Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_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: 3470424
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 12 of 13
Found at i:2857904 original size:22 final size:22
Alignment explanation
Indices: 2857876--2857917 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2857866 TATTTTTAAA
2857876 TTTTTTAA-TAATAAAAATATAT
1 TTTTTTAATTAA-AAAAATATAT
2857898 TTTTTTAATTAAAAAAATAT
1 TTTTTTAATTAAAAAAATAT
2857918 TTTAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTTTAATTAAAAAAATATAT
Found at i:2857910 original size:20 final size:21
Alignment explanation
Indices: 2857876--2857920 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
2857866 TATTTTTAAA
*
2857876 TTTTTTAATAATAAAAATATAT
1 TTTTTTAAT-ATAAAAAAATAT
2857898 TTTTTTAAT-TAAAAAAATAT
1 TTTTTTAATATAAAAAAATAT
2857918 TTT
1 TTT
2857921 AAAAAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.59
22 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTTTAATATAAAAAAATAT
Found at i:2858368 original size:2 final size:2
Alignment explanation
Indices: 2858361--2858397 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2858351 CATCATTCAT
2858361 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2858398 TTACAAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:2859559 original size:16 final size:17
Alignment explanation
Indices: 2859533--2859568 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
2859523 TTAACAACTA
2859533 TTTTCGGTTTGAGTTAC
1 TTTTCGGTTTGAGTTAC
*
2859550 TTTT-GGTTTGGGTTAC
1 TTTTCGGTTTGAGTTAC
2859566 TTT
1 TTT
2859569 CAGTTCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.08, C:0.08, G:0.25, T:0.58
Consensus pattern (17 bp):
TTTTCGGTTTGAGTTAC
Found at i:2861704 original size:2 final size:2
Alignment explanation
Indices: 2861693--2861727 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2861683 GATTTAGAAT
2861693 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2861728 ATTTTATTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2863070 original size:3 final size:3
Alignment explanation
Indices: 2863064--2863107 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
2863054 GTCAAAAAAA
* * *
2863064 TAT TAT TAAA TAT TAT TGT TAT TAC TAT TAT TAT TAT TAT TAT T
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
2863108 TAAAACCACT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
3 32 0.94
4 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:2863996 original size:29 final size:29
Alignment explanation
Indices: 2863964--2864035 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 29
2863954 TGAATCTTTG
*
2863964 TGTTTTTCTGATTTT-GACACTTTAGTTTA
1 TGTTTTTCT-ATTTTAGACACTTAAGTTTA
* *
2863993 TGTTATTT-TATTTTAGTCACTTAAGTTTC
1 TGTT-TTTCTATTTTAGACACTTAAGTTTA
2864022 TGCTTTTTCTATTT
1 TG-TTTTTCTATTT
2864036 ATGTCCTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
28 5 0.14
29 21 0.58
30 10 0.28
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.61
Consensus pattern (29 bp):
TGTTTTTCTATTTTAGACACTTAAGTTTA
Found at i:2867659 original size:20 final size:20
Alignment explanation
Indices: 2867631--2867671 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2867621 ATCAGATTGT
2867631 CCAGCGGGTACAGATTCCCC
1 CCAGCGGGTACAGATTCCCC
*
2867651 CCAGGGGGTACAGATTCCCC
1 CCAGCGGGTACAGATTCCCC
2867671 C
1 C
2867672 TGTCTAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.15
Consensus pattern (20 bp):
CCAGCGGGTACAGATTCCCC
Found at i:2869970 original size:19 final size:20
Alignment explanation
Indices: 2869931--2869971 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
2869921 ATCAGATTGT
2869931 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
2869951 CCAGGGGGTACCGATTCCCC
1 CCAGGGGGTACCGATTCCCC
2869971 C
1 C
2869972 TATCTAACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (20 bp):
CCAGGGGGTACCGATTCCCC
Found at i:2870942 original size:24 final size:24
Alignment explanation
Indices: 2870910--2870957 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2870900 AACAAAAGAA
2870910 AGCTCAACTTAATGCCAAGGCCAT
1 AGCTCAACTTAATGCCAAGGCCAT
2870934 AGCTCAACTTAATGCCAAGGCCAT
1 AGCTCAACTTAATGCCAAGGCCAT
2870958 GCACATGCTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (24 bp):
AGCTCAACTTAATGCCAAGGCCAT
Found at i:2872264 original size:19 final size:19
Alignment explanation
Indices: 2872240--2872276 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2872230 TCAGATTGTC
2872240 CAGGGGGTACAGATCCCCG
1 CAGGGGGTACAGATCCCCG
*
2872259 CAGGGGGTATAGATCCCC
1 CAGGGGGTACAGATCCCC
2872277 CCCAAGTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.30, G:0.35, T:0.14
Consensus pattern (19 bp):
CAGGGGGTACAGATCCCCG
Found at i:2874070 original size:32 final size:31
Alignment explanation
Indices: 2874029--2874102 Score: 94
Period size: 32 Copynumber: 2.3 Consensus size: 31
2874019 AAGCAATAGA
* * *
2874029 GGGCATCTTTGAAGATTCAACATCAAATGTTG
1 GGGCATCTTTG-AGATTAAACATCAAATATCG
*
2874061 GGGCATCTTTTGAGATTAAACATCTAATATCG
1 GGGCATC-TTTGAGATTAAACATCAAATATCG
2874093 GGGCATCTTT
1 GGGCATCTTT
2874103 AGGAATTCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 3 0.08
32 30 0.81
33 4 0.11
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (31 bp):
GGGCATCTTTGAGATTAAACATCAAATATCG
Found at i:2875152 original size:255 final size:254
Alignment explanation
Indices: 2874702--2875227 Score: 847
Period size: 255 Copynumber: 2.1 Consensus size: 254
2874692 AAGTCAAGGC
* * *
2874702 TCAACTTCACGACGAAGGGAATCGTAAACACAAGCAGCATCCATCTATAGATTGGATTTCAACTT
1 TCAACTTCACGACGAAGGGAATAGTAAACACAAGAAACATCCATCTATAGATTGGATTTCAACTT
* *
2874767 CACGATGAAGGATATCCAACTCAAAGAACGAGTGTTTGTCAATAAACTTTCCAATTTCAAAGTCA
66 CACGAAGAAGGATATCCAACTCAAAGAACGAGTGCTTGTCAATAAACTTTCCAATTTCAAAGTCA
2874832 ATTTCAACTTCACGACGAAGGATATTGGCCTCGAAACAACGAAACTTACATTGGATTTCAACTTC
131 ATTTCAACTTCACGACGAAGGATATTGGCCTCGAAACAACGAAACTTACATTGGATTTCAACTTC
* * * *
2874897 ACGACGAAAGATATCCAATTTCAAGGTTCAACTTCACGACGAAGGGGCCATCCACGGTT
196 ACGACGAAAGATATCCAATTTCAAGGCTCAAATTCACAACGAAGGGGCCATCCACGATT
* * *
2874956 TCAACTTCACGATGAAGGGAATAGTACACACAAGAAACATCCATCTCTAGATTGGATTTCAACTT
1 TCAACTTCACGACGAAGGGAATAGTAAACACAAGAAACATCCATCTATAGATTGGATTTCAACTT
* * * *
2875021 CATGAAGAAAGGATATCCAACTCAAAGAAGGAGTGGCTT-TCAATAAACTTTCCAGTTTCAGAGT
66 CACGAAG-AAGGATATCCAACTCAAAGAACGAGT-GCTTGTCAATAAACTTTCCAATTTCAAAGT
** *
2875085 CAATTTCAACTTCACGGTGAAGGATATTGGCCTCGAAACAACGAAACTTACATTGGATTTTAACT
129 CAATTTCAACTTCACGACGAAGGATATTGGCCTCGAAACAACGAAACTTACATTGGATTTCAACT
*
2875150 TCACGACGAAGGATATCCAATTTCAAGGCTCAAATTCACAACGAAGGGGCCATCCACGATT
194 TCACGACGAAAGATATCCAATTTCAAGGCTCAAATTCACAACGAAGGGGCCATCCACGATT
2875211 TCAACTTCACGACGAAG
1 TCAACTTCACGACGAAG
2875228 AATATCGTGC
Statistics
Matches: 249, Mismatches: 21, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
254 64 0.26
255 182 0.73
256 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (254 bp):
TCAACTTCACGACGAAGGGAATAGTAAACACAAGAAACATCCATCTATAGATTGGATTTCAACTT
CACGAAGAAGGATATCCAACTCAAAGAACGAGTGCTTGTCAATAAACTTTCCAATTTCAAAGTCA
ATTTCAACTTCACGACGAAGGATATTGGCCTCGAAACAACGAAACTTACATTGGATTTCAACTTC
ACGACGAAAGATATCCAATTTCAAGGCTCAAATTCACAACGAAGGGGCCATCCACGATT
Found at i:2875315 original size:121 final size:120
Alignment explanation
Indices: 2875136--2875458 Score: 391
Period size: 121 Copynumber: 2.6 Consensus size: 120
2875126 CGAAACTTAC
* * *
2875136 ATTGGATTTTAACTTCACGACGAAGGATATCCAATTTCAAGGCTCAAATTCACAACGAAGGGGCC
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAA-TTCAAGGCTCAACTTCACGACGAAGGGGCC
* *
2875201 ATCCACGATTTCAACTTCACGACGAAGAATATCGTG-CTCACCAGCAGCA-ATGC-AA
65 ATCCACGATTTCAACTTCACAACGAAGAATATCGTGTC-CACCAGCAACATAT-CTAA
*
2875256 ACCTTGGATTTCAACTTCACGACGAAGGATGTCCAATTCAAGGCTCAACTTCACGACGAAGGGGC
1 A--TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGC
* * * *
2875321 CATCCATGATTTCAACTTCACAACGAAGGATATCTTGTCCATCAGCAACATTCATCTTTAA
64 CATCCACGATTTCAACTTCACAACGAAGAATATCGTGTCCACCAGCAACA-T-ATC--TAA
* * * * ** *
2875382 ATTGAATTTCAACTTCACGATGAAGGATATCCAATTCGAGTCTTGACTTCACGAGGAAGGGGCCA
1 ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCA
2875447 TCCACGATTTCA
66 TCCACGATTTCA
2875459 TATATTTTGT
Statistics
Matches: 175, Mismatches: 19, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
120 1 0.01
121 69 0.39
122 32 0.18
123 1 0.01
124 69 0.39
126 3 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (120 bp):
ATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACGACGAAGGGGCCA
TCCACGATTTCAACTTCACAACGAAGAATATCGTGTCCACCAGCAACATATCTAA
Found at i:2875559 original size:36 final size:36
Alignment explanation
Indices: 2875512--2875633 Score: 208
Period size: 36 Copynumber: 3.4 Consensus size: 36
2875502 TTTGATAACA
*
2875512 TTTCCCTTGAAACGAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
2875548 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
* *
2875584 TTTCCCTTAAAACAAATTTTGTCTCCCTTGAGATAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
*
2875620 TTTCTCTTGAAACA
1 TTTCCCTTGAAACA
2875634 TAAACTTTGA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 81 1.00
ACGTcount: A:0.25, C:0.20, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAG
Found at i:2875704 original size:36 final size:37
Alignment explanation
Indices: 2875648--2875770 Score: 133
Period size: 37 Copynumber: 3.4 Consensus size: 37
2875638 CTTTGAAAAC
* *
2875648 GTTTCCCTTGAAATGAA-TTTTGTCTTTCTTGAGATA
1 GTTTCCCTTGAAATGAATTTTTGTCTTCCTTGAGACA
* *
2875684 GTTTCCCTTGGAATGTATTTTTGTCTTCCTTGAGACA
1 GTTTCCCTTGAAATGAATTTTTGTCTTCCTTGAGACA
* ** * *
2875721 GTTTCCCTTTAAACAAAATTTTATC-TCTCTTGAGACA
1 GTTTCCCTTGAAATGAATTTTTGTCTTC-CTTGAGACA
*
2875758 GTTTCTCTTGAAA
1 GTTTCCCTTGAAA
2875771 CATAAACTTT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
36 17 0.24
37 55 0.76
ACGTcount: A:0.23, C:0.18, G:0.15, T:0.45
Consensus pattern (37 bp):
GTTTCCCTTGAAATGAATTTTTGTCTTCCTTGAGACA
Found at i:2875785 original size:139 final size:137
Alignment explanation
Indices: 2875462--2875837 Score: 547
Period size: 137 Copynumber: 2.7 Consensus size: 137
2875452 GATTTCATAT
* *
2875462 ATTTTGTCTCCCTTAAGACAGTTTCTCTTGAAACATAAACTTTGATAACATTTCCCTTGAAACGA
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACATTTCCCTTGAAACGA
*
2875527 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTT
66 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
2875592 AAAACAA
131 AAAACAA
* * *
2875599 ATTTTGTCTCCCTTGAGATAGTTTCTCTTGAAACATAAACTTTGAAAACGTTTCCCTTGAAATGA
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACATTTCCCTTGAAACGA
* *** *
2875664 ATTTTGTCTTTCTTGAGATAGTTTCCCTTGGAATGTATTTTTGTCT-TCCTTGAGACAGTTTCCC
66 ATTTTGTCTCTCTTGAGATAGTTTCCCTT-GAAACAAATTTTGTCTCT-CTTGAGACAGTTTCCC
*
2875728 TTTAAACAAA
129 TTAAAAC-AA
* * *
2875738 ATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACATTTCCCTTGAAACAA
1 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACATTTCCCTTGAAACGA
* * * *
2875803 ATTTTGTCTCCCTTGAGACATTTTCTCTTGAAACA
66 ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACA
2875838 TATCTTTGAG
Statistics
Matches: 210, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
137 89 0.42
138 36 0.17
139 85 0.40
ACGTcount: A:0.28, C:0.20, G:0.12, T:0.40
Consensus pattern (137 bp):
ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACATTTCCCTTGAAACGA
ATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTT
AAAACAA
Found at i:2875893 original size:64 final size:65
Alignment explanation
Indices: 2875722--2875895 Score: 215
Period size: 64 Copynumber: 2.7 Consensus size: 65
2875712 CTTGAGACAG
*
2875722 TTTCCCTTTAAACAAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
1 TTTCCCTTGAAAC-AAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAAC
2875787 A
65 A
* * * * * * *
2875788 TTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACATTTTCTCTTGAAACAT-ATCTTTGAGATCG
1 TTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACA
** * * *
2875852 TTTCCCTTGAAACGGATTTTATCTCTTTTGATACAGCTTCTCTT
1 TTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTT
2875896 AAAGCATCAT
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
64 45 0.49
65 35 0.38
66 12 0.13
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.41
Consensus pattern (65 bp):
TTTCCCTTGAAACAAATTTTATCTCTCTTGAGACAGTTTCTCTTGAAACATAAACTTTGAAAACA
Found at i:2876181 original size:129 final size:128
Alignment explanation
Indices: 2875960--2876402 Score: 564
Period size: 129 Copynumber: 3.4 Consensus size: 128
2875950 CGGCCTGTCA
* * * *
2875960 TCCTCATCACGTAGGAACCGTGTCATCACCCAACATGATCTCCTCATCATGTAGGAGCCATGTCA
1 TCCTCATCACATAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCA
* * * *
2876025 ACCCAAGATAACCAGTCGTCCTCATCACGTAAGAACAGTGTTATCACCCTTAGATGGCCTACCG
66 ACCCCAGATAACCAGCCGTCCTCATCACGTAAGAAC-GTGTTATCACCCTTAGATGGCATGCCG
* * * * * *
2876089 TCCTCATCACATAGGAACCGTGTCATCGCTCGACTTGATCTCCTCATCACATAGGAGCCGTGTGA
1 TCCTCATCACATAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCA
* *
2876154 ACCCCAGATAACCAGCCATCCTTATCACGTAAGAATCGTGTTATCACCCTTAGATGGCATGCCG
66 ACCCCAGATAACCAGCCGTCCTCATCACGTAAGAA-CGTGTTATCACCCTTAGATGGCATGCCG
* * * *
2876218 TCCTCATCACATAGGAACTGTGTCATCA-CCGACCTGATCTTCTCATAACGTAGGCGCCATGTCA
1 TCCTCATCACATAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCA
* * * * *
2876282 ACCTCAGATAACCAACTGTCCTCATCACGTAAGAACCGTGTTATCACCCTTAGATGACATGTCG
66 ACCCCAGATAACCAGCCGTCCTCATCACGTAAGAA-CGTGTTATCACCCTTAGATGGCATGCCG
* * ** * * *
2876346 TTCTCATTATGTAGGAACCGTGTCATCACCCGACCTAATCTACTCATCACGTTGGAG
1 TCCTCATCACATAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAG
2876403 TCGTGTTAAC
Statistics
Matches: 269, Mismatches: 43, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
128 107 0.40
129 161 0.60
130 1 0.00
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (128 bp):
TCCTCATCACATAGGAACCGTGTCATCACCCGACCTGATCTCCTCATCACGTAGGAGCCATGTCA
ACCCCAGATAACCAGCCGTCCTCATCACGTAAGAACGTGTTATCACCCTTAGATGGCATGCCG
Found at i:2876581 original size:3 final size:3
Alignment explanation
Indices: 2876565--2876642 Score: 84
Period size: 3 Copynumber: 25.3 Consensus size: 3
2876555 GGTTAAAAAA
* * *
2876565 TAT TAT TAAA TAT TAT TGT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
2876611 TAT TACT TAC TAT AAC TAT TAT TAT TAT TAT T
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT T
2876643 TAAAACCACT
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
3 56 0.92
4 5 0.08
ACGTcount: A:0.35, C:0.05, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:2876653 original size:25 final size:25
Alignment explanation
Indices: 2876602--2876653 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
2876592 TTATTATTAT
** *
2876602 TATTATTATTATTACTTACTATAAC
1 TATTATTATTATTACTTAAAACAAC
* *
2876627 TATTATTATTATTATTTAAAACCAC
1 TATTATTATTATTACTTAAAACAAC
2876652 TA
1 TA
2876654 CCACCCTCAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (25 bp):
TATTATTATTATTACTTAAAACAAC
Found at i:2880087 original size:3 final size:3
Alignment explanation
Indices: 2880073--2880136 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
2880063 TTAATAAATA
*
2880073 AAT AAT AGT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2880121 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
2880137 TTTTTGACCC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2895687 original size:2 final size:2
Alignment explanation
Indices: 2895680--2895714 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
2895670 CCAAATCCAA
2895680 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2895715 TTTATTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2900900 original size:116 final size:116
Alignment explanation
Indices: 2900687--2901043 Score: 448
Period size: 116 Copynumber: 3.1 Consensus size: 116
2900677 CCTCATTGGG
* * *
2900687 AATATTGATCTAACTCTTTATGTGATGGATGAGCCATGGTCGAACAAGTTCTTCTCATTAGGAAC
1 AATATTGATCCAACTCCTTATGTGATGGATGAGCCATAGTCGAACAAGTTCTTCTCATTAGGAAC
* * * * * *
2900752 TTCTTATCCCTCATCGGATGAGTTCTTCTCATTGTAAACCCTTTCACTAGA
66 TTATTCTCCCTCATCGGATGAGTTCTTATCATTATGAACCCTTCCACTAGA
* * * *
2900803 AATACTGATCCAACTCCTTATGAT-ATGGATGAGCCATAGTTGAACAACTTTTTCTCATTAGGAA
1 AATATTGATCCAACTCCTTATG-TGATGGATGAGCCATAGTCGAACAAGTTCTTCTCATTAGGAA
* *
2900867 CTTATTCTCCCTCATCGGATGAGTTCTTATCATTATGGACCCTTCCACTTGA
65 CTTATTCTCCCTCATCGGATGAGTTCTTATCATTATGAACCCTTCCACTAGA
* * * * *
2900919 AGTGTTGGTCCAACTCCTTATGTGATAGATGAGCCA-AGGTCGAACAAGTTCTTATCATTAGGAA
1 AATATTGATCCAACTCCTTATGTGATGGATGAGCCATA-GTCGAACAAGTTCTTCTCATTAGGAA
** * * *
2900983 CTTATTCTCCCTCATCGGACAAGTTCTTTTCATTATGAACCCTTCCATTGGA
65 CTTATTCTCCCTCATCGGATGAGTTCTTATCATTATGAACCCTTCCACTAGA
*
2901035 AATGTTGAT
1 AATATTGAT
2901044 TGGTTTATCC
Statistics
Matches: 206, Mismatches: 32, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
115 2 0.01
116 203 0.99
117 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (116 bp):
AATATTGATCCAACTCCTTATGTGATGGATGAGCCATAGTCGAACAAGTTCTTCTCATTAGGAAC
TTATTCTCCCTCATCGGATGAGTTCTTATCATTATGAACCCTTCCACTAGA
Found at i:2903019 original size:20 final size:20
Alignment explanation
Indices: 2902994--2903040 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2902984 TGTGTATGTG
*
2902994 TTTGTTTTTTTTCTT-TTCTT
1 TTTGTTTTTTTTATTCTT-TT
*
2903014 TTTGTTGTTTTTATTCTTTT
1 TTTGTTTTTTTTATTCTTTT
2903034 TTTGTTT
1 TTTGTTT
2903041 ACTTCAAACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.02, C:0.06, G:0.09, T:0.83
Consensus pattern (20 bp):
TTTGTTTTTTTTATTCTTTT
Found at i:2905590 original size:29 final size:29
Alignment explanation
Indices: 2905528--2905620 Score: 82
Period size: 30 Copynumber: 3.2 Consensus size: 29
2905518 AAACAGAAAA
*
2905528 ATAAATGCTAAAATCTAAAGGACATAAAT
1 ATAAATACTAAAATCTAAAGGACATAAAT
* * *
2905557 ATAAATACTAGAAATTTAAAGGGCATGAAT
1 ATAAATACTA-AAATCTAAAGGACATAAAT
** *
2905587 -TAAAGCGCATAAAAT-TGAAGGACATAAAT
1 ATAAA-TAC-TAAAATCTAAAGGACATAAAT
2905616 ATAAA
1 ATAAA
2905621 CGACAGAAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
29 24 0.47
30 25 0.49
31 2 0.04
ACGTcount: A:0.54, C:0.09, G:0.14, T:0.24
Consensus pattern (29 bp):
ATAAATACTAAAATCTAAAGGACATAAAT
Found at i:2905708 original size:15 final size:14
Alignment explanation
Indices: 2905683--2905715 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
2905673 AAATCAAAGT
2905683 TTAGCATTTAGAAG
1 TTAGCATTTAGAAG
2905697 TTAGCATATTAGAAG
1 TTAGCAT-TTAGAAG
2905712 TTAG
1 TTAG
2905716 GGGTTGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.36, C:0.06, G:0.21, T:0.36
Consensus pattern (14 bp):
TTAGCATTTAGAAG
Found at i:2907671 original size:21 final size:21
Alignment explanation
Indices: 2907647--2907687 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
2907637 GTTTTTTATA
*
2907647 ATTTTAATAAT-TAAAGAATAT
1 ATTTTAACAATATAAA-AATAT
2907668 ATTTTAACAATATAAAAATA
1 ATTTTAACAATATAAAAATA
2907688 AAAATTCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTTTAACAATATAAAAATAT
Found at i:2910226 original size:13 final size:13
Alignment explanation
Indices: 2910208--2910232 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2910198 AATAATTTTT
2910208 AAATTAACGGTCA
1 AAATTAACGGTCA
2910221 AAATTAACGGTC
1 AAATTAACGGTC
2910233 GTTACTGTCC
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:0.44, C:0.16, G:0.16, T:0.24
Consensus pattern (13 bp):
AAATTAACGGTCA
Found at i:2910948 original size:333 final size:332
Alignment explanation
Indices: 2910342--2911340 Score: 1409
Period size: 340 Copynumber: 3.0 Consensus size: 332
2910332 ATTAAACTAT
* *
2910342 GTATTAAGCCTTAAATTATTATCCCAATCAATATATTTAACTTAATGAACAATTTACTATTGT-A
1 GTATTAAGCCTTAAATTATTATCCCAATCAATATATTAAACTTAATGAACAATTTACTCTTGTGA
* * *
2910406 CTTTGAAGCATCCTGTATATGTTTAAGGTTGTTGTTCATGTACTTAAAAGGTTAAAAAATCATAT
66 TTTTGAAGCTTCCTTTATATGTTTAAGGTTGTTGTTCATGTACTTAAAAGGTTAAAAAATCATAT
* *
2910471 CAGAAGTTGAAATATCATTAAAAAAACATATATACTATTTTACACACTAGATTAAAAAAACTTAT
131 CAGAAGTTGAAATCTCATTAAAAAAACATATTTACTATTTTACACACTAGATTAAAAAAACTTAT
*
2910536 AATACGACCATGCCATGAACCTTCTTATTTTGTCATTTTCAGATTTGGCAAGTGCATTCACCACA
196 AATACGACCATGCCATGAACCTTCTTATTTTGTCCTTTTCAGATTTGGCAAGTGCATTCACCACA
* * * *
2910601 CAATTACCTTCTCGTAGTACATGAACAAAACAGACATCAGAGTTATCACTGCATTAAGGATAAAT
261 CAATTACTTTCTCGTAGCACATGAACAAAACAGACATCAGAATTATCACTGCATTACGGATAAAT
2910666 TG-T-AG
326 TGTTGAG
* * *
2910671 GTATTAAGCCTTAAATTATTATCCCAATCAACATATTAAACTTAATGTACAATTTACTCTTGTGG
1 GTATTAAGCCTTAAATTATTATCCCAATCAATATATTAAACTTAATGAACAATTTACTCTTGTGA
*
2910736 TTTTGATGCTTCCTTTATATGTTTAAGGTTGTTGTTCATGTACTTAAAAGGTTAAAAAAATC-TG
66 TTTTGAAGCTTCCTTTATATGTTTAAGGTTGTTGTTCATGTACTTAAAAGGTT-AAAAAATCAT-
* *
2910800 ACCAGAAGTTGAAATCTCATTAAAAAAAACCATATTTACTATTTTACACATTAGA-TAAAAAAAC
129 ATCAGAAGTTGAAATCTCATT-AAAAAAA-CATATTTACTATTTTACACACTAGATTAAAAAAAC
* * *
2910864 TTATAATATGACCTTGCCATGAACCTTCTTATTTTGTCCTTTTTCAGATTTGGCAAGCGCATTCA
192 TTATAATACGACCATGCCATGAACCTTCTTATTTTGTCC-TTTTCAGATTTGGCAAGTGCATTCA
* * * *
2910929 CCGCACAATTACTTTCTCGTAGCACATGAAAAAAACAGACATTAGAATTATCACTGCTTTACGGA
256 CCACACAATTACTTTCTCGTAGCACATGAACAAAACAGACATCAGAATTATCACTGCATTACGGA
2910994 TAAATTGTACTTTTGAG
321 TAAATTG-----TTGAG
* * * *
2911011 GTATTAAGCCTTATATTATTATCCCAATCAATATATTAAACTTAATGAACACTTTACTCTTCTGC
1 GTATTAAGCCTTAAATTATTATCCCAATCAATATATTAAACTTAATGAACAATTTACTCTTGTGA
* *
2911076 TTTTGAAGCTTCCTTCATATGTTTAAGGTTGTTGCTCATGTACTTAAAAGGTTAAAAAATCATAT
66 TTTTGAAGCTTCCTTTATATGTTTAAGGTTGTTGTTCATGTACTTAAAAGGTTAAAAAATCATAT
* * * *
2911141 CAGAACTTTAAATCTCATTTAAAAAACATATTTACTATTTTGCACACTAGATTAAAAAAAAACTC
131 CAGAAGTTGAAATCTCATTAAAAAAACATATTTACTATTTTACACACTAGATT--AAAAAAA--C
* * * * * *
2911206 TTACAATACGACAATGCCATGAACCTTCTTATCTTGTCC-TTACAGATTTGGTAAGTGCATGCAC
192 TTATAATACGACCATGCCATGAACCTTCTTATTTTGTCCTTTTCAGATTTGGCAAGTGCATTCAC
* * *
2911270 CACACAATTA-TCATCTCGTAGCAAATGAACAAAACAGACATCAGAATTATCACTACATTACGGA
257 CACACAATTACT-TTCTCGTAGCACATGAACAAAACAGACATCAGAATTATCACTGCATTACGGA
*
2911334 TAGATTG
321 TAAATTG
2911341 CAGTTAAAGG
Statistics
Matches: 593, Mismatches: 57, Indels: 29
0.87 0.08 0.04
Matches are distributed among these distances:
329 59 0.10
330 50 0.08
331 27 0.05
332 52 0.09
333 111 0.19
337 23 0.04
338 7 0.01
339 28 0.05
340 201 0.34
342 35 0.06
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (332 bp):
GTATTAAGCCTTAAATTATTATCCCAATCAATATATTAAACTTAATGAACAATTTACTCTTGTGA
TTTTGAAGCTTCCTTTATATGTTTAAGGTTGTTGTTCATGTACTTAAAAGGTTAAAAAATCATAT
CAGAAGTTGAAATCTCATTAAAAAAACATATTTACTATTTTACACACTAGATTAAAAAAACTTAT
AATACGACCATGCCATGAACCTTCTTATTTTGTCCTTTTCAGATTTGGCAAGTGCATTCACCACA
CAATTACTTTCTCGTAGCACATGAACAAAACAGACATCAGAATTATCACTGCATTACGGATAAAT
TGTTGAG
Found at i:2913878 original size:10 final size:10
Alignment explanation
Indices: 2913853--2913886 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
2913843 TAATTATAAA
2913853 ATATATTTTTT
1 ATATA-TTTTT
*
2913864 TTATATTTTT
1 ATATATTTTT
2913874 ATATATTTTT
1 ATATATTTTT
2913884 ATA
1 ATA
2913887 GTTTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATATATTTTT
Found at i:2916889 original size:3 final size:3
Alignment explanation
Indices: 2916881--2916926 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
2916871 TAACCTATAG
2916881 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2916927 ACTGGACGAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:2917287 original size:13 final size:12
Alignment explanation
Indices: 2917257--2917287 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2917247 AACTATCACC
2917257 GGAAAAACTGAG
1 GGAAAAACTGAG
*
2917269 GGAAAAACTTAG
1 GGAAAAACTGAG
2917281 GGAAAAA
1 GGAAAAA
2917288 TAATATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.29, T:0.10
Consensus pattern (12 bp):
GGAAAAACTGAG
Found at i:2917521 original size:83 final size:83
Alignment explanation
Indices: 2917400--2917559 Score: 250
Period size: 83 Copynumber: 1.9 Consensus size: 83
2917390 ATTTCGAGAG
** *
2917400 AGTTTTACTCAAACTAAAACTCTTTTAATATTTAAATTTAAACAGATAATAATATATTTTAAATT
1 AGTTTTACTCAAACTAAAACTCTTTTAATAACTAAATTTAAACAAATAATAATATATTTTAAATT
2917465 TAAAATATTAAAACTAAC
66 TAAAATATTAAAACTAAC
* * *
2917483 AGTTTTACTCCAACT-AAACATCTTTTAATAACTCAATTTAAATAAATAATAATATATTTTAAAT
1 AGTTTTACTCAAACTAAAAC-TCTTTTAATAACTAAATTTAAACAAATAATAATATATTTTAAAT
2917547 TTAAAATATTAAA
65 TTAAAATATTAAA
2917560 CAACATACAG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
82 4 0.06
83 66 0.94
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (83 bp):
AGTTTTACTCAAACTAAAACTCTTTTAATAACTAAATTTAAACAAATAATAATATATTTTAAATT
TAAAATATTAAAACTAAC
Found at i:2917677 original size:24 final size:24
Alignment explanation
Indices: 2917650--2917698 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
2917640 ATATTCAAAG
*
2917650 TTAAAAAGATAAGAAATACATTTT
1 TTAAAAAGATAACAAATACATTTT
*
2917674 TTAAAAAGATAACAAATACCTTTT
1 TTAAAAAGATAACAAATACATTTT
2917698 T
1 T
2917699 AAATTGACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.51, C:0.08, G:0.06, T:0.35
Consensus pattern (24 bp):
TTAAAAAGATAACAAATACATTTT
Found at i:2921251 original size:3 final size:3
Alignment explanation
Indices: 2921245--2921298 Score: 65
Period size: 3 Copynumber: 18.0 Consensus size: 3
2921235 TTACCCATTT
* * *
2921245 TTA TTA TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA -TA TACA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
2921290 TTA TTA TTA
1 TTA TTA TTA
2921299 AATAAATAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2921331 original size:13 final size:13
Alignment explanation
Indices: 2921297--2921333 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
2921287 TTATTATTAT
2921297 TAAATAA-ATAAA
1 TAAATAATATAAA
2921309 TAAATAATATAAA
1 TAAATAATATAAA
2921322 -AAATATATATAA
1 TAAATA-ATATAA
2921334 TAATAATTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (13 bp):
TAAATAATATAAA
Found at i:2922785 original size:108 final size:111
Alignment explanation
Indices: 2922673--2922885 Score: 249
Period size: 108 Copynumber: 1.9 Consensus size: 111
2922663 TTTTTTACAT
* * * *
2922673 AAATTAT-TTTTTAATATT-TATTTATTTATTT-TTCAATATCGAAGAAAAGGGCAGTCTTAATA
1 AAATTATAATTTTAATATTATA-TTA-ATATTTATT-AATATCGAAGAAAAGAGCAGTCTTAAGA
* *
2922735 CAACTGGATGTCCTATTATGGTATTT-TAAA-AT-TAAATATTATAAAA
63 CAACTAGATGTCCTATTATGATATTTCTAAATATATAAATATTATAAAA
* * * *
2922781 AAATTATAATTTTATTATTATATTAATATTTATTAATATCGAAGAAAAGAGCTGTCTTAAGGCAC
1 AAATTATAATTTTAATATTATATTAATATTTATTAATATCGAAGAAAAGAGCAGTCTTAAGACAA
* *
2922846 CTAGATGTCCTTTTCTGATATTTCTAAATATATAAATATT
66 CTAGATGTCCTATTATGATATTTCTAAATATATAAATATT
2922886 TTATTTATAA
Statistics
Matches: 87, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
108 57 0.66
109 18 0.21
110 4 0.05
111 8 0.09
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (111 bp):
AAATTATAATTTTAATATTATATTAATATTTATTAATATCGAAGAAAAGAGCAGTCTTAAGACAA
CTAGATGTCCTATTATGATATTTCTAAATATATAAATATTATAAAA
Found at i:2922896 original size:23 final size:24
Alignment explanation
Indices: 2922864--2922915 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
2922854 CCTTTTCTGA
*
2922864 TATTTCTAAATATATA-AATATT-T
1 TATTTATAAATATATATAA-ATTAT
2922887 TATTTATAAATATATATAAATTAT
1 TATTTATAAATATATATAAATTAT
2922911 TATTT
1 TATTT
2922916 TTTCTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 18 0.69
24 8 0.31
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (24 bp):
TATTTATAAATATATATAAATTAT
Found at i:2925077 original size:13 final size:13
Alignment explanation
Indices: 2925052--2925086 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
2925042 ACATTTACTT
2925052 TTTACATTT-GCA
1 TTTACATTTGGCA
2925064 TTTACATTTGGCA
1 TTTACATTTGGCA
*
2925077 TTTTCATTTG
1 TTTACATTTG
2925087 TATTGCACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (13 bp):
TTTACATTTGGCA
Found at i:2928402 original size:15 final size:12
Alignment explanation
Indices: 2928361--2928396 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
2928351 TCCAGCAAAG
2928361 AAAGAAGAAAAA
1 AAAGAAGAAAAA
2928373 AAAGAAGAAAAA
1 AAAGAAGAAAAA
2928385 AAAGAAGAAAAA
1 AAAGAAGAAAAA
2928397 GGAAAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAGAAGAAAAA
Found at i:2933366 original size:22 final size:22
Alignment explanation
Indices: 2933335--2933389 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
2933325 ATCTACACTC
*
2933335 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
2933357 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
2933379 TTCAAAGATGA
1 TTCAAAGATGA
2933390 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:2933996 original size:113 final size:113
Alignment explanation
Indices: 2933793--2934580 Score: 1200
Period size: 113 Copynumber: 7.0 Consensus size: 113
2933783 GCAAAAAGTC
* * * **** *
2933793 AAATTCATCACTTGATGGACCAGCTTTTCCAGTTTGAGTTCATAATGAGAAGAACCCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
2933858 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
*
2933906 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
2933971 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTACAACCTTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
2934019 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
*
2934084 AAGGAAGAAGAAATTCATGATGAGAAGAATTTGTTCAACCTTTTGCTA
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
**** *
2934132 AAATCCATCATTTGATGGATCAGCTTTTCCAGTTTGAGTTCATAATGAGAAGAACCCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
2934197 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
*
2934245 AAATCCATCATTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* *
2934310 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACATTTTGCTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
* ****
2934358 AAATCCATCACTTGATGGATCAGCTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * * * * *
2934423 AAGGAAGAAGGAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGTTC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
* * * * * *
2934471 AAATTCATCACTTGATGGATCAACATTTCCAGAGAAAGTTCATAATAAGAAGAACTTATCTGAAG
1 AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
* * **
2934536 -AGGAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAACCTTTTGC
66 AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
2934581 ATAATTCTAT
Statistics
Matches: 620, Mismatches: 55, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
112 40 0.06
113 580 0.94
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTA
Found at i:2934818 original size:3 final size:3
Alignment explanation
Indices: 2934810--2934860 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
2934800 TTACCCATTT
* * *
2934810 TTA TTA TTA TTA TTA TAA TTA TTA TAA TTA TTA -TA TACA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
2934855 TTA TTA
1 TTA TTA
2934861 AATAAATAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.90
4 2 0.05
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:2934833 original size:18 final size:17
Alignment explanation
Indices: 2934810--2934860 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
2934800 TTACCCATTT
2934810 TTATTATTATTATTATAA
1 TTATTATTATTATTAT-A
*
2934828 TTATTATAATTATTATA
1 TTATTATTATTATTATA
*
2934845 TACATTATTATTATTA
1 T-TATTATTATTATTA
2934861 AATAAATAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
17 2 0.07
18 27 0.93
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:2936446 original size:23 final size:26
Alignment explanation
Indices: 2936414--2936463 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 26
2936404 CATTTTCTGA
*
2936414 TATTTCTAAATA-A-ATAAA-TATTT
1 TATTTATAAATATATATAAATTATTT
2936437 TATTTATAAATATATATAAATTATTT
1 TATTTATAAATATATATAAATTATTT
2936463 T
1 T
2936464 TTTTCTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 1 0.04
25 5 0.22
26 6 0.26
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTATAAATATATATAAATTATTT
Found at i:2941549 original size:118 final size:118
Alignment explanation
Indices: 2941336--2941550 Score: 306
Period size: 118 Copynumber: 1.8 Consensus size: 118
2941326 GGAAGTATTT
* * * * * *
2941336 CAGGATCCTTTGTTGTGTGCTCAGGGTAAGTTCTTACTGGTGTGTAGGTGGGTGTATGGTTCTGG
1 CAGGATCCTTTATTGTGTGCTCAAGGTAAGTCCTCACTGGTGTGCAGGTAGGTGTATGGTTCTGG
* *
2941401 GGAACCTACACATTCTGGTGATCAGAGTGATTTAATGAGGGTAGTTATTACCG
66 AGAACCTACACATTCTAGTGATCAGAGTGATTTAATGAGGGTAGTTATTACCG
* * * *
2941454 CAGGCTCCTTTATTTTGTGCTTAAGGTAAGTCCTCACTGGTGTGCATGTAGGTGTATGGTTCTGG
1 CAGGATCCTTTATTGTGTGCTCAAGGTAAGTCCTCACTGGTGTGCAGGTAGGTGTATGGTTCTGG
2941519 AGAACCTACACATTCTAGTGATCA-ACGTGATT
66 AGAACCTACACATTCTAGTGATCAGA-GTGATT
2941551 GGATAAGAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
117 1 0.01
118 83 0.99
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.35
Consensus pattern (118 bp):
CAGGATCCTTTATTGTGTGCTCAAGGTAAGTCCTCACTGGTGTGCAGGTAGGTGTATGGTTCTGG
AGAACCTACACATTCTAGTGATCAGAGTGATTTAATGAGGGTAGTTATTACCG
Found at i:2945131 original size:84 final size:81
Alignment explanation
Indices: 2944926--2945170 Score: 382
Period size: 83 Copynumber: 3.0 Consensus size: 81
2944916 GGGAATTTCA
* *
2944926 AGAGTTTTACTCCAACTAAAACTCTTTTAATATATAAATTTAAACATATAATAATCTATTTTAAA
1 AGAGTTTTACTCCAACTAAAA-TCTTTTAATATCTAAATTTAAA-ATATAATAATATATTTTAAA
*
2944991 TTTAAAATATTAAAATTG
64 TTTAAAATATTAAAAGTG
* *
2945009 AGAGTTTTACTCCAACTAAATATCTTTTAATAACTAAATTTAAATATATAATAATATTTTTTAAA
1 AGAGTTTTACTCCAACTAAA-ATCTTTTAATATCTAAATTTAAA-ATATAATAATATATTTTAAA
2945074 TTTAAAATATTAGAAAGTG
64 TTTAAAATATTA-AAAGTG
*
2945093 AGAGTTTTACTCCAACTAAACATCTTTTAATATCTAAATTTAAAATGTAATAATATATTTTAAAT
1 AGAGTTTTACTCCAACTAAA-ATCTTTTAATATCTAAATTTAAAATATAATAATATATTTTAAAT
2945158 TTAAAATATTAAA
65 TTAAAATATTAAA
2945171 CATATGTACA
Statistics
Matches: 150, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
82 2 0.01
83 100 0.67
84 48 0.32
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (81 bp):
AGAGTTTTACTCCAACTAAAATCTTTTAATATCTAAATTTAAAATATAATAATATATTTTAAATT
TAAAATATTAAAAGTG
Found at i:2945275 original size:34 final size:33
Alignment explanation
Indices: 2945186--2945275 Score: 85
Period size: 34 Copynumber: 2.6 Consensus size: 33
2945176 GTACACTACT
* *
2945186 TTTATTATTCAAATTAAATAAATATATATATTAA
1 TTTAATATTCAAATTAAA-AAGTATATATATTAA
* *
2945220 TTTAAT-TTGAAATATACAAAAGTATATA-ATTATC
1 TTTAATATTCAAAT-TA-AAAAGTATATATATTA-A
2945254 TTTAATATTCAAAGTTAAAAAG
1 TTTAATATTCAAA-TTAAAAAG
2945276 ATAAAAAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
33 10 0.22
34 26 0.57
35 9 0.20
36 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.42
Consensus pattern (33 bp):
TTTAATATTCAAATTAAAAAGTATATATATTAA
Found at i:2949763 original size:42 final size:41
Alignment explanation
Indices: 2949717--2949860 Score: 139
Period size: 42 Copynumber: 3.5 Consensus size: 41
2949707 CAATAGTGGT
*
2949717 AAAAATTATTTTCGTCACAAATCACCAACTAAGACTAGTGAA
1 AAAAATAATTTTCGTCACAAATCACCAACTAAGACTAGT-AA
* * * *
2949759 AAAAACAATTATCGTCACAAATCACCAATTAAGACTAGTTAC
1 AAAAATAATTTTCGTCACAAATCACCAACTAAGACTAG-TAA
* * **
2949801 AAAAATAACTATT-GTCACAATTCAATAACTAAGACTAGTAA
1 AAAAATAA-TTTTCGTCACAAATCACCAACTAAGACTAGTAA
* * *
2949842 CAAAAT-GTTTTCATCACAA
1 AAAAATAATTTTCGTCACAA
2949861 TTATGAATAA
Statistics
Matches: 82, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 3 0.04
40 6 0.07
41 7 0.09
42 63 0.77
43 3 0.04
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.26
Consensus pattern (41 bp):
AAAAATAATTTTCGTCACAAATCACCAACTAAGACTAGTAA
Found at i:2953968 original size:30 final size:30
Alignment explanation
Indices: 2953934--2953990 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
2953924 AAGTATAAGA
2953934 ATTTGGAGTAGGGTGACATGTCTGTTAAAT
1 ATTTGGAGTAGGGTGACATGTCTGTTAAAT
2953964 ATTTGGAGTAGGGTGACATGTCTGTTA
1 ATTTGGAGTAGGGTGACATGTCTGTTA
2953991 CTGATTATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.32, T:0.37
Consensus pattern (30 bp):
ATTTGGAGTAGGGTGACATGTCTGTTAAAT
Found at i:2964790 original size:55 final size:55
Alignment explanation
Indices: 2964564--2964779 Score: 344
Period size: 55 Copynumber: 3.9 Consensus size: 55
2964554 AGGCATTATA
* *
2964564 TGTGCAAATCCAC-AGAATTCATCAAGAGTTGGTGAATAACCGTACATGCACTATG
1 TGTGCAAATCCACGA-AATTCATCATGAGTTGATGAATAACCGTACATGCACTATG
* *
2964619 TGTGCAAATCCACGTAATTCATCATGAGTTGATGAATAACCGTACAGGCACTATG
1 TGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGCACTATG
**
2964674 TGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACAAACACTATG
1 TGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGCACTATG
* *
2964729 TGTGCAAATCCACGAAATTCATCATGAGTTAATGAATAGCCGTACATGCAC
1 TGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGCAC
2964780 GAGATGTGCA
Statistics
Matches: 149, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
55 149 1.00
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (55 bp):
TGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCGTACATGCACTATG
Found at i:2970593 original size:55 final size:55
Alignment explanation
Indices: 2970509--2970732 Score: 342
Period size: 55 Copynumber: 4.1 Consensus size: 55
2970499 CTAAGTGTAC
2970509 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
1 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
* * * *
2970564 TACATGCACTATGTGTTCAATTCTACGAAATTCATCATGAGTTGATGAATAATCG
1 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
* * *
2970619 TACA-GACACTATATGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACAG
1 TACATG-CACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
* * *
2970674 TACAGGCACTATGTGTGCAAATCCACGGAATTCATCATGAGTTGATGAATAACCA
1 TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
2970729 TACA
1 TACA
2970733 GGCTCGATAT
Statistics
Matches: 153, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
54 1 0.01
55 151 0.99
56 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (55 bp):
TACATGCACTATGTGTGCAAATCCACGAAATTCATCATGAGTTGATGAATAACCG
Found at i:2971950 original size:17 final size:17
Alignment explanation
Indices: 2971928--2971967 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
2971918 TCGGATTAAA
2971928 AGTTGGGAGAAAGAATC
1 AGTTGGGAGAAAGAATC
*
2971945 AGTTGGGAGAAATAATC
1 AGTTGGGAGAAAGAATC
2971962 AGTTGG
1 AGTTGG
2971968 TAGCAAGTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.23
Consensus pattern (17 bp):
AGTTGGGAGAAAGAATC
Found at i:2974877 original size:16 final size:16
Alignment explanation
Indices: 2974846--2974880 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
2974836 AGGTAGTAGT
**
2974846 CATGTTTTCTTTAAAA
1 CATGTTTTCTAAAAAA
2974862 CATGTTTTCTAAAAAA
1 CATGTTTTCTAAAAAA
2974878 CAT
1 CAT
2974881 ATTTATTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (16 bp):
CATGTTTTCTAAAAAA
Found at i:2986816 original size:21 final size:20
Alignment explanation
Indices: 2986787--2986825 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
2986777 TGATGAGATT
2986787 TGAAAATAAATATGGTTTATA
1 TGAAAATAAAT-TGGTTTATA
* *
2986808 TGAATATAAGTTGGTTTA
1 TGAAAATAAATTGGTTTA
2986826 AGTAATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.41, C:0.00, G:0.18, T:0.41
Consensus pattern (20 bp):
TGAAAATAAATTGGTTTATA
Found at i:2987025 original size:19 final size:19
Alignment explanation
Indices: 2986997--2987052 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
2986987 CATCAAATGC
2986997 AAGTAGTGCATCGATGCAT
1 AAGTAGTGCATCGATGCAT
*
2987016 AAGTAATGCATCGATGCAT
1 AAGTAGTGCATCGATGCAT
*
2987035 AAGTAGTACATCGATGCA
1 AAGTAGTGCATCGATGCA
2987053 CCACTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (19 bp):
AAGTAGTGCATCGATGCAT
Found at i:2988166 original size:180 final size:184
Alignment explanation
Indices: 2987944--2988312 Score: 710
Period size: 181 Copynumber: 2.0 Consensus size: 184
2987934 CGTGAGATAA
2987944 GTGATAAGGGTTATATGTTATTGTACATGTTAGTATAATAAATCATGTAAGCTGATACAAA-GGA
1 GTGATAAGGGTTATATGTTATTGTACATGTTAGTATAATAAATCATGTAAGCTGATACAAAGGGA
2988008 AAATGATATAAAGATAAATAGCTTTTACCTATAGGATTGATATAAGATTATATGTCGGTGTGATA
66 AAATGATATAAAGATAAATAGCTTTTACCTATAGGATTGATATAAGATTATATGTCGGTGTGATA
2988073 ACATGTAC-AGGGAACTAAGCTCTATGATAT-GATCCATGTGAGTATAAGTAAC
131 ACATGTACAAGGGAACTAAGCTCTATGATATGGATCCATGTGAGTATAAGTAAC
2988125 -TGATAAGGGTTATATGTTATTGTACATGTTAGTATAATAAATCATGTAAGCTGATACAAAGGGA
1 GTGATAAGGGTTATATGTTATTGTACATGTTAGTATAATAAATCATGTAAGCTGATACAAAGGGA
2988189 AAATGATATAAAGATAAATAGCTTTTACCTATAGGATTGATATAAGATTATATGTCGGTGTGATA
66 AAATGATATAAAGATAAATAGCTTTTACCTATAGGATTGATATAAGATTATATGTCGGTGTGATA
2988254 ACATGTACAAGGGAACTAAGCTCTATGATATGGATCCATGTGAGTATAAGTAAC
131 ACATGTACAAGGGAACTAAGCTCTATGATATGGATCCATGTGAGTATAAGTAAC
2988308 GTGAT
1 GTGAT
2988313 TGCATAAACT
Statistics
Matches: 184, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
180 60 0.33
181 76 0.41
182 22 0.12
183 22 0.12
184 4 0.02
ACGTcount: A:0.38, C:0.09, G:0.21, T:0.33
Consensus pattern (184 bp):
GTGATAAGGGTTATATGTTATTGTACATGTTAGTATAATAAATCATGTAAGCTGATACAAAGGGA
AAATGATATAAAGATAAATAGCTTTTACCTATAGGATTGATATAAGATTATATGTCGGTGTGATA
ACATGTACAAGGGAACTAAGCTCTATGATATGGATCCATGTGAGTATAAGTAAC
Found at i:2988861 original size:23 final size:23
Alignment explanation
Indices: 2988834--2988924 Score: 119
Period size: 23 Copynumber: 4.0 Consensus size: 23
2988824 GACATTATAT
2988834 GGCACTACGGTGCATTTATACGC
1 GGCACTACGGTGCATTTATACGC
* * * *
2988857 GGCACTTCGGTGCAATTCTACGT
1 GGCACTACGGTGCATTTATACGC
* *
2988880 GGCATTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTATACGC
*
2988903 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTATACG
2988925 AGCTGTGGTG
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.19, C:0.25, G:0.26, T:0.30
Consensus pattern (23 bp):
GGCACTACGGTGCATTTATACGC
Found at i:2993869 original size:23 final size:23
Alignment explanation
Indices: 2993841--2993931 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
2993831 GACATTATAT
2993841 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* ** * * *
2993864 GACACTTTGGTGTAATTCTACGT
1 GGCACTACGGTGCATTTCTACGC
2993887 GGCACTACGGTGCATTTCTACGC
1 GGCACTACGGTGCATTTCTACGC
* *
2993910 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCATTTCTACG
2993932 AGCTGTGGTG
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (23 bp):
GGCACTACGGTGCATTTCTACGC
Found at i:3001051 original size:8 final size:8
Alignment explanation
Indices: 3001028--3001057 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
3001018 TAAGCACAAA
3001028 ATTATAAT
1 ATTATAAT
3001036 ATTTATAAT
1 A-TTATAAT
3001045 ATTATAAT
1 ATTATAAT
3001053 ATTAT
1 ATTAT
3001058 TTGATTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (8 bp):
ATTATAAT
Found at i:3002984 original size:40 final size:39
Alignment explanation
Indices: 3002916--3003001 Score: 109
Period size: 40 Copynumber: 2.2 Consensus size: 39
3002906 TATTTTAGGG
* * *
3002916 ACCAAAGATGAAATTCCCATGTGCACAAGTTGGCCACCT
1 ACCAAAGATGAAATTCCAATGTGCACAAGTTAGCCACCA
* * *
3002955 ACCATAGATGAATTTTCCAATGTGTACAAGTTAGCCACCA
1 ACCAAAGATGAA-ATTCCAATGTGCACAAGTTAGCCACCA
3002995 ACCAAAG
1 ACCAAAG
3003002 GTGTCAACTT
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
39 11 0.28
40 28 0.72
ACGTcount: A:0.36, C:0.26, G:0.16, T:0.22
Consensus pattern (39 bp):
ACCAAAGATGAAATTCCAATGTGCACAAGTTAGCCACCA
Found at i:3007712 original size:40 final size:39
Alignment explanation
Indices: 3007639--3007728 Score: 126
Period size: 40 Copynumber: 2.3 Consensus size: 39
3007629 ATATTTTAGG
*
3007639 GACCAAAGATGAAATTCCCATGTGCACAAGTTAGCCACC
1 GACCAAAGATGAAATTCCAATGTGCACAAGTTAGCCACC
* * * *
3007678 TACCAAAGATGAATTTTCCAATGTGTATAAGTTAGCCACC
1 GACCAAAGATGAA-ATTCCAATGTGCACAAGTTAGCCACC
3007718 GACCAAAGATG
1 GACCAAAGATG
3007729 TCAACTTTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 12 0.27
40 32 0.73
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.22
Consensus pattern (39 bp):
GACCAAAGATGAAATTCCAATGTGCACAAGTTAGCCACC
Found at i:3019841 original size:82 final size:78
Alignment explanation
Indices: 3019748--3019945 Score: 236
Period size: 82 Copynumber: 2.5 Consensus size: 78
3019738 AAAAAAATAG
* *
3019748 AAAAAGAGAAAAGAAAAGAACAAAAAAAAAGAAAAAACGTTTAGGGTGAAAACCTGAAAAGGCAC
1 AAAAAGAGAAAAGAAAAGAACAAAAAAAAA-AAAAAACATTTAGGGTGAAAACCCGAAAAGGCAC
3019813 CCTAAATTGAAAATAAA
65 CCTAAATTG--AA-AAA
* * * *
3019830 AAAAAGAGAAAAAGAGAA-AAGAAAAGAACAAAAAAAACATTTAGGGTGAAAACCCGAAAGGGCA
1 AAAAAGAG-AAAAGAAAAGAACAAAA-AAAAAAAAAAACATTTAGGGTGAAAACCCGAAAAGGCA
*
3019894 CCCTTAATTGAAAAA
64 CCCTAAATTGAAAAA
* * *
3019909 AAACAGAAAAAAGAAAAAGAACAAAAATAAAAAAAAA
1 AAAAAGAGAAAAG-AAAAGAACAAAAAAAAAAAAAAA
3019946 TAAGGTGGGT
Statistics
Matches: 99, Mismatches: 13, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
78 5 0.05
79 21 0.21
80 8 0.08
82 53 0.54
83 12 0.12
ACGTcount: A:0.65, C:0.10, G:0.16, T:0.09
Consensus pattern (78 bp):
AAAAAGAGAAAAGAAAAGAACAAAAAAAAAAAAAAACATTTAGGGTGAAAACCCGAAAAGGCACC
CTAAATTGAAAAA
Found at i:3019924 original size:18 final size:18
Alignment explanation
Indices: 3019903--3019945 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
3019893 ACCCTTAATT
3019903 GAAAAAAAACAGAAAA-AA
1 GAAAAAAAACA-AAAATAA
*
3019921 GAAAAAGAACAAAAATAA
1 GAAAAAAAACAAAAATAA
3019939 -AAAAAAA
1 GAAAAAAA
3019946 TAAGGTGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.84, C:0.05, G:0.09, T:0.02
Consensus pattern (18 bp):
GAAAAAAAACAAAAATAA
Found at i:3021256 original size:111 final size:111
Alignment explanation
Indices: 3021058--3021265 Score: 290
Period size: 111 Copynumber: 1.9 Consensus size: 111
3021048 GCTTCCCAGT
* * * *
3021058 TTCAGAGCCAATTTCAACTTCATAGCGAATGATATTGGACTCAAGAAAACACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGAAAACACAAGCTCAACTTCA
* *
3021123 TAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTTTAGTTTCA
66 CAGCGAAGAGGCGACTGACTGTCAACAAACAACTTTTTTAGTTTCA
* * * *
3021169 TTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAGCACAAGCTCAACTTCA
1 TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGAAAACACAAGCTCAACTTCA
** * *
3021234 CAGCGAAGAGGCGGTTGGCTGTCAATAAACAA
66 CAGCGAAGAGGCGACTGACTGTCAACAAACAA
3021266 TCTCCCAGTT
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
111 83 1.00
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.24
Consensus pattern (111 bp):
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTAGACTCAAGAAAACACAAGCTCAACTTCA
CAGCGAAGAGGCGACTGACTGTCAACAAACAACTTTTTTAGTTTCA
Found at i:3023119 original size:2 final size:2
Alignment explanation
Indices: 3023106--3023145 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
3023096 GTATTATTAA
*
3023106 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3023146 TAATTATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3023331 original size:20 final size:20
Alignment explanation
Indices: 3023302--3023340 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3023292 TACGATTAAC
* *
3023302 ATTTTCTTTGTTTTTTACTG
1 ATTTTATTTGTTATTTACTG
3023322 ATTTTATTTGTTATTTACT
1 ATTTTATTTGTTATTTACT
3023341 TTGTATTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (20 bp):
ATTTTATTTGTTATTTACTG
Found at i:3023553 original size:12 final size:12
Alignment explanation
Indices: 3023538--3023580 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
3023528 GTTATTTAAA
3023538 CGGGTATCGGGC
1 CGGGTATCGGGC
* *
3023550 CGGGTAACGAGC
1 CGGGTATCGGGC
3023562 CGGGTATCGGGC
1 CGGGTATCGGGC
*
3023574 TGGGTAT
1 CGGGTAT
3023581 ATATATATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.14, C:0.21, G:0.47, T:0.19
Consensus pattern (12 bp):
CGGGTATCGGGC
Found at i:3023587 original size:4 final size:4
Alignment explanation
Indices: 3023578--3023673 Score: 64
Period size: 4 Copynumber: 26.0 Consensus size: 4
3023568 TCGGGCTGGG
* * * *
3023578 TATA TATA TATT TAAA T-TA AATA TATA AATA T-TA TATA TATA T-TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * * *
3023623 -ATT TAAA T-TA AATG TAT- TA-A TAT- TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
3023666 TATA TATA
1 TATA TATA
3023674 GAAAATAATT
Statistics
Matches: 69, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
3 15 0.22
4 54 0.78
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:3023619 original size:6 final size:6
Alignment explanation
Indices: 3023578--3023673 Score: 64
Period size: 6 Copynumber: 17.3 Consensus size: 6
3023568 TCGGGCTGGG
* * * *
3023578 TATATA TATATT TAAAT- TAAATA TATAAA TAT-TA TATATA TAT-TA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
* * * *
3023623 -ATTTA AAT-TA AATGTA T-TA-A TAT-TA TATATA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
3023666 TATATA TA
1 TATATA TA
3023674 GAAAATAATT
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
4 4 0.05
5 24 0.32
6 47 0.63
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:3023627 original size:36 final size:35
Alignment explanation
Indices: 3023578--3023656 Score: 124
Period size: 36 Copynumber: 2.3 Consensus size: 35
3023568 TCGGGCTGGG
3023578 TATATATA-TATTTAAATTAAATATATAAATATTA
1 TATATATATTATTTAAATTAAATATATAAATATTA
* *
3023612 TATATATATTAATTTAAATTAAATGTATTAATATTA
1 TATATATATT-ATTTAAATTAAATATATAAATATTA
3023648 TATATATAT
1 TATATATAT
3023657 ATATATATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
34 8 0.20
35 1 0.02
36 32 0.78
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (35 bp):
TATATATATTATTTAAATTAAATATATAAATATTA
Found at i:3027244 original size:1 final size:1
Alignment explanation
Indices: 3027238--3027265 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
3027228 AATTATCGAG
3027238 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
3027266 GGTTTCAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:3030474 original size:43 final size:43
Alignment explanation
Indices: 3030360--3030482 Score: 160
Period size: 43 Copynumber: 2.9 Consensus size: 43
3030350 AAGGTAATTA
*
3030360 GCGGTGTTTGTTT-TAAAATGCCCCTATA-AACCTTGACTATTT
1 GCGGTGTTTGTTTCTAAAATGCCGCTATAGAA-CTTGACTATTT
* *
3030402 GTGGTGTTTGTTTCCAAAATGCCGCTATAGAACTTGACTATTT
1 GCGGTGTTTGTTTCTAAAATGCCGCTATAGAACTTGACTATTT
** * *
3030445 GCGGTGTTTGTTTCTAAAACACCGTTATAGATCTTGAC
1 GCGGTGTTTGTTTCTAAAATGCCGCTATAGAACTTGAC
3030483 CTTTTGTAGT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 12 0.17
43 56 0.80
44 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (43 bp):
GCGGTGTTTGTTTCTAAAATGCCGCTATAGAACTTGACTATTT
Found at i:3032469 original size:65 final size:64
Alignment explanation
Indices: 3032341--3032496 Score: 231
Period size: 65 Copynumber: 2.4 Consensus size: 64
3032331 ACACCCTATT
* *
3032341 TCGAATGCATTTTATGTACCGATGCACAACCATGCATCGATGCACTCTTGAATATATTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCCTGAATATATTGAAACA
** *
3032405 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACTCCTGGCTATTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACA-ACCATGCATCGATGCACTCCTGAATATATTGAAACA
* * *
3032470 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
3032497 TAGGTCTTAT
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
64 27 0.33
65 56 0.67
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACAACCATGCATCGATGCACTCCTGAATATATTGAAACA
Found at i:3042992 original size:194 final size:193
Alignment explanation
Indices: 3042643--3042992 Score: 531
Period size: 194 Copynumber: 1.8 Consensus size: 193
3042633 TATTGGTGAC
*
3042643 GTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGAC
1 GTTATGCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGAC
* * * * *
3042708 AATATCTCTTTTGTCACATATAAGTTGATTTTAATGCATTATTTTTTACAATATAAATTATCAAT
66 AATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCTGTGACAATATAAATCATCAAT
** *
3042773 AATGAAATCTTATTTAATTTAGTGACGTAACCAATTGTCATAAAATATAAATTATAAAGTGGT
131 AATGAAATCTTACATAATCTAGTGACGTAACCAATTGTCATAAAATATAAATTATAAAGTGGT
* *
3042836 GTTATGCATAAACGTCATTCATAATATTATTAGGTAAC-ATTTATATTATGTCACTAAAAATTTG
1 GTTATGCATAAACATCATTCATAATATTATTAGGTAACGA--TATATTATGTCACTAAAAATGTG
* * *
3042900 ACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATTATCTGTGACGATATAAATCATCA
64 ACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCTGTGACAATATAAATCATCA
* *
3042965 ATAATTAAATTTTACATAATCTAGTGAC
129 ATAATGAAATCTTACATAATCTAGTGAC
3042993 ATAATTAGTT
Statistics
Matches: 139, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
192 1 0.01
193 36 0.26
194 102 0.73
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (193 bp):
GTTATGCATAAACATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAATGTGAC
AATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCTGTGACAATATAAATCATCAAT
AATGAAATCTTACATAATCTAGTGACGTAACCAATTGTCATAAAATATAAATTATAAAGTGGT
Found at i:3043063 original size:194 final size:193
Alignment explanation
Indices: 3042638--3043116 Score: 496
Period size: 194 Copynumber: 2.5 Consensus size: 193
3042628 CACTATATTG
* * * * * *
3042638 GTGACGTTATGCATAATCATCATTCATAATATTATTAGGTAACGATATATTATGTCACTAAAAAT
1 GTGACATTATACATAAACGTCATCCATAATACTATTAGGTAACGATATATTATGTCACTAAAAAT
* * * * *
3042703 GTGACAATATCTCTTTTGTCACATATAAGTTGATTTTAATGCATTATTTTTTACAATATAAATTA
66 GTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCTGTGACAATATAAATCA
** * *
3042768 TCAATAATGAAATCTTATTTAATTTAGTGACGTAACCAATTGTCATAAAATATAAATTATAAA
131 TCAATAATGAAATCTTACATAATCTAGTGACATAACCAATTGTCATAAAATATAAATTATAAA
*** * * *
3042831 GTGGTGTTATGCATAAACGTCATTCATAATATTATTAGGTAAC-ATTTATATTATGTCACTAAAA
1 GTGACATTATACATAAACGTCATCCATAATACTATTAGGTAACGA--TATATTATGTCACTAAAA
* * * *
3042895 ATTTGACAATATCTCTTTCGTCACATATAGGTTGATTTTAATGTATTATCTGTGACGATATAAAT
64 ATGTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCTGTGACAATATAAAT
* * ** * ** * *
3042960 CATCAATAATTAAATTTTACATAATCTAGTGACATAATTAGTTGTCATTGAATATTAATTATATA
129 CATCAATAATGAAATCTTACATAATCTAGTGACATAACCAATTGTCATAAAATATAAATTATAAA
* * * * * * * * *
3043025 GTGACATTATATATAAATGTCATCCATGCA-ACTATTAGGTGATGATATACTACGTTACTAACAA
1 GTGACATTATACATAAACGTCATCCAT-AATACTATTAGGTAACGATATATTATGTCACTAAAAA
* *
3043089 TGTGACAAT-TTTCTTTTCGTCACGTATA
65 TGTGACAATATCTC-TTTCGTCACATATA
3043117 CAATGAAATT
Statistics
Matches: 237, Mismatches: 44, Indels: 10
0.81 0.15 0.03
Matches are distributed among these distances:
192 4 0.02
193 75 0.32
194 156 0.66
195 2 0.01
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (193 bp):
GTGACATTATACATAAACGTCATCCATAATACTATTAGGTAACGATATATTATGTCACTAAAAAT
GTGACAATATCTCTTTCGTCACATATAAGTTGATTTTAATGCATTATCTGTGACAATATAAATCA
TCAATAATGAAATCTTACATAATCTAGTGACATAACCAATTGTCATAAAATATAAATTATAAA
Found at i:3044700 original size:64 final size:65
Alignment explanation
Indices: 3044631--3044785 Score: 204
Period size: 65 Copynumber: 2.4 Consensus size: 65
3044621 ACACCCTATT
* *
3044631 TCGAATGCATTTTGTGTACCGATGCATAG-CCATGCATCGATGCACTCTTGAATATATTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCATAGACCACGCATCGATGCACTCCTGAATATATTGAAACA
* * ** *
3044695 TCGAATGCATTTTGTTTACTGATGCATAGACCACGCATCGATGCACTCCTGGCTATTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCATAGACCACGCATCGATGCACTCCTGAATATATTGAAACA
* * * *
3044760 TCGAATGTAATTAGTGTAACGATGCA
1 TCGAATGCATTTTGTGTACCGATGCA
3044786 CCTCAGGTGT
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
64 27 0.35
65 50 0.65
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.32
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCATAGACCACGCATCGATGCACTCCTGAATATATTGAAACA
Found at i:3046926 original size:20 final size:20
Alignment explanation
Indices: 3046903--3046952 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
3046893 CAGATACTGT
* *
3046903 AAGAACAATACATGTATTAC
1 AAGAACAATAAAGGTATTAC
* **
3046923 AAGAACAGTAAAGGTATTGT
1 AAGAACAATAAAGGTATTAC
3046943 AAGAACAATA
1 AAGAACAATA
3046953 TTGATATTAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (20 bp):
AAGAACAATAAAGGTATTAC
Found at i:3047001 original size:52 final size:52
Alignment explanation
Indices: 3046942--3047101 Score: 200
Period size: 52 Copynumber: 3.3 Consensus size: 52
3046932 AAAGGTATTG
*
3046942 TAAGAACAATATTGATATTATTATTGATACTAAAAGAATAGTAACGATACTA
1 TAAGAACAATATCGATATTATTATTGATACTAAAAGAATAGTAACGATACTA
* * *
3046994 TAAGAACAATATCG--------A-TG-T--TACAAGAATAGTATCAATACTA
1 TAAGAACAATATCGATATTATTATTGATACTAAAAGAATAGTAACGATACTA
3047034 TAAGAACAATATCGATATTATTATTGATACTAAAAGAATAGTAACGATACTA
1 TAAGAACAATATCGATATTATTATTGATACTAAAAGAATAGTAACGATACTA
3047086 TAAGAACAATATCGAT
1 TAAGAACAATATCGAT
3047102 GTTACAAGAA
Statistics
Matches: 89, Mismatches: 7, Indels: 24
0.74 0.06 0.20
Matches are distributed among these distances:
40 33 0.37
42 1 0.01
43 2 0.02
44 1 0.01
48 1 0.01
49 2 0.02
50 1 0.01
52 48 0.54
ACGTcount: A:0.48, C:0.10, G:0.12, T:0.30
Consensus pattern (52 bp):
TAAGAACAATATCGATATTATTATTGATACTAAAAGAATAGTAACGATACTA
Found at i:3047009 original size:20 final size:20
Alignment explanation
Indices: 3046967--3047148 Score: 101
Period size: 20 Copynumber: 9.5 Consensus size: 20
3046957 TATTATTATT
* * * *
3046967 GATACTAAAAGAATAGTAAC
1 GATACTATAAGAACAATATC
3046987 GATACTATAAGAACAATATC
1 GATACTATAAGAACAATATC
** * * *
3047007 GATGTTACAAGAATAGTATC
1 GATACTATAAGAACAATATC
*
3047027 AATACTATAAGAACAATATC
1 GATACTATAAGAACAATATC
* *
3047047 GATA-T-T------ATTATT
1 GATACTATAAGAACAATATC
* * * *
3047059 GATACTAAAAGAATAGTAAC
1 GATACTATAAGAACAATATC
3047079 GATACTATAAGAACAATATC
1 GATACTATAAGAACAATATC
** * * *
3047099 GATGTTACAAGAATAGTATC
1 GATACTATAAGAACAATATC
*
3047119 AATACTATAAGAACAATATC
1 GATACTATAAGAACAATATC
*
3047139 GATATTATAA
1 GATACTATAA
3047149 CCCAGAAAAC
Statistics
Matches: 115, Mismatches: 39, Indels: 16
0.68 0.23 0.09
Matches are distributed among these distances:
12 8 0.07
13 1 0.01
18 1 0.01
19 1 0.01
20 104 0.90
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (20 bp):
GATACTATAAGAACAATATC
Found at i:3047016 original size:92 final size:91
Alignment explanation
Indices: 3046895--3047146 Score: 384
Period size: 92 Copynumber: 2.7 Consensus size: 91
3046885 GTATAATACA
* * * * *
3046895 GATACTGTAAGAACAATA-C-ATGTATTACAAGAACAGTA-AAGGTATTGTAAGAACAATATTGA
1 GATACTATAAGAACAATATCGATG--TTACAAGAATAGTACAA--TACTATAAGAACAATATCGA
3046957 TATTATTATTGATACTAAAAGAATAGTAAC
62 TATTATTATTGATACTAAAAGAATAGTAAC
3046987 GATACTATAAGAACAATATCGATGTTACAAGAATAGTATCAATACTATAAGAACAATATCGATAT
1 GATACTATAAGAACAATATCGATGTTACAAGAATAGTA-CAATACTATAAGAACAATATCGATAT
3047052 TATTATTGATACTAAAAGAATAGTAAC
65 TATTATTGATACTAAAAGAATAGTAAC
3047079 GATACTATAAGAACAATATCGATGTTACAAGAATAGTATCAATACTATAAGAACAATATCGATAT
1 GATACTATAAGAACAATATCGATGTTACAAGAATAGTA-CAATACTATAAGAACAATATCGATAT
3047144 TAT
65 TAT
3047147 AACCCAGAAA
Statistics
Matches: 151, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
92 145 0.96
93 1 0.01
94 5 0.03
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.29
Consensus pattern (91 bp):
GATACTATAAGAACAATATCGATGTTACAAGAATAGTACAATACTATAAGAACAATATCGATATT
ATTATTGATACTAAAAGAATAGTAAC
Found at i:3047032 original size:40 final size:40
Alignment explanation
Indices: 3046975--3047141 Score: 181
Period size: 40 Copynumber: 3.9 Consensus size: 40
3046965 TTGATACTAA
*
3046975 AAGAATAGTAACGATACTATAAGAACAATATCGATGTTAC
1 AAGAATAGTAACAATACTATAAGAACAATATCGATGTTAC
* *
3047015 AAGAATAGTATCAATACTATAAGAACAATATCGATATTATTATTGATACTAA
1 AAGAATAGTAACAATACTATAAGAACAATATCG--------A-TG-T--TAC
*
3047067 AAGAATAGTAACGATACTATAAGAACAATATCGATGTTAC
1 AAGAATAGTAACAATACTATAAGAACAATATCGATGTTAC
*
3047107 AAGAATAGTATCAATACTATAAGAACAATATCGAT
1 AAGAATAGTAACAATACTATAAGAACAATATCGAT
3047142 ATTATAACCC
Statistics
Matches: 107, Mismatches: 8, Indels: 24
0.77 0.06 0.17
Matches are distributed among these distances:
40 66 0.62
42 1 0.01
43 2 0.02
44 1 0.01
48 1 0.01
49 2 0.02
50 1 0.01
52 33 0.31
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.28
Consensus pattern (40 bp):
AAGAATAGTAACAATACTATAAGAACAATATCGATGTTAC
Found at i:3053860 original size:44 final size:44
Alignment explanation
Indices: 3053797--3053899 Score: 152
Period size: 44 Copynumber: 2.3 Consensus size: 44
3053787 TATACTATTT
3053797 TATTAAATGATATTCAGATGATTTGAGTATAAATTACTCAATAC
1 TATTAAATGATATTCAGATGATTTGAGTATAAATTACTCAATAC
* * *
3053841 TATTAAATGGTATTTAGATGATTTGTGTATAAATTACTCAATAC
1 TATTAAATGATATTCAGATGATTTGAGTATAAATTACTCAATAC
* *
3053885 ATTTTATATGATATT
1 -TATTAAATGATATT
3053900 TTATAAAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 41 0.79
45 11 0.21
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.44
Consensus pattern (44 bp):
TATTAAATGATATTCAGATGATTTGAGTATAAATTACTCAATAC
Found at i:3060007 original size:4 final size:4
Alignment explanation
Indices: 3059990--3060022 Score: 57
Period size: 4 Copynumber: 8.0 Consensus size: 4
3059980 TATTCTAAAC
3059990 ATTT ATTAT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATT-T ATTT ATTT ATTT ATTT ATTT ATTT
3060023 TGTGTGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 24 0.86
5 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (4 bp):
ATTT
Found at i:3065186 original size:22 final size:22
Alignment explanation
Indices: 3065114--3065187 Score: 69
Period size: 22 Copynumber: 3.4 Consensus size: 22
3065104 CGGAAGTTTC
*
3065114 TTAGCACT-AGTACTAAATTGCA
1 TTAGCACTGA-TACTAAAGTGCA
* * * *
3065136 TCAGCATTGATACGAAAGTTCA
1 TTAGCACTGATACTAAAGTGCA
* *
3065158 TTCGCACTGATACTAAAGTGCT
1 TTAGCACTGATACTAAAGTGCA
3065180 TTAGCACT
1 TTAGCACT
3065188 ACTGTTATAT
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
22 38 0.97
23 1 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.31
Consensus pattern (22 bp):
TTAGCACTGATACTAAAGTGCA
Found at i:3067519 original size:2 final size:2
Alignment explanation
Indices: 3067441--3067500 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
3067431 GCTGTTGGTG
3067441 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3067483 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
3067501 GTTTAATCCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3085709 original size:18 final size:18
Alignment explanation
Indices: 3085688--3085722 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3085678 AATTTACTTC
* *
3085688 AGAAACTAAACTTAATTG
1 AGAAACCAAACTGAATTG
3085706 AGAAACCAAACTGAATT
1 AGAAACCAAACTGAATT
3085723 CGAATATAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.14, G:0.11, T:0.23
Consensus pattern (18 bp):
AGAAACCAAACTGAATTG
Found at i:3085874 original size:13 final size:13
Alignment explanation
Indices: 3085858--3085887 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3085848 AAGTCAACGA
*
3085858 TCAATGGTTAAAG
1 TCAATGGTCAAAG
3085871 TCAATGGTCAAAG
1 TCAATGGTCAAAG
3085884 TCAA
1 TCAA
3085888 CAGTCAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (13 bp):
TCAATGGTCAAAG
Found at i:3088297 original size:23 final size:23
Alignment explanation
Indices: 3088267--3088319 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
3088257 TAGTCATAGG
3088267 TGCATTTTGCTTAATGTATGTAT
1 TGCATTTTGCTTAATGTATGTAT
*
3088290 TGCATTTTGCTTGATGTATGTAT
1 TGCATTTTGCTTAATGTATGTAT
*
3088313 TGTATTT
1 TGCATTT
3088320 ACCGAATGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.08, G:0.19, T:0.55
Consensus pattern (23 bp):
TGCATTTTGCTTAATGTATGTAT
Found at i:3088420 original size:54 final size:54
Alignment explanation
Indices: 3088335--3088613 Score: 400
Period size: 54 Copynumber: 5.2 Consensus size: 54
3088325 ATGAGTACTA
* * *
3088335 TGTGTGCAACTTAAAAAAATT-ATAATGAGTTTATGAATTTTCATATTGGCACTG
1 TGTGTGCAACTT-AAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
* *
3088389 TGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
* * *
3088443 TGTATGCAACTTAAGAAATTCATAATAAATTTATGAATTTCCCTATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
* *
3088497 TTTGTGCAACTTAAAAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
* * * *
3088551 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTT-CGTATTAGCACTA
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
*
3088604 TTTGTGCAAC
1 TGTGTGCAAC
3088614 CCCACGTAAT
Statistics
Matches: 203, Mismatches: 21, Indels: 3
0.89 0.09 0.01
Matches are distributed among these distances:
53 26 0.13
54 177 0.87
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (54 bp):
TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
Found at i:3088636 original size:54 final size:53
Alignment explanation
Indices: 3088331--3088676 Score: 271
Period size: 54 Copynumber: 6.4 Consensus size: 53
3088321 CCGAATGAGT
** * * * *
3088331 ACTATGTGTGCAACTTAAAAAAATT-ATAATGAGTTTATGAATTTTCATATTGGC
1 ACTATGTGTGCAAC-CCAAGAAATTCAAAATAAGTTTATGAA-TTTCGTATTGGC
* * ** *
3088385 ACTGTGTGTGTAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGC
1 ACTATGTGTGCAACCCAAGAAATTCAAAATAAGTTTATGAATTT-CGTATTGGC
* * ** * * *
3088439 ACTGTGTATGCAACTTAAGAAATTCATAATAAATTTATGAATTTCCCTATTGGC
1 ACTATGTGTGCAACCCAAGAAATTCAAAATAAGTTTATGAATTT-CGTATTGGC
* * ** * * *
3088493 ACTGTTTGTGCAACTTAAAAAATTCATAATAAGTTTATGAATTTCCATATTGGC
1 ACTATGTGTGCAACCCAAGAAATTCAAAATAAGTTTATGAATTT-CGTATTGGC
* * * *
3088547 ACTGTGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCGTATTAGC
1 ACTATGTGTGCAACCCAAGAAATTCAAAATAAGTTTATGAATTTCGTATTGGC
* * * * * * *
3088600 ACTATTTGTGCAACCCCACGTAATTTAAAATGAGTTTGTGAATTACCGTATTGGC
1 ACTATGTGTGCAA-CCCAAGAAATTCAAAATAAGTTTATGAATT-TCGTATTGGC
* *
3088655 ACTACGTGTGCAAACCATAGAA
1 ACTATGTGTGCAACCCA-AGAA
3088677 TTTATAATGA
Statistics
Matches: 251, Mismatches: 36, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
53 29 0.12
54 201 0.80
55 21 0.08
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (53 bp):
ACTATGTGTGCAACCCAAGAAATTCAAAATAAGTTTATGAATTTCGTATTGGC
Found at i:3088636 original size:108 final size:108
Alignment explanation
Indices: 3088335--3088667 Score: 337
Period size: 108 Copynumber: 3.1 Consensus size: 108
3088325 ATGAGTACTA
* * * * * * * * * *
3088335 TGTGTGCAACTTAAAAAAATT-ATAATGAGTTTATGAATTTTCATATTGGCACTGTGTGTGTAAC
1 TGTGTGCAACCT-AAGAAATTCATAATAAATTTATGAATTTCCCTATTAGCACTATTTGTGCAAC
** * *
3088399 TTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTG
65 CCAAAAAATTCAAAATAAGTTTATGAATTTCCGTATTGGCACTG
* * * * *
3088443 TGTATGCAACTTAAGAAATTCATAATAAATTTATGAATTTCCCTATTGGCACTGTTTGTGCAACT
1 TGTGTGCAACCTAAGAAATTCATAATAAATTTATGAATTTCCCTATTAGCACTATTTGTGCAACC
* * *
3088508 TAAAAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTG
66 CAAAAAATTCAAAATAAGTTTATGAATTTCCGTATTGGCACTG
* *
3088551 TGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTT-CGTATTAGCACTATTTGTGCAACC
1 TGTGTGCAACCTAAGAAATTCATAATAAATTTATGAATTTCCCTATTAGCACTATTTGTGCAA-C
*** * * * * *
3088615 CCACGTAATTTAAAATGAGTTTGTGAATTACCGTATTGGCACTA
65 CCAAAAAATTCAAAATAAGTTTATGAATTTCCGTATTGGCACTG
*
3088659 CGTGTGCAA
1 TGTGTGCAA
3088668 ACCATAGAAT
Statistics
Matches: 194, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
107 26 0.13
108 168 0.87
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (108 bp):
TGTGTGCAACCTAAGAAATTCATAATAAATTTATGAATTTCCCTATTAGCACTATTTGTGCAACC
CAAAAAATTCAAAATAAGTTTATGAATTTCCGTATTGGCACTG
Found at i:3088667 original size:162 final size:162
Alignment explanation
Indices: 3088331--3088667 Score: 444
Period size: 162 Copynumber: 2.1 Consensus size: 162
3088321 CCGAATGAGT
* * *
3088331 ACTATGTGTGCAACTTAAAAAAATTATAATGAGTTTATGAATTTTCATATTGGCACTGTGTGTGT
1 ACTATGTGTGCAACTTAAAAAAATTATAATAAGTTTATGAATTTCCATATTGGCACTGTGTGTGC
* * * **
3088396 AACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGTGTATGCAACTTAAGAAA
66 AACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTAGCACTATGTATGCAACCCAAGAAA
* *
3088461 TTCATAATAAATTTATGAATTTCCCTATTGGC
131 TTCAAAATAAATTTATGAATTACCCTATTGGC
* *
3088493 ACTGTTTGTGCAACTT-AAAAAATTCATAATAAGTTTATGAATTTCCATATTGGCACTGTGTGTG
1 ACTATGTGTGCAACTTAAAAAAATT-ATAATAAGTTTATGAATTTCCATATTGGCACTGTGTGTG
* * * *
3088557 CAACCTAAGAAATTCATAATAAGTTTATGAATTT-CGTATTAGCACTATTTGTGCAACCCCACGT
65 CAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTAGCACTATGTATGCAA-CCCAAGA
* * * * *
3088621 AATTTAAAATGAGTTTGTGAATTACCGTATTGGC
129 AATTCAAAATAAATTTATGAATTACCCTATTGGC
*
3088655 ACTACGTGTGCAA
1 ACTATGTGTGCAA
3088668 ACCATAGAAT
Statistics
Matches: 149, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
161 26 0.17
162 123 0.83
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.37
Consensus pattern (162 bp):
ACTATGTGTGCAACTTAAAAAAATTATAATAAGTTTATGAATTTCCATATTGGCACTGTGTGTGC
AACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTAGCACTATGTATGCAACCCAAGAAA
TTCAAAATAAATTTATGAATTACCCTATTGGC
Found at i:3089712 original size:54 final size:54
Alignment explanation
Indices: 3089648--3089980 Score: 427
Period size: 54 Copynumber: 6.1 Consensus size: 54
3089638 TGGGTACTAA
* *
3089648 GTGTGCAACTTAAGACATTCATAATGAA-CTTATGAATTTCCGTATTGGCACTGT
1 GTGTGCAACTTAAGAAATTCATAAT-AAGTTTATGAATTTCCGTATTGGCACTGT
*
3089702 GTGTACAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGT
1 GTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGT
* ** *
3089756 GTGTTCAACTTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTGGCATTGT
1 GTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGT
** *
3089810 GTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCATTATTGGCACTAT
1 GTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGT
* * *
3089864 GTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCATTAT
1 GTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGT
** * * * * * **
3089918 GTGTGCAACCCCACGTAATTCATAATGAGTTTGTGAATTAT-CGTATTGACACTAC
1 GTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATT-TCCGTATTGGCACTGT
3089973 GTGTGCAA
1 GTGTGCAA
3089981 ACCATAGAAT
Statistics
Matches: 251, Mismatches: 25, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
53 2 0.01
54 204 0.81
55 44 0.18
56 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (54 bp):
GTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGGCACTGT
Found at i:3092826 original size:11 final size:11
Alignment explanation
Indices: 3092811--3092841 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
3092801 GATACGGCGC
3092811 AGGCGGATGTG
1 AGGCGGATGTG
*
3092822 GGGCGGATGTG
1 AGGCGGATGTG
3092833 AGGCGGATG
1 AGGCGGATG
3092842 CAGGCGGGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.16, C:0.10, G:0.58, T:0.16
Consensus pattern (11 bp):
AGGCGGATGTG
Found at i:3097550 original size:54 final size:54
Alignment explanation
Indices: 3097486--3097819 Score: 406
Period size: 54 Copynumber: 6.2 Consensus size: 54
3097476 ATGGGTACTA
* * *
3097486 TGTGTACAACTTAAGAAATTCATAATGAGTTTATGAAATTT-TGTATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATG-AATTTCTATATTGGCACTG
**
3097540 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTATATTGGCACTG
3097594 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTT-TCATATTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCT-ATATTGGCACTG
* * * *
3097648 TGTGTGCAACTTAAGAAATTTATAATAAGTTTAAGAATTTCAATTTTGGCACTG
1 TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTATATTGGCACTG
* * *
3097702 TGTGTGCAAGC-TAAGAAATTCATAATAAGTTTATGGATTTCTGTATTGGCACTA
1 TGTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATTTCTATATTGGCACTG
* ** * * * * *
3097756 TATGTGCAACCCCACGTAATTCATAATGAGTTTGTGAATTATC-ATATTGGCACTA
1 TGTGTGCAA-CTTAAGAAATTCATAATAAGTTTATGAATT-TCTATATTGGCACTG
*
3097811 CGTGTGCAA
1 TGTGTGCAA
3097820 ACCATAGAAT
Statistics
Matches: 246, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
53 5 0.02
54 198 0.80
55 41 0.17
56 2 0.01
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (54 bp):
TGTGTGCAACTTAAGAAATTCATAATAAGTTTATGAATTTCTATATTGGCACTG
Found at i:3097764 original size:162 final size:163
Alignment explanation
Indices: 3097482--3097819 Score: 448
Period size: 162 Copynumber: 2.1 Consensus size: 163
3097472 CCGAATGGGT
* * * **
3097482 ACTATGTGTACAACTTAAGAAATTCATAATGAGTTTATGAAATTTTGTATTGGCACTGTGTGTGC
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTAAGAAATTTAATATTGGCACTGTGTGTGC
* * **
3097547 AACTTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGGCACTGTGTGTGCAA-CTTAAGAA
66 AACTTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGGCACTATATGTGCAACCCCAAGAA
*
3097611 ATTCATAATAAGTTTATGAATTTTCATATTGGC
131 ATTCATAATAAGTTTATGAATTATCATATTGGC
* * *
3097644 ACTGTGTGTGCAACTTAAGAAATTTATAATAAGTTTAAG-AATTTCAATTTTGGCACTGTGTGTG
1 ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTAAGAAATTT-AATATTGGCACTGTGTGTG
* ** *
3097708 CAAGC-TAAGAAATTCATAATAAGTTTATGGATTTCTGTATTGGCACTATATGTGCAACCCCACG
65 CAA-CTTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGGCACTATATGTGCAACCCCAAG
* * *
3097772 TAATTCATAATGAGTTTGTGAATTATCATATTGGC
129 AAATTCATAATAAGTTTATGAATTATCATATTGGC
*
3097807 ACTACGTGTGCAA
1 ACTATGTGTGCAA
3097820 ACCATAGAAT
Statistics
Matches: 151, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
161 5 0.03
162 100 0.66
163 46 0.30
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.37
Consensus pattern (163 bp):
ACTATGTGTGCAACTTAAGAAATTCATAATAAGTTTAAGAAATTTAATATTGGCACTGTGTGTGC
AACTTAAGAAATTCATAATAAGTTTATGAATTTCCCTATTGGCACTATATGTGCAACCCCAAGAA
ATTCATAATAAGTTTATGAATTATCATATTGGC
Found at i:3100177 original size:97 final size:97
Alignment explanation
Indices: 3100006--3100199 Score: 325
Period size: 97 Copynumber: 2.0 Consensus size: 97
3099996 CATATGTGAT
* *
3100006 TCCAAACTTATCCAAGTTATTAGCTTAATTCTAGGTCATCGATGTACTTATTGCAATTAGTATTC
1 TCCAAACTTATCCAAGTTATTAGCTTAATTCCAGGTCATCGATGCACTTATTGCAATTAGTATTC
* *
3100071 AAGTTTATCTCGATCACTTCGGAGTTTCCAGA
66 AAGTTTATCTCAATCACTTCAGAGTTTCCAGA
* * *
3100103 TCCAGACTTATCCAAGTTATTAGCTTAATTCCATGTCATCGATGCACTTATTTCAATTAGTATTC
1 TCCAAACTTATCCAAGTTATTAGCTTAATTCCAGGTCATCGATGCACTTATTGCAATTAGTATTC
3100168 AAGTTTATCTCAATCACTTCAGAGTTTCCAGA
66 AAGTTTATCTCAATCACTTCAGAGTTTCCAGA
3100200 GTAACTCTAT
Statistics
Matches: 90, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
97 90 1.00
ACGTcount: A:0.28, C:0.21, G:0.13, T:0.38
Consensus pattern (97 bp):
TCCAAACTTATCCAAGTTATTAGCTTAATTCCAGGTCATCGATGCACTTATTGCAATTAGTATTC
AAGTTTATCTCAATCACTTCAGAGTTTCCAGA
Found at i:3100901 original size:17 final size:18
Alignment explanation
Indices: 3100870--3100903 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
3100860 CAAAAAACAT
3100870 AAAATATGACATTTTTGA
1 AAAATATGACATTTTTGA
*
3100888 AAAATTTGAC-TTTTTG
1 AAAATATGACATTTTTG
3100904 GGTCAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (18 bp):
AAAATATGACATTTTTGA
Found at i:3102246 original size:20 final size:20
Alignment explanation
Indices: 3102223--3102260 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3102213 TGGGGAATGT
3102223 TTCGAAACT-TTGACGAAATA
1 TTCGAAACTATT-ACGAAATA
3102243 TTCGAAACTATTACGAAA
1 TTCGAAACTATTACGAAA
3102261 ATAGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (20 bp):
TTCGAAACTATTACGAAATA
Found at i:3106407 original size:59 final size:59
Alignment explanation
Indices: 3106308--3106444 Score: 195
Period size: 59 Copynumber: 2.3 Consensus size: 59
3106298 CAGCAGGCTG
** *
3106308 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
* ** *
3106367 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
3106426 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
3106445 CGGTGCTTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
58 1 0.02
59 65 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
Found at i:3112993 original size:29 final size:30
Alignment explanation
Indices: 3112951--3113013 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
3112941 CAAGTCTTAA
* *
3112951 AAAAATTGGGGATC-ATTTCGTAAGTTTT-G
1 AAAAATTGGAGATCGA-TTCGTAAATTTTAG
*
3112980 AAAAGTTGGAGATCGATTCGTAAATTTTAG
1 AAAAATTGGAGATCGATTCGTAAATTTTAG
3113010 AAAA
1 AAAA
3113014 TGGAGGGATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 23 0.79
30 6 0.21
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.33
Consensus pattern (30 bp):
AAAAATTGGAGATCGATTCGTAAATTTTAG
Found at i:3113810 original size:59 final size:59
Alignment explanation
Indices: 3113702--3113838 Score: 177
Period size: 59 Copynumber: 2.3 Consensus size: 59
3113692 CAGTAGGCTG
** * *
3113702 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGGCACGACCTTATGTGT
* ** * *
3113761 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGATGGGTACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGGCACGACCTTATGTGT
3113820 CATATTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
3113839 CGGTGCTTAT
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.02
59 63 0.98
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGATGGGCACGACCTTATGTGT
Found at i:3121623 original size:29 final size:30
Alignment explanation
Indices: 3121577--3121643 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
3121567 TGTACAAGTC
* *
3121577 TTAGAAAAATTGGGGATC-ATTTCGTAAGTT
1 TTAGAAAAATTGGAGATCGA-TTCGTAAATT
*
3121607 TT-GAAAAGTTGGAGATCGATTCGTAAATT
1 TTAGAAAAATTGGAGATCGATTCGTAAATT
3121636 TTAGAAAA
1 TTAGAAAA
3121644 TGGAAGGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.34
Consensus pattern (30 bp):
TTAGAAAAATTGGAGATCGATTCGTAAATT
Found at i:3122430 original size:59 final size:59
Alignment explanation
Indices: 3122331--3122459 Score: 195
Period size: 59 Copynumber: 2.2 Consensus size: 59
3122321 CAGCAGGCTG
** *
3122331 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
* ** *
3122390 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
3122449 CATATTCGGGA
1 CATATTCGGGA
3122460 TAGACCTACG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGGCACGACCTTATGTGT
Found at i:3129913 original size:36 final size:34
Alignment explanation
Indices: 3129867--3129950 Score: 87
Period size: 36 Copynumber: 2.4 Consensus size: 34
3129857 GGCAGGTGTG
* * *
3129867 TGCTCAGTATGCTTGTTCAGATTAGAAGAATTAGA
1 TGCTCAGTATGCTAG-TCAGATCAGAAGAATCAGA
* *
3129902 TGCTCAAGTATGTCTAGTCGGGTCAGAAGAATCAGA
1 TGCTC-AGTATG-CTAGTCAGATCAGAAGAATCAGA
3129938 TGCTCGAGTATGC
1 TGCTC-AGTATGC
3129951 CCATCAGATG
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 6 0.15
36 32 0.78
37 3 0.07
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (34 bp):
TGCTCAGTATGCTAGTCAGATCAGAAGAATCAGA
Found at i:3143253 original size:37 final size:37
Alignment explanation
Indices: 3143203--3143353 Score: 162
Period size: 37 Copynumber: 4.1 Consensus size: 37
3143193 CTAGTTTTAT
* * * *
3143203 ATCAATGACATTCATAACCAACAATAGTAACCCCTAT
1 ATCAATGAAATTCATATCCAACAATACTAACCCCTAC
* * *
3143240 ATCAATAAAATTCATATCTAACAA-ACTAACCCATAC
1 ATCAATGAAATTCATATCCAACAATACTAACCCCTAC
* *
3143276 ATCAATGGAATTCATATCCAACAATACTAACTCCTAC
1 ATCAATGAAATTCATATCCAACAATACTAACCCCTAC
* * * * *
3143313 ATCAATGTAATTCATATCTAATAACACTAA-CTCTAC
1 ATCAATGAAATTCATATCCAACAATACTAACCCCTAC
3143349 ATCAA
1 ATCAA
3143354 AGGAATAACT
Statistics
Matches: 95, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
36 39 0.41
37 56 0.59
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.27
Consensus pattern (37 bp):
ATCAATGAAATTCATATCCAACAATACTAACCCCTAC
Found at i:3143290 original size:73 final size:73
Alignment explanation
Indices: 3143203--3143359 Score: 201
Period size: 73 Copynumber: 2.2 Consensus size: 73
3143193 CTAGTTTTAT
* *
3143203 ATCAAT-GACATTCATAACCAACAATAGTAACCCCTATATCAATAAAATTCATATCTAACAA-AC
1 ATCAATGGA-ATTCATAACCAACAATACTAACCCCTACATCAATAAAATTCATATCTAACAACAC
3143266 TAACCCATAC
65 TAACCC-TAC
* * ** *
3143276 ATCAATGGAATTCATATCCAACAATACTAACTCCTACATCAATGTAATTCATATCTAATAACACT
1 ATCAATGGAATTCATAACCAACAATACTAACCCCTACATCAATAAAATTCATATCTAACAACACT
*
3143341 AACTCTAC
66 AACCCTAC
*
3143349 ATCAAAGGAAT
1 ATCAATGGAAT
3143360 AACTTTATTA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
73 64 0.88
74 9 0.12
ACGTcount: A:0.45, C:0.24, G:0.04, T:0.27
Consensus pattern (73 bp):
ATCAATGGAATTCATAACCAACAATACTAACCCCTACATCAATAAAATTCATATCTAACAACACT
AACCCTAC
Found at i:3153078 original size:27 final size:27
Alignment explanation
Indices: 3153031--3153085 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
3153021 AATTAATGGA
** *
3153031 AAATAATAAAAAAATGATTAATCAATG
1 AAATAATAAAAAAAAAATTAATAAATG
3153058 AAAT-ATAAAAAAAAAACTTAATAAATG
1 AAATAATAAAAAAAAAA-TTAATAAATG
3153085 A
1 A
3153086 GATTATCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.42
27 14 0.58
ACGTcount: A:0.67, C:0.04, G:0.05, T:0.24
Consensus pattern (27 bp):
AAATAATAAAAAAAAAATTAATAAATG
Found at i:3160806 original size:21 final size:21
Alignment explanation
Indices: 3160780--3160819 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
3160770 CCCCCTTTGA
*
3160780 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
3160801 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
3160820 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:3163535 original size:22 final size:22
Alignment explanation
Indices: 3163493--3163534 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
3163483 TCCAGAATGC
3163493 TAGGAGGGAACCGATTCCCCCA
1 TAGGAGGGAACCGATTCCCCCA
*
3163515 TAGG-GGGTACCGATTCCCCC
1 TAGGAGGGAACCGATTCCCCC
3163535 CTGTTCAACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.21, C:0.33, G:0.29, T:0.17
Consensus pattern (22 bp):
TAGGAGGGAACCGATTCCCCCA
Found at i:3167557 original size:90 final size:90
Alignment explanation
Indices: 3167404--3167583 Score: 333
Period size: 90 Copynumber: 2.0 Consensus size: 90
3167394 CTTGATGGAG
3167404 AGTCACTTTACGACTAATGGGATCAGTTTAAGAAGTTATGTTCTAGTTGCCCAAAACATGGGTTA
1 AGTCACTTTACGACTAATGGGATCAGTTTAAGAAGTTATGTTCTAGTTGCCCAAAACATGGGTTA
3167469 ACTGAACAAACAATACTTCAATACT
66 ACTGAACAAACAATACTTCAATACT
* *
3167494 AGTCACTTTACGACTACTGGGATCAGTTTAAGAAGTTATGTTCTAGTTGCTCAAAACATGGGTTA
1 AGTCACTTTACGACTAATGGGATCAGTTTAAGAAGTTATGTTCTAGTTGCCCAAAACATGGGTTA
*
3167559 ACTGAACAAACAATACTTTAATACT
66 ACTGAACAAACAATACTTCAATACT
3167584 TTTATGAAGG
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.31
Consensus pattern (90 bp):
AGTCACTTTACGACTAATGGGATCAGTTTAAGAAGTTATGTTCTAGTTGCCCAAAACATGGGTTA
ACTGAACAAACAATACTTCAATACT
Found at i:3170782 original size:24 final size:24
Alignment explanation
Indices: 3170745--3170812 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
3170735 TCCATCGGAA
3170745 AAAAAAAAAGAAAAAAA-ATAGTTC
1 AAAAAAAAAGAAAAAAAGAT-GTTC
* *
3170769 AAAAAAAGATAAAAAAAGATGTTC
1 AAAAAAAAAGAAAAAAAGATGTTC
* *
3170793 GAAAAATAAAGAGAAAAAGA
1 -AAAAAAAAAGAAAAAAAGA
3170813 GAAAAAGACG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
24 19 0.53
25 17 0.47
ACGTcount: A:0.72, C:0.03, G:0.13, T:0.12
Consensus pattern (24 bp):
AAAAAAAAAGAAAAAAAGATGTTC
Found at i:3170992 original size:12 final size:12
Alignment explanation
Indices: 3170975--3171008 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
3170965 CTTGCCTTAA
3170975 ATATTTAGCCAT
1 ATATTTAGCCAT
3170987 ATATTTAGCCAT
1 ATATTTAGCCAT
3170999 ATATTTAGCC
1 ATATTTAGCC
3171009 TTTTCCACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (12 bp):
ATATTTAGCCAT
Found at i:3171632 original size:2 final size:2
Alignment explanation
Indices: 3171625--3171674 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
3171615 ACGACTGGTG
3171625 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3171666 A- AT AT AT AT
1 AT AT AT AT AT
3171675 TTTCTGAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3171723 original size:20 final size:19
Alignment explanation
Indices: 3171699--3171751 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 19
3171689 AATATATAAC
3171699 ATATATATATATTAAAAAA
1 ATATATATATATTAAAAAA
*
3171718 ACTATATAATATATTTAAAAA
1 A-TATAT-ATATATTAAAAAA
3171739 ATATATTATATAT
1 ATATA-TATATAT
3171752 ATTTTCAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 1 0.03
20 15 0.50
21 14 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATATATATATATTAAAAAA
Found at i:3171755 original size:22 final size:22
Alignment explanation
Indices: 3171699--3171841 Score: 91
Period size: 22 Copynumber: 6.6 Consensus size: 22
3171689 AATATATAAC
*
3171699 ATATATATATATTAAAAAAACT
1 ATATATATATATTTAAAAAACT
3171721 ATATA-ATATATTTAAAAAA-T
1 ATATATATATATTTAAAAAACT
* *
3171741 ATATTATATATATTTTCAAAAGCT
1 ATA-TATATATA-TTTAAAAAACT
* ****
3171765 TTATAT-TAT-TTTTTTGAA-T
1 ATATATATATATTTAAAAAACT
* * *
3171784 ATATATATATATATATATATA-T
1 ATATATATATATTTA-AAAAACT
*
3171806 ATATATATATATTCAAAAAACT
1 ATATATATATATTTAAAAAACT
*
3171828 ATATAATACATATT
1 ATAT-ATATATATT
3171842 ATATTTTAGA
Statistics
Matches: 92, Mismatches: 20, Indels: 17
0.71 0.16 0.13
Matches are distributed among these distances:
19 6 0.07
20 11 0.12
21 20 0.22
22 34 0.37
23 18 0.20
24 3 0.03
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (22 bp):
ATATATATATATTTAAAAAACT
Found at i:3171832 original size:2 final size:2
Alignment explanation
Indices: 3171782--3171817 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3171772 ATTTTTTTGA
3171782 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3171818 TCAAAAAACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3173817 original size:40 final size:40
Alignment explanation
Indices: 3173737--3173822 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 40
3173727 GAACTCTCAA
* * *
3173737 TTTTTCCTAAAGCTCCCTTTGTGGGTTTTCACTCTGAGTT
1 TTTTTCCTAAAGCACCCTTTGGGGGTTTTCACTCTAAGTT
*
3173777 TTTTTACCTAGAGCACCCTTTGGGGGTTTTCACT-TAAGTT
1 TTTTT-CCTAAAGCACCCTTTGGGGGTTTTCACTCTAAGTT
3173817 TTTTTC
1 TTTTTC
3173823 TTTTTTAGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
39 1 0.02
40 15 0.37
41 25 0.61
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (40 bp):
TTTTTCCTAAAGCACCCTTTGGGGGTTTTCACTCTAAGTT
Done.