Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007967.1 Hibiscus syriacus cultivar Beakdansim tig00110402_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: 2476418
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:742587 original size:19 final size:19
Alignment explanation
Indices: 742563--742601 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
742553 CAGCAGTTGT
*
742563 ATATTTATTCATTAATATA
1 ATATTTATTCAATAATATA
* *
742582 ATATTTTTTTAATAATATA
1 ATATTTATTCAATAATATA
742601 A
1 A
742602 GATGTATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (19 bp):
ATATTTATTCAATAATATA
Found at i:743122 original size:25 final size:26
Alignment explanation
Indices: 743088--743153 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
743078 AAATAAATGG
743088 TGTTCAACGGTGCTCTTC-TTAGTGA
1 TGTTCAACGGTGCTCTTCGTTAGTGA
743113 TGTTCAACGGTGCTCTTCGTTAGTGA
1 TGTTCAACGGTGCTCTTCGTTAGTGA
* *
743139 TATTCAACGATGCTC
1 TGTTCAACGGTGCTC
743154 GTCGAACGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 18 0.47
26 20 0.53
ACGTcount: A:0.18, C:0.21, G:0.23, T:0.38
Consensus pattern (26 bp):
TGTTCAACGGTGCTCTTCGTTAGTGA
Found at i:744022 original size:23 final size:24
Alignment explanation
Indices: 743998--744058 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
743988 ATTAATTTAA
743998 TTTAAAATGTTATAATATTTCAAT
1 TTTAAAATGTTATAATATTTCAAT
*
744022 TTTAAAATGATATAATA-TTCAAT
1 TTTAAAATGTTATAATATTTCAAT
744045 TTTAAAA-GTTATAA
1 TTTAAAATGTTATAA
744059 AAAATTATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 6 0.17
23 13 0.37
24 16 0.46
ACGTcount: A:0.46, C:0.03, G:0.05, T:0.46
Consensus pattern (24 bp):
TTTAAAATGTTATAATATTTCAAT
Found at i:745413 original size:20 final size:21
Alignment explanation
Indices: 745353--745406 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
745343 TTGCCTCCTC
*
745353 GAATTTTAGTTCGCTCCCCTA
1 GAATTTTAGCTCGCTCCCCTA
745374 GAATTTTAGCTCGCTCCCCTA
1 GAATTTTAGCTCGCTCCCCTA
745395 GAATTTTAGCTC
1 GAATTTTAGCTC
745407 ATCCCCTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.37
Consensus pattern (21 bp):
GAATTTTAGCTCGCTCCCCTA
Found at i:745619 original size:111 final size:112
Alignment explanation
Indices: 745460--745685 Score: 409
Period size: 111 Copynumber: 2.0 Consensus size: 112
745450 CCACTAGACC
*
745460 AATACATTGTTGGTTGCTTCTACTTCTTCTTTTTTACTATGAAAATAAGACAACAAACAACCCCT
1 AATACATTGTTGGTTGCTTCTA--TCTTCTTTTTTACGATGAAAATAAGACAACAAACAACCCCT
*
745525 AATTCATTCATTATTTGTTCCTTATTTTTAACTGGTATTAAAAGCCTCT
64 AATTCATTCATTATTTGTTCCTTATTTTTAACTAGTATTAAAAGCCTCT
745574 AATACATTGTTGGTTGCTTCTA-CTTCTTTTTTACGATGAAAATAAGACAACAAACAACCCCTAA
1 AATACATTGTTGGTTGCTTCTATCTTCTTTTTTACGATGAAAATAAGACAACAAACAACCCCTAA
745638 TTCATTCATTATTTGTTCCTTATTTTTAACTAGTATTAAAAGCCTCT
66 TTCATTCATTATTTGTTCCTTATTTTTAACTAGTATTAAAAGCCTCT
745685 A
1 A
745686 TTAAATCAAC
Statistics
Matches: 110, Mismatches: 2, Indels: 3
0.96 0.02 0.03
Matches are distributed among these distances:
111 88 0.80
114 22 0.20
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (112 bp):
AATACATTGTTGGTTGCTTCTATCTTCTTTTTTACGATGAAAATAAGACAACAAACAACCCCTAA
TTCATTCATTATTTGTTCCTTATTTTTAACTAGTATTAAAAGCCTCT
Found at i:747357 original size:27 final size:27
Alignment explanation
Indices: 747327--747409 Score: 157
Period size: 27 Copynumber: 3.1 Consensus size: 27
747317 ATTCATCGAA
*
747327 GCAGAGAAGGATCTATACAATTTAAAT
1 GCAGAGAAGGAGCTATACAATTTAAAT
747354 GCAGAGAAGGAGCTATACAATTTAAAT
1 GCAGAGAAGGAGCTATACAATTTAAAT
747381 GCAGAGAAGGAGCTATACAATTTAAAT
1 GCAGAGAAGGAGCTATACAATTTAAAT
747408 GC
1 GC
747410 CTAGATACTA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.22, T:0.23
Consensus pattern (27 bp):
GCAGAGAAGGAGCTATACAATTTAAAT
Found at i:747510 original size:26 final size:26
Alignment explanation
Indices: 747480--747530 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
747470 AATATTTAAA
747480 CACCAAACAATTCATTACTTTATTTG
1 CACCAAACAATTCATTACTTTATTTG
747506 CACCAAACAATTCATTACTTTATTT
1 CACCAAACAATTCATTACTTTATTT
747531 TTTTCTGCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.02, T:0.39
Consensus pattern (26 bp):
CACCAAACAATTCATTACTTTATTTG
Found at i:748716 original size:41 final size:41
Alignment explanation
Indices: 748671--748787 Score: 155
Period size: 41 Copynumber: 2.9 Consensus size: 41
748661 ATATATGTAC
* * *
748671 TCTATTGCGGCATTTGTTTTAAAACGCCACTAAAGAACA-AT
1 TCTATGGCGGCGTTTGTTTAAAAACGCCACTAAAGAA-AGAT
*
748712 TCTATGGCGGCGTTTGTTTAAAAACACCACTAAAGAAAGAT
1 TCTATGGCGGCGTTTGTTTAAAAACGCCACTAAAGAAAGAT
* * *
748753 TATGTGGCGACGTTTGTTTAAAAACGCCACTAAAG
1 TCTATGGCGGCGTTTGTTTAAAAACGCCACTAAAG
748788 TACTTATATG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
40 1 0.01
41 66 0.99
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (41 bp):
TCTATGGCGGCGTTTGTTTAAAAACGCCACTAAAGAAAGAT
Found at i:753411 original size:20 final size:21
Alignment explanation
Indices: 753359--753411 Score: 51
Period size: 20 Copynumber: 2.7 Consensus size: 21
753349 AAAAGAATTG
*
753359 GAAAACTGGAA-AAACTAAAT
1 GAAAACTTGAATAAACTAAAT
*
753379 GAAAA-TT-ACATAAACTGAA-
1 GAAAACTTGA-ATAAACTAAAT
753398 GAAAACTTGAATAA
1 GAAAACTTGAATAA
753412 TTCATTAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
18 1 0.04
19 7 0.26
20 18 0.67
21 1 0.04
ACGTcount: A:0.58, C:0.09, G:0.13, T:0.19
Consensus pattern (21 bp):
GAAAACTTGAATAAACTAAAT
Found at i:758326 original size:2 final size:2
Alignment explanation
Indices: 758319--758346 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
758309 TCAAAAACTA
758319 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
758347 TTAAAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:759798 original size:16 final size:16
Alignment explanation
Indices: 759777--759809 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
759767 CGTTCGTGGC
*
759777 TTGATTCTTTTTTGAT
1 TTGATTCTTGTTTGAT
759793 TTGATTCTTGTTTGAT
1 TTGATTCTTGTTTGAT
759809 T
1 T
759810 GTGACGATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.15, T:0.67
Consensus pattern (16 bp):
TTGATTCTTGTTTGAT
Found at i:760850 original size:19 final size:19
Alignment explanation
Indices: 760817--760867 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
760807 TGAAATTAAA
*
760817 AATAGAAAATAAAAAATATAT
1 AATA-AAAATAAAACATA-AT
760838 AATAAAAATAAAACATAAT
1 AATAAAAATAAAACATAAT
*
760857 AATAATAATAA
1 AATAAAAATAA
760868 TATAATATGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 12 0.43
20 12 0.43
21 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (19 bp):
AATAAAAATAAAACATAAT
Found at i:760902 original size:13 final size:13
Alignment explanation
Indices: 760884--760908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
760874 ATGTTTTCAA
760884 AAACTATATATTG
1 AAACTATATATTG
760897 AAACTATATATT
1 AAACTATATATT
760909 ATATATTTTA
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:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (13 bp):
AAACTATATATTG
Found at i:760947 original size:12 final size:12
Alignment explanation
Indices: 760909--760949 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
760899 ACTATATATT
760909 ATATATTTTAAA
1 ATATATTTTAAA
* *
760921 A-A-ATTGTATA
1 ATATATTTTAAA
760931 ATATATTTTAAA
1 ATATATTTTAAA
760943 ATATATT
1 ATATATT
760950 ATATATATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 7 0.30
11 2 0.09
12 14 0.61
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATATATTTTAAA
Found at i:760955 original size:21 final size:22
Alignment explanation
Indices: 760888--760983 Score: 90
Period size: 23 Copynumber: 4.4 Consensus size: 22
760878 TTTCAAAAAC
* *
760888 TATATA-TTGAAACTATATAT-
1 TATATATTTTAAAATATATATA
* *
760908 TATATATTTTAAAAAAT-TGTA
1 TATATATTTTAAAATATATATA
760929 TAATATATTTTAAAATATATTATA
1 T-ATATATTTTAAAATATA-TATA
**
760953 TATATATTCAAAAATTATATATA
1 TATATATTTTAAAA-TATATATA
760976 TATATATT
1 TATATATT
760984 ATATTCTCAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
20 8 0.13
21 8 0.13
22 15 0.24
23 23 0.37
24 8 0.13
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATATTTTAAAATATATATA
Found at i:761048 original size:22 final size:23
Alignment explanation
Indices: 761001--761048 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 23
760991 CAAAATAATT
761001 TATTTTCAAAAACTATATAATATA
1 TATTTTCAAAAAC-ATATAATATA
*
761025 TATTTT-AAAAA-ATATTATACTA
1 TATTTTCAAAAACATATAATA-TA
761047 TA
1 TA
761049 ATGTGATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 7 0.32
22 4 0.18
23 5 0.23
24 6 0.27
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TATTTTCAAAAACATATAATATA
Found at i:764009 original size:24 final size:24
Alignment explanation
Indices: 763977--764035 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
763967 CTATTCTTTC
763977 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
764001 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
*
764025 GCTTTAATTGA
1 GCTTCAATTGA
764036 ACTTTTAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:765360 original size:14 final size:15
Alignment explanation
Indices: 765335--765363 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
765325 TAAAGGTCCA
765335 AACATCTAAAAATAT
1 AACATCTAAAAATAT
765350 AACAT-TAAAAATAT
1 AACATCTAAAAATAT
765364 TAAATATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
AACATCTAAAAATAT
Found at i:765693 original size:20 final size:20
Alignment explanation
Indices: 765668--765740 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
765658 ACTGTAGACT
765668 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
765688 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
765709 ATAGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
765729 ATCGCAACGCGA
1 ATCGCAACGCGA
765741 TTTTCAACTA
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 26 0.65
21 14 0.35
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:765722 original size:41 final size:41
Alignment explanation
Indices: 765665--765765 Score: 184
Period size: 41 Copynumber: 2.5 Consensus size: 41
765655 CAGACTGTAG
765665 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
765706 ACTATAGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
*
765747 ACTATCGCAACACGAAATG
1 ACTATCGCAACGCGAAATG
765766 CAACGCGAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCA
Found at i:765769 original size:21 final size:21
Alignment explanation
Indices: 765665--765769 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
765655 CAGACTGTAG
*
765665 ACTATCGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
765686 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* *
765706 ACTATAGCAACGCGAAATGGA
1 ACTATCGCAACGCGAAATGCA
* ** *
765727 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
765747 ACTATCGCAACACGAAATGCA
1 ACTATCGCAACGCGAAATGCA
765768 AC
1 AC
765770 GCGAATTTGC
Statistics
Matches: 60, Mismatches: 22, Indels: 4
0.70 0.26 0.05
Matches are distributed among these distances:
20 29 0.48
21 31 0.52
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:767481 original size:19 final size:19
Alignment explanation
Indices: 767457--767511 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
767447 GAGAATTAAC
*
767457 TTTATTTTAATTTAATATA
1 TTTATTTTAACTTAATATA
*
767476 TTTATTTTAAGTTAATATA
1 TTTATTTTAACTTAATATA
767495 TTTATTATTAACTTAAT
1 TTTATT-TTAACTTAAT
767512 TTAAAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 24 0.73
20 9 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTATTTTAACTTAATATA
Found at i:767771 original size:28 final size:29
Alignment explanation
Indices: 767713--767771 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
767703 CCCATCTTAG
*
767713 TTAAATAAAAACGAAAGTGACCATATCTTA
1 TTAAATAAAAACG-AAGTGACCATATATTA
* *
767743 TTAAATAAAAATG-AGTGACTATATATTA
1 TTAAATAAAAACGAAGTGACCATATATTA
767771 T
1 T
767772 GGTTTCTTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 14 0.54
30 12 0.46
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.32
Consensus pattern (29 bp):
TTAAATAAAAACGAAGTGACCATATATTA
Found at i:779516 original size:16 final size:16
Alignment explanation
Indices: 779495--779527 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
779485 ACAAGATGTC
779495 TATTTGAGGCAATAAA
1 TATTTGAGGCAATAAA
779511 TATTTGAGGCAATAAA
1 TATTTGAGGCAATAAA
779527 T
1 T
779528 TTTATGTCAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.33
Consensus pattern (16 bp):
TATTTGAGGCAATAAA
Found at i:809088 original size:48 final size:49
Alignment explanation
Indices: 808955--809091 Score: 134
Period size: 49 Copynumber: 2.8 Consensus size: 49
808945 TTATAATGGT
* * *** * * *
808955 GATGAGAAACTAGATTATATAATCACTTGCATTCCGACGGTGATAATCT
1 GATGAGAAACTAAATTATAGAATCACACACATTCCAATGGTGATAATCG
*
809004 GATGAGAAACTAAATTATAGAATCACACACAATCCAATGGTGATAATCG
1 GATGAGAAACTAAATTATAGAATCACACACATTCCAATGGTGATAATCG
* * * *
809053 GATGTG-AGCTAAATTATATAATTGA-ACACATTCCAATGG
1 GATGAGAAACTAAATTATAGAA-TCACACACATTCCAATGG
809092 CAATAAGCCG
Statistics
Matches: 73, Mismatches: 14, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
48 26 0.36
49 47 0.64
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (49 bp):
GATGAGAAACTAAATTATAGAATCACACACATTCCAATGGTGATAATCG
Found at i:812745 original size:20 final size:20
Alignment explanation
Indices: 812720--812787 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
812710 GTTTTCTGAG
812720 TTGTAGTATTGATATTGTTC
1 TTGTAGTATTGATATTGTTC
*
812740 TTGTAGTATTGATATCGTTC
1 TTGTAGTATTGATATTGTTC
* * *
812760 TTATAGTATTGATACTATTC
1 TTGTAGTATTGATATTGTTC
812780 TTGTAGTA
1 TTGTAGTA
812788 CTAATACTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.24, C:0.07, G:0.18, T:0.51
Consensus pattern (20 bp):
TTGTAGTATTGATATTGTTC
Found at i:812781 original size:40 final size:40
Alignment explanation
Indices: 812723--812828 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
812713 TTCTGAGTTG
* * * *
812723 TAGTATTGATATTGTTCTTGTAGTATTGATA-TCGTTCTTA
1 TAGTATTGATAATATTCTTGTAGTATTAATACT-ATTCTTA
* *
812763 TAGTATTGATACTATTCTTGTAGTACTAATACTATTCTTA
1 TAGTATTGATAATATTCTTGTAGTATTAATACTATTCTTA
*
812803 TAGTATCT-ATAATATTCTTGCAGTAT
1 TAGTAT-TGATAATATTCTTGTAGTAT
812829 CTATACTGTT
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
40 54 0.96
41 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.49
Consensus pattern (40 bp):
TAGTATTGATAATATTCTTGTAGTATTAATACTATTCTTA
Found at i:812794 original size:20 final size:19
Alignment explanation
Indices: 812757--812835 Score: 77
Period size: 20 Copynumber: 3.9 Consensus size: 19
812747 ATTGATATCG
*
812757 TTCTTATAGTATTGATACTA
1 TTCTTATAGTACT-ATACTA
*
812777 TTCTTGTAGTACTAATACTA
1 TTCTTATAGTACT-ATACTA
*
812797 TTCTTATAGTATCTATAATA
1 TTCTTATAGTA-CTATACTA
**
812817 TTCTTGCAGTATCTATACT
1 TTCTTATAGTA-CTATACT
812836 GTTAGTACCA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
20 48 0.96
21 2 0.04
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.48
Consensus pattern (19 bp):
TTCTTATAGTACTATACTA
Found at i:812867 original size:32 final size:32
Alignment explanation
Indices: 812831--812902 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
812821 TGCAGTATCT
** * *
812831 ATACTGTTAGTACCAATGTTGTTGTAGTACCA
1 ATACTGTTAGTACCAATACTATTGTAATACCA
*
812863 ATACTGTTAGTACTAATACTATTGTAATACCA
1 ATACTGTTAGTACCAATACTATTGTAATACCA
*
812895 ATATTGTT
1 ATACTGTT
812903 CTTGTAGTAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (32 bp):
ATACTGTTAGTACCAATACTATTGTAATACCA
Found at i:812870 original size:17 final size:17
Alignment explanation
Indices: 812838--812902 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
812828 TCTATACTGT
**
812838 TAGTACCAATGTTGTTG
1 TAGTACCAATACTGTTG
812855 TAGTACCAATACTG-T-
1 TAGTACCAATACTGTTG
* *
812870 TAGTACTAATACTATTG
1 TAGTACCAATACTGTTG
* *
812887 TAATACCAATATTGTT
1 TAGTACCAATACTGTT
812903 CTTGTAGTAC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 12 0.32
16 2 0.05
17 24 0.63
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.40
Consensus pattern (17 bp):
TAGTACCAATACTGTTG
Found at i:812880 original size:15 final size:15
Alignment explanation
Indices: 812831--812882 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
812821 TGCAGTATCT
812831 ATACTGTTAGTACCA
1 ATACTGTTAGTACCA
**
812846 ATGTTGTTGTAGTACCA
1 ATACTG-T-TAGTACCA
*
812863 ATACTGTTAGTACTA
1 ATACTGTTAGTACCA
812878 ATACT
1 ATACT
812883 ATTGTAATAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 16 0.53
16 2 0.07
17 12 0.40
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (15 bp):
ATACTGTTAGTACCA
Found at i:812917 original size:20 final size:20
Alignment explanation
Indices: 812884--812921 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
812874 ACTAATACTA
812884 TTGTAATACCAATATTGTTC
1 TTGTAATACCAATATTGTTC
* *
812904 TTGTAGTACTAATATTGT
1 TTGTAATACCAATATTGT
812922 CCAACATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
TTGTAATACCAATATTGTTC
Found at i:813715 original size:60 final size:60
Alignment explanation
Indices: 813579--813708 Score: 251
Period size: 60 Copynumber: 2.2 Consensus size: 60
813569 ATAGTGAGTA
813579 GCTGATGTGACAGTCGTAATAGGATATGCAATGTTATGTTTAAGCAAGAATTATATCGAG
1 GCTGATGTGACAGTCGTAATAGGATATGCAATGTTATGTTTAAGCAAGAATTATATCGAG
*
813639 GCTGATGTGACAGTCGTAATAGGATGTGCAATGTTATGTTTAAGCAAGAATTATATCGAG
1 GCTGATGTGACAGTCGTAATAGGATATGCAATGTTATGTTTAAGCAAGAATTATATCGAG
813699 GCTGATGTGA
1 GCTGATGTGA
813709 TGGTCGTGGA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 69 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (60 bp):
GCTGATGTGACAGTCGTAATAGGATATGCAATGTTATGTTTAAGCAAGAATTATATCGAG
Found at i:815044 original size:42 final size:42
Alignment explanation
Indices: 814981--815071 Score: 155
Period size: 42 Copynumber: 2.2 Consensus size: 42
814971 AACGATCGTT
*
814981 AACCCTATGAAATCGCAACCAATTGACGTGTGTACCTCAACA
1 AACCCTATGAAATCGCAACCAATCGACGTGTGTACCTCAACA
* *
815023 AACCCTATGAAATCGCGACCAATCGACGTGTGTACCTCAACG
1 AACCCTATGAAATCGCAACCAATCGACGTGTGTACCTCAACA
815065 AACCCTA
1 AACCCTA
815072 CGCTGCAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.34, C:0.31, G:0.15, T:0.20
Consensus pattern (42 bp):
AACCCTATGAAATCGCAACCAATCGACGTGTGTACCTCAACA
Found at i:816587 original size:35 final size:35
Alignment explanation
Indices: 816452--816598 Score: 179
Period size: 35 Copynumber: 4.2 Consensus size: 35
816442 TCTAAACCTT
* * *
816452 AAATTGAAGTATTTTAGAATTTGGGGTTTAAAATT
1 AAATTGAATTATTTTAGAATTTGGGGTTTAGAATG
* *
816487 TAATTGAATTATTTTAGAATTTGGGGTTTA-AGATT
1 AAATTGAATTATTTTAGAATTTGGGGTTTAGA-ATG
* * *
816522 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGGGTTTAGAATG
* * *
816557 AAATTGAATTACTTTGGAAATTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGGGTTTAGAATG
816592 AAATTGA
1 AAATTGA
816599 GGGTTGTTTT
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
34 1 0.01
35 99 0.98
36 1 0.01
ACGTcount: A:0.35, C:0.01, G:0.22, T:0.43
Consensus pattern (35 bp):
AAATTGAATTATTTTAGAATTTGGGGTTTAGAATG
Found at i:823465 original size:29 final size:29
Alignment explanation
Indices: 823350--823466 Score: 114
Period size: 29 Copynumber: 4.1 Consensus size: 29
823340 CAAACAGAAA
* *
823350 CAGGACGAGGATATAATCTCATGCATAAT
1 CAGGACGAGGATATAATCCCATGCAAAAT
* * * *
823379 TAGGACGATGAGATAATCCCATGCCAAAT
1 CAGGACGAGGATATAATCCCATGCAAAAT
* *
823408 CACGACG-GGATATAAACCCATG-AAGAAT
1 CAGGACGAGGATATAATCCCATGCAA-AAT
*
823436 CAGGAC-AGGGATATAATCTCATGCAAAAT
1 CAGGACGA-GGATATAATCCCATGCAAAAT
823465 CA
1 CA
823467 TAAATGCATC
Statistics
Matches: 69, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
27 1 0.01
28 20 0.29
29 46 0.67
30 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (29 bp):
CAGGACGAGGATATAATCCCATGCAAAAT
Found at i:824283 original size:16 final size:16
Alignment explanation
Indices: 824262--824293 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
824252 GTTCTCCATC
824262 GCGAATTGATGCTTGT
1 GCGAATTGATGCTTGT
824278 GCGAATTGATGCTTGT
1 GCGAATTGATGCTTGT
824294 ACAAGAATCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (16 bp):
GCGAATTGATGCTTGT
Found at i:830724 original size:7 final size:7
Alignment explanation
Indices: 830712--830762 Score: 66
Period size: 7 Copynumber: 7.3 Consensus size: 7
830702 CCTTGCAATG
830712 AACCCTA
1 AACCCTA
830719 AACCCTA
1 AACCCTA
830726 AACCCTA
1 AACCCTA
830733 AACCCTA
1 AACCCTA
**
830740 AACTATA
1 AACCCTA
* *
830747 AGCCATA
1 AACCCTA
830754 AACCCTA
1 AACCCTA
830761 AA
1 AA
830763 TTGTTCTTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.47, C:0.35, G:0.02, T:0.16
Consensus pattern (7 bp):
AACCCTA
Found at i:831536 original size:31 final size:31
Alignment explanation
Indices: 831498--831558 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
831488 AGATACGGTA
831498 ATTGCCTTGGAAAGCTGATGCCAAACTCATC
1 ATTGCCTTGGAAAGCTGATGCCAAACTCATC
831529 ATTGCCTTGGAAAGCTGATGCCAAACTCAT
1 ATTGCCTTGGAAAGCTGATGCCAAACTCAT
831559 AGTATGGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (31 bp):
ATTGCCTTGGAAAGCTGATGCCAAACTCATC
Found at i:836043 original size:21 final size:21
Alignment explanation
Indices: 835992--836044 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
835982 ATTATGACTA
*
835992 TCGCAATGCAATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
** *
836013 TCGCGTTGCGGTTTTCCTAA-T
1 TCGCAATGCGATTTTCC-AATT
836034 TCGCAATGCGA
1 TCGCAATGCGA
836045 ATTTGAAAAA
Statistics
Matches: 24, Mismatches: 7, Indels: 2
0.73 0.21 0.06
Matches are distributed among these distances:
21 22 0.92
22 2 0.08
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:836123 original size:20 final size:20
Alignment explanation
Indices: 836054--836148 Score: 84
Period size: 20 Copynumber: 4.7 Consensus size: 20
836044 AATTTGAAAA
* * *
836054 ATCGCAATGCAATATTGACT
1 ATCGCAACGCGATACTGACT
* *
836074 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
836095 ATTGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
836115 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
836135 ATCGCAACGAGATA
1 ATCGCAACGCGATA
836149 ATACATAATC
Statistics
Matches: 59, Mismatches: 13, Indels: 6
0.76 0.17 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.69
21 14 0.24
22 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:836385 original size:22 final size:22
Alignment explanation
Indices: 836334--836387 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
836324 TCACTCTCTA
* *
836334 CGGCGACATCCGTCCCCATCTC
1 CGGCGAAATCAGTCCCCATCTC
**
836356 CGATGAAATCAGTCCCCATCTC
1 CGGCGAAATCAGTCCCCATCTC
836378 CGGCGAAATC
1 CGGCGAAATC
836388 CGTCTATCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.41, G:0.19, T:0.19
Consensus pattern (22 bp):
CGGCGAAATCAGTCCCCATCTC
Found at i:836788 original size:40 final size:39
Alignment explanation
Indices: 836732--836818 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 39
836722 GAAACCGAGA
*
836732 ATCGCAACACAAAATGAGAATCGCAACGAC-AAAATAACT
1 ATCGCAACACAAAATGACAATCGCAACG-CGAAAATAACT
* * * *
836771 ATCGCAATACGAAAATGACTATCGCAACGCGGAAATGACT
1 ATCGCAACAC-AAAATGACAATCGCAACGCGAAAATAACT
836811 ATCGCAAC
1 ATCGCAAC
836819 GAGAGAATCG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 10 0.25
40 30 0.75
ACGTcount: A:0.45, C:0.24, G:0.16, T:0.15
Consensus pattern (39 bp):
ATCGCAACACAAAATGACAATCGCAACGCGAAAATAACT
Found at i:836806 original size:20 final size:20
Alignment explanation
Indices: 836732--836819 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
836722 GAAACCGAGA
* **
836732 ATCGCAACAC-AAAATGAGA
1 ATCGCAACGCGAAAATGACT
*
836751 ATCGCAACGAC-AAAATAACT
1 ATCGCAACG-CGAAAATGACT
**
836771 ATCGCAATACGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
836791 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGAAAATGACT
836811 ATCGCAACG
1 ATCGCAACG
836820 AGAGAATCGC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
19 9 0.16
20 48 0.84
ACGTcount: A:0.44, C:0.24, G:0.17, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:836859 original size:14 final size:14
Alignment explanation
Indices: 836840--836870 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
836830 AATACAAATT
836840 AAAATCGCAACGAG
1 AAAATCGCAACGAG
*
836854 AAAATCGCAACGCG
1 AAAATCGCAACGAG
836868 AAA
1 AAA
836871 CCAAATTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.23, G:0.19, T:0.06
Consensus pattern (14 bp):
AAAATCGCAACGAG
Found at i:836939 original size:32 final size:33
Alignment explanation
Indices: 836880--836974 Score: 120
Period size: 32 Copynumber: 2.8 Consensus size: 33
836870 ACCAAATTTG
* *
836880 CGTTGCGATTTTCATTTCCGCATTGCGATTTTCT
1 CGTTGCGA-TTTCAATTCCGCATTGCGATTATCT
836914 CGTTGCGATTTCAATT-CGCATTGCGATTATCT
1 CGTTGCGATTTCAATTCCGCATTGCGATTATCT
* * *
836946 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGAT-TTCAATTCCGCATTGCGAT
836975 AGTCATTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
32 24 0.44
33 12 0.22
34 18 0.33
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.41
Consensus pattern (33 bp):
CGTTGCGATTTCAATTCCGCATTGCGATTATCT
Found at i:836971 original size:20 final size:20
Alignment explanation
Indices: 836946--837014 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
836936 GCGATTATCT
*
836946 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTTCG
836966 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
836986 TGTTGCGATAGTCATTTTCT
1 CGTTGCGATAGTCATTTTCG
837006 CGTTGCGAT
1 CGTTGCGAT
837015 TTTAAGTTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.14, C:0.20, G:0.25, T:0.41
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:838844 original size:14 final size:14
Alignment explanation
Indices: 838825--838948 Score: 68
Period size: 14 Copynumber: 8.1 Consensus size: 14
838815 GAATTTGACT
*
838825 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
838839 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
838858 ATCGCAACGACAAA
1 ATCGCAACGAGAAA
*** **
838872 ATCGCAATTTGACT
1 ATCGCAACGAGAAA
*
838886 ATCGCAACGAGAGA
1 ATCGCAACGAGAAA
838900 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
*
838919 ATCGCAACGACAAA
1 ATCGCAACGAGAAA
*
838933 ATCGCAACGCGAAA
1 ATCGCAACGAGAAA
838947 AT
1 AT
838949 GAAAATCGCA
Statistics
Matches: 83, Mismatches: 17, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
14 51 0.61
15 2 0.02
16 4 0.05
17 4 0.05
18 2 0.02
19 20 0.24
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.14
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:838862 original size:33 final size:33
Alignment explanation
Indices: 838825--838959 Score: 154
Period size: 33 Copynumber: 4.2 Consensus size: 33
838815 GAATTTGACT
* *
838825 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGACAAAATCGCAATGCGAAATGAAA
* **
838858 ATCGCAACGACAAAATCGCAAT-----TTGACT
1 ATCGCAACGACAAAATCGCAATGCGAAATGAAA
* *
838886 ATCGCAACGAGAGAATCGCAATGCGAAATGAAA
1 ATCGCAACGACAAAATCGCAATGCGAAATGAAA
*
838919 ATCGCAACGACAAAATCGCAACGCGAAAATGAAA
1 ATCGCAACGACAAAATCGCAATGCG-AAATGAAA
838953 ATCGCAA
1 ATCGCAA
838960 TACGAATTTA
Statistics
Matches: 83, Mismatches: 13, Indels: 11
0.78 0.12 0.10
Matches are distributed among these distances:
28 23 0.28
33 45 0.54
34 15 0.18
ACGTcount: A:0.45, C:0.21, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAACGACAAAATCGCAATGCGAAATGAAA
Found at i:838885 original size:61 final size:61
Alignment explanation
Indices: 838816--838939 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
838806 TAAGCGCGCG
838816 AATTTGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGC
1 AATTTGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGC
838877 AATTTGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGC
1 AATTTGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGC
838938 AA
1 AA
838940 CGCGAAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.44, C:0.21, G:0.19, T:0.16
Consensus pattern (61 bp):
AATTTGACTATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGC
Found at i:838902 original size:28 final size:28
Alignment explanation
Indices: 838816--838907 Score: 94
Period size: 28 Copynumber: 3.1 Consensus size: 28
838806 TAAGCGCGCG
838816 AATTTGACTATCGCAACGAGAGAATCGC
1 AATTTGACTATCGCAACGAGAGAATCGC
* ** * *
838844 AATGCGAAATGAAAATCGCAACGACAAAATCGC
1 AAT-----TTGACTATCGCAACGAGAGAATCGC
838877 AATTTGACTATCGCAACGAGAGAATCGC
1 AATTTGACTATCGCAACGAGAGAATCGC
838905 AAT
1 AAT
838908 GCGAAATGAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
28 26 0.53
33 23 0.47
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (28 bp):
AATTTGACTATCGCAACGAGAGAATCGC
Found at i:838992 original size:19 final size:18
Alignment explanation
Indices: 838965--839022 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
838955 CGCAATACGA
*
838965 ATTTAGTTTCGCATTGCG
1 ATTTCGTTTCGCATTGCG
* *
838983 ATTTGTGTTTCGCGTTGCG
1 ATTT-CGTTTCGCATTGCG
*
839002 ATTTCATTTCGCATTGCG
1 ATTTCGTTTCGCATTGCG
839020 ATT
1 ATT
839023 CTCTCGTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 18 0.53
19 16 0.47
ACGTcount: A:0.14, C:0.17, G:0.22, T:0.47
Consensus pattern (18 bp):
ATTTCGTTTCGCATTGCG
Found at i:839013 original size:18 final size:19
Alignment explanation
Indices: 838971--839022 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 19
838961 ACGAATTTAG
**
838971 TTTCGCATTGCGATTTGTG
1 TTTCGCATTGCGATTTGCA
*
838990 TTTCGCGTTGCGATTT-CA
1 TTTCGCATTGCGATTTGCA
839008 TTTCGCATTGCGATT
1 TTTCGCATTGCGATT
839023 CTCTCGTTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (19 bp):
TTTCGCATTGCGATTTGCA
Found at i:840962 original size:20 final size:19
Alignment explanation
Indices: 840931--841032 Score: 98
Period size: 14 Copynumber: 5.8 Consensus size: 19
840921 CGCGAAACTA
*
840931 AATTCGCGTTGCGATTTTC
1 AATTCGCATTGCGATTTTC
*
840950 ATCTTCGCATTGCGATTTTC
1 A-ATTCGCATTGCGATTTTC
840970 -A--CG--TTGCGATTTTC
1 AATTCGCATTGCGATTTTC
*
840984 AATTCGCATTGCGATTCTC
1 AATTCGCATTGCGATTTTC
841003 ---TCG--TTGCGATTTTC
1 AATTCGCATTGCGATTTTC
841017 AATTCGCATTGCGATT
1 AATTCGCATTGCGATT
841033 CTCTCGTTGC
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
14 21 0.31
15 1 0.01
16 5 0.07
17 5 0.07
19 19 0.28
20 16 0.24
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (19 bp):
AATTCGCATTGCGATTTTC
Found at i:840995 original size:33 final size:33
Alignment explanation
Indices: 840937--841045 Score: 182
Period size: 33 Copynumber: 3.3 Consensus size: 33
840927 ACTAAATTCG
* * *
840937 CGTTGCGATTTTCATCTTCGCATTGCGATTTTCA
1 CGTTGCGATTTTCA-ATTCGCATTGCGATTCTCT
840971 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
841004 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
841037 CGTTGCGAT
1 CGTTGCGAT
841046 AGTCATTTCC
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 58 0.81
34 14 0.19
ACGTcount: A:0.15, C:0.24, G:0.19, T:0.42
Consensus pattern (33 bp):
CGTTGCGATTTTCAATTCGCATTGCGATTCTCT
Found at i:841044 original size:14 final size:14
Alignment explanation
Indices: 840992--841045 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
840982 TCAATTCGCA
840992 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
841006 TTGCGATTTTCAATTCG
1 TTGCGATTCTC---TCG
841023 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
841039 TTGCGAT
1 TTGCGAT
841046 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
16 3 0.09
17 3 0.09
19 10 0.30
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:841062 original size:20 final size:20
Alignment explanation
Indices: 841037--841125 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
841027 GCGATTCTCT
841037 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
841057 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
841077 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
841097 TGTTGCGATAGTCATATT-TG
1 CGTTGCGATAGTCAT-TTCCG
841117 CGTTGCGAT
1 CGTTGCGAT
841126 TTCCCCGTTG
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
20 63 0.97
21 2 0.03
ACGTcount: A:0.16, C:0.21, G:0.26, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:843412 original size:12 final size:12
Alignment explanation
Indices: 843395--843419 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
843385 TCTTCGGGGA
843395 CTTTTTCTTCTT
1 CTTTTTCTTCTT
843407 CTTTTTCTTCTT
1 CTTTTTCTTCTT
843419 C
1 C
843420 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:843628 original size:24 final size:24
Alignment explanation
Indices: 843594--843647 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
843584 CTGAAACATC
843594 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
843618 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
843642 ATCAAA
1 ATCAAA
843648 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:843661 original size:24 final size:24
Alignment explanation
Indices: 843594--843661 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
843584 CTGAAACATC
* * *
843594 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
843618 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
843642 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
843662 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:844408 original size:20 final size:20
Alignment explanation
Indices: 844382--844490 Score: 87
Period size: 20 Copynumber: 5.5 Consensus size: 20
844372 TGTATTATCT
844382 CGTTGCGATAGTCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* *
844402 TGTTGCGATAGGCAGAATCG
1 CGTTGCGATAGTCAGAATCG
* * * *
844422 CATTGCGAAAGTCAGTATCA
1 CGTTGCGATAGTCAGAATCG
* **
844442 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--TAGTCAGAATCG
*
844463 CGTTGCGAT-GTCAGTATCG
1 CGTTGCGATAGTCAGAATCG
*
844482 CATTGCGAT
1 CGTTGCGAT
844491 TTACTTATTC
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
18 2 0.03
19 15 0.21
20 39 0.55
21 13 0.18
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAGAATCG
Found at i:844476 original size:40 final size:40
Alignment explanation
Indices: 844357--844492 Score: 121
Period size: 40 Copynumber: 3.4 Consensus size: 40
844347 AACTTTGAAA
* * * *
844357 ATCGCATTGCGATTCTGTATTATCTCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGAT-GTCAGT
* ** * ** * *
844398 ATCGTGTTGCGA-TAGGCAGAATCGCATTGCGAAAGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCG-ATGTCAGT
*
844438 ATCACGTTGCGATTTTGTATTATCGCGTTGCGATGTCAGT
1 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATGTCAGT
*
844478 ATCGCATTGCGATTT
1 ATCGCGTTGCGATTT
844493 ACTTATTCGC
Statistics
Matches: 71, Mismatches: 22, Indels: 5
0.72 0.22 0.05
Matches are distributed among these distances:
40 47 0.66
41 24 0.34
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.35
Consensus pattern (40 bp):
ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATGTCAGT
Found at i:844572 original size:21 final size:21
Alignment explanation
Indices: 844506--844563 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
844496 TATTCGCATT
844506 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
*
844527 GCGAATTGGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
844548 GCGAAATT-GGAAAATC
1 GCG-AATTAGGAAAATC
844564 ACATTGCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
21 31 0.89
22 4 0.11
ACGTcount: A:0.41, C:0.17, G:0.26, T:0.16
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:850938 original size:23 final size:23
Alignment explanation
Indices: 850898--850945 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
850888 CATATAAACG
*
850898 AACGTTAAACAAATATGTATACA
1 AACGTTAAACAAACATGTATACA
* * *
850921 AACGTTAAACGAGCATGTTTACA
1 AACGTTAAACAAACATGTATACA
850944 AA
1 AA
850946 GATGTAAACG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.15, G:0.12, T:0.25
Consensus pattern (23 bp):
AACGTTAAACAAACATGTATACA
Found at i:851984 original size:3 final size:3
Alignment explanation
Indices: 851976--852002 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
851966 ATTCAAATGA
851976 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
852003 CTATAGAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:853183 original size:20 final size:20
Alignment explanation
Indices: 853158--853210 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
853148 GACAAACAAA
853158 TTCGCAACGCGAA-TTCTAAT
1 TTCGCAACGCGAATTTC-AAT
*
853178 TTCGCAAC-CCAATTTCAAT
1 TTCGCAACGCGAATTTCAAT
853197 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
853211 ATGTAGATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 14 0.48
20 15 0.52
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTTCAAT
Found at i:853191 original size:19 final size:20
Alignment explanation
Indices: 853158--853206 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
853148 GACAAACAAA
*
853158 TTCGCAACGCGAA-TTCTAAT
1 TTCGCAACGCCAATTTC-AAT
853178 TTCGCAAC-CCAATTTCAAT
1 TTCGCAACGCCAATTTCAAT
853197 TTCGCAACGC
1 TTCGCAACGC
853207 GAATATGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.29, C:0.31, G:0.12, T:0.29
Consensus pattern (20 bp):
TTCGCAACGCCAATTTCAAT
Found at i:853390 original size:56 final size:53
Alignment explanation
Indices: 853324--853481 Score: 202
Period size: 56 Copynumber: 3.0 Consensus size: 53
853314 TCGCAACGTG
*
853324 AATTTCATTTTCGAAACGCTAATTACCTATATAGGTAATTAACTATTCGCGTTACT
1 AATTTCATTTTCGCAACGCTAATTACCTATATAGGTAATTAACTATTCGCG-T--T
* *
853380 AATTTCATTTTCGCAACGCTAATTATCTATATAGGTAATT--CGTA-ACGCG--
1 AATTTCATTTTCGCAACGCTAATTACCTATATAGGTAATTAAC-TATTCGCGTT
853429 AA-TTCTATTTTCGCAACGCTAATTACCTATATAGGTAATTAACTATTCGCGTT
1 AATTTC-ATTTTCGCAACGCTAATTACCTATATAGGTAATTAACTATTCGCGTT
853482 GCGAATTTGT
Statistics
Matches: 90, Mismatches: 5, Indels: 17
0.80 0.04 0.15
Matches are distributed among these distances:
48 3 0.03
49 35 0.39
50 2 0.02
51 5 0.06
54 5 0.06
55 2 0.02
56 38 0.42
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (53 bp):
AATTTCATTTTCGCAACGCTAATTACCTATATAGGTAATTAACTATTCGCGTT
Found at i:853503 original size:20 final size:20
Alignment explanation
Indices: 853480--853519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
853470 ACTATTCGCG
*
853480 TTGCGAATTTGTCTTTCACA
1 TTGCGAATTTGACTTTCACA
853500 TTGCGAATTTGACTTTCACA
1 TTGCGAATTTGACTTTCACA
853520 ATACAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGCGAATTTGACTTTCACA
Found at i:853528 original size:20 final size:20
Alignment explanation
Indices: 853485--853528 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
853475 TCGCGTTGCG
* * * *
853485 AATTTGTCTTTCACATTGCG
1 AATTTGACTTTCACAATACA
853505 AATTTGACTTTCACAATACA
1 AATTTGACTTTCACAATACA
853525 AATT
1 AATT
853529 ACCTATATAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (20 bp):
AATTTGACTTTCACAATACA
Found at i:853589 original size:55 final size:51
Alignment explanation
Indices: 853525--853658 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 51
853515 TCACAATACA
853525 AATTACCTATATAGGTAATTAACTATTCTTGTTGCGAATTTCA-TTTCGCAACGCT
1 AATTACCTATATAGGTAATTAACTATTC-----GCGAATTTCATTTTCGCAACGCT
* ** * * *
853580 AATTACCTATATAGGTAATT--CGAAACGCGAATTTCATTTTTGTAACTCT
1 AATTACCTATATAGGTAATTAACTATTCGCGAATTTCATTTTCGCAACGCT
853629 AATTACCTATATAGGTAATTAACTATTCGC
1 AATTACCTATATAGGTAATTAACTATTCGC
853659 ATTGCGATTT
Statistics
Matches: 67, Mismatches: 9, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
48 10 0.15
49 29 0.43
51 5 0.07
53 3 0.04
55 20 0.30
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (51 bp):
AATTACCTATATAGGTAATTAACTATTCGCGAATTTCATTTTCGCAACGCT
Found at i:853612 original size:180 final size:181
Alignment explanation
Indices: 853344--853670 Score: 532
Period size: 180 Copynumber: 1.8 Consensus size: 181
853334 TCGAAACGCT
* *
853344 AATTACCTATATAGGTAATTAACTATTCGCGTTACTAATTTCATTTTCGCAACGCTAATTATCTA
1 AATTACCTATATAGGTAATTAACTATTCGCGTTACGAATTTCATTTTCGCAACGCTAATTACCTA
*
853409 TATAGGTAATTCGTAACGCGAA-TTCTATTTTCGCAACGCTAATTACCTATATAGGTAATTAACT
66 TATAGGTAATTCGAAACGCGAATTTC-ATTTTCGCAACGCTAATTACCTATATAGGTAATTAACT
*
853473 ATTCGCGTTGCGAATTTGTCTTTCACATTGCGAATTTGACTTTCACAATACA
130 ATTCGCATTGCGAATTTGTCTTTCACATTGCGAATTTGACTTTCACAATACA
** *
853525 AATTACCTATATAGGTAATTAACTATTCTTGTTGCGAATTTCA-TTTCGCAACGCTAATTACCTA
1 AATTACCTATATAGGTAATTAACTATTCGCGTTACGAATTTCATTTTCGCAACGCTAATTACCTA
* * *
853589 TATAGGTAATTCGAAACGCGAATTTCATTTTTGTAACTCTAATTACCTATATAGGTAATTAACTA
66 TATAGGTAATTCGAAACGCGAATTTCATTTTCGCAACGCTAATTACCTATATAGGTAATTAACTA
*
853654 TTCGCATTGCGATTTTG
131 TTCGCATTGCGAATTTG
853671 GAACCTGTGT
Statistics
Matches: 134, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
180 92 0.69
181 42 0.31
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.39
Consensus pattern (181 bp):
AATTACCTATATAGGTAATTAACTATTCGCGTTACGAATTTCATTTTCGCAACGCTAATTACCTA
TATAGGTAATTCGAAACGCGAATTTCATTTTCGCAACGCTAATTACCTATATAGGTAATTAACTA
TTCGCATTGCGAATTTGTCTTTCACATTGCGAATTTGACTTTCACAATACA
Found at i:853670 original size:49 final size:50
Alignment explanation
Indices: 853572--853669 Score: 103
Period size: 49 Copynumber: 2.0 Consensus size: 50
853562 ATTTCATTTC
** *
853572 GCAACGCTAATTACCTATATAGGTAATTCGAA--ACGCGAATTTC-ATTTTT
1 GCAACGCTAATTACCTATATAGGTAATT--AACTATTCGAATTGCGATTTTT
* * *
853621 GTAACTCTAATTACCTATATAGGTAATTAACTATTCGCATTGCGATTTT
1 GCAACGCTAATTACCTATATAGGTAATTAACTATTCGAATTGCGATTTT
853670 GGAACCTGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
47 2 0.05
49 33 0.82
50 5 0.12
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (50 bp):
GCAACGCTAATTACCTATATAGGTAATTAACTATTCGAATTGCGATTTTT
Found at i:857063 original size:14 final size:15
Alignment explanation
Indices: 857037--857066 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
857027 AATCAACGAC
857037 AAAAATTATTAATTA
1 AAAAATTATTAATTA
857052 AAAAATTA-TAATTA
1 AAAAATTATTAATTA
857066 A
1 A
857067 TTTATTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAATTATTAATTA
Found at i:857588 original size:29 final size:29
Alignment explanation
Indices: 857546--857603 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
857536 TTCCCAACCA
*
857546 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACGCCCAGCGACCTCC
*
857575 TAGGTCGCCATGCACGCCCGGCGACCTCC
1 TAGGTCGCCATGCACGCCCAGCGACCTCC
857604 CGGGACTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.16, C:0.45, G:0.24, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACCTCC
Found at i:857614 original size:29 final size:29
Alignment explanation
Indices: 857551--857615 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
857541 AACCATAGGT
* * *
857551 CGCCATGCACTCCCAGCGACCTCCTAGGT
1 CGCCATGCACGCCCAGCGACCTCCCAGGA
* *
857580 CGCCATGCACGCCCGGCGACCTCCCGGGA
1 CGCCATGCACGCCCAGCGACCTCCCAGGA
*
857609 CTCCATG
1 CGCCATG
857616 GCGACCTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.15, C:0.46, G:0.25, T:0.14
Consensus pattern (29 bp):
CGCCATGCACGCCCAGCGACCTCCCAGGA
Found at i:857637 original size:15 final size:15
Alignment explanation
Indices: 857617--857648 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
857607 GACTCCATGG
857617 CGACCTACACATGCA
1 CGACCTACACATGCA
857632 CGACCTACACATGCA
1 CGACCTACACATGCA
857647 CG
1 CG
857649 CCCGGCGACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.31, C:0.41, G:0.16, T:0.12
Consensus pattern (15 bp):
CGACCTACACATGCA
Found at i:859740 original size:21 final size:22
Alignment explanation
Indices: 859705--859753 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
859695 AATTAAATGC
859705 TATTTTTATTGAATAAAAATAA
1 TATTTTTATTGAATAAAAATAA
* * *
859727 TATTTTT-TTTAATAAATATAT
1 TATTTTTATTGAATAAAAATAA
859748 TATTTT
1 TATTTT
859754 GGATCAGGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTTATTGAATAAAAATAA
Found at i:885759 original size:23 final size:21
Alignment explanation
Indices: 885707--885768 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
885697 TTTTGGTGCA
*
885707 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
885727 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
885748 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
885769 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:890679 original size:18 final size:18
Alignment explanation
Indices: 890656--890692 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
890646 GATCTCATGG
890656 TCTCAAACGAATATCGTA
1 TCTCAAACGAATATCGTA
*
890674 TCTCAAACGATTATCGTA
1 TCTCAAACGAATATCGTA
890692 T
1 T
890693 AAGATAATAT
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:0.35, C:0.22, G:0.11, T:0.32
Consensus pattern (18 bp):
TCTCAAACGAATATCGTA
Found at i:891501 original size:43 final size:43
Alignment explanation
Indices: 891443--892135 Score: 895
Period size: 43 Copynumber: 16.1 Consensus size: 43
891433 GCAAAAATGA
* * * * *
891443 TAAGGTCTTACCCTTGCACATAGTAAAAGAGCCT-GGGAAACGG
1 TAAGG-CTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * * * * *
891486 TAAAGTCTTACCCTTGCACATAGCAAATGAGCATGGGGAAATTG
1 T-AAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * *
891530 TAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACTA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* *
891573 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * *
891616 TAAGGCTTACTCTTACACACAACAAAGGAACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* *
891659 TAAGGCTTACTCTTGCACACAGCAAAGGAACATGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
*
891702 TAAGGTTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
*
891745 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGATACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * * *
891788 TAAGGATTACCTTTGCACATAGCAAAGGAACATGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * * *
891831 TAAGACTTACCCTTGTACAAAGTAAAGGAACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * *
891874 TAAGGCTTACCCTTGCACACAGCAAATGAACCAGGGGAAACTA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
** *
891917 TAAGGCTTACCCTTGCATGCAGCAAAAGAACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * * *
891960 TAAGGCTTACCCTTGCACACAGTAAAGGAGCCTGGGGAAATTA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * *
892003 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGGAAACTA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
* * * *
892046 TAAGGTTTACCCTT-CAACACAACAAATGAACCTAGGGAAACTG
1 TAAGGCTTACCCTTGC-ACACAGCAAAGGAACCTGGGGAAACTG
* *
892089 TAAGGCTTACCCTTGCACACAGTAAAAGAACCTGGGGAAACTG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
892132 TAAG
1 TAAG
892136 ACAACAAAGG
Statistics
Matches: 572, Mismatches: 74, Indels: 8
0.87 0.11 0.01
Matches are distributed among these distances:
42 1 0.00
43 559 0.98
44 12 0.02
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.19
Consensus pattern (43 bp):
TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTG
Found at i:891652 original size:129 final size:129
Alignment explanation
Indices: 891443--892391 Score: 1128
Period size: 129 Copynumber: 7.5 Consensus size: 129
891433 GCAAAAATGA
* * * * * * *
891443 TAAGGTCTTACCCTTGCACATAGTAAAAGAGCCT-GGGAAACGGTAAAGTCTTACCCTTGCACAT
1 TAAGG-CTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGT-AAGGCTTACCCTTGCACAC
* * * * *
891507 AGCAAATGAGCATGGGGAAATTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACT
64 AACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACT
*
891572 A
129 G
* * * *
891573 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACTCTTACACACAA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
* * *
891638 CAAAGGAACCTGGGGAAACTGTAAGGCTTACTCTTGCACACAGCAAAGGAACATGGGGAAACTG
66 CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACTG
* *
891702 TAAGGTTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
* * * * * *
891767 CAAAGGAACCTGGGGATACTGTAAGGATTACCTTTGCACATAGCAAAGGAACATGGGGAAACTG
66 CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACTG
* * * * *
891831 TAAGACTTACCCTTGTACAAAGTAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
* * * ** * * *
891896 CAAATGAACCAGGGGAAACTATAAGGCTTACCCTTGCATGCAGCAAAAGAACCTGGGGAAACTG
66 CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACTG
* * * *
891960 TAAGGCTTACCCTTGCACACAGTAAAGGAGCCTGGGGAAATTATAAGGCTTACCCTTGCACACAA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
* * * * * *
892025 CAAAGGAACCTGAGGAAACTATAAGGTTTACCCTT-CAACACAACAAATGAACCT-AGGGAAACT
66 CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGC-ACACAGCAAAGGAACTTGA-GGAAACT
892088 G
129 G
* *
892089 TAAGGCTTACCCTTGCACACAGTAAAAGAACCTGGGGAAACTGT-A-----A-----G---ACAA
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
* *
892140 CAAAGG-ACTTGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAA-TATGAGGAAACTG
66 CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACT-TGAGGAAACTG
* * * *
892203 TAAGGCTTACCCTTGCACACAACAAAAGAACCTGAGGAAACTGTAAGGCTTACCCTTGCACACAG
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
* * *
892268 CAAAGGAACCTGGGGAAACTGTAAGGCTTATCCTTGCACACAGTAAAGGAAACTAG-GGAAACTG
66 CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGG-AACTTGAGGAAACTG
*
892332 TAAGGCTTACCCTTGTACACAGCAAAGGAACCTGGGGAAACTGTAAGGACTTACCCTTGC
1 TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGG-CTTACCCTTGC
892392 GCATAGCAGA
Statistics
Matches: 707, Mismatches: 88, Indels: 48
0.84 0.10 0.06
Matches are distributed among these distances:
114 85 0.12
115 13 0.02
118 1 0.00
120 1 0.00
123 1 0.00
125 1 0.00
128 11 0.02
129 566 0.80
130 27 0.04
131 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (129 bp):
TAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAA
CAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACTG
Found at i:892203 original size:43 final size:43
Alignment explanation
Indices: 892154--892391 Score: 361
Period size: 43 Copynumber: 5.5 Consensus size: 43
892144 GGACTTGGGA
**
892154 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAATATGAGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGAGG
* *
892197 AAACTGTAAGGCTTACCCTTGCACACAACAAAAGAACCTGAGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGAGG
*
892240 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGAGG
* * *
892283 AAACTGTAAGGCTTATCCTTGCACACAGTAAAGGAAACT-AGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGA-GG
* *
892326 AAACTGTAAGGCTTACCCTTGTACACAGCAAAGGAACCTGGGG
1 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGAGG
892369 AAACTGTAAGGACTTACCCTTGC
1 AAACTGTAAGG-CTTACCCTTGC
892392 GCATAGCAGA
Statistics
Matches: 175, Mismatches: 17, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
43 165 0.94
44 10 0.06
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.19
Consensus pattern (43 bp):
AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGAGG
Found at i:892289 original size:157 final size:157
Alignment explanation
Indices: 892003--892292 Score: 476
Period size: 157 Copynumber: 1.8 Consensus size: 157
891993 GGGGAAATTA
* *
892003 TAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGGAAACTATAAGGTTTACCCTTCAACACAA
1 TAAGGCTTACCCTTGCACACAACAAAGGAACATGAGGAAACTATAAGGCTTACCCTTCAACACAA
* *
892068 CAAATGAACCTAGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAACCTGGGGAAACTGT
66 CAAAAGAACCTAGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGAACCTGGGGAAACTGT
892133 AAGACAACAAAGGACTTGGGAAAACTG
131 AAGACAACAAAGGACTTGGGAAAACTG
* * *
892160 TAAGGCTTACCCTTGCACACAGCAAAGGAATATGAGGAAACTGTAAGGCTTACCCTTGC-ACACA
1 TAAGGCTTACCCTTGCACACAACAAAGGAACATGAGGAAACTATAAGGCTTACCCTT-CAACACA
*
892224 ACAAAAGAACCT-GAGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGAAACT
65 ACAAAAGAACCTAG-GGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGAACCTGGGGAAACT
892288 GTAAG
129 GTAAG
892293 GCTTATCCTT
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
156 1 0.01
157 121 0.98
158 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (157 bp):
TAAGGCTTACCCTTGCACACAACAAAGGAACATGAGGAAACTATAAGGCTTACCCTTCAACACAA
CAAAAGAACCTAGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAAGAACCTGGGGAAACTGT
AAGACAACAAAGGACTTGGGAAAACTG
Found at i:892297 original size:200 final size:200
Alignment explanation
Indices: 891519--892335 Score: 798
Period size: 215 Copynumber: 3.9 Consensus size: 200
891509 CAAATGAGCA
* * *
891519 TGGGGAAATTGTAAGGCTTACCCTTGCACACAGCAAAGGAACTTGAGGAAACTATAAGGCTTACC
1 TGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACATGAGGAAACTATAAGGCTTACC
* * *
891584 CTTGCACACAACAAAGGAACCTGGGGAAACTATAAGGCTTACTCTT-ACACACAACAAAGGAACC
66 CTTGCACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTCA-ACACAACAAAGGAACC
* * * * *
891648 TGGGGAAACTGTAAGGCTTACTCTTGCACACAG-CAAAGGAACATGGGGAAACTGTAAGGTTTAC
130 TAGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAAAC-TAGGGAAACTGT-A-----A-
*
891712 CCTTGCACACAGCAAAGGAACC
187 ----G-ACA-A-CAAAGG-ACT
* * * * * *
891734 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGATACTGTAAGGATTACC
1 TGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACATGAGGAAACTATAAGGCTTACC
* * * * * * * * ** *
891799 TTTGCACATAGCAAAGGAACATGGGGAAACTGTAAGACTTACCCTTGTACA-AAGTAAAGGAACC
66 CTTGCACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTCAACACAA-CAAAGGAACC
* * * * *
891863 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAATG-AACCAGGGGAAACTATAAGGCTTAC
130 TAGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAAACTA-GGGAAACTGTAA-G---A-
* *
891927 CCTTGCATGCAGCAAAAGAACC
189 -----CA---A-C-AAAGGACT
* * * * * *
891949 TGGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAGGAGCCTGGGGAAATTATAAGGCTTACC
1 TGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACATGAGGAAACTATAAGGCTTACC
* * *
892014 CTTGCACACAACAAAGGAACCTGAGGAAACTATAAGGTTTACCCTTCAACACAACAAATGAACCT
66 CTTGCACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTCAACACAACAAAGGAACCT
* *
892079 AGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAACCTGGGGAAACTGTAAGACAACAAA
131 AGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAAACTAGGGAAACTGTAAGACAACAAA
892144 GGACT
196 GGACT
* *
892149 TGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAATATGAGGAAACTGTAAGGCTTACC
1 TGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACATGAGGAAACTATAAGGCTTACC
* *
892214 CTTGCACACAACAAAAGAACCTGAGGAAACTGTAAGGCTTACCCTTGC-ACACAGCAAAGGAACC
66 CTTGCACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTT-CAACACAACAAAGGAACC
* * *
892278 TGGGGAAACTGTAAGGCTTATCCTTGCACACAGTAAAGGAAACTAGGGAAACTGTAAG
130 TAGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAAACTAGGGAAACTGTAAG
892336 GCTTACCCTT
Statistics
Matches: 515, Mismatches: 69, Indels: 51
0.81 0.11 0.08
Matches are distributed among these distances:
200 173 0.34
201 2 0.00
202 1 0.00
205 3 0.01
207 1 0.00
209 1 0.00
211 1 0.00
213 2 0.00
214 4 0.01
215 316 0.61
216 11 0.02
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (200 bp):
TGGGAAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACATGAGGAAACTATAAGGCTTACC
CTTGCACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTCAACACAACAAAGGAACCT
AGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAAGAAACTAGGGAAACTGTAAGACAACAAA
GGACT
Found at i:892345 original size:243 final size:243
Alignment explanation
Indices: 891911--892378 Score: 686
Period size: 243 Copynumber: 1.9 Consensus size: 243
891901 GAACCAGGGG
** * *
891911 AAACTATAAGGCTTACCCTTGCATGCAGCAAAAGAACCTGGGGAAACTGTAAGGCTTACCCTTGC
1 AAACTATAAGGCTTACCCTTGCACACAGCAAAAGAACATGAGGAAACTGTAAGGCTTACCCTTGC
** * * * *
891976 ACACAGTAAAGGAGCCTGGGGAAATTATAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGGA
66 ACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGGA
* * *
892041 AACTATAAGGTTTACCCTTCAACACAACAAATGAACCTAGGGAAACTGTAAGGCTTACCCTTGCA
131 AACTATAAGGCTTACCCTTCAACACAACAAAGGAAACTAGGGAAACTGTAAGGCTTACCCTTGCA
*
892106 CACAGTAAAAGAACCTGGGGAAACTGTAAGACAACAAAGGACTTGGGA
196 CACAGCAAAAGAACCTGGGGAAACTGTAAGACAACAAAGGACTTGGGA
* * *
892154 AAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAATATGAGGAAACTGTAAGGCTTACCCTTGC
1 AAACTATAAGGCTTACCCTTGCACACAGCAAAAGAACATGAGGAAACTGTAAGGCTTACCCTTGC
* * *
892219 ACACAACAAAAGAACCTGAGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACCTGGGGA
66 ACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGGA
* * ** *
892284 AACTGTAAGGCTTATCCTTGC-ACACAGTAAAGGAAACTAGGGAAACTGTAAGGCTTACCCTTGT
131 AACTATAAGGCTTACCCTT-CAACACAACAAAGGAAACTAGGGAAACTGTAAGGCTTACCCTTGC
*
892348 ACACAGCAAAGGAACCTGGGGAAACTGTAAG
195 ACACAGCAAAAGAACCTGGGGAAACTGTAAG
892379 GACTTACCCT
Statistics
Matches: 198, Mismatches: 26, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
243 197 0.99
244 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (243 bp):
AAACTATAAGGCTTACCCTTGCACACAGCAAAAGAACATGAGGAAACTGTAAGGCTTACCCTTGC
ACACAACAAAAGAACCTGAGGAAACTATAAGGCTTACCCTTGCACACAACAAAGGAACCTGAGGA
AACTATAAGGCTTACCCTTCAACACAACAAAGGAAACTAGGGAAACTGTAAGGCTTACCCTTGCA
CACAGCAAAAGAACCTGGGGAAACTGTAAGACAACAAAGGACTTGGGA
Found at i:899931 original size:21 final size:19
Alignment explanation
Indices: 899903--899958 Score: 67
Period size: 21 Copynumber: 2.8 Consensus size: 19
899893 AAAACTTCTA
899903 CAAGAGTTTTGAAACTTTC
1 CAAGAGTTTTGAAACTTTC
* * *
899922 CAAGACAGTTTCGATACTTTT
1 CAAG--AGTTTTGAAACTTTC
899943 CAAGAGTTTTGAAACT
1 CAAGAGTTTTGAAACT
899959 AAAGTTTTGA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 14 0.47
21 16 0.53
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (19 bp):
CAAGAGTTTTGAAACTTTC
Found at i:904550 original size:23 final size:23
Alignment explanation
Indices: 904520--904601 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
904510 TGAAAAACGT
904520 GAGATAAACGTGCCACAAAGGCA
1 GAGATAAACGTGCCACAAAGGCA
*
904543 GAGATAAACGTGCCACAAAGACA
1 GAGATAAACGTGCCACAAAGGCA
** * * *
904566 GAGATAAACGTGTAACACATGAA
1 GAGATAAACGTGCCACAAAGGCA
904589 GAGATAAACGTGC
1 GAGATAAACGTGC
904602 AACACAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.12
Consensus pattern (23 bp):
GAGATAAACGTGCCACAAAGGCA
Found at i:904883 original size:38 final size:39
Alignment explanation
Indices: 904832--904946 Score: 130
Period size: 38 Copynumber: 2.9 Consensus size: 39
904822 TATTATTTTT
*
904832 TATAATATATTCGA-TTAAACTGAAAATATTATAAAAA-A
1 TATAATATTTTCGAGTTAAACT-AAAATATTATAAAAATA
* * *
904870 TATAATGTTTTCGATTGTTAATCTAAAATAGTATAAAAATA
1 TATAATATTTTCGA--GTTAAACTAAAATATTATAAAAATA
904911 TATAATATTTTC-AGTTAAACTAAAAATATTA-AAAAA
1 TATAATATTTTCGAGTTAAACT-AAAATATTATAAAAA
904947 GCTAACATTT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
38 24 0.37
39 8 0.12
40 15 0.23
41 18 0.28
ACGTcount: A:0.51, C:0.05, G:0.06, T:0.37
Consensus pattern (39 bp):
TATAATATTTTCGAGTTAAACTAAAATATTATAAAAATA
Found at i:907240 original size:9 final size:9
Alignment explanation
Indices: 907226--907251 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
907216 TAGCTCGGAT
907226 GCAGGAGAA
1 GCAGGAGAA
907235 GCAGGAGAA
1 GCAGGAGAA
907244 GCAGGAGA
1 GCAGGAGA
907252 GATCAGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.46, T:0.00
Consensus pattern (9 bp):
GCAGGAGAA
Found at i:915284 original size:20 final size:20
Alignment explanation
Indices: 915259--915298 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
915249 AGAAGTTCGT
915259 TTGGAGGAAATTAGTGCCTC
1 TTGGAGGAAATTAGTGCCTC
**
915279 TTGGAGGGGATTAGTGCCTC
1 TTGGAGGAAATTAGTGCCTC
915299 CTAGAGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.15, G:0.35, T:0.30
Consensus pattern (20 bp):
TTGGAGGAAATTAGTGCCTC
Found at i:917176 original size:3 final size:3
Alignment explanation
Indices: 917168--917234 Score: 125
Period size: 3 Copynumber: 22.0 Consensus size: 3
917158 CTTTCTTTCT
917168 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
917216 TTA TTTA TTA TTA TTA TTA
1 TTA -TTA TTA TTA TTA TTA
917235 AGTTTGAACA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 60 0.95
4 3 0.05
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:925520 original size:12 final size:12
Alignment explanation
Indices: 925503--925533 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
925493 TTGTCAGTGA
925503 TTATTATTTTTC
1 TTATTATTTTTC
925515 TTATTATTTTTC
1 TTATTATTTTTC
*
925527 GTATTAT
1 TTATTAT
925534 GTCTTTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.19, C:0.06, G:0.03, T:0.71
Consensus pattern (12 bp):
TTATTATTTTTC
Found at i:926503 original size:22 final size:21
Alignment explanation
Indices: 926476--926517 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
926466 CAGAAATTCA
926476 AAAATTTGACTAGACTCGACTC
1 AAAATTTGA-TAGACTCGACTC
* *
926498 AAAATTTTATATACTCGACT
1 AAAATTTGATAGACTCGACT
926518 ACATACATCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AAAATTTGATAGACTCGACTC
Found at i:934844 original size:21 final size:21
Alignment explanation
Indices: 934776--934844 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
934766 TCGGGTCTGT
934776 ATCGAATCTCGATTTGAGTAA
1 ATCGAATCTCGATTTGAGTAA
** *
934797 ATCGATTAAATTGATTT-AGGT-A
1 ATCGA--ATCTCGATTTGA-GTAA
934819 ATCGAATCTCGATTTGAGTAA
1 ATCGAATCTCGATTTGAGTAA
934840 ATCGA
1 ATCGA
934845 TTAAATACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
20 9 0.24
21 12 0.32
22 7 0.19
23 9 0.24
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (21 bp):
ATCGAATCTCGATTTGAGTAA
Found at i:935930 original size:30 final size:31
Alignment explanation
Indices: 935874--935951 Score: 113
Period size: 30 Copynumber: 2.5 Consensus size: 31
935864 GCCGATTGAT
* *
935874 TTTCGGGTCGGGTCAAAATCGGATCGGCTGA
1 TTTCGGGTCGGGTCAATATCGAATCGGCTGA
*
935905 TTTCGGGTC-GGTCAATATCGAATCGGTTGA
1 TTTCGGGTCGGGTCAATATCGAATCGGCTGA
*
935935 TTTCGGTTCGGGTCAAT
1 TTTCGGGTCGGGTCAAT
935952 CTTTAGATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
30 26 0.62
31 16 0.38
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.32
Consensus pattern (31 bp):
TTTCGGGTCGGGTCAATATCGAATCGGCTGA
Found at i:936065 original size:46 final size:46
Alignment explanation
Indices: 935929--936067 Score: 136
Period size: 46 Copynumber: 3.0 Consensus size: 46
935919 ATATCGAATC
* * * *** *
935929 GGTTGATTTCGGTTCGGGTCAATCTTTAGATTTTTGGGTCAATTCT
1 GGTTGGTTTCGGTTCGGATCAACCTTTAGATTTTCAAGTCAATTCG
* * * * *
935975 GGTTAGTTTCTGTTCAGATAAACCTTTAAATTTTCGAA-TCAATTCG
1 GGTTGGTTTCGGTTCGGATCAACCTTTAGATTTTC-AAGTCAATTCG
* *
936021 GGTTGGTTTAGGTTCGGATCAACCTTTAGATTTTCAAGTTAATTCG
1 GGTTGGTTTCGGTTCGGATCAACCTTTAGATTTTCAAGTCAATTCG
936067 G
1 G
936068 ATTGTTACTG
Statistics
Matches: 72, Mismatches: 19, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
45 2 0.03
46 70 0.97
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (46 bp):
GGTTGGTTTCGGTTCGGATCAACCTTTAGATTTTCAAGTCAATTCG
Found at i:938090 original size:20 final size:21
Alignment explanation
Indices: 938045--938091 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
938035 TATCACAATA
*
938045 TGAATTATTTAAAAAAATCAT
1 TGAATTATTTAAAAAAATAAT
938066 T-AATTA-TTAAAATAAA-AAT
1 TGAATTATTTAAAA-AAATAAT
938085 TGAATTA
1 TGAATTA
938092 ACAGTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 9 0.39
20 13 0.57
21 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (21 bp):
TGAATTATTTAAAAAAATAAT
Found at i:938758 original size:20 final size:20
Alignment explanation
Indices: 938730--938772 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
938720 AACACAACTA
* *
938730 TTCGTAACGCGAATTTCATT
1 TTCGAAACGCGAATTTCAAT
*
938750 TTCGAAACGTGAATTTCAAT
1 TTCGAAACGCGAATTTCAAT
938770 TTC
1 TTC
938773 ACAATTCAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (20 bp):
TTCGAAACGCGAATTTCAAT
Found at i:945260 original size:55 final size:55
Alignment explanation
Indices: 945153--945792 Score: 410
Period size: 55 Copynumber: 11.7 Consensus size: 55
945143 ACGGGTTCGT
* * * * *
945153 TCCCTCTTTCTTTAGGGAGTAT-AGAACTCAAAC-GTCTTCAACAATCGTGTCTGC
1 TCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGC
*
945207 TCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCATGTCTGC
1 TCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGC
* * * *
945262 TCTCTA-TTCGTTCAGAGAGTATAAGACTCGAATAATCTTCAACAACCGAGTCTGC
1 TCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGC
* * * *
945317 TCCCTATTCCTTCAGGGAGTAT-AGAACTCGAATAATCTTCAACAATCGTGT-TGT
1 TCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGC
* *
945371 TCCCTA-TTCATTCAGAGAGTATAAGACTCGACCAATCTTCAATAATCGTGTCTGC
1 TCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGC
* * ** * *
945426 CCCCTATTTTTTCAGAGAGTATAAGACTCGAACAATCTTCTTC-CTACAG-GTTTGC
1 TCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-C-GTGTCTGC
* * * * * * ** *
945481 TCCCTCTTTCTTTAGGGAGTAT-GGAACTCAAATAATCTTCTGCGAAT-GGGT-TCGC
1 TCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAAC-AATCGTGTCT-GC
* * * * * *
945536 TTCCTCTTTTTTCAG-GAAGTAT-AGAACTCGAATAATCTTCGACGATCGTGTCTGC
1 TCCCTATTTCTTCAGAG-AGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGC
** *
945591 T-CCTA-TTCGTTCAGAGAGTATAAGACTCGAACAATCTTCTTC-CTACAG-GT-TCGC
1 TCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAAT-C-GTGTCT-GC
* * * * * * * ** *
945645 TCCCTCTTTCTTTAGGGAGTAT-GGAACTCAAATAATATTCTGCGAAT-GGGT-TCGC
1 TCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAAC-AATCGTGTCT-GC
* * * * * *
945700 TTCCTCTTTTTTCAGA-AGTAT-AGAACTCGAATAATCTTCGACGATCGTGTCTGC
1 TCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTCAACAATCGTGTCTGC
* *
945754 TCCCTA-TTCGTTCAGACAGTATAAGACTCGACCAATCTT
1 TCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTT
945793 TAATAATCAT
Statistics
Matches: 469, Mismatches: 81, Indels: 71
0.76 0.13 0.11
Matches are distributed among these distances:
53 10 0.02
54 152 0.32
55 294 0.63
56 11 0.02
57 2 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (55 bp):
TCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGC
Found at i:945409 original size:164 final size:164
Alignment explanation
Indices: 945153--945792 Score: 730
Period size: 164 Copynumber: 3.9 Consensus size: 164
945143 ACGGGTTCGT
** * * *
945153 TCCCTCTTTCTTTAGGGAGTATAGAACTCAAA-CGTCTTCAAC-AAT-CGTGTCTGCTCCCTATT
1 TCCCTCTTTCTTTAGGGAGTATAGAACTCAAATAATCTTCAACGAATGGGT-TC-GCTTCCTCTT
* * *
945215 TCTTCAGAGAGTATA-AGACTCGAACAATCTTCAACAATCATGTCTGCTCTCTATTCGTTCAGAG
64 TTTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCGTTCAGAG
* ** * *
945279 AGTATAAGACTCGAATAATCTTC-AACAACCGAGTCTGC
128 AGTATAAGACTCGAACAATCTTCTTCCTACAG-GT-TGC
* * * * *
945317 TCCCTATTCCTTCAGGGAGTATAGAACTCGAATAATCTTCAAC-AATCGTGTT-G-TTCC-CTAT
1 TCCCTCTTTCTTTAGGGAGTATAGAACTCAAATAATCTTCAACGAAT-GGGTTCGCTTCCTCT-T
* * * * **
945378 TCATTCAGAGAGTATA-AGACTCGACCAATCTTCAATAATCGTGTCTGCCCCCTATTTTTTCAGA
64 T-TTTCAGAGAGTATAGA-ACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCGTTCAGA
945442 GAGTATAAGACTCGAACAATCTTCTTCCTACAGGTTTGC
127 GAGTATAAGACTCGAACAATCTTCTTCCTACAGG-TTGC
* **
945481 TCCCTCTTTCTTTAGGGAGTATGGAACTCAAATAATCTTCTGCGAATGGGTTCGCTTCCTCTTTT
1 TCCCTCTTTCTTTAGGGAGTATAGAACTCAAATAATCTTCAACGAATGGGTTCGCTTCCTCTTTT
* * *
945546 TTCAG-GAAGTATAGAACTCGAATAATCTTCGACGATCGTGTCTGCT-CCTATTCGTTCAGAGAG
66 TTCAGAG-AGTATAGAACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCGTTCAGAGAG
945609 TATAAGACTCGAACAATCTTCTTCCTACAGGTTCGC
130 TATAAGACTCGAACAATCTTCTTCCTACAGGTT-GC
* * **
945645 TCCCTCTTTCTTTAGGGAGTATGGAACTCAAATAATATTCTGCGAATGGGTTCGCTTCCTCTTTT
1 TCCCTCTTTCTTTAGGGAGTATAGAACTCAAATAATCTTCAACGAATGGGTTCGCTTCCTCTTTT
* * * *
945710 TTCAGA-AGTATAGAACTCGAATAATCTTCGACGATCGTGTCTGCTCCCTATTCGTTCAGACAGT
66 TTCAGAGAGTATAGAACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCGTTCAGAGAGT
*
945774 ATAAGACTCGACCAATCTT
131 ATAAGACTCGAACAATCTT
945793 TAATAATCAT
Statistics
Matches: 418, Mismatches: 42, Indels: 32
0.85 0.09 0.07
Matches are distributed among these distances:
162 1 0.00
163 46 0.11
164 303 0.72
165 56 0.13
166 8 0.02
167 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (164 bp):
TCCCTCTTTCTTTAGGGAGTATAGAACTCAAATAATCTTCAACGAATGGGTTCGCTTCCTCTTTT
TTCAGAGAGTATAGAACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCGTTCAGAGAGT
ATAAGACTCGAACAATCTTCTTCCTACAGGTTGC
Found at i:945517 original size:219 final size:219
Alignment explanation
Indices: 945187--945629 Score: 540
Period size: 219 Copynumber: 2.0 Consensus size: 219
945177 AACTCAAACG
*
945187 TCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
1 TCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
* *
945252 TCATGTCTGCTCTCTATTCGTTCAGAGAGTATAAGACTCGAATAATCTTCAAC-AACCGAG-TCT
66 TCAGGTCTGCTCTCTATTCGTTCAGAGAGTATAAGACTCAAATAATCTTCAACGAA-CGAGTTC-
* *
945315 GCTCCCTATTCCTTCAGGGAGTATAGAACTCGAATAATCTTCAACAATCGTGT-TGTTCCCTATT
129 GCTCCCTATTCCTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGTCTGCT-CCTATT
*
945379 CATTCAGAGAGTATAAGACTCGACCAA
193 CATTCAGAGAGTATAAGACTCGAACAA
* * ** *
945406 TCTTCAATAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACTCGAACAATCTTCTTC-C
1 TCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
* * * * ** * *
945470 TACAGGTTTGCTCCCTCT-TTC-TTTAGGGAGTAT-GGAACTCAAATAATCTTCTGCGAATGGGT
66 T-CAGGTCTGCT--CTCTATTCGTTCAGAGAGTATAAG-ACTCAAATAATCTTCAACGAACGAGT
* * ** * *
945532 TCGCTTCCTCTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCGACGATCGTGTCTGCTCCTAT
127 TCGCTCCCTATTCCTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGTCTGCTCCTAT
*
945597 TCGTTCAGAGAGTATAAGACTCGAACAA
192 TCATTCAGAGAGTATAAGACTCGAACAA
945625 TCTTC
1 TCTTC
945630 TTCCTACAGG
Statistics
Matches: 191, Mismatches: 26, Indels: 14
0.83 0.11 0.06
Matches are distributed among these distances:
218 2 0.01
219 175 0.92
220 10 0.05
221 4 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (219 bp):
TCTTCAACAATCGTGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAA
TCAGGTCTGCTCTCTATTCGTTCAGAGAGTATAAGACTCAAATAATCTTCAACGAACGAGTTCGC
TCCCTATTCCTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGTCTGCTCCTATTCAT
TCAGAGAGTATAAGACTCGAACAA
Found at i:945708 original size:219 final size:218
Alignment explanation
Indices: 945187--945738 Score: 471
Period size: 219 Copynumber: 2.5 Consensus size: 218
945177 AACTCAAACG
* * * * * **
945187 TCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC-AACA
1 TCTTCAATAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACTCAAACAATATTCTGCCA
* * * ** * ** * *
945251 ATCATG-TCTGCTCTCTATTCGTTCAGAGAGTATA-AGACTCGAATAATCTTCAAC-AACCGAG-
66 A-CAGGTTC-GCTCCCTCTTTTTTCAGA-AGTATAGA-ACTCAAATAATCTTCTGCGAA-TGGGT
* * ** * *
945312 TCTGCTCCCTATTCCTTCAGGGAGTATAGAACTCGAATAATCTTCAACAATCGTGTTGTTCCCTA
126 TC-GCTTCCTCTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGTTGCTCCCTA
*
945377 TTCATTCAGAGAGTATAAGACTCGACCAA
190 TTCATTCAGAGAGTATAAGACTCGAACAA
* * * *
945406 TCTTCAATAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACTCGAACAATCTTCTTCCT
1 TCTTCAATAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACTCAAACAATATTCTGCCA
* * *
945471 ACAGGTTTGCTCCCTCTTTCTTT-AGGGAGTATGGAACTCAAATAATCTTCTGCGAATGGGTTCG
66 ACAGGTTCGCTCCCTCTTT-TTTCA-GAAGTATAGAACTCAAATAATCTTCTGCGAATGGGTTCG
* *
945535 CTTCCTCTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCGACGATCGTGTCTGCT-CCTATTC
129 CTTCCTCTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGT-TGCTCCCTATTC
*
945599 GTTCAGAGAGTATAAGACTCGAACAA
193 ATTCAGAGAGTATAAGACTCGAACAA
* ** * * * * *
945625 TCTTC-TTCCTACAG-GT-TCGCTCCCTCTTTCTTT-AGGGAGTAT-GGAACTCAAATAATATTC
1 TCTTCAATAAT-C-GTGTCT-GCCCCCTATTT-TTTCAGAGAGTATAAG-ACTCAAACAATATTC
* ** * *
945685 TGCGAATGGGTTCGCTTCCTCTTTTTTCAGAAGTATAGAACTCGAATAATCTTC
61 TGCCAACAGGTTCGCTCCCTCTTTTTTCAGAAGTATAGAACTCAAATAATCTTC
945739 GACGATCGTG
Statistics
Matches: 270, Mismatches: 49, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
218 29 0.11
219 223 0.83
220 18 0.07
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (218 bp):
TCTTCAATAATCGTGTCTGCCCCCTATTTTTTCAGAGAGTATAAGACTCAAACAATATTCTGCCA
ACAGGTTCGCTCCCTCTTTTTTCAGAAGTATAGAACTCAAATAATCTTCTGCGAATGGGTTCGCT
TCCTCTTTTTTCAGGAAGTATAGAACTCGAATAATCTTCAACAATCGTGTTGCTCCCTATTCATT
CAGAGAGTATAAGACTCGAACAA
Found at i:946842 original size:10 final size:10
Alignment explanation
Indices: 946827--946891 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
946817 TCTCCTTTTC
946827 ATTTTTCATT
1 ATTTTTCATT
*
946837 ATTTTTTATT
1 ATTTTTCATT
946847 ATTTTT--TT
1 ATTTTTCATT
946855 CATTTTTCATT
1 -ATTTTTCATT
*
946866 -TTTTTTATT
1 ATTTTTCATT
*
946875 TTTTCTTC-TT
1 ATTT-TTCATT
946885 -TTTTTCA
1 ATTTTTCA
946892 AGCAAAATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 13
0.74 0.05 0.21
Matches are distributed among these distances:
8 5 0.11
9 17 0.37
10 20 0.43
11 4 0.09
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (10 bp):
ATTTTTCATT
Found at i:946852 original size:35 final size:35
Alignment explanation
Indices: 946813--946887 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
946803 TTTTTGTTTC
946813 TTTTTCTC-CTTTTCATTTTTCATTATTTTTTATTA
1 TTTTTCTCACTTTTCATTTTT-ATTATTTTTTATTA
* * * * *
946848 TTTTTTTCATTTTTCATTTTTTTTATTTTTTCTTC
1 TTTTTCTCACTTTTCATTTTTATTATTTTTTATTA
946883 TTTTT
1 TTTTT
946888 TTCAAGCAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 23 0.68
36 11 0.32
ACGTcount: A:0.11, C:0.12, G:0.00, T:0.77
Consensus pattern (35 bp):
TTTTTCTCACTTTTCATTTTTATTATTTTTTATTA
Found at i:946859 original size:29 final size:27
Alignment explanation
Indices: 946822--946888 Score: 98
Period size: 29 Copynumber: 2.4 Consensus size: 27
946812 CTTTTTCTCC
946822 TTTTCATTTTTCATTATTTTTTATTATTT
1 TTTTCATTTTTCATT-TTTTTTATT-TTT
946851 TTTTCATTTTTCATTTTTTTTATTTTT
1 TTTTCATTTTTCATTTTTTTTATTTTT
* *
946878 TCTTCTTTTTT
1 TTTTCATTTTT
946889 TCAAGCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 12 0.33
28 9 0.25
29 15 0.42
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTTCATTTTTCATTTTTTTTATTTTT
Found at i:946888 original size:35 final size:36
Alignment explanation
Indices: 946822--946891 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
946812 CTTTTTCTCC
946822 TTTTCATTTTTCATTATTTTTTATTATTTTTTTCAT
1 TTTTCATTTTTCATTATTTTTTATTATTTTTTTCAT
* * *
946858 TTTTCATTTTT-TTTATTTTTTCTTCTTTTTTTCA
1 TTTTCATTTTTCATTATTTTTTATTATTTTTTTCA
946892 AGCAAAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (36 bp):
TTTTCATTTTTCATTATTTTTTATTATTTTTTTCAT
Found at i:960211 original size:40 final size:41
Alignment explanation
Indices: 960099--960221 Score: 108
Period size: 40 Copynumber: 3.0 Consensus size: 41
960089 TTTGATAACA
* * * *
960099 AAAAACACCACAATAGG-TGAGGAGATGTAGCGGCGTTTTTGG
1 AAAAACACCGCAAAAGGTTGA-GATATATAGCGGCGTTTTT-G
* * * *
960141 AATAAACGCCGCAAAATGTCT-ATATCTATAGCGGCGTTTTT-
1 AA-AAACACCGCAAAAGGT-TGAGATATATAGCGGCGTTTTTG
*
960182 AAAAACACCGCAAAAGGTTGAGATATATAGCGACGTTTTT
1 AAAAACACCGCAAAAGGTTGAGATATATAGCGGCGTTTTT
960222 TGGATACAAA
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.02
40 31 0.48
41 2 0.03
42 2 0.03
43 26 0.41
44 1 0.02
45 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.23, T:0.26
Consensus pattern (41 bp):
AAAAACACCGCAAAAGGTTGAGATATATAGCGGCGTTTTTG
Found at i:960256 original size:44 final size:44
Alignment explanation
Indices: 960192--960276 Score: 129
Period size: 44 Copynumber: 1.9 Consensus size: 44
960182 AAAAACACCG
960192 CAAAAGGTTGAGATATATAGCGACGTTTTTTGGATACAAACGTTA
1 CAAAAGGTTGAGATATATAGCGACGTTTTTT-GATACAAACGTTA
*
960237 CAAAAGGTCTG-G-TATATAGCGGCGTTTTTTGATACAAACG
1 CAAAAGGT-TGAGATATATAGCGACGTTTTTTGATACAAACG
960277 ACGCAGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
43 10 0.26
44 17 0.45
45 9 0.24
46 2 0.05
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.31
Consensus pattern (44 bp):
CAAAAGGTTGAGATATATAGCGACGTTTTTTGATACAAACGTTA
Found at i:960413 original size:46 final size:46
Alignment explanation
Indices: 960322--960414 Score: 141
Period size: 46 Copynumber: 2.0 Consensus size: 46
960312 ACATCGCAAA
* **
960322 GGGTTGGTTTCGGTTCGGATCAACCTTTAAATTTTCGGGTCAATTC
1 GGGTTGGTTTAGGTTCGGATCAACCTTTAAATTTTCAAGTCAATTC
* *
960368 GGGTTGGTTTAGGTTCGGATCAACCTTTAGATTTTCAAGTTAATTC
1 GGGTTGGTTTAGGTTCGGATCAACCTTTAAATTTTCAAGTCAATTC
960414 G
1 G
960415 AATTGTTTCT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.40
Consensus pattern (46 bp):
GGGTTGGTTTAGGTTCGGATCAACCTTTAAATTTTCAAGTCAATTC
Found at i:965061 original size:32 final size:33
Alignment explanation
Indices: 964998--965077 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 33
964988 TCGAGCCAGG
964998 TATATATATTTAAATTAAATATATAAATATTATA
1 TATATATATTTAAATTAAATATATAAATATTA-A
* *
965032 TATATAGTTTAATTTAAATTAAATTTATTAATATTATA
1 TATATA---T-ATTTAAATTAAATATATAAATATTA-A
965070 TATATATA
1 TATATATA
965078 ATTATTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
34 7 0.17
35 1 0.03
37 1 0.03
38 31 0.77
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (33 bp):
TATATATATTTAAATTAAATATATAAATATTAA
Found at i:965110 original size:12 final size:12
Alignment explanation
Indices: 965093--965135 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
965083 TTTTAATATT
*
965093 TATCGGGCCAGG
1 TATCGGGCCGGG
965105 TATC-GGCCGGG
1 TATCGGGCCGGG
*
965116 TATTGGGCCGGG
1 TATCGGGCCGGG
965128 TAATCGGG
1 T-ATCGGG
965136 GGGCGGGGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
11 9 0.35
12 12 0.46
13 5 0.19
ACGTcount: A:0.14, C:0.21, G:0.44, T:0.21
Consensus pattern (12 bp):
TATCGGGCCGGG
Found at i:966503 original size:4 final size:4
Alignment explanation
Indices: 966496--966542 Score: 80
Period size: 4 Copynumber: 12.2 Consensus size: 4
966486 ACATATATAC
966496 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A--T ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
966542 A
1 A
966543 CTTATATACC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
4 39 0.95
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
ATGT
Found at i:966549 original size:22 final size:22
Alignment explanation
Indices: 966496--966542 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
966486 ACATATATAC
966496 ATGTATG--TATGTATGTATGT
1 ATGTATGTATATGTATGTATGT
966516 ATGTATGTATATGTATGTATGT
1 ATGTATGTATATGTATGTATGT
966538 ATGTA
1 ATGTA
966543 CTTATATACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 7 0.28
22 18 0.72
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (22 bp):
ATGTATGTATATGTATGTATGT
Found at i:970406 original size:62 final size:62
Alignment explanation
Indices: 970309--970434 Score: 252
Period size: 62 Copynumber: 2.0 Consensus size: 62
970299 AGTCCTCTTA
970309 TATTCCAAAATCCCACATTCATTGAGAAAGAATTCTAAGTTTGAGCAATGGAATTTTTGTAT
1 TATTCCAAAATCCCACATTCATTGAGAAAGAATTCTAAGTTTGAGCAATGGAATTTTTGTAT
970371 TATTCCAAAATCCCACATTCATTGAGAAAGAATTCTAAGTTTGAGCAATGGAATTTTTGTAT
1 TATTCCAAAATCCCACATTCATTGAGAAAGAATTCTAAGTTTGAGCAATGGAATTTTTGTAT
970433 TA
1 TA
970435 ATCACAACTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 64 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (62 bp):
TATTCCAAAATCCCACATTCATTGAGAAAGAATTCTAAGTTTGAGCAATGGAATTTTTGTAT
Found at i:1005093 original size:24 final size:22
Alignment explanation
Indices: 1005040--1005094 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 22
1005030 TAATTTTATG
*
1005040 TTAGGGATAAGTTTATAAAATT
1 TTAGGGATAAGCTTATAAAATT
1005062 TTAAAGGGATACGAGCTTATAAAATT
1 TT--AGGGATA--AGCTTATAAAATT
1005088 TTAGGGA
1 TTAGGGA
1005095 CGGAAATATT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
22 2 0.07
24 12 0.43
26 14 0.50
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.35
Consensus pattern (22 bp):
TTAGGGATAAGCTTATAAAATT
Found at i:1009030 original size:30 final size:28
Alignment explanation
Indices: 1008977--1009032 Score: 78
Period size: 27 Copynumber: 1.9 Consensus size: 28
1008967 TAAACATCAA
1008977 AATATTATTATTTTATATATTTAATATT
1 AATATTATTATTTTATATATTTAATATT
1009005 AATA-TATTATTTTAGTATTATTTTAATA
1 AATATTATTATTTTA-TA-TA-TTTAATA
1009033 AAAAAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 2 0.08
30 7 0.28
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (28 bp):
AATATTATTATTTTATATATTTAATATT
Found at i:1009042 original size:30 final size:27
Alignment explanation
Indices: 1008982--1009043 Score: 70
Period size: 30 Copynumber: 2.2 Consensus size: 27
1008972 ATCAAAATAT
** *
1008982 TATTATTTTATATATTTAATATTAATA
1 TATTATTTTATATATTTAATAAAAAAA
1009009 TATTATTTTAGTATTATTTTAATAAAAAAA
1 TATTATTTTA-TA-TA-TTTAATAAAAAAA
1009039 TATTA
1 TATTA
1009044 GTTATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 10 0.34
28 2 0.07
29 2 0.07
30 15 0.52
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
TATTATTTTATATATTTAATAAAAAAA
Found at i:1009176 original size:27 final size:25
Alignment explanation
Indices: 1009121--1009178 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
1009111 TTATGATACG
* * **
1009121 TAATATATATAAATTTTTATTTTAA
1 TAATATATATAAATTATTAATGAAA
1009146 TAATATATAATAAATTATTAATGAAA
1 TAATATAT-ATAAATTATTAATGAAA
1009172 TTAATAT
1 -TAATAT
1009179 TATTTATTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 8 0.30
26 13 0.48
27 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
TAATATATATAAATTATTAATGAAA
Found at i:1013384 original size:44 final size:44
Alignment explanation
Indices: 1013321--1013416 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
1013311 ACATAGGTTG
* *
1013321 TTGCTTCATCTTTTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
1 TTGCTTCAACTTCTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
* *
1013365 TTGCTTCAACTTCTTCCTCTTTCTTGGGTAGTTACCATGAGTTC
1 TTGCTTCAACTTCTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
1013409 TTGCTTCA
1 TTGCTTCA
1013417 TCTTATACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.12, C:0.26, G:0.15, T:0.47
Consensus pattern (44 bp):
TTGCTTCAACTTCTTCCTCTCTCTTCGGTAGTTACCATGAGTTC
Done.