Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008166.1 Hibiscus syriacus cultivar Beakdansim tig00110747_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2544747
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:621122 original size:12 final size:13
Alignment explanation
Indices: 621104--621136 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
621094 AAGAAAATAT
621104 TAATAATAATTAA
1 TAATAATAATTAA
621117 -AATAAT-ATTAA
1 TAATAATAATTAA
621128 TAATAATAA
1 TAATAATAA
621137 AATAAAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.28
12 12 0.67
13 1 0.06
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAATAATTAA
Found at i:621125 original size:21 final size:20
Alignment explanation
Indices: 621099--621141 Score: 77
Period size: 21 Copynumber: 2.1 Consensus size: 20
621089 CCTGCAAGAA
621099 AATATTAATAATAATTAAAAT
1 AATATTAATAATAA-TAAAAT
621120 AATATTAATAATAATAAAAT
1 AATATTAATAATAATAAAAT
621140 AA
1 AA
621142 AGATTGGTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATTAATAATAATAAAAT
Found at i:622020 original size:16 final size:17
Alignment explanation
Indices: 621982--622022 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
621972 TGAGTAGATA
* *
621982 AATTATTTTATATTTTT
1 AATTATTTAATATTGTT
621999 AA-TATTTAATA-TGTT
1 AATTATTTAATATTGTT
622014 AATTATTTA
1 AATTATTTA
622023 TAATTTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 5 0.24
16 14 0.67
17 2 0.10
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTATTTAATATTGTT
Found at i:624398 original size:18 final size:18
Alignment explanation
Indices: 624377--624431 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 18
624367 CTAAATTAAG
*
624377 TAAACAAATTAAATA-AAA
1 TAAACAAAATAAA-AGAAA
*
624395 TAAAGAAAATAAAAGAAA
1 TAAACAAAATAAAAGAAA
624413 TAAA-AAGAATAGAAAGAAA
1 TAAACAA-AATA-AAAGAAA
624432 GAAAAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
17 3 0.09
18 22 0.69
19 7 0.22
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.15
Consensus pattern (18 bp):
TAAACAAAATAAAAGAAA
Found at i:624526 original size:3 final size:3
Alignment explanation
Indices: 624518--624598 Score: 96
Period size: 3 Copynumber: 28.0 Consensus size: 3
624508 AAATGTTAGG
* * * * *
624518 TAA TAA TAA TAA TAA TAA TAA TAA -CA TGA GAA -AA AAA GAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
624563 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
624599 ATCACCTAAT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
2 5 0.07
3 65 0.93
ACGTcount: A:0.68, C:0.01, G:0.04, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:624758 original size:8 final size:9
Alignment explanation
Indices: 624732--624762 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
624722 CTAGCAGATT
624732 ATACTAAAAA
1 ATAC-AAAAA
624742 ATACAAAAA
1 ATACAAAAA
624751 ATACAAAAA
1 ATACAAAAA
624760 ATA
1 ATA
624763 TATATGTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 17 0.81
10 4 0.19
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (9 bp):
ATACAAAAA
Found at i:625451 original size:17 final size:17
Alignment explanation
Indices: 625422--625463 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
625412 TTATACCTAG
625422 TATTTTATT-TATTCATA
1 TATTTT-TTATATTCATA
*
625439 TATTTTTTATATTCTTA
1 TATTTTTTATATTCATA
625456 -ATTTTTTA
1 TATTTTTTA
625464 GTATAATCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (17 bp):
TATTTTTTATATTCATA
Found at i:626125 original size:19 final size:17
Alignment explanation
Indices: 626101--626149 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
626091 CTTTTTTTTC
626101 TTTCTTTCTATTCTTTGTA
1 TTTCTTT-TATT-TTTGTA
*
626120 TTTCTTTTATTTTTTTA
1 TTTCTTTTATTTTTGTA
*
626137 TTTTATTTTATTT
1 -TTTCTTTTATTT
626150 GTTTCCTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 5 0.19
18 15 0.56
19 7 0.26
ACGTcount: A:0.12, C:0.08, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTCTTTTATTTTTGTA
Found at i:626647 original size:3 final size:3
Alignment explanation
Indices: 626639--626676 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
626629 AAATGTTAGC
*
626639 TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
626677 GGAGAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:626991 original size:14 final size:14
Alignment explanation
Indices: 626974--627007 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
626964 AGGTTAAAGA
626974 AATAAAATTAA-AAT
1 AATAAAA-TAATAAT
626988 AATAAAATAATAAT
1 AATAAAATAATAAT
627002 AATAAA
1 AATAAA
627008 GGACCAAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.16
14 16 0.84
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:627318 original size:14 final size:14
Alignment explanation
Indices: 627299--627325 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
627289 TGTTCTTCAT
627299 ACACGAAGAACACA
1 ACACGAAGAACACA
627313 ACACGAAGAACAC
1 ACACGAAGAACAC
627326 GACCGCTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.30, G:0.15, T:0.00
Consensus pattern (14 bp):
ACACGAAGAACACA
Found at i:628410 original size:22 final size:20
Alignment explanation
Indices: 628372--628414 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
628362 ATTAATTATT
628372 TAAAAAATTAAATAAAAATA
1 TAAAAAATTAAATAAAAATA
*
628392 TAAAAACATTTAATAAAAA-A
1 TAAAAA-ATTAAATAAAAATA
628412 TAA
1 TAA
628415 TTTTTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (20 bp):
TAAAAAATTAAATAAAAATA
Found at i:628921 original size:20 final size:20
Alignment explanation
Indices: 628896--628954 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
628886 TTTTGAGTTT
628896 AAGTTTCAATATTATATTTC
1 AAGTTTCAATATTATATTTC
*
628916 AAGTTTTAATATTATATTTC
1 AAGTTTCAATATTATATTTC
*
628936 AAATTTCAATATTATATTT
1 AAGTTTCAATATTATATTT
628955 TAATTCGAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.03, T:0.53
Consensus pattern (20 bp):
AAGTTTCAATATTATATTTC
Found at i:629038 original size:19 final size:20
Alignment explanation
Indices: 629009--629046 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
628999 GTTCATGGTC
629009 CAGTCCGGTTCAACGGTTCA
1 CAGTCCGGTTCAACGGTTCA
629029 CAGT-CGGTTCAACGGTTC
1 CAGTCCGGTTCAACGGTTC
629047 CTTTCGGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.18, C:0.29, G:0.26, T:0.26
Consensus pattern (20 bp):
CAGTCCGGTTCAACGGTTCA
Found at i:648744 original size:33 final size:33
Alignment explanation
Indices: 648707--648772 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
648697 CACGCTAAGT
* *
648707 ATATACTTAGTGAGGTAATTAAAATAGTAAACA
1 ATATACTTAGTGAGGCAAATAAAATAGTAAACA
648740 ATATACTTAGTGAGGCAAATAAAATAGTAAACA
1 ATATACTTAGTGAGGCAAATAAAATAGTAAACA
648773 GGGCAATACA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (33 bp):
ATATACTTAGTGAGGCAAATAAAATAGTAAACA
Found at i:659377 original size:14 final size:14
Alignment explanation
Indices: 659358--659385 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
659348 TCATATTATT
659358 ATTTTAAAGTATGA
1 ATTTTAAAGTATGA
659372 ATTTTAAAGTATGA
1 ATTTTAAAGTATGA
659386 TTTAATTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTTTAAAGTATGA
Found at i:663508 original size:80 final size:80
Alignment explanation
Indices: 663370--663661 Score: 485
Period size: 80 Copynumber: 3.6 Consensus size: 80
663360 CAACAAAAAG
* * * *
663370 GGGAGCCAACCTAAGGCTATACCTTGGGTCTACCCGAGGACATCCTTAGATCCGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
**
663435 TAAGCACACAGTTAA
66 TAAGCACACAGCAAA
* *
663450 GGAAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCTGTAGGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
*
663515 TAAGCACACAACAAA
66 TAAGCACACAGCAAA
*
663530 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTATGGTTACCT
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
663595 TAAGCACACAGCAAA
66 TAAGCACACAGCAAA
*
663610 GGGAACCAACCTAAGGATATACCTTGGTTCTACCTAAGGACATCCTTAGATC
1 GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATC
663662 TATAGGGACT
Statistics
Matches: 198, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 198 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (80 bp):
GGGAACCAACCTAAGGATATACCTTGGTTCTACCCAAGGACATCCTTAGATCCGTAGGGTTACCT
TAAGCACACAGCAAA
Found at i:663663 original size:22 final size:23
Alignment explanation
Indices: 663618--663663 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
663608 AAGGGAACCA
* * *
663618 ACCTAAGGATATACCTTGGTTCT
1 ACCTAAGGACATACCTTAGATCT
663641 ACCTAAGGACAT-CCTTAGATCT
1 ACCTAAGGACATACCTTAGATCT
663663 A
1 A
663664 TAGGGACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (23 bp):
ACCTAAGGACATACCTTAGATCT
Found at i:668907 original size:10 final size:10
Alignment explanation
Indices: 668892--668925 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
668882 CCTCAACTCA
668892 TCTTTTTTTT
1 TCTTTTTTTT
*
668902 TCTTTTTTTC
1 TCTTTTTTTT
*
668912 TCTTTATTTT
1 TCTTTTTTTT
668922 TCTT
1 TCTT
668926 CTCCATAGCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (10 bp):
TCTTTTTTTT
Found at i:670062 original size:12 final size:12
Alignment explanation
Indices: 670045--670127 Score: 71
Period size: 12 Copynumber: 6.9 Consensus size: 12
670035 CAAAAATCAA
670045 AACAGAATTCAG
1 AACAGAATTCAG
670057 AACAGATATT-AG
1 AACAGA-ATTCAG
* *
670069 AACAGAATCCAT
1 AACAGAATTCAG
* *
670081 ATCAGAAATCAG
1 AACAGAATTCAG
670093 AACAGAATTCAG
1 AACAGAATTCAG
** *
670105 GTCATGTA-TCAG
1 AACA-GAATTCAG
670117 AACAGAATTCA
1 AACAGAATTCA
670128 AGTCGAAAAT
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
11 4 0.08
12 44 0.83
13 5 0.09
ACGTcount: A:0.47, C:0.17, G:0.16, T:0.20
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:670086 original size:24 final size:24
Alignment explanation
Indices: 670038--670100 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
670028 GAGATATCAA
* *
670038 AAATCAAAACAGAATTCAGAACAG
1 AAATCAGAACAGAATCCAGAACAG
* * * *
670062 ATATTAGAACAGAATCCATATCAG
1 AAATCAGAACAGAATCCAGAACAG
670086 AAATCAGAACAGAAT
1 AAATCAGAACAGAAT
670101 TCAGGTCATG
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.54, C:0.16, G:0.13, T:0.17
Consensus pattern (24 bp):
AAATCAGAACAGAATCCAGAACAG
Found at i:670119 original size:48 final size:48
Alignment explanation
Indices: 670031--670124 Score: 127
Period size: 48 Copynumber: 2.0 Consensus size: 48
670021 GTAAACGGAG
*
670031 ATATCAAAAATCAAAACAGAATTCAGAACAGATATTAGAACAGAATCC
1 ATATCAAAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
* * **
670079 ATATCAGAAATCAGAACAGAATTCAGGTCATG-TATCAGAACAGAAT
1 ATATCAAAAATCAAAACAGAATTCAGAACA-GATATCAGAACAGAAT
670125 TCAAGTCGAA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (48 bp):
ATATCAAAAATCAAAACAGAATTCAGAACAGATATCAGAACAGAATCC
Found at i:670138 original size:48 final size:47
Alignment explanation
Indices: 670031--670141 Score: 118
Period size: 48 Copynumber: 2.3 Consensus size: 47
670021 GTAAACGGAG
* *
670031 ATATCAAAAATCAAAACAGAATTCAGAACAGATATTAGAACAGAATCC
1 ATATC-AAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCC
** *
670079 ATATCAGAAATCAGAACAGAATTCAGGTCATG-TATCAGAACAGAATTC
1 ATATCA-AAATCAGAACAGAATTCAGAACA-GATATCAGAACAGAATCC
670127 A-AGTCGAAAATCAGA
1 ATA-TC-AAAATCAGA
670142 TAAAATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
47 2 0.04
48 50 0.93
49 2 0.04
ACGTcount: A:0.50, C:0.16, G:0.14, T:0.20
Consensus pattern (47 bp):
ATATCAAAATCAGAACAGAATTCAGAACAGATATCAGAACAGAATCC
Found at i:670139 original size:24 final size:24
Alignment explanation
Indices: 670067--670141 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
670057 AACAGATATT
* *
670067 AGAACAGAATCCATA-TCAGAAATC
1 AGAACAGAATTCA-AGTCATAAATC
* **
670091 AGAACAGAATTCAGGTCATGTATC
1 AGAACAGAATTCAAGTCATAAATC
670115 AGAACAGAATTCAAGTCGA-AAATC
1 AGAACAGAATTCAAGTC-ATAAATC
670139 AGA
1 AGA
670142 TAAAATATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAACAGAATTCAAGTCATAAATC
Found at i:675318 original size:487 final size:486
Alignment explanation
Indices: 674406--675377 Score: 1671
Period size: 487 Copynumber: 2.0 Consensus size: 486
674396 ATTTAGGTTA
*
674406 GTGACCAAAATATAAATTTGAAAGTTTAGTGGTAAAAGTAAAAGTTTAGGAAAAGTTTAGGGACC
1 GTGACCAAAACATAAATTTGAAAGTTTAGTGGTAAAAGTAAAAGTTTAGGAAAAGTTTAGGGACC
*
674471 TAAGTGGTAATTTTCTCAAAAAGAAATTTTATTCCATAAATGAATATTTTACCTCCAAGAATGAC
66 TAAGTGGTAATTTTCTCAAAAAGAAATTTTATTCCATAAATGAATATTTTACCCCCAAGAATGAC
674536 ATTCTTTTGAGAATCAGATTTTTGATTCGGAATTTGTGTTAAAAACTATAACATGTTAAAGTCTG
131 ATTCTTTTGAGAATCAGATTTTTGATTCGGAATTTGTGTTAAAAACTATAACATGTTAAAGTCTG
*
674601 AAAAAAATTCGGTAATCGGATCGAATAGAAATTTTGAGAAAATTTGAATGATATTTAATTAAGCC
196 AAAAAAATTCGGTAATCGGATCGAATAGAAATTTTGAGAAAATTTAAATGATATTTAATTAAGCC
674666 TAGAAATATTATTTCCACATTTTAAAATGATCAAAAATAATAAGGATCATTGAATTTGAGAATTT
261 TAGAAATATTATTTCCACATTTTAAAATGATCAAAAATAATAAGGATCATTGAATTTGAGAATTT
*
674731 ATTTCCATGTTCAATTTGAACAGGTGAATGAAAATGGCAATAATAAAATTTTTAGAAAAGTTGAT
326 ATTTCCATGTTCAATTTGAACAGGTGAATGAAAATGGCAATAATAAAATTTTTAGAAAAGTGGAT
* *
674796 GGTAAAGTTGTAAAGGACAAATTAATTTGTTCATCTTTGACTTTAGGAATATGATAATTAGCAAG
391 GGTAAAGTTGTAAAGGACAAATTAATTTGTTCATCTTTGAATTTAGGAATATGATAATTAACAAG
674861 TGGCTTGGAATGGATGTAATTATCAAGTTTT
456 TGGCTTGGAATGGATGTAATTATCAAGTTTT
* * *
674892 GTGACCAAAACATACATTTTAAAGTTTAGTGGTAAAAGTATAAA-TTTAGGAAATGTTTAGGGAC
1 GTGACCAAAACATAAATTTGAAAGTTTAGTGGTAAAAGTA-AAAGTTTAGGAAAAGTTTAGGGAC
674956 CTAAGTGGTAATTTTC-CTAAAAAGAAATTTTATTCCATAAATGAATATTTTACCCCCAAGAATG
65 CTAAGTGGTAATTTTCTC-AAAAAGAAATTTTATTCCATAAATGAATATTTTACCCCCAAGAATG
* * *
675020 ACATTCTTTTGATAATCGGATTTTTGATTCGGAATTTGTGTTAAAAACTATAACATGTTAAAGTT
129 ACATTCTTTTGAGAATCAGATTTTTGATTCGGAATTTGTGTTAAAAACTATAACATGTTAAAGTC
* ** *
675085 TGAAAAAAAAATT-GGTAATTGGATCGGTTATAAATTTTGAGAAAATTTAAATGATATTTAATTA
194 TG--AAAAAAATTCGGTAATCGGATCGAATAGAAATTTTGAGAAAATTTAAATGATATTTAATTA
* ** *
675149 AGCCTAGAAATATTATTTCCACATTTTAAAATTATGGAAAATAATATGGATCATTGAATTTGAGA
257 AGCCTAGAAATATTATTTCCACATTTTAAAATGATCAAAAATAATAAGGATCATTGAATTTGAGA
* * * *
675214 ATTTATTTCCATGTTCAATTTGAACTGTTGGATGAAAATGGCAATAATGAAATTTTTAGAAAAGT
322 ATTTATTTCCATGTTCAATTTGAACAGGTGAATGAAAATGGCAATAATAAAATTTTTAGAAAAGT
675279 GGATGGTAAAGTTGTAAAGGACAAATTAATTTGTTCATCTTTGAATTTAGGAATATGATAATTAA
387 GGATGGTAAAGTTGTAAAGGACAAATTAATTTGTTCATCTTTGAATTTAGGAATATGATAATTAA
675344 CAAGTGGCTTGGAATGGATGTAATTATCAAGTTT
452 CAAGTGGCTTGGAATGGATGTAATTATCAAGTTT
675378 CGTTAATGGT
Statistics
Matches: 458, Mismatches: 24, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
485 1 0.00
486 181 0.40
487 267 0.58
488 9 0.02
ACGTcount: A:0.39, C:0.08, G:0.17, T:0.36
Consensus pattern (486 bp):
GTGACCAAAACATAAATTTGAAAGTTTAGTGGTAAAAGTAAAAGTTTAGGAAAAGTTTAGGGACC
TAAGTGGTAATTTTCTCAAAAAGAAATTTTATTCCATAAATGAATATTTTACCCCCAAGAATGAC
ATTCTTTTGAGAATCAGATTTTTGATTCGGAATTTGTGTTAAAAACTATAACATGTTAAAGTCTG
AAAAAAATTCGGTAATCGGATCGAATAGAAATTTTGAGAAAATTTAAATGATATTTAATTAAGCC
TAGAAATATTATTTCCACATTTTAAAATGATCAAAAATAATAAGGATCATTGAATTTGAGAATTT
ATTTCCATGTTCAATTTGAACAGGTGAATGAAAATGGCAATAATAAAATTTTTAGAAAAGTGGAT
GGTAAAGTTGTAAAGGACAAATTAATTTGTTCATCTTTGAATTTAGGAATATGATAATTAACAAG
TGGCTTGGAATGGATGTAATTATCAAGTTTT
Found at i:684424 original size:25 final size:25
Alignment explanation
Indices: 684396--684445 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
684386 TCTTTCTAAG
684396 GCATACTACA-ATTCATTGACTATAC
1 GCATACTACAGA-TCATTGACTATAC
684421 GCATACTACAGATCATTGACTATAC
1 GCATACTACAGATCATTGACTATAC
684446 ATCCAGGTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 23 0.96
26 1 0.04
ACGTcount: A:0.36, C:0.24, G:0.10, T:0.30
Consensus pattern (25 bp):
GCATACTACAGATCATTGACTATAC
Found at i:685752 original size:29 final size:30
Alignment explanation
Indices: 685712--685784 Score: 78
Period size: 29 Copynumber: 2.5 Consensus size: 30
685702 CAATTTTTTG
* *
685712 TTAATGACCAAAATGTAAATTT-TGAAAGT
1 TTAATGACCAAAATATAAATTTGGGAAAGT
*
685741 TTAATAGA-CAAAGTATAAATTTGGGAAAGT
1 TTAAT-GACCAAAATATAAATTTGGGAAAGT
* *
685771 TTAAGGACCTAAAT
1 TTAATGACCAAAAT
685785 GGGAATTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
29 19 0.54
30 16 0.46
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (30 bp):
TTAATGACCAAAATATAAATTTGGGAAAGT
Found at i:689116 original size:20 final size:22
Alignment explanation
Indices: 689082--689146 Score: 66
Period size: 20 Copynumber: 3.1 Consensus size: 22
689072 AATTAAAACT
* *
689082 TTATTAAAATAATATTT-ATTA
1 TTATCAAAATAATATTTCAATA
*
689103 TTA-CAAAATCATATTTCAATA
1 TTATCAAAATAATATTTCAATA
*
689124 TTATCAAAAT-ATTTTTC-ATA
1 TTATCAAAATAATATTTCAATA
689144 TTA
1 TTA
689147 AATTTCAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 17 0.45
21 15 0.39
22 6 0.16
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.48
Consensus pattern (22 bp):
TTATCAAAATAATATTTCAATA
Found at i:701776 original size:30 final size:30
Alignment explanation
Indices: 701740--701800 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
701730 GTCGGGCAGT
*
701740 ATACTCATAGGAGCATAGACCATTCTTAGC
1 ATACTCATAGGAGCAAAGACCATTCTTAGC
*
701770 ATACTCATATGAGCAAAGACCATTCTTAGC
1 ATACTCATAGGAGCAAAGACCATTCTTAGC
701800 A
1 A
701801 CAAAATATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (30 bp):
ATACTCATAGGAGCAAAGACCATTCTTAGC
Found at i:703520 original size:24 final size:25
Alignment explanation
Indices: 703493--703543 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
703483 TTAAGTTTTG
703493 AAAA-CAATTGAAAGTTTAGGTACT
1 AAAATCAATTGAAAGTTTAGGTACT
** * *
703517 AAAATGGATTGATATTTTAGGTACT
1 AAAATCAATTGAAAGTTTAGGTACT
703542 AA
1 AA
703544 GCACATTAGG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (25 bp):
AAAATCAATTGAAAGTTTAGGTACT
Found at i:703917 original size:7 final size:7
Alignment explanation
Indices: 703905--703941 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
703895 ATAAAAATAA
703905 ATTTTAT
1 ATTTTAT
703912 ATTTTAT
1 ATTTTAT
703919 ATTTTAT
1 ATTTTAT
703926 ATTTTAT
1 ATTTTAT
703933 ATTTTAT
1 ATTTTAT
703940 AT
1 AT
703942 AAATACCTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTAT
Found at i:705898 original size:18 final size:19
Alignment explanation
Indices: 705855--705901 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
705845 TTACAAATAT
705855 GGAAAAATTAGTGACTTAA
1 GGAAAAATTAGTGACTTAA
705874 GGAAAAATTAGTGACTTAA
1 GGAAAAATTAGTGACTTAA
*
705893 GTAAAAATT
1 GGAAAAATT
705902 GTGTAAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.49, C:0.04, G:0.19, T:0.28
Consensus pattern (19 bp):
GGAAAAATTAGTGACTTAA
Found at i:708435 original size:23 final size:24
Alignment explanation
Indices: 708401--708461 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
708391 TAAATAAGAA
708401 TCTCTG-TCCTTGTGACACG-CTTT
1 TCTCTGCT-CTTGTGACACGTCTTT
* * *
708424 TCTCTGCTCTTGTGGCATGTTTTT
1 TCTCTGCTCTTGTGACACGTCTTT
*
708448 TCTCTGCTATTGTG
1 TCTCTGCTCTTGTG
708462 GCATGTTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 15 0.47
24 17 0.53
ACGTcount: A:0.07, C:0.25, G:0.20, T:0.49
Consensus pattern (24 bp):
TCTCTGCTCTTGTGACACGTCTTT
Found at i:708453 original size:24 final size:24
Alignment explanation
Indices: 708421--708468 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
708411 TGTGACACGC
*
708421 TTTTCTCTGCTCTTGTGGCATGTT
1 TTTTCTCTGCTATTGTGGCATGTT
708445 TTTTCTCTGCTATTGTGGCATGTT
1 TTTTCTCTGCTATTGTGGCATGTT
708469 CCTTATGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.06, C:0.19, G:0.21, T:0.54
Consensus pattern (24 bp):
TTTTCTCTGCTATTGTGGCATGTT
Found at i:709789 original size:21 final size:22
Alignment explanation
Indices: 709760--709902 Score: 62
Period size: 22 Copynumber: 6.4 Consensus size: 22
709750 TATTATATAG
*
709760 TATAATATA-ATATTTTT-AATA
1 TATAATATATA-ATTTTTGAAAA
*
709781 TATATTATATAATTTTTGAAAA
1 TATAATATATAATTTTTGAAAA
* * *
709803 TATAATTTTTAATATATATAT-ATAA
1 TATAATATATAAT-T-T-T-TGAAAA
* * *
709828 CAT-GTATATAATTTTGGAAAA
1 TATAATATATAATTTTTGAAAA
*
709849 TATATATAATATAATTTTTGAATA
1 TATA-AT-ATATAATTTTTGAAAA
* * * * *
709873 CATATTGTATGATTTTTTAAAA
1 TATAATATATAATTTTTGAAAA
709895 TAT-ATATA
1 TATAATATA
709903 ATATATATTA
Statistics
Matches: 87, Mismatches: 25, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
21 23 0.26
22 29 0.33
23 4 0.05
24 24 0.28
25 6 0.07
26 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.05, T:0.49
Consensus pattern (22 bp):
TATAATATATAATTTTTGAAAA
Found at i:709804 original size:24 final size:24
Alignment explanation
Indices: 709777--709907 Score: 94
Period size: 24 Copynumber: 5.6 Consensus size: 24
709767 TAATATTTTT
709777 AATATATATTATATAATTTTTGAA
1 AATATATATTATATAATTTTTGAA
* * *
709801 AATATA-ATT-TTTAATATAT--A
1 AATATATATTATATAATTTTTGAA
* * *
709821 TATATAACATGTATATAATTTTGGAA
1 AATAT-ATAT-TATATAATTTTTGAA
*
709847 AATATATATAATATAATTTTTG--
1 AATATATATTATATAATTTTTGAA
* * * *
709869 AATACATATTGTATGATTTTTTAA
1 AATATATATTATATAATTTTTGAA
*
709893 AATATATATAATATA
1 AATATATATTATATA
709908 TATTATATAT
Statistics
Matches: 78, Mismatches: 21, Indels: 16
0.68 0.18 0.14
Matches are distributed among these distances:
20 5 0.06
21 1 0.01
22 26 0.33
23 4 0.05
24 34 0.44
25 3 0.04
26 5 0.06
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.47
Consensus pattern (24 bp):
AATATATATTATATAATTTTTGAA
Found at i:709819 original size:14 final size:15
Alignment explanation
Indices: 709786--709820 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
709776 TAATATATAT
709786 TATATAATTTTTGAA
1 TATATAATTTTTGAA
*
709801 AATATAATTTTT-AA
1 TATATAATTTTTGAA
709815 TATATA
1 TATATA
709821 TATATAACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (15 bp):
TATATAATTTTTGAA
Found at i:709952 original size:23 final size:23
Alignment explanation
Indices: 709907--709965 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
709897 TATATAATAT
* * *
709907 ATATTATATATGGATTTTGAAAAG
1 ATATTATATATAG-TTTTAAAAAC
709931 ATA-TATGATATAGTTTTAAAAAC
1 ATATTAT-ATATAGTTTTAAAAAC
709954 ATATTATATATA
1 ATATTATATATA
709966 ATATATTAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 19 0.63
24 11 0.37
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (23 bp):
ATATTATATATAGTTTTAAAAAC
Found at i:716489 original size:200 final size:199
Alignment explanation
Indices: 716180--716801 Score: 761
Period size: 201 Copynumber: 3.1 Consensus size: 199
716170 TTTTTCAATG
* * * * *
716180 AAAGTTTTCTAGTTCGATTCCATTCAACACGAGGGCGCATCAATCGTATGGTAACAACAAGGAAC
1 AAAGCTTTCAAGTTCGATTCCATTCAGCACGAGGGCGCATCAATCGCATGGTAACAACGAGGAAC
* * * *
716245 TAACTTCCGGTTAAATTTTAAAGT-GAGTTCTTTAAGCCAAGAAGAATACCAAGGTTAATTGTGA
66 TAA-TTTCGGTTAAATTTTAAA-TCGAGGTCTTTAAGCCAAGAAGAATACCAAGGTTAACTGCGA
** *
716309 TTTGGCAA-AAATGAACCATTTCAGAGTCAAAATTCGACATAGCTTAAGGCGAAAAA-AACTATT
129 TTTGGCAACAAA-GAACCATTTCCCAGT-AAAATTCGACATAGCTTAAGGC-AAAAAGAGCTATT
*
716372 TGTTGAGTA
191 TGTCGAGTA
* * * *
716381 AAAGCTTTC-AGTTTGATTCCATTCAGCACGAGGGCGTATTAA-CTGCATGGCAACAACGAGGAA
1 AAAGCTTTCAAGTTCGATTCCATTCAGCACGAGGGCGCATCAATC-GCATGGTAACAACGAGGAA
* * * *
716444 TTATATTTCGGTTAAATTTTAAATCGAGGACTTTAAGCCAAGAAGAAGACCAAGGTTGACTGCGA
65 CTA-ATTTCGGTTAAATTTTAAATCGAGGTCTTTAAGCCAAGAAGAATACCAAGGTTAACTGCGA
* * *
716509 TTTGACAACAAAGAACCATTTCCCAATTAAAATTCGACATAGCTTAAGACAAAAAGAGCTATTTG
129 TTTGGCAACAAAGAACCATTTCCC-AGTAAAATTCGACATAGCTTAAGGCAAAAAGAGCTATTTG
716574 TCGAGTA
193 TCGAGTA
* * * *
716581 AAAGCTTTCAAGTTCGATTCCATTCAGCATGAGGGCGCATCAATCGCATGGTATCAGCGAAGAAC
1 AAAGCTTTCAAGTTCGATTCCATTCAGCACGAGGGCGCATCAATCGCATGGTAACAACGAGGAAC
* * * * * *
716646 TACCTTTTGGTTAAATTTTAAACCAAGGTCTTTAAGCCAAGAAGAATGCCAAGGTTAACTACGAT
66 TA-ATTTCGGTTAAATTTTAAATCGAGGTCTTTAAGCCAAGAAGAATACCAAGGTTAACTGCGAT
* * *
716711 TTGGCAACAAAGAACCATTTCCTAGTAAATATTTGACATAGCTTAAGGCAAAAAGAGTTATTTGT
130 TTGGCAACAAAGAACCATTTCCCAGTAAA-ATTCGACATAGCTTAAGGCAAAAAGAGCTATTTGT
716776 CGAGTA
194 CGAGTA
*
716782 AAAGC-TTCAGAGTTTGATTC
1 AAAGCTTTCA-AGTTCGATTC
716802 TACTTAGCTC
Statistics
Matches: 362, Mismatches: 49, Indels: 20
0.84 0.11 0.05
Matches are distributed among these distances:
199 7 0.02
200 168 0.46
201 186 0.51
202 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (199 bp):
AAAGCTTTCAAGTTCGATTCCATTCAGCACGAGGGCGCATCAATCGCATGGTAACAACGAGGAAC
TAATTTCGGTTAAATTTTAAATCGAGGTCTTTAAGCCAAGAAGAATACCAAGGTTAACTGCGATT
TGGCAACAAAGAACCATTTCCCAGTAAAATTCGACATAGCTTAAGGCAAAAAGAGCTATTTGTCG
AGTA
Found at i:716877 original size:201 final size:197
Alignment explanation
Indices: 716237--716892 Score: 595
Period size: 201 Copynumber: 3.3 Consensus size: 197
716227 ATGGTAACAA
* * * * *
716237 CAAG-GAACTAACTTCCGGTTAAATTTTAAA-GTGAGTTCTTTAAGCCAAGAAGAATACCAAGGT
1 CAAGAGAACTACCTTCTGGTTAAATTTTAAACG-AAGGTCTTTAAGCCAAGAAGAATGCCAAGGT
* *
716300 TAATTGTGATTTGGCAA-AAATGAACCATTT-CAGAGTCAAAATTCGACATAGCTTAAGGCGAAA
65 TAACTGCGATTTGGCAACAAA-GAACCATTTCCA-AGT-AAAATTCGACATAGCTTAAGGC-AAA
* * * * * *
716363 AA-AACTATTTGTTGAGTAAAAGCTTTC-AGTTTGATTCCATTCAGCACGAGGGCGTATTAACTG
126 AAGAGCTATTTGTCGAGTAAAAGCTTTCAAGTTTGATTCCATTCAGCTCGAGGGCATAATGACTG
* *
716426 CATGGCAA
191 -GTGGCAG
* ** *
716434 CAACGAGGAATTATATT-TCGGTTAAATTTTAAATCG-AGGACTTTAAGCCAAGAAGAA-GACCA
1 CAA-GA-GAACTACCTTCT-GGTTAAATTTTAAA-CGAAGGTCTTTAAGCCAAGAAGAATG-CCA
* * * *
716496 AGGTTGACTGCGATTTGACAACAAAGAACCATTTCCCAATTAAAATTCGACATAGCTTAAGACAA
61 AGGTTAACTGCGATTTGGCAACAAAGAACCATTT-CCAAGTAAAATTCGACATAGCTTAAGGCAA
*
716561 AAAGAGCTATTTGTCGAGTAAAAGCTTTCAAGTTCGATTCCATTCAGCAT-GAGGGCGCATCAAT
125 AAAGAGCTATTTGTCGAGTAAAAGCTTTCAAGTTTGATTCCATTCAGC-TCGA-GG-GCAT-AAT
**
716625 CG-CATGGTATCAG
186 -GAC-TGGTGGCAG
* * *
716638 CGA-AGAACTACCTTTTGGTTAAATTTTAAACCAAGGTCTTTAAGCCAAGAAGAATGCCAAGGTT
1 CAAGAGAACTACCTTCTGGTTAAATTTTAAACGAAGGTCTTTAAGCCAAGAAGAATGCCAAGGTT
* * *
716702 AACTACGATTTGGCAACAAAGAACCATTTCCTAGTAAATATTTGACATAGCTTAAGGCAAAAAGA
66 AACTGCGATTTGGCAACAAAGAACCATTTCCAAGTAAA-ATTCGACATAGCTTAAGGCAAAAAGA
* * *
716767 GTTATTTGTCGAGTAAAAGC-TTCAGAGTTTGATTCTACTT-AGCTCGAGGGCATAGTGACTGTG
130 GCTATTTGTCGAGTAAAAGCTTTCA-AGTTTGATTCCA-TTCAGCTCGAGGGCATAATGACTG-G
*
716830 CGGCAG
192 TGGCAG
* * ** * * *
716836 CAATGAGAAACTA-CTTCCTGGTCAAAATCCAAAAGAAGGTCTTTAAGTCTAGAAGAA
1 CAA-GAG-AACTACCTT-CTGGTTAAATTTTAAACGAAGGTCTTTAAGCCAAGAAGAA
716893 GGCCCAAATC
Statistics
Matches: 374, Mismatches: 54, Indels: 58
0.77 0.11 0.12
Matches are distributed among these distances:
197 6 0.02
198 10 0.03
199 9 0.02
200 133 0.36
201 193 0.52
202 10 0.03
203 3 0.01
204 8 0.02
205 2 0.01
ACGTcount: A:0.36, C:0.17, G:0.20, T:0.27
Consensus pattern (197 bp):
CAAGAGAACTACCTTCTGGTTAAATTTTAAACGAAGGTCTTTAAGCCAAGAAGAATGCCAAGGTT
AACTGCGATTTGGCAACAAAGAACCATTTCCAAGTAAAATTCGACATAGCTTAAGGCAAAAAGAG
CTATTTGTCGAGTAAAAGCTTTCAAGTTTGATTCCATTCAGCTCGAGGGCATAATGACTGGTGGC
AG
Found at i:717749 original size:15 final size:15
Alignment explanation
Indices: 717728--717763 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
717718 ATATACATAT
717728 TATATAATTTTTGAAA
1 TATATAATTTTT-AAA
717744 -ATATAATTTTTAAA
1 TATATAATTTTTAAA
717758 TATATA
1 TATATA
717764 TATAATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.16
15 16 0.84
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATATAATTTTTAAA
Found at i:717951 original size:24 final size:24
Alignment explanation
Indices: 717924--717973 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
717914 AGTAGATATG
717924 TTGTTGTTGTTATTATTATTATTA
1 TTGTTGTTGTTATTATTATTATTA
*
717948 TTGTTGTTGTTGTTATTATTATTA
1 TTGTTGTTGTTATTATTATTATTA
717972 TT
1 TT
717974 ATTTACTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (24 bp):
TTGTTGTTGTTATTATTATTATTA
Found at i:717952 original size:27 final size:27
Alignment explanation
Indices: 717922--717976 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
717912 TTAGTAGATA
717922 TGTTGTTGTTGTTATTATTATTATTAT
1 TGTTGTTGTTGTTATTATTATTATTAT
717949 TGTTGTTGTTGTTATTATTATTATTAT
1 TGTTGTTGTTGTTATTATTATTATTAT
717976 T
1 T
717977 TACTCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.00, G:0.15, T:0.67
Consensus pattern (27 bp):
TGTTGTTGTTGTTATTATTATTATTAT
Found at i:717953 original size:21 final size:21
Alignment explanation
Indices: 717927--717970 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
717917 AGATATGTTG
717927 TTGTTGTTATTATTATTATTA
1 TTGTTGTTATTATTATTATTA
* *
717948 TTGTTGTTGTTGTTATTATTA
1 TTGTTGTTATTATTATTATTA
717969 TT
1 TT
717971 ATTATTTACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.18, C:0.00, G:0.14, T:0.68
Consensus pattern (21 bp):
TTGTTGTTATTATTATTATTA
Found at i:717966 original size:3 final size:3
Alignment explanation
Indices: 717933--717976 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
717923 GTTGTTGTTG
* * * *
717933 TTA TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
717977 TACTCATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:718965 original size:229 final size:225
Alignment explanation
Indices: 718555--718973 Score: 569
Period size: 229 Copynumber: 1.8 Consensus size: 225
718545 TCGAGTTTGA
* *
718555 GTTTAGGGTGAAAAATACCCGATTCGAAAATATATATATAATTTTACTTTATATATTTAGGAATA
1 GTTTAGGGTGAAAAATACCCGATCCGAAAATATATATATAATTTTACCTTATATATTTAGGAATA
* * * * *
718620 ATTATAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCACTGTTTTTATTGAATAAAAA
66 ATTACAATAATACCCATATATATATAATTATTTCCAATTAAGTCACTGTTTTTATTGAATAAAAA
* * * **
718685 TAATTTTTTTATTATTTTGGGTTGTGTCAGGTGAAACTTTATTTTGGTCGGGTCGGGTCGGTTTT
131 TAATTTTTTTATTATTTCGGGTGGTGTC--GTGAAACTATATTCGGGTCGGGTC-GGTCGGTTTT
718750 TTAAGTGTGATATTCGCGTCGGGTCGGGTTCGG
193 TTAAGTGTGATATTCGCGTCGGGTCGGGTTCGG
718783 GTTTAGGGTGAAAAATACCCGATCCGACTCAAA-A-ATATATAATTTTACCTTATATATTTAGGA
1 GTTTAGGGTGAAAAATACCCGATCCGA---AAATATATATATAATTTTACCTTATATATTTAGGA
718846 ATAATTACAATAATACCCATATATATAT-ATATATTTCCAATTAAGTCACTGTTTTTATTGAATA
63 ATAATTACAATAATACCCATATATATATAAT-TATTTCCAATTAAGTCACTGTTTTTATTGAATA
* * *
718910 AAAATATTTTTTTTATTATTTCGGGTCGGATTTC-T-AATTCATATATTCGGGTCGGGTCGGTCG
127 AAAATAATTTTTTTATTATTTCGGGT-GG-TGTCGTGAA-AC-TATATTCGGGTCGGGTCGGTCG
718973 G
188 G
718974 GTGAAACTTG
Statistics
Matches: 168, Mismatches: 15, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
227 2 0.01
228 36 0.21
229 122 0.73
230 2 0.01
231 6 0.04
ACGTcount: A:0.30, C:0.11, G:0.17, T:0.42
Consensus pattern (225 bp):
GTTTAGGGTGAAAAATACCCGATCCGAAAATATATATATAATTTTACCTTATATATTTAGGAATA
ATTACAATAATACCCATATATATATAATTATTTCCAATTAAGTCACTGTTTTTATTGAATAAAAA
TAATTTTTTTATTATTTCGGGTGGTGTCGTGAAACTATATTCGGGTCGGGTCGGTCGGTTTTTTA
AGTGTGATATTCGCGTCGGGTCGGGTTCGG
Found at i:719797 original size:32 final size:32
Alignment explanation
Indices: 719751--719832 Score: 128
Period size: 32 Copynumber: 2.6 Consensus size: 32
719741 AAAAATCGGG
* * *
719751 TTCGGTTCGAGTCGGGTTTTTTAAGTTTAATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTAATA
*
719783 TTCGGGTCGGGTCGGGTTTTTTAAGTGTGATA
1 TTCGGGTCGGGTCGGGTTTTTTAAGTGTAATA
719815 TTCGGGTCGGGTCGGGTT
1 TTCGGGTCGGGTCGGGTT
719833 CGGGTTTAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.12, C:0.11, G:0.35, T:0.41
Consensus pattern (32 bp):
TTCGGGTCGGGTCGGGTTTTTTAAGTGTAATA
Found at i:720095 original size:22 final size:22
Alignment explanation
Indices: 720067--720134 Score: 74
Period size: 22 Copynumber: 3.3 Consensus size: 22
720057 CGGGTTGGGC
720067 CTCGGGTGGAGCTTCCATTGTT
1 CTCGGGTGGAGCTTCCATTGTT
* * *
720089 CTCGGGTCGAG--T---TGGGT
1 CTCGGGTGGAGCTTCCATTGTT
720106 CTCGGGTGGAGCTTCCATTGTT
1 CTCGGGTGGAGCTTCCATTGTT
720128 CTCGGGT
1 CTCGGGT
720135 CGGGTGGACC
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
17 13 0.37
19 1 0.03
20 1 0.03
22 20 0.57
ACGTcount: A:0.07, C:0.22, G:0.37, T:0.34
Consensus pattern (22 bp):
CTCGGGTGGAGCTTCCATTGTT
Found at i:720096 original size:39 final size:39
Alignment explanation
Indices: 720051--720139 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
720041 TTTATTTTGG
720051 TCGGGTCGGGTTGGGCCTCGGGTGGAGCTTCCATTGTTC
1 TCGGGTCGGGTTGGGCCTCGGGTGGAGCTTCCATTGTTC
* *
720090 TCGGGTCGAGTTGGGTCTCGGGTGGAGCTTCCATTGTTC
1 TCGGGTCGGGTTGGGCCTCGGGTGGAGCTTCCATTGTTC
720129 TCGGGTCGGGT
1 TCGGGTCGGGT
720140 GGACCAAAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.06, C:0.21, G:0.42, T:0.31
Consensus pattern (39 bp):
TCGGGTCGGGTTGGGCCTCGGGTGGAGCTTCCATTGTTC
Found at i:720503 original size:18 final size:18
Alignment explanation
Indices: 720480--720516 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
720470 CAATTCTTAC
*
720480 AGATTTCAATTCCTTCAT
1 AGATTTCAATTCCCTCAT
720498 AGATTTCAATTCCCTCAT
1 AGATTTCAATTCCCTCAT
720516 A
1 A
720517 AACATTCCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.24, G:0.05, T:0.41
Consensus pattern (18 bp):
AGATTTCAATTCCCTCAT
Found at i:724020 original size:5 final size:5
Alignment explanation
Indices: 724010--724045 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
724000 TTTTGCCAAG
* *
724010 ATAAA ATAAA ATACA ATAAA ATAAA ACAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
724046 ATGAAAAGCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:724442 original size:30 final size:30
Alignment explanation
Indices: 724324--724443 Score: 102
Period size: 30 Copynumber: 4.0 Consensus size: 30
724314 CTTAGTAAAA
* * *
724324 TAAAGGACT-AAATATCAAAAAT-GAAAATT
1 TAAAGGATTAAAATAACAAAAATAG-AAAGT
* * *
724353 TATAGGACTAAAATAACAAAAATAGAAACT
1 TAAAGGATTAAAATAACAAAAATAGAAAGT
** * * *
724383 TAAAATATTAAAATAATAAAAACATAAAGT
1 TAAAGGATTAAAATAACAAAAATAGAAAGT
724413 TAAAGGATTAAAATAGA-AAAAATAGAAAGT
1 TAAAGGATTAAAATA-ACAAAAATAGAAAGT
724443 T
1 T
724444 CAGGGACTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
29 8 0.11
30 63 0.86
31 2 0.03
ACGTcount: A:0.62, C:0.05, G:0.10, T:0.23
Consensus pattern (30 bp):
TAAAGGATTAAAATAACAAAAATAGAAAGT
Found at i:725893 original size:21 final size:21
Alignment explanation
Indices: 725835--725897 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 21
725825 CTTCAAACAA
* *
725835 AAAATGTAA-ATAATATTAAT
1 AAAATATAATATAATAATAAT
725855 AAAA-ATAACCATACTAATAATAAT
1 AAAATAT-A--ATA-TAATAATAAT
725879 AAAATATAATATAATAATA
1 AAAATATAATATAATAATA
725898 TTTTTGATAG
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
19 1 0.03
20 5 0.14
21 8 0.23
22 4 0.11
23 1 0.03
24 14 0.40
25 2 0.06
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (21 bp):
AAAATATAATATAATAATAAT
Found at i:725896 original size:24 final size:24
Alignment explanation
Indices: 725843--725897 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
725833 AAAAAATGTA
*
725843 AATAATATTAATAAAAATAACCAT
1 AATAATAATAATAAAAATAACCAT
* *
725867 ACTAATAATAATAAAATATAA-TAT
1 AATAATAATAATAAAA-ATAACCAT
725891 AATAATA
1 AATAATA
725898 TTTTTGATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (24 bp):
AATAATAATAATAAAAATAACCAT
Found at i:726471 original size:133 final size:131
Alignment explanation
Indices: 726068--726548 Score: 524
Period size: 133 Copynumber: 3.6 Consensus size: 131
726058 ATCGTCTAAA
* * * * * * * *
726068 GGTGGCACGACTCCTACGAGATGAGGAGATCTGGTTGGTGGGTGACACGGCTCATACGTGATGAA
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGG-GGATGACACGGTTCCTACGCGATGAA
* * * *
726133 GA-GTTATGTCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACAGTTGGTTAT
65 GACGGTATGGCCATCTTTAGG-AGGGTGATAACACGGTTCCTACGTGATGAGGA-AATTGGTTAT
726197 CTAGG
128 C-AGG
* * * * *
726202 GGTGACACGGCTCCAACGTGATGAGGAGGTCTGGTCGAGGATTACACGGTTCCTACGCGATGAGG
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGTTCCTACGCGATGAAG
* * * * * * *
726267 AC-GAATGGCCATCTTTAGGA--GTGATAATACGGTTCATATGTGATAAGGACAACTGATTATCA
66 ACGGTATGGCCATCTTTAGGAGGGTGATAACACGGTTCCTACGTGATGAGGA-AATTGGTTATCA
726329 GG
130 GG
* * *
726331 GGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCAGGGGATGACACGGTTCTTACGCGATGAG
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTC-GGGGATGACACGGTTCCTACGCGATGAA
* *
726396 GACGGTA-GACCATCTTTAGGTAGGGTGATAACACGGTTCCTACGTGATGAGGATGATTGGTTAT
65 GACGGTATGGCCATCTTTAGG-AGGGTGATAACACGGTTCCTACGTGATGAGGA-AATTGGTTAT
726460 CAGG
128 CAGG
* * ** *
726464 GGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGAGAGATGACATAGTTCCTACGTGATGAA
1 GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCG-GGGATGACACGGTTCCTACGCGATGAA
*
726529 GATGGTA-GGCCATCTTTAGG
65 GACGGTATGGCCATCTTTAGG
726549 GATTATGGTT
Statistics
Matches: 290, Mismatches: 50, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
129 36 0.12
130 73 0.25
131 3 0.01
132 2 0.01
133 145 0.50
134 31 0.11
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (131 bp):
GGTGACACGACTCCTACGTGATGAGGAGGTCTGGTCGGGGATGACACGGTTCCTACGCGATGAAG
ACGGTATGGCCATCTTTAGGAGGGTGATAACACGGTTCCTACGTGATGAGGAAATTGGTTATCAG
G
Found at i:726544 original size:263 final size:263
Alignment explanation
Indices: 726068--726548 Score: 675
Period size: 263 Copynumber: 1.8 Consensus size: 263
726058 ATCGTCTAAA
* * * * *
726068 GGTGGCACGACTCCTACGAGATGAGGAGATCTGGTTGGTGGGTGACACGGCTCATACGTGATGAA
1 GGTGACACAACTCCTACGAGATGAGGAGATCTGGTAGGTGGATGACACGGCTCATACGCGATGAA
* *
726133 GAGTTATGTCCATCTTTAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACAGTTGGTTATC
66 GAGGTATGACCATCTTTAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACAGTTGGTTATC
* *
726198 TAGGGGTGACACGGCTCCAACGTGATGAGGAGGTCTGGTCGAGGATTACACGGTTCCTACGCGAT
131 TAGGGGTGACACGGCTCCAACGTGATGAGGAGGTCTGGTCGAGGATGACACAGTTCCTACGCGAT
*
726263 GAGGACGAATGGCCATCTTTAGGAGTGATAATACGGTTCATATGTGATAAGGACAACTGATTATC
196 GAAGACGAATGGCCATCTTTAGGAGTGATAATACGGTTCATATGTGATAAGGACAACTGATTATC
726328 AGG
261 AGG
* * * *
726331 GGTGACACAACTCCTACGTGATGAGGAGGTCTGGTCAGG-GGATGACACGGTTCTTACGCGATGA
1 GGTGACACAACTCCTACGAGATGAGGAGATCTGGT-AGGTGGATGACACGGCTCATACGCGATGA
* * * *
726395 GGACGGTA-GACCATCTTTAGGTAGGGTGATAACACGGTTCCTACGTGATGAGGA-TGATTGGTT
65 AGA-GGTATGACCATCTTTAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACAG-TTGGTT
* *
726458 ATC-AGGGGTGACACGGCTCCTACGTGATGAGGAGGTCTGGTCGAGAGATGACATAGTTCCTACG
128 ATCTAGGGGTGACACGGCTCCAACGTGATGAGGAGGTCTGGTCGAG-GATGACACAGTTCCTACG
* * *
726522 TGATGAAGATG-GTAGGCCATCTTTAGG
192 CGATGAAGACGAAT-GGCCATCTTTAGG
726549 GATTATGGTT
Statistics
Matches: 190, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
262 43 0.23
263 142 0.75
264 5 0.03
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (263 bp):
GGTGACACAACTCCTACGAGATGAGGAGATCTGGTAGGTGGATGACACGGCTCATACGCGATGAA
GAGGTATGACCATCTTTAGGAAGGGTGATAACACGGTTCCTACGCGATGAGGACAGTTGGTTATC
TAGGGGTGACACGGCTCCAACGTGATGAGGAGGTCTGGTCGAGGATGACACAGTTCCTACGCGAT
GAAGACGAATGGCCATCTTTAGGAGTGATAATACGGTTCATATGTGATAAGGACAACTGATTATC
AGG
Found at i:726740 original size:37 final size:37
Alignment explanation
Indices: 726621--726757 Score: 174
Period size: 37 Copynumber: 3.7 Consensus size: 37
726611 GACAAAATTC
*
726621 GTTTCAAGGGAAAC-GATCTCAAAGATA--TTTGTTTT
1 GTTTCAAGTGAAACAGA-CTCAAAGATATTTTTGTTTT
* *
726656 GTTTCAAGGGAAACAAACTCAAAGATGATTTTTGTTTT
1 GTTTCAAGTGAAACAGACTCAAAGAT-ATTTTTGTTTT
* *
726694 GTTTCAAGTGAAACAGACTCAAATAT-TTCTTTGCTTT
1 GTTTCAAGTGAAACAGACTCAAAGATATT-TTTGTTTT
726731 GTTTCAAGTGAAACAGACTCAAAGATA
1 GTTTCAAGTGAAACAGACTCAAAGATA
726758 AGTGTTTTTA
Statistics
Matches: 90, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
35 23 0.26
36 4 0.04
37 32 0.36
38 31 0.34
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (37 bp):
GTTTCAAGTGAAACAGACTCAAAGATATTTTTGTTTT
Found at i:726935 original size:61 final size:60
Alignment explanation
Indices: 726728--726939 Score: 183
Period size: 66 Copynumber: 3.3 Consensus size: 60
726718 ATTTCTTTGC
* * * * *
726728 TTTGTTTCAAGTGAAACAGACTCAAAGATAAGTGTTTTTAAAATAAACTATCTTCATAGAAAAAA
1 TTTGTTTCAAGAGAAACAAACTCAAAGAT---T-TTTTTAAAAGAAACTATC-TCAGAGACAAAA
* * * **
726793 TTTTATTTCAA-AGGAAATAAACTCAAAGATTTTTTTTCTCAAAAGAAATTGCCTCAAGAGACAA
1 -TTTGTTTCAAGA-GAAACAAACTCAAAGA--TTTTTT-T-AAAAGAAACTATCTC-AGAGAC-A
726857 AAA
58 AAA
* *
726860 TTTGTTTCCAGAGAAACAAACTCAAAGATTTTTTTAAAAGAAGCTATCTCGAGAGACAAAA
1 TTTGTTTCAAGAGAAACAAACTCAAAGATTTTTTTAAAAGAAACTATCTC-AGAGACAAAA
726921 TTTGTTTCAAGAGAAACAA
1 TTTGTTTCAAGAGAAACAA
726940 CCCAAAGGAT
Statistics
Matches: 119, Mismatches: 19, Indels: 21
0.75 0.12 0.13
Matches are distributed among these distances:
61 22 0.18
62 17 0.14
63 1 0.01
64 10 0.08
65 4 0.03
66 59 0.50
67 5 0.04
68 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (60 bp):
TTTGTTTCAAGAGAAACAAACTCAAAGATTTTTTTAAAAGAAACTATCTCAGAGACAAAA
Found at i:727056 original size:32 final size:32
Alignment explanation
Indices: 727019--727079 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
727009 ACAACATGAT
* *
727019 GTTGAATCCCCAAATATGCCCCAACATTCGAC
1 GTTGAATCCCCAAAGATGCACCAACATTCGAC
* *
727051 GTTGAATCTCCAAAGATGCACCATCATTC
1 GTTGAATCCCCAAAGATGCACCAACATTC
727080 ATTGTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.31, C:0.31, G:0.13, T:0.25
Consensus pattern (32 bp):
GTTGAATCCCCAAAGATGCACCAACATTCGAC
Found at i:739840 original size:26 final size:26
Alignment explanation
Indices: 739811--739862 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
739801 ATGCATAATA
739811 TGTTGAAACTCAAAAATAAATAAAAG
1 TGTTGAAACTCAAAAATAAATAAAAG
739837 TGTTGAAACTCAAAAATAAATAAAAG
1 TGTTGAAACTCAAAAATAAATAAAAG
739863 GATCGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.58, C:0.08, G:0.12, T:0.23
Consensus pattern (26 bp):
TGTTGAAACTCAAAAATAAATAAAAG
Found at i:740790 original size:32 final size:32
Alignment explanation
Indices: 740754--740818 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
740744 AAAACAACAC
* *
740754 AAATAGAAACTTAAAGGATTAAAATAATAAAA
1 AAATAGAAACTTAAAAGACTAAAATAATAAAA
* *
740786 AAATAGAAAGTTAAAAGACTAAAATAGTAAAA
1 AAATAGAAACTTAAAAGACTAAAATAATAAAA
740818 A
1 A
740819 TAGAAAGTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.66, C:0.03, G:0.11, T:0.20
Consensus pattern (32 bp):
AAATAGAAACTTAAAAGACTAAAATAATAAAA
Found at i:742265 original size:3 final size:3
Alignment explanation
Indices: 742257--742296 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
742247 AAAAATAACC
742257 ATA ATA ATA ATA ATA ATA ATA ATA AT- ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
742297 TTTTTTGGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 4 0.11
3 31 0.89
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:744275 original size:21 final size:21
Alignment explanation
Indices: 744233--744275 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
744223 TATTTTGATA
*
744233 TTATGATTGATATTTATAAAT
1 TTATGATTGATATATATAAAT
* * *
744254 TTATGTTTGGTATATATTAAT
1 TTATGATTGATATATATAAAT
744275 T
1 T
744276 AATTCAAATA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (21 bp):
TTATGATTGATATATATAAAT
Found at i:744717 original size:18 final size:18
Alignment explanation
Indices: 744696--744730 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
744686 TTGGATATGA
*
744696 ATTGTATATTAAATTTGG
1 ATTGCATATTAAATTTGG
*
744714 ATTGCATATTGAATTTG
1 ATTGCATATTAAATTTG
744731 AGTTTTAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (18 bp):
ATTGCATATTAAATTTGG
Found at i:750068 original size:27 final size:26
Alignment explanation
Indices: 750038--750089 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
750028 GGTATGCTTT
* *
750038 ATGTCATGTTTAATATTTTGTTGTTTA
1 ATGTAATGTTT-ATAGTTTGTTGTTTA
*
750065 ATGTAATGTTTATGGTTTGTTGTTT
1 ATGTAATGTTTATAGTTTGTTGTTT
750090 TTATAGTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.19, C:0.02, G:0.19, T:0.60
Consensus pattern (26 bp):
ATGTAATGTTTATAGTTTGTTGTTTA
Found at i:751088 original size:83 final size:83
Alignment explanation
Indices: 750947--751342 Score: 465
Period size: 83 Copynumber: 4.8 Consensus size: 83
750937 ATTTCATGGT
* * *
750947 GTTTTCCATTATTATCCAGAGAATCTCTACCATGTCATAGTGTTTCATCCTATCCGAAATGAAAG
1 GTTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
** *
751012 GCGCGCTCCAGGGGAAGT
66 GCGCATTCCAGGGGAAGC
* * * *
751030 GCTTTCCATTATTATTCAGAGAATCTTTGTCATGTCATAGTGTTTCATTCCATCCGAAATGAAAG
1 GTTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
*
751095 GCGCATTCCAGGGGAAAC
66 GCGCATTCCAGGGGAAGC
* * * * *
751113 GTTTTCCATTATTATTCATAGAATCTCTGTCATGTCATAGTCTTCCATCCCATCCGAAAAGAAAG
1 GTTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
* ** * *
751178 GTGTGTTCTACGGGAAGC
66 GCGCATTCCAGGGGAAGC
* * * * *
751196 ATTTTCCATTATTATTCATAGAATCTCTACCATGTCAGAGTG-TTCTATCCCATCTGAAAT-AAA
1 GTTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTC-ATCCCATCCGAAATGAAA
* * *
751259 GACGCATTCTAGGAGAAGC
65 GGCGCATTCCAGGGGAAGC
* * *
751278 GTTTTCCATTATTATTCCGAGAATCTCTGCCATATCATAGTG-TTCTATGCCATCCGAAATGAAA
1 GTTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTC-ATCCCATCCGAAATGAAA
751342 G
65 G
751343 AATCATGTTC
Statistics
Matches: 265, Mismatches: 46, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
82 70 0.26
83 195 0.74
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (83 bp):
GTTTTCCATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTTCATCCCATCCGAAATGAAAG
GCGCATTCCAGGGGAAGC
Found at i:753800 original size:49 final size:49
Alignment explanation
Indices: 753678--753921 Score: 384
Period size: 49 Copynumber: 5.0 Consensus size: 49
753668 ACTGCTCTAA
*
753678 AATGAAAGTTAAATGCATAAAGGTGCATTTCGGCAT-AAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* *
753726 AATG-AAGTTAAATGCATAACGGTGCATTTTGGCATAAAAGGTACCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* * *
753774 AATGAAAGTTAAATGCATAACAGTGCATTTTCGACATAAAAGGTGCCATT
1 AATGAAAGTTAAATGCATAACGGTGCA-TTTCGGCATAAAAGGTGCCACT
*
753824 AATGAAAGTTAAATGCATAACGGTGCATTTCAGCATAAAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
* *
753873 AATGAAAGTTAAATGCATAGCGGTGCATTTCAGCATAAAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
753922 CATGGTATTC
Statistics
Matches: 180, Mismatches: 13, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
47 29 0.16
48 19 0.11
49 88 0.49
50 44 0.24
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (49 bp):
AATGAAAGTTAAATGCATAACGGTGCATTTCGGCATAAAAGGTGCCACT
Found at i:753860 original size:99 final size:97
Alignment explanation
Indices: 753678--753921 Score: 368
Period size: 99 Copynumber: 2.5 Consensus size: 97
753668 ACTGCTCTAA
*
753678 AATGAAAGTTAAATGCATAA-AGGTGCATTTCGGCAT-AAAGGTGCCACTAATGAAGTTAAATGC
1 AATGAAAGTTAAATGCATAACA-GTGCATTTCGACATAAAAGGTGCCACTAATGAAGTTAAATGC
**
753741 ATAACGGTGCATTTTGGCATAAAAGGTACCACT
65 ATAACGGTGCATTTCAGCATAAAAGGTACCACT
*
753774 AATGAAAGTTAAATGCATAACAGTGCATTTTCGACATAAAAGGTGCCATTAATGAAAGTTAAATG
1 AATGAAAGTTAAATGCATAACAGTGCA-TTTCGACATAAAAGGTGCCACTAATG-AAGTTAAATG
*
753839 CATAACGGTGCATTTCAGCATAAAAGGTGCCACT
64 CATAACGGTGCATTTCAGCATAAAAGGTACCACT
* *
753873 AATGAAAGTTAAATGCATAGCGGTGCATTTC-AGCATAAAAGGTGCCACT
1 AATGAAAGTTAAATGCATAACAGTGCATTTCGA-CATAAAAGGTGCCACT
753922 CATGGTATTC
Statistics
Matches: 135, Mismatches: 8, Indels: 8
0.89 0.05 0.05
Matches are distributed among these distances:
96 25 0.19
97 10 0.07
98 34 0.25
99 66 0.49
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (97 bp):
AATGAAAGTTAAATGCATAACAGTGCATTTCGACATAAAAGGTGCCACTAATGAAGTTAAATGCA
TAACGGTGCATTTCAGCATAAAAGGTACCACT
Found at i:757311 original size:21 final size:21
Alignment explanation
Indices: 757258--757313 Score: 55
Period size: 21 Copynumber: 2.7 Consensus size: 21
757248 GACGATTTTC
*
757258 ATTAAAATAA-TATTTTTATT
1 ATTATAATAATTATTTTTATT
*
757278 ATTTTAA-ATATTATTTTTAATT
1 ATTATAATA-ATTATTTTT-ATT
757300 A-TATAATAATTATT
1 ATTATAATAATTATT
757314 AAAAAAATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 1 0.03
20 6 0.21
21 17 0.59
22 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
ATTATAATAATTATTTTTATT
Found at i:758597 original size:18 final size:19
Alignment explanation
Indices: 758567--758608 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 19
758557 TTTTTATTAT
758567 TTATTATTTATATT-TTAA
1 TTATTATTTATATTCTTAA
758585 TTATT-TTTCATATTGCTTAA
1 TTATTATTT-ATATT-CTTAA
758605 TTAT
1 TTAT
758609 ATTAGGGGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 3 0.14
18 10 0.48
20 8 0.38
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (19 bp):
TTATTATTTATATTCTTAA
Found at i:759264 original size:76 final size:76
Alignment explanation
Indices: 759119--759259 Score: 196
Period size: 76 Copynumber: 1.9 Consensus size: 76
759109 TTAACTTTGC
* * * *
759119 ATTTTACTCAATTGAATATCTTGACTACAATTGTTTCCAATTTCTTTTTCTCATAAATTAATTAA
1 ATTTTACTCAATTGAATATCTTGACTACAATTGTTTACAAATTATTTTTCCCATAAATTAATTAA
759184 CTTTTCAAATT
66 CTTTTCAAATT
* * * *
759195 ATTTTACTCAATTGAGTCTCTTGATTGCAATTG-TTACAAATTATTTTTCCCATAAA-TAATTAA
1 ATTTTACTCAATTGAATATCTTGACTACAATTGTTTACAAATTATTTTTCCCATAAATTAATTAA
759258 CT
66 CT
759260 CTTTTATACT
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
74 9 0.16
75 19 0.33
76 29 0.51
ACGTcount: A:0.32, C:0.16, G:0.06, T:0.47
Consensus pattern (76 bp):
ATTTTACTCAATTGAATATCTTGACTACAATTGTTTACAAATTATTTTTCCCATAAATTAATTAA
CTTTTCAAATT
Found at i:763220 original size:3 final size:3
Alignment explanation
Indices: 763207--763254 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
763197 TTGTAATATG
763207 TAA TAA TTAA TAA T-A TAA TAA TAAA TAA TAA TAA TAA TAA TAA -AA
1 TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
763252 TAA
1 TAA
763255 CGATAAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 4 0.10
3 31 0.76
4 6 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:763524 original size:43 final size:43
Alignment explanation
Indices: 763459--763790 Score: 218
Period size: 43 Copynumber: 7.7 Consensus size: 43
763449 AAAGGTGATA
* * * *
763459 ACACGGTTCCTACGTGACGAGGACG-GCTGTTTATCTATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTG
** *
763502 ACACGGCTCCTACGTGATGAGGAGATCTGG---TCTGGGGATG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTATGGTTG
* * * ** *
763542 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGG-TG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCT-ATGGTTG
* * *
763585 ATAACCTGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTG
1 A-CA-C-GGCTCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTG
* ** *
763631 ACACGGCTCCTACGTGATGAAGAGATCTGG---TC-GGGGAATG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTATGG-TTG
* * * ** * *
763671 ACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCT-ATGGT--TG
* * *
763717 ACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GATCTGGTTATCTATGGTTG
763760 ACACGGCTCCTACGTGATGAGGAGATCTGGT
1 ACACGGCTCCTACGTGATGAGGAGATCTGGT
763791 CTGGGGATGA
Statistics
Matches: 223, Mismatches: 45, Indels: 42
0.72 0.15 0.14
Matches are distributed among these distances:
39 2 0.01
40 66 0.30
42 3 0.01
43 80 0.36
44 4 0.02
45 11 0.05
46 55 0.25
47 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.26
Consensus pattern (43 bp):
ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCTATGGTTG
Found at i:763556 original size:40 final size:41
Alignment explanation
Indices: 763500--763822 Score: 219
Period size: 40 Copynumber: 7.6 Consensus size: 41
763490 TATCTATGGT
763500 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
* * * *
763540 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG--ATCT---GGGGA
* * * ** *
763586 TAAC-CTGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACAC-GGCTCCTACGTGATGAGGA-GATCTGG--ATCTGGGGA
*
763629 TGACACGGCTCCTACGTGATGAAGAGATCTGG-TC-GGGGAA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGG-A
* * * *
763669 TGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGG--ATCT---GGGGA
* * * * ** *
763715 TAACATGGTTCCTACGTGATGAGGACG-GCTGGTTATCTATGGT
1 TGACACGGCTCCTACGTGATGAGGA-GATCTGG--ATCTGGGGA
763758 TGACACGGCTCCTACGTGATGAGGAGATCTGG-TCTGGGGA
1 TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
* *
763798 TGACACGGTTCCTACATGATGAGGA
1 TGACACGGCTCCTACGTGATGAGGA
763823 CGGCTGGCCA
Statistics
Matches: 217, Mismatches: 46, Indels: 40
0.72 0.15 0.13
Matches are distributed among these distances:
39 2 0.01
40 89 0.41
42 2 0.01
43 57 0.26
44 1 0.00
45 1 0.00
46 60 0.28
47 5 0.02
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (41 bp):
TGACACGGCTCCTACGTGATGAGGAGATCTGGATCTGGGGA
Found at i:763835 original size:129 final size:129
Alignment explanation
Indices: 763405--763819 Score: 681
Period size: 129 Copynumber: 3.2 Consensus size: 129
763395 TATTGGTTGT
* * * * * *
763405 TGGGGACGACACTGCTCATACATGATGAAGAGTT-TGGGTCGTCTAAAGGTGATAACACGGTTCC
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCT-GGCCATCTAAAGGTGATAACATGGTTCC
* *
763469 TACGTGACGAGGACGGCTGTTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
65 TACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
*
763534 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACCTGGTTCCT
1 TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCT
*
763599 ACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTC
66 ACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
763663 -GGGGAATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCC
1 TGGGG-ATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCC
763727 TACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
65 TACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
* * *
763792 TGGGGATGACACGGTTCCTACATGATGA
1 TGGGGATGACACGGCTCATACGTGATGA
763820 GGACGGCTGG
Statistics
Matches: 268, Mismatches: 15, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
128 4 0.01
129 259 0.97
130 5 0.02
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (129 bp):
TGGGGATGACACGGCTCATACGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACATGGTTCCT
ACGTGATGAGGACGGCTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAGGAGATCTGGTC
Found at i:763899 original size:28 final size:28
Alignment explanation
Indices: 763868--763944 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 28
763858 AAACCAAATT
763868 AAAGATTTGTTTCAAAAGAAACAAACCC
1 AAAGATTTGTTTCAAAAGAAACAAACCC
* *
763896 AAAGATTCGTTTCAAGAA-AAACAAACTC
1 AAAGATTTGTTTCAA-AAGAAACAAACCC
763924 AAAGATGATGTGTTTCAAAAG
1 AAAGAT--T-TGTTTCAAAAG
763945 CAACTGTCTC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
28 29 0.71
29 2 0.05
30 3 0.07
31 7 0.17
ACGTcount: A:0.48, C:0.14, G:0.14, T:0.23
Consensus pattern (28 bp):
AAAGATTTGTTTCAAAAGAAACAAACCC
Found at i:764409 original size:40 final size:40
Alignment explanation
Indices: 764365--764444 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
764355 GTTTTAATAG
*
764365 AAACGATATCAAATGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
*
764405 AAACGATCTCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
1 AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
764445 CGAGAGACAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.31
Consensus pattern (40 bp):
AAACGATATCAAAGGTGGGTATTTTCAAAAGAAGTTGTCT
Found at i:764494 original size:28 final size:28
Alignment explanation
Indices: 764462--764522 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
764452 CAAAATTTTG
*
764462 TTTCAAAGGAAACAAACTCAAAGACTTT
1 TTTCAAAAGAAACAAACTCAAAGACTTT
* *
764490 TTTCAAAAGAAACAATCTCAAAGATTTT
1 TTTCAAAAGAAACAAACTCAAAGACTTT
764518 TTTCA
1 TTTCA
764523 CAAAATTGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.31
Consensus pattern (28 bp):
TTTCAAAAGAAACAAACTCAAAGACTTT
Found at i:764520 original size:29 final size:29
Alignment explanation
Indices: 764452--764520 Score: 88
Period size: 28 Copynumber: 2.4 Consensus size: 29
764442 TCTCGAGAGA
* *
764452 CAAA-ATTTTGTTTCAAAGGAAACAAACT
1 CAAAGATTTTTTTTCAAAAGAAACAAACT
* *
764480 CAAAGA-CTTTTTTCAAAAGAAACAATCT
1 CAAAGATTTTTTTTCAAAAGAAACAAACT
764508 CAAAGATTTTTTT
1 CAAAGATTTTTTT
764521 CACAAAATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 28 0.82
29 6 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.33
Consensus pattern (29 bp):
CAAAGATTTTTTTTCAAAAGAAACAAACT
Found at i:764635 original size:64 final size:63
Alignment explanation
Indices: 764485--764639 Score: 167
Period size: 64 Copynumber: 2.4 Consensus size: 63
764475 AAACTCAAAG
* *
764485 ACTTT-TTTCAAAAGAAACA-ATCTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAC
1 ACTTTGTTTCAAAAGAAACAGA-CTCAAAGATTTTTCTCAAAAAATTGTCTCAAGAGAGACAAC
* * *
764547 ACTTTGTTTC-AAAGTAAAATAGACTCAAAGATTTTTCTCAAAAGAAATTGTCTTTAAGAGATA-
1 ACTTTGTTTCAAAAG--AAACAGACTCAAAGATTTTTCTC-AAA-AAATTGTC-TCAAGAGAGAC
764610 AA-
61 AAC
*
764612 ATTTTGTTTCAAAAGAAACAGACTCAAA
1 ACTTTGTTTCAAAAGAAACAGACTCAAA
764640 TGATGGATCT
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
62 9 0.12
63 4 0.05
64 31 0.40
65 12 0.15
66 14 0.18
67 8 0.10
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (63 bp):
ACTTTGTTTCAAAAGAAACAGACTCAAAGATTTTTCTCAAAAAATTGTCTCAAGAGAGACAAC
Found at i:764902 original size:62 final size:60
Alignment explanation
Indices: 764801--765005 Score: 170
Period size: 62 Copynumber: 3.3 Consensus size: 60
764791 TTTCAAAATG
* *
764801 AACATATTCAAAGATTTACTTCAAAAGAA--ACTCTCAAGAGATACAAAATTCAT-TTT-AAGAG
1 AACAGATTCAAAGATTTA-TTCAAAAGAATTA-TCTTAAGAGA-A-AAAATT-ATGTTTCAA-AG
764862 A
60 A
*
764863 AACAGATTCAAAGATTT-TTCCAAAAGAATTATCTTAAGAGAGATAAAATTTTGTTTCCAAAGA
1 AACAGATTCAAAGATTTATT-CAAAAGAATTATCTTAAGAGA-A-AAAATTATGTTT-CAAAGA
* * *
764926 AACAGACTCAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAAAAAATTTTGTTTCCAAAG-
1 AACAGATTCAAAGA-TTT-ATTCAAAAG-AATTATCTTAAGAGAAAAAATTATGTTT-CAAAGA
* *
764989 AACAAACTCAAAGATTT
1 AACAGATTCAAAGATTT
765006 TTGTTTCAAA
Statistics
Matches: 126, Mismatches: 7, Indels: 20
0.82 0.05 0.13
Matches are distributed among these distances:
60 2 0.02
61 9 0.07
62 38 0.30
63 30 0.24
64 23 0.18
65 7 0.06
66 17 0.13
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (60 bp):
AACAGATTCAAAGATTTATTCAAAAGAATTATCTTAAGAGAAAAAATTATGTTTCAAAGA
Found at i:764941 original size:63 final size:62
Alignment explanation
Indices: 764860--765007 Score: 219
Period size: 63 Copynumber: 2.4 Consensus size: 62
764850 TCATTTTAAG
*
764860 AGAAACAGATTCAAAGATTTTTCCAAAAG-AATTATCTTAAGAGAGATAAAATTTTGTTTCCAA
1 AGAAACAGACTCAAAGATTTTTCCAAAAGAAATTATCTTAAGAGA-A-AAAATTTTGTTTCCAA
*
764923 AGAAACAGACTCAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAAAAAATTTTGTTTCCAA
1 AGAAACAGACTCAAAGA-TTT-TTCCAAAAGAAATTATCTTAAGAGAAAAAATTTTGTTTCCAA
*
764987 AG-AACAAACTCAAAGATTTTT
1 AGAAACAGACTCAAAGATTTTT
765008 GTTTCAAAAG
Statistics
Matches: 79, Mismatches: 3, Indels: 8
0.88 0.03 0.09
Matches are distributed among these distances:
61 2 0.03
62 3 0.04
63 29 0.37
64 21 0.27
65 9 0.11
66 15 0.19
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.31
Consensus pattern (62 bp):
AGAAACAGACTCAAAGATTTTTCCAAAAGAAATTATCTTAAGAGAAAAAATTTTGTTTCCAA
Found at i:764953 original size:29 final size:28
Alignment explanation
Indices: 764910--765035 Score: 94
Period size: 29 Copynumber: 4.2 Consensus size: 28
764900 GAGAGATAAA
*
764910 ATTTTGTTTCCAAAGAAACAGACTCAAAG
1 ATTTTGTTTCAAAAG-AACAGACTCAAAG
* *
764939 ATTTTGTTTCAAAAGAA-ATTATCTTAAGAG
1 ATTTTGTTTCAAAAGAACA-GA-CTCAA-AG
* *
764969 AAAAAATTTTGTTTCCAAAGAACAAACTCAAAG
1 -----ATTTTGTTTCAAAAGAACAGACTCAAAG
765002 ATTTTTGTTTCAAAAGAACA-ATCTCAAAG
1 A-TTTTGTTTCAAAAGAACAGA-CTCAAAG
765031 ATTTT
1 ATTTT
765036 TTTTTTTTTT
Statistics
Matches: 79, Mismatches: 7, Indels: 23
0.72 0.06 0.21
Matches are distributed among these distances:
27 1 0.01
28 9 0.11
29 43 0.54
30 2 0.03
33 2 0.03
34 4 0.05
35 17 0.22
36 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.11, T:0.33
Consensus pattern (28 bp):
ATTTTGTTTCAAAAGAACAGACTCAAAG
Found at i:764985 original size:64 final size:66
Alignment explanation
Indices: 764860--765019 Score: 242
Period size: 64 Copynumber: 2.5 Consensus size: 66
764850 TCATTTTAAG
* *
764860 AGAAACAGATTCAAAGA-TTT-TTCCAAAAG-AATTATCTTAAGAGAGATAAAATTTTGTTTCCA
1 AGAAACAGACTCAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAGATAAAATTTTGTTTCCA
764922 A
66 A
764923 AGAAACAGACTCAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGA-A-AAAATTTTGTTTCCA
1 AGAAACAGACTCAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAGATAAAATTTTGTTTCCA
764986 A
66 A
*
764987 AG-AACAAACTCAAAGATTTTTGTTTCAAAAGAA
1 AGAAACAGACTCAAAGA-TTTTGTTTCAAAAGAA
765020 CAATCTCAAA
Statistics
Matches: 90, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
63 29 0.32
64 37 0.41
65 9 0.10
66 15 0.17
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (66 bp):
AGAAACAGACTCAAAGATTTTGTTTCAAAAGAAATTATCTTAAGAGAGATAAAATTTTGTTTCCA
A
Found at i:765036 original size:29 final size:29
Alignment explanation
Indices: 764975--765036 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
764965 AGAGAAAAAA
*
764975 TTTTGTTTCCAAAGAACAAACTCAAAGAT
1 TTTTGTTTCAAAAGAACAAACTCAAAGAT
*
765004 TTTTGTTTCAAAAGAACAATCTCAAAGAT
1 TTTTGTTTCAAAAGAACAAACTCAAAGAT
765033 TTTT
1 TTTT
765037 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.37
Consensus pattern (29 bp):
TTTTGTTTCAAAAGAACAAACTCAAAGAT
Found at i:765081 original size:1 final size:1
Alignment explanation
Indices: 765032--765062 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
765022 ATCTCAAAGA
765032 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
765063 AAAACAACTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:765099 original size:28 final size:27
Alignment explanation
Indices: 765068--765141 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
765058 TTTTTAAAAC
* *
765068 AACTCAAGATTTTTATTTAAAATGAACA
1 AACTCAAGATTTTT-TTCAAAAGGAACA
*
765096 AACTCAA-ATATTTTTTCAAGAGGAACA
1 AACTCAAGAT-TTTTTTCAAAAGGAACA
765123 AACTCAAAGATTTTTTTCA
1 AACTC-AAGATTTTTTTCA
765142 CAAAATTGTC
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 17 0.43
28 21 0.52
29 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.08, T:0.35
Consensus pattern (27 bp):
AACTCAAGATTTTTTTCAAAAGGAACA
Found at i:765201 original size:52 final size:51
Alignment explanation
Indices: 765124--765223 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 51
765114 AGAGGAACAA
765124 ACTCAAAGATTTTTTTCACAAAATTGTCTCAAGAGAGACAAAACTTTGTTTCAG
1 ACTCAAAGA-TTTTTTCACAAAATTGTCTC-A-AGAGACAAAACTTTGTTTCAG
*
765178 ACTCAAAGA-TTTTTCACGAAATTGTCTCAAGAGACAAAACTTTGTT
1 ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGACAAAACTTTGTT
765224 CAAAATAAGT
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
50 17 0.38
51 1 0.02
52 18 0.40
54 9 0.20
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (51 bp):
ACTCAAAGATTTTTTCACAAAATTGTCTCAAGAGACAAAACTTTGTTTCAG
Found at i:765329 original size:56 final size:55
Alignment explanation
Indices: 765236--765395 Score: 225
Period size: 57 Copynumber: 2.9 Consensus size: 55
765226 AAATAAGTAG
765236 ACTCAAAGATATTTTTT-AAAAGAAAC-AACTCAAAGATTTTTTCAAAAGGAACAA
1 ACTCAAAGAT-TTTTTTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGGAACAA
* * * *
765290 ACTCCAAGATTTTTATTCAAAAGGAGCAAACTCAAAGATTTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTT-TTCAAAAGAAACAAACTCAAAGA-TTTTTTCAAAAGGAACAA
* *
765347 ACTCAAAGATTTTTTTCAAGAGAAACAAACTCAAATATTTTTTCAAAAG
1 ACTCAAAGATTTTTTTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAG
765396 AAATTGTCTT
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
53 4 0.04
54 11 0.12
55 18 0.20
56 29 0.32
57 30 0.33
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (55 bp):
ACTCAAAGATTTTTTTCAAAAGAAACAAACTCAAAGATTTTTTCAAAAGGAACAA
Found at i:765342 original size:28 final size:28
Alignment explanation
Indices: 765236--765395 Score: 211
Period size: 28 Copynumber: 5.8 Consensus size: 28
765226 AAATAAGTAG
*
765236 ACTCAAAGATATTTTTT-AAAAGAAAC-A
1 ACTCAAAGAT-TTTTTTCAAAAGGAACAA
765263 ACTCAAAGA-TTTTTTCAAAAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
* *
765290 ACTCCAAGATTTTTATTCAAAAGGAGCAA
1 ACTCAAAGATTTTT-TTCAAAAGGAACAA
*
765319 ACTCAAAGATTTTTTTCAAGAGGAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
* *
765347 ACTCAAAGATTTTTTTCAAGAGAAACAA
1 ACTCAAAGATTTTTTTCAAAAGGAACAA
*
765375 ACTCAAATA-TTTTTTCAAAAG
1 ACTCAAAGATTTTTTTCAAAAG
765396 AAATTGTCTT
Statistics
Matches: 120, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
25 6 0.05
26 8 0.07
27 29 0.24
28 51 0.43
29 26 0.22
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (28 bp):
ACTCAAAGATTTTTTTCAAAAGGAACAA
Found at i:767485 original size:24 final size:24
Alignment explanation
Indices: 767460--767504 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
767450 CTTTTGTTCT
*
767460 TTTGCTTTT-TCTTTGATTTTTGC
1 TTTGATTTTCTCTTTGATTTTTGC
*
767483 TTTGATTTTCTCTTTGCTTTTT
1 TTTGATTTTCTCTTTGATTTTT
767505 TTTTTTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.04, C:0.13, G:0.11, T:0.71
Consensus pattern (24 bp):
TTTGATTTTCTCTTTGATTTTTGC
Found at i:772512 original size:16 final size:17
Alignment explanation
Indices: 772491--772526 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
772481 TATGAACATC
*
772491 AAATAAATTAACAA-AA
1 AAATAAAATAACAATAA
772507 AAATAAAATAACAATAA
1 AAATAAAATAACAATAA
772524 AAA
1 AAA
772527 ATAATTTCTA
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:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAATAAAATAACAATAA
Found at i:774559 original size:3 final size:3
Alignment explanation
Indices: 774540--774589 Score: 68
Period size: 3 Copynumber: 17.0 Consensus size: 3
774530 TTGTAATATG
*
774540 TAA TAT TAA TAA T-A TAA TAA TAA TAAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
774585 -AA TAA
1 TAA TAA
774590 CGATAAAAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 4 0.10
3 35 0.83
4 3 0.07
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:774577 original size:19 final size:18
Alignment explanation
Indices: 774547--774585 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 18
774537 ATGTAATATT
774547 AATAATATAATAATAATA
1 AATAATATAATAATAATA
774565 AATAATAATAATAATAATA
1 AATAAT-ATAATAATAATA
774584 AA
1 AA
774586 ATAACGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATATAATAATAATA
Found at i:774596 original size:30 final size:30
Alignment explanation
Indices: 774540--774596 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
774530 TTGTAATATG
* * *
774540 TAATATTAATAATATAATAATAATAAATAA
1 TAATAATAATAATAAAATAACAATAAATAA
*
774570 TAATAATAATAATAAAATAACGATAAA
1 TAATAATAATAATAAAATAACAATAAA
774597 AAAAACCCGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (30 bp):
TAATAATAATAATAAAATAACAATAAATAA
Found at i:786584 original size:19 final size:19
Alignment explanation
Indices: 786557--786596 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
786547 CTTAAATAAT
*
786557 AATATTATTACTCTCCTAA
1 AATAATATTACTCTCCTAA
* *
786576 AATAATATTATTTTCCTAA
1 AATAATATTACTCTCCTAA
786595 AA
1 AA
786597 ATAACTAATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (19 bp):
AATAATATTACTCTCCTAA
Found at i:791206 original size:14 final size:16
Alignment explanation
Indices: 791182--791214 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
791172 AAACAGTTGG
791182 AAAAGAAAT-AAAAAT
1 AAAAGAAATAAAAAAT
791197 AAAA-AAATAAAAAAT
1 AAAAGAAATAAAAAAT
791212 AAA
1 AAA
791215 CTTAATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAGAAATAAAAAAT
Found at i:791240 original size:43 final size:45
Alignment explanation
Indices: 791192--791301 Score: 120
Period size: 45 Copynumber: 2.4 Consensus size: 45
791182 AAAAGAAATA
*
791192 AAAATAAAAAAATAAAAAATAAACTTAATTA-AAAAATGAT-AAA-
1 AAAATAAAAAAATAAAAAATAAAC-TAATAAGAAAAATGATAAAAG
* *
791235 TAAATAAATAAAGAGAAAAAA-AAACTAATAAGAAAAATGATAAAAG
1 AAAATAAA-AAA-ATAAAAAATAAACTAATAAGAAAAATGATAAAAG
*
791281 AAAAGAAAAGAAATAAAAAAT
1 AAAATAAAA-AAATAAAAAAT
791302 GATAATAAAG
Statistics
Matches: 54, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
43 12 0.22
44 16 0.30
45 18 0.33
46 8 0.15
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (45 bp):
AAAATAAAAAAATAAAAAATAAACTAATAAGAAAAATGATAAAAG
Found at i:791271 original size:44 final size:43
Alignment explanation
Indices: 791193--791278 Score: 113
Period size: 44 Copynumber: 2.0 Consensus size: 43
791183 AAAGAAATAA
* *
791193 AAATAAAAAAATAAAAAATAAACTTAATTAAAAAATGATAAAT
1 AAATAAAAAAAGAAAAAATAAACTTAATAAAAAAATGATAAAT
791236 AAATAAATAAAGAGAAAAAA-AAAC-TAATAAGAAAAATGATAAA
1 AAATAAA-AAA-AGAAAAAATAAACTTAATAA-AAAAATGATAAA
791279 AGAAAAGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
43 12 0.32
44 19 0.50
45 7 0.18
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (43 bp):
AAATAAAAAAAGAAAAAATAAACTTAATAAAAAAATGATAAAT
Found at i:791283 original size:31 final size:30
Alignment explanation
Indices: 791242--791306 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
791232 AAATAAATAA
*
791242 ATAAAGAGAAAAAAAAACTAATAAGAAAAATG
1 ATAAAGAGAAAAAAAAACAAAT-A-AAAAATG
* *
791274 ATAAA-AGAAAAGAAAAGAAATAAAAAATG
1 ATAAAGAGAAAAAAAAACAAATAAAAAATG
791303 ATAA
1 ATAA
791307 TAAAGTAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 11 0.37
30 1 0.03
31 13 0.43
32 5 0.17
ACGTcount: A:0.74, C:0.02, G:0.12, T:0.12
Consensus pattern (30 bp):
ATAAAGAGAAAAAAAAACAAATAAAAAATG
Found at i:791299 original size:44 final size:43
Alignment explanation
Indices: 791187--791300 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 43
791177 GTTGGAAAAG
*
791187 AAATAAAAATAAAA-AAATAAAAAATAAACTTAATTAAAAAATGAT
1 AAATAAAAA-AAAAGAAAT-AAAAA-AAACTTAATAAAAAAATGAT
*
791232 AAATAAATAAATAAAGAGA-AAAAAAAAC-TAATAAGAAAAATGAT
1 AAATAAA-AAA-AAAGAAATAAAAAAAACTTAATAA-AAAAATGAT
791276 AAA-AGAAAAGAAAAGAAATAAAAAA
1 AAATA-AAAA-AAAAGAAATAAAAAA
791301 TGATAATAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
43 14 0.24
44 25 0.42
45 13 0.22
46 5 0.08
47 2 0.03
ACGTcount: A:0.75, C:0.02, G:0.07, T:0.16
Consensus pattern (43 bp):
AAATAAAAAAAAAGAAATAAAAAAAACTTAATAAAAAAATGAT
Found at i:791337 original size:21 final size:20
Alignment explanation
Indices: 791313--791352 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
791303 ATAATAAAGT
*
791313 AAGGTTAAAAACAATTAAAAA
1 AAGGGTAAAAACAA-TAAAAA
*
791334 AAGGGTAAAAGCAATAAAA
1 AAGGGTAAAAACAATAAAA
791353 TTTAAAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.65, C:0.05, G:0.15, T:0.15
Consensus pattern (20 bp):
AAGGGTAAAAACAATAAAAA
Found at i:791888 original size:29 final size:32
Alignment explanation
Indices: 791823--791922 Score: 80
Period size: 32 Copynumber: 3.1 Consensus size: 32
791813 AATGAAAATA
** * *
791823 AAAAAATAATAATATATCTATATGTATATATAT
1 AAAAAATAATAATA-ATAAAAATATATATATAT
* *
791856 ATAAGAAATAATGAT-AT-AAAATATATGTA-AT
1 A-AA-AAATAATAATAATAAAAATATATATATAT
791887 AAAAAATAATAATAATAAAAATATAATATAATAT
1 AAAAAATAATAATAATAAAAATAT-ATAT-ATAT
791921 AA
1 AA
791923 TATAACATAA
Statistics
Matches: 53, Mismatches: 7, Indels: 13
0.73 0.10 0.18
Matches are distributed among these distances:
29 9 0.17
30 4 0.08
31 10 0.19
32 11 0.21
33 4 0.08
34 6 0.11
35 9 0.17
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (32 bp):
AAAAAATAATAATAATAAAAATATATATATAT
Found at i:791917 original size:16 final size:16
Alignment explanation
Indices: 791873--791944 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
791863 ATAATGATAT
*
791873 AAAATAT-ATGTAATA
1 AAAATATAATATAATA
791888 AAAA-ATAATAATAATA
1 AAAATATAAT-ATAATA
791904 AAAATATAATATAAT-
1 AAAATATAATATAATA
* *
791919 ATAATATAACATAAATA
1 AAAATATAATAT-AATA
*
791936 AAAAAATAA
1 AAAATATAA
791945 AAAAAAACCA
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
14 2 0.04
15 16 0.34
16 17 0.36
17 12 0.26
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (16 bp):
AAAATATAATATAATA
Found at i:791919 original size:32 final size:31
Alignment explanation
Indices: 791803--792011 Score: 94
Period size: 31 Copynumber: 6.6 Consensus size: 31
791793 AATAGTAGGA
* *
791803 AATAAAATAAAATGAAAATAAAAAAATAATAAT
1 AATAAAATATAAT-ATAAT-AAAAAATAATAAT
* * * * *
791836 ATATCTATATGTATATATATATAAGAAATAATGAT
1 A-AT-AAAATATA-ATATA-ATAAAAAATAATAAT
*
791871 -ATAAAATAT-ATGTAATAAAAAATAATAAT
1 AATAAAATATAATATAATAAAAAATAATAAT
* * *
791900 AATAAAAATATAATATAATATAATATAA-CAT
1 AAT-AAAATATAATATAATAAAAAATAATAAT
* *
791931 AAATAAAA-A-AATA-AA-AAAAAACCAAAAAT
1 -AATAAAATATAATATAATAAAAAA-TAATAAT
* * *
791960 AATGAAATATAGTA-AATAAATAGAAAAAT-AT
1 AATAAAATATAATATAATAAA-A-AATAATAAT
*
791991 AATTAAATATATATATAATAA
1 AATAAAATATA-ATATAATAA
792012 GGGTTAAAAT
Statistics
Matches: 132, Mismatches: 27, Indels: 34
0.68 0.14 0.18
Matches are distributed among these distances:
27 4 0.03
28 10 0.08
29 20 0.15
30 12 0.09
31 28 0.21
32 25 0.19
33 10 0.08
34 2 0.02
35 17 0.13
36 4 0.03
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (31 bp):
AATAAAATATAATATAATAAAAAATAATAAT
Found at i:791944 original size:46 final size:46
Alignment explanation
Indices: 791888--792011 Score: 107
Period size: 46 Copynumber: 2.7 Consensus size: 46
791878 ATATGTAATA
*
791888 AAAAATAATAATAATAAAAATATAATATAATATAATATA-ACATAAAT
1 AAAAA-AATAATAATAAAAATATAATATAATA-AATATAGAAATAAAT
* *
791935 AAAAAAATAA-AA-AAAAACCA-AAAATAATGAAATATAGTAAATAAAT
1 AAAAAAATAATAATAAAAA-TATAATATAAT-AAATATAG-AAATAAAT
* *
791981 AGAAAAAT-ATAAT-TAAATATATATATAATAA
1 AAAAAAATAATAATAAAAATATA-ATATAATAA
792012 GGGTTAAAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
44 18 0.29
45 6 0.10
46 27 0.44
47 11 0.18
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (46 bp):
AAAAAAATAATAATAAAAATATAATATAATAAATATAGAAATAAAT
Found at i:793843 original size:19 final size:19
Alignment explanation
Indices: 793819--793857 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
793809 TCGAATGCAT
793819 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
793838 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
793857 T
1 T
793858 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:793982 original size:64 final size:65
Alignment explanation
Indices: 793805--793967 Score: 222
Period size: 65 Copynumber: 2.5 Consensus size: 65
793795 GAATTAATTG
* * * *
793805 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
* ** **
793870 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATA-TTTTCA
793933 A
65 A
793934 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
793968 TGGTGCACCG
Statistics
Matches: 85, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 36 0.42
65 49 0.58
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCAGAATATTTTCAA
Found at i:795516 original size:116 final size:117
Alignment explanation
Indices: 795313--795525 Score: 256
Period size: 116 Copynumber: 1.8 Consensus size: 117
795303 ATCTTATTTT
*
795313 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTCAAAAT
1 GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAT
*
795378 AAAATCGAAAAACTTTGAAAAA-GAAATTTTCAAATTAAACAAACTTCTTCTA
66 AAAATCG-AAAACTATGAAAAAGGAAATTTTCAAATTAAACAAACTTCTTCTA
* * * * *
795430 GAAA-CTAAAATGGATTTTGAAAA-ACAAAATGAAAT-TTCGAAGAAGAATTTAGAGCTTTCAAA
1 GAAAGCTAAAAAGGACTTGGAAAATA-AAAATGAAATGTT-GAAAAAGAAGTTAGAGCTTTCAAA
* * *
795492 GATAAAATTTG-AAAGTATGGAAAAGGAAATTTTC
64 -ATAAAA-TCGAAAACTATGAAAAAGGAAATTTTC
795526 GATTTAGAAG
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
115 3 0.04
116 57 0.70
117 19 0.23
118 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (117 bp):
GAAAGCTAAAAAGGACTTGGAAAATAAAAATGAAATGTTGAAAAAGAAGTTAGAGCTTTCAAAAT
AAAATCGAAAACTATGAAAAAGGAAATTTTCAAATTAAACAAACTTCTTCTA
Found at i:796091 original size:20 final size:21
Alignment explanation
Indices: 796058--796097 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
796048 TTTTAACGTA
796058 ATTGATATTCATTTT-AAACC
1 ATTGATATTCATTTTCAAACC
796078 ATTGATA-TCAATTTTCAAAC
1 ATTGATATTC-ATTTTCAAAC
796098 AATTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.67
21 4 0.22
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATTCATTTTCAAACC
Found at i:796105 original size:22 final size:20
Alignment explanation
Indices: 796057--796101 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
796047 ATTTTAACGT
796057 AATTGATATTCATTTTAAAC
1 AATTGATATTCATTTTAAAC
*
796077 CATTGATA-TCAATTTTCAAAC
1 AATTGATATTC-ATTTT-AAAC
796098 AATT
1 AATT
796102 TGATTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 2 0.10
20 12 0.57
21 7 0.33
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.42
Consensus pattern (20 bp):
AATTGATATTCATTTTAAAC
Found at i:801020 original size:19 final size:19
Alignment explanation
Indices: 800996--801032 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
800986 TCGAATGCAT
800996 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
801015 TCCATGCATCGATGCACT
1 TCCATGCACCGATGCACT
801033 ATATTTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.38, G:0.16, T:0.24
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:801155 original size:64 final size:61
Alignment explanation
Indices: 800982--801140 Score: 212
Period size: 61 Copynumber: 2.6 Consensus size: 61
800972 GAATTAATTG
* * * *
800982 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACCATATTTTCAA
* **
801043 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCACCAGGCTATTTTTC-A
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACCA---TA-TTTTCAA
801107 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
801141 TGGTGCACCG
Statistics
Matches: 84, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
61 45 0.54
64 34 0.40
65 5 0.06
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (61 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACCATATTTTCAA
Found at i:802214 original size:60 final size:65
Alignment explanation
Indices: 802142--802294 Score: 199
Period size: 66 Copynumber: 2.4 Consensus size: 65
802132 TTGTGGGCAC
* * *
802142 GATATCCTTCGTCATGAAGTTGAAATCGTGGATG-GCCC-C-TTC-GA-GTTGAGCCTTGAATTG
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTCGTTCTGACGTTGAGCATTGAATTG
* * *
802202 GATATCCTTCGTCGTAAATTTGAAATCGTGGATGACCCCTTCGTTCTGACGTTGAGTATTGAATT
1 GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCC-TCGTTCTGACGTTGAGCATTGAATT
802267 G
65 G
*
802268 GATATCCTTCGTCGTGAAGTTAAAATC
1 GATATCCTTCGTCGTGAAGTTGAAATC
802295 CAAGTATTGT
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
60 31 0.40
61 3 0.04
63 1 0.01
64 3 0.04
65 2 0.03
66 38 0.49
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.34
Consensus pattern (65 bp):
GATATCCTTCGTCGTGAAGTTGAAATCGTGGATGACCCCTCGTTCTGACGTTGAGCATTGAATTG
Found at i:803191 original size:8 final size:7
Alignment explanation
Indices: 803154--803199 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
803144 ACCCACCTTA
803154 TTTTTC-
1 TTTTTCT
803160 TTTTTCT
1 TTTTTCT
*
803167 TTTCTCT
1 TTTTTCT
*
803174 TTTTTGT
1 TTTTTCT
803181 TTTGTTC-
1 TTT-TTCT
803188 TTTTTCT
1 TTTTTCT
803195 TTTTT
1 TTTTT
803200 TTTAATTTAG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
6 9 0.27
7 22 0.67
8 2 0.06
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (7 bp):
TTTTTCT
Found at i:803198 original size:15 final size:14
Alignment explanation
Indices: 803154--803200 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
803144 ACCCACCTTA
803154 TTTTTCTTTTTC-T
1 TTTTTCTTTTTCTT
*
803167 TTTCTCTTTTT-TGT
1 TTTTTCTTTTTCT-T
803181 TTTGTTCTTTTTCTT
1 TTT-TTCTTTTTCTT
803196 TTTTT
1 TTTTT
803201 TTAATTTAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
13 10 0.36
14 6 0.21
15 11 0.39
16 1 0.04
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:803262 original size:17 final size:17
Alignment explanation
Indices: 803240--803282 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
803230 CCCTAAACGT
*
803240 TTTTCTCTTTTTTGTTC
1 TTTTCTCTTTTTTATTC
*
803257 TTTTCT-TTTTTTATTT
1 TTTTCTCTTTTTTATTC
*
803273 TTTTTTCTTT
1 TTTTCTCTTT
803283 GACTTAGGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTCTCTTTTTTATTC
Found at i:803265 original size:23 final size:23
Alignment explanation
Indices: 803239--803282 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
803229 ACCCTAAACG
*
803239 TTTTTCTCTTTTTTGTTCTTTTC
1 TTTTTCTATTTTTTGTTCTTTTC
* *
803262 TTTTTTTATTTTTTTTTCTTT
1 TTTTTCTATTTTTTGTTCTTT
803283 GACTTAGGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.02, C:0.11, G:0.02, T:0.84
Consensus pattern (23 bp):
TTTTTCTATTTTTTGTTCTTTTC
Found at i:803268 original size:18 final size:18
Alignment explanation
Indices: 803240--803282 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
803230 CCCTAAACGT
* *
803240 TTTTCTCTTTTT-TGTTC
1 TTTTCTTTTTTTATTTTC
*
803257 TTTTCTTTTTTTATTTTT
1 TTTTCTTTTTTTATTTTC
803275 TTTTCTTT
1 TTTTCTTT
803283 GACTTAGGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.02, C:0.12, G:0.02, T:0.84
Consensus pattern (18 bp):
TTTTCTTTTTTTATTTTC
Found at i:813978 original size:16 final size:16
Alignment explanation
Indices: 813953--813983 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
813943 CAAACATATG
813953 GAAAAGAAATAAAAAT
1 GAAAAGAAATAAAAAT
*
813969 GAAAATAAATAAAAA
1 GAAAAGAAATAAAAA
813984 AATAAACCTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (16 bp):
GAAAAGAAATAAAAAT
Done.