Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr6
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: 56482370
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1659275 characters in sequence are not A, C, G, or T
File 9 of 172
Found at i:2753485 original size:35 final size:35
Alignment explanation
Indices: 2753446--2753516 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
2753436 GTGCAAATAA
2753446 TTATTCATAAATTTATACTTTGTATATTTCTTTGG
1 TTATTCATAAATTTATACTTTGTATATTTCTTTGG
2753481 TTATTCATAAATTTATACTTTGTATATTTCTTTGG
1 TTATTCATAAATTTATACTTTGTATATTTCTTTGG
2753516 T
1 T
2753517 GTATCCCCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.25, C:0.08, G:0.08, T:0.58
Consensus pattern (35 bp):
TTATTCATAAATTTATACTTTGTATATTTCTTTGG
Found at i:2758685 original size:44 final size:44
Alignment explanation
Indices: 2758581--2758984 Score: 217
Period size: 44 Copynumber: 8.8 Consensus size: 44
2758571 CCGCATCGGG
* * * * * *
2758581 TCTTATCTCCCTAA-AGTCACAGTGGGGCAGACTGAAG-AAGAAA
1 TCTTATCTCCCTAAGA-TTACAGCGGAGCAGATTGAAGCTAGTAA
* *
2758624 TCTTATCTCCCTTAGATTATAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * ** * *
2758668 TCCTATCTCCCTAAGATTACAGTGGAGCAGATT-AAAATAAATGA
1 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCT-AGTAA
* * * * *
2758712 TCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAGGTTGAAGCCAGAAA
1 TCTTATCTCCCT-AAGATTAC---AGCG--GA--G---CAGATTGAAGCTAGTAA
* *
2758766 GCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* * ** * *
2758810 TCCTATCTCCCTAAGATTACAGTGGAGCAGATT-AAAATAAATGA
1 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCT-AGTAA
* * * * *
2758854 TCTTATCTCTCTGAAG-TTACAGTAGAGTAGATCGCATCAGGTTGAAGCCAGAAA
1 TCTTATCTCCCT-AAGATTAC---AGCG--GA--G---CAGATTGAAGCTAGTAA
* *
2758908 GCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAA
1 TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAA
* *
2758952 TCCTATCTCCCTAAGATTACAGTGGAGCAGATT
1 TCTTATCTCCCTAAGATTACAGCGGAGCAGATT
2758985 AAAATAAATG
Statistics
Matches: 269, Mismatches: 62, Indels: 59
0.69 0.16 0.15
Matches are distributed among these distances:
43 35 0.13
44 154 0.57
45 6 0.02
47 8 0.03
49 8 0.03
51 8 0.03
53 4 0.01
54 42 0.16
55 4 0.01
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTAAGATTACAGCGGAGCAGATTGAAGCTAGTAA
Found at i:2758875 original size:142 final size:142
Alignment explanation
Indices: 2758619--2759059 Score: 821
Period size: 142 Copynumber: 3.1 Consensus size: 142
2758609 AGACTGAAGA
* * *
2758619 AGAAATCTTATCTCCCTTAGATTATAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
1 AGAAAGCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
2758684 TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
2758749 CAGGTTGAAGCC
131 CAGGTTGAAGCC
2758761 AGAAAGCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
1 AGAAAGCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
2758826 TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
2758891 CAGGTTGAAGCC
131 CAGGTTGAAGCC
2758903 AGAAAGCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
1 AGAAAGCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
2758968 TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
66 TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
*
2759033 CAGATTGAAGCC
131 CAGGTTGAAGCC
* *
2759045 AGGAATCTTA-CTCCC
1 AGAAAGCTTATCTCCC
2759060 CCAAGCGGTG
Statistics
Matches: 293, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
141 5 0.02
142 288 0.98
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (142 bp):
AGAAAGCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCTATCTCCCTAAGA
TTACAGTGGAGCAGATTAAAATAAATGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCAT
CAGGTTGAAGCC
Found at i:2759003 original size:44 final size:44
Alignment explanation
Indices: 2758909--2759027 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
2758899 AGCCAGAAAG
* * ** *
2758909 CTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAAT
1 CTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAAATAATAAT
* *
2758953 CCTATCTCCCTAAGATTACAGTGGAGCAGATT-AAAATAAATGAT
1 CTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAAAT-AATAAT
* * *
2758997 CTTATCTCTCTGAAG-TTACAGTAGAGTAGAT
1 CTTATCTCCCT-AAGATTACAGTGGAGCAGAT
2759028 CGCATCAGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.05
44 56 0.90
45 3 0.05
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.29
Consensus pattern (44 bp):
CTTATCTCCCTAAGATTACAGTGGAGCAGATTGAAAATAATAAT
Found at i:2766856 original size:4 final size:4
Alignment explanation
Indices: 2766847--2766941 Score: 190
Period size: 4 Copynumber: 23.8 Consensus size: 4
2766837 TTCTTGGAAT
2766847 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
2766895 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
2766942 AATCATGGTT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 91 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:2770038 original size:22 final size:22
Alignment explanation
Indices: 2770006--2770047 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2769996 TATACATGTA
* *
2770006 ATATTACTTGAATAGTTATGAG
1 ATATTAATTGAATAATTATGAG
*
2770028 ATATTAATTGAGTAATTATG
1 ATATTAATTGAATAATTATG
2770048 TCTCCTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.02, G:0.17, T:0.43
Consensus pattern (22 bp):
ATATTAATTGAATAATTATGAG
Found at i:2775078 original size:108 final size:107
Alignment explanation
Indices: 2774857--2775134 Score: 280
Period size: 108 Copynumber: 2.6 Consensus size: 107
2774847 CAATCAGAGT
* * * *
2774857 CTTTGTCTCGTTGAGTATATAATACCCAACCAAACTCATAGAGGAGCACGCGCTTTGGGACATAT
1 CTTTGTCTCGTTGAGTACATAATACCCAACCAAACTCACAGAGGAGCACGCACTTTGAGACATAT
* * *
2774922 CACATTAGCTCATATACAGAGCTGGTTTCACTCAGTAGAAAA
66 CACATTAGCTCATATACAGAGCGGGCTTCACTAAGTAGAAAA
* * * * * *
2774964 CATTGTCTTGTTGAGTACATAATTACCCATCCGAACTCACAGAGGAGCATGTACTTTGAGACATA
1 CTTTGTCTCGTTGAGTACATAA-TACCCAACCAAACTCACAGAGGAGCACGCACTTTGAGACATA
* *
2775029 TCACTTTAGCTCATATACAGAGCCGGGCTT-ACTAAAG-AGCAAA
65 TCACATTAGCTCATATACAGAG-CGGGCTTCACT-AAGTAGAAAA
* * * * ** **
2775072 CTTTGTCTCATTGAG--CAT-AT-CCCAACCGAACTCACAAAAGAGCATACGTTTTGAGACATAT
1 CTTTGTCTCGTTGAGTACATAATACCCAACCAAACTCACAGAGGAGCACGCACTTTGAGACATAT
2775133 CA
66 CA
2775135 TGAGTGAGTA
Statistics
Matches: 143, Mismatches: 25, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
103 36 0.25
104 1 0.01
105 1 0.01
106 3 0.02
107 19 0.13
108 76 0.53
109 7 0.05
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (107 bp):
CTTTGTCTCGTTGAGTACATAATACCCAACCAAACTCACAGAGGAGCACGCACTTTGAGACATAT
CACATTAGCTCATATACAGAGCGGGCTTCACTAAGTAGAAAA
Found at i:2776242 original size:67 final size:67
Alignment explanation
Indices: 2776132--2776432 Score: 345
Period size: 67 Copynumber: 4.5 Consensus size: 67
2776122 CACGTCAAGA
* * * * * *
2776132 CATTAAACATGGGGTATGATGTATAAAATCATAGCTCGACTATAACAACATAGAGAGCCCGCTAG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATAACAACATAAAGAGCTCGCTAG
2776197 GG
66 GG
* *
2776199 CATTAAACATGGGGTATGATGCGTAAGGCCATAGCTCGGCTATAACAACATAAAGAGCTCGCTAG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATAACAACATAAAGAGCTCGCTAG
*
2776264 GA
66 GG
* * * * * *
2776266 CATTAAACATGTGGTATGATGTGTAAGGCCATAGCTCAGCTATGACAACATAAAGAGTTCG-TCG
1 CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATAACAACATAAAGAGCTCGCTAG
2776330 GG
66 GG
* * * *
2776332 ACATTAAACATGGGGTATGATGTGTAAGACCATAACTCGGCTATGACAACATAAAAAG-TCCACT
1 -CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATAACAACATAAAGAGCT-CGCT
**
2776396 AGAA
64 AGGG
** **
2776400 CATTAAATGTAAGGTATGATGTGTAAGACCATA
1 CATTAAACATGGGGTATGATGTGTAAGACCATA
2776433 ACTCAGTTTT
Statistics
Matches: 202, Mismatches: 29, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
66 4 0.02
67 196 0.97
68 2 0.01
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.24
Consensus pattern (67 bp):
CATTAAACATGGGGTATGATGTGTAAGACCATAGCTCGGCTATAACAACATAAAGAGCTCGCTAG
GG
Found at i:2777308 original size:9 final size:9
Alignment explanation
Indices: 2777286--2777318 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
2777276 GGCCTATTTG
2777286 TTTATTTA-
1 TTTATTTAT
2777294 TTTATTTAT
1 TTTATTTAT
*
2777303 TTTATTTCT
1 TTTATTTAT
2777312 TTTATTT
1 TTTATTT
2777319 TGAAAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTAT
Found at i:2778146 original size:25 final size:25
Alignment explanation
Indices: 2778113--2778161 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
2778103 TATACCTTTG
2778113 TTTTAAAATCTATTATGTATTATTT
1 TTTTAAAATCTATTATGTATTATTT
* *
2778138 TTTTGAAATTTATTATGTATTATT
1 TTTTAAAATCTATTATGTATTATT
2778162 CACTATTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.61
Consensus pattern (25 bp):
TTTTAAAATCTATTATGTATTATTT
Found at i:2782658 original size:30 final size:29
Alignment explanation
Indices: 2782596--2782658 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
2782586 CCATTTTGGC
*
2782596 AAAATACAAAGGCAATAAAATTTCCTTCA
1 AAAATACAAAGGCAATAAAATTTCCTTAA
**
2782625 AAAATACAAAGGCAATAAGTTATTCCTTAA
1 AAAATACAAAGGCAATAAAAT-TTCCTTAA
2782655 AAAA
1 AAAA
2782659 GCCAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.63
30 11 0.37
ACGTcount: A:0.54, C:0.14, G:0.08, T:0.24
Consensus pattern (29 bp):
AAAATACAAAGGCAATAAAATTTCCTTAA
Found at i:2787413 original size:11 final size:11
Alignment explanation
Indices: 2787387--2787419 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
2787377 TTTTCAAAAA
2787387 AGAAAA-AAAG
1 AGAAAACAAAG
*
2787397 AAAAAACAAAG
1 AGAAAACAAAG
2787408 AGAAAACAAAG
1 AGAAAACAAAG
2787419 A
1 A
2787420 AAGGGGAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (11 bp):
AGAAAACAAAG
Found at i:2790292 original size:34 final size:34
Alignment explanation
Indices: 2790249--2790315 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
2790239 TTTAAGCCCC
2790249 CTTACTTACTATAAGTTTGGAAAACTACTCAACA
1 CTTACTTACTATAAGTTTGGAAAACTACTCAACA
*
2790283 CTTATTTACTATAAGTTTGGAAAACTACTCAAC
1 CTTACTTACTATAAGTTTGGAAAACTACTCAAC
2790316 TGGAAAGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.34
Consensus pattern (34 bp):
CTTACTTACTATAAGTTTGGAAAACTACTCAACA
Found at i:2801393 original size:29 final size:28
Alignment explanation
Indices: 2801320--2801393 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
2801310 TGCGAGTTGT
*
2801320 AAAGTTGCAAGCTTGTTGAAGACAATGAGC
1 AAAG-TGCAAGC-TGTTGAAGACAATAAGC
* * *
2801350 AAAGTACGAGCCTGTTGAAGACAGTAAGC
1 AAAGTGCAAG-CTGTTGAAGACAATAAGC
2801379 AAAGTGCAAGTCTGT
1 AAAGTGCAAG-CTGT
2801394 CAAAGTGTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (28 bp):
AAAGTGCAAGCTGTTGAAGACAATAAGC
Found at i:2801463 original size:44 final size:44
Alignment explanation
Indices: 2801415--2801510 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
2801405 CCTATCAAAT
*
2801415 TGCAAGCCGAAGTGGTGGACAGTCTAAATGCAAACCCGAATGGG
1 TGCAAGCCGAAGTGGAGGACAGTCTAAATGCAAACCCGAATGGG
* * * *
2801459 TGCAAGCCGAAGTGGAGGACGGTCTAAATGCAAGCTCGAGTGGG
1 TGCAAGCCGAAGTGGAGGACAGTCTAAATGCAAACCCGAATGGG
2801503 TGCAAGCC
1 TGCAAGCC
2801511 AAAATGGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.29, C:0.21, G:0.34, T:0.16
Consensus pattern (44 bp):
TGCAAGCCGAAGTGGAGGACAGTCTAAATGCAAACCCGAATGGG
Found at i:2803930 original size:24 final size:23
Alignment explanation
Indices: 2803874--2803930 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
2803864 AAGAACTTCT
*
2803874 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
2803897 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
2803922 ACTTTTATT
1 A-TTTTATT
2803931 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:2804354 original size:18 final size:18
Alignment explanation
Indices: 2804328--2804370 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2804318 AACTGGGAAA
* * *
2804328 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
2804346 AGGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
2804364 AGGATAC
1 AGGATAC
2804371 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:2805835 original size:730 final size:730
Alignment explanation
Indices: 2804435--2806123 Score: 3342
Period size: 730 Copynumber: 2.3 Consensus size: 730
2804425 GGGCCCGGTG
2804435 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2804500 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2804565 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
* * *
2804630 CAAGTATATGATCATACCGATTTTTCAAATTTTCGATATATTCTGATAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
2804695 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGAGCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGAGCACCTCAGGTGCCTCGGGAATTGG
2804760 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2804825 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2804890 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2804955 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2805020 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2805085 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2805150 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2805165 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2805230 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2805295 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
2805360 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
*
2805425 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGAGCACCTCAGGTGCCTCGGGAATTGG
2805490 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2805555 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2805620 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2805685 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2805750 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2805815 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2805880 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2805895 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2805960 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2806025 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
2806090 CAAGTATATGATCATACCGATTTTTTAAATTTTT
196 CAAGTATATGATCATACCGATTTTTTAAATTTTT
2806124 ACAAACAGCA
Statistics
Matches: 955, Mismatches: 4, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
730 955 1.00
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (730 bp):
ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGAGCACCTCAGGTGCCTCGGGAATTGG
TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
AATAATTGTAAAAAC
Found at i:2807565 original size:29 final size:28
Alignment explanation
Indices: 2807492--2807565 Score: 76
Period size: 29 Copynumber: 2.5 Consensus size: 28
2807482 TGCGAGTTGT
*
2807492 AAAGTTGCAAGCTTGTTGAAGACAATGAGC
1 AAAG-TGCAAGC-TGTTGAAGACAATAAGC
* * *
2807522 AAAGTACGAGCCTGTTGAAGACAGTAAGC
1 AAAGTGCAAG-CTGTTGAAGACAATAAGC
2807551 AAAGTGCAAGTCTGT
1 AAAGTGCAAG-CTGT
2807566 CAAAGTGTGA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 31 0.86
30 5 0.14
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (28 bp):
AAAGTGCAAGCTGTTGAAGACAATAAGC
Found at i:2807635 original size:44 final size:44
Alignment explanation
Indices: 2807587--2807682 Score: 147
Period size: 44 Copynumber: 2.2 Consensus size: 44
2807577 CCTATCAAAT
*
2807587 TGCAAGCCGAAGTGGTGGACAGTCTAAATGCAAACCCGAATGGG
1 TGCAAGCCGAAGTGGAGGACAGTCTAAATGCAAACCCGAATGGG
* * * *
2807631 TGCAAGCCGAAGTGGAGGACGGTCTAAATGCAAGCTCGAGTGGG
1 TGCAAGCCGAAGTGGAGGACAGTCTAAATGCAAACCCGAATGGG
2807675 TGCAAGCC
1 TGCAAGCC
2807683 AAAATGGCAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.29, C:0.21, G:0.34, T:0.16
Consensus pattern (44 bp):
TGCAAGCCGAAGTGGAGGACAGTCTAAATGCAAACCCGAATGGG
Found at i:2810102 original size:24 final size:23
Alignment explanation
Indices: 2810046--2810102 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
2810036 AAGAACTTCT
*
2810046 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAACA
2810069 ATTTACTATT-AAAATATTAAAAACA
1 ATTT--TATTAAAAATA-TAAAAACA
2810094 ACTTTTATT
1 A-TTTTATT
2810103 TTATTAAATG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
23 4 0.14
24 10 0.34
25 12 0.41
26 3 0.10
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAACA
Found at i:2810526 original size:18 final size:18
Alignment explanation
Indices: 2810500--2810542 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2810490 AACTGGGAAA
* * *
2810500 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
2810518 AGGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
2810536 AGGATAC
1 AGGATAC
2810543 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:2812007 original size:730 final size:730
Alignment explanation
Indices: 2810607--2814984 Score: 8603
Period size: 730 Copynumber: 6.0 Consensus size: 730
2810597 GGGCCCGGTG
2810607 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2810672 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2810737 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
* * *
2810802 CAAGTATATGATCATACCGATTTTTCAAATTTTCGATATATTCTGATAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
*
2810867 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGAGCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
2810932 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2810997 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2811062 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2811127 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2811192 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2811257 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2811322 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2811337 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2811402 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2811467 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
2811532 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
2811597 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
2811662 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2811727 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2811792 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2811857 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2811922 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2811987 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2812052 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2812067 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2812132 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2812197 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
2812262 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
2812327 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
2812392 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2812457 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2812522 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2812587 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2812652 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2812717 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2812782 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2812797 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2812862 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2812927 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
2812992 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
2813057 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
2813122 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2813187 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2813252 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2813317 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2813382 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2813447 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2813512 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2813527 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2813592 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
2813657 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
2813722 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
2813787 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
2813852 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
2813917 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
2813982 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2814047 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
2814112 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
2814177 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2814242 AATAATTGTAAAAAC
716 AATAATTGTAAAAAC
2814257 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
1 ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
2814322 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
66 TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
*
2814387 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGATGATGATCAGTTCGCGAG
131 GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
* *
2814452 CAAGTATATGATCATACCGATTTTTCAAATTTTCGATATATTCTGAGAAGAATACCAGTCAATTC
196 CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
* *
2814517 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGAGCACCTCAGGTGCCTCAGGAATTGG
261 GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
2814582 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
326 TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
* *
2814647 CCAATGAGACCTTAACATACCAAATGTTCAGATTTTGAAAGAATTCATCCGGAATTACTGCCCGA
391 CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
* **
2814712 ATTACTGGATCCTCGTATGGTGTCCATTGAAACTATGTGAAATAGATAAAAATATTAGTTATATA
456 ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
2814777 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
521 CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
* *
2814842 TGCGCTTCTGACTGTTGGTCTAATAGAAGCTGTATATCTTCAAGAGCGGTAGGCATTCTAACATA
586 TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
*
2814907 ACTCGCCAGATGGTTCCACCTAATTAAATAAGTTTTTAGCATACAATTTTGTTTTAAATCTATGT
651 ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
2814972 AATAATTGTAAAA
716 AATAATTGTAAAA
2814985 TCAAATAAAA
Statistics
Matches: 3631, Mismatches: 17, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
730 3631 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.34
Consensus pattern (730 bp):
ATTGTATAGGCGTTGTTGATGGGTCCATGCTGTCATCCTTTCTCCTTGGATTTAAAGGGCCTCAT
TGTTCCCTTTTGACATGGATTTGCCGACACCTCTGCTCTTCCGGCAACAAATATGGCTTGTCATG
GATCTTAAACCATTGCATGTAATCCGGCGCGCATGCTAACTCTAGGACGATGATCAGTTCGCGAG
CAAGTATATGATCATACCGATTTTTTAAATTTTTGATATATTCTGAGAAGAATACCAGTCAATTC
GTATTTTTTTGCCATAAGTCGATTTTGTGCTCTTTATTGATCACCTCAGGTGCCTCGGGAATTGG
TTTTTAGAATCTAAATTACCGCAACACTCTATCCGTCTGATGCATCTCGACAGTAACATAGTTGA
CCAATGAGACCTTAACATGCCAAATGTTCAGATTTTGAAAGAACTCATCCGGAATTACTGCCCGA
ATTACCGGATCCTCGTATGGTGTCCATTGAAACTATGTGAACGAGATAAAAATATTAGTTATATA
CATAATACTAAATACTAAATATGAAACAACTATTTTATGTATATATATTTTATTTAATACTTACT
TGCGCTTCTGACTGTTGGTCTAATAGAAGCCGTATATCTTCAAGAGCGGTAGGCATTCCAACATA
ACTCGCCAGATGGTTCCACCTAATTAAATAAATTTTTAGCATACAATTTTGTTTTAAATCTATGT
AATAATTGTAAAAAC
Found at i:2815984 original size:30 final size:30
Alignment explanation
Indices: 2815950--2816018 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
2815940 ATTAATTAAA
2815950 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
**
2815980 GAGAGTTTTGAGAAATTTAGGGAGAAATTT
1 GAGAGTTTTGAGAAATTTAAAGAGAAATTT
* *
2816010 AAGATTTTT
1 GAGAGTTTT
2816019 TTGCTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (30 bp):
GAGAGTTTTGAGAAATTTAAAGAGAAATTT
Found at i:2818428 original size:16 final size:16
Alignment explanation
Indices: 2818409--2818440 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2818399 TTAAGCACGA
*
2818409 GGAAGGATTAGCACCC
1 GGAAGGATTAACACCC
2818425 GGAAGGATTAACACCC
1 GGAAGGATTAACACCC
2818441 TCGATACGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.25, G:0.28, T:0.12
Consensus pattern (16 bp):
GGAAGGATTAACACCC
Found at i:2819149 original size:26 final size:25
Alignment explanation
Indices: 2819120--2819232 Score: 102
Period size: 26 Copynumber: 4.4 Consensus size: 25
2819110 AAATGAAACA
*
2819120 AAATAATATATAGAACAATTTGAAGT
1 AAATAATATATA-AACAATTTAAAGT
* *
2819146 AAATAGTATA-AAATAATTTAAAGT
1 AAATAATATATAAACAATTTAAAGT
* * *
2819170 AAATAATATGTAAAACAAATTAAAAT
1 AAATAATATAT-AAACAATTTAAAGT
* * *
2819196 AAATAATACACAAAGCAATTTAAAAT
1 AAATAATATATAAA-CAATTTAAAGT
*
2819222 AAATAACATAT
1 AAATAATATAT
2819233 CAGACAATAA
Statistics
Matches: 69, Mismatches: 15, Indels: 6
0.77 0.17 0.07
Matches are distributed among these distances:
24 19 0.28
25 4 0.06
26 46 0.67
ACGTcount: A:0.60, C:0.05, G:0.06, T:0.28
Consensus pattern (25 bp):
AAATAATATATAAACAATTTAAAGT
Found at i:2819297 original size:28 final size:27
Alignment explanation
Indices: 2819162--2819384 Score: 98
Period size: 26 Copynumber: 7.9 Consensus size: 27
2819152 TATAAAATAA
* **
2819162 TTTAAAGTAAATAATATGTAAAACAAA-
1 TTTAAAATAAATAATATACAAAA-AAAG
* **
2819189 -TTAAAATAAATAATACACAAAGCAA-
1 TTTAAAATAAATAATATACAAAAAAAG
2819214 TTTAAAATAAATAACATATCAGACAATAAAAAG
1 TTTAAAATAAAT-A-ATAT---ACAA-AAAAAG
* **
2819247 TTTAAAATAAATTATATGTAAAAAGAAG
1 TTTAAAATAAATAATATACAAAAA-AAG
* *
2819275 TTTCAAATAAATAATATAC-AAAATAG
1 TTTAAAATAAATAATATACAAAAAAAG
* * *
2819301 TTTTAAAAAATAAATGATGTATATATAAATAA-
1 -TTT--AAAATAAAT-A-ATATACA-AAAAAAG
* * * *
2819333 TTCAAAATAAATAATATA-TATAACAG
1 TTTAAAATAAATAATATACAAAAAAAG
*
2819359 TTTAAAAATAAATAATATATAAAAAA
1 TTT-AAAATAAATAATATACAAAAAA
2819385 TGGATAATAG
Statistics
Matches: 145, Mismatches: 32, Indels: 37
0.68 0.15 0.17
Matches are distributed among these distances:
25 5 0.03
26 32 0.22
27 30 0.21
28 27 0.19
29 17 0.12
30 1 0.01
31 14 0.10
32 3 0.02
33 16 0.11
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.30
Consensus pattern (27 bp):
TTTAAAATAAATAATATACAAAAAAAG
Found at i:2819315 original size:29 final size:27
Alignment explanation
Indices: 2819239--2819382 Score: 107
Period size: 27 Copynumber: 5.2 Consensus size: 27
2819229 ATATCAGACA
*
2819239 ATAAAA-AGTTT-AAAATAAATTATAT
1 ATAAAATAGTTTAAAAATAAATAATAT
* * *
2819264 GTAAAAAGAAGTTT-CAAATAAATAATAT
1 AT-AAAA-TAGTTTAAAAATAAATAATAT
* *
2819292 ACAAAATAGTTTTAAAAAATAAATGATGTAT
1 ATAAAATAG-TTT-AAAAATAAAT-A-ATAT
* *
2819323 ATATAAATA-ATTCAAAATAAATAATAT
1 ATA-AAATAGTTTAAAAATAAATAATAT
* *
2819350 ATATAACAGTTTAAAAATAAATAATAT
1 ATAAAATAGTTTAAAAATAAATAATAT
2819377 ATAAAA
1 ATAAAA
2819383 AATGGATAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 18
0.72 0.13 0.14
Matches are distributed among these distances:
25 1 0.01
26 9 0.10
27 34 0.37
28 18 0.20
29 17 0.18
30 3 0.03
31 5 0.05
32 5 0.05
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.32
Consensus pattern (27 bp):
ATAAAATAGTTTAAAAATAAATAATAT
Found at i:2819484 original size:27 final size:25
Alignment explanation
Indices: 2819433--2819489 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
2819423 TGGAAACTTG
*
2819433 AAATAAATAATAATAAAACAATTTA
1 AAATAAATAATAATAAAAAAATTTA
2819458 AAATAAATAAT-ATAAGAAAAAGGTTTA
1 AAATAAATAATAATAA-AAAAA--TTTA
2819485 AAATA
1 AAATA
2819490 TAAATGAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
24 4 0.14
25 15 0.54
27 9 0.32
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (25 bp):
AAATAAATAATAATAAAAAAATTTA
Found at i:2821084 original size:19 final size:19
Alignment explanation
Indices: 2821060--2821098 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2821050 TAATAACATA
2821060 AAAATAA-AATAAGTTAATC
1 AAAATAATAATAA-TTAATC
*
2821079 AAAATAATTATAATTAATC
1 AAAATAATAATAATTAATC
2821098 A
1 A
2821099 TGAATTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATAATAATAATTAATC
Found at i:2822229 original size:19 final size:19
Alignment explanation
Indices: 2822205--2822243 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
2822195 TAATAACATA
2822205 AAAATAA-AATAAGTTAATC
1 AAAATAATAATAA-TTAATC
*
2822224 AAAATAATTATAATTAATC
1 AAAATAATAATAATTAATC
2822243 A
1 A
2822244 TGAATTAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (19 bp):
AAAATAATAATAATTAATC
Found at i:2831963 original size:12 final size:12
Alignment explanation
Indices: 2831946--2831973 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
2831936 ATAAATCCTT
2831946 TCTCTAATATTC
1 TCTCTAATATTC
2831958 TCTCTAATATTC
1 TCTCTAATATTC
2831970 TCTC
1 TCTC
2831974 AATTTCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTCTAATATTC
Found at i:2832010 original size:11 final size:10
Alignment explanation
Indices: 2831944--2832008 Score: 60
Period size: 11 Copynumber: 6.0 Consensus size: 10
2831934 AAATAAATCC
2831944 TTTCTCT-AA
1 TTTCTCTCAA
2831953 TATTCTCTCTAA
1 T-TTCTCTC-AA
2831965 TATTCTCTCAA
1 T-TTCTCTCAA
2831976 TTTCCTCTCAA
1 TTT-CTCTCAA
*
2831987 TTTCCTCTGAAA
1 TTT-CTCT-CAA
2831999 TTTCTCTCAA
1 TTTCTCTCAA
2832009 ATCCCTATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 9
0.82 0.03 0.15
Matches are distributed among these distances:
9 1 0.02
10 10 0.20
11 22 0.45
12 16 0.33
ACGTcount: A:0.23, C:0.28, G:0.02, T:0.48
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:2833877 original size:18 final size:18
Alignment explanation
Indices: 2833854--2833896 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
2833844 TGCCAGGTGC
* *
2833854 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
2833872 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
2833890 GTTTCCT
1 GTATCCT
2833897 TTTCGAGTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:2834549 original size:7 final size:7
Alignment explanation
Indices: 2834534--2834580 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
2834524 TAACATATTG
2834534 TAAACCC
1 TAAACCC
*
2834541 TAAATCC
1 TAAACCC
2834548 TAAACCC
1 TAAACCC
*
2834555 TAAACCT
1 TAAACCC
**
2834562 TAAACAT
1 TAAACCC
2834569 TAAACCC
1 TAAACCC
2834576 TAAAC
1 TAAAC
2834581 TTGTACCGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCC
Found at i:2835822 original size:125 final size:126
Alignment explanation
Indices: 2835603--2835867 Score: 390
Period size: 125 Copynumber: 2.1 Consensus size: 126
2835593 GCCACTGTAG
* *
2835603 CAAAAGC-ACGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTAACAAAGCATCTTGCTTAAACC
1 CAAAAGCGA-GTCCACGTGGGAGCTTCTTTCAATACTTCTGCTAACAAAGCATCCTGCTTAAACC
* * *
2835667 GTTTTTGACACTATTTGCTCAGAAATGTCTACTCG-AATTATTTTTTCAGGAGCTACTATAG
65 GTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTATAA
* * * *
2835728 CAAAGGCGAGTCCACGTGGGAGCTTTTTTCAATACTTCTGCTGACAAAGCATCCTGCTTAAAGCG
1 CAAAAGCGAGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTAACAAAGCATCCTGCTTAAACCG
* * *
2835793 TTTTTGACACTTTTTGCTCAAAAACGTCTACTCGAAATTATTTTTTTAGGAGCTACTGTAA
66 TTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTATAA
*
2835854 CAAAAGCGCGTCCA
1 CAAAAGCGAGTCCA
2835868 ACCCTAATCT
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
125 88 0.71
126 36 0.29
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (126 bp):
CAAAAGCGAGTCCACGTGGGAGCTTCTTTCAATACTTCTGCTAACAAAGCATCCTGCTTAAACCG
TTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGAGCTACTATAA
Found at i:2836080 original size:23 final size:26
Alignment explanation
Indices: 2836050--2836108 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 26
2836040 TTTTTTCTCT
2836050 AAAACCCTAAACTTAAA-AAT-A-CC
1 AAAACCCTAAACTTAAACAATAACCC
*
2836073 AAAACCCTAACCTTAAACCAATAACCC
1 AAAACCCTAAACTTAAA-CAATAACCC
2836100 AAAACCCTA
1 AAAACCCTA
2836109 CTGTAGGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 16 0.52
25 3 0.10
26 1 0.03
27 11 0.35
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (26 bp):
AAAACCCTAAACTTAAACAATAACCC
Found at i:2836605 original size:19 final size:18
Alignment explanation
Indices: 2836581--2836627 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
2836571 TTGTAAATTT
2836581 TATTTTTAAAAATTATATA
1 TATTTTTAAAAATT-TATA
*
2836600 TATTTTTATAATATTTATA
1 TATTTTTA-AAAATTTATA
*
2836619 TAATTTTAA
1 TATTTTTAA
2836628 TAAAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 19 0.76
20 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TATTTTTAAAAATTTATA
Found at i:2836638 original size:21 final size:21
Alignment explanation
Indices: 2836587--2836638 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
2836577 ATTTTATTTT
*
2836587 TAAAAATTATATATATTTTTA
1 TAAAAATTATATATATTTTAA
* *
2836608 TAATATTTATATA-ATTTTAA
1 TAAAAATTATATATATTTTAA
2836628 TAAAAAATTAT
1 T-AAAAATTAT
2836639 TTATTTATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TAAAAATTATATATATTTTAA
Found at i:2838006 original size:6 final size:6
Alignment explanation
Indices: 2837995--2838046 Score: 86
Period size: 6 Copynumber: 8.7 Consensus size: 6
2837985 AGTAGCAATG
* *
2837995 GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GAAGAA GCAGGA
1 GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA GCAGGA
2838043 GCAG
1 GCAG
2838047 TCGCAGGCCC
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.37, C:0.15, G:0.48, T:0.00
Consensus pattern (6 bp):
GCAGGA
Found at i:2852260 original size:2 final size:2
Alignment explanation
Indices: 2852253--2852281 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2852243 GTAACAGGTC
2852253 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2852282 ATTTTTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2853345 original size:11 final size:11
Alignment explanation
Indices: 2853329--2853354 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2853319 ATTTTTTTAA
2853329 TTTTAAAATAC
1 TTTTAAAATAC
2853340 TTTTAAAATAC
1 TTTTAAAATAC
2853351 TTTT
1 TTTT
2853355 TTTTTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTAAAATAC
Found at i:2853365 original size:42 final size:40
Alignment explanation
Indices: 2853319--2853424 Score: 149
Period size: 42 Copynumber: 2.5 Consensus size: 40
2853309 TATTATTATT
2853319 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTTTA
1 ATTTTTTTAATTTTAAAATACTTTTAAAATAC--TTTTTTTA
*
2853361 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTTA
1 ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTA
2853401 ATTTTTGTTTTAATTTTTAAAATA
1 A--TTT-TTTTAA-TTTTAAAATA
2853425 AATTTTTGGT
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
40 9 0.15
42 34 0.58
43 6 0.10
44 10 0.17
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (40 bp):
ATTTTTTTAATTTTAAAATACTTTTAAAATACTTTTTTTA
Found at i:2853949 original size:20 final size:20
Alignment explanation
Indices: 2853892--2853955 Score: 64
Period size: 19 Copynumber: 3.3 Consensus size: 20
2853882 TTTTTTAAAT
*
2853892 ATTTTTT-ATATTTAATTTA
1 ATTTTTTAATATATAATTTA
*
2853911 A-TTATTAAT-TATTATATTTA
1 ATTTTTTAATATA-TA-ATTTA
2853931 ATTTTTTAATATATAATTT-
1 ATTTTTTAATATATAATTTA
2853950 ATTTTT
1 ATTTTT
2853956 ATATGACATT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
18 5 0.14
19 11 0.30
20 10 0.27
21 9 0.24
22 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTAATATATAATTTA
Found at i:2855060 original size:3 final size:3
Alignment explanation
Indices: 2855052--2855083 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2855042 ATTCAAATAC
2855052 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
2855084 CTTTTAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:2855381 original size:11 final size:11
Alignment explanation
Indices: 2855365--2855464 Score: 86
Period size: 11 Copynumber: 9.4 Consensus size: 11
2855355 ATTTTTTAAA
*
2855365 TTTTAAAATGT
1 TTTTAAAATAT
2855376 TTTTAAAATACT
1 TTTTAAAATA-T
* *
2855388 TTTT---TTAA
1 TTTTAAAATAT
2855396 TTTTAAAATAT
1 TTTTAAAATAT
2855407 TTTTAAAATACT
1 TTTTAAAATA-T
* *
2855419 TTTT---TTAA
1 TTTTAAAATAT
2855427 TTTTAAAATAT
1 TTTTAAAATAT
2855438 TTTTAAAATAT
1 TTTTAAAATAT
2855449 TTTTAAAATACT
1 TTTTAAAATA-T
2855461 TTTT
1 TTTT
2855465 TTTTAATTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
8 8 0.11
9 4 0.06
11 44 0.62
12 15 0.21
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:2855398 original size:31 final size:31
Alignment explanation
Indices: 2855356--2855452 Score: 169
Period size: 31 Copynumber: 3.2 Consensus size: 31
2855346 AATATATTTA
* *
2855356 TTTTTTAAATTTTAAAATGTTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
2855387 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
2855418 TTTTTTTAATTTTAAAATATTTTTAAAATA-
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
2855448 TTTTT
1 TTTTT
2855453 AAAATACTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
30 5 0.08
31 59 0.92
ACGTcount: A:0.37, C:0.02, G:0.01, T:0.60
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:2855469 original size:16 final size:16
Alignment explanation
Indices: 2855448--2855498 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
2855438 TTTTAAAATA
2855448 TTTTTAAAATACTTTT
1 TTTTTAAAATACTTTT
**
2855464 TTTTT--AATTTTTTT
1 TTTTTAAAATACTTTT
2855478 TAATTTTAAAATACTTTT
1 T--TTTTAAAATACTTTT
2855496 TTT
1 TTT
2855499 AATTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
14 8 0.30
16 11 0.41
18 8 0.30
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTAAAATACTTTT
Found at i:2855495 original size:21 final size:22
Alignment explanation
Indices: 2855468--2855518 Score: 79
Period size: 20 Copynumber: 2.4 Consensus size: 22
2855458 ACTTTTTTTT
2855468 TAATTTTTTTTAA-TTTTAAAA
1 TAATTTTTTTTAATTTTTAAAA
*
2855489 T-ACTTTTTTTAATTTTTAAAA
1 TAATTTTTTTTAATTTTTAAAA
2855510 TAATTTTTT
1 TAATTTTTT
2855519 GGTATTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 10 0.38
21 10 0.38
22 6 0.23
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (22 bp):
TAATTTTTTTTAATTTTTAAAA
Found at i:2861245 original size:17 final size:17
Alignment explanation
Indices: 2861223--2861262 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
2861213 TAAATTTTTT
* *
2861223 TATATAATTTTTAAAAA
1 TATATAATATATAAAAA
2861240 TATATAATATATAAAAA
1 TATATAATATATAAAAA
2861257 TA-ATAA
1 TATATAA
2861263 AAATATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TATATAATATATAAAAA
Found at i:2861517 original size:21 final size:20
Alignment explanation
Indices: 2861491--2861536 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
2861481 AAGAAAATAG
*
2861491 CAATAAAATAATAAAATACAA
1 CAATAAAACAATAAAA-ACAA
*
2861512 CAATAAAGCAATAAAAACAA
1 CAATAAAACAATAAAAACAA
2861532 CAATA
1 CAATA
2861537 GTTTTTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.70, C:0.13, G:0.02, T:0.15
Consensus pattern (20 bp):
CAATAAAACAATAAAAACAA
Found at i:2866626 original size:13 final size:13
Alignment explanation
Indices: 2866608--2866686 Score: 80
Period size: 13 Copynumber: 6.5 Consensus size: 13
2866598 TAGATTTTTC
2866608 CTAAATATTATCA
1 CTAAATATTATCA
*
2866621 CTAAATA--AT-T
1 CTAAATATTATCA
2866631 CTAAATATTATCA
1 CTAAATATTATCA
*
2866644 CTAAATATTATAA
1 CTAAATATTATCA
* *
2866657 GTAAATA--AT-T
1 CTAAATATTATCA
2866667 CTAAATATTATCA
1 CTAAATATTATCA
2866680 CTAAATA
1 CTAAATA
2866687 ATTCTAAATT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
10 13 0.25
11 4 0.08
12 4 0.08
13 32 0.60
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.38
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:2866648 original size:36 final size:36
Alignment explanation
Indices: 2866608--2866686 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
2866598 TAGATTTTTC
*
2866608 CTAAATATTATCACTAAATAATTCTAAATATTATCA
1 CTAAATATTATAACTAAATAATTCTAAATATTATCA
*
2866644 CTAAATATTATAAGTAAATAATTCTAAATATTATCA
1 CTAAATATTATAACTAAATAATTCTAAATATTATCA
2866680 CTAAATA
1 CTAAATA
2866687 ATTCTAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.38
Consensus pattern (36 bp):
CTAAATATTATAACTAAATAATTCTAAATATTATCA
Found at i:2866670 original size:23 final size:23
Alignment explanation
Indices: 2866644--2866695 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
2866634 AATATTATCA
*
2866644 CTAAATATTATAAGTAAATAATT
1 CTAAATATTATAACTAAATAATT
*
2866667 CTAAATATTATCACTAAATAATT
1 CTAAATATTATAACTAAATAATT
2866690 CTAAAT
1 CTAAAT
2866696 TTAAAAATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (23 bp):
CTAAATATTATAACTAAATAATT
Found at i:2866708 original size:23 final size:23
Alignment explanation
Indices: 2866644--2866708 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
2866634 AATATTATCA
* *
2866644 CTAAATATTATAAGTAAATAATT
1 CTAAATATTAAAAATAAATAATT
** *
2866667 CTAAATATTATCACTAAATAATT
1 CTAAATATTAAAAATAAATAATT
2866690 CTAAAT-TTAAAAATCAAAT
1 CTAAATATTAAAAAT-AAAT
2866709 TTAAACTAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
22 5 0.14
23 31 0.86
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.37
Consensus pattern (23 bp):
CTAAATATTAAAAATAAATAATT
Found at i:2867666 original size:4 final size:4
Alignment explanation
Indices: 2867657--2867684 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
2867647 AACCAAACTT
2867657 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA
2867685 AACGAGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:2868234 original size:15 final size:14
Alignment explanation
Indices: 2868205--2868238 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2868195 CTAAAACTCA
*
2868205 AAATTAAATGAAAT
1 AAATAAAATGAAAT
2868219 AAATAAAATAGAAAT
1 AAATAAAAT-GAAAT
2868234 AAATA
1 AAATA
2868239 TGGGTTGCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (14 bp):
AAATAAAATGAAAT
Found at i:2871124 original size:18 final size:18
Alignment explanation
Indices: 2871087--2871122 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
2871077 ACTTGAAATT
2871087 ATAAAAAAAATAAAGGGG
1 ATAAAAAAAATAAAGGGG
*
2871105 ATAAACAAAAATATAGGG
1 ATAAA-AAAAATAAAGGG
2871123 ATTTTTATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.14
Consensus pattern (18 bp):
ATAAAAAAAATAAAGGGG
Found at i:2871261 original size:13 final size:13
Alignment explanation
Indices: 2871245--2871269 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2871235 ATAATACTTT
2871245 TTATATTTAATTA
1 TTATATTTAATTA
2871258 TTATATTTAATT
1 TTATATTTAATT
2871270 TTAAAAATAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATATTTAATTA
Found at i:2874626 original size:54 final size:54
Alignment explanation
Indices: 2874550--2874656 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
2874540 GGTTGATTTG
*
2874550 ATCCCCACATGGAGTGTAGGGTTGGACGGAGATGGTGTGTAGAGGCTGGTTGGT
1 ATCCCCACATGGAGTGTAGGGTTGGACAGAGATGGTGTGTAGAGGCTGGTTGGT
*
2874604 ATCCCCACATGGAGTGTTGGGTTGGACAGAGATGGTGTGTAGAGGCTGGTTGG
1 ATCCCCACATGGAGTGTAGGGTTGGACAGAGATGGTGTGTAGAGGCTGGTTGG
2874657 GTAGGACTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.19, C:0.13, G:0.42, T:0.26
Consensus pattern (54 bp):
ATCCCCACATGGAGTGTAGGGTTGGACAGAGATGGTGTGTAGAGGCTGGTTGGT
Found at i:2878828 original size:20 final size:20
Alignment explanation
Indices: 2878790--2878828 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
2878780 GGTTCATGCC
* *
2878790 TTTCAGTTACGTATTTCATA
1 TTTCAGTTACATATATCATA
*
2878810 TTTCAGTTATATATATCAT
1 TTTCAGTTACATATATCAT
2878829 TCATGTCACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TTTCAGTTACATATATCATA
Found at i:2907380 original size:30 final size:31
Alignment explanation
Indices: 2907338--2907407 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
2907328 CGTCAAAGGG
* *
2907338 CAAACC-TTTCAAAA-TGATTAAATAATGGC
1 CAAACCTTTTCAAAATTGATCAAACAATGGC
* *
2907367 CAAATCTTTTCAAAATTGCTCAAACAATGGC
1 CAAACCTTTTCAAAATTGATCAAACAATGGC
2907398 CAAACCTTTT
1 CAAACCTTTT
2907408 TGAAGGTACT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 5 0.15
30 8 0.24
31 21 0.62
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (31 bp):
CAAACCTTTTCAAAATTGATCAAACAATGGC
Found at i:2907625 original size:14 final size:14
Alignment explanation
Indices: 2907606--2907632 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2907596 CAAAACTACC
2907606 CATGAACTTTGATG
1 CATGAACTTTGATG
2907620 CATGAACTTTGAT
1 CATGAACTTTGAT
2907633 TTGGTGCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.37
Consensus pattern (14 bp):
CATGAACTTTGATG
Found at i:2909267 original size:23 final size:23
Alignment explanation
Indices: 2909218--2909268 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
2909208 TGATATGTAA
* *
2909218 ATTTTTTATTTTGATTGAAAAGT
1 ATTTTTTATTTTGACTAAAAAGT
2909241 -TTTTATTATTTT-ACTAAAAAGT
1 ATTTT-TTATTTTGACTAAAAAGT
2909263 ATTTTT
1 ATTTTT
2909269 GTAAAAAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
22 13 0.54
23 11 0.46
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (23 bp):
ATTTTTTATTTTGACTAAAAAGT
Found at i:2909964 original size:24 final size:24
Alignment explanation
Indices: 2909932--2909978 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
2909922 ATGTAACCAC
2909932 CCTTCAATTGAGCTATACATGATT
1 CCTTCAATTGAGCTATACATGATT
* *
2909956 CCTTTAATTGAGCTTTACATGAT
1 CCTTCAATTGAGCTATACATGAT
2909979 GCATTATCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (24 bp):
CCTTCAATTGAGCTATACATGATT
Found at i:2914932 original size:18 final size:18
Alignment explanation
Indices: 2914891--2914938 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
2914881 TTATGTTCCA
*
2914891 AAAAATAATTTTTTTTGT
1 AAAATTAATTTTTTTTGT
**
2914909 TCAATTAATTTTTTTTGT
1 AAAATTAATTTTTTTTGT
2914927 AAAATT-ATTTTT
1 AAAATTAATTTTT
2914939 CGAAAAATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.60
Consensus pattern (18 bp):
AAAATTAATTTTTTTTGT
Found at i:2915969 original size:14 final size:14
Alignment explanation
Indices: 2915950--2915979 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
2915940 GATTAGTTAC
2915950 TTAATTCTTTAAAT
1 TTAATTCTTTAAAT
2915964 TTAATTCTTTAAAT
1 TTAATTCTTTAAAT
2915978 TT
1 TT
2915980 TTATAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (14 bp):
TTAATTCTTTAAAT
Found at i:2917548 original size:21 final size:21
Alignment explanation
Indices: 2917524--2917569 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
2917514 AAAAGCGTAA
2917524 ATTAAAACAA-CAAAATTTATT
1 ATTAAAACAATC-AAATTTATT
* *
2917545 ATTATACCAATCAAATTTATT
1 ATTAAAACAATCAAATTTATT
2917566 -TTAA
1 ATTAA
2917570 TTGATAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.14
21 17 0.81
22 1 0.05
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAAAACAATCAAATTTATT
Found at i:2917596 original size:63 final size:62
Alignment explanation
Indices: 2917506--2917624 Score: 193
Period size: 63 Copynumber: 1.9 Consensus size: 62
2917496 ATCATGATTA
* *
2917506 AATTGATAAAAAGCGTAAATTAAAACAACAAAATTTATTATTATACCAATCAAATTTATTTT
1 AATTGATAAAAAACGTAAAATAAAACAACAAAATTTATTATTATACCAATCAAATTTATTTT
* *
2917568 AATTGATAAAAAAACGTAAAATATAACAACCAAATTTATTATTATACCAATCAAATT
1 AATTGAT-AAAAAACGTAAAATAAAACAACAAAATTTATTATTATACCAATCAAATT
2917625 GACCGAAATC
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 7 0.13
63 45 0.87
ACGTcount: A:0.52, C:0.11, G:0.04, T:0.33
Consensus pattern (62 bp):
AATTGATAAAAAACGTAAAATAAAACAACAAAATTTATTATTATACCAATCAAATTTATTTT
Found at i:2920411 original size:20 final size:20
Alignment explanation
Indices: 2920383--2920420 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
2920373 TGAAAGTCAA
2920383 AAGTCTTGGGCAAGAGAAAG
1 AAGTCTTGGGCAAGAGAAAG
*
2920403 AAGTTTTGGGCAAGAGAA
1 AAGTCTTGGGCAAGAGAA
2920421 TTTAAAAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.08, G:0.34, T:0.18
Consensus pattern (20 bp):
AAGTCTTGGGCAAGAGAAAG
Found at i:2921712 original size:29 final size:30
Alignment explanation
Indices: 2921679--2921737 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
2921669 TATGGTTCAA
2921679 TGTGTAATTATATATATG-AATTTTAATTT
1 TGTGTAATTATATATATGAAATTTTAATTT
* *
2921708 TGTGTAATTTTATATATGAAATTTTGATTT
1 TGTGTAATTATATATATGAAATTTTAATTT
2921738 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 17 0.63
30 10 0.37
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (30 bp):
TGTGTAATTATATATATGAAATTTTAATTT
Found at i:2923791 original size:3 final size:3
Alignment explanation
Indices: 2923783--2923807 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2923773 TGGGATGCAT
2923783 GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA G
2923808 AGACTTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.36, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:2930803 original size:21 final size:22
Alignment explanation
Indices: 2930773--2930814 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
2930763 ATTTTAAAGT
2930773 TTTTTAAATAACAAAATAATTC
1 TTTTTAAATAACAAAATAATTC
* *
2930795 TTTTT-AATAATACAATAATT
1 TTTTTAAATAACAAAATAATT
2930815 AAATTATTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.48, C:0.07, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTTAAATAACAAAATAATTC
Found at i:2932966 original size:18 final size:17
Alignment explanation
Indices: 2932928--2932976 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
2932918 ATACTCTCTC
*
2932928 TTTTTCTAATTTTCATA
1 TTTTTCTAATTTTAATA
2932945 TTTTTCTAAATTTTAAT-
1 TTTTTCT-AATTTTAATA
* *
2932962 TTTTTATTATTTTAA
1 TTTTTCTAATTTTAA
2932977 AATATTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 7 0.25
17 13 0.46
18 8 0.29
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTCTAATTTTAATA
Found at i:2938745 original size:51 final size:50
Alignment explanation
Indices: 2938687--2938873 Score: 232
Period size: 51 Copynumber: 3.7 Consensus size: 50
2938677 TCAGTTCACA
*
2938687 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCATTCGATACACG
* * * * * *
2938738 TAGTAGCCTGCACATAGTATTACACACGTGACCGAAACTATCCGATACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATACCATTCGATACACG
* * * *
2938789 CAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATT-CGATACACG
*
2938839 TAGTAGCTTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
2938874 CACTTTCACT
Statistics
Matches: 112, Mismatches: 21, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
49 3 0.03
50 36 0.32
51 72 0.64
52 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATACCATTCGATACACG
Found at i:2938864 original size:101 final size:101
Alignment explanation
Indices: 2938688--2938871 Score: 307
Period size: 101 Copynumber: 1.8 Consensus size: 101
2938678 CAGTTCACAT
*
2938688 AGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTCGATACACGTAGTAGCCTGCACAT
1 AGTAGCCTGCACATAGTACTACACATGCGACCA-TACCATTCGATACACGTAGTAGCCTGCACAT
*
2938753 AGTATTACACACGTGACCGAAACTATCCGATACGCAC
65 AGTACTACACACGTGACCGAAACTATCCGATACGCAC
* *
2938790 AGTAGCCTGCACATAGTACTACACATGCGACC-TATCATTCCGATACACGTAGTAGCTTGCACAT
1 AGTAGCCTGCACATAGTACTACACATGCGACCATACCATT-CGATACACGTAGTAGCCTGCACAT
2938854 AGTACTACACACGTGACC
65 AGTACTACACACGTGACC
2938872 ATCACTTTCA
Statistics
Matches: 77, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
100 6 0.08
101 40 0.52
102 31 0.40
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.23
Consensus pattern (101 bp):
AGTAGCCTGCACATAGTACTACACATGCGACCATACCATTCGATACACGTAGTAGCCTGCACATA
GTACTACACACGTGACCGAAACTATCCGATACGCAC
Found at i:2939415 original size:8 final size:8
Alignment explanation
Indices: 2939402--2939430 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
2939392 TTTTAAATGA
2939402 TATTTTAT
1 TATTTTAT
2939410 TATTTTAT
1 TATTTTAT
2939418 TATTTTAT
1 TATTTTAT
2939426 TATTT
1 TATTT
2939431 AGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:2940133 original size:390 final size:390
Alignment explanation
Indices: 2939414--2940194 Score: 1562
Period size: 390 Copynumber: 2.0 Consensus size: 390
2939404 TTTTATTATT
2939414 TTATTATTTTATTATTTAGTATATATATGTGGAAAGAAAGATGAAAAATCATCATTCCACCATCT
1 TTATTATTTTATTATTTAGTATATATATGTGGAAAGAAAGATGAAAAATCATCATTCCACCATCT
2939479 TTCCCATGCATTTCACGTTAGAAGAGAAGAGAAGAAAGAAAGTTTTACTTTCTTTACAATTTAGT
66 TTCCCATGCATTTCACGTTAGAAGAGAAGAGAAGAAAGAAAGTTTTACTTTCTTTACAATTTAGT
2939544 CCTTCCACCAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTTCATATCCATCAAGAGAG
131 CCTTCCACCAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTTCATATCCATCAAGAGAG
2939609 AGAGATAACAAGGAGACCATGGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAG
196 AGAGATAACAAGGAGACCATGGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAG
2939674 GGGAGAGAAAATCAAGTTAAAGATTGAAATCAATATGACAAGGTAAGTACATCAAGATTTTAATA
261 GGGAGAGAAAATCAAGTTAAAGATTGAAATCAATATGACAAGGTAAGTACATCAAGATTTTAATA
2939739 TATTTTTAAGTTTGATATTATTAAAAAAGTATGGAAATGATGTTAATGTAGAGTTTTTGTATGTG
326 TATTTTTAAGTTTGATATTATTAAAAAAGTATGGAAATGATGTTAATGTAGAGTTTTTGTATGTG
2939804 TTATTATTTTATTATTTAGTATATATATGTGGAAAGAAAGATGAAAAATCATCATTCCACCATCT
1 TTATTATTTTATTATTTAGTATATATATGTGGAAAGAAAGATGAAAAATCATCATTCCACCATCT
2939869 TTCCCATGCATTTCACGTTAGAAGAGAAGAGAAGAAAGAAAGTTTTACTTTCTTTACAATTTAGT
66 TTCCCATGCATTTCACGTTAGAAGAGAAGAGAAGAAAGAAAGTTTTACTTTCTTTACAATTTAGT
2939934 CCTTCCACCAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTTCATATCCATCAAGAGAG
131 CCTTCCACCAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTTCATATCCATCAAGAGAG
2939999 AGAGATAACAAGGAGACCATGGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAG
196 AGAGATAACAAGGAGACCATGGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAG
2940064 GGGAGAGAAAATCAAGTTAAAGATTGAAATCAATATGACAAGGTAAGTACATCAAGATTTTAATA
261 GGGAGAGAAAATCAAGTTAAAGATTGAAATCAATATGACAAGGTAAGTACATCAAGATTTTAATA
2940129 TATTTTTAAGTTTGATATTATTAAAAAAGTATGGAAATGATGTTAATGTAGAGTTTTTGTATGTG
326 TATTTTTAAGTTTGATATTATTAAAAAAGTATGGAAATGATGTTAATGTAGAGTTTTTGTATGTG
2940194 T
1 T
2940195 GATCCTATGT
Statistics
Matches: 391, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
390 391 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.32
Consensus pattern (390 bp):
TTATTATTTTATTATTTAGTATATATATGTGGAAAGAAAGATGAAAAATCATCATTCCACCATCT
TTCCCATGCATTTCACGTTAGAAGAGAAGAGAAGAAAGAAAGTTTTACTTTCTTTACAATTTAGT
CCTTCCACCAAAAATTCACCATTTTCATCTAGAAATCAAAAGAATTTTCATATCCATCAAGAGAG
AGAGATAACAAGGAGACCATGGGGAGCTAGAATATCAAGTTAGATTCAAGAAATAGAAGCTGGAG
GGGAGAGAAAATCAAGTTAAAGATTGAAATCAATATGACAAGGTAAGTACATCAAGATTTTAATA
TATTTTTAAGTTTGATATTATTAAAAAAGTATGGAAATGATGTTAATGTAGAGTTTTTGTATGTG
Found at i:2941594 original size:19 final size:19
Alignment explanation
Indices: 2941570--2941607 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
2941560 TGATTTGAAT
2941570 GTTCATTATATGAAAATTG
1 GTTCATTATATGAAAATTG
*
2941589 GTTCATTGTATGAAAATTG
1 GTTCATTATATGAAAATTG
2941608 ATGAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (19 bp):
GTTCATTATATGAAAATTG
Found at i:2941806 original size:57 final size:56
Alignment explanation
Indices: 2941729--2941840 Score: 170
Period size: 57 Copynumber: 2.0 Consensus size: 56
2941719 GAGTGATCCT
*
2941729 ATCTTGATATAGCCCTCCCGAAAAATGTGTGTGAAAAAGATCTAGCCCGGACGGGTG
1 ATCTTGATATAGCCCTCCCGAAAAATATGTG-GAAAAAGATCTAGCCCGGACGGGTG
* ** *
2941786 ATCTTGATATAGCCCTCCCGAAGAATATGTGGAAATGGATTTAGCCCGGACGGGT
1 ATCTTGATATAGCCCTCCCGAAAAATATGTGGAAAAAGATCTAGCCCGGACGGGT
2941841 AATCCAAATT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
56 21 0.42
57 29 0.58
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.24
Consensus pattern (56 bp):
ATCTTGATATAGCCCTCCCGAAAAATATGTGGAAAAAGATCTAGCCCGGACGGGTG
Found at i:2946555 original size:29 final size:31
Alignment explanation
Indices: 2946512--2946570 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 31
2946502 AAGACATTCA
2946512 TTTAACGGAGATAGTCACAAAAG-CATCCTT
1 TTTAACGGAGATAGTCACAAAAGACATCCTT
* *
2946542 TTTAA-GGGGATAGTCACAAAGGACATCCT
1 TTTAACGGAGATAGTCACAAAAGACATCCT
2946571 AATTATAAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (31 bp):
TTTAACGGAGATAGTCACAAAAGACATCCTT
Found at i:2948945 original size:13 final size:11
Alignment explanation
Indices: 2948909--2948939 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
2948899 CCGCCCGTAT
2948909 TAATTTTTATA
1 TAATTTTTATA
*
2948920 TTATTTTTATA
1 TAATTTTTATA
2948931 TAATTTTTA
1 TAATTTTTA
2948940 GATATATATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TAATTTTTATA
Found at i:2948951 original size:22 final size:22
Alignment explanation
Indices: 2948909--2948954 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
2948899 CCGCCCGTAT
* *
2948909 TAATTTTTATATTATTTTTATA
1 TAATTTTTAGATTATTATTATA
2948931 TAATTTTTAGA-TATATATTATA
1 TAATTTTTAGATTAT-TATTATA
2948953 TA
1 TA
2948955 TCAAAAATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.14
22 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TAATTTTTAGATTATTATTATA
Found at i:2953085 original size:21 final size:21
Alignment explanation
Indices: 2953059--2953099 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2953049 AGACGAGCAA
* *
2953059 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
2953080 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
2953100 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:2957022 original size:18 final size:18
Alignment explanation
Indices: 2956999--2957035 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2956989 TATGTTGTAC
* *
2956999 ATAAAATTATCTTATAAA
1 ATAAAATAATCCTATAAA
2957017 ATAAAATAATCCTATAAA
1 ATAAAATAATCCTATAAA
2957035 A
1 A
2957036 ATATCTTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.32
Consensus pattern (18 bp):
ATAAAATAATCCTATAAA
Found at i:2957999 original size:9 final size:9
Alignment explanation
Indices: 2957985--2958042 Score: 98
Period size: 9 Copynumber: 6.4 Consensus size: 9
2957975 TTTAGTGAAA
2957985 AATTAACCG
1 AATTAACCG
2957994 AATTAACCG
1 AATTAACCG
* *
2958003 GATTACCCG
1 AATTAACCG
2958012 AATTAACCG
1 AATTAACCG
2958021 AATTAACCG
1 AATTAACCG
2958030 AATTAACCG
1 AATTAACCG
2958039 AATT
1 AATT
2958043 GAATCACTAC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:2958185 original size:18 final size:18
Alignment explanation
Indices: 2958145--2958188 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
2958135 AATTTTTATG
**
2958145 ATTGGGTTGGGTTGGGTA
1 ATTGGGTTGGGTTGAATA
2958163 ATTGGGTTGGGTTGAATA
1 ATTGGGTTGGGTTGAATA
*
2958181 CTTGGGTT
1 ATTGGGTT
2958189 TGGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.14, C:0.02, G:0.43, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTGAATA
Found at i:2964938 original size:27 final size:26
Alignment explanation
Indices: 2964896--2964953 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 26
2964886 ATTATATTAA
*
2964896 GTGC-TTAAAATTATTCTAGATATGTC
1 GTGCTTTAAAATCATTCTAGATAT-TC
2964922 GTGCTTTAAAATCATTCTAGATATTC
1 GTGCTTTAAAATCATTCTAGATATTC
2964948 GTGCTT
1 GTGCTT
2964954 GAGTTGTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 12 0.40
27 18 0.60
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.43
Consensus pattern (26 bp):
GTGCTTTAAAATCATTCTAGATATTC
Found at i:2967163 original size:4 final size:4
Alignment explanation
Indices: 2967156--2967219 Score: 51
Period size: 4 Copynumber: 15.2 Consensus size: 4
2967146 AACCCTTGCG
* *
2967156 TCTT TCTT TCTT T-TT TCTT TCTT TAATT TCTG T-TT TCGTT TGGCTT
1 TCTT TCTT TCTT TCTT TCTT TCTT T-CTT TCTT TCTT TC-TT T--CTT
2967202 TCTTT TCTT TCTT TCTT T
1 TC-TT TCTT TCTT TCTT T
2967220 TTTATTTGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
3 5 0.10
4 30 0.61
5 10 0.20
6 3 0.06
7 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.06, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:2975409 original size:30 final size:31
Alignment explanation
Indices: 2975364--2975426 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
2975354 ATAGAAACTA
*
2975364 ATATCAGTTAACTGATTCTTAGGAAATTAGG
1 ATATCAATTAACTGATTCTTAGGAAATTAGG
2975395 ATATCAATT-ACTGATTCTTAGGAAATTAGG
1 ATATCAATTAACTGATTCTTAGGAAATTAGG
2975425 AT
1 AT
2975427 TTATTTCCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (31 bp):
ATATCAATTAACTGATTCTTAGGAAATTAGG
Found at i:2980133 original size:30 final size:31
Alignment explanation
Indices: 2980088--2980150 Score: 110
Period size: 30 Copynumber: 2.1 Consensus size: 31
2980078 ATAGAAACTA
*
2980088 ATATCAGTTAACTGATTCTTAGGAAATTAGG
1 ATATCAATTAACTGATTCTTAGGAAATTAGG
2980119 ATATCAATT-ACTGATTCTTAGGAAATTAGG
1 ATATCAATTAACTGATTCTTAGGAAATTAGG
2980149 AT
1 AT
2980151 TTATTTACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 23 0.74
31 8 0.26
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (31 bp):
ATATCAATTAACTGATTCTTAGGAAATTAGG
Found at i:2982799 original size:112 final size:112
Alignment explanation
Indices: 2982645--2982850 Score: 403
Period size: 112 Copynumber: 1.8 Consensus size: 112
2982635 TTATCAGATT
*
2982645 TTTTGTTCAGATGTCTAGGTGCCTGCTCTGGTTGGGCATGTTGTTTCCTTTTTCAATTTCTTTAT
1 TTTTATTCAGATGTCTAGGTGCCTGCTCTGGTTGGGCATGTTGTTTCCTTTTTCAATTTCTTTAT
2982710 TAATTGATTGTTAGTTTTACTCATGTTTTTCAGATGTCATTAGTAAG
66 TAATTGATTGTTAGTTTTACTCATGTTTTTCAGATGTCATTAGTAAG
2982757 TTTTATTCAGATGTCTAGGTGCCTGCTCTGGTTGGGCATGTTGTTTCCTTTTTCAATTTCTTTAT
1 TTTTATTCAGATGTCTAGGTGCCTGCTCTGGTTGGGCATGTTGTTTCCTTTTTCAATTTCTTTAT
2982822 TAATTGATTGTTAGTTTTACTCATGTTTT
66 TAATTGATTGTTAGTTTTACTCATGTTTT
2982851 GATTGTTTTC
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 93 1.00
ACGTcount: A:0.16, C:0.14, G:0.19, T:0.51
Consensus pattern (112 bp):
TTTTATTCAGATGTCTAGGTGCCTGCTCTGGTTGGGCATGTTGTTTCCTTTTTCAATTTCTTTAT
TAATTGATTGTTAGTTTTACTCATGTTTTTCAGATGTCATTAGTAAG
Found at i:3006030 original size:22 final size:22
Alignment explanation
Indices: 3006005--3006047 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
3005995 TACATTAAAG
*
3006005 TTAAATAAATTATATAATTTAC
1 TTAAATAAATTATAAAATTTAC
**
3006027 TTAAATTTATTATAAAATTTA
1 TTAAATAAATTATAAAATTTA
3006048 TAATTATTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (22 bp):
TTAAATAAATTATAAAATTTAC
Found at i:3006618 original size:14 final size:14
Alignment explanation
Indices: 3006581--3006618 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
3006571 CAAAAATAAT
3006581 ATAATATATAAATAC
1 ATAATAT-TAAATAC
3006596 ATCAA-ATTAAATAC
1 AT-AATATTAAATAC
3006610 ATAATATTA
1 ATAATATTA
3006619 CTCAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
13 2 0.10
14 13 0.62
15 4 0.19
16 2 0.10
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAATATTAAATAC
Found at i:3019701 original size:50 final size:49
Alignment explanation
Indices: 3019581--3019819 Score: 212
Period size: 50 Copynumber: 4.7 Consensus size: 49
3019571 AAAAAGATCT
* * * * *
3019581 CATGTAAGACCATGTCTGGGACATGGAATTGGCATCATTGAGGTTATGAGAGGTCT
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA---CATGAGA-ATCC
* * *
3019637 CATGTAAGACCATGTCTGGGATATGGCGTTGGCACCGAGATGAGAGATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGA-ATCC
** * *
3019687 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAA-TCC
* * * *
3019737 CATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-ACATGAGA-ATCC
*
3019786 CATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
3019820 TGTTATCATC
Statistics
Matches: 156, Mismatches: 24, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.01
49 40 0.26
50 81 0.52
53 2 0.01
55 1 0.01
56 31 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACCGACATGAGAATCC
Found at i:3020939 original size:19 final size:19
Alignment explanation
Indices: 3020898--3021028 Score: 136
Period size: 19 Copynumber: 6.4 Consensus size: 19
3020888 AACCAAAAAT
*
3020898 TCTTAGATATGATATATTCAA
1 TCTTAGATATGATAT-GT-AA
3020919 TCTTAGATATGATATGTAA
1 TCTTAGATATGATATGTAA
*
3020938 TCTTAGAAGATATGATTTTGTAA
1 TCTT---AGATATGA-TATGTAA
*
3020961 TCTTAGATATGATATGCAA
1 TCTTAGATATGATATGTAA
3020980 TCTTAGATATGATATGTAA
1 TCTTAGATATGATATGTAA
*
3020999 TCTTAAAAGATATGATTTTGTAA
1 TCTT---AGATATGA-TATGTAA
3021022 TCTTAGA
1 TCTTAGA
3021029 GATTTAATTT
Statistics
Matches: 96, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
19 33 0.34
20 12 0.12
21 15 0.16
22 16 0.17
23 20 0.21
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (19 bp):
TCTTAGATATGATATGTAA
Found at i:3020967 original size:42 final size:41
Alignment explanation
Indices: 3020902--3021028 Score: 134
Period size: 42 Copynumber: 3.0 Consensus size: 41
3020892 AAAAATTCTT
*
3020902 AGATATGATATATTCAATCTTAGATATGATATGTAATCTTAGA
1 AGATATGATAT-GT-AATCTTAGATATGATATGTAATCTTAGA
* *
3020945 AGATATGATTTTGTAATCTTAGATATGATATGCAATCTT---
1 AGATATGA-TATGTAATCTTAGATATGATATGTAATCTTAGA
*
3020984 AGATATGATATGTAATCTTAAAAGATATGATTTTGTAATCTTAGA
1 AGATATGATATGTAATCTT---AGATATGA-TATGTAATCTTAGA
3021029 GATTTAATTT
Statistics
Matches: 70, Mismatches: 6, Indels: 14
0.78 0.07 0.16
Matches are distributed among these distances:
38 10 0.14
39 8 0.11
41 8 0.11
42 33 0.47
43 9 0.13
44 2 0.03
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (41 bp):
AGATATGATATGTAATCTTAGATATGATATGTAATCTTAGA
Found at i:3020995 original size:61 final size:62
Alignment explanation
Indices: 3020898--3021028 Score: 228
Period size: 61 Copynumber: 2.1 Consensus size: 62
3020888 AACCAAAAAT
* *
3020898 TCTTAGATATGATATATTCAATCTTAGATATGATATGTAATCTTAGAAGATATGATTTTGTAA
1 TCTTAGATATGA-ATATGCAATCTTAGATATGATATGTAATCTTAAAAGATATGATTTTGTAA
3020961 TCTTAGATATG-ATATGCAATCTTAGATATGATATGTAATCTTAAAAGATATGATTTTGTAA
1 TCTTAGATATGAATATGCAATCTTAGATATGATATGTAATCTTAAAAGATATGATTTTGTAA
3021022 TCTTAGA
1 TCTTAGA
3021029 GATTTAATTT
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
61 55 0.83
63 11 0.17
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.42
Consensus pattern (62 bp):
TCTTAGATATGAATATGCAATCTTAGATATGATATGTAATCTTAAAAGATATGATTTTGTAA
Found at i:3021467 original size:20 final size:20
Alignment explanation
Indices: 3021460--3021496 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
3021450 ATTAATTTTG
3021460 TTATTATTGTATTATTATTA
1 TTATTATTGTATTATTATTA
*
3021480 TTATTA-TATATTATTAT
1 TTATTATTGTATTATTAT
3021497 ACCTACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 10 0.62
20 6 0.38
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (20 bp):
TTATTATTGTATTATTATTA
Found at i:3025094 original size:54 final size:54
Alignment explanation
Indices: 3025036--3025144 Score: 200
Period size: 54 Copynumber: 2.0 Consensus size: 54
3025026 TTCTTGAATC
*
3025036 TAAATTGATAGTCTTACTCTTTATAGTCTTCTTATTATTTTTCTCTCTTGGTGG
1 TAAATTAATAGTCTTACTCTTTATAGTCTTCTTATTATTTTTCTCTCTTGGTGG
*
3025090 TAAATTAATATTCTTACTCTTTATAGTCTTCTTATTATTTTTCTCTCTTGGTGG
1 TAAATTAATAGTCTTACTCTTTATAGTCTTCTTATTATTTTTCTCTCTTGGTGG
3025144 T
1 T
3025145 TATAAAAACT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.19, C:0.15, G:0.11, T:0.55
Consensus pattern (54 bp):
TAAATTAATAGTCTTACTCTTTATAGTCTTCTTATTATTTTTCTCTCTTGGTGG
Found at i:3025363 original size:29 final size:26
Alignment explanation
Indices: 3025311--3025364 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
3025301 CTATTAATTA
* *
3025311 AATAATAAAATATCTTATATTAAAAT
1 AATAATAAAATATCTTACAATAAAAT
3025337 AATAATAAAATAATCTTAACCAATAAAA
1 AATAATAAAAT-ATCTT-A-CAATAAAA
3025365 ATCTAACACC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 5 0.22
28 1 0.04
29 6 0.26
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.31
Consensus pattern (26 bp):
AATAATAAAATATCTTACAATAAAAT
Found at i:3029915 original size:9 final size:9
Alignment explanation
Indices: 3029901--3029930 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
3029891 ATTCAAACCC
3029901 TTTAAAATT
1 TTTAAAATT
3029910 TTTAAAATTT
1 TTTAAAA-TT
3029920 TTTAAAATT
1 TTTAAAATT
3029929 TT
1 TT
3029931 AAATTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTAAAATT
Found at i:3029923 original size:10 final size:10
Alignment explanation
Indices: 3029901--3029930 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
3029891 ATTCAAACCC
3029901 TTTAAAA-TT
1 TTTAAAATTT
3029910 TTTAAAATTT
1 TTTAAAATTT
3029920 TTTAAAATTT
1 TTTAAAATTT
3029930 T
1 T
3029931 AAATTAGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.35
10 13 0.65
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTAAAATTT
Found at i:3030887 original size:20 final size:21
Alignment explanation
Indices: 3030845--3030888 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
3030835 TTGAAGGATG
**
3030845 ATATTGTTATTTCAATTTTAA
1 ATATTGTTATTTCAATTAAAA
*
3030866 ATATTTTTATTT-AATTAAAA
1 ATATTGTTATTTCAATTAAAA
3030886 ATA
1 ATA
3030889 CCACATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (21 bp):
ATATTGTTATTTCAATTAAAA
Found at i:3031467 original size:22 final size:22
Alignment explanation
Indices: 3031437--3031482 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
3031427 AAAAGAGATT
*
3031437 AATTGGGAGCGAAGAA-AAGAAG
1 AATTAGGAG-GAAGAAGAAGAAG
*
3031459 AATTAGGAGGAAGAAGAGGAAG
1 AATTAGGAGGAAGAAGAAGAAG
3031481 AA
1 AA
3031483 AAAGATCAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.37, T:0.09
Consensus pattern (22 bp):
AATTAGGAGGAAGAAGAAGAAG
Found at i:3033339 original size:100 final size:100
Alignment explanation
Indices: 3033151--3033342 Score: 276
Period size: 100 Copynumber: 1.9 Consensus size: 100
3033141 ATTGAACATT
* * *
3033151 AACATCATTTACAGTCTTGAGCAATTAGTTTGAATGCCCCTAATATTTAACATTCCACCTTTCTG
1 AACATCATTTACAGTCTTGAACAATTAGTCTGAATGCCCCTAATATTTAAAATTCCACCTTTCTG
* *
3033216 AGCTGAAAACTTAAATGGGGATTTAAATTGTGATC
66 AGCTGAAAACTCAAATGGAGATTTAAATTGTGATC
* * * * *
3033251 AACATCATTTTCAGTCTTTAACAATTAGTCTGAATGCCCTTAATATTTAAAATTCTACCTTTTTG
1 AACATCATTTACAGTCTTGAACAATTAGTCTGAATGCCCCTAATATTTAAAATTCCACCTTTCTG
* *
3033316 AGCTGACAACTCAATTGGAGATTTAAA
66 AGCTGAAAACTCAAATGGAGATTTAAA
3033343 GTGCAATCAA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (100 bp):
AACATCATTTACAGTCTTGAACAATTAGTCTGAATGCCCCTAATATTTAAAATTCCACCTTTCTG
AGCTGAAAACTCAAATGGAGATTTAAATTGTGATC
Found at i:3040302 original size:17 final size:17
Alignment explanation
Indices: 3040227--3040260 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3040217 TATATTTATT
*
3040227 TTTTAAAATTTTTTTAA
1 TTTTAAAATATTTTTAA
3040244 TTTTAAAATATTTTTAA
1 TTTTAAAATATTTTTAA
3040261 AATACTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAAAATATTTTTAA
Found at i:3040333 original size:22 final size:21
Alignment explanation
Indices: 3040295--3040335 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
3040285 ATTTTAAAAT
*
3040295 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAATTTTTTTA
*
3040316 ATTTTTAAAATAAATTTTTT
1 ATTTTTAAAATAATTTTTTT
3040336 GGTATTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (21 bp):
ATTTTTAAAATAATTTTTTTA
Found at i:3040342 original size:23 final size:21
Alignment explanation
Indices: 3040294--3040353 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 21
3040284 AATTTTAAAA
*
3040294 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTT
3040314 TAATTTTTAAAATAAATTTTTT
1 T-ATTTTTAAAATAAATTTTTT
3040336 GGTATTTATTAAAA-AAAT
1 --TATTT-TTAAAATAAAT
3040354 AGGCCGGGCC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 1 0.03
21 11 0.32
22 7 0.21
23 8 0.24
24 7 0.21
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTT
Found at i:3041362 original size:22 final size:24
Alignment explanation
Indices: 3041337--3041384 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
3041327 TTTTACTTTT
3041337 AATAAATAAATATA-TAAA-TAAA
1 AATAAATAAATATACTAAACTAAA
*
3041359 AATAAATTAATATACTAAACTAAA
1 AATAAATAAATATACTAAACTAAA
3041383 AA
1 AA
3041385 AATTATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.57
23 4 0.17
24 6 0.26
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (24 bp):
AATAAATAAATATACTAAACTAAA
Found at i:3045476 original size:17 final size:17
Alignment explanation
Indices: 3045454--3045486 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
3045444 CTGATAGAAA
3045454 TTAAATTATTATTATTT
1 TTAAATTATTATTATTT
3045471 TTAAATTATTATTATT
1 TTAAATTATTATTATT
3045487 ATCAAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTAAATTATTATTATTT
Found at i:3048491 original size:46 final size:44
Alignment explanation
Indices: 3048435--3048529 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 44
3048425 GGTTCACTGT
*
3048435 AATGAAATAGAGCTGTAATCAGTAATT-TAACTGTTTGGTTGAATGG
1 AATGAAATAGAGCTATAAT-AGT-ATTCT-ACTGTTTGGTTGAATGG
* ** *
3048481 AATGGAATAGAGCTATAATAGTATTCTTGTGTTTGGTTGAATGT
1 AATGAAATAGAGCTATAATAGTATTCTACTGTTTGGTTGAATGG
3048525 AATGA
1 AATGA
3048530 TGTTGTAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
44 21 0.50
45 4 0.10
46 17 0.40
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (44 bp):
AATGAAATAGAGCTATAATAGTATTCTACTGTTTGGTTGAATGG
Found at i:3048933 original size:22 final size:22
Alignment explanation
Indices: 3048908--3048963 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
3048898 ATAACTTGAG
3048908 AATTATATTAAGAATG-TTATTA
1 AATTATATTAAGAA-GATTATTA
*
3048930 AATTATATTTAATAAGATTATTA
1 AATTATA-TTAAGAAGATTATTA
3048953 AGATTAT-TTAA
1 A-ATTATATTAA
3048964 AAGTAAATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
22 12 0.40
23 13 0.43
24 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
AATTATATTAAGAAGATTATTA
Found at i:3049233 original size:6 final size:6
Alignment explanation
Indices: 3049204--3049248 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
3049194 AAAAGTATTT
* * *
3049204 TAAAAT TAAAAT TAAAAT TAAAAA TAAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA T-AAAAA TAAAAA TAAAAA TA
3049249 TATTTATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
6 31 0.84
7 6 0.16
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (6 bp):
TAAAAA
Found at i:3049233 original size:13 final size:13
Alignment explanation
Indices: 3049205--3049247 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
3049195 AAAGTATTTT
*
3049205 AAAATT-AAAATT
1 AAAATTAAAAATA
3049217 AAAATTAAAAATA
1 AAAATTAAAAATA
*
3049230 AAAAATAAAAATA
1 AAAATTAAAAATA
3049243 AAAAT
1 AAAAT
3049248 ATATTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
12 6 0.22
13 21 0.78
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATTAAAAATA
Found at i:3049233 original size:19 final size:19
Alignment explanation
Indices: 3049205--3049248 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
3049195 AAAGTATTTT
* * *
3049205 AAAATTAAAATTAAAATTA
1 AAAATAAAAAATAAAAATA
3049224 AAAATAAAAAATAAAAATA
1 AAAATAAAAAATAAAAATA
3049243 AAAATA
1 AAAATA
3049249 TATTTATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATAAAAAATAAAAATA
Found at i:3054675 original size:46 final size:46
Alignment explanation
Indices: 3054601--3054904 Score: 362
Period size: 46 Copynumber: 7.1 Consensus size: 46
3054591 AATTTTGCAA
*
3054601 AGATAAGTGTAGCT-AGGCTACCACTTATCACTTTCTCACTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
*
3054646 AGATAAGTGTAGCTAAGGCTACCACTTATCACTTTCTCACTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
* *
3054692 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
*
3054738 AGATAA--GT-G-T--AG----CACTTATCACTTTTTCACTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
* *
3054774 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
*
3054820 AGATAA--GT-G-T--AG----CACTTATCACTTTTTCACTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
* * *
3054856 AGATAAGTGTAGCTAAAGCTGCCACTTATCACTTTATCTCTTGATC
1 AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
3054902 AGA
1 AGA
3054905 AGTACTCAAA
Statistics
Matches: 227, Mismatches: 11, Indels: 41
0.81 0.04 0.15
Matches are distributed among these distances:
36 56 0.25
38 4 0.02
39 2 0.01
40 6 0.03
42 6 0.03
43 2 0.01
44 4 0.02
45 14 0.06
46 133 0.59
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (46 bp):
AGATAAGTGTAGCTAAAGCTACCACTTATCACTTTCTCACTTGATC
Found at i:3054755 original size:36 final size:36
Alignment explanation
Indices: 3054714--3054868 Score: 184
Period size: 36 Copynumber: 4.0 Consensus size: 36
3054704 CTAAAGCTAC
*
3054714 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
3054750 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAG
1 CACTTATCACTTTGTCACTTGATCAGATAA--GT-G-T--AG
*
3054792 CTACCACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 ----CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
*
3054832 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
3054868 C
1 C
3054869 TAAAGCTGCC
Statistics
Matches: 103, Mismatches: 6, Indels: 20
0.80 0.05 0.16
Matches are distributed among these distances:
36 63 0.61
38 2 0.02
39 1 0.01
40 3 0.03
42 3 0.03
43 1 0.01
44 2 0.02
46 28 0.27
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.37
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAG
Found at i:3054805 original size:82 final size:82
Alignment explanation
Indices: 3054668--3054904 Score: 447
Period size: 82 Copynumber: 2.9 Consensus size: 82
3054658 CTAAGGCTAC
*
3054668 CACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
3054733 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
3054750 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
3054815 TGATCAGATAAGTGTAG
66 TGATCAGATAAGTGTAG
* *
3054832 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTGCCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
3054897 TGATCAGA
66 TGATCAGA
3054905 AGTACTCAAA
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 152 1.00
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.36
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCTCT
TGATCAGATAAGTGTAG
Found at i:3054882 original size:128 final size:132
Alignment explanation
Indices: 3054601--3054904 Score: 366
Period size: 128 Copynumber: 2.4 Consensus size: 132
3054591 AATTTTGCAA
* * * *
3054601 AGATAAGTGTAGCTAGGCTACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAGGCT
1 AGATAAGTGTAGCTAAGCTGCCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCT
*
3054666 ACCACTTATCACTTTCTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCT
66 ACCACTTATCACTTTCTCACTTGATCAGATAAG-GTAGCT-AAG---CCACTTATCACTTTGTCA
3054731 CTTGATC
126 CTTGATC
*
3054738 AGATAA--GT-G-T-A---G-CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCT
1 AGATAAGTGTAGCTAAGCTGCCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCT
* * *
3054794 ACCACTTATCACTTTGTCTCTTGATCAGATAA-GT-G-T-AG-CACTTATCACTTTTTCACTTGA
66 ACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGCCACTTATCACTTTGTCACTTGA
3054854 TC
131 TC
*
3054856 AGATAAGTGTAGCTAAAGCTGCCACTTATCACTTTATCTCTTGATCAGA
1 AGATAAGTGTAGCT-AAGCTGCCACTTATCACTTTATCACTTGATCAGA
3054905 AGTACTCAAA
Statistics
Matches: 147, Mismatches: 10, Indels: 29
0.79 0.05 0.16
Matches are distributed among these distances:
118 28 0.19
120 2 0.01
121 1 0.01
122 3 0.02
124 2 0.01
125 1 0.01
126 2 0.01
127 1 0.01
128 97 0.66
133 1 0.01
134 1 0.01
135 2 0.01
137 6 0.04
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (132 bp):
AGATAAGTGTAGCTAAGCTGCCACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTAAAGCT
ACCACTTATCACTTTCTCACTTGATCAGATAAGGTAGCTAAGCCACTTATCACTTTGTCACTTGA
TC
Done.