Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 34 of 113
Found at i:10290135 original size:19 final size:19
Alignment explanation
Indices: 10290106--10290164 Score: 93
Period size: 18 Copynumber: 3.1 Consensus size: 19
10290096 GAGCTTTGGT
10290106 AAAAACAAAAAAAACAAAAA
1 AAAAAC-AAAAAAACAAAAA
10290126 AAAAACAAAAAAAC-AAAA
1 AAAAACAAAAAAACAAAAA
*
10290144 AAAAACAAAAAAATAAAAA
1 AAAAACAAAAAAACAAAAA
10290163 AA
1 AA
10290165 CCAAAAAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
18 17 0.46
19 14 0.38
20 6 0.16
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (19 bp):
AAAAACAAAAAAACAAAAA
Found at i:10290172 original size:1 final size:1
Alignment explanation
Indices: 10290106--10290164 Score: 64
Period size: 1 Copynumber: 59.0 Consensus size: 1
10290096 GAGCTTTGGT
* * * * * *
10290106 AAAAACAAAAAAAACAAAAAAAAAACAAAAAAACAAAAAAAAACAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10290165 CCAAAAAATG
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.90, C:0.08, G:0.00, T:0.02
Consensus pattern (1 bp):
A
Found at i:10290390 original size:16 final size:19
Alignment explanation
Indices: 10290369--10290417 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 19
10290359 TTTTATGTAT
10290369 TGTATTATTTATT-AT-TA
1 TGTATTATTTATTAATATA
*
10290386 T-TATTATGTATTAATATA
1 TGTATTATTTATTAATATA
10290404 TGTATATATTTATT
1 TGTAT-TATTTATT
10290418 TATTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 10 0.38
17 3 0.12
18 3 0.12
19 3 0.12
20 7 0.27
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (19 bp):
TGTATTATTTATTAATATA
Found at i:10290538 original size:57 final size:55
Alignment explanation
Indices: 10290394--10290550 Score: 139
Period size: 54 Copynumber: 2.9 Consensus size: 55
10290384 TATTATTATG
* * * *
10290394 TATTAATATATGTATATATTTATTTATTTTTTTT-TGTTAATATTTATGTGTATTT
1 TATTATTA-ATGTATATATTTATATATTTTTTTTATTTTATTATTTATGTGTATTT
* * *
10290449 TATTATTTATGTATATATATATATTATCTTTTTTATTTTATTCATTT-T-TGTATTTT
1 TATTATTAATGTATATATTTATA-TATTTTTTTTATTTTATT-ATTTATGTGTA-TTT
10290505 TACTTATCTAAT-TATATATTTGATATA-TTTTTTTA--TTATTATTTAT
1 TA-TTAT-TAATGTATATATTT-ATATATTTTTTTTATTTTATTATTTAT
10290551 CCTATAATAT
Statistics
Matches: 84, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
53 4 0.05
54 19 0.23
55 19 0.23
56 18 0.21
57 18 0.21
58 6 0.07
ACGTcount: A:0.27, C:0.03, G:0.04, T:0.66
Consensus pattern (55 bp):
TATTATTAATGTATATATTTATATATTTTTTTTATTTTATTATTTATGTGTATTT
Found at i:10290968 original size:31 final size:32
Alignment explanation
Indices: 10290933--10291001 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 32
10290923 ATTTTCAGAA
* *
10290933 TCCGGCGAAAATTCCGGCGAAGTTTGAA-TTT
1 TCCGGCGAAAATTCCGGCCAACTTTGAAGTTT
**
10290964 TCCGGCGAATTTTCCGGCCAACTTTGAAGTTT
1 TCCGGCGAAAATTCCGGCCAACTTTGAAGTTT
10290996 T-CGGCG
1 TCCGGCG
10291002 GTCTGCCCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
31 29 0.88
32 4 0.12
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.30
Consensus pattern (32 bp):
TCCGGCGAAAATTCCGGCCAACTTTGAAGTTT
Found at i:10291632 original size:57 final size:57
Alignment explanation
Indices: 10291555--10291834 Score: 371
Period size: 57 Copynumber: 4.7 Consensus size: 57
10291545 AAAATTCCAA
* *
10291555 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTTC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
* *
10291613 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTT---AG--AAATAAATTTCC
*
10291675 AAAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
1 ----AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
* * * *
10291736 AAAAACTATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
*
10291793 AAAAAATATTTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAATA-TTTTTAGGGAAAAGTTGAAAGTATCAATTTTTC
10291835 CCACTCAAAA
Statistics
Matches: 197, Mismatches: 15, Indels: 20
0.85 0.06 0.09
Matches are distributed among these distances:
57 94 0.48
58 36 0.18
60 2 0.01
61 12 0.06
62 11 0.06
63 2 0.01
66 40 0.20
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.35
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
Found at i:10291680 original size:123 final size:117
Alignment explanation
Indices: 10291549--10291834 Score: 441
Period size: 123 Copynumber: 2.4 Consensus size: 117
10291539 AAATAAAAAA
*
10291549 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTTCA
1 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTCCA
10291614 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAAT
66 AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-----AAAAATAAAT
* * *
10291671 TTCCAAAAAAAAAAAATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTTAGAAATAAATTTCC
1 TTCC-AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTCC
* *
10291736 AAAAACTATTTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
65 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
*
10291789 TTCC-AAAAAATAT-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTTC
1 TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTC
10291835 CCACTCAAAA
Statistics
Matches: 154, Mismatches: 9, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
115 32 0.21
116 7 0.05
118 14 0.09
122 4 0.03
123 97 0.63
ACGTcount: A:0.44, C:0.08, G:0.12, T:0.35
Consensus pattern (117 bp):
TTCCAAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTTCTCAGAAATAAATTTCCA
AAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAT
Found at i:10292783 original size:22 final size:22
Alignment explanation
Indices: 10292750--10292796 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
10292740 ATATATTTAG
10292750 ATTTTTTATTAAA-TAATATAAA
1 ATTTTTTATTAAATTAAT-TAAA
10292772 ATTTTATT-TTAAATTAATTAAA
1 ATTTT-TTATTAAATTAATTAAA
10292794 ATT
1 ATT
10292797 AACCTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTTTTATTAAATTAATTAAA
Found at i:10298944 original size:23 final size:23
Alignment explanation
Indices: 10298918--10298970 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
10298908 CTTTAGTACT
10298918 GTTCAGTACTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
** *
10298941 GTTCAGCGCTCAATTATGGCAGA
1 GTTCAGTACTCAATTATAGCAGA
10298964 GTTCAGT
1 GTTCAGT
10298971 GAACTAGTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (23 bp):
GTTCAGTACTCAATTATAGCAGA
Found at i:10301304 original size:13 final size:13
Alignment explanation
Indices: 10301286--10301311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10301276 TTAGTTAAAG
10301286 AAAAATCAAAATA
1 AAAAATCAAAATA
10301299 AAAAATCAAAATA
1 AAAAATCAAAATA
10301312 GAAAGGAATG
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCAAAATA
Found at i:10301504 original size:60 final size:59
Alignment explanation
Indices: 10301346--10301814 Score: 610
Period size: 59 Copynumber: 7.8 Consensus size: 59
10301336 TTTTGTGTAG
*
10301346 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
* * * *
10301403 GAAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
10301462 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTT-GAAATTTTGATTT-TCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAA-TTT-ATTTCT-AA
*
10301522 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTA--TTTC---TAA
* * * *
10301586 GGAAAATTGGTACTTTCAACTTTTCCCTAAAAATATTTTTTTTTTGAAATTTATTTCTGA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAAATTTATTTCTAA
* *
10301646 GGAAAATTTAT-CTTTCAACTCTTCCCCAAAAATA--TTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
*
10301702 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAAATTTA--TTTC---TAA
* *
10301767 GGAAAATTGATACTTTCAAATTTTCCCTAAAAATATTTTTTTTTGGAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGGAA
10301815 TTTTTTATTT
Statistics
Matches: 366, Mismatches: 24, Indels: 36
0.86 0.06 0.08
Matches are distributed among these distances:
56 30 0.08
57 54 0.15
58 4 0.01
59 86 0.23
60 76 0.21
61 7 0.02
62 4 0.01
63 4 0.01
64 35 0.10
65 66 0.18
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGGAAATTTATTTCTAA
Found at i:10302427 original size:11 final size:11
Alignment explanation
Indices: 10302411--10302440 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
10302401 CGGAAAATTC
10302411 AAATTTCGTCG
1 AAATTTCGTCG
10302422 AAATTTTCGTCG
1 AAA-TTTCGTCG
10302434 AAATTTC
1 AAATTTC
10302441 CAGAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (11 bp):
AAATTTCGTCG
Found at i:10302431 original size:12 final size:12
Alignment explanation
Indices: 10302414--10302439 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10302404 AAAATTCAAA
10302414 TTTCGTCGAAAT
1 TTTCGTCGAAAT
10302426 TTTCGTCGAAAT
1 TTTCGTCGAAAT
10302438 TT
1 TT
10302440 CCAGAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (12 bp):
TTTCGTCGAAAT
Found at i:10302877 original size:22 final size:23
Alignment explanation
Indices: 10302830--10302976 Score: 77
Period size: 23 Copynumber: 5.9 Consensus size: 23
10302820 ATAATTAGAT
10302830 AAATAAAAATACAAAAATAAATA
1 AAATAAAAATACAAAAATAAATA
*
10302853 AAATAAAAGATA-AAAAATAATAAA
1 AAATAAAA-ATACAAAAATAA-ATA
* *
10302877 AAATATATATATTACTAATAATAAAT-
1 AAATA-A-A-AATAC-AAAAATAAATA
* *
10302903 AAATAATAAAATACATAGGATATACATA
1 AAAT-A-AAAATACA-A--AAATAAATA
10302931 AAATATAAAATA-AAATAA-AAATAA
1 AAATA-AAAATACAAA-AATAAAT-A
*
10302955 AAATAAAAATGACAAAGATAAA
1 AAATAAAAAT-ACAAAAATAAA
10302977 ATTGAACCTA
Statistics
Matches: 96, Mismatches: 11, Indels: 32
0.69 0.08 0.23
Matches are distributed among these distances:
23 25 0.26
24 20 0.21
25 13 0.14
26 9 0.09
27 18 0.19
28 11 0.11
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (23 bp):
AAATAAAAATACAAAAATAAATA
Found at i:10302945 original size:12 final size:12
Alignment explanation
Indices: 10302928--10302962 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
10302918 TAGGATATAC
10302928 ATAAAATATAAA
1 ATAAAATATAAA
10302940 ATAAAATA-AAA
1 ATAAAATATAAA
10302951 ATAAAA-ATAAA
1 ATAAAATATAAA
10302962 A
1 A
10302963 ATGACAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.59
12 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:10302953 original size:6 final size:6
Alignment explanation
Indices: 10302930--10302964 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
10302920 GGATATACAT
10302930 AAAATA TAAAAT- AAAATA AAAATA AAAATA AAAAT
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAAT
10302965 GACAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:10302963 original size:12 final size:11
Alignment explanation
Indices: 10302830--10302964 Score: 57
Period size: 12 Copynumber: 11.9 Consensus size: 11
10302820 ATAATTAGAT
10302830 AAATAAAAATA
1 AAATAAAAATA
10302841 CAAA-AATAAATA
1 -AAATAA-AAATA
10302853 AAATAAAAGATA
1 AAATAAAA-ATA
*
10302865 AAA-AATAATA
1 AAATAAAAATA
10302875 AAA-AATATATATA
1 AAATAA-A-A-ATA
* * *
10302888 TTACTAATAAT-
1 -AAATAAAAATA
10302899 AAATAAATAATA
1 AAATAAA-AATA
*
10302911 AAAT--ACATA
1 AAATAAAAATA
** * *
10302920 GGATATACATA
1 AAATAAAAATA
10302931 AAATATAAAATA
1 AAATA-AAAATA
10302943 AAATAAAAATAA
1 AAATAAAAAT-A
10302955 AAATAAAAAT
1 AAATAAAAAT
10302965 GACAAAGATA
Statistics
Matches: 94, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
9 5 0.05
10 13 0.14
11 26 0.28
12 43 0.46
13 4 0.04
14 1 0.01
15 2 0.02
ACGTcount: A:0.71, C:0.03, G:0.02, T:0.24
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:10303138 original size:1 final size:1
Alignment explanation
Indices: 10303128--10303235 Score: 81
Period size: 1 Copynumber: 108.0 Consensus size: 1
10303118 ATTGTCTTTC
* * * * * * * * * * *
10303128 TTTTTGTTTTTTGTTTTTTTTGTGTTTTTTTGTGTTTTTTTGTTTTTTTTATTTTTTTTCTTGTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
10303193 TTGTTTTTTTTTTGTTTTTTTTTTGTTTTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10303236 CCAAAGCTCC
Statistics
Matches: 77, Mismatches: 30, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:10303145 original size:8 final size:8
Alignment explanation
Indices: 10303128--10303232 Score: 92
Period size: 8 Copynumber: 12.6 Consensus size: 8
10303118 ATTGTCTTTC
10303128 TTTTTGTT
1 TTTTTGTT
*
10303136 TTTTGTTTT
1 TTTT-TGTT
10303145 TTTTGTGTTT
1 TTTT-TG-TT
10303155 TTTTGTGTT
1 TTTT-TGTT
10303164 TTTTTGTT
1 TTTTTGTT
10303172 TTTTT-TAT
1 TTTTTGT-T
10303180 TTTTT-TT
1 TTTTTGTT
10303187 CTTGTGTTGTT
1 -TT-T-TTGTT
10303198 TTTTT-TT
1 TTTTTGTT
*
10303205 TGTTT-TT
1 TTTTTGTT
10303212 TTTTTGTT
1 TTTTTGTT
10303220 TTTTTGTT
1 TTTTTGTT
10303228 TTTTT
1 TTTTT
10303233 TTTCCAAAGC
Statistics
Matches: 85, Mismatches: 4, Indels: 16
0.81 0.04 0.15
Matches are distributed among these distances:
7 14 0.16
8 39 0.46
9 17 0.20
10 13 0.15
11 2 0.02
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (8 bp):
TTTTTGTT
Found at i:10303155 original size:10 final size:9
Alignment explanation
Indices: 10303134--10303233 Score: 112
Period size: 9 Copynumber: 10.7 Consensus size: 9
10303124 TTTCTTTTTG
10303134 TTTTTTGTT
1 TTTTTTGTT
10303143 TTTTTTGTGT
1 TTTTTTGT-T
10303153 TTTTTTGTGT
1 TTTTTTGT-T
10303163 TTTTTTGTT
1 TTTTTTGTT
*
10303172 TTTTTTATT
1 TTTTTTGTT
*
10303181 TTTTTTCTT
1 TTTTTTGTT
*
10303190 GTGTTGTT-TT
1 -T-TTTTTGTT
10303200 TTTTTTGTT
1 TTTTTTGTT
*
10303209 TTTTTTTTGT
1 TTTTTTGT-T
10303219 TTTTTTGTT
1 TTTTTTGTT
10303228 TTTTTT
1 TTTTTT
10303234 TTCCAAAGCT
Statistics
Matches: 80, Mismatches: 6, Indels: 10
0.83 0.06 0.10
Matches are distributed among these distances:
8 4 0.05
9 42 0.52
10 30 0.38
11 4 0.05
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:10303234 original size:10 final size:10
Alignment explanation
Indices: 10303134--10303234 Score: 98
Period size: 10 Copynumber: 9.6 Consensus size: 10
10303124 TTTCTTTTTG
10303134 TTTTTTGTTT
1 TTTTTTGTTT
10303144 TTTTTGTGTTT
1 TTTTT-TGTTT
*
10303155 TTTTGTGTTT
1 TTTTTTGTTT
10303165 TTTTGTT-TTT
1 TTTT-TTGTTT
*
10303175 TTTATTTTTTT
1 TTT-TTTGTTT
10303186 TCTTGTGTTGTTTT
1 T-TT-T-TTG-TTT
10303200 TTTTTTGTTT
1 TTTTTTGTTT
*
10303210 TTTTTT-TGT
1 TTTTTTGTTT
10303219 TTTTTTGTTT
1 TTTTTTGTTT
10303229 TTTTTT
1 TTTTTT
10303235 TCCAAAGCTC
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
9 8 0.10
10 39 0.51
11 18 0.23
12 4 0.05
13 4 0.05
14 4 0.05
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (10 bp):
TTTTTTGTTT
Found at i:10303235 original size:11 final size:11
Alignment explanation
Indices: 10303129--10303235 Score: 105
Period size: 11 Copynumber: 9.6 Consensus size: 11
10303119 TTGTCTTTCT
10303129 TTTTGTTTTTTG
1 TTTT-TTTTTTG
*
10303141 TTTTTTTTGTG
1 TTTTTTTTTTG
*
10303152 -TTTTTTTGTG
1 TTTTTTTTTTG
10303162 TTTTTTTGTTT-
1 TTTTTTT-TTTG
10303173 TTTTTATTTTT-
1 TTTTT-TTTTTG
* *
10303184 TTTCTTGTGTTG
1 TTT-TTTTTTTG
10303196 TTTTTTTTTTG
1 TTTTTTTTTTG
10303207 TTTTTTTTTTG
1 TTTTTTTTTTG
10303218 TTTTTTTGTTT-
1 TTTTTTT-TTTG
10303229 TTTTTTT
1 TTTTTTT
10303236 CCAAAGCTCC
Statistics
Matches: 83, Mismatches: 6, Indels: 13
0.81 0.06 0.13
Matches are distributed among these distances:
10 10 0.12
11 57 0.69
12 16 0.19
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:10303335 original size:41 final size:41
Alignment explanation
Indices: 10303241--10303857 Score: 867
Period size: 41 Copynumber: 15.0 Consensus size: 41
10303231 TTTTTCCAAA
* *
10303241 GCTCCTCTAAACAGAGGCT-CAACGACTTTGAGAAACATAAATT
1 GCTCCTCTAAACAGAGG-TACCACGACTTTGA-AAA-GTAAATT
10303284 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
*
10303325 GCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGAC-TTTGAAAAGTAAATT
* *
10303367 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
*
10303408 GCTCCTCTAAACAGAGG--CAACGGAACTTTG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCAC-G-ACTTTGAAAAGTAAATT
*
10303448 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAGTAAATT
*
10303490 GCTCCTTTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
* *
10303531 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
* *
10303572 GCTCCTCTAAACAGAGG--CAATGAACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACG-ACTTTGAAAAGTAAATT
10303612 GCTCCTCTAAACAGAGGCT-CCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGG-TACCACGACTTTG-AAAAGTAAATT
10303654 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTG-AAAAGTAAATT
* * *
10303696 GCTCCTCTAAACAGAGG--CAATGGAC-TTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCA-CGACTTTGAAAAGTAAATT
* * *
10303735 ACTCCTCTAAACAGAGGTACCACGACTTTGGAGAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
*
10303776 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGTACCACGACTTT-GAAAAGTAAATT
*
10303818 GCTCCTCTAAACAGAGGTACCATGACTTTGAAAAGTAAAT
1 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAAT
10303858 ACTCCTAGAC
Statistics
Matches: 527, Mismatches: 29, Indels: 38
0.89 0.05 0.06
Matches are distributed among these distances:
39 32 0.06
40 74 0.14
41 200 0.38
42 193 0.37
43 28 0.05
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATT
Found at i:10303522 original size:164 final size:164
Alignment explanation
Indices: 10303241--10303857 Score: 978
Period size: 164 Copynumber: 3.7 Consensus size: 164
10303231 TTTTTCCAAA
* *
10303241 GCTCCTCTAAACAGAGGCTCAACGACTTTGAGAAACATAAATTGCTCCTCTAAACAGAGGTACCA
1 GCTCCTCTAAACAGAGG-TCAACGACTTTG-GAAA-GTAAATTGCTCCTCTAAACAGAGGCACCA
*
10303306 CGACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTTGAAAAGTAAATTGCT
63 CGACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGAC-TTTGAAAAGTAAATTGCT
10303370 CCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
127 CCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
10303408 GCTCCTCTAAACAGAGG-CAACGGAACTTT-GAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGTCAAC-G-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
10303471 GACTTTGGAAAAGTAAATTGCTCCTTTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCC
64 GACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCC
10303536 TCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
129 TCTAAACAGAGGCACCACGACTTTGGAAAGTAAATT
* * *
10303572 GCTCCTCTAAACAGAGG-CAATGAACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCTCCACG
1 GCTCCTCTAAACAGAGGTCAACG-ACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
10303636 ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAAGTAAATTGCTCC
65 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTG-AAAAGTAAATTGCTCC
*
10303701 TCTAAACAGAGGCA--ATGGAC-TTGGAAAGTAAATT
129 TCTAAACAGAGGCACCA-CGACTTTGGAAAGTAAATT
* * *
10303735 ACTCCTCTAAACAGAGGTACCACGACTTTGGAGAGTAAATTGCTCCTCTAAACAGAGGCACCACG
1 GCTCCTCTAAACAGAGGT-CAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG
*
10303800 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCATGACTTTGAAAAGTAAAT
65 ACTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAAT
10303858 ACTCCTAGAC
Statistics
Matches: 424, Mismatches: 18, Indels: 20
0.92 0.04 0.04
Matches are distributed among these distances:
163 48 0.11
164 276 0.65
165 77 0.18
166 1 0.00
167 22 0.05
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (164 bp):
GCTCCTCTAAACAGAGGTCAACGACTTTGGAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGA
CTTTGGAAAAGTAAATTGCTCCTCTAAACAGAGGTACCACGACTTTGAAAAGTAAATTGCTCCTC
TAAACAGAGGCACCACGACTTTGGAAAGTAAATT
Found at i:10305061 original size:19 final size:18
Alignment explanation
Indices: 10305039--10305116 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 18
10305029 TTTGAATATC
10305039 TTTTTTTTTTATTTTCTCA
1 TTTTTTTTTTATTTT-TCA
10305058 TTTTTTCCTTTT-TTTTTC-
1 TTTTTT--TTTTATTTTTCA
10305076 TTTTTTTCTTT-TTTTTCA
1 TTTTTTT-TTTATTTTTCA
10305094 TCATCTTTTTTTTCATTTTTCA
1 T--T-TTTTTTTT-ATTTTTCA
10305116 T
1 T
10305117 CCATTGTTGA
Statistics
Matches: 50, Mismatches: 0, Indels: 15
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.02
17 9 0.18
18 7 0.14
19 8 0.16
20 8 0.16
21 9 0.18
22 8 0.16
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTTTTTTATTTTTCA
Found at i:10305113 original size:39 final size:36
Alignment explanation
Indices: 10305037--10305114 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 36
10305027 AATTTGAATA
*
10305037 TCTTTTTTTTTTATTTTCTCATTTTTTCCTTTTTTTT
1 TCTTTTTTTTTTATTTTCTCATTTTTT-CTTTATTTT
*
10305074 TCTTTTTTTCTTTTTTTTCATCATCTTTTT-TTTCATTTT
1 TCTTTTTTT-TTTATTTTC-TCAT-TTTTTCTTT-ATTTT
10305113 TC
1 TC
10305115 ATCCATTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
37 9 0.26
38 11 0.31
39 10 0.29
40 5 0.14
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.78
Consensus pattern (36 bp):
TCTTTTTTTTTTATTTTCTCATTTTTTCTTTATTTT
Found at i:10305183 original size:22 final size:22
Alignment explanation
Indices: 10305158--10305202 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
10305148 CCCTTGCTTC
10305158 ATCATGAGCATGTCTTTGCTCA
1 ATCATGAGCATGTCTTTGCTCA
10305180 ATCATGAGCATGTCTTTGCTCA
1 ATCATGAGCATGTCTTTGCTCA
10305202 A
1 A
10305203 CATATGACCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (22 bp):
ATCATGAGCATGTCTTTGCTCA
Found at i:10308968 original size:13 final size:13
Alignment explanation
Indices: 10308950--10308975 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10308940 TTAGTTAAAG
10308950 AAAAATCAAAATA
1 AAAAATCAAAATA
10308963 AAAAATCAAAATA
1 AAAAATCAAAATA
10308976 GAAAGGAATG
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:0.77, C:0.08, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAATCAAAATA
Found at i:10309228 original size:123 final size:118
Alignment explanation
Indices: 10309010--10309412 Score: 591
Period size: 123 Copynumber: 3.3 Consensus size: 118
10309000 TTTTATGTAG
10309010 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTA-TT-TTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTTTTAAGGAAA
10309073 ATTGATACTTTCAACTTTTGCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
66 ATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
10309127 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAAG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTA--TTTCTTTTAAG
* *
10309192 GAAAATTGGTACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTAAATTTATTTCTGA
62 GAAAATTGATACTTTCAACTTTTCC-TAAAAATATTTTTTTTTGAAATTTATTTCTGA
*
10309250 GGAAAATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTGGAAATTTATTTC---TAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTTTTAAGGAAA
*
10309312 ATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
66 ATTGATACTTTCAACTTTT-CCTAAAAATATTTTTTTTT-GAAATTTA--TTTC---TGA
* * *
10309372 GGAAAATTAATACTTTCAACTTTTCCCTAAAAACATTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
10309413 TTTGGAATTT
Statistics
Matches: 262, Mismatches: 10, Indels: 23
0.89 0.03 0.08
Matches are distributed among these distances:
116 43 0.16
117 44 0.17
119 23 0.09
121 15 0.06
122 43 0.16
123 94 0.36
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (118 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTTTTAAGGAAA
ATTGATACTTTCAACTTTTCCTAAAAATATTTTTTTTTGAAATTTATTTCTGA
Found at i:10309355 original size:181 final size:182
Alignment explanation
Indices: 10309010--10309422 Score: 627
Period size: 181 Copynumber: 2.3 Consensus size: 182
10309000 TTTTATGTAG
* * *
10309010 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA--TTTTTTGGAAATTTATTTTTTAAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTCTAAGGAAA
* * * * *
10309073 ATTGATACTTTCAACTTTTGCCTAAAAATATTTTTTTTTGAAATTTATTTCTGAGGAAAATTGAT
66 ATTGATACTTTCAACTCTTCCCCAAAAATA-TTTTTTTGGAAATTTATTTCTAAGGAAAATTGAT
10309138 ACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAA
130 ACTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAA
* * * *
10309191 GGAAAATTGGTACTTTCAACTTTTCCTTAAAAATATTTTTTTTTTAAATTTA-TTTCTGAGGAAA
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTCTAAGGAAA
10309255 ATTGATACTTTCAACTCTTCCCCAAAAATA-TTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
66 ATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
* *
10309319 CTTTCAACTTTTCCCTAAAAATATTTTTTTTTGGAAATTTATTTTTCTTTTAA
131 CTTTCAACTTTTCCCCAAAAATA-CTTTTTTTGGAAATTTATTTTTCTTTTAA
* * *
10309372 GGAAAATTAATACTTTCAACTTTTCCCTAAAAACATTTTTTTTTGGAATTT
1 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTT
10309423 TTTATTTTTA
Statistics
Matches: 209, Mismatches: 20, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
180 54 0.26
181 105 0.50
182 37 0.18
183 13 0.06
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.47
Consensus pattern (182 bp):
GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTTGAAATTTATTTTCTAAGGAAA
ATTGATACTTTCAACTCTTCCCCAAAAATATTTTTTTGGAAATTTATTTCTAAGGAAAATTGATA
CTTTCAACTTTTCCCCAAAAATACTTTTTTTGGAAATTTATTTTTCTTTTAA
Found at i:10309932 original size:19 final size:20
Alignment explanation
Indices: 10309889--10309934 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
10309879 GAACATCGGT
*
10309889 GCCGGATTCTGGAAAATGTC
1 GCCGGAATCTGGAAAATGTC
* *
10309909 ACCGGAATCTGG-AAATTTC
1 GCCGGAATCTGGAAAATGTC
10309928 GCCGGAA
1 GCCGGAA
10309935 GTTGGTCGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (20 bp):
GCCGGAATCTGGAAAATGTC
Found at i:10310504 original size:23 final size:23
Alignment explanation
Indices: 10310456--10310503 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
10310446 ATAATTAGAT
10310456 AAATAAAAATACAAAAATAAATA
1 AAATAAAAATACAAAAATAAATA
10310479 AAATAAAAGATA-AAAAAT-AATA
1 AAATAAAA-ATACAAAAATAAATA
10310501 AAA
1 AAA
10310504 AATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 7 0.29
23 14 0.58
24 3 0.12
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (23 bp):
AAATAAAAATACAAAAATAAATA
Found at i:10310531 original size:73 final size:78
Alignment explanation
Indices: 10310419--10310583 Score: 175
Period size: 74 Copynumber: 2.2 Consensus size: 78
10310409 ATTATAGGAT
*
10310419 AAATAATAAAAAAATAATATCAGATATATAATTAGATAAAT-A-AAAATACA-A-AAATAAATAA
1 AAATAATAAAAAAATAATATCAGATATATAATTACATAAATAATAAAATACATAGAAATAAATAA
10310480 AATA-AAAGATAAA
66 AATATAAA-ATAAA
* * * *
10310493 AAATAATAAAAAATATATATATTA-CTA-ATAA-TACATAAATAATAAAATACATAGGATATACA
1 AAATAATAAAAAA-ATA-ATATCAGATATATAATTACATAAATAATAAAATACATA-GAAATAAA
10310555 TAAAATATAAAATAAA
63 TAAAATATAAAATAAA
*
10310571 ATAAAAATAAAAA
1 A-AATAATAAAAA
10310584 TAAAAATGAC
Statistics
Matches: 76, Mismatches: 6, Indels: 13
0.80 0.06 0.14
Matches are distributed among these distances:
73 8 0.11
74 18 0.24
75 13 0.17
76 6 0.08
78 18 0.24
79 13 0.17
ACGTcount: A:0.68, C:0.04, G:0.03, T:0.25
Consensus pattern (78 bp):
AAATAATAAAAAAATAATATCAGATATATAATTACATAAATAATAAAATACATAGAAATAAATAA
AATATAAAATAAA
Found at i:10310571 original size:12 final size:12
Alignment explanation
Indices: 10310554--10310588 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
10310544 TAGGATATAC
10310554 ATAAAATATAAA
1 ATAAAATATAAA
10310566 ATAAAATA-AAA
1 ATAAAATATAAA
10310577 ATAAAA-ATAAA
1 ATAAAATATAAA
10310588 A
1 A
10310589 ATGACAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 13 0.59
12 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (12 bp):
ATAAAATATAAA
Found at i:10310579 original size:6 final size:6
Alignment explanation
Indices: 10310556--10310590 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
10310546 GGATATACAT
10310556 AAAATA TAAAAT- AAAATA AAAATA AAAATA AAAAT
1 AAAATA -AAAATA AAAATA AAAATA AAAATA AAAAT
10310591 GACAAAGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 17 0.63
7 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAAATA
Found at i:10313494 original size:186 final size:186
Alignment explanation
Indices: 10313180--10313548 Score: 558
Period size: 186 Copynumber: 2.0 Consensus size: 186
10313170 CTTAAAACTC
* *
10313180 TACAAATCAGAATAAGTGAAATTAGTCATATAAAAAAATCTATTTATAATAAATAAATAGTCACA
1 TACAAATCAGAATAAGTGAAATTAGTCATATAAAAAAATCTATGTATAATAAACAAATAGTCACA
* *
10313245 AATTTCTATTAAAAAATTATGACAATATGTATAGTTATAGTTTTATATTCAAACAAATTTATTCA
66 AATTTCTATTAAAAAATTATGACAATATGTATAATCATAGTTTTATATTCAAACAAATTTATTCA
*
10313310 AAATAAAAATAATATTAATTTATTAATATTTCAAAACTTTAATAAGTGCTCAAAGT
131 AAATAAAAATAATATTAATTTATTAAAATTTCAAAACTTTAATAAGTGCTCAAAGT
* * * *
10313366 TACAAATCATAATCAGTGAAATTGGTCATATAAAAATATCTATGTATAATAAACAAATAGTCACA
1 TACAAATCAGAATAAGTGAAATTAGTCATATAAAAAAATCTATGTATAATAAACAAATAGTCACA
* * * * * * * *
10313431 AATTTTTATTAAAAAATTATGACAATCTTTATAATCATATTTTTATGTTCAAAGAAGTTTATTCC
66 AATTTCTATTAAAAAATTATGACAATATGTATAATCATAGTTTTATATTCAAACAAATTTATTCA
* * *
10313496 GAATAAAAATAATATTAATTTATTAAAATTTTAAAATTTTAATAAGTGCTCAA
131 AAATAAAAATAATATTAATTTATTAAAATTTCAAAACTTTAATAAGTGCTCAA
10313549 TTTTTTACTT
Statistics
Matches: 163, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
186 163 1.00
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.37
Consensus pattern (186 bp):
TACAAATCAGAATAAGTGAAATTAGTCATATAAAAAAATCTATGTATAATAAACAAATAGTCACA
AATTTCTATTAAAAAATTATGACAATATGTATAATCATAGTTTTATATTCAAACAAATTTATTCA
AAATAAAAATAATATTAATTTATTAAAATTTCAAAACTTTAATAAGTGCTCAAAGT
Found at i:10324912 original size:9 final size:10
Alignment explanation
Indices: 10324894--10324926 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
10324884 GATTGGACTA
10324894 TTTCTTTCTT
1 TTTCTTTCTT
10324904 TTT-TTTCTT
1 TTTCTTTCTT
10324913 TTTCTTT-TT
1 TTTCTTTCTT
10324922 TTTCT
1 TTTCT
10324927 GTTGCCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTCTTTCTT
Found at i:10324918 original size:15 final size:15
Alignment explanation
Indices: 10324898--10324926 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
10324888 GGACTATTTC
10324898 TTTCTTTTTTTTCTT
1 TTTCTTTTTTTTCTT
10324913 TTTCTTTTTTTTCT
1 TTTCTTTTTTTTCT
10324927 GTTGCCTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (15 bp):
TTTCTTTTTTTTCTT
Found at i:10325966 original size:23 final size:23
Alignment explanation
Indices: 10325940--10325992 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
10325930 CTTTAGTACT
10325940 GTTCAGTACTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
**
10325963 GTTCAGCGCTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
10325986 GTTCAGT
1 GTTCAGT
10325993 GAACTAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
GTTCAGTACTCAATTATAGCAGA
Found at i:10327465 original size:17 final size:17
Alignment explanation
Indices: 10327443--10327477 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10327433 ATTTGGCTAT
10327443 CCCTCTCTTTCTCTGTA
1 CCCTCTCTTTCTCTGTA
10327460 CCCTCTCTTTCTCTGTA
1 CCCTCTCTTTCTCTGTA
10327477 C
1 C
10327478 TGCTAACCGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.06, C:0.43, G:0.06, T:0.46
Consensus pattern (17 bp):
CCCTCTCTTTCTCTGTA
Found at i:10329162 original size:187 final size:187
Alignment explanation
Indices: 10328834--10329196 Score: 494
Period size: 187 Copynumber: 1.9 Consensus size: 187
10328824 AAAACTCTAT
* *
10328834 AAATCAAAATCAATGAAATTAGTTATATAGAAAGATCTATTTATAATAAACAAATAGTTACAAAT
1 AAATCAAAATCAATGAAATTAGTCATATAGAAAGATCTATTTATAATAAACAAATAGTCACAAAT
* * *
10328899 TTCTATTAAAAAATTATGACAATATGTATAGTTATGGTTTTATATTCAAACAAATTTATTCAAAA
66 TTCTATTAAAAAATTATGACAATATGTATAATCATAGTTTTATATTCAAACAAATTTATTCAAAA
* *
10328964 TAAAAATAATATTAATTTATTAATATTTCAAAATTTTAATAAGTGTCCAAAGATACA
131 TAAAAATAATATTAATTTATTAACATTTCAAAAATTTAATAAGTGTCCAAAGATACA
* * * * ** *
10329021 AAATCAGAATCAGTGAAATTAGTCATTTAGAAATATCTATTTATAATAAATGAATGGTCACAAAA
1 AAATCAAAATCAATGAAATTAGTCATATAGAAAGATCTATTTATAATAAACAAATAGTCAC-AAA
* * * * * * * * *
10329086 TTT-TATTAAAAAATTATGACAATCTTTATAATCATATTTTTATCTTCTAAGAAGTTTATTTAGA
65 TTTCTATTAAAAAATTATGACAATATGTATAATCATAGTTTTATATTCAAACAAATTTATTCAAA
*
10329150 ATAAAAATAATATTAATTTATTAACATTTTAAAAATTTAATAAGTGT
130 ATAAAAATAATATTAATTTATTAACATTTCAAAAATTTAATAAGTGT
10329197 TCAATTTTTT
Statistics
Matches: 151, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
187 145 0.96
188 6 0.04
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (187 bp):
AAATCAAAATCAATGAAATTAGTCATATAGAAAGATCTATTTATAATAAACAAATAGTCACAAAT
TTCTATTAAAAAATTATGACAATATGTATAATCATAGTTTTATATTCAAACAAATTTATTCAAAA
TAAAAATAATATTAATTTATTAACATTTCAAAAATTTAATAAGTGTCCAAAGATACA
Found at i:10334865 original size:2 final size:2
Alignment explanation
Indices: 10334858--10334882 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10334848 ATTAAATGAT
10334858 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10334883 TGTCGTAACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10335352 original size:19 final size:19
Alignment explanation
Indices: 10335330--10335372 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
10335320 GCTTCAAATT
10335330 TAACTTTCTTAAATG-AAAA
1 TAACTTTCTT-AATGAAAAA
* *
10335349 TAACATTCTTAGTGAAAAA
1 TAACTTTCTTAATGAAAAA
10335368 TAACT
1 TAACT
10335373 ATTGGTGGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.47, C:0.12, G:0.07, T:0.35
Consensus pattern (19 bp):
TAACTTTCTTAATGAAAAA
Found at i:10336930 original size:17 final size:17
Alignment explanation
Indices: 10336910--10336945 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10336900 CCGGATCTAC
*
10336910 ATTTCTTAATAATAATA
1 ATTTCTTAAAAATAATA
*
10336927 ATTTTTTAAAAATAATA
1 ATTTCTTAAAAATAATA
10336944 AT
1 AT
10336946 AATAATAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
ATTTCTTAAAAATAATA
Found at i:10337988 original size:19 final size:18
Alignment explanation
Indices: 10337946--10337988 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10337936 AGATAAAAAA
* *
10337946 ATTTTTTTTTAATTTTTT
1 ATTTTTTTTTAATATATT
*
10337964 AATTTTTTTTATATATATT
1 ATTTTTTTTTA-ATATATT
10337983 ATTTTT
1 ATTTTT
10337989 GTTATTTTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
ATTTTTTTTTAATATATT
Found at i:10338452 original size:15 final size:15
Alignment explanation
Indices: 10338393--10338522 Score: 84
Period size: 16 Copynumber: 8.5 Consensus size: 15
10338383 TAGGTTTATA
*
10338393 AAACTCCTAAAATCC
1 AAACCCCTAAAATCC
** *
10338408 AAACCTTTAAAAATCTA
1 AAACCCCT-AAAATC-C
* *
10338425 AAATCCCTTAAATCC
1 AAACCCCTAAAATCC
*
10338440 AAACCCCTAAAATTCG
1 AAACCCCTAAAA-TCC
*
10338456 AAACCCAC-AAAATTC
1 AAACCC-CTAAAATCC
*
10338471 AAACCCCGAAAATCC
1 AAACCCCTAAAATCC
**
10338486 AAAATTCCTAAAATCC
1 -AAACCCCTAAAATCC
* *
10338502 AAA-CCCTTAAATCA
1 AAACCCCTAAAATCC
10338516 AAACCCC
1 AAACCCC
10338523 AAACCACAAA
Statistics
Matches: 87, Mismatches: 21, Indels: 14
0.71 0.17 0.11
Matches are distributed among these distances:
14 12 0.14
15 34 0.39
16 35 0.40
17 6 0.07
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.19
Consensus pattern (15 bp):
AAACCCCTAAAATCC
Found at i:10338461 original size:16 final size:14
Alignment explanation
Indices: 10338434--10338488 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 14
10338424 AAAATCCCTT
*
10338434 AAATCCAAACCCCTA
1 AAATTCAAACCCC-A
10338449 AAATTCGAAACCCACA
1 AAATTC-AAACCC-CA
10338465 AAATTCAAACCCCGA
1 AAATTCAAACCCC-A
*
10338480 AAATCCAAA
1 AAATTCAAA
10338489 ATTCCTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 1 0.03
15 20 0.57
16 13 0.37
17 1 0.03
ACGTcount: A:0.51, C:0.33, G:0.04, T:0.13
Consensus pattern (14 bp):
AAATTCAAACCCCA
Found at i:10338539 original size:51 final size:51
Alignment explanation
Indices: 10338470--10338578 Score: 132
Period size: 51 Copynumber: 2.1 Consensus size: 51
10338460 CCACAAAATT
* * *
10338470 CAAACCCCGAAAATCCAAAATTCCTAAAA-TCCAAACCCTTAAATCAAAACCC
1 CAAACCACGAAAA-CCCAAA-TCCTAAAACTCCAAACCCTAAAATCAAAACCC
*
10338522 CAAACCAC-AAAACCCAAATCCTAAAATCTCCAAACTCTAAAATCAAAACCC
1 CAAACCACGAAAACCCAAATCCTAAAA-CTCCAAACCCTAAAATCAAAACCC
*
10338573 TAAACC
1 CAAACC
10338579 TTCTATATCC
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
49 8 0.16
50 5 0.10
51 30 0.60
52 7 0.14
ACGTcount: A:0.50, C:0.35, G:0.01, T:0.15
Consensus pattern (51 bp):
CAAACCACGAAAACCCAAATCCTAAAACTCCAAACCCTAAAATCAAAACCC
Found at i:10340581 original size:20 final size:19
Alignment explanation
Indices: 10340542--10340581 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
10340532 CCAAATTTCC
*
10340542 TCTCTCTTTTGGTGCTTCT
1 TCTCTCTTTTGATGCTTCT
*
10340561 TCTCTCTTGTTGATTCTTCT
1 TCTCTCTT-TTGATGCTTCT
10340581 T
1 T
10340582 TAACACCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.03, C:0.25, G:0.12, T:0.60
Consensus pattern (19 bp):
TCTCTCTTTTGATGCTTCT
Found at i:10344270 original size:33 final size:33
Alignment explanation
Indices: 10344233--10344301 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
10344223 TTTATAGCCG
* *
10344233 AAGCTCTTATGCTAATAAAGAAATTTAAAAATT
1 AAGCTCTCATGCTAATAAAGAAATTAAAAAATT
*
10344266 AAGCTCTCATTCTAATAAAGAAATTAAAAAATT
1 AAGCTCTCATGCTAATAAAGAAATTAAAAAATT
10344299 AAG
1 AAG
10344302 ATAATCGTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (33 bp):
AAGCTCTCATGCTAATAAAGAAATTAAAAAATT
Found at i:10345464 original size:18 final size:18
Alignment explanation
Indices: 10345436--10345478 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10345426 TAATTATTTG
*
10345436 AAAATAAATATTTAAAAAT
1 AAAA-AAATATGTAAAAAT
**
10345455 AAAAAAATATGTATTAAT
1 AAAAAAATATGTAAAAAT
10345473 AAAAAA
1 AAAAAA
10345479 GTAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (18 bp):
AAAAAAATATGTAAAAAT
Found at i:10345506 original size:2 final size:2
Alignment explanation
Indices: 10345499--10345525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10345489 AAAAGTTAGC
10345499 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
10345526 GATAGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10347677 original size:12 final size:12
Alignment explanation
Indices: 10347662--10347710 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
10347652 AAAAATAATA
10347662 ATAATTATTATT
1 ATAATTATTATT
*
10347674 ATAATTATGATT
1 ATAATTATTATT
*
10347686 A-AATAAATTATT
1 ATAAT-TATTATT
*
10347698 ATAATTATAATT
1 ATAATTATTATT
10347710 A
1 A
10347711 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
11 3 0.10
12 24 0.80
13 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (12 bp):
ATAATTATTATT
Found at i:10347696 original size:24 final size:23
Alignment explanation
Indices: 10347668--10347717 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 23
10347658 AATAATAATT
*
10347668 ATTATTATAATTATGATTAAATAA
1 ATTATTATAATTATAATTAAA-AA
10347692 ATTATTATAATTATAATTAAAAA
1 ATTATTATAATTATAATTAAAAA
10347715 ATT
1 ATT
10347718 TAATAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
23 5 0.20
24 20 0.80
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATTATTATAATTATAATTAAAAA
Found at i:10347697 original size:27 final size:25
Alignment explanation
Indices: 10347664--10347766 Score: 86
Period size: 27 Copynumber: 4.0 Consensus size: 25
10347654 AAATAATAAT
10347664 AATTATTATTATAATTATGATTAAATA
1 AATT-TTATTATAATTAT-ATTAAATA
10347691 AA--TTATTATAATTATAATTAAA-A
1 AATTTTATTATAATTAT-ATTAAATA
* *
10347714 AATTTAATAATAAATTTATATTAAATA
1 AATTTTATTAT-AA-TTATATTAAATA
* *
10347741 GATTTTATTAAAATTGATATTTAAAT
1 AATTTTATTATAATT-ATA-TTAAAT
10347767 TTAATTAATA
Statistics
Matches: 62, Mismatches: 7, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
23 3 0.05
24 19 0.31
25 7 0.11
26 13 0.21
27 20 0.32
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (25 bp):
AATTTTATTATAATTATATTAAATA
Found at i:10347999 original size:21 final size:22
Alignment explanation
Indices: 10347966--10348008 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
10347956 TTTAAGTTAA
* *
10347966 TTAAAAATTATTAAATATTGAT
1 TTAAAAATAATTAAAAATTGAT
10347988 TTAAAAA-AATTAAAAATTGAT
1 TTAAAAATAATTAAAAATTGAT
10348009 CCAAAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (22 bp):
TTAAAAATAATTAAAAATTGAT
Found at i:10348020 original size:21 final size:21
Alignment explanation
Indices: 10347969--10348020 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
10347959 AAGTTAATTA
* **
10347969 AAAATTATTAAATATTGATTT
1 AAAATTATTAAAAATTGATCC
**
10347990 AAAAAAATTAAAAATTGATCC
1 AAAATTATTAAAAATTGATCC
10348011 AAAATTATTA
1 AAAATTATTA
10348021 TATGGTAAAT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.37
Consensus pattern (21 bp):
AAAATTATTAAAAATTGATCC
Found at i:10350982 original size:6 final size:6
Alignment explanation
Indices: 10350952--10351010 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
10350942 AAATTATTTT
* *
10350952 TTTA-A TTTATA TTTAATTA TATATA TTTATA TATATA TTTA-A TTTTATA
1 TTTATA TTTATA TTT-A-TA TTTATA TTTATA TTTATA TTTATA -TTTATA
10351001 TTTATA TTTA
1 TTTATA TTTA
10351011 AAATAATATT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
5 5 0.11
6 33 0.73
7 3 0.07
8 4 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TTTATA
Found at i:10350992 original size:26 final size:24
Alignment explanation
Indices: 10350959--10351007 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
10350949 TTTTTTAATT
10350959 TATATTTAATTATATATATTTATATA
1 TATATTTAATT-T-TATATTTATATA
10350985 TATATTTAATTTTATATTTATAT
1 TATATTTAATTTTATATTTATAT
10351008 TTAAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 11 0.48
25 1 0.04
26 11 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
TATATTTAATTTTATATTTATATA
Found at i:10351518 original size:23 final size:23
Alignment explanation
Indices: 10351465--10351522 Score: 57
Period size: 23 Copynumber: 2.5 Consensus size: 23
10351455 TATTTTTATT
* *
10351465 TATTTATTTATTTATTATATTCAA
1 TATTTA-TTATTTATAAAATTCAA
*
10351489 TAATTATTATTTATAAAATCTC-A
1 TATTTATTATTTATAAAAT-TCAA
10351512 TATTTA-TATTT
1 TATTTATTATTT
10351523 GTTAAGAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 5 0.17
23 17 0.59
24 7 0.24
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (23 bp):
TATTTATTATTTATAAAATTCAA
Found at i:10352488 original size:3 final size:3
Alignment explanation
Indices: 10352482--10352523 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
10352472 GTTGTTAAAC
10352482 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10352524 ATTCTATAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10353270 original size:24 final size:23
Alignment explanation
Indices: 10353225--10353270 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
10353215 AAAAACTTAA
10353225 TTTTAAATTTTTTTATAATTATAC
1 TTTTAAATTTTTTTAT-ATTATAC
10353249 TTTTAAGATTTTATTTAT-TTAT
1 TTTTAA-ATTTT-TTTATATTAT
10353271 TTTAATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 10 0.50
25 5 0.25
26 5 0.25
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (23 bp):
TTTTAAATTTTTTTATATTATAC
Found at i:10353400 original size:21 final size:22
Alignment explanation
Indices: 10353341--10353401 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
10353331 AAAAAAATAA
*
10353341 AATGAAAATAAATAAATAATATC
1 AATGAAAATAAATAAA-AACATC
*
10353364 -AT-AAAATAAAAAAAAACA-C
1 AATGAAAATAAATAAAAACATC
10353383 AATGAAAATAAATCAAAAA
1 AATGAAAATAAAT-AAAAA
10353402 ATATAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 1 0.03
20 5 0.16
21 19 0.59
22 7 0.22
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.18
Consensus pattern (22 bp):
AATGAAAATAAATAAAAACATC
Found at i:10353411 original size:21 final size:20
Alignment explanation
Indices: 10353345--10353411 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 20
10353335 AAATAAAATG
* *
10353345 AAAATAAATAAATAATATCAT
1 AAAATAAATAAAAAATAT-AA
* *
10353366 AAAATAAA-AAAAAACACAA
1 AAAATAAATAAAAAATATAA
10353385 TGAAAATAAATCAAAAAATATAA
1 --AAAATAAAT-AAAAAATATAA
10353408 AAAA
1 AAAA
10353412 AAAGGAAAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
19 1 0.03
20 6 0.17
21 20 0.56
23 9 0.25
ACGTcount: A:0.75, C:0.06, G:0.01, T:0.18
Consensus pattern (20 bp):
AAAATAAATAAAAAATATAA
Found at i:10353980 original size:3 final size:3
Alignment explanation
Indices: 10353974--10354002 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10353964 TTTTTTTTTT
10353974 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10354003 TTGGACAAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10356757 original size:2 final size:2
Alignment explanation
Indices: 10356750--10356775 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10356740 TTCTCATCTC
10356750 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10356776 CTATCCAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10358564 original size:22 final size:21
Alignment explanation
Indices: 10358534--10358578 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
10358524 TTACTCGGTC
* *
10358534 AAACATCATTTATTAATAAAT
1 AAACATCATATAATAATAAAT
*
10358555 AAACAATCATATAATAATTAAT
1 AAAC-ATCATATAATAATAAAT
10358577 AA
1 AA
10358579 TTATTATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.58, C:0.09, G:0.00, T:0.33
Consensus pattern (21 bp):
AAACATCATATAATAATAAAT
Found at i:10358847 original size:2 final size:2
Alignment explanation
Indices: 10358842--10358892 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
10358832 AGAGAGAGGA
10358842 AT AT AT AT AT AT AT AT AT AT AT A- AT AT AT -T AT -T A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10358880 AT AA AT -T AT AT AT
1 AT AT AT AT AT AT AT
10358893 TTTTTCAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
1 5 0.12
2 37 0.88
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10359017 original size:26 final size:24
Alignment explanation
Indices: 10358988--10359043 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 24
10358978 TTGTTAATAA
10358988 AATATTATTATTTGATTT-ATTCTATT
1 AATATTATTA-TT-ATTTAATTC-ATT
10359014 AATAAATTATTATTATTTAATTCATT
1 AAT--ATTATTATTATTTAATTCATT
10359040 AATA
1 AATA
10359044 ATATATATCA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
24 1 0.04
26 13 0.48
27 6 0.22
28 7 0.26
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (24 bp):
AATATTATTATTATTTAATTCATT
Found at i:10359018 original size:31 final size:30
Alignment explanation
Indices: 10358972--10359031 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
10358962 AATTAAAATA
*
10358972 ATTTATTTGTTAATAAAATATTATTATTTG
1 ATTTATTTATTAATAAAATATTATTATTTG
*
10359002 ATTTATTCTATTAATAAATTATTATTATTT
1 ATTTATT-TATTAATAAAATATTATTATTT
10359032 AATTCATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (30 bp):
ATTTATTTATTAATAAAATATTATTATTTG
Found at i:10359044 original size:26 final size:29
Alignment explanation
Indices: 10358981--10359049 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 29
10358971 AATTTATTTG
10358981 TTAATAAAATATTATTATTTGATTTATTCTA
1 TTAATAAAATATTATTATTTGA--TATTCTA
*
10359012 TTAATAAATTATTATTATTT-A-ATTC-A
1 TTAATAAAATATTATTATTTGATATTCTA
*
10359038 TTAATAATATAT
1 TTAATAAAATAT
10359050 ATCAAATATA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 11 0.31
27 4 0.11
30 1 0.03
31 19 0.54
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (29 bp):
TTAATAAAATATTATTATTTGATATTCTA
Found at i:10367786 original size:6 final size:6
Alignment explanation
Indices: 10367775--10367806 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10367765 AATGGGTCTA
*
10367775 TCATTT TCATTT TCTTTT TCATTT TCATTT TC
1 TCATTT TCATTT TCATTT TCATTT TCATTT TC
10367807 TACCTGTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.12, C:0.19, G:0.00, T:0.69
Consensus pattern (6 bp):
TCATTT
Found at i:10373989 original size:23 final size:23
Alignment explanation
Indices: 10373963--10374015 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
10373953 CTTTAGTACT
10373963 GTTCAGTACTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
**
10373986 GTTCAGCGCTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
10374009 GTTCAGT
1 GTTCAGT
10374016 GAACTAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
GTTCAGTACTCAATTATAGCAGA
Found at i:10376897 original size:16 final size:16
Alignment explanation
Indices: 10376796--10376934 Score: 98
Period size: 15 Copynumber: 8.9 Consensus size: 16
10376786 TAAAGCTTGA
*
10376796 ATTTTGGGA-TTTTGG
1 ATTTTAGGAGTTTTGG
10376811 ATTTTTAAGG-GTTTT-G
1 A-TTTT-AGGAGTTTTGG
*
10376827 ATTTTA-GAGTTTAGAG
1 ATTTTAGGAGTTTTG-G
10376843 ATTTTAGG-G-TTTGG
1 ATTTTAGGAGTTTTGG
*
10376857 GTTTTGAGTGA-TTTTGG
1 ATTTT-AG-GAGTTTTGG
*
10376874 ATTTTTAGGAGTTTCGG
1 A-TTTTAGGAGTTTTGG
*
10376891 ATTTTAGGA-TTTTGA
1 ATTTTAGGAGTTTTGG
*
10376906 ATTTTTGGA-TTTTGG
1 ATTTTAGGAGTTTTGG
*
10376921 ATTTTAGGGGTTTT
1 ATTTTAGGAGTTTT
10376935 AGAAACCTAG
Statistics
Matches: 98, Mismatches: 12, Indels: 27
0.72 0.09 0.20
Matches are distributed among these distances:
13 1 0.01
14 10 0.10
15 34 0.35
16 29 0.30
17 20 0.20
18 4 0.04
ACGTcount: A:0.18, C:0.01, G:0.29, T:0.53
Consensus pattern (16 bp):
ATTTTAGGAGTTTTGG
Found at i:10376902 original size:8 final size:8
Alignment explanation
Indices: 10376796--10376928 Score: 68
Period size: 8 Copynumber: 17.0 Consensus size: 8
10376786 TAAAGCTTGA
*
10376796 ATTTTGGG
1 ATTTTAGG
10376804 ATTTT-GG
1 ATTTTAGG
10376811 ATTTTTAAGG
1 A-TTTT-AGG
*
10376821 GTTTT--G
1 ATTTTAGG
10376827 ATTTTA-G
1 ATTTTAGG
*
10376834 AGTTTAGAG
1 ATTTTAG-G
10376843 ATTTTAGG
1 ATTTTAGG
*
10376851 -GTTT-GG
1 ATTTTAGG
*
10376857 GTTTTGAGTG
1 ATTTT-AG-G
10376867 ATTTT-GG
1 ATTTTAGG
10376874 ATTTTTAGG
1 A-TTTTAGG
* *
10376883 AGTTTCGG
1 ATTTTAGG
10376891 ATTTTAGG
1 ATTTTAGG
*
10376899 ATTTT-GA
1 ATTTTAGG
*
10376906 ATTTTTGG
1 ATTTTAGG
10376914 ATTTT-GG
1 ATTTTAGG
10376921 ATTTTAGG
1 ATTTTAGG
10376929 GGTTTTAGAA
Statistics
Matches: 98, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
6 7 0.07
7 30 0.31
8 39 0.40
9 15 0.15
10 7 0.07
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.52
Consensus pattern (8 bp):
ATTTTAGG
Found at i:10378327 original size:1 final size:1
Alignment explanation
Indices: 10378321--10378351 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
10378311 TTACTTTCTA
10378321 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10378352 ATTATAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10378387 original size:3 final size:3
Alignment explanation
Indices: 10378381--10378421 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
10378371 TTTTATTTAA
** *
10378381 ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT ACT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10378422 ACTGAAATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:10382470 original size:52 final size:52
Alignment explanation
Indices: 10382381--10382482 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
10382371 AGCCATACAT
* *
10382381 ACTTATCTATTAAGAATCCCTTTCCTCTTAAAGTTCTTCTTTTGCAAGTCAA
1 ACTTATCTATTAAGAATCCATTTCCTCTTAAAGTTCTTCTTTTACAAGTCAA
* * *
10382433 ACTTATCTATTAAGAATCTATTTTCTTTTGAAA-TTCTTCTTTTACAAGTC
1 ACTTATCTATTAAGAATCCATTTCCTCTT-AAAGTTCTTCTTTTACAAGTC
10382483 TTCTTATCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 41 0.93
53 3 0.07
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.46
Consensus pattern (52 bp):
ACTTATCTATTAAGAATCCATTTCCTCTTAAAGTTCTTCTTTTACAAGTCAA
Found at i:10387248 original size:2 final size:2
Alignment explanation
Indices: 10387232--10387268 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
10387222 TGTTGCCTCT
* *
10387232 TA TA TA CA TA CA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10387269 GTAGAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:10388166 original size:24 final size:23
Alignment explanation
Indices: 10388113--10388191 Score: 83
Period size: 24 Copynumber: 3.4 Consensus size: 23
10388103 GACATAGGAA
*
10388113 TATATATATATATATATACATATG
1 TATATATATATATATATA-ATATT
*
10388137 TGTATATATATATATATAATATT
1 TATATATATATATATATAATATT
10388160 TA-ATATATTATTAATATATAA-ATT
1 TATATATA-TA-T-ATATATAATATT
10388184 T-TATATAT
1 TATATATAT
10388192 TTTTAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
22 5 0.10
23 8 0.17
24 27 0.56
25 8 0.17
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.51
Consensus pattern (23 bp):
TATATATATATATATATAATATT
Found at i:10388191 original size:2 final size:2
Alignment explanation
Indices: 10388112--10388179 Score: 65
Period size: 2 Copynumber: 36.5 Consensus size: 2
10388102 AGACATAGGA
* * *
10388112 AT AT AT AT AT AT AT AT AT AC AT AT GT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10388154 A- AT AT TT A- AT AT AT -T AT -T A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10388180 AATTTTATAT
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
1 5 0.09
2 50 0.91
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10388192 original size:24 final size:25
Alignment explanation
Indices: 10388148--10388199 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
10388138 GTATATATAT
10388148 ATATATAATATTTAATATATTATTA
1 ATATATAATATTTAATATATTATTA
* *
10388173 ATATATAA-ATTTTATATATTTTTA
1 ATATATAATATTTAATATATTATTA
10388197 ATA
1 ATA
10388200 AATCATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATATATAATATTTAATATATTATTA
Found at i:10394832 original size:25 final size:25
Alignment explanation
Indices: 10394798--10394911 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 25
10394788 AAGTGGTATC
10394798 AGAGCTGAAGGTTTGAAATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * * *
10394823 AGAGTTGAA-GATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAA-ATGTGAGA
* * *
10394848 AGAGCCGAAGGTTTGAGACGTG-GA
1 AGAGCTGAAGGTTTGAAATGTGAGA
* * *
10394872 AGAGCTGAAAGTTCGAGATGTGAGA
1 AGAGCTGAAGGTTTGAAATGTGAGA
*
10394897 AGAGCTAAAGGTTTG
1 AGAGCTGAAGGTTTG
10394912 GGAAGTGCAT
Statistics
Matches: 68, Mismatches: 18, Indels: 6
0.74 0.20 0.07
Matches are distributed among these distances:
24 24 0.35
25 40 0.59
26 4 0.06
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (25 bp):
AGAGCTGAAGGTTTGAAATGTGAGA
Found at i:10394894 original size:49 final size:50
Alignment explanation
Indices: 10394798--10394911 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 50
10394788 AAGTGGTATC
* *
10394798 AGAGCTGAAGGTTTGAAATGTGAGAAGAGTTGAAGATTCAAGATGTGAAA
1 AGAGCTGAAGGTTTGAAACGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
* * * *
10394848 AGAGCCGAAGGTTTGAGACGTG-GAAGAGCTGAA-AGTTCGAGATGTGAGA
1 AGAGCTGAAGGTTTGAAACGTGAGAAGAGCTGAAGA-TTCAAGATGTGAAA
*
10394897 AGAGCTAAAGGTTTG
1 AGAGCTGAAGGTTTG
10394912 GGAAGTGCAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
48 1 0.02
49 35 0.64
50 19 0.35
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (50 bp):
AGAGCTGAAGGTTTGAAACGTGAGAAGAGCTGAAGATTCAAGATGTGAAA
Found at i:10395300 original size:52 final size:52
Alignment explanation
Indices: 10395212--10395316 Score: 131
Period size: 52 Copynumber: 2.0 Consensus size: 52
10395202 TGGACAAGAA
* * *
10395212 GACTTGCAAAAGAAGAATTTCAAGAGAAAGATGATTCTTAATAGGTAAGTTT
1 GACTTACAAAAGAAGAATTTCAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
* * * *
10395264 GACTTACAAGAGAAGAATTTTAAGAG-GAGTAGGATTCTTAATGGGCAAGTTT
1 GACTTACAAAAGAAGAATTTCAAGAGAAAG-AGGATTCTTAATAGGCAAGTTT
10395316 G
1 G
10395317 TATGGTTATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.39, C:0.08, G:0.25, T:0.29
Consensus pattern (52 bp):
GACTTACAAAAGAAGAATTTCAAGAGAAAGAGGATTCTTAATAGGCAAGTTT
Found at i:10403597 original size:23 final size:23
Alignment explanation
Indices: 10403571--10403623 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
10403561 CTTTAGTACT
10403571 GTTCAGTACTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
**
10403594 GTTCAGCGCTCAATTATAGCAGA
1 GTTCAGTACTCAATTATAGCAGA
10403617 GTTCAGT
1 GTTCAGT
10403624 GAACTAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (23 bp):
GTTCAGTACTCAATTATAGCAGA
Found at i:10406406 original size:15 final size:14
Alignment explanation
Indices: 10406388--10406509 Score: 64
Period size: 16 Copynumber: 7.9 Consensus size: 14
10406378 GATTTTGGAT
10406388 TTTTAAGGGTTTTGA
1 TTTT-AGGGTTTTGA
* *
10406403 TTTTAGAGTTTAGAGA
1 TTTTAGGGTTT--TGA
* *
10406419 TTTTAGGGTTTGGG
1 TTTTAGGGTTTTGA
*
10406433 TTTTGAGTGATTTTGGA
1 TTTT-AG-GGTTTT-GA
10406450 TTTTTAGGAGTTTTGGA
1 -TTTTAGG-GTTTT-GA
*
10406467 TTTTAGGATTTTGGA
1 TTTTAGGGTTTT-GA
* *
10406482 TTTTTGGATTTTGAA
1 TTTTAGGGTTTTG-A
10406497 TTTTAGGGGTTTT
1 TTTTA-GGGTTTT
10406510 AGAAACCTAG
Statistics
Matches: 85, Mismatches: 13, Indels: 17
0.74 0.11 0.15
Matches are distributed among these distances:
14 12 0.14
15 29 0.34
16 30 0.35
17 10 0.12
18 4 0.05
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTTTAGGGTTTTGA
Found at i:10406451 original size:7 final size:7
Alignment explanation
Indices: 10406441--10406500 Score: 66
Period size: 8 Copynumber: 7.9 Consensus size: 7
10406431 GGTTTTGAGT
10406441 GATTTTG
1 GATTTTG
10406448 GATTTTTAG
1 GA-TTTT-G
10406457 GAGTTTTG
1 GA-TTTTG
10406465 GATTTTAG
1 GATTTT-G
10406473 GATTTTG
1 GATTTTG
10406480 GATTTTTG
1 GA-TTTTG
10406488 GATTTTG
1 GATTTTG
*
10406495 AATTTT
1 GATTTT
10406501 AGGGGTTTTA
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
7 19 0.40
8 21 0.45
9 7 0.15
ACGTcount: A:0.18, C:0.00, G:0.25, T:0.57
Consensus pattern (7 bp):
GATTTTG
Found at i:10406453 original size:17 final size:15
Alignment explanation
Indices: 10406372--10406503 Score: 108
Period size: 15 Copynumber: 8.5 Consensus size: 15
10406362 AAAGCTTGAC
*
10406372 TTTTGGGATTTTGGA
1 TTTTAGGATTTTGGA
*
10406387 TTTTTAAGGGTTTT-GA
1 -TTTT-AGGATTTTGGA
*
10406403 TTTTA-GAGTTTAGAGA
1 TTTTAGGA-TTTTG-GA
* *
10406419 TTTTAGG-GTTTGGG
1 TTTTAGGATTTTGGA
10406433 TTTTGAGTGATTTTGGA
1 TTTT-AG-GATTTTGGA
10406450 TTTTTAGGAGTTTTGGA
1 -TTTTAGGA-TTTTGGA
10406467 TTTTAGGATTTTGGA
1 TTTTAGGATTTTGGA
* *
10406482 TTTTTGGATTTTGAA
1 TTTTAGGATTTTGGA
10406497 TTTTAGG
1 TTTTAGG
10406504 GGTTTTAGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 21
0.74 0.09 0.17
Matches are distributed among these distances:
13 1 0.01
14 9 0.10
15 35 0.37
16 24 0.26
17 21 0.22
18 4 0.04
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (15 bp):
TTTTAGGATTTTGGA
Found at i:10406477 original size:8 final size:8
Alignment explanation
Indices: 10406372--10406503 Score: 68
Period size: 7 Copynumber: 16.9 Consensus size: 8
10406362 AAAGCTTGAC
*
10406372 TTTTGGGA
1 TTTTAGGA
10406380 TTTT-GGA
1 TTTTAGGA
*
10406387 TTTTTAAGGG
1 -TTTT-AGGA
10406397 TTTT--GA
1 TTTTAGGA
10406403 TTTTA-GA
1 TTTTAGGA
*
10406410 GTTTAGAGA
1 TTTTAG-GA
10406419 TTTTAGG-
1 TTTTAGGA
* *
10406426 GTTT-GGG
1 TTTTAGGA
10406433 TTTTGAGTGA
1 TTTT-AG-GA
10406443 TTTT-GGA
1 TTTTAGGA
10406450 TTTTTAGGA
1 -TTTTAGGA
10406459 GTTTT-GGA
1 -TTTTAGGA
10406467 TTTTAGGA
1 TTTTAGGA
10406475 TTTT-GGA
1 TTTTAGGA
*
10406482 TTTTTGGA
1 TTTTAGGA
*
10406490 TTTT-GAA
1 TTTTAGGA
10406497 TTTTAGG
1 TTTTAGG
10406504 GGTTTTAGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 30
0.71 0.07 0.22
Matches are distributed among these distances:
6 7 0.07
7 34 0.34
8 32 0.32
9 19 0.19
10 7 0.07
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (8 bp):
TTTTAGGA
Found at i:10407992 original size:3 final size:3
Alignment explanation
Indices: 10407986--10408029 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
10407976 TTTTATTTAA
** *
10407986 ATT ATT ATT ATT ATT ATT ATT ATT ATT AAA ATT ATT ACT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10408030 ATTGAAATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:10409508 original size:184 final size:185
Alignment explanation
Indices: 10409168--10409530 Score: 478
Period size: 184 Copynumber: 2.0 Consensus size: 185
10409158 AAAACTCTAT
* *
10409168 AATCAAAATTAATAAAATTAGTTATACAGAAAATCCATTTATAATAAACAAATAGTCCCAATTTT
1 AATCAAAATTAATAAAATTAGTTATACAAAAAATCCATTTATAATAAACAAATAGTCACAATTTT
* * * * *
10409233 CTATTAAAATATTATGACAATATGTATAGTTATGGTTTTTATATTCAAACAAGTTTATTTAGAAT
66 CTATTAAAAAATTATGACAATATGTATAGTCAT-GATTTTATATTCAAACAAGTTTATTCAAAAT
* * *
10409298 AACAATAATGTTAATTTATTAATATTTTAAAACTTTAATAAGTGCTCAAAGACATA
130 AAAAATAATATTAATTTATTAATATTTTAAAACTTTAATAAGTACTCAAAGACATA
* * ** * * *
10409354 AATCAAAATTAATGAAATTGGTTATGTAAAAATATCTATTTATAATTAACGAATAGTCACAA-TT
1 AATCAAAATTAATAAAATTAGTTATACAAAAA-ATCCATTTATAATAAACAAATAGTCACAATTT
* * * * * *
10409418 TCTATTAAAAAATTATGACAATCTTTGTGGTCAT-ATTTTATATTCTAAGAAGTTTATTCAAAAT
65 TCTATTAAAAAATTATGACAATATGTATAGTCATGATTTTATATTCAAACAAGTTTATTCAAAAT
*
10409482 AAAAATAATATTAATTTATTAATATTTTAAAATTTTAATAAGTACTCAA
130 AAAAATAATATTAATTTATTAATATTTTAAAACTTTAATAAGTACTCAA
10409531 TTTTTTATTT
Statistics
Matches: 152, Mismatches: 24, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
184 70 0.46
186 57 0.38
187 25 0.16
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.39
Consensus pattern (185 bp):
AATCAAAATTAATAAAATTAGTTATACAAAAAATCCATTTATAATAAACAAATAGTCACAATTTT
CTATTAAAAAATTATGACAATATGTATAGTCATGATTTTATATTCAAACAAGTTTATTCAAAATA
AAAATAATATTAATTTATTAATATTTTAAAACTTTAATAAGTACTCAAAGACATA
Found at i:10417484 original size:52 final size:51
Alignment explanation
Indices: 10417385--10417485 Score: 139
Period size: 52 Copynumber: 2.0 Consensus size: 51
10417375 AGCCATATAT
* *
10417385 ACTTATCTATTAAAAATCTATTTCCTTTAAAGTTCTTCTTTTACAAGTCAA
1 ACTTATCTATTAAAAATCTATTTCCTTTAAAATTCTTCTTCTACAAGTCAA
* * * *
10417436 ACTTGTCTATTAAGAATCTATTTTCTTTTAAAATTCTTCTTCTGCAAGTC
1 ACTTATCTATTAAAAATCTA-TTTCCTTTAAAATTCTTCTTCTACAAGTC
10417486 TTCTTATCCA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 18 0.42
52 25 0.58
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.47
Consensus pattern (51 bp):
ACTTATCTATTAAAAATCTATTTCCTTTAAAATTCTTCTTCTACAAGTCAA
Found at i:10423292 original size:21 final size:20
Alignment explanation
Indices: 10423249--10423301 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
10423239 TACAGAAATA
* * *
10423249 TTATTTTATTTATTAATTTT
1 TTATTTGATTTATAAATTAT
10423269 TTATTTGATTATATAAATTAT
1 TTATTTGATT-TATAAATTAT
10423290 TTATTT-ATTTAT
1 TTATTTGATTTAT
10423302 GTATTTATTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 12 0.41
21 14 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
TTATTTGATTTATAAATTAT
Found at i:10423509 original size:43 final size:44
Alignment explanation
Indices: 10423448--10423530 Score: 150
Period size: 43 Copynumber: 1.9 Consensus size: 44
10423438 ACATTTTCAG
10423448 CCTTAATCTCAAAAGCAAAAACAAAAGAAAGAGA-CTTTTATAC
1 CCTTAATCTCAAAAGCAAAAACAAAAGAAAGAGACCTTTTATAC
*
10423491 CCTTAATCTCAAGAGCAAAAACAAAAGAAAGAGACCTTTT
1 CCTTAATCTCAAAAGCAAAAACAAAAGAAAGAGACCTTTT
10423531 TTCTTTTTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
43 33 0.87
44 5 0.13
ACGTcount: A:0.49, C:0.19, G:0.11, T:0.20
Consensus pattern (44 bp):
CCTTAATCTCAAAAGCAAAAACAAAAGAAAGAGACCTTTTATAC
Found at i:10423688 original size:21 final size:21
Alignment explanation
Indices: 10423664--10423703 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10423654 AATTATTATT
* *
10423664 ATTATTATTATAATTAAAAAA
1 ATTATAATTACAATTAAAAAA
*
10423685 ATTATAATTACGATTAAAA
1 ATTATAATTACAATTAAAA
10423704 TTTTGGTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
ATTATAATTACAATTAAAAAA
Found at i:10423799 original size:20 final size:21
Alignment explanation
Indices: 10423771--10423810 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10423761 TTATTAAAAT
10423771 TAATATTTAAA-TTTAACTAA
1 TAATATTTAAAGTTTAACTAA
*
10423791 TAATGTTTAAAGTTTAACTA
1 TAATATTTAAAGTTTAACTA
10423811 CACCTCTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
TAATATTTAAAGTTTAACTAA
Found at i:10425921 original size:3 final size:3
Alignment explanation
Indices: 10425913--10425964 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
10425903 ACTAAACTAG
10425913 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10425961 TAT T
1 TAT T
10425965 GTTGTATTCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10426847 original size:9 final size:9
Alignment explanation
Indices: 10426797--10426856 Score: 54
Period size: 9 Copynumber: 6.9 Consensus size: 9
10426787 TTTGTCCAAA
10426797 AAATAAAAT
1 AAATAAAAT
10426806 GAAAT-AAAT
1 -AAATAAAAT
*
10426815 AAGT-AAAT
1 AAATAAAAT
*
10426823 AAATAATAT
1 AAATAAAAT
*
10426832 -CATAAAAT
1 AAATAAAAT
*
10426840 AAATAAAAC
1 AAATAAAAT
10426849 AAATAAAA
1 AAATAAAA
10426857 AGAAAATCAA
Statistics
Matches: 41, Mismatches: 7, Indels: 5
0.77 0.13 0.09
Matches are distributed among these distances:
8 16 0.39
9 21 0.51
10 4 0.10
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:10426890 original size:29 final size:30
Alignment explanation
Indices: 10426807--10426891 Score: 84
Period size: 29 Copynumber: 2.8 Consensus size: 30
10426797 AAATAAAATG
* * * *
10426807 AAATAAATAAGTAAATAAAT-AATATCATA
1 AAATAAATAAGAAAAAAAATGAAAATCAAA
* *
10426836 AAATAAATAAAACAAATAAAAAGAAAATCAAA
1 AAATAAATAAGA-AAA-AAAATGAAAATCAAA
10426868 AAATAAA-AAGAAAAAAAATGAAAA
1 AAATAAATAAGAAAAAAAATGAAAA
10426892 CTCACCACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
29 19 0.42
30 6 0.13
31 6 0.13
32 14 0.31
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (30 bp):
AAATAAATAAGAAAAAAAATGAAAATCAAA
Found at i:10432160 original size:2 final size:2
Alignment explanation
Indices: 10432150--10432225 Score: 72
Period size: 2 Copynumber: 40.5 Consensus size: 2
10432140 AGAGAGGGGA
* * * * *
10432150 AT AT CT AT AT AT AT AT AT AT AT AT AC AT AT AC AT AT GT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10432192 AT AT AT AT AT A- AT AT A- AT AT AT -T AT -T A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10432226 AATTTTATAT
Statistics
Matches: 59, Mismatches: 10, Indels: 10
0.75 0.13 0.13
Matches are distributed among these distances:
1 5 0.08
2 54 0.92
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:10432331 original size:20 final size:19
Alignment explanation
Indices: 10432261--10432334 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 19
10432251 TATAATGATA
10432261 ATTTATTAATAAAA-AAAT
1 ATTTATTAATAAAATAAAT
* **
10432279 ATTAATTTTTAAAATAAAT
1 ATTTATTAATAAAATAAAT
* **
10432298 ATATAAAAATTAAAATAAATT
1 ATTTATTAA-TAAAATAAA-T
10432319 ATTTATTAATAAAATA
1 ATTTATTAATAAAATA
10432335 TTATTATTTG
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
18 11 0.27
19 7 0.17
20 16 0.39
21 7 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTATTAATAAAATAAAT
Found at i:10432372 original size:17 final size:16
Alignment explanation
Indices: 10432311--10432373 Score: 51
Period size: 17 Copynumber: 4.0 Consensus size: 16
10432301 TAAAAATTAA
10432311 AATAAATTAT-TTATT
1 AATAAATTATATTATT
10432326 AATAAA--ATATTATT
1 AATAAATTATATTATT
* * * *
10432340 ATTTGATTTATTTTATT
1 A-ATAAATTATATTATT
10432357 AATAAATTATCATTATT
1 AATAAATTAT-ATTATT
10432374 TAATTCATTA
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
13 2 0.06
14 6 0.17
15 8 0.23
16 6 0.17
17 13 0.37
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
AATAAATTATATTATT
Found at i:10432374 original size:26 final size:28
Alignment explanation
Indices: 10432345--10432396 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
10432335 TTATTATTTG
* *
10432345 ATTTATTTTATTAATAA-AT-TATCATT
1 ATTTAATTCATTAATAATATATATCATT
10432371 ATTTAATTCATTAATAATATATATCA
1 ATTTAATTCATTAATAATATATATCA
10432397 AATATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 15 0.68
27 2 0.09
28 5 0.23
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (28 bp):
ATTTAATTCATTAATAATATATATCATT
Found at i:10437804 original size:19 final size:19
Alignment explanation
Indices: 10437780--10437819 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10437770 GTGCGATTCA
10437780 GTCTAGCGTCA-GAGGTTCG
1 GTCTAG-GTCAGGAGGTTCG
*
10437799 GTCTAGTTCAGGAGGTTCG
1 GTCTAGGTCAGGAGGTTCG
10437818 GT
1 GT
10437820 ATGGTTCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.15, C:0.17, G:0.38, T:0.30
Consensus pattern (19 bp):
GTCTAGGTCAGGAGGTTCG
Found at i:10438651 original size:10 final size:10
Alignment explanation
Indices: 10438632--10438682 Score: 61
Period size: 10 Copynumber: 5.2 Consensus size: 10
10438622 TGAATTGGAT
10438632 AAGAAAGAAA
1 AAGAAAGAAA
*
10438642 AAGAAGGAAA
1 AAGAAAGAAA
10438652 AAGAAAGAAA
1 AAGAAAGAAA
10438662 AA-ATAAGAAA
1 AAGA-AAGAAA
*
10438672 AATAAA-AAA
1 AAGAAAGAAA
10438681 AA
1 AA
10438683 TAATATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
9 6 0.16
10 30 0.81
11 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:10438687 original size:21 final size:20
Alignment explanation
Indices: 10438648--10438687 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10438638 GAAAAAGAAG
*
10438648 GAAAAAGAAAGAAAAAATAA
1 GAAAAAGAAAAAAAAAATAA
*
10438668 GAAAAATAAAAAAAATAATA
1 GAAAAAGAAAAAAAA-AATA
10438688 TAAAAATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
GAAAAAGAAAAAAAAAATAA
Found at i:10438963 original size:49 final size:50
Alignment explanation
Indices: 10438868--10439794 Score: 755
Period size: 50 Copynumber: 19.0 Consensus size: 50
10438858 AAATTAAAAA
* * * * *
10438868 AAAAAAGCTCTTCTAAGCAGAGGCTTAACGACTTT-AAAA---TATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* *
10438914 AAAAAAGCTCATCTCAGTAGAGAG-TCAATAATTTTAAAAAT-TTATCTTG
1 AAAAAAGCTCATCTCAGTAGAG-GCTCAACAACTTTAAAAATCTTATCTTG
* * *
10438963 -AAAAAGCTCATCTAAGTAGAGGCCCAACAACTTT-AAAAT-TCATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * * * *
10439010 -AAAAAGCTCCTCTAAGCATAGGCTCAATAACTTT-AAAAT-TTTTCTT-
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * ** * * * * *
10439056 AAAAAATCTCATCTTAACAGATGTTTAA-TA-TTTTAAAA-CTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * *
10439103 -AAAAAGCTTCTATCAACAGT--A-GCTCAACAACTTTAAAACTTCTCATATTG
1 AAAAAAGC-TC-ATC-TCAGTAGAGGCTCAACAACTTTAAAA-ATCTTATCTTG
* **
10439153 -AAAAAGCTCATCACAGTAGAGGCTCAATGACTTTAAAATATCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAA-ATCTTATCTTG
* * * * * * *
10439203 AAAAAA-CTCCTCTCAATAGAGGTTCAACGATTTTAAAAATTTTCATTTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTT-ATCTTG
* * * *
10439253 AAAAAAGCTCCTTTCAATAGAGGCTCAACAACTTTAAAATTCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * *
10439303 AAAAAAGCTCTTCTCAGCATAGGCTCAATAACTTT-AAAATCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * *
10439352 AAATAGGCTCATCTCAGTAGAGGCTCAATAACTTT-AAAAT-TTAAATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTT--ATCTTG
* * ** * ** *
10439402 AAAAAGGTTTTTTTCAACAGAGGTTCAAC-ACTTT-AAAATCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * *
10439450 AAAAAGGCTCCTCTCAGTAGAGGCTCAACAACTTTAAAATTCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * *
10439500 AAAAAAGCTCGTCTCAGCAGAAGCTCAACAACTTTAAAATTCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * * * * * *
10439550 AAAAAGGCTTATCTCAGCAAATGCTCAACAACTTTAAAATTTTTGTCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * * * *
10439600 AAAAAAACTCTTCTCAGCAGAGGCTTAATAACTTTAAAATTCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * *
10439650 AAAAAGGCTCATCTCAGTAGAGACTCAACAACTTT-AAAATCTTATCTCG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* *
10439699 AAAAAAGCTCATCTCAGCAGAGGCTTAACAACTTT-AAAATCTTATCTTG
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
* * * * *
10439748 AAAAAAGTTCCTTTCAGCAAAGGCTCAACAACTTT-AAAATCTT-TCTT
1 AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTT
10439795 ATTTTTTCTC
Statistics
Matches: 723, Mismatches: 131, Indels: 52
0.80 0.14 0.06
Matches are distributed among these distances:
45 3 0.00
46 47 0.07
47 85 0.12
48 74 0.10
49 172 0.24
50 306 0.42
51 36 0.05
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (50 bp):
AAAAAAGCTCATCTCAGTAGAGGCTCAACAACTTTAAAAATCTTATCTTG
Found at i:10451337 original size:207 final size:205
Alignment explanation
Indices: 10450967--10451341 Score: 460
Period size: 207 Copynumber: 1.8 Consensus size: 205
10450957 ATTTTTAAAG
* * * *
10450967 AAAAAAAATTTATTATATTGAAGTTTTTCTACAAATATTTCAATACACTGGTAATATTTTAAAAA
1 AAAAAAAATTTATTATATTAAAATTTTTCTACAAATATCTCAATACACTAGTAATATTTTAAAAA
* *
10451032 AAATTTTCACATAGGGATTTCGTAAACTATCACTACTCAAAATACTTTTAGAATCCCATCATTGG
66 AAATTTTCACATAGAGATTTCGTAAACTATCACTACTCAAAATACTTTTAGAATCCCATCAATGG
* *
10451097 ATAAAATTTTCTTTTTCCTTATTTATATTATTATTTTAAAAAATAAATTAACAATTTTTTATTTT
131 ATAAAAATTTCCTTTTCCTTATTTATATTATTATTTTAAAAAATAAATTAACAATTTTTTATTTT
10451162 TTATTAACAA
196 TTATTAACAA
* *
10451172 AAAAGAAAATTTTATTATATTAAAAATTTTT-TATAAATA-CTCTAATACACTAGTAGTATTTTA
1 AAAA-AAAA-TTTATTATATT-AAAATTTTTCTACAAATATCTC-AATACACTAGTAATATTTTA
* ** * *
10451235 AAAAAAATCTTTTTATC-TAGAGATTTCGTAGGC-ATCACTACTCGAAATA-TCTTT-GAATCTC
62 AAAAAAA--TTTTCA-CATAGAGATTTCGTAAACTATCACTACTCAAAATACT-TTTAGAATCCC
*
10451296 ATCAATGGATAAAAATTTCCTTTT-CTTACATTTGT-TTATTATTTTA
123 ATCAATGGATAAAAATTTCCTTTTCCTT--ATTTATATTATTATTTTA
10451342 TATTATTTTT
Statistics
Matches: 144, Mismatches: 16, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
205 4 0.03
206 9 0.06
207 82 0.57
208 30 0.21
209 18 0.12
210 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.06, T:0.43
Consensus pattern (205 bp):
AAAAAAAATTTATTATATTAAAATTTTTCTACAAATATCTCAATACACTAGTAATATTTTAAAAA
AAATTTTCACATAGAGATTTCGTAAACTATCACTACTCAAAATACTTTTAGAATCCCATCAATGG
ATAAAAATTTCCTTTTCCTTATTTATATTATTATTTTAAAAAATAAATTAACAATTTTTTATTTT
TTATTAACAA
Found at i:10451539 original size:18 final size:19
Alignment explanation
Indices: 10451505--10451541 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
10451495 TTAACATGCA
10451505 TAAATATAAAAATAATAAT
1 TAAATATAAAAATAATAAT
10451524 TAAA-ATAACAAA-AATAAT
1 TAAATATAA-AAATAATAAT
10451542 ATATAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAATATAAAAATAATAAT
Found at i:10452548 original size:13 final size:14
Alignment explanation
Indices: 10452521--10452558 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
10452511 CTTGAATCAG
*
10452521 ATAAAGAAGAAGAA
1 ATAAAGAAAAAGAA
*
10452535 A-AAGGAAAAAGAA
1 ATAAAGAAAAAGAA
10452548 ATAAAGAAAAA
1 ATAAAGAAAAA
10452559 TGAGAAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.76, C:0.00, G:0.18, T:0.05
Consensus pattern (14 bp):
ATAAAGAAAAAGAA
Found at i:10452581 original size:22 final size:23
Alignment explanation
Indices: 10452530--10452573 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
10452520 GATAAAGAAG
10452530 AAGAAAAA-G-GAAAAAGAAATA
1 AAGAAAAATGAGAAAAAGAAATA
10452551 AAGAAAAATGAGAAAAA-AAATA
1 AAGAAAAATGAGAAAAAGAAATA
10452573 A
1 A
10452574 TAATAAATAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 8 0.38
22 7 0.33
23 6 0.29
ACGTcount: A:0.77, C:0.00, G:0.16, T:0.07
Consensus pattern (23 bp):
AAGAAAAATGAGAAAAAGAAATA
Found at i:10456622 original size:2 final size:2
Alignment explanation
Indices: 10456615--10456639 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10456605 TCAAACTATT
10456615 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10456640 GTGGGAAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10461006 original size:12 final size:13
Alignment explanation
Indices: 10460977--10461030 Score: 56
Period size: 13 Copynumber: 4.1 Consensus size: 13
10460967 ATGAATGATT
* *
10460977 AATATATAAAATA
1 AATAAATAAAACA
*
10460990 AATAAAT-GAACA
1 AATAAATAAAACA
10461002 AATAAATAAAACA
1 AATAAATAAAACA
10461015 AATAAAATACAAACA
1 AAT-AAATA-AAACA
10461030 A
1 A
10461031 GAAAGAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
12 10 0.29
13 13 0.38
14 5 0.15
15 6 0.18
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.19
Consensus pattern (13 bp):
AATAAATAAAACA
Found at i:10465422 original size:21 final size:22
Alignment explanation
Indices: 10465383--10465429 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
10465373 AAATTTTAAT
*
10465383 ATTTAAATTTCATTATATATAA
1 ATTTAAATTTAATTATATATAA
* *
10465405 ATTT-AATTTAATTTTATATTA
1 ATTTAAATTTAATTATATATAA
10465426 ATTT
1 ATTT
10465430 TATTAGTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTAAATTTAATTATATATAA
Found at i:10465694 original size:2 final size:2
Alignment explanation
Indices: 10465687--10465713 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10465677 AAAATCAAAC
10465687 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10465714 GTGGGAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10468944 original size:17 final size:17
Alignment explanation
Indices: 10468924--10469024 Score: 50
Period size: 17 Copynumber: 6.1 Consensus size: 17
10468914 GATTATTTTT
10468924 AATAATAATAAAATAAA
1 AATAATAATAAAATAAA
**
10468941 AATAA-AATAGGATAATA
1 AATAATAATAAAATAA-A
* *
10468958 ACTAA-AA-AATACTAAA
1 AATAATAATAA-AATAAA
** *
10468974 AATGCT--TAAAATAAT
1 AATAATAATAAAATAAA
* *
10468989 AATAAGAATAAATTAAA
1 AATAATAATAAAATAAA
*
10469006 AATTATAATAAGAATAAA
1 AATAATAATAA-AATAAA
10469024 A
1 A
10469025 TTTTTTTATT
Statistics
Matches: 58, Mismatches: 19, Indels: 13
0.64 0.21 0.14
Matches are distributed among these distances:
15 7 0.12
16 14 0.24
17 31 0.53
18 6 0.10
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAATAATAAAATAAA
Found at i:10469164 original size:29 final size:32
Alignment explanation
Indices: 10469111--10469176 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 32
10469101 GAATTATTAC
10469111 ATAAAAATTAATTTAAAAAAGGGTATAAAAAGA
1 ATAAAAATTAA-TTAAAAAAGGGTATAAAAAGA
* *
10469144 ATAAAAATTAA-T-AAAAA-GGTATAATAATA
1 ATAAAAATTAATTAAAAAAGGGTATAAAAAGA
10469173 ATAA
1 ATAA
10469177 TGAACTTTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
29 14 0.45
30 5 0.16
31 1 0.03
33 11 0.35
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (32 bp):
ATAAAAATTAATTAAAAAAGGGTATAAAAAGA
Found at i:10469355 original size:28 final size:28
Alignment explanation
Indices: 10469324--10469471 Score: 140
Period size: 28 Copynumber: 5.2 Consensus size: 28
10469314 AATCAAAATT
*
10469324 CCTAAATTAAACCCTAAACACACTAAAC
1 CCTAAATTAAACCCTAAACACTCTAAAC
* * *
10469352 CCTAAGTTAAACCCTAAACCCTCTTAAC
1 CCTAAATTAAACCCTAAACACTCTAAAC
* *
10469380 CATAAAATTAAACTCTAAAC-CT-TCAAAC
1 CCT-AAATTAAACCCTAAACACTCT-AAAC
* * *
10469408 CTTAAAAATAAAACCCTAAACACTTTAAAC
1 CCT--AAATTAAACCCTAAACACTCTAAAC
10469438 CCTAAATTAAACCCTAAAC-CTTCTAAAC
1 CCTAAATTAAACCCTAAACAC-TCTAAAC
*
10469466 CTTAAA
1 CCTAAA
10469472 CTTTCTGAAC
Statistics
Matches: 99, Mismatches: 15, Indels: 12
0.79 0.12 0.10
Matches are distributed among these distances:
27 2 0.02
28 59 0.60
29 29 0.29
30 8 0.08
31 1 0.01
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.24
Consensus pattern (28 bp):
CCTAAATTAAACCCTAAACACTCTAAAC
Found at i:10469439 original size:16 final size:16
Alignment explanation
Indices: 10469418--10469472 Score: 57
Period size: 16 Copynumber: 3.7 Consensus size: 16
10469408 CTTAAAAATA
10469418 AAACCCTAAACACTTT
1 AAACCCTAAACACTTT
10469434 AAACCCT-AA-A--TT
1 AAACCCTAAACACTTT
10469446 AAACCCTAAAC-CTTCT
1 AAACCCTAAACACTT-T
*
10469462 AAACCTTAAAC
1 AAACCCTAAAC
10469473 TTTCTGAACC
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
12 9 0.27
13 2 0.06
14 1 0.03
15 3 0.09
16 18 0.55
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACCCTAAACACTTT
Done.