Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 15 of 40
Found at i:3007004 original size:21 final size:21
Alignment explanation
Indices: 3006977--3007075 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 21
3006967 CAAAACAGAG
* *
3006977 AAGGGATCAATCTTTTCTTTC
1 AAGGGATCAATCCTTTCTCTC
* ***
3006998 GAGGGATCAATCCTTT-TGAA
1 AAGGGATCAATCCTTTCTCTC
*
3007018 AAGGGATCAATCATTTCTCTC
1 AAGGGATCAATCCTTTCTCTC
* *
3007039 AAGGGATCGATCCTTTCTCCC
1 AAGGGATCAATCCTTTCTCTC
*
3007060 GAGGGATCAATCCTTT
1 AAGGGATCAATCCTTT
3007076 TGAAAATGGA
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
20 15 0.24
21 47 0.76
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (21 bp):
AAGGGATCAATCCTTTCTCTC
Found at i:3007035 original size:41 final size:41
Alignment explanation
Indices: 3006977--3007054 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
3006967 CAAAACAGAG
* * *
3006977 AAGGGATCAATCTTTTCTTTCGAGGGATCAATCCTTTTGAA
1 AAGGGATCAATCATTTCTCTCAAGGGATCAATCCTTTTGAA
*
3007018 AAGGGATCAATCATTTCTCTCAAGGGATCGATCCTTT
1 AAGGGATCAATCATTTCTCTCAAGGGATCAATCCTTT
3007055 CTCCCGAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (41 bp):
AAGGGATCAATCATTTCTCTCAAGGGATCAATCCTTTTGAA
Found at i:3007138 original size:21 final size:21
Alignment explanation
Indices: 3007112--3007169 Score: 98
Period size: 21 Copynumber: 2.7 Consensus size: 21
3007102 TAGAAACTTT
*
3007112 GGGATCGATCCTTTTGGTCGA
1 GGGATCGATCCTTTTGGTCAA
3007133 GGGATCGATCCTTTTGGTCAA
1 GGGATCGATCCTTTTGGTCAA
3007154 GGGATCGATCCATTTT
1 GGGATCGATCC-TTTT
3007170 CTGGGAATAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
21 31 0.89
22 4 0.11
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.34
Consensus pattern (21 bp):
GGGATCGATCCTTTTGGTCAA
Found at i:3012842 original size:18 final size:18
Alignment explanation
Indices: 3012819--3012869 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
3012809 CCCATCCCCT
3012819 TAAAAAATGGTTGCAACA
1 TAAAAAATGGTTGCAACA
* *
3012837 T-AAAAAGGAGTTGCAACT
1 TAAAAAATG-GTTGCAACA
*
3012855 TAAAATATGG-TGCAA
1 TAAAAAATGGTTGCAA
3012870 TTTGAAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 11 0.41
18 11 0.41
19 5 0.19
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.24
Consensus pattern (18 bp):
TAAAAAATGGTTGCAACA
Found at i:3012868 original size:17 final size:18
Alignment explanation
Indices: 3012817--3012930 Score: 67
Period size: 18 Copynumber: 6.4 Consensus size: 18
3012807 AACCCATCCC
*
3012817 CTTAAAAAATGGTTGCAA
1 CTTAAAATATGGTTGCAA
* *
3012835 CATAAAA-AGGAGTTGCAA
1 CTTAAAATATG-GTTGCAA
3012853 CTTAAAATATGG-TGCAA
1 CTTAAAATATGGTTGCAA
* * * *
3012870 TTTGAAAGA-GTGTTGTAA
1 CTTAAAATATG-GTTGCAA
* *
3012888 CCTAAAATGTGG-TGCAA
1 CTTAAAATATGGTTGCAA
* *
3012905 C-CATAATATAGGTTGCAA
1 CTTAAAATAT-GGTTGCAA
3012923 CTTAAAAT
1 CTTAAAAT
3012931 GGTAACCATA
Statistics
Matches: 69, Mismatches: 19, Indels: 15
0.67 0.18 0.15
Matches are distributed among these distances:
16 6 0.09
17 21 0.30
18 35 0.51
19 7 0.10
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.28
Consensus pattern (18 bp):
CTTAAAATATGGTTGCAA
Found at i:3012923 original size:18 final size:18
Alignment explanation
Indices: 3012900--3012960 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
3012890 TAAAATGTGG
*
3012900 TGCAACCATAATATAGGT
1 TGCAACCATAAAATAGGT
*
3012918 TGCAA-CTTAAAAT-GG-
1 TGCAACCATAAAATAGGT
3012933 T--AACCATAAAATAGGT
1 TGCAACCATAAAATAGGT
3012949 TGCAACCATAAA
1 TGCAACCATAAA
3012961 TTACTTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
13 2 0.06
14 7 0.20
15 3 0.09
16 3 0.09
17 6 0.17
18 14 0.40
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (18 bp):
TGCAACCATAAAATAGGT
Found at i:3012929 original size:35 final size:33
Alignment explanation
Indices: 3012846--3012954 Score: 91
Period size: 35 Copynumber: 3.2 Consensus size: 33
3012836 ATAAAAAGGA
** *
3012846 GTTGCAACTTAAAATATGGTGCAA-TTTGAAAGAG
1 GTTGCAACTTAAAAT-TGGTGCAACCAT-AAATAG
* *
3012880 TGTTGTAACCTAAAATGTGGTGCAACCATAATATAG
1 -GTTGCAACTTAAAAT-TGGTGCAACCATAA-ATAG
3012916 GTTGCAACTTAAAA-TGGT--AACCATAAAATAG
1 GTTGCAACTTAAAATTGGTGCAACCAT-AAATAG
3012947 GTTGCAAC
1 GTTGCAAC
3012955 CATAAATTAC
Statistics
Matches: 63, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
31 18 0.29
32 2 0.03
33 4 0.06
35 35 0.56
36 4 0.06
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (33 bp):
GTTGCAACTTAAAATTGGTGCAACCATAAATAG
Found at i:3017962 original size:60 final size:60
Alignment explanation
Indices: 3017854--3017980 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 60
3017844 AACATAATAA
* ** * * *
3017854 ATAGTCGGATCACCATTTTGTAACTTTTGATAGTTGATGGACTCAATAAAGCAACA-CTCT
1 ATAGTCGGATCACCATTTTGTAACTTTTAATAGTCAAAGAACTCAATAAAACAACATC-CT
* * *
3017914 ATAGTTGGATGACCATTTTGTAACTTTTAATAGTCAAAGAACTTAATAAAACAACATCCT
1 ATAGTCGGATCACCATTTTGTAACTTTTAATAGTCAAAGAACTCAATAAAACAACATCCT
3017974 ATAGTCG
1 ATAGTCG
3017981 AGGGATCATT
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 55 0.98
61 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (60 bp):
ATAGTCGGATCACCATTTTGTAACTTTTAATAGTCAAAGAACTCAATAAAACAACATCCT
Found at i:3020267 original size:22 final size:22
Alignment explanation
Indices: 3020242--3020321 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 22
3020232 TTTAAATCAA
3020242 AATTTTCTTTTTCAAAACTTTC
1 AATTTTCTTTTTCAAAACTTTC
* * *
3020264 AATTTTCATTTTTGAAAGCTCT-
1 AATTTTC-TTTTTCAAAACTTTC
*
3020286 AA-ATTCTTTTTCAAAA-TTTC
1 AATTTTCTTTTTCAAAACTTTC
**
3020306 -ATTTTGGTTTTCAAAA
1 AATTTTCTTTTTCAAAA
3020322 TTCATTTTAG
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
19 3 0.07
20 19 0.42
21 3 0.07
22 9 0.20
23 11 0.24
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (22 bp):
AATTTTCTTTTTCAAAACTTTC
Found at i:3020290 original size:23 final size:22
Alignment explanation
Indices: 3020241--3020301 Score: 63
Period size: 23 Copynumber: 2.8 Consensus size: 22
3020231 TTTTAAATCA
*
3020241 AAATTTTCTTTTTCAAAACTTT
1 AAATTTTCTTTTTCAAAACTCT
* * *
3020263 CAATTTTCATTTTTGAAAGCTCT
1 AAATTTTC-TTTTTCAAAACTCT
3020286 AAA--TTCTTTTTCAAAA
1 AAATTTTCTTTTTCAAAA
3020302 TTTCATTTTG
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 8 0.26
21 3 0.10
22 7 0.23
23 13 0.42
ACGTcount: A:0.33, C:0.15, G:0.03, T:0.49
Consensus pattern (22 bp):
AAATTTTCTTTTTCAAAACTCT
Found at i:3020327 original size:19 final size:20
Alignment explanation
Indices: 3020293--3020340 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
3020283 TCTAAATTCT
*
3020293 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATTTCATTTTAG
3020313 TTTTCAAAA-TTCATTTTAG
1 TTTTCAAAATTTCATTTTAG
*
3020332 CTTTCAAAA
1 TTTTCAAAA
3020341 GAAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (20 bp):
TTTTCAAAATTTCATTTTAG
Found at i:3028382 original size:19 final size:19
Alignment explanation
Indices: 3028358--3028395 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3028348 CAGCAATCTG
3028358 AAATTTAAATAATTCAATT
1 AAATTTAAATAATTCAATT
3028377 AAATTTAAATAATTCAATT
1 AAATTTAAATAATTCAATT
3028396 TCCCTATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTTAAATAATTCAATT
Found at i:3028653 original size:54 final size:57
Alignment explanation
Indices: 3028567--3028726 Score: 222
Period size: 54 Copynumber: 2.9 Consensus size: 57
3028557 AAGAAATAAG
* *
3028567 TGATCTTAGTAATTGTGTTTTTCTTTGTTTTGATATTTAATTTTTGG-T-T-AACTT
1 TGATCTTAGTAATTGTGTTTTTCTTTGCTTTGATATTTAACTTTTGGTTATCAACTT
*
3028621 TGATCTTAGTAATTTTGTTTTTCTTTGCTTTGATATTTAACTTTTGGTTATCAACTT
1 TGATCTTAGTAATTGTGTTTTTCTTTGCTTTGATATTTAACTTTTGGTTATCAACTT
* *
3028678 TGATCTTAGTAATTGTG-TTTTCTTT-ATTTAGATATTTTAACCTTTGGTT
1 TGATCTTAGTAATTGTGTTTTTCTTTGCTTT-GATA-TTTAACTTTTGGTT
3028727 GTCTAACATT
Statistics
Matches: 95, Mismatches: 6, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
54 44 0.46
55 4 0.04
56 13 0.14
57 34 0.36
ACGTcount: A:0.19, C:0.08, G:0.14, T:0.59
Consensus pattern (57 bp):
TGATCTTAGTAATTGTGTTTTTCTTTGCTTTGATATTTAACTTTTGGTTATCAACTT
Found at i:3061599 original size:140 final size:141
Alignment explanation
Indices: 3061342--3061626 Score: 536
Period size: 140 Copynumber: 2.0 Consensus size: 141
3061332 TCAAAGACCC
*
3061342 TTTGGGCTTAGGAAGGTGGAGAATAGGAAAGTGTCTTTCTACTGTACTAAAGGCAGAAGATTTCT
1 TTTGGGCTTAGGAAGGTGGAGAATAGGAAAGTGTCTTTCTACTGTACTAAAGCCAGAAGATTTCT
*
3061407 GTGCTTGAGATTAGTATTTTATTTTTGTTAAATAACAGGAATCTCTCTCTC-TATATATAGGTTG
66 GTGCTTGAGATTAGTATTTTATTTTTGTTAAATAACAGGAATCTCTCCCTCATATATATAGGTTG
3061471 TAATCATGGTT
131 TAATCATGGTT
3061482 TTTGGGCTTAGGAAGGTGGAGAATAGGAAAGTGTCTTTCTACTGTACTAAAGCCAGAAGATTTCT
1 TTTGGGCTTAGGAAGGTGGAGAATAGGAAAGTGTCTTTCTACTGTACTAAAGCCAGAAGATTTCT
3061547 GTGCTTGAGATTAGTATTTTATTTTTGTTAAATAACAGGAATCTCTCCCTCTATATATATAGGTT
66 GTGCTTGAGATTAGTATTTTATTTTTGTTAAATAACAGGAATCTCTCCCTC-ATATATATAGGTT
3061612 GTAATCATGGTT
130 GTAATCATGGTT
3061624 TTT
1 TTT
3061627 AGAACCAGAT
Statistics
Matches: 141, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
140 114 0.81
142 27 0.19
ACGTcount: A:0.28, C:0.11, G:0.22, T:0.39
Consensus pattern (141 bp):
TTTGGGCTTAGGAAGGTGGAGAATAGGAAAGTGTCTTTCTACTGTACTAAAGCCAGAAGATTTCT
GTGCTTGAGATTAGTATTTTATTTTTGTTAAATAACAGGAATCTCTCCCTCATATATATAGGTTG
TAATCATGGTT
Found at i:3069283 original size:29 final size:31
Alignment explanation
Indices: 3069250--3069312 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
3069240 AAAATTTAGA
*
3069250 TAATGACCAAAATGGAAAATTT-G-AAAGTT
1 TAATGACCAAAATAGAAAATTTGGAAAAGTT
** *
3069279 TAATGGTCAAAGTAGAAAATTTGGAAAAGTT
1 TAATGACCAAAATAGAAAATTTGGAAAAGTT
3069310 TAA
1 TAA
3069313 GAAATTAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 18 0.64
30 1 0.04
31 9 0.32
ACGTcount: A:0.48, C:0.05, G:0.19, T:0.29
Consensus pattern (31 bp):
TAATGACCAAAATAGAAAATTTGGAAAAGTT
Found at i:3069790 original size:15 final size:16
Alignment explanation
Indices: 3069762--3069795 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
3069752 CAATTTAATG
3069762 AATTTAATATTCATTA
1 AATTTAATATTCATTA
3069778 AATTTAA-ATTCATTA
1 AATTTAATATTCATTA
3069793 AAT
1 AAT
3069796 GATTAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
AATTTAATATTCATTA
Found at i:3071626 original size:47 final size:45
Alignment explanation
Indices: 3071536--3071657 Score: 158
Period size: 47 Copynumber: 2.7 Consensus size: 45
3071526 AGTATACAAG
* *
3071536 TAAGCTTGCGAGCTTAT-GAAT-AATGGCAAGTATATTGATAAAA
1 TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATAAAA
* *
3071579 TAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAAAA
1 TAAGCTTACGAGCTTATGGAA--TAAATGGTAAGTATATTGATAAAA
* *
3071626 TAAGCTTACGAGATTATGGGATAAATGGTAAG
1 TAAGCTTACGAGCTTATGGAATAAATGGTAAG
3071658 AGATTTTATA
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
43 16 0.23
44 3 0.04
45 11 0.16
46 1 0.01
47 38 0.55
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.32
Consensus pattern (45 bp):
TAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGATAAAA
Found at i:3075532 original size:17 final size:18
Alignment explanation
Indices: 3075505--3075542 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3075495 GCGAAACATG
3075505 AACACCCAAAAC-ACAGAA
1 AACACCCAAAACTA-AGAA
3075523 AACA-CCAAAACTAAGAA
1 AACACCCAAAACTAAGAA
3075540 AAC
1 AAC
3075543 TTAGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.63, C:0.29, G:0.05, T:0.03
Consensus pattern (18 bp):
AACACCCAAAACTAAGAA
Found at i:3079875 original size:20 final size:21
Alignment explanation
Indices: 3079850--3079888 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
3079840 ATGCCTCTAC
*
3079850 TTGAGAATCCAA-GTCACTAT
1 TTGAGAATCAAATGTCACTAT
3079870 TTGAGAATCAAATGTCACT
1 TTGAGAATCAAATGTCACT
3079889 TGTAGTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGAGAATCAAATGTCACTAT
Found at i:3080634 original size:25 final size:25
Alignment explanation
Indices: 3080599--3080648 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
3080589 TTAAGTTGAC
*
3080599 GAGTCTTATTGTACAACTCAAATTT
1 GAGTCTAATTGTACAACTCAAATTT
3080624 GAGTCTAATTGTACAACTCAAATTT
1 GAGTCTAATTGTACAACTCAAATTT
3080649 TATTCAACTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (25 bp):
GAGTCTAATTGTACAACTCAAATTT
Found at i:3086949 original size:24 final size:24
Alignment explanation
Indices: 3086922--3086994 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
3086912 TAAATTAGGT
* * *
3086922 GAAACAACAGGGGACTCATGAATA
1 GAAACAATAGGTGACTCATGAACA
* *
3086946 GAAACAGTAGGTGACTCAGGAACA
1 GAAACAATAGGTGACTCATGAACA
*
3086970 GAAACAATAGGTGATTCATGAACA
1 GAAACAATAGGTGACTCATGAACA
3086994 G
1 G
3086995 TAAGTGACTA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (24 bp):
GAAACAATAGGTGACTCATGAACA
Found at i:3088162 original size:19 final size:19
Alignment explanation
Indices: 3088133--3088216 Score: 78
Period size: 19 Copynumber: 4.4 Consensus size: 19
3088123 TATTTCCCAG
*
3088133 TTCATAACTTACTTTCAAA
1 TTCATAGCTTACTTTCAAA
* * ***
3088152 TTCGTAGCTTAATTTTGGA
1 TTCATAGCTTACTTTCAAA
* *
3088171 TTCATAGCTTATTTTTAAA
1 TTCATAGCTTACTTTCAAA
* *
3088190 TTCATAGCTTACTCTCAAG
1 TTCATAGCTTACTTTCAAA
3088209 TTCATAGC
1 TTCATAGC
3088217 CCAATCCATA
Statistics
Matches: 51, Mismatches: 14, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.29, C:0.18, G:0.10, T:0.44
Consensus pattern (19 bp):
TTCATAGCTTACTTTCAAA
Found at i:3088689 original size:20 final size:21
Alignment explanation
Indices: 3088649--3088690 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
3088639 AAAAATGAGA
3088649 ATGTTGTGGCAAAATGAAATGG
1 ATGTTGTGG-AAAATGAAATGG
*
3088671 ATGTTGTGG-AAATGGAATGG
1 ATGTTGTGGAAAATGAAATGG
3088691 TGGTAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.33, C:0.02, G:0.36, T:0.29
Consensus pattern (21 bp):
ATGTTGTGGAAAATGAAATGG
Found at i:3092945 original size:11 final size:12
Alignment explanation
Indices: 3092919--3093006 Score: 56
Period size: 12 Copynumber: 7.0 Consensus size: 12
3092909 ACACTTGAAG
3092919 AAGAAAGAAAAA
1 AAGAAAGAAAAA
*
3092931 AAGAAA-AAAAC
1 AAGAAAGAAAAA
3092942 AAGAAGAGAAAAGA
1 AAGAA-AGAAAA-A
*
3092956 AGAGAAA-AGAAA
1 A-AGAAAGAAAAA
*
3092968 AAGAACGAAAAAGA
1 AAGAAAG-AAAA-A
*
3092982 AATATAAGAAAAA
1 AAGA-AAGAAAAA
3092995 ATA-AAAGAAAAA
1 A-AGAAAGAAAAA
3093007 GGAGAAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
11 13 0.22
12 17 0.28
13 13 0.22
14 11 0.18
15 6 0.10
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.03
Consensus pattern (12 bp):
AAGAAAGAAAAA
Found at i:3092955 original size:10 final size:10
Alignment explanation
Indices: 3092942--3092966 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3092932 AGAAAAAAAC
3092942 AAGAAGAGAA
1 AAGAAGAGAA
3092952 AAGAAGAGAA
1 AAGAAGAGAA
3092962 AAGAA
1 AAGAA
3092967 AAAGAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAGAGAA
Found at i:3092961 original size:26 final size:25
Alignment explanation
Indices: 3092919--3092994 Score: 79
Period size: 26 Copynumber: 3.1 Consensus size: 25
3092909 ACACTTGAAG
3092919 AAGAA-AGAAAA-AAAGAAAA-AAA
1 AAGAAGAGAAAAGAAAGAAAAGAAA
3092941 CAAGAAGAGAAAAGAAGAGAAAAGAAA
1 -AAGAAGAGAAAAGAA-AGAAAAGAAA
* *
3092968 AAGAACGA-AAAAGAAATATAAGAAA
1 AAGAA-GAGAAAAGAAAGAAAAGAAA
3092993 AA
1 AA
3092995 ATAAAAGAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
23 5 0.11
24 6 0.13
25 12 0.26
26 18 0.39
27 5 0.11
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (25 bp):
AAGAAGAGAAAAGAAAGAAAAGAAA
Found at i:3092972 original size:21 final size:20
Alignment explanation
Indices: 3092922--3093021 Score: 75
Period size: 21 Copynumber: 4.9 Consensus size: 20
3092912 CTTGAAGAAG
3092922 AAAGAA-AAAAAGAAAAA-A
1 AAAGAAGAAAAAGAAAAAGA
*
3092940 ACAAGAAGAGAAAAG-AAGAGA
1 A-AAGAAGA-AAAAGAAAAAGA
3092961 AAAGAA-AAAGAACGAAAAAGA
1 AAAGAAGAAA-AA-GAAAAAGA
*
3092982 AATATAAGAAAAA-ATAAAAGAA
1 AA-AGAAGAAAAAGA-AAAAG-A
*
3093004 AAAGGAGAAAAAGAAAAA
1 AAAGAAGAAAAAGAAAAA
3093022 ATAAATAAGG
Statistics
Matches: 65, Mismatches: 5, Indels: 21
0.71 0.05 0.23
Matches are distributed among these distances:
18 3 0.05
19 8 0.12
20 11 0.17
21 31 0.48
22 9 0.14
23 3 0.05
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.03
Consensus pattern (20 bp):
AAAGAAGAAAAAGAAAAAGA
Found at i:3092992 original size:15 final size:15
Alignment explanation
Indices: 3092916--3093022 Score: 80
Period size: 15 Copynumber: 7.1 Consensus size: 15
3092906 ATTACACTTG
3092916 AAGAAGAAAGAA-AAA
1 AAGAA-AAAGAAGAAA
* *
3092931 AAGAAAAA-AACAAG
1 AAGAAAAAGAAGAAA
3092945 AAGAGAAAAGAAGAGAA
1 AAGA-AAAAGAAGA-AA
3092962 AAGAAAAAGAACGAAA
1 AAGAAAAAGAA-GAAA
* *
3092978 AAGAAATATAAGAAA
1 AAGAAAAAGAAGAAA
3092993 AA-ATAAAAGAA-AAA
1 AAGA-AAAAGAAGAAA
*
3093007 GGAGAAAAAGAA-AAA
1 -AAGAAAAAGAAGAAA
3093022 A
1 A
3093023 TAAATAAGGG
Statistics
Matches: 75, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
13 2 0.03
14 13 0.17
15 31 0.41
16 22 0.29
17 7 0.09
ACGTcount: A:0.77, C:0.02, G:0.19, T:0.03
Consensus pattern (15 bp):
AAGAAAAAGAAGAAA
Found at i:3093004 original size:27 final size:27
Alignment explanation
Indices: 3092928--3093026 Score: 80
Period size: 27 Copynumber: 3.6 Consensus size: 27
3092918 GAAGAAAGAA
* *
3092928 AAAAAGAAAAAAACAAGAAGAGAAAAGAAG
1 AAAAAG-AAAAAATAA-AAGA-AAAAGGAG
* *
3092958 AGAAAAG-AAAAA-GAACGAAAAA-GA-
1 A-AAAAGAAAAAATAAAAGAAAAAGGAG
3092982 AATATAAGAAAAAATAAAAGAAAAAGGAG
1 AA-A-AAGAAAAAATAAAAGAAAAAGGAG
3093011 AAAAAGAAAAAATAAA
1 AAAAAGAAAAAATAAA
3093027 TAAGGGGGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 4 0.07
26 9 0.16
27 24 0.42
28 4 0.07
29 7 0.12
30 1 0.02
31 5 0.09
ACGTcount: A:0.77, C:0.02, G:0.17, T:0.04
Consensus pattern (27 bp):
AAAAAGAAAAAATAAAAGAAAAAGGAG
Found at i:3094292 original size:138 final size:139
Alignment explanation
Indices: 3093996--3094364 Score: 524
Period size: 138 Copynumber: 2.7 Consensus size: 139
3093986 GAATCAATCA
* * * **
3093996 TCATCAACTGACCAGATCTCCTCATCACGTAGGAGCCGCATCAACCTTAGATAACCAGACTTCCT
1 TCATCCACCGACCAGATCTCCTCATCACGTAGGAGCAGTGTCAACCTTAGATAACCAGACTTCCT
* *
3094061 CATCACGTAGGAACCGTGTTATCTCTACTTATCCATAAAGATGGACAAGACGTCCTCATCACGTA
66 CATCACGTAGGAACCGTGTTATCTCCACTTATCCATAAAGATGGACAAGACATCCTCATCACGTA
*
3094126 GGAACAGTG
131 GGAACAATG
* * * * *
3094135 TCATCCACCGACCATATCTCCTCATCACGTAGGAGTAGTGCCAATCTTAAATAACCAGACTTCCT
1 TCATCCACCGACCAGATCTCCTCATCACGTAGGAGCAGTGTCAACCTTAGATAACCAGACTTCCT
** * *
3094200 CATTGCGTAGGAACCGTGTTATCTCCA-TTATCCCTAAAGATGGCCAAGACATCCTCATCACGTA
66 CATCACGTAGGAACCGTGTTATCTCCACTTATCCATAAAGATGGACAAGACATCCTCATCACGTA
3094264 GGAACAATG
131 GGAACAATG
* * *
3094273 TCATCCACCGACCAGATCTCCTCATCACGTAGGAGCAGTGTCACCCTTAGATAACCAGATTTCTT
1 TCATCCACCGACCAGATCTCCTCATCACGTAGGAGCAGTGTCAACCTTAGATAACCAGACTTCCT
* * *
3094338 CACCACGTAGGAAACGTGCTATCTCCA
66 CATCACGTAGGAACCGTGTTATCTCCA
3094365 AATTTACCTA
Statistics
Matches: 200, Mismatches: 30, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
138 121 0.61
139 79 0.40
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (139 bp):
TCATCCACCGACCAGATCTCCTCATCACGTAGGAGCAGTGTCAACCTTAGATAACCAGACTTCCT
CATCACGTAGGAACCGTGTTATCTCCACTTATCCATAAAGATGGACAAGACATCCTCATCACGTA
GGAACAATG
Found at i:3094625 original size:3 final size:3
Alignment explanation
Indices: 3094617--3094713 Score: 115
Period size: 3 Copynumber: 31.7 Consensus size: 3
3094607 TCGGGTGTTA
*
3094617 ATT ATT ATT ATT ATT ATTT ATT ATT A-T ATTT ATT ATA ATT ATT AATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT A-TT ATT ATT ATT ATT -ATT
* * * *
3094664 AGT ATT AGT ATT ATT ATT ATT ATT GTT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
3094712 AT
1 AT
3094714 AATAATTAAC
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.03
3 70 0.88
4 8 0.10
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:3100120 original size:113 final size:116
Alignment explanation
Indices: 3099939--3100206 Score: 391
Period size: 113 Copynumber: 2.3 Consensus size: 116
3099929 TAGTATAATC
3099939 TTAAATTCTTAACTATAAAATTATATATTTTATTTTTTTTCTAAATTTATCGAAAATATATTTTT
1 TTAAATTCTTAACTATAAAA--ATATA---TA--TTTTTTCTAAATTTATCGAAAATATATTTTT
3100004 TGGTTTAAAGTAGGCAAAA-TTTATTATTTGAGGTAAGAATATATATTT-AAA-ATA-T
59 TGGTTTAAAGTAGG-AAAAGTTTATTATTTGAGGTAAGAATATATATTTAAAATATAGT
* * *
3100059 TTAAATTCTTAACTATAAAAATATATATTTTTTCTTAATTTATCTAATATATATTTTTTGGTTTA
1 TTAAATTCTTAACTATAAAAATATATATTTTTTCTAAATTTATCGAAAATATATTTTTTGGTTTA
*
3100124 AAGTAGGAAAAGTTTATTATTTGAGTTAAGAATATATATTTAAAATATATGT
66 AAGTAGGAAAAGTTTATTATTTGAGGTAAGAATATATATTTAAAATATA-GT
3100176 TTAAATTCTTAACTATAAAAATATATATTTT
1 TTAAATTCTTAACTATAAAAATATATATTTT
3100207 ATTTTATTTT
Statistics
Matches: 139, Mismatches: 4, Indels: 13
0.89 0.03 0.08
Matches are distributed among these distances:
112 4 0.03
113 70 0.50
114 3 0.02
115 5 0.04
117 32 0.23
118 5 0.04
120 20 0.14
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (116 bp):
TTAAATTCTTAACTATAAAAATATATATTTTTTCTAAATTTATCGAAAATATATTTTTTGGTTTA
AAGTAGGAAAAGTTTATTATTTGAGGTAAGAATATATATTTAAAATATAGT
Found at i:3103360 original size:3 final size:3
Alignment explanation
Indices: 3103352--3103399 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
3103342 ATTTATTTAT
*
3103352 ATA ATA ATA ATA ATA ATA TATA TTA ATA ATA ATA ATA A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA
3103398 AT
1 AT
3103400 TTTAATTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:3103371 original size:19 final size:19
Alignment explanation
Indices: 3103349--3103388 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3103339 GTAATTTATT
3103349 TATATAATAATAATAATAA
1 TATATAATAATAATAATAA
*
3103368 TATATATTAATAATAATAA
1 TATATAATAATAATAATAA
3103387 TA
1 TA
3103389 AAATTAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TATATAATAATAATAATAA
Found at i:3104050 original size:76 final size:76
Alignment explanation
Indices: 3103538--3104023 Score: 873
Period size: 76 Copynumber: 6.4 Consensus size: 76
3103528 GAAATGTTGA
* * *
3103538 AAACATCATACACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAACCTCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3103603 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
3103614 AAACATCATGCACTGCAGGACTTACAGATGACCCAAAGGTTTTGAAAACCTCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3103679 AGGCTTTTTGG
66 AGGCTTTTTGG
3103690 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3103755 AGGCTTTTTGG
66 AGGCTTTTTGG
* * *
3103766 AAACATTATGCACTGCAGGACTTATAGATGACCCTAAGGCTTTAAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3103831 AGGCTTTTTGG
66 AGGCTTTTTGG
3103842 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3103907 AGGCTTTTTGG
66 AGGCTTTTTGG
* *
3103918 AAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAACATTAAAAAGCTCCCGA
1 AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
3103983 AGGCTTTTTGG
66 AGGCTTTTTGG
3103994 AAACATCATGCACTGCAGGACTTACAGATG
1 AAACATCATGCACTGCAGGACTTACAGATG
3104024 TGGGAAATAG
Statistics
Matches: 394, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 394 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (76 bp):
AAACATCATGCACTGCAGGACTTACAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:3104350 original size:170 final size:164
Alignment explanation
Indices: 3104026--3104352 Score: 494
Period size: 170 Copynumber: 2.0 Consensus size: 164
3104016 TACAGATGTG
* * * *
3104026 GGAAATAGTTTATTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
1 GGAAATAATTTACTAAGTAAAAAAAATAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
** *
3104091 TAGAAAAGATTGAAAGAAACTATGGAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATT
66 TAGAAAAGATAAAAAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATT
3104156 GGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
131 GGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
3104190 GGAAATAATTTACTAAGTAAAAAAAAATAAGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TT
1 GGAAATAATTTACTAAGT-AAAAAAAATAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTT
* **
3104254 TTAGAAAAGATAAAATGAGAAACTATGAAAATCGTTTTCTCATTCTGTTTTTTTTGAAATAACAT
65 TTAGAAAAGATAAAA--AGAAACTATGAAAATCGTTTTCTCA---T-TATTTTTCAAAATAACAT
3104319 GTTGATTGGGTAACATGCCCCAATCTCAAGATAA
124 GTTGATTGGGTAACATGCCCCAATCTCAAGATAA
3104353 TGCTAATTTT
Statistics
Matches: 146, Mismatches: 10, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
164 31 0.21
165 41 0.28
166 24 0.16
169 1 0.01
170 49 0.34
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (164 bp):
GGAAATAATTTACTAAGTAAAAAAAATAAGAAAATCGTTTTCTTACTTTTCAACAATTTCATTTT
TAGAAAAGATAAAAAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGATT
GGGTAACATGCCCCAATCTCAAGATAAGGCTGTT
Found at i:3104881 original size:22 final size:22
Alignment explanation
Indices: 3104853--3104907 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
3104843 CATAAAGCTT
*
3104853 TCATCTTTGAAAAGAGAATATA
1 TCATCTTTAAAAAGAGAATATA
*
3104875 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTAAAAAGAGAATATA
3104897 TCATCTTTAAA
1 TCATCTTTAAA
3104908 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.44, C:0.13, G:0.09, T:0.35
Consensus pattern (22 bp):
TCATCTTTAAAAAGAGAATATA
Found at i:3105405 original size:54 final size:54
Alignment explanation
Indices: 3105274--3105431 Score: 191
Period size: 54 Copynumber: 3.0 Consensus size: 54
3105264 AGAATAACTG
* * *
3105274 GTTCGTAAAACATTTGATAACACATGCAT-CATCTCATGTGGTTTCTGCTC--A-
1 GTTCGTAAAACATTTGATAACACATTCATCCTTTTC-TGTGGTTTCTGCTCAAAT
* *
3105325 GAT-GTAAAACACTTGATAACACATTCATCCTTTTCTGTGGTTTCTGCTCAAAT
1 GTTCGTAAAACATTTGATAACACATTCATCCTTTTCTGTGGTTTCTGCTCAAAT
* * * *
3105378 GTTCGTAAAGCATTTGACAACACATTCATCCTTTTCTGTGGCTTCTGCTTAAAT
1 GTTCGTAAAACATTTGATAACACATTCATCCTTTTCTGTGGTTTCTGCTCAAAT
3105432 TTCTCAATCA
Statistics
Matches: 91, Mismatches: 11, Indels: 7
0.83 0.10 0.06
Matches are distributed among these distances:
50 37 0.41
51 6 0.07
52 1 0.01
53 2 0.02
54 45 0.49
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.37
Consensus pattern (54 bp):
GTTCGTAAAACATTTGATAACACATTCATCCTTTTCTGTGGTTTCTGCTCAAAT
Found at i:3106403 original size:76 final size:74
Alignment explanation
Indices: 3106303--3106477 Score: 206
Period size: 76 Copynumber: 2.3 Consensus size: 74
3106293 ATGATGATGT
* ** * *
3106303 GGGCCTTCAGCATGCCCCGGCATTTGCTAATACAAATATTCAAAAATGCACCAACGTTCCTGATT
1 GGGCTTTCAGCATGCCCCAACATTTGCTAATACAAATATTC-AAAATACACCAACATTCCTGATT
3106368 CTGATTGAAAA
65 CTGATTG-AAA
* * * ** *
3106379 GGGCTTTCAGCATGCCCCAACATTTTGCTGATATAAATATTCATAATACTTCAATATTCCTGATT
1 GGGCTTTCAGCATGCCCCAACA-TTTGCTAATACAAATATTCAAAATACACCAACATTCCTGATT
3106444 CTGATTGAAA
65 CTGATTGAAA
* *
3106454 GGGTTTTCAGCATGCCACAACATT
1 GGGCTTTCAGCATGCCCCAACATT
3106478 CGCTTCTTGT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
74 2 0.02
75 23 0.27
76 43 0.51
77 17 0.20
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (74 bp):
GGGCTTTCAGCATGCCCCAACATTTGCTAATACAAATATTCAAAATACACCAACATTCCTGATTC
TGATTGAAA
Found at i:3106634 original size:36 final size:34
Alignment explanation
Indices: 3106594--3106667 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 34
3106584 CATTATTTCT
3106594 TATTG-AGATGAGCCTCCAAGAATGCCCAAATATTC
1 TATTGTAG-TGAGCCTCCAA-AATGCCCAAATATTC
* * *
3106629 ATATTGTTGTGAGCCTTCAAAATGCCCCAATATTC
1 -TATTGTAGTGAGCCTCCAAAATGCCCAAATATTC
3106664 TATT
1 TATT
3106668 TCTGGTTGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 4 0.12
35 14 0.41
36 15 0.44
37 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (34 bp):
TATTGTAGTGAGCCTCCAAAATGCCCAAATATTC
Found at i:3107824 original size:114 final size:114
Alignment explanation
Indices: 3107624--3107847 Score: 376
Period size: 114 Copynumber: 2.0 Consensus size: 114
3107614 GATCATGCAG
* * * *
3107624 TTCATCTTTCAATTCCAATGATTGGTTCTGGGGTTCCTACCGAACCAGATCAGATAACTCAAATA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* *
3107689 ACACTTCTAGAAGATGCTATTGGGTCTCTTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
3107738 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
3107803 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAG
3107848 AACGTGGCAC
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:3110120 original size:8 final size:8
Alignment explanation
Indices: 3110107--3110187 Score: 76
Period size: 8 Copynumber: 10.0 Consensus size: 8
3110097 CTTGATTCAA
3110107 TTTTTTTC
1 TTTTTTTC
3110115 TTTTTTTC
1 TTTTTTTC
*
3110123 -CTTTTTC
1 TTTTTTTC
3110130 TTTTTTTC
1 TTTTTTTC
* *
3110138 -CTTTTTA
1 TTTTTTTC
*
3110145 TTTCTTTC
1 TTTTTTTC
3110153 ATTTTTTTC
1 -TTTTTTTC
*
3110162 TTTTTTCCTT
1 TTTTTT--TC
3110172 TTTTTTTC
1 TTTTTTTC
3110180 TTTTTTTC
1 TTTTTTTC
3110188 CTTTCTTTGC
Statistics
Matches: 58, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
7 11 0.19
8 33 0.57
9 7 0.12
10 7 0.12
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (8 bp):
TTTTTTTC
Found at i:3110121 original size:9 final size:9
Alignment explanation
Indices: 3110107--3110191 Score: 61
Period size: 9 Copynumber: 9.2 Consensus size: 9
3110097 CTTGATTCAA
3110107 TTTTTTTC-
1 TTTTTTTCT
3110115 TTTTTTTC-
1 TTTTTTTCT
*
3110123 -CTTTTTCT
1 TTTTTTTCT
*
3110131 TTTTTTCCT
1 TTTTTTTCT
3110140 TTTTATTTCT
1 TTTT-TTTCT
3110150 TTCATTTTT-T
1 TT--TTTTTCT
3110160 TCTTTTTTCCTT
1 T-TTTTTT-C-T
3110172 TTTTTTTCT
1 TTTTTTTCT
*
3110181 TTTTTTCCT
1 TTTTTTTCT
3110190 TT
1 TT
3110192 CTTTGCTGGA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
7 6 0.10
8 8 0.13
9 26 0.41
10 9 0.14
11 10 0.16
12 4 0.06
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:3110129 original size:15 final size:15
Alignment explanation
Indices: 3110109--3110178 Score: 88
Period size: 15 Copynumber: 4.7 Consensus size: 15
3110099 TGATTCAATT
3110109 TTTTTCTTTTTTTCC
1 TTTTTCTTTTTTTCC
3110124 TTTTTCTTTTTTTCC
1 TTTTTCTTTTTTTCC
* * *
3110139 TTTTTATTTCTTTCA
1 TTTTTCTTTTTTTCC
*
3110154 TTTTTTTCTTTTTTCC
1 TTTTTCT-TTTTTTCC
3110170 TTTTT-TTTT
1 TTTTTCTTTT
3110179 CTTTTTTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
14 3 0.06
15 34 0.71
16 11 0.23
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTTCTTTTTTTCC
Found at i:3110193 original size:31 final size:31
Alignment explanation
Indices: 3110107--3110195 Score: 110
Period size: 31 Copynumber: 2.8 Consensus size: 31
3110097 CTTGATTCAA
3110107 TTTTTTTCTTTTTTTCCTTTTTCTTTTTTTCCTT
1 TTTTTTTCTTTTTTTCC--TTTC-TTTTTTCCTT
*
3110141 TTTATTTCTTTCATTTT--TTTCTTTTTTCCTT
1 TTTTTTTCTTT--TTTTCCTTTCTTTTTTCCTT
3110172 TTTTTTTCTTTTTTTCCTTTCTTT
1 TTTTTTTCTTTTTTTCCTTTCTTT
3110196 GCTGGATTTT
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
29 4 0.08
31 27 0.55
32 4 0.08
34 10 0.20
36 4 0.08
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (31 bp):
TTTTTTTCTTTTTTTCCTTTCTTTTTTCCTT
Found at i:3112830 original size:21 final size:21
Alignment explanation
Indices: 3112804--3112843 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3112794 AAAAAGTAAG
*
3112804 AATACAAAATGGAAATGCACA
1 AATACAAAATAGAAATGCACA
*
3112825 AATACAAAATATAAATGCA
1 AATACAAAATAGAAATGCA
3112844 TGTATGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.17
Consensus pattern (21 bp):
AATACAAAATAGAAATGCACA
Found at i:3113829 original size:375 final size:375
Alignment explanation
Indices: 3113139--3113893 Score: 1465
Period size: 375 Copynumber: 2.0 Consensus size: 375
3113129 GCATTAACTC
3113139 TCGAAGTTGTAAACAATATTGTTCATATTTTCTTATGAGAGAATCTTTATGTTTAAGAAGTTCTT
1 TCGAAGTTGTAAACAATATTGTTCATATTTTCTTATGAGAGAATCTTTATGTTTAAGAAGTTCTT
3113204 GTACAAGATCTCCATAATCATCTACACATTTCTTCAATGTTTTGTTCTTGGCCATAGTGGCTTTT
66 GTACAAGATCTCCATAATCATCTACACATTTCTTCAATGTTTTGTTCTTGGCCATAGTGGCTTTT
* *
3113269 AATTCAGTATCTATCTCAAGATGATGAATCTGATATGATGCTTCCATGTTGGTCATATCATTATT
131 AATTCAGTATCTATCTCAAGATGATGAATCTGATATGATGCTTCCATGTTGGTCATAGCACTATT
3113334 CAACCTTTGATTGTCAACTTGATATTTTCTCGATTCCATGACAGTTGTATTGAGTCTTTTTTCTG
196 CAACCTTTGATTGTCAACTTGATATTTTCTCGATTCCATGACAGTTGTATTGAGTCTTTTTTCTG
3113399 CAACTCGTGAATTATGATAAAACTTCTTGGCTCGACCTTCATATATATTACAGTTCTTTTTCAGT
261 CAACTCGTGAATTATGATAAAACTTCTTGGCTCGACCTTCATATATATTACAGTTCTTTTTCAGT
3113464 TTGGTGACCCCTGTGATCCACTCTTATAGGGTGTTTCCTATACCAGCATT
326 TTGGTGACCCCTGTGATCCACTCTTATAGGGTGTTTCCTATACCAGCATT
* *
3113514 TCGAAGTTGTAAACATTATTGTTCATATTTTCTTGTGAGAGAATCTTTATGTTTAAGAAGTTCTT
1 TCGAAGTTGTAAACAATATTGTTCATATTTTCTTATGAGAGAATCTTTATGTTTAAGAAGTTCTT
3113579 GTACAAGATCTCCATAATCATCTACACATTTCTTCAATGTTTTGTTCTTGGCCATAGTGGCTTTT
66 GTACAAGATCTCCATAATCATCTACACATTTCTTCAATGTTTTGTTCTTGGCCATAGTGGCTTTT
3113644 AATTCAGTATCTATCTCAAGATGATGAATCTGATATGATGCTTCCATGTTGGTCATAGCACTATT
131 AATTCAGTATCTATCTCAAGATGATGAATCTGATATGATGCTTCCATGTTGGTCATAGCACTATT
3113709 CAACCTTTGATTGTCAACTTGATATTTTCTCGATTCCATGACAGTTGTATTGAGTCTTTTTTCTG
196 CAACCTTTGATTGTCAACTTGATATTTTCTCGATTCCATGACAGTTGTATTGAGTCTTTTTTCTG
3113774 CAACTCGTGAATTATGATAAAACTTCTTGGCTCGACCTTCATATATATTACAGTTCTTTTTCAGT
261 CAACTCGTGAATTATGATAAAACTTCTTGGCTCGACCTTCATATATATTACAGTTCTTTTTCAGT
*
3113839 TTGGTGACCCCTGTGATCCACTCTTCTAGGGTGTTTCCTATACCAGCATT
326 TTGGTGACCCCTGTGATCCACTCTTATAGGGTGTTTCCTATACCAGCATT
3113889 TCGAA
1 TCGAA
3113894 AGGCTTGACT
Statistics
Matches: 375, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
375 375 1.00
ACGTcount: A:0.25, C:0.18, G:0.15, T:0.41
Consensus pattern (375 bp):
TCGAAGTTGTAAACAATATTGTTCATATTTTCTTATGAGAGAATCTTTATGTTTAAGAAGTTCTT
GTACAAGATCTCCATAATCATCTACACATTTCTTCAATGTTTTGTTCTTGGCCATAGTGGCTTTT
AATTCAGTATCTATCTCAAGATGATGAATCTGATATGATGCTTCCATGTTGGTCATAGCACTATT
CAACCTTTGATTGTCAACTTGATATTTTCTCGATTCCATGACAGTTGTATTGAGTCTTTTTTCTG
CAACTCGTGAATTATGATAAAACTTCTTGGCTCGACCTTCATATATATTACAGTTCTTTTTCAGT
TTGGTGACCCCTGTGATCCACTCTTATAGGGTGTTTCCTATACCAGCATT
Found at i:3116413 original size:4 final size:4
Alignment explanation
Indices: 3116399--3116428 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
3116389 TTAAAAAAAC
3116399 AAAT AAAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT -AAAT AAAT AAAT AAAT AAAT AAAT A
3116429 TTATTTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:3117849 original size:3 final size:3
Alignment explanation
Indices: 3117841--3117885 Score: 56
Period size: 3 Copynumber: 14.7 Consensus size: 3
3117831 ATTTATTTAT
*
3117841 ATA ATA ATA ATA ATA TATA TTA ATA ATA ATA ATA A-A ATTA ATA AT
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA A-TA ATA AT
3117886 TTTAATTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.81
4 5 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
ATA
Found at i:3121623 original size:21 final size:21
Alignment explanation
Indices: 3121607--3121688 Score: 119
Period size: 21 Copynumber: 3.9 Consensus size: 21
3121597 TTGAAGCGAG
3121607 GGAAGCAGAGAGAGAAGCAAC
1 GGAAGCAGAGAGAGAAGCAAC
*
3121628 GGAAGCAGAGAGAAAAGCAAC
1 GGAAGCAGAGAGAGAAGCAAC
* *
3121649 AGAAGCAGAGAGAGAAGCAGC
1 GGAAGCAGAGAGAGAAGCAAC
* *
3121670 GGAAGTAGACAGAGAAGCA
1 GGAAGCAGAGAGAGAAGCA
3121689 TCATATCAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.49, C:0.13, G:0.37, T:0.01
Consensus pattern (21 bp):
GGAAGCAGAGAGAGAAGCAAC
Found at i:3121625 original size:12 final size:12
Alignment explanation
Indices: 3121608--3121668 Score: 53
Period size: 12 Copynumber: 5.6 Consensus size: 12
3121598 TGAAGCGAGG
3121608 GAAGCAGAGAGA
1 GAAGCAGAGAGA
*
3121620 GAAGCA-A-CG-
1 GAAGCAGAGAGA
3121629 GAAGCAGAGAGA
1 GAAGCAGAGAGA
* *
3121641 AAAGC--A-ACA
1 GAAGCAGAGAGA
3121650 GAAGCAGAGAGA
1 GAAGCAGAGAGA
3121662 GAAGCAG
1 GAAGCAG
3121669 CGGAAGTAGA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
9 12 0.32
10 3 0.08
11 3 0.08
12 19 0.51
ACGTcount: A:0.51, C:0.13, G:0.36, T:0.00
Consensus pattern (12 bp):
GAAGCAGAGAGA
Found at i:3122859 original size:48 final size:48
Alignment explanation
Indices: 3122805--3122902 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
3122795 GGTGTTGATG
3122805 TATATTGTATATATCTTGTTTCCTAGTATAATCTTAAATTCTTAACTA
1 TATATTGTATATATCTTGTTTCCTAGTATAATCTTAAATTCTTAACTA
*
3122853 TATATTGTATATATCTTGTTTCCTAGTATAATCTTAAATTCTTGACTA
1 TATATTGTATATATCTTGTTTCCTAGTATAATCTTAAATTCTTAACTA
3122901 TA
1 TA
3122903 AAATTATATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.07, T:0.50
Consensus pattern (48 bp):
TATATTGTATATATCTTGTTTCCTAGTATAATCTTAAATTCTTAACTA
Found at i:3122895 original size:26 final size:26
Alignment explanation
Indices: 3122818--3122896 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
3122808 ATTGTATATA
3122818 TCTTGTTTCCTAGTATAATCTTAAAT
1 TCTTGTTTCCTAGTATAATCTTAAAT
** *
3122844 TC---TTAACTA-TAT-AT-TGTATAT
1 TCTTGTTTCCTAGTATAATCT-TAAAT
3122865 ATCTTGTTTCCTAGTATAATCTTAAAT
1 -TCTTGTTTCCTAGTATAATCTTAAAT
3122892 TCTTG
1 TCTTG
3122897 ACTATAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 16
0.64 0.10 0.26
Matches are distributed among these distances:
20 1 0.03
21 6 0.15
22 5 0.13
23 5 0.13
25 5 0.13
26 10 0.26
27 6 0.15
28 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.08, T:0.51
Consensus pattern (26 bp):
TCTTGTTTCCTAGTATAATCTTAAAT
Found at i:3123212 original size:123 final size:122
Alignment explanation
Indices: 3122886--3123310 Score: 561
Period size: 113 Copynumber: 3.5 Consensus size: 122
3122876 TAGTATAATC
* * *
3122886 TTAAATTCTTGACTATAAAATTATATATTTTATTATTTTT-TTAAATTTATCGAA-A-ATATATT
1 TTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTCTT-AATTTATCGAATATATATTTT
*
3122948 TTTTGGTTTAAAGTAGGTAAAA-TTTATTATTTGAGGTAAGAATATATATTTAAAATAT
65 TTTTGGTTTAAAGTAGG-AAAAGTTTATTATTTGAGTTAAGAATATATATTTAAAATAT
* *
3123006 TTAAATTCTTAACTAT-AAAA-ATATA---T-TT-TTTTTCTTAATTTATCTAATATATA--TAT
1 TTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTCTTAATTTATCGAATATATATTTTT
* * ** * *
3123062 ATTGATTTAAAGTAGGCCAAGTCTATTATTTAAGTTAAGAATATATATTTAAAATAT
66 TTTGGTTTAAAGTAGGAAAAGTTTATTATTTGAGTTAAGAATATATATTTAAAATAT
3123119 TTAAATTCTTAACTATAAAAATATATATTTTATTTATTTTTCTTAATTTATCGAATATATATTTT
1 TTAAATTCTTAACTATAAAAATATATATTTTA-TTATTTTTCTTAATTTATCGAATATATATTTT
3123184 TTTTGGTTTAAAGTAGGAAAAGTTTATTATTTGAGTTAAGAATATATATTTAAAATATATGT
65 TTTTGGTTTAAAGTAGGAAAAGTTTATTATTTGAGTTAAGAATATATATTT-AAA-ATA--T
* *
3123246 TTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTTCTTAATGTATTGAATATATATTTT
1 TTAAATTCTTAACTATAAAAATATATATTTTATTA-TTTTTCTTAATTTATCGAATATATATTTT
3123311 AAAATATTAT
Statistics
Matches: 265, Mismatches: 21, Indels: 31
0.84 0.07 0.10
Matches are distributed among these distances:
112 2 0.01
113 80 0.30
114 9 0.03
115 9 0.03
118 6 0.02
119 3 0.01
120 17 0.06
121 24 0.09
123 46 0.17
124 3 0.01
125 3 0.01
126 3 0.01
127 60 0.23
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.50
Consensus pattern (122 bp):
TTAAATTCTTAACTATAAAAATATATATTTTATTATTTTTCTTAATTTATCGAATATATATTTTT
TTTGGTTTAAAGTAGGAAAAGTTTATTATTTGAGTTAAGAATATATATTTAAAATAT
Found at i:3126466 original size:12 final size:12
Alignment explanation
Indices: 3126449--3126478 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
3126439 TAGAACTTCA
3126449 TGAAGCCTTTGT
1 TGAAGCCTTTGT
3126461 TGAAGCCTTTGT
1 TGAAGCCTTTGT
3126473 TGAAGC
1 TGAAGC
3126479 TGCCAACCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.37
Consensus pattern (12 bp):
TGAAGCCTTTGT
Found at i:3128370 original size:13 final size:13
Alignment explanation
Indices: 3128354--3128401 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
3128344 CGCAATGACT
*
3128354 GTCATAAATGCGC
1 GTCATAAATGCGA
*
3128367 GTCATAAATGCGT
1 GTCATAAATGCGA
*
3128380 GTAATAAATGCGA
1 GTCATAAATGCGA
3128393 GTCATAAAT
1 GTCATAAAT
3128402 TTATTACGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.27
Consensus pattern (13 bp):
GTCATAAATGCGA
Found at i:3139308 original size:15 final size:15
Alignment explanation
Indices: 3139288--3139322 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
3139278 TGCTCATCAT
3139288 TCGAACAAACTTCAC
1 TCGAACAAACTTCAC
*
3139303 TCGAACAAGCTTCAC
1 TCGAACAAACTTCAC
3139318 TCGAA
1 TCGAA
3139323 GAGCCTTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.37, C:0.31, G:0.11, T:0.20
Consensus pattern (15 bp):
TCGAACAAACTTCAC
Found at i:3140241 original size:117 final size:117
Alignment explanation
Indices: 3139992--3140242 Score: 367
Period size: 117 Copynumber: 2.1 Consensus size: 117
3139982 CTTAGCTTTC
* ** * * * *
3139992 GCACCGAGCTTTACTTCGGTGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTT
1 GCACCGAGCTTTGCTTTAGTGGTACAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
3140057 CAACGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACACGCATTG
66 CAACGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACACGCATTG
* ** * *
3140109 TCACCGAGCCCTGCTTTATTGGTACAATCTCGCACCTTGTGTTCTCCATCACATCGGAAACACTT
1 GCACCGAGCTTTGCTTTAGTGGTACAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
* * *
3140174 CAATGGCTCTCGCTTCTTTATCCTCGGCTTAGTTGCTTCGCCACTCGCATTG
66 CAACGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACACGCATTG
3140226 GCACCGAGCTTTGCTTT
1 GCACCGAGCTTTGCTTT
3140243 GTTTGGGCAA
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.16, C:0.32, G:0.20, T:0.32
Consensus pattern (117 bp):
GCACCGAGCTTTGCTTTAGTGGTACAATCTCGCACCTTGTGTTCTCCACCACATCGGAAACACTT
CAACGGCTCTCGCTTCTTTACCCTCGGCTTAGTTGCTTCGCCACACGCATTG
Found at i:3140290 original size:117 final size:116
Alignment explanation
Indices: 3140011--3140320 Score: 347
Period size: 117 Copynumber: 2.6 Consensus size: 116
3140001 TTTACTTCGG
* * * * * *
3140011 TGGTGCAATCTCGCACCTTGTGTTGTCCACCGCATTGGAAACACTTCAACGGCTCTCGCTTCTTT
1 TGGTACAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT
*
3140076 ACCCTCGGCTTAGTTGCTTCGCCACACGCATTGTCACCGAGCCCTGCTTTAT
65 ACCCTCGGCTTAGTTGCTTCGCCACACGCATTGGCACCGAGCCCTGCTTTAT
*
3140128 TGGTACAATCTCGCACCTTGTGTTCTCCATCACATCGGAAACACTTCAATGGCTCTCGCTTCTTT
1 TGGTACAATCTCGCACCTTGTG-TCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTT
* * ** *
3140193 ATCCTCGGCTTAGTTGCTTCGCCACTCGCATTGGCACCGAGCTTTGCTTTGTT
65 ACCCTCGGCTTAGTTGCTTCGCCACACGCATTGGCACCGAGCCCTGCTTT-AT
* * * * * * * * *
3140246 TGG-GCAACTCTTGGC-CCTATGTG-CTCCTTGACATATGAAGCACTTCAGTGGATCTCGCTTGT
1 TGGTACAA-TC-TCGCACCT-TGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCT
3140308 TTACCCTCGGCTT
63 TTACCCTCGGCTT
3140321 TCCTGCACCA
Statistics
Matches: 166, Mismatches: 23, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
117 150 0.90
118 9 0.05
119 7 0.04
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (116 bp):
TGGTACAATCTCGCACCTTGTGTCTCCATCACATAGGAAACACTTCAATGGCTCTCGCTTCTTTA
CCCTCGGCTTAGTTGCTTCGCCACACGCATTGGCACCGAGCCCTGCTTTAT
Found at i:3143306 original size:5 final size:5
Alignment explanation
Indices: 3143296--3143418 Score: 246
Period size: 5 Copynumber: 24.6 Consensus size: 5
3143286 TTCCATTGCA
3143296 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3143346 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
3143396 ATAAT ATAAT ATAAT ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT ATA
3143419 TCGACCAATT
Statistics
Matches: 118, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 118 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:3144903 original size:30 final size:31
Alignment explanation
Indices: 3144847--3144907 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
3144837 CAATTTAAGG
*
3144847 CAAAATGGTTTTTGGACTTCAATTGAATTTA
1 CAAAATGGTTTGTGGACTTCAATTGAATTTA
3144878 CAAAATGGTTTGTGGACTT-AATTGAATTTA
1 CAAAATGGTTTGTGGACTTCAATTGAATTTA
3144908 TTCAAAGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.38
31 18 0.62
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (31 bp):
CAAAATGGTTTGTGGACTTCAATTGAATTTA
Found at i:3145013 original size:21 final size:21
Alignment explanation
Indices: 3144987--3145086 Score: 123
Period size: 21 Copynumber: 4.7 Consensus size: 21
3144977 AGGGTGTCAA
3144987 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
3145008 AGTGCATCCATGCACCCCTGC
1 AGTGCATCCATGCACCCCTGC
*
3145029 AGTGCATCCATGCACCTGCCAT-T
1 AGTGCATCCATGCACC--CC-TGC
* * *
3145052 AGTGCATCGATGCA-CCATGT
1 AGTGCATCCATGCACCCCTGC
3145072 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
3145087 TCCATTTCGA
Statistics
Matches: 70, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
19 1 0.01
20 15 0.21
21 37 0.53
22 1 0.01
23 15 0.21
24 1 0.01
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (21 bp):
AGTGCATCCATGCACCCCTGC
Found at i:3145289 original size:20 final size:22
Alignment explanation
Indices: 3145251--3145290 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
3145241 TTTGAGTAGA
3145251 AAAATCATCCCCAAACGGTTCC
1 AAAATCATCCCCAAACGGTTCC
3145273 AAAA-CATCCCC-AACGGTT
1 AAAATCATCCCCAAACGGTT
3145291 ATATACGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.39
21 7 0.39
22 4 0.22
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (22 bp):
AAAATCATCCCCAAACGGTTCC
Found at i:3145550 original size:34 final size:32
Alignment explanation
Indices: 3145506--3145574 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
3145496 TTTGCAAAGA
* * *
3145506 GGAAATGTTCTAGCTTATCCCGTGTAAAAGCTAG
1 GGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTAG
*
3145540 GGAAAGGTTCTAGTTTAGCCCGGAAAAACTAG
1 GGAAAGGTTCTAGCTTAGCCCGGAAAAACTAG
3145572 GGA
1 GGA
3145575 GTTGTAAGGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.35
33 1 0.03
34 19 0.61
ACGTcount: A:0.32, C:0.16, G:0.28, T:0.25
Consensus pattern (32 bp):
GGAAAGGTTCTAGCTTAGCCCGGAAAAACTAG
Found at i:3147786 original size:30 final size:31
Alignment explanation
Indices: 3147730--3147790 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
3147720 CAATTTAAGG
3147730 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
3147761 CAAAATGGTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
3147791 TTCAAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:3147921 original size:23 final size:20
Alignment explanation
Indices: 3147870--3147948 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
3147860 AGGGTGTCAA
* * *
3147870 AGTGCACCCATGCACCCCTGC
1 AGTGCATCCATGCA-CCATGT
3147891 AGTGCATCCATGCACC-TGCCACT
1 AGTGCATCCATGCACCATG----T
*
3147914 AGTGCATCGATGCACCATGT
1 AGTGCATCCATGCACCATGT
3147934 AGTGCATCCATGCAC
1 AGTGCATCCATGCAC
3147949 TCCATTTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
19 2 0.04
20 17 0.35
21 13 0.27
23 15 0.31
24 2 0.04
ACGTcount: A:0.23, C:0.37, G:0.20, T:0.20
Consensus pattern (20 bp):
AGTGCATCCATGCACCATGT
Found at i:3149340 original size:21 final size:21
Alignment explanation
Indices: 3149311--3149360 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
3149301 GTCATCTTTG
* *
3149311 ATTTATTGTTATGGATTTCAA
1 ATTTATTGTTATAGATGTCAA
*
3149332 ATTTGTTGTTATAGATGTCAA
1 ATTTATTGTTATAGATGTCAA
*
3149353 GTTTATTG
1 ATTTATTG
3149361 GATGACGCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.18, T:0.52
Consensus pattern (21 bp):
ATTTATTGTTATAGATGTCAA
Found at i:3151320 original size:19 final size:19
Alignment explanation
Indices: 3151293--3151352 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
3151283 AGCTGAAGTT
*
3151293 GAAGAGAGAAACAGAGAGA
1 GAAGCGAGAAACAGAGAGA
*
3151312 GAAGCGAGAAACAGAGAGT
1 GAAGCGAGAAACAGAGAGA
*
3151331 GAAGCGAGAGA-AGTAGAGA
1 GAAGCGAGAAACAG-AGAGA
3151350 GAA
1 GAA
3151353 AAGAATCATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
18 2 0.06
19 34 0.94
ACGTcount: A:0.52, C:0.07, G:0.38, T:0.03
Consensus pattern (19 bp):
GAAGCGAGAAACAGAGAGA
Found at i:3154852 original size:22 final size:22
Alignment explanation
Indices: 3154825--3155036 Score: 316
Period size: 22 Copynumber: 9.6 Consensus size: 22
3154815 CTATTTTAAA
3154825 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3154847 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* *
3154869 ATTTATTTTAACATATAGATTG
1 ATTTATTTTAAAATATGGATTG
*
3154891 ATTTATTTTAAAAAATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
3154913 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
** ***
3154935 ATTTATTTTAAAATATAAAAAA
1 ATTTATTTTAAAATATGGATTG
*
3154957 ATTTTATTTTAAAATATAGATTG
1 A-TTTATTTTAAAATATGGATTG
*
3154980 ATTTATTTTAAAATATGGATTT
1 ATTTATTTTAAAATATGGATTG
3155002 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
3155024 ATTTATTTTAAAA
1 ATTTATTTTAAAA
3155037 AATATATTAT
Statistics
Matches: 171, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
22 153 0.89
23 18 0.11
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:3154986 original size:89 final size:88
Alignment explanation
Indices: 3154825--3155036 Score: 334
Period size: 89 Copynumber: 2.4 Consensus size: 88
3154815 CTATTTTAAA
** *** *
3154825 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATGGATTGATTTATTTTAACATATAGATT
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATAAAAAAATTTATTTTAAAATATAGATT
3154890 GATTTATTTTAAAAAATGGATTG
66 GATTTATTTTAAAAAATGGATTG
*
3154913 ATTTATTTTAAAATATAGATTGATTTATTTTAAAATATAAAAAAATTTTATTTTAAAATATAGAT
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATAAAAAAA-TTTATTTTAAAATATAGAT
* *
3154978 TGATTTATTTTAAAATATGGATTT
65 TGATTTATTTTAAAAAATGGATTG
3155002 ATTTATTTTAAAATATGGATTGATTTATTTTAAAA
1 ATTTATTTTAAAATATGGATTGATTTATTTTAAAA
3155037 AATATATTAT
Statistics
Matches: 113, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
88 39 0.35
89 74 0.65
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (88 bp):
ATTTATTTTAAAATATGGATTGATTTATTTTAAAATATAAAAAAATTTATTTTAAAATATAGATT
GATTTATTTTAAAAAATGGATTG
Found at i:3155117 original size:31 final size:31
Alignment explanation
Indices: 3155060--3155118 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
3155050 AGTTGTATAG
* *
3155060 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTAAGTATTACAAAACTAAA
*
3155091 ATTATTTAAATTTAAGTATTGCAAAACT
1 ATTATTTAAATTTAAGTATTACAAAACT
3155119 TTTTTAAGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.46, C:0.07, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTAAGTATTACAAAACTAAA
Found at i:3157079 original size:31 final size:32
Alignment explanation
Indices: 3157039--3157103 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 32
3157029 GTAATACAGT
*
3157039 CCTATAACATTTAATCCGTTTGCAATATGATC
1 CCTATAACATTTAATCCATTTGCAATATGATC
* *
3157071 CCTA-AACATTTAGTCCATTTGCAATATGGTC
1 CCTATAACATTTAATCCATTTGCAATATGATC
3157102 CC
1 CC
3157104 CGACGTAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.29, C:0.25, G:0.11, T:0.35
Consensus pattern (32 bp):
CCTATAACATTTAATCCATTTGCAATATGATC
Found at i:3161871 original size:37 final size:39
Alignment explanation
Indices: 3161830--3161902 Score: 114
Period size: 37 Copynumber: 1.9 Consensus size: 39
3161820 GTTACAAATT
*
3161830 GGATCTATTTTAGTCCACACAAATTT-A-TAATTTTGGG
1 GGATCTATATTAGTCCACACAAATTTGATTAATTTTGGG
*
3161867 GGATCTATATTAGTCCATACAAATTTGATTAATTTT
1 GGATCTATATTAGTCCACACAAATTTGATTAATTTT
3161903 TATATTGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 24 0.75
38 1 0.03
39 7 0.22
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (39 bp):
GGATCTATATTAGTCCACACAAATTTGATTAATTTTGGG
Found at i:3164815 original size:41 final size:42
Alignment explanation
Indices: 3164764--3164859 Score: 108
Period size: 41 Copynumber: 2.3 Consensus size: 42
3164754 AATCATTTTG
* ** *
3164764 GGTATTGATACCAAG-CCTTCGGTATGGATACCAGT-TCATTT
1 GGTATAGATACCAAGCCCTTCAATATAGATACCAGTAT-ATTT
3164805 GGTATAGATACC-AGCCCTTCAATATAGATACCAGTATATTT
1 GGTATAGATACCAAGCCCTTCAATATAGATACCAGTATATTT
* *
3164846 GATATGGATACCAA
1 GGTATAGATACCAA
3164860 TCCACTGGTA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
40 2 0.04
41 42 0.91
42 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (42 bp):
GGTATAGATACCAAGCCCTTCAATATAGATACCAGTATATTT
Found at i:3168281 original size:776 final size:776
Alignment explanation
Indices: 3166790--3168343 Score: 2946
Period size: 776 Copynumber: 2.0 Consensus size: 776
3166780 TATGTGTACA
3166790 TTTGATTACATGAAATGCTATATTGTTTTGTGTGATAGCATGATATGATATGTTCATGCATGATT
1 TTTGATTACATGAAATGCTATATTGTTTTGTGTGATAGCATGATATGATATGTTCATGCATGATT
3166855 AAGTAGTTAGAGTTACTTTAATGTGTTTAATGCCTCACTAAGTCATAGACTTAGCATGTGAGTGT
66 AAGTAGTTAGAGTTACTTTAATGTGTTTAATGCCTCACTAAGTCATAGACTTAGCATGTGAGTGT
3166920 TTCACACGTAGGTTCTGGAAAGCAAAAAGAGAAGTTTAGAGGAGCAAGACAGCTCAGATTCTTCT
131 TTCACACGTAGGTTCTGGAAAGCAAAAAGAGAAGTTTAGAGGAGCAAGACAGCTCAGATTCTTCT
3166985 TTCCACAATTCAGATCAGATATAGATTTAAATTATGTATTTTGTCATATGAAATGTAGTTGGCAT
196 TTCCACAATTCAGATCAGATATAGATTTAAATTATGTATTTTGTCATATGAAATGTAGTTGGCAT
*
3167050 GTAAGATAAAAGATTTGTACTGGAAACGCTCTGATCAATTTGTAAAATCATATGTTTTTATATAA
261 GTAAGATAAAAGATTTGTACTGGAAACGCTCTGATCAATTTGTAAAATCATATGGTTTTATATAA
*
3167115 TAGAAATTATTTGGGTTTTAGTGGAAATGTCTAACTGAATTTCATTGAATTTTGTCAAAGTAAAC
326 TAGAAATTATTTGGGCTTTAGTGGAAATGTCTAACTGAATTTCATTGAATTTTGTCAAAGTAAAC
* * ** *
3167180 GTTTTGAACGGTTAATGTGACACCTCGGACTCGTATTAGAGTCGGGTATGGGTTTGGGGTGTTAC
391 GTTTTGAACGGTCAATGTGACACCTCGGACTCATATTAGAGTCGGGTACAGGTTGGGGGTGTTAC
*
3167245 AGATACCGCTACCCATAAACACATTGTTTTGCTTGGAAAACACCACCAAACTCATCCTAAACAAT
456 AGATACCGCTACCCATAAACACATAGTTTTGCTTGGAAAACACCACCAAACTCATCCTAAACAAT
*
3167310 TATTTTAAGGTCTAAGTTGATCATTAAAGCTTATAAAAGCCATTAATAAGGTTAATCATACATCA
521 TATTTTAAGGTCTAAGTTGATCATTAAAGATTATAAAAGCCATTAATAAGGTTAATCATACATCA
**
3167375 TTTTTAGACAATCTAACACAAAAAATGTCCATAATAACAAATCAAGAACCGAAGCCCCACACATG
586 TTTTTAGACAATCTAACACAAAAAACATCCATAATAACAAATCAAGAACCGAAGCCCCACACATG
*
3167440 CTCTTCCACCCGTCACAAGCAAGCAATCTCATGTAGATGACATACAAGTAGTAAGGAAGAGTTAT
651 CTATTCCACCCGTCACAAGCAAGCAATCTCATGTAGATGACATACAAGTAGTAAGGAAGAGTTAT
3167505 AGTGTGTTACCTCAACTCCTAGCAACCCGAAAATGTCTATAGCTTACCTAAGAACCGACCT
716 AGTGTGTTACCTCAACTCCTAGCAACCCGAAAATGTCTATAGCTTACCTAAGAACCGACCT
3167566 TTTGATTACATGAAATGCTATATTGTTTTGTGTGATAGCATGATATGATATGTTCATGCATGATT
1 TTTGATTACATGAAATGCTATATTGTTTTGTGTGATAGCATGATATGATATGTTCATGCATGATT
*
3167631 AAGTAGTTAGAGTTACTTTAATGTGTTTAATGCCTCACTAAGTCATAGACTTAGCATGTGAGTTT
66 AAGTAGTTAGAGTTACTTTAATGTGTTTAATGCCTCACTAAGTCATAGACTTAGCATGTGAGTGT
3167696 TTCACACGTAGGTTCTGGAAAGCAAAAAGAGAAGTTTAGAGGAGCAAGACAGCTCAGATTCTTCT
131 TTCACACGTAGGTTCTGGAAAGCAAAAAGAGAAGTTTAGAGGAGCAAGACAGCTCAGATTCTTCT
3167761 TTCCACAATTCAGATCAGATATAGATTTAAATTATGTATTTTGTCATATGAAATGTAGTTGGCAT
196 TTCCACAATTCAGATCAGATATAGATTTAAATTATGTATTTTGTCATATGAAATGTAGTTGGCAT
3167826 GTAAGATAAAAGATTTGTACTGGAAACGCTCTGATCAATTTGTAAAATCATATGGTTTTATATAA
261 GTAAGATAAAAGATTTGTACTGGAAACGCTCTGATCAATTTGTAAAATCATATGGTTTTATATAA
3167891 TAGAAATTATTTGGGCTTTAGTGGAAATGTCTAACTGAATTTCATTGAATTTTGTCAAAGTAAAC
326 TAGAAATTATTTGGGCTTTAGTGGAAATGTCTAACTGAATTTCATTGAATTTTGTCAAAGTAAAC
* *
3167956 GTTTTGAACGGTCAATGTGACACCTTGGACTCATATTAGAGTCTGGTACAGGTTGGGGGTGTTAC
391 GTTTTGAACGGTCAATGTGACACCTCGGACTCATATTAGAGTCGGGTACAGGTTGGGGGTGTTAC
*
3168021 AGATACCGCTACCCATAAACACATAGTTTTGCTTGGAAAACACCACCAAACTCATCCTAAACATT
456 AGATACCGCTACCCATAAACACATAGTTTTGCTTGGAAAACACCACCAAACTCATCCTAAACAAT
3168086 TATTTTAAGGTCTAAGTTGATCATTAAAGATTATAAAAGCCATTAATAAGGTTAATCATACATCA
521 TATTTTAAGGTCTAAGTTGATCATTAAAGATTATAAAAGCCATTAATAAGGTTAATCATACATCA
*
3168151 TTTTTAGACAATCTAACACCAAAAACATCCATAATAACAAATCAAGAACCGAAGCCCCACACATG
586 TTTTTAGACAATCTAACACAAAAAACATCCATAATAACAAATCAAGAACCGAAGCCCCACACATG
3168216 CTATTCCACCCGTCACAAGCAAGCAATCTCATGTAGATGACATACAAGTAGTAAGGAAGAGTTAT
651 CTATTCCACCCGTCACAAGCAAGCAATCTCATGTAGATGACATACAAGTAGTAAGGAAGAGTTAT
*
3168281 AGTGTGTTACCTCAACTCCTAGCAACCCGAAAATGTCTATAGCTTACCTAAGAACTGACCT
716 AGTGTGTTACCTCAACTCCTAGCAACCCGAAAATGTCTATAGCTTACCTAAGAACCGACCT
3168342 TT
1 TT
3168344 ACTTGACATA
Statistics
Matches: 760, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
776 760 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (776 bp):
TTTGATTACATGAAATGCTATATTGTTTTGTGTGATAGCATGATATGATATGTTCATGCATGATT
AAGTAGTTAGAGTTACTTTAATGTGTTTAATGCCTCACTAAGTCATAGACTTAGCATGTGAGTGT
TTCACACGTAGGTTCTGGAAAGCAAAAAGAGAAGTTTAGAGGAGCAAGACAGCTCAGATTCTTCT
TTCCACAATTCAGATCAGATATAGATTTAAATTATGTATTTTGTCATATGAAATGTAGTTGGCAT
GTAAGATAAAAGATTTGTACTGGAAACGCTCTGATCAATTTGTAAAATCATATGGTTTTATATAA
TAGAAATTATTTGGGCTTTAGTGGAAATGTCTAACTGAATTTCATTGAATTTTGTCAAAGTAAAC
GTTTTGAACGGTCAATGTGACACCTCGGACTCATATTAGAGTCGGGTACAGGTTGGGGGTGTTAC
AGATACCGCTACCCATAAACACATAGTTTTGCTTGGAAAACACCACCAAACTCATCCTAAACAAT
TATTTTAAGGTCTAAGTTGATCATTAAAGATTATAAAAGCCATTAATAAGGTTAATCATACATCA
TTTTTAGACAATCTAACACAAAAAACATCCATAATAACAAATCAAGAACCGAAGCCCCACACATG
CTATTCCACCCGTCACAAGCAAGCAATCTCATGTAGATGACATACAAGTAGTAAGGAAGAGTTAT
AGTGTGTTACCTCAACTCCTAGCAACCCGAAAATGTCTATAGCTTACCTAAGAACCGACCT
Found at i:3171087 original size:29 final size:31
Alignment explanation
Indices: 3171023--3171087 Score: 71
Period size: 29 Copynumber: 2.2 Consensus size: 31
3171013 TAATTTTTTC
* *
3171023 ATATATATTTATATAATATATTTGTTTGTAT
1 ATATATATTTAGATAATATATTTGTTTGTAA
* * *
3171054 GTATATATTTAGAT-GT-TATTTGTTTTTAA
1 ATATATATTTAGATAATATATTTGTTTGTAA
3171083 ATATA
1 ATATA
3171088 ATATGTTCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
29 15 0.54
30 1 0.04
31 12 0.43
ACGTcount: A:0.34, C:0.00, G:0.09, T:0.57
Consensus pattern (31 bp):
ATATATATTTAGATAATATATTTGTTTGTAA
Found at i:3173893 original size:31 final size:31
Alignment explanation
Indices: 3173811--3173893 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 31
3173801 GTTCGTATTG
* * *
3173811 GTCGCCATGTAGGCGAAGCGAAGCAAGGTAT
1 GTCGCCATGCAGGAGAGGCGAAGCAAGGTAT
* *
3173842 GTCGCCATGTAGGCGAGGCGAAGCAAGGTAT
1 GTCGCCATGCAGGAGAGGCGAAGCAAGGTAT
* *
3173873 GTCGCCATGCAGTAGGGGCGA
1 GTCGCCATGCAGGAGAGGCGA
3173894 TCTTATAATT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.25, C:0.20, G:0.39, T:0.16
Consensus pattern (31 bp):
GTCGCCATGCAGGAGAGGCGAAGCAAGGTAT
Found at i:3173893 original size:36 final size:31
Alignment explanation
Indices: 3173811--3173881 Score: 133
Period size: 31 Copynumber: 2.3 Consensus size: 31
3173801 GTTCGTATTG
3173811 GTCGCCATGTAGGCGAAGCGAAGCAAGGTAT
1 GTCGCCATGTAGGCGAAGCGAAGCAAGGTAT
*
3173842 GTCGCCATGTAGGCGAGGCGAAGCAAGGTAT
1 GTCGCCATGTAGGCGAAGCGAAGCAAGGTAT
3173873 GTCGCCATG
1 GTCGCCATG
3173882 CAGTAGGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.37, T:0.17
Consensus pattern (31 bp):
GTCGCCATGTAGGCGAAGCGAAGCAAGGTAT
Found at i:3174231 original size:11 final size:11
Alignment explanation
Indices: 3174199--3174260 Score: 81
Period size: 11 Copynumber: 5.5 Consensus size: 11
3174189 GTTGTAAGAA
3174199 GAAGAAAGAAAG
1 GAAG-AAGAAAG
*
3174211 G-TGAAGGAAAG
1 GAAGAA-GAAAG
*
3174222 GAAGCAGAAAG
1 GAAGAAGAAAG
3174233 GAAGAAGAAAG
1 GAAGAAGAAAG
3174244 GAAGAAGAAAG
1 GAAGAAGAAAG
3174255 GAAGAA
1 GAAGAA
3174261 AGGTAACGAG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
10 2 0.05
11 39 0.89
12 3 0.07
ACGTcount: A:0.60, C:0.02, G:0.37, T:0.02
Consensus pattern (11 bp):
GAAGAAGAAAG
Found at i:3177114 original size:11 final size:11
Alignment explanation
Indices: 3177098--3177194 Score: 65
Period size: 11 Copynumber: 8.4 Consensus size: 11
3177088 ATTATATTAA
*
3177098 ATTATTTAATC
1 ATTATTAAATC
*
3177109 ATTATTAAATA
1 ATTATTAAATC
3177120 ATTATTAGTAATC
1 ATTATTA--AATC
3177133 ATTATTAAATC
1 ATTATTAAATC
3177144 ATTAGTATCAAATC
1 ATTA-T-T-AAATC
3177158 A--A-TAAATC
1 ATTATTAAATC
* *
3177166 GTTACTAAATC
1 ATTATTAAATC
3177177 ATTACTATCAAATC
1 ATTA-T-T-AAATC
3177191 ATTA
1 ATTA
3177195 AATATTAATA
Statistics
Matches: 69, Mismatches: 6, Indels: 19
0.73 0.06 0.20
Matches are distributed among these distances:
8 5 0.07
9 1 0.01
10 1 0.01
11 33 0.48
12 2 0.03
13 12 0.17
14 15 0.22
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.41
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:3177131 original size:24 final size:22
Alignment explanation
Indices: 3177097--3177147 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 22
3177087 AATTATATTA
3177097 AATTATTTAATCATTATTAAAT
1 AATTATTTAATCATTATTAAAT
3177119 AATTATTAGTAATCATTATTAAAT
1 AATTATT--TAATCATTATTAAAT
*
3177143 CATTA
1 AATTA
3177148 GTATCAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
24 19 0.73
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (22 bp):
AATTATTTAATCATTATTAAAT
Found at i:3177178 original size:33 final size:33
Alignment explanation
Indices: 3177129--3177201 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
3177119 AATTATTAGT
* *
3177129 AATCATTATTAAATCATTAGTATCAAATCAATA
1 AATCATTACTAAATCATTACTATCAAATCAATA
* *
3177162 AATCGTTACTAAATCATTACTATCAAATCATTA
1 AATCATTACTAAATCATTACTATCAAATCAATA
3177195 AAT-ATTA
1 AATCATTA
3177202 ATAATAAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
32 3 0.09
33 32 0.91
ACGTcount: A:0.47, C:0.14, G:0.03, T:0.37
Consensus pattern (33 bp):
AATCATTACTAAATCATTACTATCAAATCAATA
Found at i:3180307 original size:28 final size:30
Alignment explanation
Indices: 3180267--3180329 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
3180257 ATTTTCAATA
3180267 TAATATAATATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
*
3180297 TAATAT-A-ATATAACTTAAACTAACCAAC
1 TAATATAATATATAACTTAAACTAACAAAC
3180325 TAATA
1 TAATA
3180330 ATTTAAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:3180346 original size:21 final size:20
Alignment explanation
Indices: 3180293--3180346 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
3180283 TTAAACTAAC
3180293 AAACTAATATAA-TATAACTT
1 AAACTAATA-AACTATAACTT
** *
3180313 AAACTAACCAACTAATAATTT
1 AAACTAATAAACT-ATAACTT
3180334 AAACTAATAAACT
1 AAACTAATAAACT
3180347 TTTACCCGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.07
20 8 0.30
21 17 0.63
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (20 bp):
AAACTAATAAACTATAACTT
Found at i:3180392 original size:15 final size:15
Alignment explanation
Indices: 3180360--3180408 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
3180350 ACCCGGTTTT
*
3180360 TTCTTCTCTC--TGC
1 TTCTTCTCTCTTTCC
3180373 TTCTTCT-TCCTTTCC
1 TTCTTCTCT-CTTTCC
*
3180388 TTCTTCTCTCTTTCT
1 TTCTTCTCTCTTTCC
3180403 TTCTTC
1 TTCTTC
3180409 ATATTCGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 1 0.03
13 8 0.27
15 20 0.67
16 1 0.03
ACGTcount: A:0.00, C:0.37, G:0.02, T:0.61
Consensus pattern (15 bp):
TTCTTCTCTCTTTCC
Found at i:3180728 original size:27 final size:29
Alignment explanation
Indices: 3180698--3180760 Score: 67
Period size: 32 Copynumber: 2.1 Consensus size: 29
3180688 TATCACGCGA
* *
3180698 TTAA-TATTGTTG-ATCCTGCAATTTACG
1 TTAAGTATTGCTGAATCCTACAATTTACG
3180725 TTAAAGTATTGCTGCAAATCCTACAATTTACG
1 TT-AAGTATTGCTG--AATCCTACAATTTACG
3180757 TTAA
1 TTAA
3180761 AATAATGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 2 0.07
28 2 0.07
29 7 0.24
31 2 0.07
32 16 0.55
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.40
Consensus pattern (29 bp):
TTAAGTATTGCTGAATCCTACAATTTACG
Found at i:3183398 original size:20 final size:23
Alignment explanation
Indices: 3183368--3183415 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3183358 ATTGGTATAG
3183368 TTTACCCTTT-ATTT-TAAATAA
1 TTTACCCTTTAATTTCTAAATAA
3183389 TTTA-CCTTTAAATTTCTAAATAA
1 TTTACCCTTT-AATTTCTAAATAA
3183412 TTTA
1 TTTA
3183416 TAATTATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.21
21 4 0.17
22 4 0.17
23 11 0.46
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTACCCTTTAATTTCTAAATAA
Found at i:3184662 original size:26 final size:28
Alignment explanation
Indices: 3184618--3184669 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
3184608 ATGTTTTTTA
* *
3184618 ATTTTCTAAAAATTGAAAATA-AAAATT
1 ATTTTCTAAAAAATAAAAATAGAAAATT
3184645 ATTTTC-AAAAAATAAAAATAGAAAA
1 ATTTTCTAAAAAATAAAAATAGAAAA
3184670 CAAAAACATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.31
Consensus pattern (28 bp):
ATTTTCTAAAAAATAAAAATAGAAAATT
Found at i:3187684 original size:25 final size:25
Alignment explanation
Indices: 3187656--3187714 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
3187646 TAAATTATAT
3187656 TAAAATTTTAAAAAATATAAAATTA
1 TAAAATTTTAAAAAATATAAAATTA
* * * *
3187681 TAAAATTTT-ATAGATGTAGAATTA
1 TAAAATTTTAAAAAATATAAAATTA
3187705 TAAAATTTTA
1 TAAAATTTTA
3187715 GAGACACAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
24 20 0.69
25 9 0.31
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (25 bp):
TAAAATTTTAAAAAATATAAAATTA
Found at i:3188051 original size:19 final size:20
Alignment explanation
Indices: 3188027--3188064 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3188017 CTAAAAAATT
3188027 AAAATTATC-ATATATTTTA
1 AAAATTATCGATATATTTTA
*
3188046 AAAATTTTCGATATATTTT
1 AAAATTATCGATATATTTT
3188065 CTATTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (20 bp):
AAAATTATCGATATATTTTA
Found at i:3192400 original size:14 final size:14
Alignment explanation
Indices: 3192383--3192416 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
3192373 GCTCGAATGG
3192383 CCTCGGTCAGATGC
1 CCTCGGTCAGATGC
*
3192397 CCTCGGTCGGATGC
1 CCTCGGTCAGATGC
*
3192411 CTTCGG
1 CCTCGG
3192417 ATGCCCAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.09, C:0.35, G:0.32, T:0.24
Consensus pattern (14 bp):
CCTCGGTCAGATGC
Found at i:3194641 original size:21 final size:21
Alignment explanation
Indices: 3194589--3194635 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
3194579 GTTTCCAGAT
*
3194589 TCGCAACGCGAACTTCTACTA
1 TCGCAACGCGAACTTCGACTA
3194610 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
3194631 TCGCA
1 TCGCA
3194636 TTGCGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:3194676 original size:21 final size:21
Alignment explanation
Indices: 3194650--3194765 Score: 87
Period size: 21 Copynumber: 5.6 Consensus size: 21
3194640 GATTTACATA
*
3194650 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** *
3194671 TTCGCGTTGTGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
3194692 TT--CGTTGCGATAGTCAAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * * *
3194711 TTCACGTTACGATTTATTACAAA
1 TTCGCGTTGCGA--TAGTCCAAG
3194734 TT--CGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
3194753 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
3194766 TTATTCCAAA
Statistics
Matches: 70, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
19 22 0.31
21 41 0.59
23 7 0.10
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.35
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:3194735 original size:42 final size:42
Alignment explanation
Indices: 3194654--3194777 Score: 180
Period size: 42 Copynumber: 3.0 Consensus size: 42
3194644 TACATATTCG
* *
3194654 CGTTGCGATAGTCGAAGTTCGCGTTGTGA-TT-TTCCAAATT
1 CGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATT
* * *
3194694 CGTTGCGATAGTCAAAGTTCACGTTACGATTTATTACAAATT
1 CGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATT
*
3194736 CGTTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATT
3194778 TATTTCTTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 25 0.34
41 2 0.03
42 46 0.63
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (42 bp):
CGTTGCGATAGTCAAAGTTCGCGTTGCGATTTATTCCAAATT
Found at i:3195634 original size:42 final size:42
Alignment explanation
Indices: 3195572--3195687 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 42
3195562 TGCGATTTTA
*
3195572 GACTATCGCAACGAATTTGGAATAAATCACAACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
3195614 GACTATCGCAACGAACTTGG----AAT-A-AACGCGAACTTC
1 GACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
* * ** *
3195650 AATTATCGCAATAAACTTGGAATAAATCGCAACGCGAA
1 GACTATCGCAACGAACTTGGAATAAATCACAACGCGAA
3195688 GTTGGGAATA
Statistics
Matches: 62, Mismatches: 6, Indels: 12
0.77 0.08 0.15
Matches are distributed among these distances:
36 28 0.45
37 1 0.02
38 3 0.05
40 3 0.05
42 27 0.44
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAACTTGGAATAAATCACAACGCGAACTTC
Found at i:3195698 original size:24 final size:24
Alignment explanation
Indices: 3195663--3195716 Score: 92
Period size: 24 Copynumber: 2.3 Consensus size: 24
3195653 TATCGCAATA
3195663 AACTT-GGAATAAATCGCAACGCG
1 AACTTGGGAATAAATCGCAACGCG
*
3195686 AAGTTGGGAATAAATCGCAACGCG
1 AACTTGGGAATAAATCGCAACGCG
3195710 AACTTGG
1 AACTTGG
3195717 ACTATCGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (24 bp):
AACTTGGGAATAAATCGCAACGCG
Found at i:3197115 original size:2 final size:2
Alignment explanation
Indices: 3197110--3197142 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
3197100 AATGTTATCA
3197110 AT AT AT 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 AT AT AT A
3197143 ACATTTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3198018 original size:13 final size:13
Alignment explanation
Indices: 3198000--3198024 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3197990 CACCTATCAA
3198000 CAAAAAAAATATT
1 CAAAAAAAATATT
3198013 CAAAAAAAATAT
1 CAAAAAAAATAT
3198025 AAATTTGATA
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:0.72, C:0.08, G:0.00, T:0.20
Consensus pattern (13 bp):
CAAAAAAAATATT
Found at i:3199208 original size:3 final size:3
Alignment explanation
Indices: 3199142--3199197 Score: 64
Period size: 3 Copynumber: 19.3 Consensus size: 3
3199132 TTTTACTTAA
* *
3199142 ATT ATT ATT ATT ATT ATA AAT ATT ATT ATT A-T ATT A-T ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
3199186 A-T ATT ATT ATT A
1 ATT ATT ATT ATT A
3199198 AATAATTATT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.13
3 36 0.80
4 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:3200614 original size:3 final size:3
Alignment explanation
Indices: 3200601--3200661 Score: 58
Period size: 3 Copynumber: 21.3 Consensus size: 3
3200591 TTATTTGCAA
*
3200601 TAT TAT T-T TAT TAT TAT T-T T-T TAT TAT TACT T-T CAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* *
3200643 TAC TAT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
3200662 TTCATCTTAG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 7 0.15
3 39 0.81
4 2 0.04
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:3200621 original size:12 final size:12
Alignment explanation
Indices: 3200601--3200663 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 12
3200591 TTATTTGCAA
3200601 TATTA-TTTTAT
1 TATTATTTTTAT
3200612 TATTATTTTTTAT
1 TATTA-TTTTTAT
3200625 TATTACTTTCATTAT
1 TATTA-TTT--TTAT
3200640 TATTACTATTTTTAT
1 TA-T--TATTTTTAT
3200655 TATTATTTT
1 TATTATTTT
3200664 CATCTTAGTC
Statistics
Matches: 44, Mismatches: 1, Indels: 13
0.76 0.02 0.22
Matches are distributed among these distances:
11 5 0.11
12 6 0.14
13 14 0.32
14 1 0.02
15 12 0.27
16 1 0.02
17 3 0.07
18 2 0.05
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (12 bp):
TATTATTTTTAT
Found at i:3200969 original size:139 final size:138
Alignment explanation
Indices: 3200708--3200972 Score: 363
Period size: 139 Copynumber: 1.9 Consensus size: 138
3200698 AAATAACAAT
* *
3200708 ATTTATTTATTTTTTTATATCGAAGAAAAGAGTTGTCTTAAGGCACCTAGAAGCCCTTTTCTGAT
1 ATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAGGCACCTAGAAGCCCTTTTATGAT
* *** *
3200773 ATTTTTAAATAAATAAATATCTTACTATAATAAAATAAATTTTTTTATTATTATCTTAAAAAAAT
66 ATTTCTAAATAAATAAATATCTTACTATAATAAAATAAA-TTAAATATGATTATCTTAAAAAAAT
3200838 GTTTTAGTC
130 GTTTTAGTC
* *
3200847 ATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAGGCACCTATAAGTCCTTTTATGAT
1 ATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAGGCACCTAGAAGCCCTTTTATGAT
* * * *
3200912 ATTTCTAAATAAATAAATATTTTATTTATAAATATATATAAA-TAAATA-GATTTTCTTAAAA
66 ATTTCTAAATAAATAAATATCTTA-CTAT-AATA-AAATAAATTAAATATGATTATCTTAAAA
3200973 TTATAAATTT
Statistics
Matches: 110, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
139 94 0.85
140 6 0.05
141 4 0.04
142 6 0.05
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.44
Consensus pattern (138 bp):
ATTTATTTATTTTTTAATATCGAAGAAAAGAGTTGTCTTAAGGCACCTAGAAGCCCTTTTATGAT
ATTTCTAAATAAATAAATATCTTACTATAATAAAATAAATTAAATATGATTATCTTAAAAAAATG
TTTTAGTC
Found at i:3200973 original size:29 final size:28
Alignment explanation
Indices: 3200920--3200977 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 28
3200910 ATATTTCTAA
*
3200920 ATAAATAAATATTTTATTTATAAATATAT
1 ATAAATAAATATTTTACTTATAAAT-TAT
3200949 ATAAATAAATAGATTTT-CTTA-AAATTAT
1 ATAAATAAAT--ATTTTACTTATAAATTAT
3200977 A
1 A
3200978 AATTTGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
28 4 0.15
29 14 0.54
30 3 0.12
31 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAAATAAATATTTTACTTATAAATTAT
Found at i:3201513 original size:21 final size:20
Alignment explanation
Indices: 3201489--3201547 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
3201479 ATTTTCATAA
3201489 TATTTATATGTATATTATTTT
1 TATTTATAT-TATATTATTTT
*
3201510 TATTAATATT-T-TTA-TTT
1 TATTTATATTATATTATTTT
*
3201527 TATTTAAATTTCATATTATTT
1 TATTTATA-TT-ATATTATTT
3201548 GTTTGTCGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
17 9 0.30
18 5 0.17
19 1 0.03
20 2 0.07
21 11 0.37
22 2 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
TATTTATATTATATTATTTT
Found at i:3209726 original size:35 final size:35
Alignment explanation
Indices: 3209675--3209741 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 35
3209665 TTTAACCAGA
3209675 AATAGAATATTGGGGCATT-TT-GAAGGCTCATAGC
1 AATAGAATATTGGGGCATTCTTAG-AGGCTCATAGC
*
3209709 AATATGAATATTTGGGCATTCTTAGAGGCTCAT
1 AATA-GAATATTGGGGCATTCTTAGAGGCTCAT
3209742 CTCAACAAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
34 4 0.14
35 14 0.48
36 10 0.34
37 1 0.03
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
AATAGAATATTGGGGCATTCTTAGAGGCTCATAGC
Found at i:3211289 original size:22 final size:22
Alignment explanation
Indices: 3211263--3211339 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
3211253 ATCTACACTC
3211263 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
3211285 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
3211307 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
3211329 TTCAAAGATGA
1 TTCAAAGATGA
3211340 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:3212731 original size:76 final size:76
Alignment explanation
Indices: 3212021--3212730 Score: 1258
Period size: 76 Copynumber: 9.3 Consensus size: 76
3212011 TTCTTACATA
* * * * *
3212021 TGTAAGTCATATAATGCATGATGTTTCCAAAAAACCTTCAGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212086 TTAGGGTCATC
66 TTAGGGTCATC
* *
3212097 TGTAAGTCCTACAGTGCATGATGTTTTCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212162 TTAGGGTCATC
66 TTAGGGTCATC
3212173 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212238 TTAGGGTCATC
66 TTAGGGTCATC
*
3212249 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212314 TTAGGGTCATC
66 TTAGGGTCATC
3212325 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212390 TTAGGGTCATC
66 TTAGGGTCATC
*
3212401 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCTTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212466 TTAGGGTCATC
66 TTAGGGTCATC
3212477 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212542 TTAGGGTCATC
66 TTAGGGTCATC
* * *
3212553 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATATTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
3212618 TTAGGGTCATC
66 TTAGGGTCATC
* * *
3212629 TGTAAGTCCTACAGTGCATGATGTTTTCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAAAACC
1 TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
*
3212694 TTCGGGTCATC
66 TTAGGGTCATC
* *
3212705 TGTAAGCCCTTCAGTGCATGATGTTT
1 TGTAAGTCCTACAGTGCATGATGTTT
3212731 TTAAGACCTC
Statistics
Matches: 611, Mismatches: 23, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 611 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (76 bp):
TGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCC
TTAGGGTCATC
Found at i:3214266 original size:3 final size:3
Alignment explanation
Indices: 3214253--3214320 Score: 70
Period size: 3 Copynumber: 23.3 Consensus size: 3
3214243 TTATTTGCAA
* * *
3214253 TAT TAT T-T TAT TAT TAT TTT TAT T-T TTT TAT TAT TACT T-T CAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
*
3214296 TAT TAT TAT TAT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
3214321 TTCATCTTAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
2 5 0.09
3 47 0.87
4 2 0.04
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:3214346 original size:2 final size:2
Alignment explanation
Indices: 3214333--3214362 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
3214323 CATCTTAGTC
*
3214333 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3214363 TTGTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3214466 original size:138 final size:135
Alignment explanation
Indices: 3214324--3214621 Score: 302
Period size: 138 Copynumber: 2.2 Consensus size: 135
3214314 TATTATTTTC
* *
3214324 ATCTTAGTCATATAAATATATATATATATATATATATATT-TGTTTAAATAA-CAAT-ATTTATT
1 ATCTTA-T-ATATAAATATATATAT-T-TATATAT-TATTAT-CTTAAAAAATCAATCATTTATT
* * * * *
3214386 TATTTTTTTATATCTAAGAAAAGTGTTGTCTGAAGGCACCTAGAAGCCATTTTCTGATATTTTTA
60 TATTTTTTAATATCGAAGAAAAGAGCTGTCTGAAGGCACCTAGAAGCCATTTTCTGATATTTCTA
3214451 AATAAATAAAT
125 AATAAATAAAT
* * * *
3214462 ATCTTACTATATTAAA-ATA-AT-TTTTTTTATTATTATCTTAAAAAATGTTTTAGTCATTTATT
1 ATCTTA-TATA-TAAATATATATATTTATATATTATTATCTTAAAAAA----TCAATCATTTATT
* * *
3214524 TATTTTTTAATGTCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTTCTGATATTTCTA
60 TATTTTTTAATATCGAAGAAAAGAGCTGTCTGAAGGCACCTAGAAGCCATTTTCTGATATTTCTA
3214589 AATAAATAAAT
125 AATAAATAAAT
* *
3214600 ATTTTATTTATAAATATATATA
1 ATCTTATATATAAATATATATA
3214622 AATAAATAAA
Statistics
Matches: 132, Mismatches: 17, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
132 11 0.08
133 6 0.05
134 1 0.01
135 1 0.01
136 6 0.05
137 14 0.11
138 93 0.70
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.45
Consensus pattern (135 bp):
ATCTTATATATAAATATATATATTTATATATTATTATCTTAAAAAATCAATCATTTATTTATTTT
TTAATATCGAAGAAAAGAGCTGTCTGAAGGCACCTAGAAGCCATTTTCTGATATTTCTAAATAAA
TAAAT
Found at i:3214639 original size:138 final size:137
Alignment explanation
Indices: 3214379--3214642 Score: 327
Period size: 138 Copynumber: 1.9 Consensus size: 137
3214369 AAATAACAAT
* * * *
3214379 ATTTATTTATTTTTTTATATCTAAGAAAAGTGTTGTCTGAAGGCACCTAGAAGCCATTTTCTGAT
1 ATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTGAAGGCACCTAGAAGCCATTTTCTGAT
* *** ** *
3214444 ATTTTTAAATAAATAAATATCTTACTATATTAAAATAATTTTTTTTATTATTATCTTAAAAAATG
66 ATTTCTAAATAAATAAATATCTTA-TATATTAAAATAATTAAATAAATAATTATCTTAAAAAATG
3214509 TTTTAGTC
130 TTTTAGTC
* * *
3214517 ATTTATTTATTTTTTAATGTCGAAGAAAAGAGCTGTCTTAAGGCACCTAGAAGTCATTTTCTGAT
1 ATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTGAAGGCACCTAGAAGCCATTTTCTGAT
*
3214582 ATTTCTAAATAAATAAATAT-TT-TAT-TTATAAATATATATAAATAAATAAATTTTCTTAAAA
66 ATTTCTAAATAAATAAATATCTTATATATTA-AAATA-AT-TAAATAAAT-AATTATCTTAAAA
3214643 TTATAAATTT
Statistics
Matches: 107, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
134 3 0.03
135 8 0.07
136 2 0.02
137 6 0.06
138 88 0.82
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (137 bp):
ATTTATTTATTTTTTAATATCGAAGAAAAGAGCTGTCTGAAGGCACCTAGAAGCCATTTTCTGAT
ATTTCTAAATAAATAAATATCTTATATATTAAAATAATTAAATAAATAATTATCTTAAAAAATGT
TTTAGTC
Found at i:3215360 original size:17 final size:17
Alignment explanation
Indices: 3215338--3215371 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3215328 AATCAGAGTA
*
3215338 TCAATAAATGTTTTACT
1 TCAATAAACGTTTTACT
3215355 TCAATAAACGTTTTACT
1 TCAATAAACGTTTTACT
3215372 GCTTTCTCTT
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:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (17 bp):
TCAATAAACGTTTTACT
Found at i:3216600 original size:36 final size:36
Alignment explanation
Indices: 3216555--3216698 Score: 137
Period size: 36 Copynumber: 3.8 Consensus size: 36
3216545 AGAAGTACGA
3216555 AAGGAAGCATAAGCACTTTCGATTCAAAGTGAACGG
1 AAGGAAGCATAAGCACTTTCGATTCAAAGTGAACGG
* * * *
3216591 AAGGAAGCATAGGCACTTTCGGTTC-AAGAAGAACGA
1 AAGGAAGCATAAGCACTTTCGATTCAAAG-TGAACGG
3216627 AAGGAAGCATCGAAAGCATCGACACTTTCGATTCAAAGTGAACGG
1 AAGGAAGCAT----A--A--G-CACTTTCGATTCAAAGTGAACGG
* *
3216672 AAGGAAGCATCAGCACTTTCGACTCAA
1 AAGGAAGCATAAGCACTTTCGATTCAA
3216699 TTGTTCATCT
Statistics
Matches: 87, Mismatches: 10, Indels: 22
0.73 0.08 0.18
Matches are distributed among these distances:
35 3 0.03
36 51 0.59
37 1 0.01
39 1 0.01
40 1 0.01
44 1 0.01
45 26 0.30
46 3 0.03
ACGTcount: A:0.38, C:0.19, G:0.24, T:0.18
Consensus pattern (36 bp):
AAGGAAGCATAAGCACTTTCGATTCAAAGTGAACGG
Found at i:3216662 original size:45 final size:45
Alignment explanation
Indices: 3216595--3216682 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 45
3216585 GAACGGAAGG
* *
3216595 AAGCATAGGCACTTTCGGTTC-AAGAAGAACGAAAGGAAGCATCGA
1 AAGCATAGACACTTTCGATTCAAAG-AGAACGAAAGGAAGCATCGA
* * *
3216640 AAGCATCGACACTTTCGATTCAAAGTGAACGGAAGGAAGCATC
1 AAGCATAGACACTTTCGATTCAAAGAGAACGAAAGGAAGCATC
3216683 AGCACTTTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
45 34 0.92
46 3 0.08
ACGTcount: A:0.39, C:0.19, G:0.25, T:0.17
Consensus pattern (45 bp):
AAGCATAGACACTTTCGATTCAAAGAGAACGAAAGGAAGCATCGA
Found at i:3216898 original size:17 final size:17
Alignment explanation
Indices: 3216876--3216909 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3216866 AATCAGAGTA
*
3216876 TCAATAAATGTTTTACT
1 TCAATAAACGTTTTACT
3216893 TCAATAAACGTTTTACT
1 TCAATAAACGTTTTACT
3216910 GCTTTCTCTT
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:0.35, C:0.15, G:0.06, T:0.44
Consensus pattern (17 bp):
TCAATAAACGTTTTACT
Found at i:3218949 original size:31 final size:31
Alignment explanation
Indices: 3218914--3219151 Score: 88
Period size: 29 Copynumber: 7.8 Consensus size: 31
3218904 AAGATATTTT
* **
3218914 AATATATTTTTAAAGATTT-AGATAATGATAA
1 AATATATTTTTAAA-ATTTAAAATAAAAATAA
*
3218945 AATATA-TTTT-CAATTTAAAATAAAAATAA
1 AATATATTTTTAAAATTTAAAATAAAAATAA
* *
3218974 AATATATTTTTAAATGAATATAACAATAAAATATTTA
1 AATATATTTTT-AA--AATTTAA-AATAAAA-A-TAA
* * **
3219011 AATGTA-TTTT--AAGTTAAAATACTTAAT-A
1 AATATATTTTTAAAATTTAAAATA-AAAATAA
* * ** *
3219039 AATATATTTTT--AAGTGATGATAAAGATAA
1 AATATATTTTTAAAATTTAAAATAAAAATAA
* *
3219068 AATATATATTTTTACA-TTAAAATAAAAAT-A
1 AATATAT-TTTTAAAATTTAAAATAAAAATAA
* *
3219098 AATATA--TTTAATAAGTTAAAACAAAAATAA
1 AATATATTTTTAA-AATTTAAAATAAAAATAA
* * * *
3219128 AAGATAATTTGAAACTTTAAAATA
1 AATATATTTTTAAAATTTAAAATA
3219152 TATAAAATAT
Statistics
Matches: 155, Mismatches: 32, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
27 4 0.03
28 13 0.08
29 49 0.32
30 30 0.19
31 29 0.19
32 5 0.03
34 6 0.04
35 7 0.05
36 5 0.03
37 7 0.05
ACGTcount: A:0.54, C:0.03, G:0.05, T:0.38
Consensus pattern (31 bp):
AATATATTTTTAAAATTTAAAATAAAAATAA
Found at i:3218973 original size:29 final size:29
Alignment explanation
Indices: 3218941--3219007 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
3218931 TTAGATAATG
* *
3218941 ATAAAATATATTTTCAATTTAAAATAAAA
1 ATAAAATATATTTTCAAATGAAAATAAAA
* * *
3218970 ATAAAATATATTTTTAAATGAATATAACA
1 ATAAAATATATTTTCAAATGAAAATAAAA
3218999 ATAAAATAT
1 ATAAAATAT
3219008 TTAAATGTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (29 bp):
ATAAAATATATTTTCAAATGAAAATAAAA
Found at i:3219396 original size:20 final size:20
Alignment explanation
Indices: 3219371--3219420 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
3219361 TTATTGGTGG
3219371 AAAATAAATTTATTAAATTT
1 AAAATAAATTTATTAAATTT
*
3219391 AAAATAAATCTATTAAATTT
1 AAAATAAATTTATTAAATTT
3219411 AAAATAAATT
1 AAAATAAATT
3219421 AAAATAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
AAAATAAATTTATTAAATTT
Found at i:3223150 original size:54 final size:54
Alignment explanation
Indices: 3223068--3223170 Score: 161
Period size: 54 Copynumber: 1.9 Consensus size: 54
3223058 TGAACAGAAG
* * * *
3223068 TTTCAAAGATGAAATGGTGAGGAACAGGCTTTGAAAGTGACATCTGAAGAAAAA
1 TTTCAAAGACGAAATAGTGAGGAACAGGCTGTGAAAATGACATCTGAAGAAAAA
*
3223122 TTTCAGAGACGAAATAGTGAGGAACAGGCTGTGAAAATGACATCTGAAG
1 TTTCAAAGACGAAATAGTGAGGAACAGGCTGTGAAAATGACATCTGAAG
3223171 GAGGAAGAGG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (54 bp):
TTTCAAAGACGAAATAGTGAGGAACAGGCTGTGAAAATGACATCTGAAGAAAAA
Found at i:3228148 original size:19 final size:19
Alignment explanation
Indices: 3228110--3228160 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
3228100 CTCTTTGAAA
* *
3228110 ATTTTAA-AATTACTTTAC
1 ATTTTAACAATTTCTTCAC
3228128 ATTTTAACAATTTCTTCAC
1 ATTTTAACAATTTCTTCAC
3228147 ATTTTAACAATTTC
1 ATTTTAACAATTTC
3228161 ATTCCTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 7 0.23
19 23 0.77
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (19 bp):
ATTTTAACAATTTCTTCAC
Done.