTACTATTATTA
** *
857447 TTATTATATTAATTATTGTTATTTTTA
1 TTATTATATTAATTATTACTATTATTA
857474 TTATTAT
1 TTATTAT
857481 TATTTTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 28 0.93
28 2 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (27 bp):
TTATTATATTAATTATTACTATTATTA
Found at i:857526 original size:2 final size:2
Alignment explanation
Indices: 857519--857549 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
857509 TGTATCTTAT
*
857519 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
857550 TTTAAATGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:865404 original size:42 final size:44
Alignment explanation
Indices: 865339--865460 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 44
865329 TCAAATAACA
* * * * *
865339 ATGCCACTATCCCAAACAGGGTCTTACACGAAATCAT-ATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATCAAATCG
865381 ATGCCAATGTCCCAGACATGGTCTTACACGTAAATC-TCAAATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCATCAAATCG
* ** * *
865425 ATGCCAACGTCCCAGATGTGGTCTTATACGATATCA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
865461 CGTATCAGAA
Statistics
Matches: 66, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
42 27 0.41
43 12 0.18
44 27 0.41
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.25
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCATCAAATCG
Found at i:865586 original size:33 final size:32
Alignment explanation
Indices: 865544--865621 Score: 90
Period size: 33 Copynumber: 2.5 Consensus size: 32
865534 TCTTATGCTA
* *
865544 AATTCAATTCAACAT-TGTAGTATACATACATAC
1 AATTCAATTCAACATATGTA-TA-AAATAAATAC
865577 AATTCAATTCAAC-TATGTATAAAATAAATAC
1 AATTCAATTCAACATATGTATAAAATAAATAC
*
865608 -ATTCAATTTAACAT
1 AATTCAATTCAACAT
865622 CATTTATTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
30 11 0.28
31 9 0.22
32 3 0.08
33 17 0.43
ACGTcount: A:0.46, C:0.15, G:0.04, T:0.35
Consensus pattern (32 bp):
AATTCAATTCAACATATGTATAAAATAAATAC
Found at i:869652 original size:17 final size:17
Alignment explanation
Indices: 869611--869653 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
869601 TTTGTTAGGG
*
869611 TTAAGATTTTTTAAGAA
1 TTAAGGTTTTTTAAGAA
869628 TTAAGGTTTTTTAAGAA
1 TTAAGGTTTTTTAAGAA
*
869645 TTAGGGTTT
1 TTAAGGTTT
869654 AAGGTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (17 bp):
TTAAGGTTTTTTAAGAA
Found at i:874696 original size:25 final size:25
Alignment explanation
Indices: 874662--874744 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
874652 TGCTAGACAG
*
874662 AATATGCCACAAAGGCAATATACAT
1 AATACGCCACAAAGGCAATATACAT
* * *
874687 AATACGCCACAAGGGTAATATATAT
1 AATACGCCACAAAGGCAATATACAT
* * * *
874712 AGTATGCAACAAAGGCTAA-AT-CAG
1 AATACGCCACAAAGGC-AATATACAT
874736 AATACGCCA
1 AATACGCCA
874745 TAGAGGCTAT
Statistics
Matches: 43, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
24 7 0.16
25 34 0.79
26 2 0.05
ACGTcount: A:0.46, C:0.19, G:0.16, T:0.19
Consensus pattern (25 bp):
AATACGCCACAAAGGCAATATACAT
Found at i:879256 original size:105 final size:101
Alignment explanation
Indices: 879110--879303 Score: 255
Period size: 105 Copynumber: 1.9 Consensus size: 101
879100 CTCATAATGT
* ** * *
879110 CATAACCCAGTTATGGTATTATCATTAGGATGCCATAGCCCAGCTATGGTCTTACACATATACAT
1 CATAACACAGTTATGGTATTATCATTACAATGCCATAGCCCAACTATGGTCTTACACATAAACAT
*
879175 TTACTGCCATGGTCCAACTATGGTCTTACGTTTAAGATGC
66 TT--T--CATGGTCCAACCATGGTCTTACGTTTAAGATGC
* **
879215 CATAACACAGTTATGGT-CTATTCATTACAATGCCATAGCCCAACTATGGTCTTACATTTAAACA
1 CATAACACAGTTATGGTATTA-TCATTACAATGCCATAGCCCAACTATGGTCTTACACATAAACA
879279 TTTTCATGGTCCAACCATGGTCTTA
65 TTTTCATGGTCCAACCATGGTCTTA
879304 TCCGTCAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
101 20 0.25
103 1 0.01
104 2 0.03
105 56 0.71
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
CATAACACAGTTATGGTATTATCATTACAATGCCATAGCCCAACTATGGTCTTACACATAAACAT
TTTCATGGTCCAACCATGGTCTTACGTTTAAGATGC
Found at i:881442 original size:26 final size:23
Alignment explanation
Indices: 881409--881460 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 23
881399 GAAATAAGTC
*
881409 AAAGAAAATAAAAATTAAACAACTA
1 AAAGAAAATAAAAAAT-AA-AACTA
881434 AAAGCAAAATAAAAAATAAAACTA
1 AAAG-AAAATAAAAAATAAAACTA
881458 AAA
1 AAA
881461 ATAAAATCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 8 0.32
25 6 0.24
26 11 0.44
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.13
Consensus pattern (23 bp):
AAAGAAAATAAAAAATAAAACTA
Found at i:883575 original size:6 final size:6
Alignment explanation
Indices: 883562--883594 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
883552 TAGGAATTAT
*
883562 GGAAA- GGAAAA GGAAAG GGAAAG GGAAAG GGAA
1 GGAAAG GGAAAG GGAAAG GGAAAG GGAAAG GGAA
883595 TGTGGCTAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:889401 original size:19 final size:20
Alignment explanation
Indices: 889364--889408 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
889354 TTATTTTGTC
*
889364 ACTAGAAAAAGAGAGATTACT
1 ACTA-AAAAAGAGAGATTACA
*
889385 ACTAAAAAA-AGATATTACA
1 ACTAAAAAAGAGAGATTACA
889404 ACTAA
1 ACTAA
889409 TATTACGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.59
20 5 0.23
21 4 0.18
ACGTcount: A:0.58, C:0.11, G:0.11, T:0.20
Consensus pattern (20 bp):
ACTAAAAAAGAGAGATTACA
Found at i:890438 original size:114 final size:114
Alignment explanation
Indices: 890239--890923 Score: 914
Period size: 114 Copynumber: 6.0 Consensus size: 114
890229 AAAATAAGCA
*** *
890239 TTAGCGGCGTTTTCCAGAAAGCGCCAC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
890303 TCGAGGG-TTTCGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGTAT
66 TCG-GGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTAT
* * * **
890352 TTAGCAGCATTTTTGGGAAAGCGCCGCAAAAAAACCTATGCCCAACGACGCTATTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* ***
890417 TCGGGGATTTCGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGCCC
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTAT
* * * *
890466 TTAGCGGCGTTTTTAGGAAAGCTCCGC-AAAATACCTAAGCCCAACGACGCCGTTTACTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
890530 ACGGTGATTTAGCGGCGTTTTTAAGAATA-CGCCGCTAATTCTCAGGTCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAA-AGCGCCGCTAATGCTCAGGTAT
* * *
890579 TTAGCGGCGTTTTTGGTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCGT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
890644 TCAGGGATTTACCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAAGTCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTAT
* * *
890693 TTAGTGGCGTTTTTGGG-AAGCTCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
890757 TCGGGGATTTAGCAGCGTTTTGTAAGAAAGCGCCGCTAATTCTCAGGGAT
66 TCGGGGATTTAGCGGCGTTTT-TAAGAAAGCGCCGCTAATGCTCAGGTAT
* * * *
890807 TTAGCGGCGTTGTTGGTAAAGCGCCGCAAAAAAACCTAATCCCAACGACTCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* *
890872 TTGGGGATTTAGCGACGTTTTTAAGAAAGCGCCGCTAATGCTCAAGG-AT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTC-AGGTAT
890921 TTA
1 TTA
890924 AAATAATTTA
Statistics
Matches: 500, Mismatches: 64, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
113 183 0.37
114 252 0.50
115 65 0.13
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGTAT
Found at i:890637 original size:227 final size:226
Alignment explanation
Indices: 890239--890917 Score: 961
Period size: 227 Copynumber: 3.0 Consensus size: 226
890229 AAAATAAGCA
* * *
890239 TTAGCGGCGTTTTCCA-GAAAGCGCCACAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTT-TAGGAAAGCTCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * * * *
890303 TCGAGGGTTTCGCGGCGTTTTTAAGAAAGCGCCACTAATGCTCAGGTATTTAGCAGCATTTTTGG
65 TCG-GGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATTCTCAGGTATTTAGCGGCGTTTTTGG
* * *
890368 GAAAGCGCCGCAAAAAAACCTATGCCCAACGACGCTATTTTCTGAGCTTTCGGGGATTTCGCGGC
129 TAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTCGCGGC
*
890433 GTTTTTAAGAAAGCGCCGCTAATGCTCAGGCCC
194 GTTTTTAAGAAAGCGCCGCTAATGCTCAAGCCC
* * *
890466 TTAGCGGCGTTTTTAGGAAAGCTCCGCAAAATACCTAAGCCCAACGACGCCGTTTACTGAGCTTA
1 TTAGCGGCGTTTTTAGGAAAGCTCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
*
890531 CGGTGATTTAGCGGCGTTTTTAAGAATA-CGCCGCTAATTCTCAGGTCTTTAGCGGCGTTTTTGG
66 CGG-GATTTAGCGGCGTTTTTAAGAA-AGCGCCGCTAATTCTCAGGTATTTAGCGGCGTTTTTGG
* *
890595 TAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCGTTCAGGGATTTAC-CGG
129 TAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTT-CGCGG
* *
890659 CGTTTTTAAGAAAGCGCCGCTAATGCTCAAGTCT
193 CGTTTTTAAGAAAGCGCCGCTAATGCTCAAGCCC
* * *
890693 TTAGTGGCGTTTTT-GGGAAGCTCCGCAAAAAAACCTAAGCCCAACGACACCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTAGGAAAGCTCCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * *
890757 TCGGGGATTTAGCAGCGTTTTGTAAGAAAGCGCCGCTAATTCTCAGGGATTTAGCGGCGTTGTTG
65 TC-GGGATTTAGCGGCGTTTT-TAAGAAAGCGCCGCTAATTCTCAGGTATTTAGCGGCGTTTTTG
* * * * * *
890822 GTAAAGCGCCGCAAAAAAACCTAATCCCAACGACTCCGTTTTCTGAGCTTTTGGGGATTTAGCGA
128 GTAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTCGCGG
890887 CGTTTTTAAGAAAGCGCCGCTAATGCTCAAG
193 CGTTTTTAAGAAAGCGCCGCTAATGCTCAAG
890918 GATTTAAAAT
Statistics
Matches: 404, Mismatches: 39, Indels: 17
0.88 0.08 0.04
Matches are distributed among these distances:
226 13 0.03
227 262 0.65
228 129 0.32
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (226 bp):
TTAGCGGCGTTTTTAGGAAAGCTCCGCAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTTT
CGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATTCTCAGGTATTTAGCGGCGTTTTTGGTA
AAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCATTTTCTGAGCTTTCGGGGATTTCGCGGCGT
TTTTAAGAAAGCGCCGCTAATGCTCAAGCCC
Found at i:891160 original size:15 final size:15
Alignment explanation
Indices: 891142--891180 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
891132 TACCATTTTA
891142 AGGTTTATGGATTAT
1 AGGTTTATGGATTAT
* *
891157 AGGTTTAGGGGTTAT
1 AGGTTTATGGATTAT
891172 -GGTTTATGG
1 AGGTTTATGG
891181 TTTAAAGGCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (15 bp):
AGGTTTATGGATTAT
Found at i:891163 original size:22 final size:21
Alignment explanation
Indices: 891138--891185 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
891128 GTGTTACCAT
*
891138 TTTAAGGTTTATGGATTATAGG
1 TTTAAGGGTTATGGATTAT-GG
* *
891160 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
891181 TTTAA
1 TTTAA
891186 AGGCCGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Done.