Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold93
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: 1685797
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 216 characters in sequence are not A, C, G, or T
File 6 of 14
Found at i:634149 original size:33 final size:33
Alignment explanation
Indices: 634107--634172 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
634097 GCCAAGGAAA
***
634107 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
634140 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
634173 ATGGAAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:636580 original size:51 final size:53
Alignment explanation
Indices: 636516--636857 Score: 217
Period size: 52 Copynumber: 6.5 Consensus size: 53
636506 AGTTTCTCAA
* * * *
636516 TTCTCCACAATCGGGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
636567 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * *
636621 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAACCT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAA--T
* * * * * * *
636676 CGTTATTTC-CGA--GGGGATACTCCAACCCCAATTTTA-TTGCTAAAACACTAAT
1 --TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* * * * *
636728 TTTTTCATAATCGGGGATACTCCAAC-CCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTTCACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
636781 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
636833 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
636858 CTCGTTATTT
Statistics
Matches: 224, Mismatches: 42, Indels: 49
0.71 0.13 0.16
Matches are distributed among these distances:
49 4 0.02
50 7 0.03
51 35 0.16
52 81 0.36
53 34 0.15
54 31 0.14
55 22 0.10
57 7 0.03
58 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:636660 original size:27 final size:28
Alignment explanation
Indices: 636630--636704 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 28
636620 TTTCTTCACA
636630 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
636657 ATCGGGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
636685 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
636705 AATTTTATTG
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:636743 original size:107 final size:106
Alignment explanation
Indices: 636579--636971 Score: 332
Period size: 107 Copynumber: 3.7 Consensus size: 106
636569 TTCTATAATC
* *
636579 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGATTTTA-TTCC-AAAAACACCAATTT-TTCACAATCGGGGATACTCC
636644 AACCCCGTTAATCATCGGGGATACTCCAACCTCGTTATTTCCGA
63 AACCCCGTTAATCATCGGGGATACTCCAACCTCGTTATTTCCGA
* * * * *
636688 GGGGATACTCCAACCCCAATTTTATTGCTAAAACACTAATTTTTTCATAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTCCAAAAACACCAA-TTTTTCACAATCGGGGATACTCCAA
* * ** * * * ** * *
636753 CCCTGGTTTTATTTTC---AAAACGCCAATTTTCCTT-TAAT-C--
65 CCC-CG-TTAATCATCGGGGATACTCCAA-CCTCGTTAT-TTCCGA
* * *
636792 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTA-TTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAA
* * * *
636857 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
65 CCCCGTTA-ATCATCGGGGATACTCCAACCTCGTTATTTCCGA
** * * *** * * *
636900 GGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
636965 CCCGTTA
66 CCCGTTA
636972 TTTTCGAGGG
Statistics
Matches: 217, Mismatches: 53, Indels: 30
0.72 0.18 0.10
Matches are distributed among these distances:
102 2 0.01
103 4 0.02
104 47 0.22
105 15 0.07
106 17 0.08
107 77 0.35
108 28 0.13
109 27 0.12
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (106 bp):
GGGGATACTCCAACCCCGATTTTATTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTAATCATCGGGGATACTCCAACCTCGTTATTTCCGA
Found at i:636836 original size:104 final size:102
Alignment explanation
Indices: 636521--636858 Score: 313
Period size: 104 Copynumber: 3.2 Consensus size: 102
636511 CTCAATTCTC
* * * *
636521 CACAATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATA
1 CACAATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAACACCAATTTTCTTTAATCGGGGATA
*
636586 CTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 CTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * ** * * * ** * *
636626 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA-CCTCGTTATTTCCGAG
1 CACAATCGGGGATACTCCAACCCGGTTTTATTTTC---AAAACACCAATTTTCTTTA-AT-C--G
* * * * *
636689 GGGATACTCCAACCCCAATTTTA-TTGCTAAAACACTAATTTTTT
59 GGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAA-TTTTT
* *
636733 CATAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGAT
1 CACAATCGGGGATACTCCAACCC-GGTTTTATTTTCAAAACACCAATTTT-CTTTAATCGGGGAT
*
636798 ACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 ACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
636837 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
636859 TCGTTATTTC
Statistics
Matches: 179, Mismatches: 41, Indels: 27
0.72 0.17 0.11
Matches are distributed among these distances:
103 6 0.03
104 49 0.27
105 35 0.20
106 15 0.08
107 36 0.20
108 11 0.06
109 27 0.15
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (102 bp):
CACAATCGGGGATACTCCAACCCGGTTTTATTTTCAAAACACCAATTTTCTTTAATCGGGGATAC
TCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:636877 original size:28 final size:28
Alignment explanation
Indices: 636841--636917 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
636831 ATTTTTCACA
* * *
636841 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
636869 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
636897 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
636918 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:636900 original size:212 final size:210
Alignment explanation
Indices: 636524--636966 Score: 629
Period size: 212 Copynumber: 2.1 Consensus size: 210
636514 AATTCTCCAC
* *
636524 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATACTCCAAC-CCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* *
636589 TAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCCCGTTA
65 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTA
* * * * *
636654 ATCATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAACCCCAATTTTATTGCTAA
130 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATTCCCAA
*
636719 AACACTAATTTTTTCAT
195 AACACTAA-TTTCTCAT
* * *
636736 AATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGATACT
1 AATCGGGGATACTCCAACCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGGGATACT
* *
636801 CCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGTT
64 CCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTT
* **
636864 ATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCC
129 A-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATTCCC
* * *
636929 AAAATATTGATTTCTCAT
193 AAAACACTAATTTCTCAT
*
636947 AATTGGGGATACTCCAACCC
1 AATCGGGGATACTCCAACCC
636967 CGTTATTTTC
Statistics
Matches: 206, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
211 56 0.27
212 115 0.56
213 35 0.17
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (210 bp):
AATCGGGGATACTCCAACCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGATACTCC
AACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCCCGTTAA
TCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCAACTTTATTCCCAAA
ACACTAATTTCTCAT
Found at i:637020 original size:79 final size:79
Alignment explanation
Indices: 636871--637075 Score: 214
Period size: 79 Copynumber: 2.6 Consensus size: 79
636861 GTTATTTCAT
* * *
636871 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
636936 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * * ** *
636950 TGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAATCTCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
637014 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* * * * * *
637029 CGGGGATACTCGAGCCCCGTTATTTTCAAGGGAACATTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
637076 TTATTATCTC
Statistics
Matches: 102, Mismatches: 23, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
78 3 0.03
79 99 0.97
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.30
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:644479 original size:79 final size:79
Alignment explanation
Indices: 644379--644580 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 79
644369 AATAATGGGG
* * * * *
644379 TTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGA-TTAG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAAT-ATTTAG
*
644443 AAAATAAAATCGGGA
65 AAAATAAAACCGGGA
* * * * * *
644458 TTGGAGTATCCCCTCGGAAATATCGGGGTTGGATTATCCCCAATTATGAGAAATCAATATTTTGG
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTAGA
* *
644523 AAATAAAGCCGGGG
66 AAATAAAACCGGGA
** *
644537 TTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTTTCCCCGAT
1 TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGAT
644581 GAAATAACGA
Statistics
Matches: 102, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 1 0.01
79 101 0.99
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.27
Consensus pattern (79 bp):
TTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATCAATATTTAGA
AAATAAAACCGGGA
Found at i:644681 original size:52 final size:51
Alignment explanation
Indices: 644591--644933 Score: 206
Period size: 52 Copynumber: 6.6 Consensus size: 51
644581 GAAATAACGA
* * ** *
644591 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCAATTAAGAAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * *
644643 AGTTGGAGTATCCCTAATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCAATT-AAGAAAAATTGGTGTTTTGGAAATAAAATCGG
* ** * *
644695 GGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCAATTAAGAAAAATTGGTGTTTTGGAAATAAAATCGG
* *** * * ***** * *
644746 GGTTGGAGTATCCCCCAGAGGTAACG--GGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTAT-CCCCA-A-TTAA-GAAAAATTGGTGTTTTGGAAAT-AAA-ATCGG
* * **
644801 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCAATTAAGAAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * * *
644853 AGTTGGAGTATCCTCGATTAAAGGAAAATTGGTGTTTT-AAAATAAAACCGG
1 GGTTGGAGTATCCCCAATT-AAGAAAAATTGGTGTTTTGGAAATAAAATCGG
* * *
644904 GGTTGGAGTATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCAATTAAGAAAAATTG
644934 AGAAACTTAA
Statistics
Matches: 215, Mismatches: 65, Indels: 24
0.71 0.21 0.08
Matches are distributed among these distances:
50 8 0.04
51 65 0.30
52 76 0.35
53 40 0.19
54 11 0.05
55 15 0.07
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTAAGAAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:644781 original size:27 final size:28
Alignment explanation
Indices: 644743--644813 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
644733 GAAATAAAAT
**
644743 CGGGGTTGGAGTATCCCCCA-GAGGTAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
644770 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCATGAAATAA
*
644798 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
644814 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 19 0.49
28 20 0.51
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCATGAAATAA
Found at i:644844 original size:210 final size:210
Alignment explanation
Indices: 644481--644932 Score: 737
Period size: 210 Copynumber: 2.2 Consensus size: 210
644471 TCGGAAATAT
* * * * * *
644481 CGGGGTTGGATTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
644546 CCCCTCGGAGGTAACGGGGTTGGAGTTTCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
644611 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCC-CTAATTAAAGGAAAATTGG
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCTC-AATTAAAGGAAAATTGG
644675 TGTTTTGAAAATAAAAC
195 TGTTTT-AAAATAAAAC
* * * *
644692 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
644757 CCCC-CAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
66 CCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
* *
644821 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCTCGATTAAAGGAAAATTGGT
131 TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCTCAATTAAAGGAAAATTGGT
644886 GTTTTAAAATAAAAC
196 GTTTTAAAATAAAAC
*
644901 CGGGGTTGGAGTATCCCCGATTATGAACAATT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATT
644933 GAGAAACTTA
Statistics
Matches: 224, Mismatches: 16, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
209 40 0.18
210 124 0.55
211 60 0.27
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (210 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTG
TGAAAAATTGGTGTTTTTGGAAATAAAATCAGAGTTGGAGTATCCTCAATTAAAGGAAAATTGGT
GTTTTAAAATAAAAC
Found at i:647826 original size:50 final size:49
Alignment explanation
Indices: 647714--647826 Score: 165
Period size: 50 Copynumber: 2.3 Consensus size: 49
647704 ATACTATGCA
* *
647714 TAAAAAAAT-GAATATGCTTGGATGAAAACTCAAAGGGGTGTTCAAGTC
1 TAAAAAAATCGAATATGCTTAGATGAAAACCCAAAGGGGTGTTCAAGTC
* *
647762 TAAAAAAAACCGAATATGCTTAGATGAAAACCCGAAGGGGTGTTCAAGTC
1 T-AAAAAAATCGAATATGCTTAGATGAAAACCCAAAGGGGTGTTCAAGTC
647812 TAAAAAATATCGAAT
1 TAAAAAA-ATCGAAT
647827 GAAAACCCAA
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
48 1 0.02
49 13 0.23
50 43 0.75
ACGTcount: A:0.44, C:0.12, G:0.20, T:0.23
Consensus pattern (49 bp):
TAAAAAAATCGAATATGCTTAGATGAAAACCCAAAGGGGTGTTCAAGTC
Found at i:651866 original size:19 final size:18
Alignment explanation
Indices: 651838--651895 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 18
651828 TTGTATCGAT
*
651838 ACATTATATCGATACATG
1 ACATTGTATCGATACATG
651856 ATCATTGTATCGATACATGG
1 A-CATTGTATCGATACAT-G
651876 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
651895 A
1 A
651896 AACTGGCAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.03
19 18 0.50
20 17 0.47
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (18 bp):
ACATTGTATCGATACATG
Found at i:651869 original size:32 final size:33
Alignment explanation
Indices: 651811--651873 Score: 101
Period size: 32 Copynumber: 1.9 Consensus size: 33
651801 CACCCAGATG
* *
651811 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATGATGCATTGTATCGATACATTA
651844 TATCGATACATGAT-CATTGTATCGATACAT
1 TATCGATACATGATGCATTGTATCGATACAT
651874 GGACAATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
32 15 0.54
33 13 0.46
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (33 bp):
TATCGATACATGATGCATTGTATCGATACATTA
Found at i:651884 original size:20 final size:20
Alignment explanation
Indices: 651839--651894 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
651829 TGTATCGATA
*
651839 CATTATATCGATACAT-GAT
1 CATTGTATCGATACATGGAT
651858 CATTGTATCGATACATGGA-
1 CATTGTATCGATACATGGAT
651877 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
651895 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
19 16 0.47
20 18 0.53
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (20 bp):
CATTGTATCGATACATGGAT
Found at i:651948 original size:20 final size:20
Alignment explanation
Indices: 651923--651976 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
651913 CTACCACTGT
*
651923 TTGTATTGATACATGGT-ACA
1 TTGTATTGATACATGATGA-A
651943 TTGTATTGATACATGATGAA
1 TTGTATTGATACATGATGAA
*
651963 TTGTATCGATACAT
1 TTGTATTGATACAT
651977 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (20 bp):
TTGTATTGATACATGATGAA
Found at i:659978 original size:13 final size:13
Alignment explanation
Indices: 659960--660012 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
659950 CGATAAGTGG
659960 TACATTGTATCGA
1 TACATTGTATCGA
659973 TACATTGTATCGA
1 TACATTGTATCGA
659986 TACA-TG-AT-G-
1 TACATTGTATCGA
659995 -A-ATTGTATCGA
1 TACATTGTATCGA
660006 TACATTG
1 TACATTG
660013 CTTGTAACGG
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 21 0.62
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:660996 original size:51 final size:50
Alignment explanation
Indices: 660920--661055 Score: 184
Period size: 51 Copynumber: 2.7 Consensus size: 50
660910 TTTTAACTAG
* *
660920 ATGTATCGATACATTATTCAATGTATCAATACATCTGGATAAAAAGACATA
1 ATGTATCGATACATTA-TAAATGTATCAATACATCTGGATAAAAAGACAGA
* *
660971 ATGTATCGATACATTGA-AGAATGTATCGATACATCTGGTTAAAAAGACAGA
1 ATGTATCGATACATT-ATA-AATGTATCAATACATCTGGATAAAAAGACAGA
*
661022 ATGTATCGATACATTCATACATGTATCAATACAT
1 ATGTATCGATACATT-ATAAATGTATCAATACAT
661056 TGAAAAATGT
Statistics
Matches: 75, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
51 73 0.97
52 2 0.03
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (50 bp):
ATGTATCGATACATTATAAATGTATCAATACATCTGGATAAAAAGACAGA
Found at i:661047 original size:20 final size:20
Alignment explanation
Indices: 661021--661096 Score: 116
Period size: 20 Copynumber: 3.8 Consensus size: 20
661011 AAAAAGACAG
* *
661021 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
* *
661041 CATGTATCAATACATTGAAA
1 AATGTATCGATACATTGAAA
661061 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
661081 AATGTATCGATACATT
1 AATGTATCGATACATT
661097 TGGGTAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:662428 original size:43 final size:43
Alignment explanation
Indices: 662320--662411 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 43
662310 ACTCTTTTTC
* * * *
662320 TTGTCTATCCC-TCGGCTTAGACTCGAAAGACCTCCGTTATCTT
1 TTGTCTA-CCCATCGGCTTAGACCCAAAAGACCTCCCTTACCTT
*
662363 TTGTCTACCCATCGGCTTAGACCCAAAAGACTTCCCTTACCTT
1 TTGTCTACCCATCGGCTTAGACCCAAAAGACCTCCCTTACCTT
662406 TTGTCT
1 TTGTCT
662412 GCCTGTTGGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
42 3 0.07
43 40 0.93
ACGTcount: A:0.20, C:0.32, G:0.14, T:0.35
Consensus pattern (43 bp):
TTGTCTACCCATCGGCTTAGACCCAAAAGACCTCCCTTACCTT
Found at i:662485 original size:43 final size:43
Alignment explanation
Indices: 662331--662978 Score: 237
Period size: 43 Copynumber: 15.1 Consensus size: 43
662321 TGTCTATCCC
** * *
662331 TCGGCTTAGACTCGAAAGACCTC-CGTTATCTTTTGTCTACCCA
1 TCGGCTTAGACTCGGGAGACCTCTC-TTATCTTTCGTCTACCTA
* *** * * * * * *
662374 TCGGCTTAGACCCAAAAGACTTCCCTTACCTTTTGTCTGCCTG
1 TCGGCTTAGACTCGGGAGACCTCTCTTATCTTTCGTCTACCTA
* * * * *
662417 TTGGCTTAGAC-CTGGGAAACTTCTCTTATCTTTCATCTACCTG
1 TCGGCTTAGACTC-GGGAGACCTCTCTTATCTTTCGTCTACCTA
* *
662460 TCGGCTTAGACTCGGGAGACCTCTCTTATCTTTCATCTGCCTA
1 TCGGCTTAGACTCGGGAGACCTCTCTTATCTTTCGTCTACCTA
*** * * ** * *
662503 TCAAATTAGACTTGGGAGACCTACT-TTCTCTTTTATCTACTTG
1 TCGGCTTAGACTCGGGAGACCT-CTCTTATCTTTCGTCTACCTA
* * * ** * * * * *
662546 TCGACTTAAACCCAAGAGACTTCCCTTATATTTCGTCTGCCCA
1 TCGGCTTAGACTCGGGAGACCTCTCTTATCTTTCGTCTACCTA
** * * ** *
662589 TTAGCTTAAACTTGGGAGATTTCAT-TTATCTTTCGTCTACCCA
1 TCGGCTTAGACTCGGGAGACCTC-TCTTATCTTTCGTCTACCTA
* * * *
662632 TCAGCTTAGAC-CTAGGAGACCTC-CTTTATCTTTCATCTGCCTA
1 TCGGCTTAGACTC-GGGAGACCTCTC-TTATCTTTCGTCTACCTA
* * *
662675 TTGGCTTAGACTCGGGAAACCTCAT-TTATCTTTCGTCTACCTG
1 TCGGCTTAGACTCGGGAGACCTC-TCTTATCTTTCGTCTACCTA
* * * * **
662718 TCGGTTTAGACTTGGGAGACCT-TCTTTATCTTTTGTCTGCCCG
1 TCGGCTTAGACTCGGGAGACCTCTC-TTATCTTTCGTCTACCTA
* * * *
662761 TCGGCTTAGAC-CGAGGAGACCTCTTTTATCTTTTGTCTGCTCGA
1 TCGGCTTAGACTCG-GGAGACCTCTCTTATCTTTCGTCTAC-CTA
** * * * *
662805 -CAACTTAGAC-CTGGGAGACTTCTTTTATCTTTCGTCTGCCCA
1 TCGGCTTAGACTC-GGGAGACCTCTCTTATCTTTCGTCTACCTA
* * **** * * * *
662847 TTGGCTTAAACTTATAAGACTTCAT-TTATCTTTCGTTTTCCCA
1 TCGGCTTAGACTCGGGAGACCTC-TCTTATCTTTCGTCTACCTA
* * * * * * * * *
662890 TCAGCTTTGACCCGAGAGACTTTTTTTATCTTTCATCT-GCTCA
1 TCGGCTTAGACTCGGGAGACCTCTCTTATCTTTCGTCTACCT-A
* *
662933 TCGGCTTAGAC-CTAGGAGACCTC-CTTTATCTTTCGTCTACCCA
1 TCGGCTTAGACTC-GGGAGACCTCTC-TTATCTTTCGTCTACCTA
662976 TCG
1 TCG
662979 ATTCAGACCC
Statistics
Matches: 453, Mismatches: 126, Indels: 52
0.72 0.20 0.08
Matches are distributed among these distances:
41 1 0.00
42 8 0.02
43 434 0.96
44 10 0.02
ACGTcount: A:0.19, C:0.27, G:0.16, T:0.37
Consensus pattern (43 bp):
TCGGCTTAGACTCGGGAGACCTCTCTTATCTTTCGTCTACCTA
Found at i:662711 original size:129 final size:128
Alignment explanation
Indices: 662571--662976 Score: 406
Period size: 129 Copynumber: 3.1 Consensus size: 128
662561 GAGACTTCCC
* * * *
662571 TTATATTTCGTCTGCCCATTAGCTTAAACTTGGGAGATTTCATTTATCTTTCGTCTACCCATCAG
1 TTATCTTTCGTCTACCCATTGGCTTAAACTTGGGAGACTTCATTTATCTTTCGTCTACCCATCAG
* * *
662636 CTTAGACCTAGGAGACCTCCTTTATCTTTCATCTGCCTATTGGCTTAGA-CTCGGGAAACCTCAT
66 CTTAGACC-AGGAGACCTCTTTTATCTTTCATCTGCCTATCGGCTTAGACCT-GGGAGACCTCAT
** * * * * * * *
662700 TTATCTTTCGTCTACCTGTCGGTTTAGACTTGGGAGACCTTC-TTTATCTTTTGTCTGCCCGTCG
1 TTATCTTTCGTCTACCCATTGGCTTAAACTTGGGAGA-CTTCATTTATCTTTCGTCTACCCATCA
** * ** * *
662764 GCTTAGACCGAGGAGACCTCTTTTATCTTTTGTCTGCTCGA-CAACTTAGACCTGGGAGACTTCT
65 GCTTAGACC-AGGAGACCTCTTTTATCTTTCATCTGC-CTATCGGCTTAGACCTGGGAGACCTCA
662828 T
128 T
* *** * *
662829 TTATCTTTCGTCTGCCCATTGGCTTAAACTTATAAGACTTCATTTATCTTTCGTTTTCCCATCAG
1 TTATCTTTCGTCTACCCATTGGCTTAAACTTGGGAGACTTCATTTATCTTTCGTCTACCCATCAG
* * * * * *
662894 CTTTGACCCGAGAGACTTTTTTTATCTTTCATCTG-CTCATCGGCTTAGACCTAGGAGACCTCCT
66 CTTAGACCAG-GAGACCTCTTTTATCTTTCATCTGCCT-ATCGGCTTAGACCTGGGAGACCTCAT
662958 TTATCTTTCGTCTACCCAT
1 TTATCTTTCGTCTACCCAT
662977 CGATTCAGAC
Statistics
Matches: 219, Mismatches: 51, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
127 1 0.00
128 6 0.03
129 205 0.94
130 7 0.03
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.39
Consensus pattern (128 bp):
TTATCTTTCGTCTACCCATTGGCTTAAACTTGGGAGACTTCATTTATCTTTCGTCTACCCATCAG
CTTAGACCAGGAGACCTCTTTTATCTTTCATCTGCCTATCGGCTTAGACCTGGGAGACCTCAT
Found at i:662736 original size:86 final size:86
Alignment explanation
Indices: 662333--662973 Score: 371
Period size: 86 Copynumber: 7.5 Consensus size: 86
662323 TCTATCCCTC
** ** * ** **** *
662333 GGCTTAGACTCGAAAGACCTCCGTTATCTTTTGTCTACCCATCGGCTTAGACCCAAAAGACTTCC
1 GGCTTAGACTCGGGAGACCTCATTTATCTTTCGTCTACCTGTCGGCTTAGACCTGGGAGACCTCC
* * * **
662398 CTTACCTTTTGTCTGCCTGTT
66 TTTATCTTTCGTCTGCCCATT
* * *
662419 GGCTTAGAC-CTGGGAAACTTC-TCTTATCTTTCATCTACCTGTCGGCTTAGA-CTCGGGAGACC
1 GGCTTAGACTC-GGGAGACCTCAT-TTATCTTTCGTCTACCTGTCGGCTTAGACCT-GGGAGACC
* * *
662481 T-CTCTTATCTTTCATCTGCCTATC
63 TCCT-TTATCTTTCGTCTGCCCATT
*** * * ** * * * *** *
662505 AAATTAGACTTGGGAGACCT-ACTTTCTCTTTTATCTACTTGTCGACTTAAACCCAAGAGACTTC
1 GGCTTAGACTCGGGAGACCTCA-TTTATCTTTCGTCTACCTGTCGGCTTAGACCTGGGAGACCTC
* *
662569 CCTTATATTTCGTCTGCCCATT
65 CTTTATCTTTCGTCTGCCCATT
* * * ** ** * *
662591 AGCTTAAACTTGGGAGATTTCATTTATCTTTCGTCTACCCATCAGCTTAGACCTAGGAGACCTCC
1 GGCTTAGACTCGGGAGACCTCATTTATCTTTCGTCTACCTGTCGGCTTAGACCTGGGAGACCTCC
* *
662656 TTTATCTTTCATCTGCCTATT
66 TTTATCTTTCGTCTGCCCATT
* * * *
662677 GGCTTAGACTCGGGAAACCTCATTTATCTTTCGTCTACCTGTCGGTTTAGACTTGGGAGACCTTC
1 GGCTTAGACTCGGGAGACCTCATTTATCTTTCGTCTACCTGTCGGCTTAGACCTGGGAGACCTCC
* * *
662742 TTTATCTTTTGTCTGCCCGTC
66 TTTATCTTTCGTCTGCCCATT
* * * * ** *
662763 GGCTTAGAC-CGAGGAGACCTCTTTTATCTTTTGTCT-GCTCGACAACTTAGACCTGGGAGACTT
1 GGCTTAGACTCG-GGAGACCTCATTTATCTTTCGTCTACCT-GTCGGCTTAGACCTGGGAGACCT
*
662826 CTTTTATCTTTCGTCTGCCCATT
64 CCTTTATCTTTCGTCTGCCCATT
* **** * * * ** * * * * * **
662849 GGCTTAAACTTATAAGACTTCATTTATCTTTCGTTTTCCCATCAGCTTTGACCCGAGAGACTTTT
1 GGCTTAGACTCGGGAGACCTCATTTATCTTTCGTCTACCTGTCGGCTTAGACCTGGGAGACCTCC
* * *
662914 TTTATCTTTCATCTGCTCATC
66 TTTATCTTTCGTCTGCCCATT
* *
662935 GGCTTAGAC-CTAGGAGACCTCCTTTATCTTTCGTCTACC
1 GGCTTAGACTC-GGGAGACCTCATTTATCTTTCGTCTACC
662974 CATCGATTCA
Statistics
Matches: 417, Mismatches: 123, Indels: 30
0.73 0.22 0.05
Matches are distributed among these distances:
85 7 0.02
86 405 0.97
87 5 0.01
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (86 bp):
GGCTTAGACTCGGGAGACCTCATTTATCTTTCGTCTACCTGTCGGCTTAGACCTGGGAGACCTCC
TTTATCTTTCGTCTGCCCATT
Found at i:662987 original size:43 final size:42
Alignment explanation
Indices: 662561--662995 Score: 255
Period size: 43 Copynumber: 10.1 Consensus size: 42
662551 TTAAACCCAA
* * * * * * *
662561 GAGACTTCCCTTATATTTCGTCTGCCCATTAGCTTAAACTTGG
1 GAGACCTCCTTTATCTTTCGTCTGCCCA-TCGCTTAGACCTAG
** * *
662604 GAGATTTCATTTATCTTTCGTCTACCCATCAGCTTAGACCTAG
1 GAGACCTCCTTTATCTTTCGTCTGCCCATC-GCTTAGACCTAG
* * * *
662647 GAGACCTCCTTTATCTTTCATCTGCCTATTGGCTTAGA-CTCGG
1 GAGACCTCCTTTATCTTTCGTCTGCCCA-TCGCTTAGACCT-AG
* * * ** * * *
662690 GAAACCTCATTTATCTTTCGTCTACCTGTCGGTTTAGACTTGG
1 GAGACCTCCTTTATCTTTCGTCTGCCCATC-GCTTAGACCTAG
* * * *
662733 GAGACCTTCTTTATCTTTTGTCTGCCCGTCGGCTTAGACCGAG
1 GAGACCTCCTTTATCTTTCGTCTGCCCATC-GCTTAGACCTAG
* * * * *
662776 GAGACCTCTTTTATCTTTTGTCTGCTCGA-CAACTTAGACCTGG
1 GAGACCTCCTTTATCTTTCGTCTGC-CCATC-GCTTAGACCTAG
* * * * * *
662819 GAGACTTCTTTTATCTTTCGTCTGCCCATTGGCTTAAACTTAT
1 GAGACCTCCTTTATCTTTCGTCTGCCCA-TCGCTTAGACCTAG
* * * * * * *
662862 AAGACTTCATTTATCTTTCGTTTTCCCATCAGCTTTGACC-CG
1 GAGACCTCCTTTATCTTTCGTCTGCCCATC-GCTTAGACCTAG
* ** * *
662904 AGAGACTTTTTTTATCTTTCATCTGCTCATCGGCTTAGACCTAG
1 -GAGACCTCCTTTATCTTTCGTCTGCCCATC-GCTTAGACCTAG
* * *
662948 GAGACCTCCTTTATCTTTCGTCTACCCATCGATTCAGACCCAG
1 GAGACCTCCTTTATCTTTCGTCTGCCCATCGCTT-AGACCTAG
662991 GAGAC
1 GAGAC
662996 TTCTTAATCT
Statistics
Matches: 300, Mismatches: 80, Indels: 24
0.74 0.20 0.06
Matches are distributed among these distances:
42 10 0.03
43 286 0.95
44 4 0.01
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.37
Consensus pattern (42 bp):
GAGACCTCCTTTATCTTTCGTCTGCCCATCGCTTAGACCTAG
Found at i:663946 original size:164 final size:160
Alignment explanation
Indices: 663775--664203 Score: 497
Period size: 163 Copynumber: 2.6 Consensus size: 160
663765 TTTAAACATA
* * * * * *
663775 AAAATTCATCAAATATTATCATTTGTTCATATTAAATCAGTTTTTAAAAAATTAATCCATTTTCA
1 AAAATTCATCAAATATTATTATTTATTCATACTAAATCAG-TTTTCAAAAATTCATTCATTTTCA
* ** *
663840 TGAGCTTGTGAATTTTAT-TTGAAATTCTTTTTTTTTC-AAAATATGTTGTTTTCTATTCGGTAA
65 TGAGCTTGTGAATTTT-TCTTGAAATTC-TCTTTTTTCGAAAA-ATGGAGTTTTCTACTCGGTAA
663903 TTTTTTGGGGGGGATTTTTTCTT-GGTTTTAATTTT-T
127 -TTTTT--GGGGGA-TTTTTCTTAGGTTTTAATTTTCT
* *
663939 AAAATTCATCAAATAATATTATTTAATTCATGCTAAATCAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATTATTATTT-ATTCATACTAAATCAGTTTTCAAAAATTCATTCATTTTCA
*
664004 TGAGCTTGTGAATTTTTCCCTTGAAATTCTCTTTTTTCGAAAAATGGAGTTTTCTACTCTGTAAT
65 TGAGCTTGTGAATTTTT--CTTGAAATTCTCTTTTTTCGAAAAATGGAGTTTTCTACTCGGTAAT
* *
664069 TTTTGGGGGATTTTTCTTAGTTTTTATTTTTCT
128 TTTTGGGGGATTTTTCTTAGGTTTTAATTTTCT
* * * * * *
664102 AAAGTTCATCAAATATCATTATTTATATCATAGTAAATTAGTTTTCAAAAATTCCTTCATTTTCT
1 AAAATTCATCAAATATTATTATTTAT-TCATACTAAATCAGTTTTCAAAAATTCATTCATTTTCA
*
664167 TAAGCTTGTGAATTTTTCTTTTGAAATTTCTCTTTTT
65 TGAGCTTGTGAATTTTTC--TTGAAA-TTCTCTTTTT
664204 CTGAATTATG
Statistics
Matches: 230, Mismatches: 24, Indels: 22
0.83 0.09 0.08
Matches are distributed among these distances:
161 9 0.04
162 18 0.08
163 78 0.34
164 74 0.32
165 38 0.17
166 13 0.06
ACGTcount: A:0.28, C:0.11, G:0.10, T:0.50
Consensus pattern (160 bp):
AAAATTCATCAAATATTATTATTTATTCATACTAAATCAGTTTTCAAAAATTCATTCATTTTCAT
GAGCTTGTGAATTTTTCTTGAAATTCTCTTTTTTCGAAAAATGGAGTTTTCTACTCGGTAATTTT
TGGGGGATTTTTCTTAGGTTTTAATTTTCT
Found at i:665975 original size:140 final size:140
Alignment explanation
Indices: 665712--666021 Score: 304
Period size: 140 Copynumber: 2.2 Consensus size: 140
665702 CTTTAAACTT
* * * * * *
665712 GTTGACTATTCTGGTTTCACCTTAGTCAACCTTCTTCAACTTAGGTTTTATCTTAAATCACCCTT
1 GTTGACTATTTTGGTTTCGCCTTGGTCAACCTTCTTCAACTTAGATTTCATCCTAAATCACCCTT
* * * * * * * * *
665777 AGTTGACTAATTTGGTTTTGCCTTGGTTAACTCTTTTTAACTTAGATTTGATCTTAGTCACCCAT
66 AATTGACTAATCTGGTTTTACCTTAGTAAACTCTTTTCAACTTAGATCTCATCCTAGTCA-CCAT
*
665842 TTTTAC-CTTTA
130 TTTCACTC-TTA
* * * *
665853 GTTGACTATTTTGGTTTCGCCTTGGTCAA-TTTTTTCTAACTTAGATTTCATCCT-AATCATCTT
1 GTTGACTATTTTGGTTTCGCCTTGGTCAACCTTCTTC-AACTTAGATTTCATCCTAAATCACCCT
* * *
665916 TAATTGACTAATCTGGTTTTACCTTAGTAAACT-TTTGTCAACTTTGGTCTCATCCTAGTCATCA
65 TAATTGACTAATCTGGTTTTACCTTAGTAAACTCTTT-TCAACTTAGATCTCATCCTAGTCACCA
*
665980 TTTTCATTCTTA
129 TTTTCACTCTTA
* * * *
665992 GTTGACTATATTAGTTTTGCCCTGGTCAAC
1 GTTGACTATTTTGGTTTCGCCTTGGTCAAC
666022 ATTTTTAGAC
Statistics
Matches: 137, Mismatches: 28, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
139 38 0.28
140 59 0.43
141 40 0.29
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (140 bp):
GTTGACTATTTTGGTTTCGCCTTGGTCAACCTTCTTCAACTTAGATTTCATCCTAAATCACCCTT
AATTGACTAATCTGGTTTTACCTTAGTAAACTCTTTTCAACTTAGATCTCATCCTAGTCACCATT
TTCACTCTTA
Found at i:669614 original size:13 final size:14
Alignment explanation
Indices: 669596--669627 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
669586 TCAAAATTCG
669596 TGTCAATA-TCAAA
1 TGTCAATATTCAAA
669609 TGTCAATATTCAAA
1 TGTCAATATTCAAA
669623 T-TCAA
1 TGTCAA
669628 GCTCTAAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (14 bp):
TGTCAATATTCAAA
Found at i:670764 original size:153 final size:154
Alignment explanation
Indices: 670455--670791 Score: 345
Period size: 153 Copynumber: 2.2 Consensus size: 154
670445 TCCTTTAAGA
* * * * * * * *
670455 TTACTGGATACTTTCTCGTCGAAGATATACATCAAGGGTATTTTGGTAATTTTTGCTAGAGCCGA
1 TTACTGGATACTTTCACATCGAAGGTATACACCAAAGGCATTTTAGTAATTTTTGCTAGAACCGA
* * * * * * * *
670520 GTCCCAGGTAGTCACTAGGTCGCTTTTATGCCAAGGGTTTACATTTAGGAAAGGTTTGATCTTTT
66 GTCACAAGTAGTCACTAGATCGCTTTTATGCCAAAGGTCTACATTTAGGAAAGGTTCGACCTTTC
* * **
670585 ACGATCCTTTTACATCTTTTAGGG
131 ACGATCATTTCACATCCCTTAGGG
*
670609 TTACTAGGATACTTTCACATCGAAGGTATAC-CCAAAGGCATTTTAGTAATTTTT-CTAGAATCG
1 TTACT-GGATACTTTCACATCGAAGGTATACACCAAAGGCATTTTAGTAATTTTTGCTAGAACCG
* * * *
670672 AGTCATAAGTAGTTACTAGATTGCTTTTATGCCAAAGGTCTACATTTAGGATAGGTTCGACCTTT
65 AGTCACAAGTAGTCACTAGATCGCTTTTATGCCAAAGGTCTACATTTAGGAAAGGTTCGACCTTT
* *** *
670737 CATGATCATTTCGTGTCCCTTATGG
130 CACGATCATTTCACATCCCTTAGGG
* * *
670762 TTACCGAGATATTTTCACATTGAAGGTATA
1 TTACTG-GATACTTTCACATCGAAGGTATA
670792 TCTAAGGGCT
Statistics
Matches: 148, Mismatches: 33, Indels: 5
0.80 0.18 0.03
Matches are distributed among these distances:
152 1 0.01
153 101 0.68
154 24 0.16
155 22 0.15
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (154 bp):
TTACTGGATACTTTCACATCGAAGGTATACACCAAAGGCATTTTAGTAATTTTTGCTAGAACCGA
GTCACAAGTAGTCACTAGATCGCTTTTATGCCAAAGGTCTACATTTAGGAAAGGTTCGACCTTTC
ACGATCATTTCACATCCCTTAGGG
Found at i:671382 original size:22 final size:22
Alignment explanation
Indices: 671348--671391 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
671338 TTTTTGGGGA
671348 ATTTTTTAAATTTAATTAATTTT
1 ATTTTTTAAATTT-ATTAATTTT
* *
671371 ATTTTTT-TATTTATTCATTTT
1 ATTTTTTAAATTTATTAATTTT
671392 GCTAGTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 8 0.42
22 4 0.21
23 7 0.37
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTTTAAATTTATTAATTTT
Found at i:671719 original size:7 final size:7
Alignment explanation
Indices: 671707--671749 Score: 50
Period size: 7 Copynumber: 5.7 Consensus size: 7
671697 AAGTGAGAAA
671707 AAAAAAG
1 AAAAAAG
671714 AAAAAAG
1 AAAAAAG
*
671721 AGAGAAAG
1 A-AAAAAG
671729 AAAAAAGAG
1 -AAAAA-AG
671738 AAAAAAG
1 AAAAAAG
671745 AAAAA
1 AAAAA
671750 TGCAAGCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 15 0.48
8 13 0.42
9 3 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:671730 original size:15 final size:16
Alignment explanation
Indices: 671707--671749 Score: 70
Period size: 15 Copynumber: 2.8 Consensus size: 16
671697 AAGTGAGAAA
671707 AAAAAAGAAAAAAGAG
1 AAAAAAGAAAAAAGAG
*
671723 -AGAAAGAAAAAAGAG
1 AAAAAAGAAAAAAGAG
671738 AAAAAAGAAAAA
1 AAAAAAGAAAAA
671750 TGCAAGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAG
Found at i:677656 original size:18 final size:18
Alignment explanation
Indices: 677633--677670 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
677623 TCCTCTAAAT
677633 AAGAAAAATAAAAAAGAA
1 AAGAAAAATAAAAAAGAA
* *
677651 AAGAAAAATGAAAATGAA
1 AAGAAAAATAAAAAAGAA
677669 AA
1 AA
677671 AATGCATGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (18 bp):
AAGAAAAATAAAAAAGAA
Found at i:678623 original size:16 final size:15
Alignment explanation
Indices: 678604--678649 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
678594 GAGGCTTACA
678604 AAAAAAACAAAAACC
1 AAAAAAACAAAAACC
678619 AAAAAAACAAAAA--
1 AAAAAAACAAAAACC
*
678632 AAAACAACAAAAA-C
1 AAAAAAACAAAAACC
678646 AAAA
1 AAAA
678650 TACTTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 12 0.41
14 4 0.14
15 13 0.45
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAAAACC
Found at i:678625 original size:10 final size:9
Alignment explanation
Indices: 678603--678649 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
678593 AGAGGCTTAC
678603 AAAAAA-AA
1 AAAAAACAA
* *
678611 CAAAAACCA
1 AAAAAACAA
678620 AAAAAACAAA
1 AAAAAAC-AA
678630 AAAAAACAA
1 AAAAAACAA
*
678639 CAAAAACAA
1 AAAAAACAA
678648 AA
1 AA
678650 TACTTTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
8 5 0.16
9 18 0.58
10 8 0.26
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAACAA
Found at i:678634 original size:19 final size:19
Alignment explanation
Indices: 678601--678649 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
678591 CTAGAGGCTT
*
678601 ACAAAAA-AAACAAAAACCA
1 ACAAAAACAAA-AAAAAACA
678620 A-AAAAACAAAAAAAAACA
1 ACAAAAACAAAAAAAAACA
678638 ACAAAAACAAAA
1 ACAAAAACAAAA
678650 TACTTTTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (19 bp):
ACAAAAACAAAAAAAAACA
Found at i:680947 original size:166 final size:159
Alignment explanation
Indices: 680718--681278 Score: 479
Period size: 166 Copynumber: 3.4 Consensus size: 159
680708 TTAAAACATC
* * * * *
680718 AAAATTCATCAAATATTATCATTTGA-TTTACATTAAATTAG-TGTCAAAAAATTC-CTTCATTT
1 AAAATTCAACAAA-ATTATTATTT-ATTTTATATTAATTTAGTTTTC-AAAAATTCAC-TCATTT
* ** *
680780 TCATGAGTTTTTCA-TTTTTCATTTAAATTCTCTTAATTCCAAAATACAGAGTTTTCTTCTCCGT
62 TCATGAGTTTTTCATTTTTTC-TTGAAATTCTCTT--TTCTGAAATACAGAGTTTTCTTCTTCGT
*
680844 AAATTTTTTTGGGAGTATATTCATTGATTTTAAATTTTT
124 AAATTTTTTTGGGAG-AT-TTC-TTGATTTTCAATTTTT
* *
680883 AAAATTCAACAAATATTTTTTATTTATTTTATGTTAATTTAGTTTTCAAAAATTCACTCATTTTC
1 AAAATTCAACAAA-A-TTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCACTCATTTTC
* * * * *
680948 ATGAGCTTTTGATTTTTTCTTGAAATTCTCTTTTTTTTGAAATACGGTGTTTT-TTACTTCGTAA
64 ATGAGTTTTTCATTTTTTCTTGAAATTCTC--TTTTCTGAAATACAGAGTTTTCTT-CTTCGTAA
* * *
681012 ATTTTTCTAGGAGGATTTTTTATGATTTTCAATTTTT
126 ATTTTTTTGGGA-GA-TTTCT-TGATTTTCAATTTTT
* * * * ** * *
681049 AAAATTCATAAAAAATTATCATTTACTTCATATTAATCGAGTTTTTAAAAATTCATTCATTTTCA
1 AAAATTCA-ACAAAATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCACTCATTTTCA
* * *
681114 TGAGTTTTTTTATTTTTTTCCTTGAAACTTCTCTTTCTCTGAAATA-TGATGTTTTCTACTTCGT
65 TGAG-TTTTTCA-TTTTTT-CTTGAAA-TTCTCTTT-TCTGAAATACAGA-GTTTTCTTCTTCGT
* *
681178 AAATTTTTTCGAAGG-GATTTTTCTTGGTTTTCAATTTTT
124 AAATTTTTTTG--GGAGA--TTTCTTGATTTTCAATTTTT
* * *
681217 AAAATTTATCAAACATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCATTT
1 AAAATTCAACAAA-ATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCACTCATTT
681279 CATTCATTTC
Statistics
Matches: 323, Mismatches: 50, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
165 63 0.20
166 117 0.36
167 29 0.09
168 101 0.31
169 11 0.03
170 2 0.01
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.51
Consensus pattern (159 bp):
AAAATTCAACAAAATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCACTCATTTTCAT
GAGTTTTTCATTTTTTCTTGAAATTCTCTTTTCTGAAATACAGAGTTTTCTTCTTCGTAAATTTT
TTTGGGAGATTTCTTGATTTTCAATTTTT
Found at i:681184 original size:168 final size:166
Alignment explanation
Indices: 680718--681462 Score: 560
Period size: 168 Copynumber: 4.4 Consensus size: 166
680708 TTAAAACATC
* * * * *
680718 AAAATTCATCAAATATTATCATTTGA-TTTACATTAAAT-TAG-TGTCAAAAAATTCCTTCATTT
1 AAAATTCATAAAAAATTATCATTT-ATTTTATATT-AATCTAGTTTTC-AAAAATTCATTCATTT
* * * * ** * *
680780 TCATGAG-TTTTTCA--TTTTTCATTTAAA-TTCTCTTAATTCCAAAATACAGA-GTTTTCTTCT
63 TCATGAGTTTTTTTATTTTTTTCCTTGAAACTTCTCTT-TTTCTGAAATA-TGATGTTTTCTACT
* * * *
680840 CCGTAAATTTTTTTG-GGAGTATATTCATTGATTTTAAATTTTT
126 TCGTAAATTTTTTGGAGGA-T-TTTTC-TTGATTTTCAATTTTT
* * * * * *
680883 AAAATTCA-ACAAATATTTTTTATTTATTTTATGTTAATTTAGTTTTCAAAAATTCACTCATTTT
1 AAAATTCATA-AAA-AATTATCATTTATTTTATATTAATCTAGTTTTCAAAAATTCATTCATTTT
* * * * * *
680947 CATGAG-CTTTTGA-TTTTTT-CTTGAAA-TTCTCTTTTTTTTGAAATACGGTGTTTTTTACTTC
64 CATGAGTTTTTTTATTTTTTTCCTTGAAACTTCTC-TTTTTCTGAAATATGATGTTTTCTACTTC
681008 GTAAATTTTTCTAGGAGGATTTTT-TATGATTTTCAATTTTT
128 GTAAATTTTT-T-GGAGGATTTTTCT-TGATTTTCAATTTTT
* * * *
681049 AAAATTCATAAAAAATTATCATTTACTTCATATTAATCGAGTTTTTAAAAATTCATTCATTTTCA
1 AAAATTCATAAAAAATTATCATTTATTTTATATTAATCTAGTTTTCAAAAATTCATTCATTTTCA
*
681114 TGAGTTTTTTTATTTTTTTCCTTGAAACTTCTCTTTCTCTGAAATATGATGTTTTCTACTTCGTA
66 TGAGTTTTTTTATTTTTTTCCTTGAAACTTCTCTTTTTCTGAAATATGATGTTTTCTACTTCGTA
* *
681179 AATTTTTTCGAAGGGATTTTTCTTGGTTTTCAATTTTT
131 AATTTTTT-GGA-GGATTTTTCTTGATTTTCAATTTTT
* * * * *
681217 AAAATTTATCAAACATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATTCATTCA-TTTCA
1 AAAATTCATAAAAAATTATCATTTATTTTATATTAATCTAGTTTTCAAAAATTCATTCATTTTCA
* * * * * *
681281 TTCATTTCATTCATTTTTTATTTTTCTTTGAAAC-TCTTTTTTTTCCT-AAATATGATATTTTCT
66 -TGAGTT--TT--TTTATT-TTTTTCCTTGAAACTTC-TCTTTTT-CTGAAATATGATGTTTTCT
* *
681344 ACTCCGTAAATTTTTTCGAGTTGATTTTTCTCTG-TTTTCAATTTTT
123 ACTTCGTAAATTTTTTGGAG--GATTTTTCT-TGATTTTCAATTTTT
* * **** * * *
681390 AGAATTCATCAAACGCCATCATTTGA-TTTATATTAAT-TCAGTTTTAAAAAATTAATTTATTTT
1 AAAATTCATAAAAAATTATCATTT-ATTTTATATTAATCT-AGTTTTCAAAAATTCATTCATTTT
681453 CATGAGTTTT
64 CATGAGTTTT
681463 GAATTTTTTT
Statistics
Matches: 471, Mismatches: 76, Indels: 60
0.78 0.13 0.10
Matches are distributed among these distances:
165 63 0.13
166 108 0.23
167 29 0.06
168 119 0.25
169 9 0.02
170 2 0.00
171 3 0.01
172 9 0.02
173 119 0.25
174 10 0.02
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.52
Consensus pattern (166 bp):
AAAATTCATAAAAAATTATCATTTATTTTATATTAATCTAGTTTTCAAAAATTCATTCATTTTCA
TGAGTTTTTTTATTTTTTTCCTTGAAACTTCTCTTTTTCTGAAATATGATGTTTTCTACTTCGTA
AATTTTTTGGAGGATTTTTCTTGATTTTCAATTTTT
Found at i:681282 original size:9 final size:9
Alignment explanation
Indices: 681268--681296 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
681258 TTTTCAAAAA
681268 TTCATTCAT
1 TTCATTCAT
681277 TTCATTCAT
1 TTCATTCAT
681286 TTCATTCAT
1 TTCATTCAT
681295 TT
1 TT
681297 TTTATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (9 bp):
TTCATTCAT
Found at i:681373 original size:173 final size:169
Alignment explanation
Indices: 680871--681451 Score: 505
Period size: 173 Copynumber: 3.4 Consensus size: 169
680861 TATTCATTGA
* * * * * *
680871 TTTTAAATTTTTAAAATTCAACAAATATTTTTTATTTATTTTATGTTAATTTAGTTTTCAAAAAT
1 TTTTCAATTTTTAAAATTCATCAAACA-TTATCATTTATTTTATATTAATTTAGTTTTCAAAAAT
* * * * * *
680936 TCACTCA-TT--TTCATGA-GC-TTTTGATTTTT-TCTTGAAATTCTCTTTTTTTT--GAAATAC
65 TCATTCATTTCATTCATTATTCTTTTTTATTTTTCT-TTGAAA--CTCTTTTTTTTCCTAAATAT
* * * *
680993 GGTGTTTTTTACTTCGTAAATTTTTCTAGGAGGATTTTT-TATGA
127 GATGTTTTCTACTTCGTAAATTTTT-T-CGAGGATTTTTCTATGG
* * * * ** *
681037 TTTTCAATTTTTAAAATTCATAAAAAATTATCATTTACTTCATATTAATCGAGTTTTTAAAAATT
1 TTTTCAATTTTTAAAATTCATCAAACATTATCATTTATTTTATATTAATTTAGTTTTCAAAAATT
* * * * *
681102 CATTCA-TT--TTCATGAGTT-TTTTTATTTTTTTCCTTGAAA--CTTCTCTTTCTCTGAAATAT
66 CATTCATTTCATTCATTA-TTCTTTTT-TATTTTTCTTTGAAACTCTTTTTTTTC-CT-AAATAT
681161 GATGTTTTCTACTTCGTAAATTTTTTCGAAGGGATTTTTCT-TGG
127 GATGTTTTCTACTTCGTAAATTTTTTCG-A-GGATTTTTCTATGG
* *
681205 TTTTCAATTTTTAAAATTTATCAAACATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATT
1 TTTTCAATTTTTAAAATTCATCAAACATTATCATTTATTTTATATTAATTTAGTTTTCAAAAATT
681270 CATTCATTTCATTCATTTCATTCATTTTTTATTTTTCTTTGAAACTCTTTTTTTTCCTAAATATG
66 CATTCATTTCATTCA-TT-ATTC-TTTTTTATTTTTCTTTGAAACTCTTTTTTTTCCTAAATATG
* * *
681335 ATATTTTCTACTCCGTAAATTTTTTCGAGTTGATTTTTCTCT-G
128 ATGTTTTCTACTTCGTAAATTTTTTCGAG--GATTTTTCTATGG
* *** * *
681378 TTTTCAATTTTTAGAATTCATCAAACGCCATCATTTGA-TTTATATTAATTCAGTTTTAAAAAAT
1 TTTTCAATTTTTAAAATTCATCAAACATTATCATTT-ATTTTATATTAATTTAGTTTTCAAAAAT
* *
681442 TAATTTATTT
65 TCATTCATTT
681452 TCATGAGTTT
Statistics
Matches: 339, Mismatches: 51, Indels: 43
0.78 0.12 0.10
Matches are distributed among these distances:
164 7 0.02
165 44 0.13
166 24 0.07
167 6 0.02
168 111 0.33
169 3 0.01
171 5 0.01
172 4 0.01
173 118 0.35
174 9 0.03
175 8 0.02
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.53
Consensus pattern (169 bp):
TTTTCAATTTTTAAAATTCATCAAACATTATCATTTATTTTATATTAATTTAGTTTTCAAAAATT
CATTCATTTCATTCATTATTCTTTTTTATTTTTCTTTGAAACTCTTTTTTTTCCTAAATATGATG
TTTTCTACTTCGTAAATTTTTTCGAGGATTTTTCTATGG
Found at i:683285 original size:128 final size:128
Alignment explanation
Indices: 683085--683410 Score: 507
Period size: 128 Copynumber: 2.5 Consensus size: 128
683075 CCCGTTAATT
* *
683085 TAAACAAATATTAATCGTTTTTAATTTTTTATATTCCTATGGGTA-TCTGTAGGGGTATAAAAGA
1 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATTC-GTAGGGGTATAAAAGA
* *
683149 TTTCAAAAACCTTTT-ATATCTTTTCT-GGTATCCATTAAGGTACGAAATG-TTTTTTTCCAAAC
65 TTTCAAAAA-CTTTTCATATCTTTT-TGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAA
683211 A
128 A
* * *
683212 TAAATAAATATTAATCATTTTTAATTTTTTATATTTCTATCGAGTATTCGTAGGTGTATAAAAGA
1 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTAT-GGGTATTCGTAGGGGTATAAAAGA
683277 TTTCAAAAACTTTTCATATCTTTTTGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAA
65 TTTCAAAAACTTTTCATATCTTTTTGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAA
*
683341 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGGTATTAAAAGA
1 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATTCGTAGGGGTA-TAAAAGA
683406 TTTCA
65 TTTCA
683411 TTTTTTGGTA
Statistics
Matches: 182, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
127 43 0.24
128 73 0.40
129 66 0.36
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.44
Consensus pattern (128 bp):
TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATTCGTAGGGGTATAAAAGAT
TTCAAAAACTTTTCATATCTTTTTGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAA
Found at i:683474 original size:129 final size:124
Alignment explanation
Indices: 683085--683452 Score: 461
Period size: 128 Copynumber: 2.9 Consensus size: 124
683075 CCCGTTAATT
* * *
683085 TAAACAAATATTAATCGTTTTTAATTTTTTATATTCCTATGGGTATCTGTAGGGGTATAAAAGAT
1 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGAT
* *
683150 TTCAAAAACCTTTTATATCTTTTCTGGTATCCATTAAGGTACGAAATG-TTTTTTTCCAAACA
66 TTC--AAA-CTTTTATATCTTTT-AGGTATCCATTAAGGTACGAAATGATTTTTTTCCAAAAA
* * * *
683212 TAAATAAATATTAATCATTTTTAATTTTTTATATTTCTATCGAGTATTCGTAGGTGTATAAAAGA
1 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTAT-GGGTATCCGTAGGGGTATAAAAGA
* *
683277 TTTCAAAAACTTTTCATATCTTTTTGGGTATCCATTAAGGTACAAAATGATTTTTTTCCAAAAA
65 TTTC--AAACTTTT-ATATC-TTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTCCAAAAA
683341 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGGTATTAAAAGA
1 TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGGTA-TAAAAGA
** * * * *
683406 TTTC-ATTTTTTGGTATCTTGGTAGGTTTCCATCAAGGTACGAAATGA
65 TTTCAAACTTTT-ATATCTT-TTAGGTATCCATTAAGGTACGAAATGA
683453 CACTTTTTGA
Statistics
Matches: 212, Mismatches: 23, Indels: 13
0.85 0.09 0.05
Matches are distributed among these distances:
125 2 0.01
126 31 0.15
127 42 0.20
128 70 0.33
129 67 0.32
ACGTcount: A:0.33, C:0.11, G:0.13, T:0.43
Consensus pattern (124 bp):
TAAATAAATATTAATCATTTTTAATTTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGAT
TTCAAACTTTTATATCTTTTAGGTATCCATTAAGGTACGAAATGATTTTTTTCCAAAAA
Found at i:684354 original size:157 final size:156
Alignment explanation
Indices: 683996--684576 Score: 608
Period size: 157 Copynumber: 3.7 Consensus size: 156
683986 ACTTGGTTCG
* * * * *
683996 CTTTTATGCCGAAGGTGGGTATTTAAGATAGGTTCATTCCTTTTATAGTCA-TTTTAAGTCCTTT
1 CTTTTATGCCGAAAGTGGATATTTAGGATAGGTTCATCCCTTTTATAGTCATTTTTAAGTCTTTT
* * * ** * * *
684060 AGGGGTACCGGGATACCTTCATGTCGACGGTATCCCCTAGTGGCATTTTCATATTTTCTTTTAGA
66 AGGGGTACCAGGATACTTTCACGTCGAAAGTATCCCCTAGGGGCATTTTCATAATTTC--TTAAA
* * * *
684125 ATCGAGTCTTAGGTTATCATCGGGTCCA
129 ATCGAGTCCTAGGTTATCACCGAGTCTA
* * *
684153 CTTTTATGCC-AAAGGTGGGTATTTAGGATAGGTTCATCCCTTTTATAGTCCTTTTTAAGTTTTT
1 CTTTTATGCCGAAA-GTGGATATTTAGGATAGGTTCATCCCTTTTATAGTCATTTTTAAGTCTTT
*
684217 TAGGGGTACCAGGATACTTTCACGTCGAAAGTAT-CCCTAGGGGAATTTTCATAATTTCTTAAAA
65 TAGGGGTACCAGGATACTTTCACGTCGAAAGTATCCCCTAGGGGCATTTTCATAATTTCTTAAAA
684281 TCGAGTCCTAGGTTATCACCAGAGTCTA
130 TCGAGTCCTAGGTTATCACC-GAGTCTA
* * * *
684309 TTTTTATACCGAAAGTGGATATTTAGGATAGGTTCACCCCTTTTTATAGTCATTTTTAAGTTTTT
1 CTTTTATGCCGAAAGTGGATATTTAGGATAGGTTCATCCC-TTTTATAGTCATTTTTAAGTCTTT
* * *
684374 TAGGAGTACC-GAGATACTTTCACGTCGAAGGTATCCCCTATGGGCATTTTCATAATTT-TTCAA
65 TAGGGGTACCAG-GATACTTTCACGTCGAAAGTATCCCCTAGGGGCATTTTCATAATTTCTT-AA
* * * * *
684437 AACCGACTCCTATGTTGTCACCGAGTCTG
128 AATCGAGTCCTAGGTTATCACCGAGTCTA
* * ** * * *
684466 CTTTTATGCTGAAGGT-GAGTATTTA-GATAGGTTTGTCCCATGTATAATCATTTTTAAGTCTTT
1 CTTTTATGCCGAAAGTGGA-TATTTAGGATAGGTTCATCCCTTTTATAGTCATTTTTAAGTCTTT
* * *
684529 TAAGGGTATCA-GATAC-TTCGACGTC-AAAGGTAT-CCCTAGAGGCATTTT
65 TAGGGGTACCAGGATACTTTC-ACGTCGAAA-GTATCCCCTAGGGGCATTTT
684577 TGTCATTTTC
Statistics
Matches: 362, Mismatches: 50, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
153 18 0.05
154 14 0.04
155 50 0.14
156 53 0.15
157 147 0.41
158 80 0.22
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.38
Consensus pattern (156 bp):
CTTTTATGCCGAAAGTGGATATTTAGGATAGGTTCATCCCTTTTATAGTCATTTTTAAGTCTTTT
AGGGGTACCAGGATACTTTCACGTCGAAAGTATCCCCTAGGGGCATTTTCATAATTTCTTAAAAT
CGAGTCCTAGGTTATCACCGAGTCTA
Found at i:686307 original size:68 final size:67
Alignment explanation
Indices: 686229--686378 Score: 194
Period size: 68 Copynumber: 2.2 Consensus size: 67
686219 CGTTTGGCTA
* *
686229 TATCTAGCCAAACTCTTTCCACCATCATTTGACTTGCATATGGTCAAACTTCTTTCATTATTTAG
1 TATCTAGCCAAACTCTTTCCACCATCATTTGAC-TACATATAGTCAAACTTCTTTCATTATTTAG
686294 TTG
65 TTG
* * * *
686297 TATCTGGCCAAACTCTTTCCACCATCGTTTGACTACATCTAGTCAAACTTCTTTTATTAGTTTCA
1 TATCTAGCCAAACTCTTTCCACCATCATTTGACTACATATAGTCAAACTTCTTTCATTA-TTT-A
*
686362 -CTG
64 GTTG
*
686365 TATCTAGTCAAACT
1 TATCTAGCCAAACT
686379 ATTTTTCATC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
67 22 0.31
68 48 0.68
69 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.10, T:0.40
Consensus pattern (67 bp):
TATCTAGCCAAACTCTTTCCACCATCATTTGACTACATATAGTCAAACTTCTTTCATTATTTAGT
TG
Found at i:686345 original size:35 final size:35
Alignment explanation
Indices: 686205--686350 Score: 84
Period size: 35 Copynumber: 4.2 Consensus size: 35
686195 TTATGGTTTG
* * * *
686205 ACTCTTTGCACCACCGTTTGGCTATATCTAGCCAA
1 ACTCTTTCCACCATCGTTTGACTACATCTAGCCAA
* * * * *
686240 ACTCTTTCCACCATCATTTGACTTGCATATGGTCAA
1 ACTCTTTCCACCATCGTTTGAC-TACATCTAGCCAA
** * * ** *
686276 ACTTCTTT-CATTAT--TTAG-TTGTATCTGGCCAA
1 AC-TCTTTCCACCATCGTTTGACTACATCTAGCCAA
*
686308 ACTCTTTCCACCATCGTTTGACTACATCTAGTCAA
1 ACTCTTTCCACCATCGTTTGACTACATCTAGCCAA
686343 ACTTCTTT
1 AC-TCTTT
686351 TATTAGTTTC
Statistics
Matches: 80, Mismatches: 24, Indels: 13
0.68 0.21 0.11
Matches are distributed among these distances:
31 5 0.06
32 16 0.20
34 6 0.08
35 29 0.36
36 19 0.24
37 5 0.06
ACGTcount: A:0.23, C:0.27, G:0.11, T:0.38
Consensus pattern (35 bp):
ACTCTTTCCACCATCGTTTGACTACATCTAGCCAA
Found at i:686440 original size:48 final size:48
Alignment explanation
Indices: 686384--686654 Score: 290
Period size: 48 Copynumber: 5.6 Consensus size: 48
686374 AAACTATTTT
* * ***
686384 TCATCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTT
1 TCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAA
* * * * *
686432 TCATCCCTCGTTTAATTGTATTGGTGTTAAGGCCTGGTGAAACTCAAA
1 TCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAA
* * * * *
686480 TCTTCCTTTGTTTCACTGTATTGGTGTTAGGGCCTGGTCAAACTCAAA
1 TCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAA
* * * * * *
686528 TCTTTCCTTGTTTGACTATATTGGTATTAGCGCCTGATCAAACTCAAA
1 TCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAA
* * * ***
686576 TCTTCCCTCGTTTGACTATATTGGTGTTAAGGCCTGGTTAAACTCTTT
1 TCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAA
*
686624 TCATCTCTCGTTTGACTATATTGGTGTTAGG
1 TCATCCCTCGTTTGACTATATTGGTGTTAGG
686655 ACTTGCTTAA
Statistics
Matches: 188, Mismatches: 35, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 188 1.00
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (48 bp):
TCATCCCTCGTTTGACTATATTGGTGTTAGGGCCTGGTCAAACTCAAA
Found at i:686653 original size:144 final size:144
Alignment explanation
Indices: 686393--686654 Score: 330
Period size: 144 Copynumber: 1.8 Consensus size: 144
686383 TTCATCCCTC
* * * *** * *
686393 GTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCATCCCTCGTTTAATTGTATTGGTG
1 GTTTGACTATATTGGTATTAGCGCCTAGTCAAACTCAAATCATCCCTCGTTTAACTATATTGGTG
* * *
686458 TTAAGGCCTGGTGAAACTCAAATCTTCCTTTGTTTCACTGTATTGGTGTTAGGGCCTGGTCAAAC
66 TTAAGGCCTGGTGAAACTCAAATCATCCTTCGTTTCACTATATTGGTGTTAGGGCCTGGTCAAAC
686523 TCAAATCTTTCCTT
131 TCAAATCTTTCCTT
* *
686537 GTTTGACTATATTGGTATTAGCGCCT-GATCAAACTCAAATCTTCCCTCGTTTGACTATATTGGT
1 GTTTGACTATATTGGTATTAGCGCCTAG-TCAAACTCAAATCATCCCTCGTTTAACTATATTGGT
* *** *
686601 GTTAAGGCCTGGTTAAACTCTTTTCAT-CTCTCGTTTGACTATATTGGTGTTAGG
65 GTTAAGGCCTGGTGAAACTCAAATCATCCT-TCGTTTCACTATATTGGTGTTAGG
686655 ACTTGCTTAA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
143 3 0.03
144 95 0.97
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (144 bp):
GTTTGACTATATTGGTATTAGCGCCTAGTCAAACTCAAATCATCCCTCGTTTAACTATATTGGTG
TTAAGGCCTGGTGAAACTCAAATCATCCTTCGTTTCACTATATTGGTGTTAGGGCCTGGTCAAAC
TCAAATCTTTCCTT
Found at i:686668 original size:96 final size:95
Alignment explanation
Indices: 686387--686654 Score: 331
Period size: 96 Copynumber: 2.8 Consensus size: 95
686377 CTATTTTTCA
* * * * *
686387 TCCCTCGTTTGACTGTATTGGTGTTAGGGCCTAGTCAAACTCTTTTCATCCCTCGTTTAATTGTA
1 TCCCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATCTCTCGTTTGACTATA
* *
686452 TTGGTGTTAAGGCCTGGTGAAACTCAAATCT
66 TTGGTGTT-AGGCCTGATCAAACTCAAATCT
* * * *** * *
686483 TCCTTTGTTTCACTGTATTGGTGTTAGGGCCTGGTCAAACTCAAATC-TTTCCTTGTTTGACTAT
1 TCCCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATCT-CTCGTTTGACTAT
*
686547 ATTGGTATTAGCGCCTGATCAAACTCAAATCT
65 ATTGGTGTTAG-GCCTGATCAAACTCAAATCT
* * *
686579 TCCCTCGTTTGACTATATTGGTGTTAAGGCCTGGTTAAACTCTTTTCATCTCTCGTTTGACTATA
1 TCCCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATCTCTCGTTTGACTATA
686644 TTGGTGTTAGG
66 TTGGTGTTAGG
686655 ACTTGCTTAA
Statistics
Matches: 141, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
95 4 0.03
96 135 0.96
97 2 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (95 bp):
TCCCTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATCTCTCGTTTGACTATA
TTGGTGTTAGGCCTGATCAAACTCAAATCT
Found at i:686852 original size:88 final size:87
Alignment explanation
Indices: 686685--686972 Score: 294
Period size: 88 Copynumber: 3.3 Consensus size: 87
686675 TTTTAGTTTG
* * * * * * *
686685 ACGTATGGTTACTACCCTGGTCAAATTCTTTTCATTTTGATTTGATGTAT-AGTTATCACCTTTG
1 ACGTATAGTTAC-ACCCTAGTCAAATTCTTTTCATTTCGATTTGACGTATGA-TTACCACCCTAG
* * * * *
686749 TTAAATTTGCTTCTTTCTTGTCTG
64 TCAAATCTACCTCTTTCTTGTCTA
*
686773 ACGTATAGTTAGCACCCTAGTCAGATTCTTTTCATTTCGATTTGACGTATGATTACCACCCTAGT
1 ACGTATAGTTA-CACCCTAGTCAAATTCTTTTCATTTCGATTTGACGTATGATTACCACCCTAGT
*
686838 CAAATCTACCTCTTT-TCTATCTA
65 CAAATCTACCTCTTTCT-TGTCTA
* * * * *
686861 ACATATGGTTACCACCCTAGTCATATT-TTTTCATTTCGATTTGACGTGTGGTTACCACCCTAGT
1 ACGTATAGTTA-CACCCTAGTCAAATTCTTTTCATTTCGATTTGACGTATGATTACCACCCTAGT
* *
686925 CAAATCTACCTCTTTCCTGTTTA
65 CAAATCTACCTCTTTCTTGTCTA
* *
686948 ACGTATAGTTATCATCCTGGTCAAA
1 ACGTATAGTTA-CACCCTAGTCAAA
686973 CAATTTGCAT
Statistics
Matches: 167, Mismatches: 29, Indels: 9
0.81 0.14 0.04
Matches are distributed among these distances:
87 74 0.44
88 91 0.54
89 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.13, T:0.42
Consensus pattern (87 bp):
ACGTATAGTTACACCCTAGTCAAATTCTTTTCATTTCGATTTGACGTATGATTACCACCCTAGTC
AAATCTACCTCTTTCTTGTCTA
Found at i:686923 original size:43 final size:43
Alignment explanation
Indices: 686681--686929 Score: 205
Period size: 44 Copynumber: 5.7 Consensus size: 43
686671 TTAATTTTAG
* * *
686681 TTTGACGTATGGTTACTACCCTGGTCAAATTCTTTTCATTTTGA
1 TTTGACGTATGGTTACCACCCTAGTCAAATT-TTTTCATTTCGA
* * * * * * *
686725 TTTGATGTATAGTTATCACCTTTGTTAAATTTGCTTC-TTTCTTG-
1 TTTGACGTATGGTTACCACCCTAGTCAAATTT-TTTCATTTC--GA
* * * *
686769 TCTGACGTATAGTTAGCACCCTAGTCAGATTCTTTTCATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAAATT-TTTTCATTTCGA
* *** * *
686813 TTTGACGTATGATTACCACCCTAGTCAAATCTACCTCTTTTCTA
1 TTTGACGTATGGTTACCACCCTAGTCAAAT-TTTTTCATTTCGA
* * * *
686857 TCTAACATATGGTTACCACCCTAGTCATATTTTTTCATTTCGA
1 TTTGACGTATGGTTACCACCCTAGTCAAATTTTTTCATTTCGA
*
686900 TTTGACGTGTGGTTACCACCCTAGTCAAAT
1 TTTGACGTATGGTTACCACCCTAGTCAAAT
686930 CTACCTCTTT
Statistics
Matches: 156, Mismatches: 42, Indels: 15
0.73 0.20 0.07
Matches are distributed among these distances:
43 38 0.24
44 111 0.71
45 7 0.04
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (43 bp):
TTTGACGTATGGTTACCACCCTAGTCAAATTTTTTCATTTCGA
Found at i:687838 original size:20 final size:20
Alignment explanation
Indices: 687815--687868 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
687805 AAGTACCAAG
*
687815 ATGTATCGATATATGTATGA
1 ATGTATCGATACATGTATGA
*
687835 ATGTATTGATACATGTATGA
1 ATGTATCGATACATGTATGA
687855 ATGTATCGATACAT
1 ATGTATCGATACAT
687869 CTAGTTAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATGTATGA
Found at i:691157 original size:42 final size:42
Alignment explanation
Indices: 691111--691209 Score: 108
Period size: 43 Copynumber: 2.3 Consensus size: 42
691101 TCGAGGGACT
* * *
691111 TTCTTTACCCTTTGGCTATCCGTCAGCTTTGACCTAGGAGAC
1 TTCTTTACCCTTTGGCTACCCCTCAACTTTGACCTAGGAGAC
* ** * *
691153 TTCTTTATCTCTTTATCTACCCCTCAACTTTGACTTGGGAGAC
1 TTCTTTA-CCCTTTGGCTACCCCTCAACTTTGACCTAGGAGAC
*
691196 TTCTTTATCCTTTG
1 TTCTTTACCCTTTG
691210 TCTGCCTATC
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
42 11 0.24
43 34 0.76
ACGTcount: A:0.16, C:0.27, G:0.14, T:0.42
Consensus pattern (42 bp):
TTCTTTACCCTTTGGCTACCCCTCAACTTTGACCTAGGAGAC
Found at i:691245 original size:42 final size:42
Alignment explanation
Indices: 691133--691710 Score: 432
Period size: 42 Copynumber: 13.7 Consensus size: 42
691123 TGGCTATCCG
* ** * * *
691133 TCAGCTTTGACCTAGGAGACTTCTTTATCTCTTTATCTACCCC
1 TCAGCTTAGACCCGGGAGACTTCTTTATCT-TTTGTCTGCCCA
* * ** * *
691176 TCAACTTTGACTTGGGAGACTTCTTTATCCTTTGTCTGCCTA
1 TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
*
691218 TCAGCTTATACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
1 TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
* * ** *
691260 TCGGCTCAGACCCAAGAGACTTCTTTATCTTTTGTCTG-CCG
1 TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
* * * * *
691301 T-TGGTTCAGACCCGAGAGACTTCTTTATCTTTTGTCTACCGA
1 TCAGCTT-AGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
* * * *
691343 TTAGCTCAGAGCCGGGAGACTTCTTTATCTCTTTGTCTGCCCG
1 TCAGCTTAGACCCGGGAGACTTCTTTATCT-TTTGTCTGCCCA
* * ** * * * * *
691386 TCAACTTTGAATCGAGAGACTTCCTTATCCTTTATCTGCCCG
1 TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
**
691428 TCAGCTTAGACCCAAGAGACTTCTTTATCTTTTGTCTGCCCA
1 TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
* * * * *
691470 TC-GACTCAAAGCCAGGAGACTTTCTTTATCTTTTGTCTGCCCG
1 TCAG-CTTAGACCCGGGAGAC-TTCTTTATCTTTTGTCTGCCCA
* * * ** * * *
691513 TTAGCTCAGACTC-ATAGACTTTCTTCATCTTTTTTCTGCCCG
1 TCAGCTTAGACCCGGGAGAC-TTCTTTATCTTTTGTCTGCCCA
* * * * *
691555 TC-GACTCAAACCTGAGAGACTTTCTTTATCTTTTGTCTACCCA
1 TCAG-CTTAGACCCGGGAGAC-TTCTTTATCTTTTGTCTGCCCA
* * *
691598 TC-GACTTAGACCCGGGAGACTTCTTTATCCTTTGTCTGTCCG
1 TCAG-CTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
** * * *
691640 TCAGCTTAGACCTAGGAGACTTTTTTGTTTTTTGTCTGCCCA
1 TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
*
691682 TC-GACTTAGACTCGGGAGACTTCTTTATC
1 TCAG-CTTAGACCCGGGAGACTTCTTTATC
691711 CTTCATCTAC
Statistics
Matches: 425, Mismatches: 99, Indels: 23
0.78 0.18 0.04
Matches are distributed among these distances:
40 2 0.00
41 35 0.08
42 260 0.61
43 127 0.30
44 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (42 bp):
TCAGCTTAGACCCGGGAGACTTCTTTATCTTTTGTCTGCCCA
Found at i:691289 original size:127 final size:126
Alignment explanation
Indices: 691060--691710 Score: 508
Period size: 127 Copynumber: 5.1 Consensus size: 126
691050 CGACAGACTT
** * * *
691060 GAGAGAC-TCGTTTATCCTTTTGTCTACCTGTCCG-CTCAGACTCGAGG-GACTTTCTTTACCCT
1 GAGAGACTTC-TTTAT-CTTTTGTCTACCCAT-CGACTCAGACCCG-GGAGAC-TTCTTTATCTT
* ** ** * * * * *
691122 TTGGCTATCCGTCAGCTTTGACCTAGGAGACTTCTTTATCTCTTTATCTACCCCTCAACTTTGAC
61 TTGTCTGCCCGTCAGCTCAGACCCAAGAGACTTCTTTATCT-TTTATCTGCCCGTCAACTTAGAC
**
691187 TT
125 CC
* * * * * *
691189 GGGAGACTTCTTTATCCTTTGTCTGCCTATC-AGCTTATACCCGGGAGACTTCTTTATCTTTTGT
1 GAGAGACTTCTTTATCTTTTGTCTACCCATCGA-CTCAGACCCGGGAGACTTCTTTATCTTTTGT
* * * ***
691253 CTGCCCATCGGCTCAGACCCAAGAGACTTCTTTATCTTTTGTCTG-CCGT-TGGTTCAGACCC
65 CTGCCCGTCAGCTCAGACCCAAGAGACTTCTTTATCTTTTATCTGCCCGTCAACTT-AGACCC
* * *
691314 GAGAGACTTCTTTATCTTTTGTCTACCGAT-TAGCTCAGAGCCGGGAGACTTCTTTATCTCTTTG
1 GAGAGACTTCTTTATCTTTTGTCTACCCATCGA-CTCAGACCCGGGAGACTTCTTTATCT-TTTG
* ** ** * * * *
691378 TCTGCCCGTCAACTTTGAATCGAGAGACTTCCTTATCCTTTATCTGCCCGTCAGCTTAGACCC
64 TCTGCCCGTCAGCTCAGACCCAAGAGACTTCTTTATCTTTTATCTGCCCGTCAACTTAGACCC
* * * * *
691441 AAGAGACTTCTTTATCTTTTGTCTGCCCATCGACTCAAAGCCAGGAGACTTTCTTTATCTTTTGT
1 GAGAGACTTCTTTATCTTTTGTCTACCCATCGACTCAGACCCGGGAGAC-TTCTTTATCTTTTGT
* * * * * * * * *
691506 CTGCCCGTTAGCTCAGACTC-ATAGACTTTCTTCATCTTTTTTCTGCCCGTCGACTCAAACCT
65 CTGCCCGTCAGCTCAGACCCAAGAGAC-TTCTTTATCTTTTATCTGCCCGTCAACTTAGACCC
* *
691568 GAGAGACTTTCTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAGACTTCTTTATCCTTTGT
1 GAGAGAC-TTCTTTATCTTTTGTCTACCCATCGACTCAGACCCGGGAGACTTCTTTATCTTTTGT
* * * * * * * * * * *
691633 CTGTCCGTCAGCTTAGACCTAGGAGACTTTTTTGTTTTTTGTCTGCCCATCGACTTAGACTC
65 CTGCCCGTCAGCTCAGACCCAAGAGACTTCTTTATCTTTTATCTGCCCGTCAACTTAGACCC
*
691695 GGGAGACTTCTTTATC
1 GAGAGACTTCTTTATC
691711 CTTCATCTAC
Statistics
Matches: 415, Mismatches: 93, Indels: 31
0.77 0.17 0.06
Matches are distributed among these distances:
124 2 0.00
125 57 0.14
126 59 0.14
127 207 0.50
128 77 0.19
129 11 0.03
130 2 0.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.37
Consensus pattern (126 bp):
GAGAGACTTCTTTATCTTTTGTCTACCCATCGACTCAGACCCGGGAGACTTCTTTATCTTTTGTC
TGCCCGTCAGCTCAGACCCAAGAGACTTCTTTATCTTTTATCTGCCCGTCAACTTAGACCC
Found at i:691447 original size:85 final size:84
Alignment explanation
Indices: 691191--691680 Score: 397
Period size: 85 Copynumber: 5.8 Consensus size: 84
691181 TTTGACTTGG
* ** * * *
691191 GAGACTTCTTTATCCTTTGTCTGCCTATCAGCTT-ATACCCGGGAGACTTCTTTATCTTTTGTCT
1 GAGACTTCTTTATCTTTTGTCTGCCCGTCAACTTCA-AACCGAGAGACTTCTTTATCTTTTGTCT
* *
691255 GCCCATCGGCTCAGACCCAA
65 GCCCGTCAGCTCAGACCCAA
*** *
691275 GAGACTTCTTTATCTTTTGTCTG-CCGT-TGGTTCAGACCCGAGAGACTTCTTTATCTTTTGTCT
1 GAGACTTCTTTATCTTTTGTCTGCCCGTCAACTTCA-AACCGAGAGACTTCTTTATCTTTTGTCT
* * * **
691338 -ACCGATTAGCTCAGAGCCGG
65 GCCCG-TCAGCTCAGACCCAA
** * * * *
691358 GAGACTTCTTTATCTCTTTGTCTGCCCGTCAACTTTGAATCGAGAGACTTCCTTATCCTTTATCT
1 GAGACTTCTTTATCT-TTTGTCTGCCCGTCAACTTCAAACCGAGAGACTTCTTTATCTTTTGTCT
*
691423 GCCCGTCAGCTTAGACCCAA
65 GCCCGTCAGCTCAGACCCAA
* *
691443 GAGACTTCTTTATCTTTTGTCTGCCCATCGAC-TCAAAGCC-AGGAGACTTTCTTTATCTTTTGT
1 GAGACTTCTTTATCTTTTGTCTGCCCGTCAACTTCAAA-CCGA-GAGAC-TTCTTTATCTTTTGT
* *
691506 CTGCCCGTTAGCTCAGACTC-A
63 CTGCCCGTCAGCTCAGACCCAA
* * * *
691527 TAGACTTTCTTCATCTTTTTTCTGCCCGTCGAC-TCAAACCTGAGAGACTTTCTTTATCTTTTGT
1 GAGAC-TTCTTTATCTTTTGTCTGCCCGTCAACTTCAAACC-GAGAGAC-TTCTTTATCTTTTGT
* * * **
691591 CTACCCATC-GACTTAGACCCGG
63 CTGCCCGTCAG-CTCAGACCCAA
* * * * * * * *
691613 GAGACTTCTTTATCCTTTGTCTGTCCGTCAGCTT-AGACCTAGGAGACTTTTTTGTTTTTTGTCT
1 GAGACTTCTTTATCTTTTGTCTGCCCGTCAACTTCAAACCGA-GAGACTTCTTTATCTTTTGTCT
691677 GCCC
65 GCCC
691681 ATCGACTTAG
Statistics
Matches: 326, Mismatches: 64, Indels: 32
0.77 0.15 0.08
Matches are distributed among these distances:
82 5 0.02
83 59 0.18
84 77 0.24
85 174 0.53
86 11 0.03
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (84 bp):
GAGACTTCTTTATCTTTTGTCTGCCCGTCAACTTCAAACCGAGAGACTTCTTTATCTTTTGTCTG
CCCGTCAGCTCAGACCCAA
Found at i:691732 original size:84 final size:85
Alignment explanation
Indices: 691129--691718 Score: 263
Period size: 85 Copynumber: 7.0 Consensus size: 85
691119 CCTTTGGCTA
* * * * * **
691129 TCCGTCAGCTTTGACCTAGGAGAC-TTCTTTATCTCTTTATCTACCCCTCAACTTTGACTTGGGA
1 TCCGTCAGCTTAGACCTAGGAGACTTTCTTTATCT-TTTGTCTACCCATCGACTTAGACCCGGGA
*
691193 GACTTCTTTATCCTT--TGTC
65 GACTTCTTTATCCTTCATCTC
* * ** * * * **
691212 TGCCTATCAGCTTATACCCGGGAGAC-TTCTTTATCTTTTGTCTGCCCATCGGCTCAGACCCAAG
1 T-CC-GTCAGCTTAGACCTAGGAGACTTTCTTTATCTTTTGTCTACCCATCGACTTAGACCCGGG
* *
691276 AGACTTCTTTAT-CTT-TTGTC
64 AGACTTCTTTATCCTTCATCTC
* * * * * * *
691296 TGCCGT-TGGTTCAGACC-CGAGAGAC-TTCTTTATCTTTTGTCTACCGAT-TAGCTCAGAGCCG
1 T-CCGTCAGCTT-AGACCTAG-GAGACTTTCTTTATCTTTTGTCTACCCATCGA-CTTAGACCCG
**
691357 GGAGACTTCTTTATCTCTTTGTCTGC
62 GGAGACTTCTTTATC-CTTCATCT-C
* * * * * * * * * **
691383 -CCGTCAACTTTGA-ATCGAGAGAC-TTCCTTATCCTTTATCTGCCCGTC-AGCTTAGACCCAAG
1 TCCGTCAGCTTAGACCTAG-GAGACTTTCTTTATCTTTTGTCTACCCATCGA-CTTAGACCCGGG
* **
691444 AGACTTCTTTATCTTTTGTCTGC
64 AGACTTCTTTATCCTTCATCT-C
* * * * * * * * *
691467 -CCATC-GACTCAAAGCC-AGGAGACTTTCTTTATCTTTTGTCTGCCCGT-TAGCTCAGACTC-A
1 TCCGTCAG-CTTAGA-CCTAGGAGACTTTCTTTATCTTTTGTCTACCCATCGA-CTTAGACCCGG
* * * **
691527 TAGACTTTCTTCATCTTTTTTCTGC
63 GAGAC-TTCTTTATCCTTCATCT-C
* *
691552 -CCGTC-GACTCAAACCT-GAGAGACTTTCTTTATCTTTTGTCTACCCATCGACTTAGACCCGGG
1 TCCGTCAG-CTTAGACCTAG-GAGACTTTCTTTATCTTTTGTCTACCCATCGACTTAGACCCGGG
** *
691614 AGACTTCTTTATCCTTTGTCTG
64 AGACTTCTTTATCCTTCATCTC
* * * *
691636 TCCGTCAGCTTAGACCTAGGAGACTTT-TTTGTTTTTTGTCTGCCCATCGACTTAGACTCGGGAG
1 TCCGTCAGCTTAGACCTAGGAGACTTTCTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAG
691700 ACTTCTTTATCCTTCATCT
66 ACTTCTTTATCCTTCATCT
691719 ACTTGTCGAC
Statistics
Matches: 400, Mismatches: 81, Indels: 51
0.75 0.15 0.10
Matches are distributed among these distances:
82 4 0.01
83 56 0.14
84 118 0.29
85 210 0.52
86 11 0.03
87 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.38
Consensus pattern (85 bp):
TCCGTCAGCTTAGACCTAGGAGACTTTCTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAG
ACTTCTTTATCCTTCATCTC
Found at i:691758 original size:84 final size:84
Alignment explanation
Indices: 691578--691758 Score: 195
Period size: 84 Copynumber: 2.2 Consensus size: 84
691568 GAGAGACTTT
** *
691578 CTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAGACTTCTTTATCCTTTGTCTGTCCGTCA
1 CTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAGACTTCTTTATCCTTCATCTCTCCGTCA
* * *
691643 GCTTAGACCTAGGAGACTT
66 GCTTAGACCCAGGACACTC
* * * * * *
691662 TTTTGTTTTTTGTCTGCCCATCGACTTAGACTCGGGAGACTTCTTTATCCTTCATCTACT-TGTC
1 CTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAGACTTCTTTATCCTTCATCT-CTCCGTC
* *
691726 -GACTTAGTCCCAGGTCACTC
65 AG-CTTAGACCCAGGACACTC
*
691746 CTTTATCGTTTGT
1 CTTTATCTTTTGT
691759 TGACCCGATT
Statistics
Matches: 77, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
83 1 0.01
84 75 0.97
85 1 0.01
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (84 bp):
CTTTATCTTTTGTCTACCCATCGACTTAGACCCGGGAGACTTCTTTATCCTTCATCTCTCCGTCA
GCTTAGACCCAGGACACTC
Found at i:693990 original size:21 final size:20
Alignment explanation
Indices: 693960--693998 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
693950 CACATTTTTA
693960 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
693980 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
693999 AGGTCCCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:694081 original size:19 final size:19
Alignment explanation
Indices: 694035--694119 Score: 58
Period size: 19 Copynumber: 4.7 Consensus size: 19
694025 TTTCAACAAT
694035 TTGTATCGATACA-AACTGTAA
1 TTGTATCGATACATAA--GT-A
*
694056 CTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
694075 TTGTATCG----AT--GTA
1 TTGTATCGATACATAAGTA
* *
694088 ATGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
*
694107 TTGTATTGATACA
1 TTGTATCGATACA
694120 ATGTATCGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
13 10 0.20
15 2 0.04
17 2 0.04
19 21 0.41
20 2 0.04
21 12 0.24
22 2 0.04
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:694093 original size:32 final size:32
Alignment explanation
Indices: 694051--694127 Score: 109
Period size: 32 Copynumber: 2.4 Consensus size: 32
694041 CGATACAAAC
694051 TGTAACTGTATCGATACATAAGTATTGTATCGA
1 TGTAA-TGTATCGATACATAAGTATTGTATCGA
* *
694084 TGTAATGTATCGATACATAAGTTTTGTATTGA
1 TGTAATGTATCGATACATAAGTATTGTATCGA
**
694116 TACAATGTATCG
1 TGTAATGTATCG
694128 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 35 0.88
33 5 0.12
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.39
Consensus pattern (32 bp):
TGTAATGTATCGATACATAAGTATTGTATCGA
Found at i:699704 original size:52 final size:52
Alignment explanation
Indices: 699558--699686 Score: 222
Period size: 52 Copynumber: 2.5 Consensus size: 52
699548 CAAAATATGA
* *
699558 AAATTTGCGTGCATGTATCGATACATTTTATAGTGTATCGATACATCTCGGC
1 AAATTTGCATGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
*
699610 AAATTTGCATGCATGTATCGATACATTTTATAGTGTATCGATATATCTAGGC
1 AAATTTGCATGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
*
699662 AAATTTGCTTGCATGTATCGATACA
1 AAATTTGCATGCATGTATCGATACA
699687 AAGATCAGTG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 73 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (52 bp):
AAATTTGCATGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
Found at i:699713 original size:13 final size:13
Alignment explanation
Indices: 699695--699719 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
699685 CAAAGATCAG
699695 TGTATCGATACAA
1 TGTATCGATACAA
699708 TGTATCGATACA
1 TGTATCGATACA
699720 GTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:699799 original size:13 final size:13
Alignment explanation
Indices: 699781--699805 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
699771 ACAACACTTA
699781 TGTATCGATACAT
1 TGTATCGATACAT
699794 TGTATCGATACA
1 TGTATCGATACA
699806 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:699804 original size:32 final size:33
Alignment explanation
Indices: 699763--699825 Score: 119
Period size: 32 Copynumber: 1.9 Consensus size: 33
699753 AGCTTAAATC
699763 GTATCGATACAACAC-TTATGTATCGATACATT
1 GTATCGATACAACACTTTATGTATCGATACATT
699795 GTATCGATACAACACTTTATGTATCGATACA
1 GTATCGATACAACACTTTATGTATCGATACA
699826 AATCATTGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (33 bp):
GTATCGATACAACACTTTATGTATCGATACATT
Found at i:700472 original size:55 final size:52
Alignment explanation
Indices: 700403--701236 Score: 576
Period size: 43 Copynumber: 17.8 Consensus size: 52
700393 GATAAAGGGA
* * * * * **
700403 CCAATACGTTGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATG-G-AAAAGG-TG
* * * *
700458 TCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
700510 CCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * * *
700553 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--ATGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
700602 CCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * * * *
700645 CCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGAT-G--ATGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
700694 CCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * * * *
700737 CTAATGTGCTGATTTAAGGCCAGCTATATTGGACTTAAAGAT-G--ATGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
*
700786 CCAATATGCTGATTCAAGGCCAGCTATATTTGAC-T-----T---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* *
700829 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * *
700878 CCAATGTGCTGATTCAAGGCCAGCGATATTAGAC-T-----TGG---AGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * *
700921 CCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA---AAAAGATG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* *
700970 CTAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---AAAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
*
701013 CCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
*
701062 CCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T-G--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * * *
701105 CCAATGTGTTGATTCAAGGCCAACTACATTGGACTT--A-A-GG---A--TG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
* * *
701148 CTAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
*
701197 CCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAG
1 CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
701237 GAAGATTCCA
Statistics
Matches: 643, Mismatches: 76, Indels: 126
0.76 0.09 0.15
Matches are distributed among these distances:
43 293 0.46
44 7 0.01
45 2 0.00
46 4 0.01
47 1 0.00
48 6 0.01
49 258 0.40
51 1 0.00
52 32 0.05
53 6 0.01
54 1 0.00
55 32 0.05
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (52 bp):
CCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGGAAAAGGTG
Found at i:700640 original size:92 final size:92
Alignment explanation
Indices: 700450--701236 Score: 1136
Period size: 92 Copynumber: 8.5 Consensus size: 92
700440 AAGATGAGAA
* * *
700450 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAAT
700515 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
*
700546 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGATGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
700611 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
700638 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTAGACTTAAAGATGATGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
700703 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * *
700730 AAAGGTGCTAATGTGCTGATTTAAGGCCAGCTATATTGGACTTAAAGATGATGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
700795 TGATTCAAGGCCAGCTATATTTGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * *
700822 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
* *
700887 TGATTCAAGGCCAGCGATATTAGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
** ** *
700914 GGAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAAAAGATGCTAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
700979 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* *
701006 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
701071 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * * * *
701098 GAAGGTGCCAATGTGTTGATTCAAGGCCAACTACATTGGACTT--A-A-G--GATGCTAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
*
701157 TGATTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * *
701184 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCTAGCTATATTGGACTTAAAG
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAG
701237 GAAGATTCCA
Statistics
Matches: 634, Mismatches: 48, Indels: 19
0.90 0.07 0.03
Matches are distributed among these distances:
86 35 0.06
88 1 0.00
89 1 0.00
90 1 0.00
92 547 0.86
94 2 0.00
95 42 0.07
96 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.27
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:700734 original size:22 final size:22
Alignment explanation
Indices: 700709--700776 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
700699 ATGCTGATTC
700709 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* *
700731 AAGG--TGCTA-ATGTGCTGA-TTT
1 AAGGCCAGCTATAT-TG--GACTTA
700752 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
700774 AAG
1 AAG
700777 ATGATGATGC
Statistics
Matches: 35, Mismatches: 4, Indels: 14
0.66 0.08 0.26
Matches are distributed among these distances:
19 2 0.06
20 6 0.17
21 8 0.23
22 11 0.31
23 6 0.17
24 2 0.06
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:700774 original size:21 final size:21
Alignment explanation
Indices: 700709--700774 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
700699 ATGCTGATTC
700709 AAGGCCAGCTATATTGGACTT
1 AAGGCCAGCTATATTGGACTT
* *
700730 AAAGG--TGCTA-ATGTGCTGATTT
1 -AAGGCCAGCTATAT-TG--GACTT
700752 AAGGCCAGCTATATTGGACTT
1 AAGGCCAGCTATATTGGACTT
700773 AA
1 AA
700775 AGATGATGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 13
0.67 0.08 0.25
Matches are distributed among these distances:
19 2 0.06
20 6 0.18
21 10 0.29
22 8 0.24
23 6 0.18
24 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (21 bp):
AAGGCCAGCTATATTGGACTT
Found at i:701312 original size:33 final size:33
Alignment explanation
Indices: 701244--701594 Score: 555
Period size: 33 Copynumber: 10.7 Consensus size: 33
701234 AAGGAAGATT
* * *
701244 CCACCAACTTGTGTGGGCTTTTGA-AGGGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
*
701276 CCACCAACTTGTGTGGGCTTTAGAGAAGGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
* *
701309 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
701342 CCACCGACTTGTGTGGGCTTTAGAGAA-GGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
* *
701374 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
* * *
701407 CCACCGACTTGTGTAGGCTTTGGAGAAGGGTTT
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
701440 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
701473 CCACCGACTTGTGTGGGCTTTAGAGAA-GGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
* **
701505 CCACCGACTTGTGTGGGCTTTAGAAAAACGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
701538 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
701571 CCACCGACTTGTGTGGGCTTTAGA
1 CCACCGACTTGTGTGGGCTTTAGA
701595 AAAAGGTGAA
Statistics
Matches: 296, Mismatches: 20, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
32 85 0.29
33 211 0.71
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (33 bp):
CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTG
Found at i:701413 original size:98 final size:99
Alignment explanation
Indices: 701244--701601 Score: 578
Period size: 98 Copynumber: 3.6 Consensus size: 99
701234 AAGGAAGATT
* * * * * *
701244 CCACCAACTTGTGTGGGCTTTTGA-AGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTT
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTT
701308 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
66 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
701342 CCACCGACTTGTGTGGGCTTTAGAGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTT
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTT
* * * * *
701406 GCCACCGACTTGTGTAGGCTTTGGAGAAGGGTTT
66 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
*
701440 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAAGGTT
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTT
*
701504 GCCACCGACTTGTGTGGGCTTTAGAAAAACGTTG
66 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
701538 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
1 CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
701602 GAAAGATGCC
Statistics
Matches: 238, Mismatches: 19, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
98 203 0.85
99 35 0.15
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (99 bp):
CCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAAAGGTT
GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTG
Found at i:701477 original size:131 final size:131
Alignment explanation
Indices: 701244--701601 Score: 610
Period size: 131 Copynumber: 2.7 Consensus size: 131
701234 AAGGAAGATT
* * ** *
701244 CCACCAACTTGTGTGGGCTTTTG-AAGGGGTTGCCACCAACTTGTGTGGGCTTTAGAGAAGGGTT
1 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTT
701308 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
66 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
701373 G
131 G
* *
701374 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTAGGCTTTGGAGAAGGGTT
1 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTT
* * *
701439 TCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
66 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
701504 G
131 G
*
701505 CCACCGACTTGTGTGGGCTTTAGAAAAACGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTT
1 CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTT
701570 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
66 GCCACCGACTTGTGTGGGCTTTAGAAAAAGGT
701602 GAAAGATGCC
Statistics
Matches: 211, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
130 21 0.10
131 190 0.90
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (131 bp):
CCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTT
GCCACCGACTTGTGTGGGCTTTAGAAAAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
G
Found at i:701640 original size:27 final size:27
Alignment explanation
Indices: 701608--701661 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
701598 AGGTGAAAGA
701608 TGCCAC-GAAGTTGTGGACTTAAAAGGG
1 TGCCACGGAA-TTGTGGACTTAAAAGGG
701635 TGCCACGGAATTGTGGACTTAAAAGGG
1 TGCCACGGAATTGTGGACTTAAAAGGG
701662 AAAAAGAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.30, C:0.15, G:0.33, T:0.22
Consensus pattern (27 bp):
TGCCACGGAATTGTGGACTTAAAAGGG
Found at i:701708 original size:34 final size:33
Alignment explanation
Indices: 701628--702271 Score: 559
Period size: 34 Copynumber: 19.8 Consensus size: 33
701618 TTGTGGACTT
* *
701628 AAAAGGGTGCCACGGAATTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-GG
* *
701662 AAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* * *
701696 AAAAAGAATGCCACGGAGTTATGGGCTT------
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
*
701724 -AAAAGGTGCCACGGAGTTGTGGACTTAGAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
701756 AAAAAGAGTGCCACGGAGTTGTGGGCTT-AAACG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
*
701789 -----GGTGCCACGGATTTGTGGACTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
701818 AAAAAGAATGCCATGGAGTTGTGGACTTAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* * *
701852 AATAAGGTGCCACGGAGGTGTGGGCTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
**
701885 AAAAAAGGGTGCCACGGAGTCATGGACTTAAAA-G
1 -AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
701919 -----GGTGCCACGGAGTTGTGGACTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
701948 AAAAAGATGCCACAGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
** *
701981 AGCAAGGTGCCATGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
702014 AAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 -AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* * * *
702049 AACAAGGTACCACGGAGGTGTGGGCTT-AAA--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * **
702079 AAAGA-GTGCCACAGAGTCATGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* *
702112 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
702146 AAAAAGGTACCACGGAGTTGTGGATTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
702179 AACAAGATGCCACAGG-GTCGTGGACTTAAAAGG
1 AAAAAGGTGCCAC-GGAGTTGTGGACTTAAAAGG
* **
702212 AACAAAGAGTGCCACGGAGTTGTGGGCTTTGAA--
1 AA-AAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* *
702245 AAGAAGGTGCCACGGAGTCGTGGACTT
1 AAAAAGGTGCCACGGAGTTGTGGACTT
702272 TAAGAAGGTA
Statistics
Matches: 496, Mismatches: 76, Indels: 79
0.76 0.12 0.12
Matches are distributed among these distances:
26 18 0.04
27 40 0.08
28 9 0.02
29 18 0.04
30 5 0.01
31 19 0.04
32 9 0.02
33 130 0.26
34 144 0.29
35 104 0.21
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.19
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:701734 original size:26 final size:26
Alignment explanation
Indices: 701704--701755 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
701694 GGAAAAAGAA
*
701704 TGCCACGGAGTTATGGGCTTAAAAGG
1 TGCCACGGAGTTATGGACTTAAAAGG
* *
701730 TGCCACGGAGTTGTGGACTTAGAAGG
1 TGCCACGGAGTTATGGACTTAAAAGG
701756 AAAAAGAGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.37, T:0.23
Consensus pattern (26 bp):
TGCCACGGAGTTATGGACTTAAAAGG
Found at i:701736 original size:95 final size:94
Alignment explanation
Indices: 701603--702211 Score: 496
Period size: 96 Copynumber: 6.3 Consensus size: 94
701593 GAAAAAGGTG
* *
701603 AAAGATGCCACGAAGTTGTGGACTTAAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGAAAAAG
1 AAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGAAAAAG
701668 AGTGCCACGAAGTTGTGGGCTTAAAAGGAA
65 AGTGCCACGAAGTTGTGGGCTTAAAAGGAA
* * *
701698 AAAGAATGCCACGGAGTTATGGGCTTAAAA-GGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAG
1 AAAG-ATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG
* *
701762 AGTGCCACGGAGTTGTGGGCTTAAACGG--
65 AGTGCCACGAAGTTGTGGGCTTAAAAGGAA
* *
701790 ---G-TGCCACGGATTTGTGGACTTTAAAAGGAAAAAGAATGCCATGGAGTTGTGGACTTAAAAG
1 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGG-----G--TGCCACGGAGTTGTGGACTTAAAAG
* * *
701851 GAATAAG-GTGCCACGGAGGTGTGGGCTTAAAAGGAAA
58 GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGG-AA
* **
701888 AAAGGGTGCCACGGAGTCATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGAAAAA
1 AAA-GATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
* *
701953 GA-TGCCAC-AGAGTTGTGGACTTAAAAGGAG
64 GAGTGCCACGA-AGTTGTGGGCTTAAAAGGAA
* * *
701983 CAAGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAGATGCCACGGAGTTGTGGACTT--------AAAAGGGTGCCACGGAGTTGTGGACTTAAAAG
* * * *
702048 GAACAAG-GTACCACGGAGGTGTGGGCTT-AAA--AA
58 GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAA
* * ** * *
702081 AGAG-TGCCACAGAGTCATGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAA
1 AAAGATGCCACGGAGTTGTGGAC-TT-AAAAG-----GGTGCCACGGAGTTGTGGAC-TTAAAAG
* * **
702145 GAAAAAG-GTACCACGGAGTTGTGGATTTAAAAGGAA
58 GAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAA
* *
702181 CAAGATGCCACAGG-GTCGTGGACTTAAAAGG
1 AAAGATGCCAC-GGAGTTGTGGACTTAAAAGG
702212 AACAAAGAGT
Statistics
Matches: 420, Mismatches: 51, Indels: 87
0.75 0.09 0.16
Matches are distributed among these distances:
87 15 0.04
88 6 0.01
89 2 0.00
91 5 0.01
94 55 0.13
95 73 0.17
96 105 0.25
97 45 0.11
98 8 0.02
99 5 0.01
100 9 0.02
101 42 0.10
102 35 0.08
103 15 0.04
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.19
Consensus pattern (94 bp):
AAAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA
GTGCCACGAAGTTGTGGGCTTAAAAGGAA
Found at i:701769 original size:129 final size:129
Alignment explanation
Indices: 701628--702271 Score: 576
Period size: 129 Copynumber: 4.9 Consensus size: 129
701618 TTGTGGACTT
* * *
701628 AAAAGGGTGCCACGGAATTGTGGACTTAAAAGGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GG-AAAAG-GTGCCACGGAGTTGTGGACTTAAA
* * *
701693 AGGAAAAAGAATGCCACGGAGTTATGGGCTT-AA-AAGGTGCCACGGAGTTGTGGACTTAGAAGG
63 AGGAAAAAGAATGCCACGGAGTTGTGGACTTAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGG
701756 -A
128 AA
* * * *
701757 AAAAGAGTGCCACGGAGTTGTGGGCTT-AAACG----GGTGCCACGGATTTGTGGACTTTAAAAG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAG
* * *
701817 GAAAAAGAATGCCATGGAGTTGTGGACTTAAAAGGAATAAGGTGCCACGGAGGTGTGGGCTTAAA
65 GAAAAAGAATGCCACGGAGTTGTGGACTT-AAA-G---AAGGTGCCACGGAGTTGTGGACTTAAA
701882 AGGAA
125 AGGAA
**
701887 AAAAGGGTGCCACGGAGTCATGGACTTAAAA-G----GGTGCCACGGAGTTGTGGACTTTAAAAG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAG
* *
701947 GAAAAAG-ATGCCACAGAGTTGTGGACTTAAAAGGAGCAAGGTGCCATGGAGTTGTGGACTTAAA
65 GAAAAAGAATGCCACGGAGTTGTGGACTT--AA--AG-AAGGTGCCACGGAGTTGTGGACTTAAA
702011 AGGAA
125 AGGAA
* * *
702016 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTACCACGGAGGTGTGGGCTT---A-
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAGGTGCCACGGAGTTGTGGACTTAAAAG
* * ** *
702077 -AAAAAGAGTGCCACAGAGTCATGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTA
65 GAAAAAGAATGCCACGGAGTTGTGGAC-TT--AAAG---AAGGTGCCACGGAGTTGTGGAC-TTA
*
702141 AAAAG-A
123 AAAGGAA
* * * *
702147 AAAA-GGTACCACGGAGTTGTGGATTTAAAAGGAACAAGATGCCACAGG-GTCGTGGACTTAAAA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAA-AAGGTGCCAC-GGAGTTGTGGACTTAAAA
* * *
702210 GGAACAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGAGTCGTGGACTT
64 GGAA-AAAGAATGCCACGGAGTTGTGGAC-TT--AAAGAAGGTGCCACGGAGTTGTGGACTT
702272 TAAGAAGGTA
Statistics
Matches: 434, Mismatches: 50, Indels: 59
0.80 0.09 0.11
Matches are distributed among these distances:
121 16 0.04
122 34 0.08
124 2 0.00
127 1 0.00
128 3 0.01
129 136 0.31
130 124 0.29
131 37 0.09
132 10 0.02
133 21 0.05
134 2 0.00
135 19 0.04
136 29 0.07
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.19
Consensus pattern (129 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
AAAAAGAATGCCACGGAGTTGTGGACTTAAAGAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:701917 original size:27 final size:28
Alignment explanation
Indices: 701887--701947 Score: 97
Period size: 27 Copynumber: 2.2 Consensus size: 28
701877 TTAAAAGGAA
701887 AAAAGGGTGCCACGGAGTCATGGAC-TT
1 AAAAGGGTGCCACGGAGTCATGGACTTT
**
701914 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTCATGGACTTT
701942 AAAAGG
1 AAAAGG
701948 AAAAAGATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 23 0.74
28 8 0.26
ACGTcount: A:0.31, C:0.15, G:0.34, T:0.20
Consensus pattern (28 bp):
AAAAGGGTGCCACGGAGTCATGGACTTT
Found at i:702134 original size:63 final size:62
Alignment explanation
Indices: 702014--702146 Score: 169
Period size: 63 Copynumber: 2.1 Consensus size: 62
702004 ACTTAAAAGG
* * ** *
702014 AAAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTACCACGGAGGTGTGGGCTT
1 AAAAAAGAGTGCCACAGAGTCATGGACTTAAAAGGAAAAAGGTACCACGGAGGTGTGGGCTT
* *
702076 AAAAAAGAGTGCCACAGAGTCATGGACTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTT
1 AAAAAAGAGTGCCACAGAGTCATGGAC-TT-AAAAGGAAAAAGGTACCACGGAGGTGTGGGCTT
*
702139 TAAAAAGA
1 AAAAAAGA
702147 AAAAGGTACC
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
62 23 0.38
63 34 0.56
64 4 0.07
ACGTcount: A:0.37, C:0.14, G:0.32, T:0.18
Consensus pattern (62 bp):
AAAAAAGAGTGCCACAGAGTCATGGACTTAAAAGGAAAAAGGTACCACGGAGGTGTGGGCTT
Found at i:703278 original size:29 final size:27
Alignment explanation
Indices: 703230--703287 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
703220 TTTTCCTTTC
703230 TCTTCTTTTTTTTTTGTTTG-TTTGTT
1 TCTTCTTTTTTTTTTGTTTGTTTTGTT
*
703256 TCTTCTTTTTTTTTCCTTTTTTGTTTTGTT
1 TCTTC-TTTTTTTT--TTGTTTGTTTTGTT
703286 TC
1 TC
703288 ATTTTTGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 5 0.19
27 8 0.30
29 6 0.22
30 8 0.30
ACGTcount: A:0.00, C:0.12, G:0.09, T:0.79
Consensus pattern (27 bp):
TCTTCTTTTTTTTTTGTTTGTTTTGTT
Found at i:703553 original size:18 final size:18
Alignment explanation
Indices: 703532--703574 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
703522 ACTTTGCACC
703532 TTTTTTTCT-GTGTTTGTT
1 TTTTTTTCTGGT-TTTGTT
*
703550 TTTTTTTTTGGTTTTGTT
1 TTTTTTTCTGGTTTTGTT
703568 TTTTTTT
1 TTTTTTT
703575 TTATTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (18 bp):
TTTTTTTCTGGTTTTGTT
Found at i:703586 original size:22 final size:22
Alignment explanation
Indices: 703542--703587 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
703532 TTTTTTTCTG
**
703542 TGTTTGTTTTTTTTTTTGGTTT
1 TGTTTGTTTTTTTTTTTACTTT
703564 TGTTT-TTTTTTTTATTTACTTT
1 TGTTTGTTTTTTTT-TTTACTTT
703586 TG
1 TG
703588 ACTTTTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.04, C:0.02, G:0.13, T:0.80
Consensus pattern (22 bp):
TGTTTGTTTTTTTTTTTACTTT
Found at i:715176 original size:166 final size:167
Alignment explanation
Indices: 714858--715245 Score: 459
Period size: 166 Copynumber: 2.3 Consensus size: 167
714848 AGATCCTAAC
* * * **
714858 AAATTCATTCATTTTCAAGAGTTTTTTG-TTTTTTTCCCTTGAAACTTCCTTTTTTTTGAAATAC
1 AAATTCATTCATTTTCATGAG-TTTTTGATTTTTTT-CTTTGAAACTCCCTTTTTCCTGAAATAC
*
714922 GGTATTTTCTACTCTAAAAATTTTTTCGAGGGGATTTTTCTTGGTTTTCAATTTTTAAAATTCAT
64 GGTATTTTCTACTCTAAAAATTTTTTCGAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCAT
* * *
714987 CAAACATCATTATTTATTTCATATTAATTCAGTTTTCAA
129 CAAACATCATCATTTATTTCATATTAATTCAGTTATAAA
*
715026 AAATTCATTCATTTTCATTCAGTTTTTGATTTTTTTCTTTGAAACTCCCATTTTTCCT-AAATAC
1 AAATTCATTCATTTTCA-TGAGTTTTTGATTTTTTTCTTTGAAACTCCC-TTTTTCCTGAAATAC
* *** * ** *
715090 GGTGTTTTCTACTC-CGTAATTTTTT-TATTAGATTTTTCTCT-GTTTTCAATTTTTAGAATTCA
64 GGTATTTTCTACTCTAAAAATTTTTTCGAGGAGATTTTTCT-TGGTTTTCAATTTTTAAAATTCA
715152 TCAAACATCATCATTTGA-TTCATATTAATTCAGTTATAAA
128 TCAAACATCATCATTT-ATTTCATATTAATTCAGTTATAAA
* * *
715192 AAATTAATTCATTTTCATGAG-TTTGGATTTTTTT-TGTTGAAATTCCCCTTTTTC
1 AAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCT-TTGAAACT-CCCTTTTTC
715246 TGTGAAACCG
Statistics
Matches: 191, Mismatches: 22, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
163 1 0.01
164 25 0.13
165 6 0.03
166 81 0.42
167 10 0.05
168 53 0.28
169 15 0.08
ACGTcount: A:0.26, C:0.14, G:0.09, T:0.51
Consensus pattern (167 bp):
AAATTCATTCATTTTCATGAGTTTTTGATTTTTTTCTTTGAAACTCCCTTTTTCCTGAAATACGG
TATTTTCTACTCTAAAAATTTTTTCGAGGAGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCA
AACATCATCATTTATTTCATATTAATTCAGTTATAAA
Found at i:715309 original size:166 final size:167
Alignment explanation
Indices: 714926--715319 Score: 426
Period size: 166 Copynumber: 2.4 Consensus size: 167
714916 AAATACGGTA
* *
714926 TTTTCTACTCTAAAAATTTTTTCGAGGGGATTTTTCTT-GGTTTTCAATTTTTAAAATTCATCAA
1 TTTTCTACTCTATAAATTTTTT-GTGGGGA-TTTTCTTCGGTTTTCAATTTTTAAAATTCATCAA
* * * * *
714990 ACATCATTATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCATTCAGTTTTTGA
64 ACATCATCATTTATTTCATATTAATTCAGTTATAAAAAATTAATTCATTTTCATTCAGTTTTGGA
* *
715055 TTTTTTTCTTTGAAACTCCCATTTTTCCTAAATACGGTG
129 TTTTTTTCTTTGAAACTCCCATTTTTCCTAAATACCGAG
** * * ** * *
715094 TTTTCTACTCCGTAATTTTTTTAT-TAGATTTT-TCTCTGTTTTCAATTTTTAGAATTCATCAAA
1 TTTTCTACTCTATAAATTTTTTGTGGGGATTTTCT-TCGGTTTTCAATTTTTAAAATTCATCAAA
*
715157 CATCATCATTTGA-TTCATATTAATTCAGTTATAAAAAATTAATTCATTTTCA-TGAG-TTTGGA
65 CATCATCATTT-ATTTCATATTAATTCAGTTATAAAAAATTAATTCATTTTCATTCAGTTTTGGA
* * * *
715219 TTTTTTT-TGTTGAAATTCCCCTTTTTCTGTGAA-ACCGAG
129 TTTTTTTCT-TTGAAACTCCCATTTTTC-CTAAATACCGAG
* * ** *
715258 TTTTCTTCTCTATAAATATTTTTGTGGGGATTTTCTTCGGTGTAAAATTTTTAAAATGCATC
1 TTTTCTACTCTATAAAT-TTTTTGTGGGGATTTTCTTCGGTTTTCAATTTTTAAAATTCATC
715320 TAATATTGTC
Statistics
Matches: 183, Mismatches: 35, Indels: 18
0.78 0.15 0.08
Matches are distributed among these distances:
163 1 0.01
164 46 0.25
165 17 0.09
166 99 0.54
167 2 0.01
168 18 0.10
ACGTcount: A:0.26, C:0.14, G:0.10, T:0.50
Consensus pattern (167 bp):
TTTTCTACTCTATAAATTTTTTGTGGGGATTTTCTTCGGTTTTCAATTTTTAAAATTCATCAAAC
ATCATCATTTATTTCATATTAATTCAGTTATAAAAAATTAATTCATTTTCATTCAGTTTTGGATT
TTTTTCTTTGAAACTCCCATTTTTCCTAAATACCGAG
Found at i:715778 original size:16 final size:16
Alignment explanation
Indices: 715741--715779 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
715731 AATGCATTGA
715741 AAATAAAAAAAAAATG
1 AAATAAAAAAAAAATG
** *
715757 GCATAAAAAGAAAATG
1 AAATAAAAAAAAAATG
715773 AAATAAA
1 AAATAAA
715780 GCCATCCAAG
Statistics
Matches: 18, Mismatches: 5, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.74, C:0.03, G:0.10, T:0.13
Consensus pattern (16 bp):
AAATAAAAAAAAAATG
Found at i:715916 original size:11 final size:11
Alignment explanation
Indices: 715895--715931 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
715885 TGAGAAAAAA
715895 AAAGA-AGAAG
1 AAAGAGAGAAG
715905 AAAGAGAGAAG
1 AAAGAGAGAAG
*
715916 AAAGAGAGAAA
1 AAAGAGAGAAG
715927 AAAGA
1 AAAGA
715932 AAAATCCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 5 0.20
11 20 0.80
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAGAGAGAAG
Found at i:722248 original size:20 final size:19
Alignment explanation
Indices: 722213--722258 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
722203 ATCAAACAAC
722213 CAGCAGCA--AACACAAG-
1 CAGCAGCACGAACACAAGA
722229 CAGCAAGCACGAACAGCAAGA
1 CAGC-AGCACGAACA-CAAGA
722250 CAGCAGCAC
1 CAGCAGCAC
722259 ACAGCACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
19 4 0.16
20 9 0.36
21 4 0.16
ACGTcount: A:0.46, C:0.33, G:0.22, T:0.00
Consensus pattern (19 bp):
CAGCAGCACGAACACAAGA
Found at i:722300 original size:53 final size:54
Alignment explanation
Indices: 722216--722341 Score: 127
Period size: 53 Copynumber: 2.4 Consensus size: 54
722206 AAACAACCAG
* *
722216 CAGCAAACACAAGCAGCAAGCACGAACAGCAA-GACA-GCAGCA-CACAGCACGAA
1 CAGCAAACACAAGCAGCAAACACCAACAGCAACGACATG-AGCAGCA-AGCACGAA
* *
722269 CAGCAAACA-ATAGCAGCAAACTCCAATAGCAACGACATGAGCAGCAAGCACGAA
1 CAGCAAACACA-AGCAGCAAACACCAACAGCAACGACATGAGCAGCAAGCACGAA
** *
722323 CAATAAAGAC-AGCAGCAAA
1 CAGCAAACACAAGCAGCAAA
722342 AACAACACGA
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
52 1 0.02
53 35 0.57
54 22 0.36
55 3 0.05
ACGTcount: A:0.48, C:0.29, G:0.19, T:0.04
Consensus pattern (54 bp):
CAGCAAACACAAGCAGCAAACACCAACAGCAACGACATGAGCAGCAAGCACGAA
Found at i:722414 original size:23 final size:23
Alignment explanation
Indices: 722388--722435 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
722378 AACAACAAGT
*
722388 AAAAGCAGCAAAAAACAGTAAAC
1 AAAAGCAGCAAAAAACAGCAAAC
**
722411 AAAAGCAGCAGCAAACAGCAAAC
1 AAAAGCAGCAAAAAACAGCAAAC
722434 AA
1 AA
722436 TCAAACACAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.62, C:0.21, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAGCAGCAAAAAACAGCAAAC
Found at i:724485 original size:157 final size:157
Alignment explanation
Indices: 723908--725005 Score: 1282
Period size: 157 Copynumber: 7.0 Consensus size: 157
723898 AAGGTATCCC
* * * * * * * * *
723908 TTTTTACAACCAACTCTTAGGTCGTCACCAGATCCACTTTTATGCCGAAGATAGGTATTTAAGAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
* * * * *
723973 AGGTTCATCCCTTTTAT-AGTCCTTTATAAGTTCTTTAAGGG-TACCAGGATACATTCACGTCGA
66 AGGTTCATCCCTTTTATGAGT-CTTTTTAAGTCCTTT-AGGGTTGCCAGGATACTTTTACGTCGA
* * * * *
724036 AGATAT-CCTTTAGAGGTATTTTCGTAAT
129 AGGTATACCCTTAGGGGCATTTTGGTAAT
* * * * *
724064 TTTTTAGAACCAACTCTTAGGTCATCACCGAGTTCGCTTTTATGCCGAAGGTAGGCATTTA-GAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
* * * * *
724128 AGGTTCATCTCTTTTATAAGTCTTTTTAAGTCCTTTCGGGTTGCCAAGATACTTTTACGTTGAAG
66 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAG
* *
724193 GTATACCCTTAAGGGAATTTTGGTAAT
131 GTATACCCTTAGGGGCATTTTGGTAAT
* * * * * *
724220 TTTCTAGAACTAACTCCTAGGTCATCACCAGG-TCTGC-TTTATGTCAAAGGTGGGTATTTAGGA
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGA
* * * * *
724283 TAGGTTCATACATTTTATGAGTCTTTTTAAGTCCTTTCGGGTTGCCAGGATACTTTAACGTCAAA
65 TAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAA
* ** * *
724348 GGTGTACTTTTAGGGGTATTTTAGTAAT
130 GGTATACCCTTAGGGGCATTTTGGTAAT
* * * * *
724376 TTTTTAGAACGAACTCCTAGGTCGTCACCGGGTTCACTTTTATGTCGAATGTGGATATTTAGGAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
* *
724441 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCGGGATACTTGTACGTCGAAG
66 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAG
*
724506 GTATACCCCTAGGGGCATTTTGGTAAT
131 GTATACCCTTAGGGGCATTTTGGTAAT
* * * *
724533 TTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGGCATTTAGGAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
* * *** *
724598 AGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTTTAGGGTGGTTGGGATACTTTTACGTCGAAA
66 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAG
*
724663 GTATACCCTTAGGGGCATTTTAGTAAT
131 GTATACCCTTAGGGGCATTTTGGTAAT
* * * *
724690 TTTCTAGAACCAACTCCTAGGTCGTCACCGGGCTCGCTTTTATGCCGAATGTGGGTATTTAAGAT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
* * * *
724755 AGGTCCATCCCTTTTATGAGTCTTTTTAAGTCTTTTAGGGTTGTC-GAGATACTTTTATGTCGAA
66 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAG-GATACTTTTACGTCGAA
724819 GGTATA-CCTCTAGGGGCATTTTGGTAA-
130 GGTATACCCT-TAGGGGCATTTTGGTAAT
* * ** *
724846 TTTTTAGAACCAACTCCTAGGTCGTCACCGAGTCCGCTTTTATGTTGAAGGTGGGTATTTAGGGT
1 TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
** * * *
724911 AAATTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGCTGCCAGAATACTTTTACATCGAAG
66 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAG
* * *
724976 GTAT--CCTCTAAGGACATTTTTGTAAT
131 GTATACCCT-TAGGGGCATTTTGGTAAT
725002 TTTT
1 TTTT
725006 CTTAAACTTA
Statistics
Matches: 809, Mismatches: 122, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
154 3 0.00
155 93 0.11
156 333 0.41
157 380 0.47
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (157 bp):
TTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGAT
AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTTGCCAGGATACTTTTACGTCGAAG
GTATACCCTTAGGGGCATTTTGGTAAT
Found at i:724716 original size:314 final size:311
Alignment explanation
Indices: 723908--725005 Score: 1350
Period size: 313 Copynumber: 3.5 Consensus size: 311
723898 AAGGTATCCC
* * * * * * * * *
723908 TTTTTACAACCAACTCTTAGGTCGTCACCAGATCCACTTTTATGCCGAAGATAGGTATTTAAGAT
1 TTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGAT
* * * * *
723973 AGGTTCATCCCTTTTAT-AGTCCTTTATAAGTTCTTTAAGGGTACCAGGATACATTCACGTCG-A
66 AGGTTCATCCCTTTTATGAGT-CTTTTTAAGTCCTTT-AGGGTGCCAGGATACTTTAACGTCGAA
* * * * *
724036 AG-ATATCCTTTAGAGGTATTTTCGTAATTTTTTAGAACCAACTCTTAGGTCATCACCGAGTTCG
129 AGTATA-CCTTTAGGGGTATTTTAGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCG
* * * * *
724100 CTTTTATGCCGAAGGTAGGCATTTAGATAGGTTCATCTCTTTTATAAGTCTTTTTAAGTCCTTTC
193 CTTTTATGCCGAATGT-GGTATTTAGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTA
* * * * *
724165 GGGTTGCCAAGATACTTTTACGTTGAAGGTATACCCTTAAGGGAATTTTGGTAAT
257 GGGTTGCCGAGATACTTTTACGTCGAAGGTATACCCCTAGGGGCATTTTGGTAAT
* * * *
724220 TTTCTAGAACTAACTCCTAGGTCATCACCAGGTCTGC-TTTATG-TCAAAGGTGGGTATTTAGGA
1 TTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCT-GAAGGTGGGTATTTAGGA
* * *
724283 TAGGTTCATACATTTTATGAGTCTTTTTAAGTCCTTTCGGGTTGCCAGGATACTTTAACGTC-AA
65 TAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGG-TGCCAGGATACTTTAACGTCGAA
* * * *
724347 AGGTGTACTTTTAGGGGTATTTTAGTAATTTTTTAGAACGAACTCCTAGGTCGTCACCGGGTTCA
129 A-GTATACCTTTAGGGGTATTTTAGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCG
*
724412 CTTTTATGTCGAATGTGGATATTTAGGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTT
193 CTTTTATGCCGAATGTGG-TATTTA-GATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTT
* *
724477 AGGGTTGCCGGGATACTTGTACGTCGAAGGTATACCCCTAGGGGCATTTTGGTAAT
256 AGGGTTGCCGAGATACTTTTACGTCGAAGGTATACCCCTAGGGGCATTTTGGTAAT
* *
724533 TTTTTAGAACCAACTCCTAGGTCATCACCGGGTCCGCTTTTATGCTGAAGGTGGGCATTTAGGAT
1 TTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGAT
* *** *
724598 AGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTTTAGGGTGGTTGGGATACTTTTACGTCGAAA
66 AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGT-GCCAGGATACTTTAACGTCGAAA
* * * *
724663 GTATACCCTTAGGGGCATTTTAGTAATTTTCTAGAACCAACTCCTAGGTCGTCACCGGGCTCGCT
130 GTATACCTTTAGGGGTATTTTAGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCT
* *
724728 TTTATGCCGAATGTGGGTATTTAAGATAGGTCCATCCCTTTTATGAGTCTTTTTAAGTCTTTTAG
195 TTTATGCCGAATGT-GGTATTT-AGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAG
* * *
724793 GGTTGTCGAGATACTTTTATGTCGAAGGTATACCTCTAGGGGCATTTTGGTAA-
258 GGTTGCCGAGATACTTTTACGTCGAAGGTATACCCCTAGGGGCATTTTGGTAAT
* * *
724846 TTTTTAGAACCAACTCCTAGGTCGTCACC-GAGTCCGCTTTTATGTTGAAGGTGGGTATTTAGGG
1 TTTTTAGAACCAACTCCTAGGTCATCACCAG-GTCCGCTTTTATGCTGAAGGTGGGTATTTAGGA
** * * *
724910 TAAATTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGCTGCCAGAATACTTTTACATCGAA
65 TAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGG-TGCCAGGATACTTTAACGTCGAA
* * * ** *
724975 GGTAT-CCTCTAAGGACATTTTTGTAATTTTT
129 AGTATACCTTTAGGGGTATTTTAGTAATTTTT
725006 CTTAAACTTA
Statistics
Matches: 679, Mismatches: 91, Indels: 32
0.85 0.11 0.04
Matches are distributed among these distances:
310 3 0.00
311 70 0.10
312 123 0.18
313 238 0.35
314 238 0.35
315 7 0.01
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (311 bp):
TTTTTAGAACCAACTCCTAGGTCATCACCAGGTCCGCTTTTATGCTGAAGGTGGGTATTTAGGAT
AGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGTGCCAGGATACTTTAACGTCGAAAG
TATACCTTTAGGGGTATTTTAGTAATTTTTTAGAACCAACTCCTAGGTCGTCACCGGGTTCGCTT
TTATGCCGAATGTGGTATTTAGATAGGTTCATCCCTTTTATGAGTCTTTTTAAGTCCTTTAGGGT
TGCCGAGATACTTTTACGTCGAAGGTATACCCCTAGGGGCATTTTGGTAAT
Found at i:728490 original size:17 final size:17
Alignment explanation
Indices: 728470--728519 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
728460 CATATTTTTA
728470 TTAACTATTTATTAA-AT
1 TTAA-TATTTATTAATAT
*
728487 TTAATACTTATTTAATAT
1 TTAATATTTA-TTAATAT
728505 TTAAATATTT-TTAAT
1 TT-AATATTTATTAAT
728520 GTAATCGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
16 5 0.18
17 13 0.46
18 4 0.14
19 6 0.21
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (17 bp):
TTAATATTTATTAATAT
Found at i:728917 original size:3 final size:3
Alignment explanation
Indices: 728909--728937 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
728899 CAACCACATA
728909 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
728938 ACTTAAATCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:731313 original size:44 final size:43
Alignment explanation
Indices: 731264--731400 Score: 168
Period size: 44 Copynumber: 3.1 Consensus size: 43
731254 TTGTTATTTT
* *
731264 GGTTTATTTGAGAATTAGGCTTGTTAG-AGCAATAAGTCTATTAG
1 GGTTTAATTAAGAATT-GGCTTGTTAGCA-CAATAAGTCTATTAG
* * * *
731308 GGTTTAATTAAGAATTGGGCTTGTTAGTATAATAAGTCCATTAT
1 GGTTTAATTAAGAATT-GGCTTGTTAGCACAATAAGTCTATTAG
*
731352 GGTTTAATTAAGAATTGAGCTTATTAGCACAATAAGTCTATTAG
1 GGTTTAATTAAGAATTG-GCTTGTTAGCACAATAAGTCTATTAG
731396 GGTTT
1 GGTTT
731401 GTGTTAATGT
Statistics
Matches: 80, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 1 0.01
44 78 0.98
45 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (43 bp):
GGTTTAATTAAGAATTGGCTTGTTAGCACAATAAGTCTATTAG
Found at i:732001 original size:20 final size:20
Alignment explanation
Indices: 731978--732044 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
731968 GAAGAAGAAG
731978 AAGAAGAAAGAATACAAAAA
1 AAGAAGAAAGAATACAAAAA
*
731998 AAGAAGAAAAAAGATTACAAAAAAA
1 AAGAAG---AAAGAATAC--AAAAA
* *
732023 AAAAAGAAAGAACACAAAAA
1 AAGAAGAAAGAATACAAAAA
732043 AA
1 AA
732045 ATTTAAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 13 0.34
22 7 0.18
23 8 0.21
25 10 0.26
ACGTcount: A:0.78, C:0.06, G:0.12, T:0.04
Consensus pattern (20 bp):
AAGAAGAAAGAATACAAAAA
Found at i:732005 original size:23 final size:23
Alignment explanation
Indices: 731975--732044 Score: 97
Period size: 23 Copynumber: 3.1 Consensus size: 23
731965 AAGGAAGAAG
731975 AAGAAGAAGAAAGAATACAAAAA
1 AAGAAGAAGAAAGAATACAAAAA
* *
731998 AAGAAGAAAAAAGATTACAAAAA
1 AAGAAGAAGAAAGAATACAAAAA
* *
732021 AA-AAAAAGAAAGAACACAAAAA
1 AAGAAGAAGAAAGAATACAAAAA
732043 AA
1 AA
732045 ATTTAAAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 18 0.44
23 23 0.56
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (23 bp):
AAGAAGAAGAAAGAATACAAAAA
Found at i:732032 original size:22 final size:23
Alignment explanation
Indices: 731981--732045 Score: 89
Period size: 22 Copynumber: 2.9 Consensus size: 23
731971 GAAGAAGAAG
731981 AAGAAAGAATACAAAAAAAGAAGA
1 AAGAAAGAATACAAAAAAA-AAGA
*
732005 AA-AAAGATTACAAAAAAAAA-A
1 AAGAAAGAATACAAAAAAAAAGA
*
732026 AAGAAAGAACACAAAAAAAA
1 AAGAAAGAATACAAAAAAAA
732046 TTTAAAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 3 0.08
22 17 0.46
23 15 0.41
24 2 0.05
ACGTcount: A:0.78, C:0.06, G:0.11, T:0.05
Consensus pattern (23 bp):
AAGAAAGAATACAAAAAAAAAGA
Found at i:733775 original size:20 final size:20
Alignment explanation
Indices: 733747--733821 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
733737 TTTTACCCAG
733747 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
733767 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
733787 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
733807 ATGTATCGATACATT
1 ATGTATCGATACATT
733822 ATGTCTTTTA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:733807 original size:40 final size:39
Alignment explanation
Indices: 733747--733824 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
733737 TTTTACCCAG
*
733747 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
733787 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
733825 TCTTTTAACC
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:734973 original size:20 final size:21
Alignment explanation
Indices: 734948--734986 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
734938 TTCCTGTGTG
734948 AATGTATCGATACA-ATTTTT
1 AATGTATCGATACATATTTTT
734968 AATGTATCGATACATATTT
1 AATGTATCGATACATATTT
734987 GAAAATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.36, C:0.10, G:0.10, T:0.44
Consensus pattern (21 bp):
AATGTATCGATACATATTTTT
Found at i:735060 original size:13 final size:13
Alignment explanation
Indices: 735042--735067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
735032 ATATTTTTTG
735042 TGTATCGATACAT
1 TGTATCGATACAT
735055 TGTATCGATACAT
1 TGTATCGATACAT
735068 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:735078 original size:32 final size:33
Alignment explanation
Indices: 735021--735085 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
735011 TACAAGCCAA
735021 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
735055 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
735086 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:735079 original size:19 final size:19
Alignment explanation
Indices: 735021--735085 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
735011 TACAAGCCAA
735021 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
735042 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
735055 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
735074 TGTATCGATACA
1 TGTATCGATACA
735086 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:737549 original size:13 final size:13
Alignment explanation
Indices: 737531--737568 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
737521 GTAATCCCCC
737531 TGTATCGATACAG
1 TGTATCGATACAG
*
737544 TGTATCGATACAT
1 TGTATCGATACAG
737557 TGTATCGATACA
1 TGTATCGATACA
737569 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:737582 original size:20 final size:20
Alignment explanation
Indices: 737557--737608 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
737547 ATCGATACAT
737557 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
*
737577 TGTATCGATACAAAGGAAAA
1 TGTATCGATACAAAGAAAAA
*
737597 TGTATCTATACA
1 TGTATCGATACA
737609 TTGAATTTCC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:741506 original size:21 final size:21
Alignment explanation
Indices: 741477--741521 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
741467 AAGTTTTTAT
*
741477 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
741497 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
741519 TTT
1 TTT
741522 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:743808 original size:21 final size:21
Alignment explanation
Indices: 743782--743858 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
743772 ATTCCAATGA
743782 CATGTATCGATACATCTTTTT
1 CATGTATCGATACATCTTTTT
****
743803 CATGTATCGATACAT-TGCAA
1 CATGTATCGATACATCTTTTT
743823 CATGTATCGATACATCTTTTT
1 CATGTATCGATACATCTTTTT
743844 CATGTATCGATACAT
1 CATGTATCGATACAT
743859 TGCAACATGT
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.34
21 31 0.66
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (21 bp):
CATGTATCGATACATCTTTTT
Found at i:743828 original size:20 final size:20
Alignment explanation
Indices: 743803--743896 Score: 109
Period size: 20 Copynumber: 4.7 Consensus size: 20
743793 ACATCTTTTT
743803 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
743823 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
743844 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
*
743864 CATGTATCGATACTTTG-AA
1 CATGTATCGATACATTGCAA
*
743883 TTATGTATCGATAC
1 -CATGTATCGATAC
743897 TTTTAAGGGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
19 2 0.03
20 44 0.71
21 16 0.26
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:743833 original size:41 final size:41
Alignment explanation
Indices: 743781--743876 Score: 192
Period size: 41 Copynumber: 2.3 Consensus size: 41
743771 AATTCCAATG
743781 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
1 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
743822 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
1 ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
743863 ACATGTATCGATAC
1 ACATGTATCGATAC
743877 TTTGAATTAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 55 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (41 bp):
ACATGTATCGATACATCTTTTTCATGTATCGATACATTGCA
Found at i:747976 original size:20 final size:20
Alignment explanation
Indices: 747951--747991 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
747941 GGAAGGGCCA
747951 TTTTTTTTATTGATGTTCAT
1 TTTTTTTTATTGATGTTCAT
* *
747971 TTTTTTTTCTTGCTGTTCAT
1 TTTTTTTTATTGATGTTCAT
747991 T
1 T
747992 CCTATTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTTTTTATTGATGTTCAT
Found at i:757720 original size:13 final size:13
Alignment explanation
Indices: 757702--757726 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
757692 TGCACCCAAA
757702 AAAAAAACAAAAC
1 AAAAAAACAAAAC
757715 AAAAAAACAAAA
1 AAAAAAACAAAA
757727 AAACCAAGAA
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:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACAAAAC
Found at i:757721 original size:8 final size:8
Alignment explanation
Indices: 757698--757730 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
757688 CCTTTGCACC
757698 CAAAAAAA
1 CAAAAAAA
757706 -AAACAAAA
1 CAAA-AAAA
757714 CAAAAAAA
1 CAAAAAAA
757722 CAAAAAAA
1 CAAAAAAA
757730 C
1 C
757731 CAAGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.13
8 17 0.74
9 3 0.13
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (8 bp):
CAAAAAAA
Found at i:757729 original size:22 final size:22
Alignment explanation
Indices: 757701--757751 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
757691 TTGCACCCAA
757701 AAAAAAAACAA-AACAAAAAAAC
1 AAAAAAAACAAGAA-AAAAAAAC
* * *
757723 AAAAAAACCAAGAAAAAATAGC
1 AAAAAAAACAAGAAAAAAAAAC
757745 AAAAAAA
1 AAAAAAA
757752 GAAAGGGGTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 23 0.92
23 2 0.08
ACGTcount: A:0.82, C:0.12, G:0.04, T:0.02
Consensus pattern (22 bp):
AAAAAAAACAAGAAAAAAAAAC
Found at i:759334 original size:13 final size:13
Alignment explanation
Indices: 759316--759341 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
759306 CAAGTTTTTG
759316 TGTATCGATACAT
1 TGTATCGATACAT
759329 TGTATCGATACAT
1 TGTATCGATACAT
759342 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:759366 original size:19 final size:18
Alignment explanation
Indices: 759296--759366 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
759286 TACAAGCCAA
*
759296 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
759316 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
759329 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
759348 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
759367 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:761895 original size:13 final size:13
Alignment explanation
Indices: 761877--761902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
761867 ATAATCACCC
761877 TGTATCGATACAA
1 TGTATCGATACAA
761890 TGTATCGATACAA
1 TGTATCGATACAA
761903 AGAAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:763991 original size:15 final size:15
Alignment explanation
Indices: 763971--764001 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
763961 ATTTCGTTTG
*
763971 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
763986 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
764001 G
1 G
764002 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:765834 original size:21 final size:21
Alignment explanation
Indices: 765805--765849 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
765795 AAGTTTTCAT
*
765805 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
765825 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
765847 TTT
1 TTT
765850 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:768082 original size:13 final size:13
Alignment explanation
Indices: 768064--768089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
768054 CAAGTTTTTG
768064 TGTATCGATACAT
1 TGTATCGATACAT
768077 TGTATCGATACAT
1 TGTATCGATACAT
768090 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:768114 original size:19 final size:18
Alignment explanation
Indices: 768044--768114 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
768034 TACAAGCCAA
*
768044 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
768064 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
768077 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
768096 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
768115 CTACTACCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:768922 original size:29 final size:29
Alignment explanation
Indices: 768876--769351 Score: 674
Period size: 29 Copynumber: 16.4 Consensus size: 29
768866 TGTTCATCCC
768876 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
768905 TTTCAAAGCTCACGAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
768934 TTTCAAAGCCCACGAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
768962 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
768991 TTTTAAAACCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
769020 TTTCAAAGCCCATAAGACAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
769048 TTTCAAAGCCCATAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
769077 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
769106 TTTCAAAGCCCACAAGTCAGTGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
769135 TTTCAAAGCCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
769164 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
769192 TTTCAAAGCCTATAATTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
769221 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
769249 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
769278 TTTCAAAGCCCTACACAAGTCGGTGGCAACTCT
1 TTTCAAAG-CC--CACAAGTCAGTGGC-ACTCT
* *
769311 TTTCAAACCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
769339 TTTCAAAGCCCAC
1 TTTCAAAGCCCAC
769352 TGTAGACACC
Statistics
Matches: 398, Mismatches: 41, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
28 115 0.29
29 241 0.61
30 15 0.04
32 15 0.04
33 12 0.03
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Done.