Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 24 of 284
Found at i:8183865 original size:93 final size:93
Alignment explanation
Indices: 8183706--8183874 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
8183696 GCCCATAAGT
* * *
8183706 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8183771 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
8183799 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
8183864 CGAGTTCGGAT
66 CGAGTTCGGAT
8183875 ACTCAACCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:8183873 original size:46 final size:46
Alignment explanation
Indices: 8183698--8183873 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
8183688 TGTAACCCGC
* * *
8183698 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
8183744 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
8183794 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
8183837 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
8183874 TACTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:8193970 original size:13 final size:13
Alignment explanation
Indices: 8193952--8193983 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8193942 AAAAAAATAG
8193952 GGTCACACGGCCA
1 GGTCACACGGCCA
8193965 GGTCACACGGCCA
1 GGTCACACGGCCA
*
8193978 AGTCAC
1 GGTCAC
8193984 TCGCTCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.38, G:0.28, T:0.09
Consensus pattern (13 bp):
GGTCACACGGCCA
Found at i:8195049 original size:70 final size:70
Alignment explanation
Indices: 8194942--8195223 Score: 539
Period size: 70 Copynumber: 4.0 Consensus size: 70
8194932 CCCTGTTCTG
*
8194942 TTGTTTGACAACTTCGACC-TTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
1 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
8195006 TGTTC
66 TGTTC
8195011 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
1 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
8195076 TGTTC
66 TGTTC
8195081 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
1 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
8195146 TGTTC
66 TGTTC
*
8195151 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGAGATTCGGATGA
1 TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
8195216 TGTTC
66 TGTTC
8195221 TTG
1 TTG
8195224 ATTGTTTCTA
Statistics
Matches: 210, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
69 18 0.09
70 192 0.91
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (70 bp):
TTGTTTGACAGCTTCGACCGTTCTTTACTAAAAATTAATTATCTCACAGTACGGGATTCGGATGA
TGTTC
Found at i:8195964 original size:48 final size:50
Alignment explanation
Indices: 8195845--8195977 Score: 180
Period size: 48 Copynumber: 2.7 Consensus size: 50
8195835 TAAAATACCG
* * * * *
8195845 ATGCCATGTCCCGAACATTGTCTTACACTGGCTCTCATACAGCAGTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATACAGCAATGCCA
*
8195895 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATA-A-CAATGCCA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATACAGCAATGCCA
* *
8195943 ATGCCATGTTCCAAATATGGTCTTACACTGGCTCA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCA
8195978 TACATAACCC
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
48 38 0.51
49 1 0.01
50 35 0.47
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCACATACAGCAATGCCA
Found at i:8205630 original size:17 final size:17
Alignment explanation
Indices: 8205610--8205643 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8205600 GAATGATATT
8205610 TAAATTAAATAAATAAA
1 TAAATTAAATAAATAAA
*
8205627 TAAATTAAATTAATAAA
1 TAAATTAAATAAATAAA
8205644 CATATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATTAAATAAATAAA
Found at i:8206542 original size:6 final size:6
Alignment explanation
Indices: 8206526--8206554 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
8206516 AATAACTGTA
8206526 AATTA- AATTAT AATTAT AATTAT AATTAT
1 AATTAT AATTAT AATTAT AATTAT AATTAT
8206555 CACAATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATTAT
Found at i:8206565 original size:55 final size:54
Alignment explanation
Indices: 8206452--8206565 Score: 142
Period size: 55 Copynumber: 2.1 Consensus size: 54
8206442 AGGCCAAAAA
* * * *
8206452 TTTTTAATTAATAAATGTAAATTAAATTATAATTATCATATTTTGTACATACAAT
1 TTTTTAACTAATAAATGTAAATTAAATTATAATTATAATATATTATACA-ACAAT
*
8206507 TTTTTAACTAATAACTGTAAATTAAATTATAATTATAATTATAATTAT-C-ACAAT
1 TTTTTAACTAATAAATGTAAATTAAATTATAATTATAA-TAT-ATTATACAACAAT
8206561 TTTTT
1 TTTTT
8206566 GCTATGTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 10 0.19
55 35 0.67
56 4 0.08
57 3 0.06
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (54 bp):
TTTTTAACTAATAAATGTAAATTAAATTATAATTATAATATATTATACAACAAT
Found at i:8211938 original size:33 final size:33
Alignment explanation
Indices: 8211881--8211958 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
8211871 CAGTATTTGT
* *
8211881 ATGTAAGACCATAGCTAGGCTATGGCA-TTCAA
1 ATGTAAGACCATAGCCAGGCTATGGCACTACAA
* * *
8211913 ATGATAAGACCATAGCCGGGTTATGGCACTACGA
1 ATG-TAAGACCATAGCCAGGCTATGGCACTACAA
8211947 ATGTAAGACCAT
1 ATGTAAGACCAT
8211959 GGTAGGGCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
32 3 0.08
33 30 0.77
34 6 0.15
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (33 bp):
ATGTAAGACCATAGCCAGGCTATGGCACTACAA
Found at i:8213106 original size:12 final size:12
Alignment explanation
Indices: 8213086--8213121 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
8213076 ATGTGGGTGA
* *
8213086 GGAATATGGCTT
1 GGAAAATGGCCT
8213098 GGAAAATGGCCT
1 GGAAAATGGCCT
8213110 GGAAAATGGCCT
1 GGAAAATGGCCT
8213122 ATTTTTGTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.14, G:0.33, T:0.22
Consensus pattern (12 bp):
GGAAAATGGCCT
Found at i:8215342 original size:27 final size:28
Alignment explanation
Indices: 8215262--8215355 Score: 118
Period size: 27 Copynumber: 3.4 Consensus size: 28
8215252 AGATTGGCGC
* * * *
8215262 TAAGTGTGCGGGTTTAAATTGTACAGCAT
1 TAAGTGTGCGAGTTT-GATTATATAGCAT
*
8215291 TAAGTGTGCGAGTTTGATTATATAGCAC
1 TAAGTGTGCGAGTTTGATTATATAGCAT
8215319 TAAGTGTGCGAG-TTGATTATATAGCAT
1 TAAGTGTGCGAGTTTGATTATATAGCAT
*
8215346 TGAGTGTGCG
1 TAAGTGTGCG
8215356 GACTTAATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 23 0.40
28 21 0.36
29 14 0.24
ACGTcount: A:0.27, C:0.10, G:0.29, T:0.35
Consensus pattern (28 bp):
TAAGTGTGCGAGTTTGATTATATAGCAT
Found at i:8215369 original size:29 final size:27
Alignment explanation
Indices: 8215286--8215369 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
8215276 TAAATTGTAC
* * *
8215286 AGCATTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTAATTATAT
* *
8215314 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTAATTATAT
* *
8215341 AGCATTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTAAT-TATAT
8215370 TTTTGAATCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
27 22 0.46
28 21 0.44
29 5 0.10
ACGTcount: A:0.30, C:0.10, G:0.25, T:0.36
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTAATTATAT
Found at i:8225127 original size:40 final size:41
Alignment explanation
Indices: 8225072--8225168 Score: 130
Period size: 40 Copynumber: 2.4 Consensus size: 41
8225062 CGACTATGAT
*
8225072 TGGCACTAAGTGTGCG-GTT-TAATATAGCTTCGGCTATA-AA
1 TGGCACTAAGTGTGCGAGTTGGAATAT--CTTCGGCTATAGAA
*
8225112 TGGCACTAAGTGTGCGAGTTGGCATATCTTCGGCTATAGAA
1 TGGCACTAAGTGTGCGAGTTGGAATATCTTCGGCTATAGAA
8225153 -GGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
8225169 TACCGATTTA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
40 43 0.83
41 5 0.10
42 4 0.08
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGAGTTGGAATATCTTCGGCTATAGAA
Found at i:8232978 original size:23 final size:24
Alignment explanation
Indices: 8232940--8232984 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8232930 TTTGCTCTTC
*
8232940 TAGCATGAACTTGTCTTACCTTTT
1 TAGCATGAACTCGTCTTACCTTTT
8232964 TAGCAT-AACTCGTCTTACCTT
1 TAGCATGAACTCGTCTTACCTT
8232985 ACCTTACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.22, C:0.24, G:0.11, T:0.42
Consensus pattern (24 bp):
TAGCATGAACTCGTCTTACCTTTT
Found at i:8233187 original size:53 final size:54
Alignment explanation
Indices: 8233058--8233312 Score: 256
Period size: 55 Copynumber: 4.8 Consensus size: 54
8233048 ACACGGGTGC
* * * * *
8233058 CTTACCATTGCCATGACTTGCCATTGTCTTACGTGGTATCC-T---TT-TGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* *
8233107 CTTACCACTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
* * * *
8233160 CTCACCAATGCCATGCCTTGGCATGGTCTTACACGGGA-CCTTTGCCTTATAGAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTAT-GAAA
* ** * * *
8233215 CTTATCAATGCCATATCTTGAAATGTTCTTACATGATATCCTTGCCTTA-GAAA
1 CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
*
8233268 CCTTACCAATTGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 -CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
8233313 AAACCCTAAT
Statistics
Matches: 167, Mismatches: 28, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
49 36 0.22
50 1 0.01
52 2 0.01
53 49 0.29
54 10 0.06
55 67 0.40
56 2 0.01
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (54 bp):
CTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAAA
Found at i:8233249 original size:108 final size:110
Alignment explanation
Indices: 8233103--8233302 Score: 307
Period size: 108 Copynumber: 1.8 Consensus size: 110
8233093 GTATCCTTTT
* * * *
8233103 GAAACTTACCACTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACC
1 GAAACTTACCAATGCCATATCTTGAAATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACC
8233166 AA-TGCCATGCCTTGGCATGGTCTTACACGGGACCTTTGCCTTATA
65 AATTGCCATGCCTTGGCATGGTCTTACACGGGACCTTTGCCTTATA
* * *
8233211 GAAACTTATCAATGCCATATCTTGAAATGTTCTTACATGATATCCTTGCCTTAGAAACCTTACCA
1 GAAACTTACCAATGCCATATCTTGAAATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
8233276 ATTGCCATGCCTTGGCATGGTCTTACA
66 ATTGCCATGCCTTGGCATGGTCTTACA
8233303 TGGTATCCTT
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.60
109 7 0.09
110 25 0.30
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (110 bp):
GAAACTTACCAATGCCATATCTTGAAATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCA
ATTGCCATGCCTTGGCATGGTCTTACACGGGACCTTTGCCTTATA
Found at i:8258597 original size:44 final size:44
Alignment explanation
Indices: 8258533--8258638 Score: 108
Period size: 44 Copynumber: 2.4 Consensus size: 44
8258523 TAAGAACTCA
* **
8258533 CACACTTAGTG-CATAAATATTCAGTCAAAGCTATATCGATATCG
1 CACACTTAGTGCCAT-CATATTCAACCAAAGCTATATCGATATCG
* * * * *
8258577 CACACTTAGTGCCATCATATTGAACCAAAGTTATCTCGGTATTG
1 CACACTTAGTGCCATCATATTCAACCAAAGCTATATCGATATCG
*
8258621 CACACTTAGTTCCA-CATA
1 CACACTTAGTGCCATCATA
8258639 AAACCGAAGC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
43 4 0.08
44 45 0.87
45 3 0.06
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (44 bp):
CACACTTAGTGCCATCATATTCAACCAAAGCTATATCGATATCG
Found at i:8262648 original size:16 final size:16
Alignment explanation
Indices: 8262627--8262658 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
8262617 TCTCACGGGC
8262627 GTGTCACACGACCGTG
1 GTGTCACACGACCGTG
8262643 GTGTCACACGACCGTG
1 GTGTCACACGACCGTG
8262659 TCCCTTTGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.19
Consensus pattern (16 bp):
GTGTCACACGACCGTG
Found at i:8281544 original size:14 final size:15
Alignment explanation
Indices: 8281505--8281536 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
8281495 ATGCCTCACA
8281505 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
8281520 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
8281535 CA
1 CA
8281537 TGTGTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:8283740 original size:17 final size:15
Alignment explanation
Indices: 8283706--8283750 Score: 54
Period size: 17 Copynumber: 2.8 Consensus size: 15
8283696 TCTTATTTTA
8283706 TAATTAAATTAAATT
1 TAATTAAATTAAATT
8283721 TAATTAATATTTAAATT
1 TAATTAA-A-TTAAATT
*
8283738 TAACTCAAATTAA
1 TAA-TTAAATTAA
8283751 CCCCCAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 11 0.42
18 3 0.12
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTAAATTAAATT
Found at i:8283813 original size:20 final size:19
Alignment explanation
Indices: 8283789--8283841 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
8283779 TTTTCAACCC
*
8283789 AAATTAATTATTTTCACTA
1 AAATTAATTATTTACACTA
* * *
8283808 ATAATTATTTAATTACATTA
1 A-AATTAATTATTTACACTA
8283828 AAATTAATTATTTA
1 AAATTAATTATTTA
8283842 ATTATTTTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (19 bp):
AAATTAATTATTTACACTA
Found at i:8283838 original size:23 final size:23
Alignment explanation
Indices: 8283809--8283857 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
8283799 TTTTCACTAA
8283809 TAATTATTTAATTACATTAAAAT
1 TAATTATTTAATTACATTAAAAT
**
8283832 TAATTATTTAATTATTTTAAAAT
1 TAATTATTTAATTACATTAAAAT
8283855 TAA
1 TAA
8283858 AAAACTGTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATTATTTAATTACATTAAAAT
Found at i:8293044 original size:16 final size:16
Alignment explanation
Indices: 8293023--8293055 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8293013 CTGTAACACC
8293023 CTAAAAATCCCGAAAT
1 CTAAAAATCCCGAAAT
8293039 CTAAAAATCCCGAAAT
1 CTAAAAATCCCGAAAT
8293055 C
1 C
8293056 CCAAACTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (16 bp):
CTAAAAATCCCGAAAT
Found at i:8294150 original size:16 final size:16
Alignment explanation
Indices: 8294129--8294171 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
8294119 ATGTATCGGC
8294129 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
8294145 AAAAGTCGAAATGCCG
1 AAAAGTCGAAATGCCG
*
8294161 AAAAGCCGAAA
1 AAAAGTCGAAA
8294172 GTTTGTGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (16 bp):
AAAAGTCGAAATGCCG
Found at i:8294154 original size:8 final size:8
Alignment explanation
Indices: 8294129--8294171 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
8294119 ATGTATCGGC
*
8294129 AAAAGTCG
1 AAAAGCCG
*
8294137 AAATGCCG
1 AAAAGCCG
*
8294145 AAAAGTCG
1 AAAAGCCG
*
8294153 AAATGCCG
1 AAAAGCCG
8294161 AAAAGCCG
1 AAAAGCCG
8294169 AAA
1 AAA
8294172 GTTTGTGTAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.49, C:0.19, G:0.23, T:0.09
Consensus pattern (8 bp):
AAAAGCCG
Found at i:8294493 original size:28 final size:29
Alignment explanation
Indices: 8294383--8294497 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
8294373 GTGAGCATGA
* **
8294383 ATATGAATGTGA-CTGGGCCTAACAGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
8294411 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
8294440 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
8294469 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
8294497 A
1 A
8294498 AATACAGGTA
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
28 28 0.37
29 47 0.62
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:8294504 original size:57 final size:58
Alignment explanation
Indices: 8294396--8294506 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
8294386 TGAATGTGAC
* *
8294396 TGGGCCTAACAGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACAGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATT
** * *
8294454 TGGGCCTAATGGGCCATATGAATATGA-TTGGGCTTAATGGGCCAAATACAGGT
1 TGGGCCTAACAGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGT
8294507 ATGTGAATTG
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACAGGCCATATAAATATGATTTGGGCCTAATGGGCCAAATACAGGTGATT
Found at i:8299943 original size:5 final size:5
Alignment explanation
Indices: 8299933--8299961 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
8299923 TTTTTCTTGC
8299933 AATTT AATTT AATTT AATTT AATTT AATT
1 AATTT AATTT AATTT AATTT AATTT AATT
8299962 ATTATTACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
AATTT
Found at i:8303109 original size:13 final size:13
Alignment explanation
Indices: 8303091--8303115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8303081 AATAAAGCTA
8303091 GACACGGTCGTGC
1 GACACGGTCGTGC
8303104 GACACGGTCGTG
1 GACACGGTCGTG
8303116 TGAACCCACA
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:0.16, C:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGC
Found at i:8311232 original size:20 final size:20
Alignment explanation
Indices: 8311207--8311258 Score: 74
Period size: 17 Copynumber: 2.8 Consensus size: 20
8311197 AACAATTGAA
*
8311207 TTATTACATACGAACAATTC
1 TTATTACATACGAACAATGC
8311227 TTATTACAT---AACAATGC
1 TTATTACATACGAACAATGC
8311244 TTATTACATACGAAC
1 TTATTACATACGAAC
8311259 TTACCTCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
17 16 0.57
20 12 0.43
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (20 bp):
TTATTACATACGAACAATGC
Found at i:8314524 original size:42 final size:41
Alignment explanation
Indices: 8314420--8314529 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 41
8314410 ATTCTGTATG
* *
8314420 AGACCATATCCGGGATATGGCCTTGATATGTGATTTCGTATA
1 AGACCATAT-CGGGATATGGCGTTGATATGTGATTTCATATA
** *
8314462 AGACCATATCGGAGGCATGGCGTTGATATGAT-ATTTCATGTA
1 AGACCATATCGG-GATATGGCGTTGATATG-TGATTTCATATA
8314504 AGACCATATCGTGGATATGGCGTTGA
1 AGACCATATCG-GGATATGGCGTTGA
8314530 AACGATACTA
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 3 0.05
42 53 0.91
43 2 0.03
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.31
Consensus pattern (41 bp):
AGACCATATCGGGATATGGCGTTGATATGTGATTTCATATA
Found at i:8320791 original size:30 final size:30
Alignment explanation
Indices: 8320755--8320814 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
8320745 TTCCCGAGCC
*
8320755 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
8320785 TAGGGGCAAAAATGTAATTTTGTAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
8320815 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.40, C:0.05, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:8329349 original size:30 final size:30
Alignment explanation
Indices: 8329313--8329373 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
8329303 CATTTAATAC
*
8329313 AAACTTTGGCAAAATTACATTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
* *
8329343 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACACTTTTGCCCCT
8329373 A
1 A
8329374 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACTTTTGCCCCT
Found at i:8338780 original size:24 final size:25
Alignment explanation
Indices: 8338753--8338830 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
8338743 GCCTAGCCTC
8338753 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
* *
8338777 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
*** * *
8338802 TTTCGGTAAACTGGGGCATAG-CCT
1 TTTTAATAAACTAGGGCAAAGCCCT
8338826 TTTTA
1 TTTTA
8338831 GCACTTCCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
24 12 0.26
25 34 0.74
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:8338794 original size:25 final size:25
Alignment explanation
Indices: 8338760--8338829 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
8338750 CTCTTTTAAT
*
8338760 AACTAGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGATA
* *
8338785 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGATA
*
8338810 AACTGGGGCATAG-CCTTTTT
1 AACTGGGGCAAAGCCCTTTTT
8338830 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.15
25 34 0.85
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGATA
Found at i:8339062 original size:27 final size:27
Alignment explanation
Indices: 8339032--8339140 Score: 155
Period size: 27 Copynumber: 4.0 Consensus size: 27
8339022 GGGGCAAAAT
* * * *
8339032 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
8339059 GGTAATTCTACCCTACATGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
8339086 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
8339113 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
8339140 G
1 G
8339141 ATATTTTACA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:8339189 original size:27 final size:27
Alignment explanation
Indices: 8339128--8339281 Score: 89
Period size: 27 Copynumber: 5.7 Consensus size: 27
8339118 TTCTACCCTA
* * *
8339128 CAGGGGTATTTCGAT-ATTTTACAAAT
1 CAGGGGTATTTCGATAATTTCATAAAC
* * *
8339154 C-GAGAGTATTTCGATAATTTCGTAAAT
1 CAG-GGGTATTTCGATAATTTCATAAAC
* * * *
8339181 CAGGGGTATTTTGGTAATTTTATAAGC
1 CAGGGGTATTTCGATAATTTCATAAAC
* * * *
8339208 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTCGATAATTTCATAAAC
* * *
8339235 CAGGGGTATTT-TAGTAATTTTACAAAC
1 CAGGGGTATTTCGA-TAATTTCATAAAC
* * *
8339262 TAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTCGATAATTT
8339282 TACTGATCGA
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
25 1 0.01
26 12 0.11
27 91 0.87
28 1 0.01
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
CAGGGGTATTTCGATAATTTCATAAAC
Found at i:8339268 original size:81 final size:81
Alignment explanation
Indices: 8339182--8339336 Score: 231
Period size: 81 Copynumber: 1.9 Consensus size: 81
8339172 TTCGTAAATC
*
8339182 AGGGGTATTTTGGTAATTTTA-TAAGCCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT
1 AGGGGTATTTTGGTAATTTTACTAAGCCA-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTT
*
8339246 TAGTAATTTTACAAACT
65 CAGTAATTTTACAAACT
* * * **
8339263 AGGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTC
1 AGGGGTATTTTGGTAATTTTACTAAGCCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
8339328 AGTAATTTT
66 AGTAATTTT
8339337 GTAAATAGAT
Statistics
Matches: 66, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
81 62 0.94
82 4 0.06
ACGTcount: A:0.28, C:0.08, G:0.23, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACTAAGCCAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTC
AGTAATTTTACAAACT
Found at i:8339337 original size:27 final size:27
Alignment explanation
Indices: 8339176--8339341 Score: 190
Period size: 27 Copynumber: 6.1 Consensus size: 27
8339166 GATAATTTCG
*
8339176 TAAATCAGGGGTATTTTGGTAATTTTA
1 TAAACCAGGGGTATTTTGGTAATTTTA
*
8339203 TAAGCCAGGGGTATTTTGGTAATTTTA
1 TAAACCAGGGGTATTTTGGTAATTTTA
* *
8339230 CAAACCAGGGGTATTTTAGTAATTTTA
1 TAAACCAGGGGTATTTTGGTAATTTTA
* *
8339257 CAAACTAGGGGTATTTTGGTAATTTTA
1 TAAACCAGGGGTATTTTGGTAATTTTA
* * * *
8339284 CTGATCGA-GGGTATTTTGGTAATTTTG
1 -TAAACCAGGGGTATTTTGGTAATTTTA
* ** *
8339311 TAAACCAAGGGTATTTCAGTAATTTTG
1 TAAACCAGGGGTATTTTGGTAATTTTA
8339338 TAAA
1 TAAA
8339342 TAGATGGTAA
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 4 0.03
27 113 0.94
28 3 0.03
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (27 bp):
TAAACCAGGGGTATTTTGGTAATTTTA
Found at i:8339359 original size:27 final size:27
Alignment explanation
Indices: 8339329--8339539 Score: 278
Period size: 27 Copynumber: 7.8 Consensus size: 27
8339319 GGGTATTTCA
* * *
8339329 GTAATTTTGTAAATAGATGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
8339356 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
8339383 GTAATTCTATAAATCGAGAGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
8339410 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
8339437 ATAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
8339464 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
8339491 GTAATTTTGTAAATTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
8339518 GTAATTCTATAAATCGAGGGTA
1 GTAATTCTGTAAATCGAGGGTA
8339540 CTTTGGTAAT
Statistics
Matches: 160, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 160 1.00
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:8339359 original size:81 final size:81
Alignment explanation
Indices: 8339211--8339361 Score: 187
Period size: 81 Copynumber: 1.9 Consensus size: 81
8339201 TATAAGCCAG
* * ****
8339211 GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGGGGTAAAACGG
8339276 TAATTTTACTGATCGA
66 TAATTTTACTGATCGA
** ** *
8339292 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAA-TAGATGGTAAAACG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAG-GGGTAAAACG
8339356 GTAATT
65 GTAATT
8339362 CTGTAAATCG
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
80 3 0.05
81 55 0.95
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTCAGTAATTTTACAAACTAGGGGTAAAACGG
TAATTTTACTGATCGA
Found at i:8339372 original size:81 final size:81
Alignment explanation
Indices: 8339300--8339539 Score: 293
Period size: 81 Copynumber: 3.0 Consensus size: 81
8339290 GAGGGTATTT
* * * ** * *
8339300 TGGTAATTTTGTAAACCAAGGGTATTTCAGTAATTTTGTAAATAGATGGTAAAACGGTAATTCTG
1 TGGTAATTCTGTAAATCGAGGGTAAATCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTA
8339365 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
* * * * * * * *
8339381 TGGTAATTCTATAAATCGAGAGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGATAATTCTA
1 TGGTAATTCTGTAAATCGAGGGTAAATCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTA
8339446 TAAATCGAGGGTAAAA
66 TAAATCGAGGGTAAAA
** * *
8339462 CAGTAATTCTGTAAATCGAGGGTAAAAT-GGTAATTTTGTAAATTGAGGGTAAAACGGTAATTCT
1 TGGTAATTCTGTAAATCGAGGGT-AAATCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCT
8339526 ATAAATCGAGGGTA
65 ATAAATCGAGGGTA
8339540 CTTTGGTAAT
Statistics
Matches: 132, Mismatches: 26, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
81 129 0.98
82 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (81 bp):
TGGTAATTCTGTAAATCGAGGGTAAATCAGTAATTTTGTAAATAGAGGGTAAAACGGTAATTCTA
TAAATCGAGGGTAAAA
Found at i:8339558 original size:27 final size:27
Alignment explanation
Indices: 8339517--8339578 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
8339507 AGGGTAAAAC
* * *
8339517 GGTAATTCTATAAATCGAGGGTACTTT
1 GGTAATTTTACAAATCGAGGGCACTTT
* *
8339544 GGTAATTTTACAAATTGAGGGCATTTT
1 GGTAATTTTACAAATCGAGGGCACTTT
*
8339571 AGTAATTT
1 GGTAATTT
8339579 GGTAAACTAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
GGTAATTTTACAAATCGAGGGCACTTT
Found at i:8339577 original size:54 final size:54
Alignment explanation
Indices: 8339329--8339564 Score: 310
Period size: 54 Copynumber: 4.4 Consensus size: 54
8339319 GGGTATTTCA
* * * * *
8339329 GTAATTTTGTAAATAGATGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* * *
8339383 GTAATTCTATAAATCGAGAGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTTTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* * * *
8339437 ATAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTTTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
* * ***
8339491 GTAATTTTGTAAATTGAGGGTAAAACGGTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTTTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
*
8339545 GTAATTTTACAAATTGAGGG
1 GTAATTTTATAAATTGAGGG
8339565 CATTTTAGTA
Statistics
Matches: 161, Mismatches: 21, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 161 1.00
ACGTcount: A:0.39, C:0.08, G:0.22, T:0.31
Consensus pattern (54 bp):
GTAATTTTATAAATTGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATG
Found at i:8348253 original size:19 final size:20
Alignment explanation
Indices: 8348207--8348253 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
8348197 ATCGAGTGGT
*
8348207 TAATTAGGCTTTAATTAAGTG
1 TAATTA-GCTTTAATTAAGAG
8348228 -AATTTAGC-TTAATTAAGAG
1 TAA-TTAGCTTTAATTAAGAG
8348247 TAATTAG
1 TAATTAG
8348254 GAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 14 0.61
20 6 0.26
21 3 0.13
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.40
Consensus pattern (20 bp):
TAATTAGCTTTAATTAAGAG
Found at i:8348940 original size:27 final size:27
Alignment explanation
Indices: 8348910--8348970 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
8348900 CTCGACTTGT
8348910 AAAATTAAAAAAGTACCCCCGATTTAC
1 AAAATTAAAAAAGTACCCCCGATTTAC
** *** *
8348937 AAAATTACCATTTTACCCTCGATTTAC
1 AAAATTAAAAAAGTACCCCCGATTTAC
8348964 AAAATTA
1 AAAATTA
8348971 TTGAAATACC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (27 bp):
AAAATTAAAAAAGTACCCCCGATTTAC
Found at i:8349029 original size:27 final size:27
Alignment explanation
Indices: 8348966--8349102 Score: 147
Period size: 27 Copynumber: 5.2 Consensus size: 27
8348956 CGATTTACAA
* *
8348966 AATTATTGAAATACCCCTGTAGGGT--
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
8348991 -ATTACT-AAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
8349016 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* *
8349043 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGGTAG
* * * * *
8349070 AATTACCGAGATACCCTTATAAGGTAA
1 AATTACTGAAATACCCTTGTAGGGTAG
8349097 AATTAC
1 AATTAC
8349103 CATTTTACCC
Statistics
Matches: 97, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
23 16 0.16
24 5 0.05
26 6 0.06
27 70 0.72
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (27 bp):
AATTACTGAAATACCCTTGTAGGGTAG
Found at i:8349543 original size:22 final size:22
Alignment explanation
Indices: 8349491--8349555 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
8349481 GCCAATTATT
* *
8349491 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
8349513 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
8349535 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
8349556 ACGTACTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:8349744 original size:27 final size:26
Alignment explanation
Indices: 8349714--8349792 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
8349704 ATTCTGTTAA
8349714 GTGGCTTTGCCACAAATATCTGTTCTG
1 GTGGCTTTGCCAC-AATATCTGTTCTG
* *
8349741 GTGGCTCTGCCACAATATTTGTATCTG
1 GTGGCTTTGCCACAATATCTGT-TCTG
* **
8349768 GTGACTTTATCACAATATCTGTTCT
1 GTGGCTTTGCCACAATATCTGTTCT
8349793 AGCAGCCATG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
26 11 0.25
27 33 0.75
ACGTcount: A:0.20, C:0.22, G:0.19, T:0.39
Consensus pattern (26 bp):
GTGGCTTTGCCACAATATCTGTTCTG
Found at i:8349943 original size:25 final size:25
Alignment explanation
Indices: 8349915--8349997 Score: 70
Period size: 25 Copynumber: 3.6 Consensus size: 25
8349905 ATTCACATTT
8349915 TGATTCTGATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
8349940 TGA---T--TT-TGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTGATAC
* * * * *
8349959 TTATTTTGATTCTGTCACCTAATTC
1 TGATTCTGATTCTGTTACCTGATAC
*
8349984 TGATTCTAATTCTG
1 TGATTCTGATTCTG
8349998 ATTCTAATTC
Statistics
Matches: 45, Mismatches: 7, Indels: 12
0.70 0.11 0.19
Matches are distributed among these distances:
19 15 0.33
20 2 0.04
22 2 0.04
24 2 0.04
25 24 0.53
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTGATAC
Found at i:8349964 original size:19 final size:19
Alignment explanation
Indices: 8349915--8349966 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
8349905 ATTCACATTT
* *
8349915 TGATTCTGATTCTGTTACC
1 TGATACTGATTTTGTTACC
8349934 TGATACTGATTTTGTTACC
1 TGATACTGATTTTGTTACC
*
8349953 TGATACTTATTTTG
1 TGATACTGATTTTG
8349967 ATTCTGTCAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.19, C:0.15, G:0.15, T:0.50
Consensus pattern (19 bp):
TGATACTGATTTTGTTACC
Found at i:8349994 original size:12 final size:12
Alignment explanation
Indices: 8349977--8350054 Score: 67
Period size: 12 Copynumber: 6.9 Consensus size: 12
8349967 ATTCTGTCAC
8349977 CTAATTCTGATT
1 CTAATTCTGATT
8349989 CTAATTCTGATT
1 CTAATTCTGATT
8350001 CTAATTCTG--T
1 CTAATTCTGATT
*
8350011 C--A-CCTGATT
1 CTAATTCTGATT
* *
8350020 TTGATTCTGATT
1 CTAATTCTGATT
* *
8350032 CTCATTTTGATT
1 CTAATTCTGATT
*
8350044 CTAGTTCTGAT
1 CTAATTCTGAT
8350055 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
7 3 0.06
8 1 0.02
9 1 0.02
10 2 0.04
11 1 0.02
12 44 0.85
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (12 bp):
CTAATTCTGATT
Found at i:8350024 original size:6 final size:6
Alignment explanation
Indices: 8349980--8350054 Score: 55
Period size: 6 Copynumber: 12.3 Consensus size: 6
8349970 CTGTCACCTA
* * * *
8349980 ATTCTG ATTCTA ATTCTG ATTCTA ATTCTG -TCACCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
8350029 ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG A-TTCTG AT
8350055 AATGTTTCTT
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
5 2 0.04
6 45 0.87
7 4 0.08
8 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.12, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:8350045 original size:37 final size:37
Alignment explanation
Indices: 8349939--8350045 Score: 117
Period size: 37 Copynumber: 2.9 Consensus size: 37
8349929 TTACCTGATA
* *
8349939 CTGATTTTG-TTACCTGATACTTATTTTGATTCTGTCAC
1 CTGATTTTGATT--CTGATTCTCATTTTGATTCTGTCAC
* * * * * *
8349977 CTAATTCTGATTCTAATTCTGATTCTAATTCTGTCAC
1 CTGATTTTGATTCTGATTCTCATTTTGATTCTGTCAC
8350014 CTGATTTTGATTCTGATTCTCATTTTGATTCT
1 CTGATTTTGATTCTGATTCTCATTTTGATTCT
8350046 AGTTCTGATA
Statistics
Matches: 55, Mismatches: 13, Indels: 3
0.77 0.18 0.04
Matches are distributed among these distances:
37 46 0.84
38 7 0.13
39 2 0.04
ACGTcount: A:0.20, C:0.19, G:0.11, T:0.50
Consensus pattern (37 bp):
CTGATTTTGATTCTGATTCTCATTTTGATTCTGTCAC
Found at i:8352261 original size:150 final size:150
Alignment explanation
Indices: 8351990--8352286 Score: 558
Period size: 150 Copynumber: 2.0 Consensus size: 150
8351980 TGAAATGCCA
* *
8351990 GAATTTCGGCATTTCGGCTTTTGCCGAATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTC
1 GAATTTCGGCATTTCGGCTTTTACCGAATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTA
*
8352055 GCGACGACTGCTACCGAGATCCCTTTCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAA
66 GCGACGACTGCTACCAAGATCCCTTTCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAA
8352120 ACCGTAATCACTAAACCTCG
131 ACCGTAATCACTAAACCTCG
*
8352140 GAATTTTGGCATTTCGGCTTTTACCGAATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTA
1 GAATTTCGGCATTTCGGCTTTTACCGAATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTA
8352205 GCGACGACTGCTACCAAGATCCCTTTCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAA
66 GCGACGACTGCTACCAAGATCCCTTTCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAA
8352270 ACCGTAATCACTAAACC
131 ACCGTAATCACTAAACC
8352287 CAAAACTTGC
Statistics
Matches: 143, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 143 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (150 bp):
GAATTTCGGCATTTCGGCTTTTACCGAATTGAACTAAGAAAGGGTGTTCGGTACACACCTGATTA
GCGACGACTGCTACCAAGATCCCTTTCGATGTCCTACAATTGATTAGCACAGTTCTTATTTACAA
ACCGTAATCACTAAACCTCG
Found at i:8352774 original size:143 final size:144
Alignment explanation
Indices: 8352590--8352875 Score: 565
Period size: 144 Copynumber: 2.0 Consensus size: 144
8352580 CACGCAATCT
8352590 GGTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCGGCTAT
1 GGTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCGGCTAT
8352655 AAG-CCCTAAACCAATGGTACTTTCGGCTTTTGGGTGGTGAAGGAGATGACGATATGAGGCTATG
66 AAGCCCCTAAACCAATGGTACTTTCGGCTTTTGGGTGGTGAAGGAGATGACGATATGAGGCTATG
8352719 ACCTTGAAGTAGAC
131 ACCTTGAAGTAGAC
8352733 GGTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCGGCTAT
1 GGTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCGGCTAT
8352798 AAGCCCCTAAACCAATGGTACTTTCGGCTTTTGGGTGGTGAAGGAGATGACGATATGAGGCTATG
66 AAGCCCCTAAACCAATGGTACTTTCGGCTTTTGGGTGGTGAAGGAGATGACGATATGAGGCTATG
8352863 ACCTTGAAGTAGA
131 ACCTTGAAGTAGA
8352876 ATTGCCGTCA
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 68 0.48
144 74 0.52
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (144 bp):
GGTGCAGATTTATCCTTAGAACAATGGTAAAACCCGAATCCAAGGGTTGAAGAAGTTTCGGCTAT
AAGCCCCTAAACCAATGGTACTTTCGGCTTTTGGGTGGTGAAGGAGATGACGATATGAGGCTATG
ACCTTGAAGTAGAC
Found at i:8361373 original size:21 final size:20
Alignment explanation
Indices: 8361336--8361374 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8361326 ATTTAATTAC
* *
8361336 TTTTTATTTAAGAAAATAGA
1 TTTTTATATAAAAAAATAGA
8361356 TTTTTATATAAAATAAATA
1 TTTTTATATAAAA-AAATA
8361375 AAATAAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TTTTTATATAAAAAAATAGA
Found at i:8363032 original size:47 final size:47
Alignment explanation
Indices: 8362954--8363052 Score: 119
Period size: 47 Copynumber: 2.1 Consensus size: 47
8362944 ATTGTGTGTC
* ** * * *
8362954 GTACTGTTACTGTTACTTCGGATTATTCCGATGAGGTACTCTGTACT
1 GTACTATTACTGTTACTTCGGATTAGGCCGATGAGGCACTATCTACT
*
8363001 GTACTATTACTGTTTACTTCGGCTT-GGCCGATGAGGCACTATCTACT
1 GTACTATTACTG-TTACTTCGGATTAGGCCGATGAGGCACTATCTACT
8363048 GTACT
1 GTACT
8363053 GTACTGGTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
47 33 0.75
48 11 0.25
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.38
Consensus pattern (47 bp):
GTACTATTACTGTTACTTCGGATTAGGCCGATGAGGCACTATCTACT
Found at i:8363159 original size:18 final size:18
Alignment explanation
Indices: 8363122--8363233 Score: 89
Period size: 18 Copynumber: 6.2 Consensus size: 18
8363112 TAAATAAAAG
* * *
8363122 TACTGAATGACTGACTGT
1 TACTGAATAATTGATTGT
*
8363140 TACTGAATAATTGATCGT
1 TACTGAATAATTGATTGT
** *
8363158 TACCAAATAATTGATTGC
1 TACTGAATAATTGATTGT
** *
8363176 TACTGAGCAAATGATTGT
1 TACTGAATAATTGATTGT
* * *
8363194 TACTGAATAACTAATTGC
1 TACTGAATAATTGATTGT
* *
8363212 TACTGAATATTTGAATGT
1 TACTGAATAATTGATTGT
8363230 TACT
1 TACT
8363234 AAATGAAATT
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (18 bp):
TACTGAATAATTGATTGT
Found at i:8368155 original size:21 final size:20
Alignment explanation
Indices: 8368118--8368157 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
8368108 ATTTAATTAC
* *
8368118 TTTTTATTTAAGAAAATAGA
1 TTTTTATATAAAAAAATAGA
8368138 TTTTTATATAAAATAAATAG
1 TTTTTATATAAAA-AAATAG
8368158 TTGAAAGACA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
TTTTTATATAAAAAAATAGA
Found at i:8371026 original size:50 final size:50
Alignment explanation
Indices: 8370919--8371102 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 50
8370909 CTGGTATGCA
* *
8370919 TAGTAGCCTGCACTTAGTACTACACATC-CGACC-AATTATCCGGTACACG
1 TAGTAGCCTGAACTTAGTACTACACA-CGTGACCTAATTATCCGGTACACG
** * *
8370968 TAGTAGCCTGAACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGAACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
* * * *
8371018 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAAGTTATCGGGTACACA
1 TAGTAGCCTGAACTTAGTACTACACACGTGACCT-AA-TTATCCGGTACACG
*
8371069 TAGTAGCCT-ACACTTAGTACTACACACATGACCT
1 TAGTAGCCTGA-ACTTAGTACTACACACGTGACCT
8371103 CACAATAGAT
Statistics
Matches: 113, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 30 0.27
50 44 0.39
51 37 0.33
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGAACTTAGTACTACACACGTGACCTAATTATCCGGTACACG
Found at i:8371089 original size:101 final size:99
Alignment explanation
Indices: 8370919--8371102 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 99
8370909 CTGGTATGCA
*
8370919 TAGTAGCCTGCACTTAGTACTACACATCCGACCAATTATCCGGTACACGTAGTAGCCTGAACTTA
1 TAGTAGCCTGCACTTAGTACTACACATCCGACCAATTATCCGGTACACATAGTAGCCTGAACTTA
*
8370984 GTACTACACACGTGACCTAACCATCTGATACACG
66 GTACTACACACATGACCTAACCATCTGATACACG
* ** *
8371018 TAGTAGCCTGCACTTAGTACTACACA-CGTGATTGAAGTTATCGGGTACACATAGTAGCCT-ACA
1 TAGTAGCCTGCACTTAGTACTACACATC-CGA-CCAA-TTATCCGGTACACATAGTAGCCTGA-A
8371081 CTTAGTACTACACACATGACCT
62 CTTAGTACTACACACATGACCT
8371103 CACAATAGAT
Statistics
Matches: 75, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
98 1 0.01
99 28 0.37
100 3 0.04
101 43 0.57
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATCCGACCAATTATCCGGTACACATAGTAGCCTGAACTTA
GTACTACACACATGACCTAACCATCTGATACACG
Found at i:8372592 original size:18 final size:18
Alignment explanation
Indices: 8372566--8372677 Score: 98
Period size: 18 Copynumber: 6.2 Consensus size: 18
8372556 TAAATAAAAG
* *
8372566 TACTAAATAACTGACTGT
1 TACTGAATAACTGATTGT
* *
8372584 TACTGAATAATTGATCGT
1 TACTGAATAACTGATTGT
* * *
8372602 TACCGAATAACTAATTGC
1 TACTGAATAACTGATTGT
** *
8372620 TACTGAGCAAATGATTGT
1 TACTGAATAACTGATTGT
* *
8372638 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
* *
8372656 TACTGAATAATTGAATGT
1 TACTGAATAACTGATTGT
8372674 TACT
1 TACT
8372678 AAATGAAACT
Statistics
Matches: 70, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 70 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:8372675 original size:36 final size:36
Alignment explanation
Indices: 8372566--8372677 Score: 127
Period size: 36 Copynumber: 3.1 Consensus size: 36
8372556 TAAATAAAAG
* * * *
8372566 TACTAAATAACTGACTGTTACTGAATAATTG-ATCGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAAT-GT
* ** * *
8372602 TACCGAATAACTAATTGCTACTGAGCAAATGATTGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
8372638 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
1 TACTGAATAACTAATTGCTACTGAATAATTGAATGT
8372674 TACT
1 TACT
8372678 AAATGAAACT
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 60 0.98
37 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (36 bp):
TACTGAATAACTAATTGCTACTGAATAATTGAATGT
Found at i:8374267 original size:29 final size:29
Alignment explanation
Indices: 8374225--8374287 Score: 126
Period size: 29 Copynumber: 2.2 Consensus size: 29
8374215 GAAATTTTGG
8374225 AAATTAGACTCACATATCTTCTTACCATA
1 AAATTAGACTCACATATCTTCTTACCATA
8374254 AAATTAGACTCACATATCTTCTTACCATA
1 AAATTAGACTCACATATCTTCTTACCATA
8374283 AAATT
1 AAATT
8374288 TTTAGAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.03, T:0.35
Consensus pattern (29 bp):
AAATTAGACTCACATATCTTCTTACCATA
Found at i:8393097 original size:46 final size:45
Alignment explanation
Indices: 8393037--8393169 Score: 169
Period size: 46 Copynumber: 2.9 Consensus size: 45
8393027 ATAATTTCAC
* * *
8393037 CCATAATGAACTCGGAACGCAACTCAATGAGCTTGGGTG-TTCACAT
1 CCATAATGAACTCGGAACACAACTCAACGAG-TTGGATGCTT-ACAT
*
8393083 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTT-GGATGCTTACAT
*
8393129 CCATAAGTGAACTCAGAACACAACTCAACGAGTTTGGATGC
1 CCATAA-TGAACTCGGAACACAACTCAACGAG-TTGGATGC
8393170 CTCATAATTC
Statistics
Matches: 78, Mismatches: 5, Indels: 7
0.87 0.06 0.08
Matches are distributed among these distances:
45 2 0.03
46 42 0.54
47 32 0.41
48 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (45 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTGGATGCTTACAT
Found at i:8393153 original size:47 final size:46
Alignment explanation
Indices: 8393037--8393214 Score: 173
Period size: 47 Copynumber: 3.8 Consensus size: 46
8393027 ATAATTTCAC
* * *
8393037 CCATAATGAACTCGGAACGCAACTCAATGAGCTTGGGTG-TTCACAT
1 CCATAATGAACTCGGAACACAACTCAACGAG-TTGGATGCTTCACAT
*
8393083 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTT-GGATGCTTCACAT
* * *
8393129 CCATAAGTGAACTCAGAACACAACTCAACGAGTTTGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACACAACTCAACGAG-TTGGATGCTTCA-CAT
* * * * *
8393178 TC-TCACGAACTAGGAACGCAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGGAACACAACTCAACGAGTT-GGAT
8393215 CTCAATTTCC
Statistics
Matches: 111, Mismatches: 14, Indels: 13
0.80 0.10 0.09
Matches are distributed among these distances:
45 2 0.02
46 44 0.40
47 58 0.52
48 4 0.04
49 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAATGAACTCGGAACACAACTCAACGAGTTGGATGCTTCACAT
Found at i:8398262 original size:25 final size:25
Alignment explanation
Indices: 8398234--8398281 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
8398224 TTATAATATG
** *
8398234 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
8398259 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
8398282 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:8398333 original size:10 final size:11
Alignment explanation
Indices: 8398318--8398365 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
8398308 ATTTTGATGT
*
8398318 ACATGATTTG-
1 ACATGATATGC
8398328 ACATGATATGC
1 ACATGATATGC
8398339 ACATGATATG-
1 ACATGATATGC
*
8398349 -TATGATATGC
1 ACATGATATGC
8398359 ACATGAT
1 ACATGAT
8398366 GTATTCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 9 0.28
11 15 0.47
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (11 bp):
ACATGATATGC
Found at i:8398452 original size:26 final size:26
Alignment explanation
Indices: 8398422--8398483 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
8398412 AAAAGGGCTA
*
8398422 TGCCCCAGTTTACCGAAACGGGCTTT
1 TGCCCCAGTTTACCGAAACAGGCTTT
*
8398448 TGCCCTAGTTTACCGAAACAGGCTTT
1 TGCCCCAGTTTACCGAAACAGGCTTT
8398474 TGCCCCAGTT
1 TGCCCCAGTT
8398484 ATTAAAAGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.19, C:0.31, G:0.21, T:0.29
Consensus pattern (26 bp):
TGCCCCAGTTTACCGAAACAGGCTTT
Found at i:8398741 original size:31 final size:30
Alignment explanation
Indices: 8398703--8398786 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
8398693 TCGTTACAGT
8398703 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGT-ATATGAATAATGA
*
8398734 AAAGGCTTCGGCCCAGTAATATGAATAATGT
1 AAAGGCTTCGGCCCAGT-ATATGAATAATGA
* *
8398765 GAAGGCTTTGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
8398787 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATAATGA
Found at i:8398918 original size:31 final size:30
Alignment explanation
Indices: 8398880--8398963 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
8398870 TCGTTACAGT
8398880 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGT-ATATGAATAATGA
*
8398911 AAAGGCTTCGGCCCAGTAATATGAATAATGT
1 AAAGGCTTCGGCCCAGT-ATATGAATAATGA
* *
8398942 GAAGGCTTTGGCCCAGTATATG
1 AAAGGCTTCGGCCCAGTATATG
8398964 CTGAGATTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 5 0.10
31 44 0.90
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.25
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTATATGAATAATGA
Found at i:8398932 original size:177 final size:177
Alignment explanation
Indices: 8398636--8398984 Score: 698
Period size: 177 Copynumber: 2.0 Consensus size: 177
8398626 TCCCCAAATG
8398636 GGCTTGCATATGTTCATTGATGTTGCATGTATTATTGAAATGGGCCTATGGGCCATATCGTTACA
1 GGCTTGCATATGTTCATTGATGTTGCATGTATTATTGAAATGGGCCTATGGGCCATATCGTTACA
8398701 GTAAAGGCTTCGGCCCAGTGATATGAATAATGAAAAGGCTTCGGCCCAGTAATATGAATAATGTG
66 GTAAAGGCTTCGGCCCAGTGATATGAATAATGAAAAGGCTTCGGCCCAGTAATATGAATAATGTG
8398766 AAGGCTTTGGCCCAGTATATGCTGAGATTGAATTTGGGCTTAAAAGA
131 AAGGCTTTGGCCCAGTATATGCTGAGATTGAATTTGGGCTTAAAAGA
8398813 GGCTTGCATATGTTCATTGATGTTGCATGTATTATTGAAATGGGCCTATGGGCCATATCGTTACA
1 GGCTTGCATATGTTCATTGATGTTGCATGTATTATTGAAATGGGCCTATGGGCCATATCGTTACA
8398878 GTAAAGGCTTCGGCCCAGTGATATGAATAATGAAAAGGCTTCGGCCCAGTAATATGAATAATGTG
66 GTAAAGGCTTCGGCCCAGTGATATGAATAATGAAAAGGCTTCGGCCCAGTAATATGAATAATGTG
8398943 AAGGCTTTGGCCCAGTATATGCTGAGATTGAATTTGGGCTTA
131 AAGGCTTTGGCCCAGTATATGCTGAGATTGAATTTGGGCTTA
8398985 GGCCCAGCAG
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 172 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (177 bp):
GGCTTGCATATGTTCATTGATGTTGCATGTATTATTGAAATGGGCCTATGGGCCATATCGTTACA
GTAAAGGCTTCGGCCCAGTGATATGAATAATGAAAAGGCTTCGGCCCAGTAATATGAATAATGTG
AAGGCTTTGGCCCAGTATATGCTGAGATTGAATTTGGGCTTAAAAGA
Found at i:8405578 original size:62 final size:59
Alignment explanation
Indices: 8405508--8405624 Score: 146
Period size: 62 Copynumber: 1.9 Consensus size: 59
8405498 AGTTATTATC
* * *
8405508 TTAATATTAAATTAAAT-TAAATGTTTATCTTGTAGATAAATATTTTATTATTTTAATAAGAT
1 TTAATATTAAATTAAATCT-AATATTTAT-TT-T-GATAAATATTATATTAATTTAATAAGAT
* *
8405570 TTAATATTATATTTAATCTAATATTTATTTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTAAATCTAATATTTATTTTGATAAATATTATATTAATTTAATA
8405625 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 2 0.04
62 23 0.47
63 1 0.02
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
TTAATATTAAATTAAATCTAATATTTATTTTGATAAATATTATATTAATTTAATAAGAT
Found at i:8405595 original size:24 final size:20
Alignment explanation
Indices: 8405546--8405597 Score: 52
Period size: 24 Copynumber: 2.5 Consensus size: 20
8405536 CTTGTAGATA
8405546 AATATTT-TATTATTTTAAT
1 AATATTTATATTATTTTAAT
*
8405565 AAGATTTAATATTATATTTAATCT
1 AATATTT-ATATTAT-TTTAA--T
8405589 AATATTTAT
1 AATATTTAT
8405598 TTTGATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
19 6 0.23
21 6 0.23
22 5 0.19
23 2 0.08
24 7 0.27
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
AATATTTATATTATTTTAAT
Found at i:8409782 original size:32 final size:32
Alignment explanation
Indices: 8409746--8409807 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
8409736 CATTAAAACA
*
8409746 TTGGAAACTTTCA-ATGAAACTTTAAACTAATG
1 TTGGAAACTTT-AGACGAAACTTTAAACTAATG
8409778 TTGGAAACTTTAGACGAAACTTTAAACTAA
1 TTGGAAACTTTAGACGAAACTTTAAACTAA
8409808 GTTTTGAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (32 bp):
TTGGAAACTTTAGACGAAACTTTAAACTAATG
Found at i:8412314 original size:38 final size:38
Alignment explanation
Indices: 8412271--8412389 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
8412261 GAAGGCTCGA
* * * *
8412271 ATATAATACCAACACTAGGCCTGCGGGATTTATCCGGG
1 ATATAATACCAACACGAAGCCTGCGGGATTTAACCCGG
*
8412309 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAACACGAAGCCTGCGGGATTTAACCCGG
** *
8412347 ATATTTTACCAACACGAAGCCTGCGGGTCTTTAAGCCCGG
1 ATATAATACCAACACGAAGCCTGCGGG-ATTTAA-CCCGG
8412387 ATA
1 ATA
8412390 CACATCAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
38 57 0.81
39 5 0.07
40 8 0.11
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
ATATAATACCAACACGAAGCCTGCGGGATTTAACCCGG
Found at i:8420862 original size:32 final size:32
Alignment explanation
Indices: 8420825--8420887 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
8420815 AATTTCATAA
8420825 CTAGTTGATACCTTTAACTTATAGAACTCTAG
1 CTAGTTGATACCTTTAACTTATAGAACTCTAG
8420857 CTAGTTGATACCTTTAACTTATAGAACTCTA
1 CTAGTTGATACCTTTAACTTATAGAACTCTA
8420888 CTTTTGCACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (32 bp):
CTAGTTGATACCTTTAACTTATAGAACTCTAG
Found at i:8425402 original size:48 final size:48
Alignment explanation
Indices: 8425329--8425900 Score: 422
Period size: 48 Copynumber: 11.8 Consensus size: 48
8425319 ATACTAGGGT
* * *
8425329 TATGTGAGCTAGTGTAATACCATGTTTGAAACATGGCATTGGCATCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCGA
* * * * *
8425377 TATGTGAGCCAGTGTAAGACAATGTTTGGAACATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCGA
* * *
8425425 TATGTGAG-TCAGTGTAAGACCATGTTT-AGAACATGGCATCGACATTGA
1 TATGAGAGCT-AGTGTAAGACCATGTTTGA-AACATGGCATCGGCATCGA
* * * * *
8425473 TATGAAAACTAGTGTATGACCATGTTT-AGAACATGGCATCAGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGA-AACATGGCATCGGCATCGA
* * * * * * * * *
8425521 TATGAGAGATATTGTAAGACCATATCTG-GACAT-GTAACAGCCA-CAATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATC-GGCATC--GA
* *
8425569 TATGAGAGCTAGTGTAAGACCATGTTTAAAACATGGCATCAGCATCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCGA
* * * * * *
8425617 TATGTGAACCAGTGTAAGACCATATCT-AGAACATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGA-AACATGGCATCGGCATCGA
* * * * *
8425665 TATGTGAGCCAGTTTAAGACCATGTTTGGAACATGGCATCGGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCGA
* * ** * ** *
8425713 TATGAGTGATAGTGTAAGACCATGTTTGGGACATAGCATTAGCCTCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCG--A
* * * *
8425763 TATGAGAGCTAGTGTAAGACCATGTCT-AGGACATGGCATTGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTTTGA-AACATGGCATCGGCATCGA
* * * * * * **
8425811 CATGTGGGCTAGTGTAAGACGATGTTTGAAACTTCGCATCAACATCGATA
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCG--A
* * **
8425861 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATC
8425901 TACATTTTAC
Statistics
Matches: 414, Mismatches: 92, Indels: 34
0.77 0.17 0.06
Matches are distributed among these distances:
46 3 0.01
47 7 0.02
48 320 0.77
49 8 0.02
50 76 0.18
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTTTGAAACATGGCATCGGCATCGA
Found at i:8435304 original size:48 final size:49
Alignment explanation
Indices: 8435230--8435443 Score: 185
Period size: 48 Copynumber: 4.5 Consensus size: 49
8435220 AGGGTGTCAT
* * * * * *
8435230 TGCCATATCCTAGATATGGTCTTACATGGGAC-CACTTATCGATGCCAA
1 TGCCATGTCCCAGACATGGTCTTACATGGGACACACATACCGATGCCGA
* * * *
8435278 TGCCATGTCCCAGACATGCTCTTACATGGGATCACACATATCGAAGCTGA
1 TGCCATGTCCCAGACATGGTCTTACATGGGA-CACACATACCGATGCCGA
* * *
8435328 T---A-G-CCCA-ACTATGGTCTTACACGGTG-TACTCATACCGATGCCGA
1 TGCCATGTCCCAGAC-ATGGTCTTACATGG-GACACACATACCGATGCCGA
* *
8435372 TGCCATGTCCCAGACATGGTCTTACATGAGA-TCACATACCGATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACATGGGACACACATACCGATGCCGA
* *
8435420 TGCCATATCCCAGATATGGTCTTA
1 TGCCATGTCCCAGACATGGTCTTA
8435444 TACGGGATCT
Statistics
Matches: 134, Mismatches: 21, Indels: 22
0.76 0.12 0.12
Matches are distributed among these distances:
44 16 0.12
45 16 0.12
46 2 0.01
47 2 0.01
48 66 0.49
49 17 0.13
50 15 0.11
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (49 bp):
TGCCATGTCCCAGACATGGTCTTACATGGGACACACATACCGATGCCGA
Found at i:8443308 original size:30 final size:30
Alignment explanation
Indices: 8443274--8443334 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8443264 TCCTTAACTC
8443274 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * * *
8443304 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
8443334 A
1 A
8443335 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:8444726 original size:6 final size:5
Alignment explanation
Indices: 8444697--8444751 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
8444687 TATGTCTTTC
*
8444697 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAAAT AAAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT -AAAAT -AAAAT AAAAT
8444744 AAAAT AAA
1 AAAAT AAA
8444752 TCAAAGTGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
3 3 0.07
5 21 0.49
6 19 0.44
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:8444729 original size:17 final size:16
Alignment explanation
Indices: 8444707--8444751 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
8444697 AAAATAAAAT
**
8444707 AATAAAATTGAAATGAA
1 AATAAAATAAAAAT-AA
8444724 AATAAAAATAAAAATAA
1 AAT-AAAATAAAAATAA
8444741 AATAAAATAAA
1 AATAAAATAAA
8444752 TCAAAGTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 8 0.32
18 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (16 bp):
AATAAAATAAAAATAA
Found at i:8448563 original size:13 final size:13
Alignment explanation
Indices: 8448541--8448573 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8448531 AAGGGTTTGT
8448541 TTAT-TAAACTAA
1 TTATCTAAACTAA
8448553 TTATCTAAACTAA
1 TTATCTAAACTAA
*
8448566 TTAACTAA
1 TTATCTAA
8448574 TTTAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:8452927 original size:27 final size:27
Alignment explanation
Indices: 8452897--8453074 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
8452887 ATATTGAGTC
* * * *
8452897 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
8452924 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
8452951 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
8452979 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
8453006 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
8453033 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
8453060 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
8453075 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:8453036 original size:82 final size:81
Alignment explanation
Indices: 8452918--8453073 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
8452908 TGCTATATAA
* *
8452918 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
8452983 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
8453000 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
8453064 CACTTAGTGC
65 CACTTAGTGC
8453074 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:8464750 original size:46 final size:45
Alignment explanation
Indices: 8464654--8464822 Score: 171
Period size: 46 Copynumber: 3.6 Consensus size: 45
8464644 TGTATGAGCT
* * * *
8464654 AGTGTAAGATATGTCTGAGACATGCATCGGCATTGAGACG-AGTGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAAGT-C
*
8464699 TAGTGTAAGAGATGTCTGGGACATGCATCGGCCTTGAGATGTAAGTC
1 -AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATG-AAGTC
* * * *
8464746 AGTGTAAGACATATCTAGGACATGCGTC-GACTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGA-AGTC
*
8464792 AGTGTAAGACCATGTTTGGGACATGGCATCG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCG
8464823 ACACCTTACC
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
45 4 0.04
46 80 0.78
47 12 0.12
48 7 0.07
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.26
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGAAGTC
Found at i:8471858 original size:46 final size:46
Alignment explanation
Indices: 8471808--8471924 Score: 164
Period size: 46 Copynumber: 2.5 Consensus size: 46
8471798 GATGAGTGCT
* *
8471808 AGTGTAAGATATGTTTGGGACATGCACCGACCT-CGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCACCGA-CTACGAGATGATAGTC
* *
8471854 AGTGTAAGACATGTCTGGGACATGCATCGACTATGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCACCGACTACGAGATGATAGTC
*
8471900 AGTGTAAAACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
8471925 GCATCGACAC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
45 2 0.03
46 47 0.73
47 15 0.23
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCACCGACTACGAGATGATAGTC
Found at i:8477072 original size:48 final size:48
Alignment explanation
Indices: 8476865--8477076 Score: 157
Period size: 48 Copynumber: 4.5 Consensus size: 48
8476855 GGTGCCATTG
* * * * * *
8476865 CCATATCCCAGATATGGTCTTACATGGGACCACTTATCGATACCAATG
1 CCATGTCCCAGATATGGTCTTACATGGGATCACATATCAATGCCAATA
* * * *
8476913 CCATGTCCCAGACACGCTCTTACATGGGATCACACATATCGAA-GCCGATA
1 CCATGTCCCAGATATGGTCTTACATGGGAT--CACATATC-AATGCCAATA
* * * * * *
8476963 --A--T-CCAGCTATGGTCTTACATGATGTTCTCATATCGATGCCAATG
1 CCATGTCCCAGATATGGTCTTACATG-GGATCACATATCAATGCCAATA
* * *
8477007 GCATGTCCCAGACATGGTCTTACATGGGATCACATATCAATGCCGATA
1 CCATGTCCCAGATATGGTCTTACATGGGATCACATATCAATGCCAATA
* *
8477055 CCATTTCCTAGATATGGTCTTA
1 CCATGTCCCAGATATGGTCTTA
8477077 TACGAGATCT
Statistics
Matches: 122, Mismatches: 32, Indels: 20
0.70 0.18 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.10
45 15 0.12
46 4 0.03
48 61 0.50
49 17 0.14
50 11 0.09
51 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (48 bp):
CCATGTCCCAGATATGGTCTTACATGGGATCACATATCAATGCCAATA
Found at i:8479475 original size:43 final size:43
Alignment explanation
Indices: 8479427--8479533 Score: 101
Period size: 43 Copynumber: 2.5 Consensus size: 43
8479417 AAATGTCAGG
* *
8479427 GAAAATGCATCCAGTTGGACGCGCTTTACC-TAACATGTTAGCA
1 GAAAATGCATCCAGTTGGACGCGCTTT-CCTTAACATGTCAACA
* * * *
8479470 GAAAATG-AGTCCAGCTGGGCGTGCTTTCCTTGACATGTCAACA
1 GAAAATGCA-TCCAGTTGGACGCGCTTTCCTTAACATGTCAACA
* * *
8479513 GAAAATACGTTCAGTTGGACG
1 GAAAATGCATCCAGTTGGACG
8479534 TATTTTCTCT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
42 3 0.06
43 47 0.94
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (43 bp):
GAAAATGCATCCAGTTGGACGCGCTTTCCTTAACATGTCAACA
Found at i:8481613 original size:60 final size:61
Alignment explanation
Indices: 8481540--8481661 Score: 219
Period size: 60 Copynumber: 2.0 Consensus size: 61
8481530 GAATGAAGAG
8481540 AATTAGATTTGAGTGAAAAGAGTGGAAAATGACTTAGACTCATATAAG-AAAAAAGTTACC
1 AATTAGATTTGAGTGAAAAGAGTGGAAAATGACTTAGACTCATATAAGAAAAAAAGTTACC
* *
8481600 AATTAGATTTGAGTGAAAAGAGTGGAAAATGACTTAGGCTTATATAAGAAAAAAAGTTACC
1 AATTAGATTTGAGTGAAAAGAGTGGAAAATGACTTAGACTCATATAAGAAAAAAAGTTACC
8481661 A
1 A
8481662 TTGGGCAAAT
Statistics
Matches: 59, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
60 46 0.78
61 13 0.22
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (61 bp):
AATTAGATTTGAGTGAAAAGAGTGGAAAATGACTTAGACTCATATAAGAAAAAAAGTTACC
Found at i:8491377 original size:12 final size:12
Alignment explanation
Indices: 8491157--8491337 Score: 58
Period size: 12 Copynumber: 15.5 Consensus size: 12
8491147 TAAATTACAG
8491157 ATAAAAATATAC
1 ATAAAAATATAC
*
8491169 ATAAAAATATAT
1 ATAAAAATATAC
* **
8491181 ACAAATTTATA-
1 ATAAAAATATAC
*
8491192 AGTGAAAATATAC
1 A-TAAAAATATAC
** *
8491205 A-AATTATATCC
1 ATAAAAATATAC
* *
8491216 ATAAAAGTGTAC
1 ATAAAAATATAC
*
8491228 ATAAAAATA-CC
1 ATAAAAATATAC
* *
8491239 TATGACAATA-A-
1 -ATAAAAATATAC
*
8491250 AGAAACAATATA-
1 ATAAA-AATATAC
8491262 AT-AAAATAATAC
1 ATAAAAAT-ATAC
*
8491274 ATAAGAATATAC
1 ATAAAAATATAC
** *
8491286 A-AAGAGTTATGC
1 ATAA-AAATATAC
* *
8491298 ATAAATATATCC
1 ATAAAAATATAC
8491310 A-AAAAA-ATAC
1 ATAAAAATATAC
*
8491320 ATAAAGATATAC
1 ATAAAAATATAC
8491332 ATAAAA
1 ATAAAA
8491338 TAATATTAAT
Statistics
Matches: 117, Mismatches: 39, Indels: 26
0.64 0.21 0.14
Matches are distributed among these distances:
10 9 0.08
11 28 0.24
12 73 0.62
13 7 0.06
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.25
Consensus pattern (12 bp):
ATAAAAATATAC
Found at i:8492080 original size:16 final size:15
Alignment explanation
Indices: 8492059--8492110 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 15
8492049 AAATAATGTC
8492059 AATAATAGTAATAATA
1 AATAATA-TAATAATA
8492075 AATAATA-AATAGATA
1 AATAATATAATA-ATA
8492090 AATAA-ATTAATTAATA
1 AATAATA-TAA-TAATA
8492106 AATAA
1 AATAA
8492111 AATATAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
14 5 0.16
15 8 0.25
16 17 0.53
17 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (15 bp):
AATAATATAATAATA
Found at i:8492085 original size:4 final size:4
Alignment explanation
Indices: 8492071--8492122 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
8492061 TAATAGTAAT
* * * *
8492071 AATA AAT- AATA AATA GATA AATA AATT AATT AATA AATA AA-A TATA
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA
8492117 AATA AA
1 AATA AA
8492123 AAAAGGAAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
3 5 0.12
4 35 0.88
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (4 bp):
AATA
Found at i:8492093 original size:12 final size:11
Alignment explanation
Indices: 8492067--8492122 Score: 53
Period size: 11 Copynumber: 5.0 Consensus size: 11
8492057 TCAATAATAG
8492067 TAAT-AATAAA
1 TAATAAATAAA
*
8492077 TAATAAATAGA
1 TAATAAATAAA
*
8492088 TAAATAAATTAAT
1 T-AATAAA-TAAA
8492101 TAATAAATAAA
1 TAATAAATAAA
8492112 -ATATAAATAAA
1 TA-ATAAATAAA
8492123 AAAAGGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.13
11 18 0.47
12 12 0.32
13 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
TAATAAATAAA
Found at i:8492100 original size:27 final size:27
Alignment explanation
Indices: 8492070--8492122 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
8492060 ATAATAGTAA
8492070 TAATAAAT-AATAAATAGATAAATAAAT
1 TAATAAATAAATAAA-AGATAAATAAAT
* *
8492097 TAATTAATAAATAAAATATAAATAAA
1 TAATAAATAAATAAAAGATAAATAAA
8492123 AAAAGGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (27 bp):
TAATAAATAAATAAAAGATAAATAAAT
Found at i:8496353 original size:25 final size:25
Alignment explanation
Indices: 8496324--8496371 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
8496314 TGGTATAAAA
8496324 ATGTTT-TGGATTTTAATTTTGGACT
1 ATGTTTCTGGA-TTTAATTTTGGACT
8496349 ATGTTTCTGGATTTAATTTTGGA
1 ATGTTTCTGGATTTAATTTTGGA
8496372 TTTTGGGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.21, C:0.04, G:0.21, T:0.54
Consensus pattern (25 bp):
ATGTTTCTGGATTTAATTTTGGACT
Found at i:8497630 original size:14 final size:14
Alignment explanation
Indices: 8497607--8497639 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
8497597 AATTATGTGT
8497607 GATT-AAACCCTAA
1 GATTGAAACCCTAA
8497620 GATTGAAACCCTAA
1 GATTGAAACCCTAA
8497634 GATTGA
1 GATTGA
8497640 CGACATTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.24
Consensus pattern (14 bp):
GATTGAAACCCTAA
Found at i:8504305 original size:29 final size:28
Alignment explanation
Indices: 8504272--8504369 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 28
8504262 TGGCCTAGAC
8504272 TGTGTGTCACACACGAACTATCACACGG
1 TGTGTGTCACACACGAACTATCACACGG
* ** * *
8504300 TCGTGTGTCGCACACGGCCTATGACAGGG
1 T-GTGTGTCACACACGAACTATCACACGG
** * *
8504329 TTGTGTGTCGTACACGAATTATCATACGG
1 -TGTGTGTCACACACGAACTATCACACGG
8504358 ATGTGTGTCACA
1 -TGTGTGTCACA
8504370 GACGGCCTAC
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
28 1 0.02
29 51 0.96
30 1 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (28 bp):
TGTGTGTCACACACGAACTATCACACGG
Found at i:8506446 original size:50 final size:50
Alignment explanation
Indices: 8506387--8506528 Score: 221
Period size: 50 Copynumber: 2.8 Consensus size: 50
8506377 TTGATATGAA
*
8506387 ATCCCATGTAAGACCATGTCTGGGACATGGCACTGGCATCGACATAAGAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGAG
* * *
8506437 ATCCCATGTAAGACCATGTTTGGGACATGACATTGGCATCGACTTAAGAG
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGAG
* * *
8506487 ATCCCATGTAAGATCATGTCTGGGTCATGGCATTGTCATCGA
1 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGA
8506529 GCTGTGATCC
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGACATAAGAG
Found at i:8508240 original size:29 final size:29
Alignment explanation
Indices: 8508207--8508270 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
8508197 GGCATGGCCT
*
8508207 GGCACACGGGCGTGTGTGGCCAGTTTTAG
1 GGCACACGAGCGTGTGTGGCCAGTTTTAG
*
8508236 GGCACACGAGCGTGTGTGGCCATTTTTAG
1 GGCACACGAGCGTGTGTGGCCAGTTTTAG
8508265 GGCACA
1 GGCACA
8508271 TGGGGTAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.17, C:0.22, G:0.38, T:0.23
Consensus pattern (29 bp):
GGCACACGAGCGTGTGTGGCCAGTTTTAG
Found at i:8511918 original size:24 final size:24
Alignment explanation
Indices: 8511882--8511955 Score: 103
Period size: 24 Copynumber: 3.1 Consensus size: 24
8511872 GGGTCAACAT
* *
8511882 TGGCACTAAGTGTGCGGATTTAAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
8511906 TGGCACTATGTGTGCGAAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
8511930 TGGCACTATGTGTGCTGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
8511954 TG
1 TG
8511956 TCAATACATG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:8513253 original size:22 final size:23
Alignment explanation
Indices: 8513221--8513299 Score: 81
Period size: 23 Copynumber: 3.5 Consensus size: 23
8513211 AGTTACATGA
8513221 AATATGCCACAAAGGCTTTATAG
1 AATATGCCACAAAGGCTTTATAG
* ** *
8513244 AATATG-CACATAGG-TAACATGG
1 AATATGCCACAAAGGCT-TTATAG
*
8513266 AATATGCCACAAAGGCTTTACAG
1 AATATGCCACAAAGGCTTTATAG
*
8513289 AATATGTCACA
1 AATATGCCACA
8513300 TAGGTAACAC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
21 1 0.02
22 16 0.37
23 25 0.58
24 1 0.02
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.24
Consensus pattern (23 bp):
AATATGCCACAAAGGCTTTATAG
Found at i:8513264 original size:45 final size:46
Alignment explanation
Indices: 8513215--8513336 Score: 167
Period size: 46 Copynumber: 2.7 Consensus size: 46
8513205 CACAAAAGTT
*
8513215 ACATGAAATATGCCACAAAGGCTTTATAGAATATG-CACATAGGTA
1 ACATGAAATATGCCACAAAGGCTTTACAGAATATGTCACATAGGTA
*
8513260 ACATGGAATATGCCACAAAGGCTTTACAGAATATGTCACATAGGTA
1 ACATGAAATATGCCACAAAGGCTTTACAGAATATGTCACATAGGTA
* ** *
8513306 ACA-CAGAATACACCACAAAGACTTTACAGAA
1 ACATGA-AATATGCCACAAAGGCTTTACAGAA
8513337 CATTATGTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
45 33 0.49
46 35 0.51
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.21
Consensus pattern (46 bp):
ACATGAAATATGCCACAAAGGCTTTACAGAATATGTCACATAGGTA
Found at i:8513311 original size:23 final size:22
Alignment explanation
Indices: 8513242--8513315 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
8513232 AAGGCTTTAT
*
8513242 AGAATATGCACATAGGTAACAT
1 AGAATATGCACATAGGTAACAC
* * **
8513264 GGAATATGCCACAAAGGCT-TTAC
1 AGAATATG-CACATAGG-TAACAC
8513287 AGAATATGTCACATAGGTAACAC
1 AGAATATG-CACATAGGTAACAC
8513310 AGAATA
1 AGAATA
8513316 CACCACAAAG
Statistics
Matches: 39, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
22 8 0.21
23 30 0.77
24 1 0.03
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.22
Consensus pattern (22 bp):
AGAATATGCACATAGGTAACAC
Found at i:8516933 original size:51 final size:50
Alignment explanation
Indices: 8516806--8517089 Score: 363
Period size: 50 Copynumber: 5.7 Consensus size: 50
8516796 TAGACAAGGC
* * *
8516806 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAAT
* * * * *
8516856 CATCTGATACACGTAGTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAA-T
* * *
8516907 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAAT
* * * * *
8516957 CATCTGATACACGTAGTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAA-T
* *
8517008 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAAT
* *
8517057 TATCCGGTACACATAGTAGCCTACACTTAGTAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTAC
8517090 CATTTTGTCC
Statistics
Matches: 198, Mismatches: 34, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
49 31 0.16
50 86 0.43
51 81 0.41
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (50 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGTGACCGAAT
Found at i:8516948 original size:101 final size:101
Alignment explanation
Indices: 8516806--8517086 Score: 492
Period size: 101 Copynumber: 2.8 Consensus size: 101
8516796 TAGACAAGGC
8516806 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
8516871 GTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
66 GTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
8516907 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
8516972 GTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
66 GTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
* ** * * *
8517008 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACATA
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
*
8517072 GTAGCCTACACTTAG
66 GTAGCCTGCACTTAG
8517087 TACCATTTTG
Statistics
Matches: 173, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
100 27 0.16
101 146 0.84
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (101 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAACCATCTGATACACGTA
GTAGCCTGCACTTAGCACTACACATGTGATCGAAGT
Found at i:8532866 original size:275 final size:275
Alignment explanation
Indices: 8532375--8532927 Score: 926
Period size: 275 Copynumber: 2.0 Consensus size: 275
8532365 GTATCAGAAG
*
8532375 CACTACTCTAAGATGCTCATCATGCTTCTCTTCGGTCTTAGAGTACACCAGAATATTGTCGATGA
1 CACTACTCTAAGATGCTCATCATGCTCCTCTTCGGTCTTAGAGTACACCAGAATATTGTCGATGA
* * * *
8532440 AGGCTACGATGAACTAATCCAAATACAGTTGGAAAACTTGATTCATCAGATCCATGAATGTAGCT
66 AGGCTACGATGAACTAATCCAAATACAGTTGGAAAACCTAATTCATCAGATCCATAAATGTAGCC
*
8532505 AGAACATTTGTCAAACCAAAGGGCATGATTAGGAACTCGTAGTGCCCATAATGAGTCCTAAAAGC
131 AGAACATTCGTCAAACCAAAGGGCATGATTAGGAACTCGTAGTGCCCATAATGAGTCCTAAAAGC
* * *
8532570 CATTTTATGAACATCAACTTCCTTAACCCTAATCTGATGATACCCAGAACAGAAATCTATTTTCG
196 CATTTTATGAACATCAACTTCCTTAACCCTAAGCTAATGATACCCAAAACAGAAATCTATTTTCG
8532635 AGAATACTGAAGCCC
261 AGAATACTGAAGCCC
* *
8532650 CACTACTCTAAGATGCTCATCATGCTCCTCTTTGGTCTTAGAGTACGCCAGAATATTGTCGATGA
1 CACTACTCTAAGATGCTCATCATGCTCCTCTTCGGTCTTAGAGTACACCAGAATATTGTCGATGA
* *
8532715 AGGCTACGATGAACTGATCCAAATATAGTTGGAAAACCTAATTCATCAGATCCATAAATGTAGCC
66 AGGCTACGATGAACTAATCCAAATACAGTTGGAAAACCTAATTCATCAGATCCATAAATGTAGCC
* * *
8532780 GGAGCATTCGTCAAACCAAAGGGCATGATTAGGAACTCGTAGTGCCCATAATGAGTCCTGAAAGC
131 AGAACATTCGTCAAACCAAAGGGCATGATTAGGAACTCGTAGTGCCCATAATGAGTCCTAAAAGC
* * *
8532845 CATTTTATGAATATCAACTTCCTTAACTCTAAGCTAATGATACCCAAAATAGAAATCTATTTTCG
196 CATTTTATGAACATCAACTTCCTTAACCCTAAGCTAATGATACCCAAAACAGAAATCTATTTTCG
*
8532910 AGAATATTGAAGCCC
261 AGAATACTGAAGCCC
8532925 CAC
1 CAC
8532928 GAAGCTGATT
Statistics
Matches: 258, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
275 258 1.00
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (275 bp):
CACTACTCTAAGATGCTCATCATGCTCCTCTTCGGTCTTAGAGTACACCAGAATATTGTCGATGA
AGGCTACGATGAACTAATCCAAATACAGTTGGAAAACCTAATTCATCAGATCCATAAATGTAGCC
AGAACATTCGTCAAACCAAAGGGCATGATTAGGAACTCGTAGTGCCCATAATGAGTCCTAAAAGC
CATTTTATGAACATCAACTTCCTTAACCCTAAGCTAATGATACCCAAAACAGAAATCTATTTTCG
AGAATACTGAAGCCC
Found at i:8549041 original size:10 final size:10
Alignment explanation
Indices: 8549015--8549053 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
8549005 GAACATGTTG
*
8549015 AATTTTAATT
1 AATTTTGATT
8549025 AATTTTGATT
1 AATTTTGATT
*
8549035 AATTTTGGTT
1 AATTTTGATT
*
8549045 ATTTTTGAT
1 AATTTTGAT
8549054 AGAATTGCAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.10, T:0.62
Consensus pattern (10 bp):
AATTTTGATT
Found at i:8554011 original size:43 final size:43
Alignment explanation
Indices: 8553926--8554047 Score: 135
Period size: 43 Copynumber: 2.8 Consensus size: 43
8553916 AAATACATAT
* * *
8553926 CGATGCCACTTTCCCAGACA-GAGTCTTATACGAAATTATAATA
1 CGATGCCAATGTCCCAGACATG-GTCTTACACGAAATTATAATA
*
8553969 CGATGCCAATGTCCCAGACATGGTCTTACACGTAATCT-TAATA
1 CGATGCCAATGTCCCAGACATGGTCTTACACGAAAT-TATAATA
*
8554012 C-ATTGCCAATGTCCCA-AGCATGGTCTTACATGAAAT
1 CGA-TGCCAATGTCCCAGA-CATGGTCTTACACGAAAT
8554048 CACATCTCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
42 2 0.03
43 65 0.94
44 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGAAATTATAATA
Found at i:8567046 original size:25 final size:25
Alignment explanation
Indices: 8567012--8567062 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
8567002 AGTTTTATTG
8567012 TTAATTTACTCTTTCACACTTTCTT
1 TTAATTTACTCTTTCACACTTTCTT
8567037 TTAATTTACTCTTTCACACTTTCTT
1 TTAATTTACTCTTTCACACTTTCTT
8567062 T
1 T
8567063 GTATTAACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.20, C:0.24, G:0.00, T:0.57
Consensus pattern (25 bp):
TTAATTTACTCTTTCACACTTTCTT
Found at i:8568313 original size:30 final size:30
Alignment explanation
Indices: 8568279--8568339 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
8568269 TCCTTAACTC
8568279 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
8568309 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
8568339 A
1 A
8568340 GGCTTGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:8575663 original size:5 final size:5
Alignment explanation
Indices: 8575655--8575696 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
8575645 GATATTATGT
*
8575655 TATTA TATTA TTGTTA TATTA TATTA TA-T- TATTA TATTA TAT
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TAT
8575697 AACATAAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
3 2 0.06
4 2 0.06
5 24 0.75
6 4 0.12
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (5 bp):
TATTA
Found at i:8575695 original size:13 final size:13
Alignment explanation
Indices: 8575646--8575696 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 13
8575636 TATGTAAATG
*
8575646 ATATTATGTTATT
1 ATATTATATTATT
*
8575659 ATATTATTGTTATATT
1 ATATTA-T-AT-TATT
8575675 ATATTATATTATT
1 ATATTATATTATT
8575688 ATATTATAT
1 ATATTATAT
8575697 AACATAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 19 0.58
14 2 0.06
15 2 0.06
16 10 0.30
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (13 bp):
ATATTATATTATT
Found at i:8589858 original size:50 final size:50
Alignment explanation
Indices: 8589774--8589968 Score: 257
Period size: 50 Copynumber: 3.9 Consensus size: 50
8589764 TGATGCTAGG
*
8589774 GATATATGAGAGAT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATC
1 GATATATGAGAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
* * *
8589824 GATAGATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCATC
1 GATATATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
* * * * * *
8589874 GATATATGAAAGTCAATGCAAGACCATATTTGGGACATGGAATCGGCCTC
1 GATATATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
* * *
8589924 GATATACGAGAGTTAGTCTAAGACCATGTTTGGGACATGGCATCG
1 GATATATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCG
8589969 ACTTTAATGT
Statistics
Matches: 123, Mismatches: 21, Indels: 2
0.84 0.14 0.01
Matches are distributed among these distances:
50 123 1.00
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (50 bp):
GATATATGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGGCATC
Found at i:8613816 original size:38 final size:38
Alignment explanation
Indices: 8613760--8613882 Score: 156
Period size: 38 Copynumber: 3.2 Consensus size: 38
8613750 GGCACGAAGG
* * * * *
8613760 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
8613798 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** *
8613836 CCCGGATATTTTACCAGCACGAAGCCTGCGGGTCTTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG-ATTTAA
8613875 GCCCGGAT
1 -CCCGGAT
8613883 CCACATCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
38 63 0.84
39 5 0.07
40 7 0.09
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:8614388 original size:39 final size:39
Alignment explanation
Indices: 8614334--8614412 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
8614324 GTGTAACACC
8614334 CCTATCCCATAACCGTCGCCGGAATAGGACGAGGCGTTA
1 CCTATCCCATAACCGTCGCCGGAATAGGACGAGGCGTTA
* *
8614373 CCTATCCCGTAACCGTCGGCGGAATAGGACGAGGCGTTA
1 CCTATCCCATAACCGTCGCCGGAATAGGACGAGGCGTTA
8614412 C
1 C
8614413 TAGAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.30, G:0.28, T:0.18
Consensus pattern (39 bp):
CCTATCCCATAACCGTCGCCGGAATAGGACGAGGCGTTA
Found at i:8616310 original size:39 final size:40
Alignment explanation
Indices: 8616226--8616310 Score: 118
Period size: 39 Copynumber: 2.1 Consensus size: 40
8616216 ACTTGACTCA
* * *
8616226 CCAGCATTAAGCCTGCGGGACTTTAAACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
8616266 CCAGCATGAAGCCAGCGGGTCTCT-AACCCGGATACAATC
1 CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
*
8616305 TCAGCA
1 CCAGCA
8616311 CAATTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 20 0.50
40 20 0.50
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (40 bp):
CCAGCATGAAGCCAGCGGGACTCTAAACCCGGATACAATC
Found at i:8616435 original size:45 final size:46
Alignment explanation
Indices: 8616381--8616489 Score: 141
Period size: 45 Copynumber: 2.3 Consensus size: 46
8616371 TGCACACTTT
*
8616381 TCACAATTGGTCATTCGGCCTTATCACATAT-TCACTTACACATAT-A
1 TCAC-ATTGGTCATTCGGCCTTATCACATATAACACTTACACAT-TCA
* *
8616427 TCACATTGGCCATTCGGCCTTATCACATATACACACTTTCACATTCA
1 TCACATTGGTCATTCGGCCTTATCACATATA-ACACTTACACATTCA
*
8616474 TCACATTGGTTATTCG
1 TCACATTGGTCATTCG
8616490 ATCTTAAGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
45 25 0.45
46 5 0.09
47 25 0.45
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (46 bp):
TCACATTGGTCATTCGGCCTTATCACATATAACACTTACACATTCA
Found at i:8618578 original size:22 final size:20
Alignment explanation
Indices: 8618538--8618578 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
8618528 AGTCGTATTA
*
8618538 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
8618558 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
8618579 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Done.