Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 62
Found at i:6886340 original size:20 final size:20
Alignment explanation
Indices: 6886297--6886340 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
6886287 CGATAGTCAT
** *
6886297 TTTCGTATTGCGATTTTCAT
1 TTTCGTATTGCGATTTAAAG
*
6886317 TTTCGTGTTGCGATTTAAAG
1 TTTCGTATTGCGATTTAAAG
6886337 TTTC
1 TTTC
6886341 AGAAACTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.16, C:0.14, G:0.18, T:0.52
Consensus pattern (20 bp):
TTTCGTATTGCGATTTAAAG
Found at i:6888229 original size:20 final size:20
Alignment explanation
Indices: 6888204--6888304 Score: 79
Period size: 20 Copynumber: 5.3 Consensus size: 20
6888194 AGAATAGTTT
6888204 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCAAAAATG
* * *
6888224 ACTATCGTAA--C-GAGA-G
1 ACTATCGCAATGCAAAAATG
6888240 A--ATCGCAATGCAAAAATG
1 ACTATCGCAATGCAAAAATG
* *
6888258 ACTATCGTAATGCGAAAATG
1 ACTATCGCAATGCAAAAATG
* * **
6888278 ACTATCGGAATGCGAATTTG
1 ACTATCGCAATGCAAAAATG
6888298 ACTATCG
1 ACTATCG
6888305 TAACAAAAGA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
14 6 0.09
16 3 0.05
17 4 0.06
18 3 0.05
20 48 0.75
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (20 bp):
ACTATCGCAATGCAAAAATG
Found at i:6888360 original size:20 final size:20
Alignment explanation
Indices: 6888335--6888493 Score: 130
Period size: 20 Copynumber: 8.6 Consensus size: 20
6888325 GAAATGAAAA
**
6888335 TCGCATTGCGATAGTCAAAT
1 TCGCATTGCGATAGTCATTT
6888355 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
*
6888375 TCGCGTTGCGAT--T--TTGT
1 TCGCATTGCGATAGTCATT-T
* * *
6888392 T-G--TTGCGAT-TTTAATT
1 TCGCATTGCGATAGTCATTT
6888408 TCGCATTGCGAT--TC--TT
1 TCGCATTGCGATAGTCATTT
**
6888424 TCG--TTGCGATAGTCAAAT
1 TCGCATTGCGATAGTCATTT
6888442 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
6888462 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
*
6888482 TCGCGTTGCGAT
1 TCGCATTGCGAT
6888494 TTTAAGTTTC
Statistics
Matches: 117, Mismatches: 9, Indels: 26
0.77 0.06 0.17
Matches are distributed among these distances:
14 14 0.12
15 1 0.01
16 12 0.10
17 4 0.03
18 6 0.05
19 7 0.06
20 73 0.62
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATTT
Found at i:6888417 original size:33 final size:34
Alignment explanation
Indices: 6888360--6888494 Score: 121
Period size: 33 Copynumber: 3.8 Consensus size: 34
6888350 CAAATTCGCA
* * *
6888360 TTGCGATAGTCATTTTCGCGTTGCGATT-TTGTTG
1 TTGCGATAGTCAATTTCGCATTGCGATTCTT-TCG
* *
6888394 TTGCGAT-TTTAATTTCGCATTGCGATTCTTTCG
1 TTGCGATAGTCAATTTCGCATTGCGATTCTTTCG
*
6888427 TTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCG
1 TTGCGATAGTCAATTTCGCATTGCGAT--TC--TTTCG
* *
6888465 CATTGCGATAGTCATTTTCGCGTTGCGATT
1 --TTGCGATAGTCAATTTCGCATTGCGATT
6888495 TTAAGTTTCA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
33 25 0.30
34 25 0.30
36 2 0.02
38 6 0.07
40 24 0.29
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (34 bp):
TTGCGATAGTCAATTTCGCATTGCGATTCTTTCG
Found at i:6889052 original size:21 final size:21
Alignment explanation
Indices: 6888974--6889054 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
6888964 CCCGACTCAC
*
6888974 CTGTCATCGTTCAAGAGGCCT
1 CTGTCATCGTTCAAGAGGCCA
** *
6888995 C-CCCTATCGTTCAAGAGGCCC
1 CTGTC-ATCGTTCAAGAGGCCA
* **
6889016 CTATCATCCCTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGGCCA
*
6889037 CTGTCATCGTTGAAGAGG
1 CTGTCATCGTTCAAGAGG
6889055 TCCCTCCCAA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.96
22 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.22, T:0.23
Consensus pattern (21 bp):
CTGTCATCGTTCAAGAGGCCA
Found at i:6890434 original size:14 final size:14
Alignment explanation
Indices: 6890415--6890450 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
6890405 ATTGTTTAAT
6890415 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
6890429 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
6890443 TGATTTGT
1 TGATTTGT
6890451 TTAATTGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:6890602 original size:33 final size:33
Alignment explanation
Indices: 6890552--6890632 Score: 108
Period size: 33 Copynumber: 2.4 Consensus size: 33
6890542 AAAACTGACT
**
6890552 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAACGC-GAAATGAAAATCGCAACGAGAGA
* * *
6890586 ATCGCAATGCGAAATGAAAATCGCAATGAGTGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
6890619 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
6890633 CTAATTTCGC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 32 0.78
34 9 0.22
ACGTcount: A:0.41, C:0.21, G:0.25, T:0.14
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:6890658 original size:19 final size:19
Alignment explanation
Indices: 6890636--6890723 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
6890626 CGCGAAACTA
*
6890636 ATTTCGCGTTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
6890655 ATTTTCGCATTACGA--TTC
1 A-TTTCGCATTGCGATTTTC
*
6890673 A-CTCG--TTGCGATTTTC
1 ATTTCGCATTGCGATTTTC
*
6890689 ATTTCGCATTTCGATTTTC
1 ATTTCGCATTGCGATTTTC
6890708 ATTTCGCATTGCGATT
1 ATTTCGCATTGCGATT
6890724 CTCTCGTTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 5 0.09
16 7 0.12
17 3 0.05
18 4 0.07
19 26 0.46
20 11 0.20
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
ATTTCGCATTGCGATTTTC
Found at i:6890694 original size:53 final size:52
Alignment explanation
Indices: 6890636--6890756 Score: 161
Period size: 52 Copynumber: 2.3 Consensus size: 52
6890626 CGCGAAACTA
* **
6890636 ATTTCGCGTTGCGATTTTCATTTTCGCATTACGATTCACTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTTTCA-TTTCGCATTACGATTCACTCGTTGAGATAGTC
* * * *
6890689 ATTTCGCATTTCGATTTTCATTTCGCATTGCGATTCTCTCGTTGAGATAGTC
1 ATTTCGCGTTGCGATTTTCATTTCGCATTACGATTCACTCGTTGAGATAGTC
6890741 ATTTCCGCGTTGCGAT
1 ATTT-CGCGTTGCGAT
6890757 AGTCAATTCC
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 31 0.53
53 27 0.47
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (52 bp):
ATTTCGCGTTGCGATTTTCATTTCGCATTACGATTCACTCGTTGAGATAGTC
Found at i:6890757 original size:20 final size:20
Alignment explanation
Indices: 6890728--6890816 Score: 99
Period size: 20 Copynumber: 4.5 Consensus size: 20
6890718 GCGATTCTCT
*
6890728 CGTTGAGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
6890748 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
* *
6890768 CATTGTGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
* * *
6890788 TGTTGCCATAGTCATATT-CT
1 CGTTGCGATAGTCAT-TTCCG
6890808 CGTTGCGAT
1 CGTTGCGAT
6890817 TTCCGCGTTG
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 54 0.96
21 2 0.04
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:6893256 original size:24 final size:24
Alignment explanation
Indices: 6893229--6893282 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
6893219 CTGACAAATC
*
6893229 ATCAAAATCTGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
6893253 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
6893277 ATCAAA
1 ATCAAA
6893283 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:6894156 original size:20 final size:20
Alignment explanation
Indices: 6894133--6894229 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 20
6894123 TTGCGATAGT
* *
6894133 CAGAATCTCGTTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
6894153 CAGATTCGCATTGCGATTTA
1 CAGAATCGCATTGCGATTTA
*
6894173 C-GTAATCGCATTGCGATTTTC
1 CAG-AATCGCATTGCGA-TTTA
*
6894194 CA-AATTCGCGTTGCGATTTA
1 CAGAA-TCGCATTGCGATTTA
*
6894214 C-GTATTCGCATTGCGA
1 CAG-AATCGCATTGCGA
6894230 ATTAGGAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
19 1 0.02
20 46 0.74
21 15 0.24
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (20 bp):
CAGAATCGCATTGCGATTTA
Found at i:6894209 original size:41 final size:40
Alignment explanation
Indices: 6894143--6894229 Score: 129
Period size: 41 Copynumber: 2.1 Consensus size: 40
6894133 CAGAATCTCG
*
6894143 TTGCGATTTACAGATTCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACAAATTCGCATTGCGATTTACGTAATCGCA
* * *
6894183 TTGCGATTTTCCAAATTCGCGTTGCGATTTACGTATTCGCA
1 TTGCGA-TTTACAAATTCGCATTGCGATTTACGTAATCGCA
6894224 TTGCGA
1 TTGCGA
6894230 ATTAGGAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
40 6 0.14
41 36 0.86
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (40 bp):
TTGCGATTTACAAATTCGCATTGCGATTTACGTAATCGCA
Found at i:6894250 original size:21 final size:21
Alignment explanation
Indices: 6894226--6894292 Score: 107
Period size: 21 Copynumber: 3.2 Consensus size: 21
6894216 TATTCGCATT
* *
6894226 GCGAATTAGGAAAATCGCAAC
1 GCGAATTTGGGAAATCGCAAC
6894247 GCGAATTTGGGAAATCGCAAC
1 GCGAATTTGGGAAATCGCAAC
*
6894268 GCGAATTTGGGAAATCGCAAT
1 GCGAATTTGGGAAATCGCAAC
6894289 GCGA
1 GCGA
6894293 TAGTCAGAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (21 bp):
GCGAATTTGGGAAATCGCAAC
Found at i:6895930 original size:6 final size:6
Alignment explanation
Indices: 6895919--6896133 Score: 421
Period size: 6 Copynumber: 35.7 Consensus size: 6
6895909 TTTAATTGCA
6895919 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
6895967 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
6896015 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
6896063 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
6896111 AAAATT AAAATT AAAATTT AAAA
1 AAAATT AAAATT AAAA-TT AAAA
6896134 CATTCGATTT
Statistics
Matches: 208, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
6 202 0.97
7 6 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
AAAATT
Found at i:6896236 original size:21 final size:22
Alignment explanation
Indices: 6896204--6896245 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
6896194 ATGTTAGAAA
6896204 AAAATGAATAAAATAAA-TAAAG
1 AAAATGAATAAAA-AAACTAAAG
6896226 AAAAT-AATAAAAAAACTAAA
1 AAAATGAATAAAAAAACTAAA
6896246 ATTACAACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.16
21 11 0.58
22 5 0.26
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (22 bp):
AAAATGAATAAAAAAACTAAAG
Found at i:6896532 original size:31 final size:31
Alignment explanation
Indices: 6896474--6896532 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
6896464 TTTGTTAATA
* *
6896474 ATAATAAACAATATATACATATGAAAAAATG
1 ATAAAAAACAATATATACAAATGAAAAAATG
*
6896505 ATAAAAAAC-ATATATACTAAATTAAAAA
1 ATAAAAAACAATATATAC-AAATGAAAAA
6896533 TAAAATATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 8 0.33
31 16 0.67
ACGTcount: A:0.64, C:0.07, G:0.03, T:0.25
Consensus pattern (31 bp):
ATAAAAAACAATATATACAAATGAAAAAATG
Found at i:6899134 original size:49 final size:49
Alignment explanation
Indices: 6899008--6899135 Score: 118
Period size: 49 Copynumber: 2.6 Consensus size: 49
6898998 GGTTTGATTT
* * **
6899008 TTTGG-AATATTTGTTGTTACATGTTGCTGTATATGAAATAGGGTTTTCA
1 TTTGGTAATATAT-TTGTTACATGCTATTGTATATGAAATAGGGTTTTCA
* * * **
6899057 TTTGGTAATTTTTTTGTTGCATGCTATTGTATATGAAATAGGGTTTTTG
1 TTTGGTAATATATTTGTTACATGCTATTGTATATGAAATAGGGTTTTCA
*
6899106 TTTCGAGTAATATATTT-TTATATG-TATTGT
1 TTT-G-GTAATATATTTGTTACATGCTATTGT
6899136 GATTGTTGTT
Statistics
Matches: 65, Mismatches: 11, Indels: 6
0.79 0.13 0.07
Matches are distributed among these distances:
49 44 0.68
50 12 0.18
51 9 0.14
ACGTcount: A:0.23, C:0.05, G:0.20, T:0.52
Consensus pattern (49 bp):
TTTGGTAATATATTTGTTACATGCTATTGTATATGAAATAGGGTTTTCA
Found at i:6915376 original size:32 final size:29
Alignment explanation
Indices: 6915302--6915425 Score: 122
Period size: 30 Copynumber: 4.0 Consensus size: 29
6915292 CTCGAAAGAC
* *
6915302 CTATCCATATATTCCGAAGAACATAGGTAA
1 CTATCCATAT-GTCCGAAGGACATAGGTAA
*
6915332 CTGTCCATATGTCCAGAAGGACATAGGTAA
1 CTATCCATATGTCC-GAAGGACATAGGTAA
*
6915362 TCCTTTCCATATGTCCCGAAGGACATAGGTAAA
1 --CTATCCATATGT-CCGAAGGACATAGGT-AA
* * *
6915395 CTATCCATATGTCTTGAAAGACATAGATAA
1 CTATCCATATGTC-CGAAGGACATAGGTAA
6915425 C
1 C
6915426 CCTCGACTCT
Statistics
Matches: 80, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
29 3 0.04
30 27 0.34
31 22 0.28
32 24 0.30
33 4 0.05
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (29 bp):
CTATCCATATGTCCGAAGGACATAGGTAA
Found at i:6915420 original size:31 final size:31
Alignment explanation
Indices: 6915302--6915407 Score: 126
Period size: 32 Copynumber: 3.4 Consensus size: 31
6915292 CTCGAAAGAC
* *
6915302 CTATCCATATATTCC-GAAGAACATAGGT-AA
1 CTATCCATAT-GTCCAGAAGGACATAGGTAAA
* *
6915332 CTGTCCATATGTCCAGAAGGACATAGGTAATC
1 CTATCCATATGTCCAGAAGGACATAGGTAA-A
* *
6915364 CTTTCCATATGTCCCGAAGGACATAGGTAAA
1 CTATCCATATGTCCAGAAGGACATAGGTAAA
6915395 CTATCCATATGTC
1 CTATCCATATGTC
6915408 TTGAAAGACA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
29 3 0.05
30 21 0.32
31 13 0.20
32 28 0.43
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (31 bp):
CTATCCATATGTCCAGAAGGACATAGGTAAA
Found at i:6915889 original size:15 final size:16
Alignment explanation
Indices: 6915869--6915898 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6915859 TATACTACAT
6915869 ATCACATAA-ATGTAG
1 ATCACATAACATGTAG
6915884 ATCACATAACATGTA
1 ATCACATAACATGTA
6915899 ATACAAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.17, G:0.10, T:0.27
Consensus pattern (16 bp):
ATCACATAACATGTAG
Found at i:6916315 original size:19 final size:19
Alignment explanation
Indices: 6916277--6916315 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6916267 CCTTCACTGG
***
6916277 TGTATCGGTACACTGCTTA
1 TGTATCGGTACACAAATTA
6916296 TGTATCGGTACACAAATTA
1 TGTATCGGTACACAAATTA
6916315 T
1 T
6916316 ATTCAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGGTACACAAATTA
Found at i:6919898 original size:43 final size:42
Alignment explanation
Indices: 6919827--6919909 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 42
6919817 TTTAAAATTG
* ** * *
6919827 GTAAAAAATTATTTTTTGTTTCGTCTAATATTAATATTTTTT
1 GTAAAAAATTATTTTTGGTAGCATCTAATAATAATATTTTTT
6919869 GTAAAAAATTATTTTTAGGTAGCATCTAATAATAATATTTT
1 GTAAAAAATTATTTTT-GGTAGCATCTAATAATAATATTTT
6919910 CAATAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 16 0.46
43 19 0.54
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (42 bp):
GTAAAAAATTATTTTTGGTAGCATCTAATAATAATATTTTTT
Found at i:6922316 original size:197 final size:199
Alignment explanation
Indices: 6922068--6922442 Score: 497
Period size: 197 Copynumber: 1.9 Consensus size: 199
6922058 AATATAGTTG
* * *
6922068 AAATAAAAAAATTATGTCAAATTTATTTAGTTAAAATATTTTATGAAAATAACAAATTATGACAA
1 AAATAAAAAAATTATGTCAAATTTATTTAGTCAAAATATTTTATCAAAATAACAAATTATGAAAA
* * *
6922133 ATTTAAATAGTTATAATAACAAATTATAATAAATATTAATTTCTCAATATAAAAAGATATGACAA
66 ATTTAAATAGTCATAATAACAAATTACAACAAATATTAATTTCTCAATATAAAAAGATATGACAA
* *
6922198 ATAATATT-TTTCACAGTAATC-AATTATAACAAATTTATTTAGTCACAATAACATATTAAACTT
131 ATAATATTCTTTCACAATAA-CAAATTATAACAAAATTATTTAGTCACAATAACATATTAAACTT
6922261 AGTCA
195 AGTCA
* * * * * *
6922266 AAAT-AAAAATTTATGTTAAATTTATTTCGTCACAAA-ATTTTCTCAAAATAACAACTTTTGAAA
1 AAATAAAAAAATTATGTCAAATTTATTTAGTCA-AAATATTTTATCAAAATAACAAATTATGAAA
** * * * * ** *
6922329 AATTTATTTAGTCATTATAACAATTTACAACAAATATTAATTTCTCATTATAAATATTTTTGACA
65 AATTTAAATAGTCATAATAACAAATTACAACAAATATTAATTTCTCAATATAAAAAGATATGACA
6922394 AATAATATTCTTTCACAATAACAAATTATAACAAAATTATTTAGTCACA
130 AATAATATTCTTTCACAATAACAAATTATAACAAAATTATTTAGTCACA
6922443 GTAAAAAAGT
Statistics
Matches: 151, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
197 109 0.72
198 42 0.28
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (199 bp):
AAATAAAAAAATTATGTCAAATTTATTTAGTCAAAATATTTTATCAAAATAACAAATTATGAAAA
ATTTAAATAGTCATAATAACAAATTACAACAAATATTAATTTCTCAATATAAAAAGATATGACAA
ATAATATTCTTTCACAATAACAAATTATAACAAAATTATTTAGTCACAATAACATATTAAACTTA
GTCA
Found at i:6922469 original size:31 final size:32
Alignment explanation
Indices: 6922406--6922469 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
6922396 TAATATTCTT
*
6922406 TCACAATAACAAATTATAACAAAATTATTTAG
1 TCACAATAAAAAATTATAACAAAATTATTTAG
*
6922438 TCACAGTAAAAAAGTTATAA-AAAA-TATTTAG
1 TCACAATAAAAAA-TTATAACAAAATTATTTAG
6922469 T
1 T
6922470 GTCGAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 8 0.28
32 15 0.52
33 6 0.21
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (32 bp):
TCACAATAAAAAATTATAACAAAATTATTTAG
Found at i:6934900 original size:19 final size:19
Alignment explanation
Indices: 6934873--6934912 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6934863 ACAATATATG
* *
6934873 TTATCACTATAATTAAAAT
1 TTATAACTACAATTAAAAT
*
6934892 TTATAACTACAATTATAAT
1 TTATAACTACAATTAAAAT
6934911 TT
1 TT
6934913 CTCAAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (19 bp):
TTATAACTACAATTAAAAT
Found at i:6935440 original size:419 final size:416
Alignment explanation
Indices: 6934637--6935480 Score: 1230
Period size: 419 Copynumber: 2.0 Consensus size: 416
6934627 TACGAAACTT
* * * *
6934637 TTACTATATAACATTTTTGGCACCAAAAAATAGGGATAAATGGTTCTGATAGTATAATTTTTCAT
1 TTACTATATAACATTTTTGACACCAAAAAATAGGGAGAAATGGTTCTAATAGTATAAATTTTCAT
6934702 AATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACTTGAATTTTATTATCTGATG
66 AATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACTTGAATTTTATTATCTGATG
** *
6934767 TGATAATTTTTCTATAACAATAACTATAAATTATAATTACAAAACTTGTCAATATAGCTTTTTGA
131 TGATAATTTTTCTATAACAATAACTATAAATTATAATTACAAAAAGTGTCAATATAACTTTTTG-
* *
6934832 AAAGAAAAAAAAGTGGAGAAAAATATTTATCACAATATATGTTATCACTATAATTAAAATTTATA
195 AAAGAAAAAAAAGTGGAGAAAAATAGTTATCACAATATATGCTATCACTATAATTAAAATTTATA
* *
6934897 ACTACAATTATAATTTCTCAAAAAATGTGAATACCATTATTTTTTTGTGACAATGTTTTTTGTAA
260 ACTACAAATATAATTTCTCAAAAAACGTGAATACCATTATTTTTTTGTGACAATGTTTTTTGTAA
* *
6934962 TAATTATAAACACTTATAGTTACAAAAATTGTTAATATATAATTTTCTGGTGCAAAAAATATGGA
325 TAATTATAAACACTTATAGTTACAAAAATTGTCAATATATAATTTTCTGGCGCAAAAAATATGGA
6935027 GGAAAATCTTTATGACAATATATTTTG
390 GGAAAATCTTTATGACAATATATTTTG
* ** * *
6935054 TTACTATATAACATTTTTTACATTAAAAAATATGGAGAAATGGTTTTAATAGTATAAATTTTCAT
1 TTACTATATAACATTTTTGACACCAAAAAATAGGGAGAAATGGTTCTAATAGTATAAATTTTCAT
* * *
6935119 AATGATTAAAATATATAAGTACAAAAATAATTTATTACAAAAAAACTTGAATTTTATTATTTGAT
66 AATGATTAAAATATATAACTACAAAAATAATTGATTAC-AAAAAACTTGAATTTTATTATCTGAT
*
6935184 GTGATAATTGTTTCTATAACAATAACTATAAATTATAATTATAAAAAGTGTCAATATAAC-TTTT
130 GTGATAATT-TTTCTATAACAATAACTATAAATTATAATTACAAAAAGTGTCAATATAACTTTTT
* * *
6935248 G-AA-ACAAAAAAGTGGAGAAAAATAGTTATGACAATTAATATATGCTATCACTATAGTTAAAAT
194 GAAAGAAAAAAAAGTGGAGAAAAATAGTTAT--C-A-CAATATATGCTATCACTATAATTAAAAT
* **
6935311 TTATAACTACAAATATAATTTGTCACAAAAACGTGAATATTATTA-TTTTTTGTGACAAT-TTTT
255 TTATAACTACAAATATAATTTCTCA-AAAAACGTGAATACCATTATTTTTTTGTGACAATGTTTT
* * * * * *
6935374 TTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGACTTTTTTGGCGTAAAAA
319 TTGTAATAATTATAAACACTTATAGTTACAAAAATTGTCAATATAT-AATTTTCTGGCGCAAAAA
* * *
6935439 ATATGGAGGGAAATTTTTGTGACAATATATTTTG
383 ATATGGAGGAAAATCTTTATGACAATATATTTTG
*
6935473 TCACTATA
1 TTACTATA
6935481 ATTAAAACAT
Statistics
Matches: 381, Mismatches: 38, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
415 24 0.06
416 2 0.01
417 93 0.24
418 86 0.23
419 160 0.42
420 16 0.04
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (416 bp):
TTACTATATAACATTTTTGACACCAAAAAATAGGGAGAAATGGTTCTAATAGTATAAATTTTCAT
AATGATTAAAATATATAACTACAAAAATAATTGATTACAAAAAACTTGAATTTTATTATCTGATG
TGATAATTTTTCTATAACAATAACTATAAATTATAATTACAAAAAGTGTCAATATAACTTTTTGA
AAGAAAAAAAAGTGGAGAAAAATAGTTATCACAATATATGCTATCACTATAATTAAAATTTATAA
CTACAAATATAATTTCTCAAAAAACGTGAATACCATTATTTTTTTGTGACAATGTTTTTTGTAAT
AATTATAAACACTTATAGTTACAAAAATTGTCAATATATAATTTTCTGGCGCAAAAAATATGGAG
GAAAATCTTTATGACAATATATTTTG
Found at i:6936859 original size:20 final size:20
Alignment explanation
Indices: 6936831--6936872 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
6936821 GTAAATATGG
* *
6936831 CTTACAGGTTTCAAAGCCCC
1 CTTAAAGGTTTCAAAACCCC
6936851 CTTAAAGGTTTCAAAACCCC
1 CTTAAAGGTTTCAAAACCCC
6936871 CT
1 CT
6936873 ATTCAAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.33, G:0.12, T:0.26
Consensus pattern (20 bp):
CTTAAAGGTTTCAAAACCCC
Found at i:6943607 original size:22 final size:23
Alignment explanation
Indices: 6943561--6943614 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
6943551 GGAATCGACA
*
6943561 CCCCCTTGTATGGGTACCGATTT
1 CCCCCTTGAATGGGTACCGATTT
*
6943584 CCCCTTTGAATGGGTACCGA-TT
1 CCCCCTTGAATGGGTACCGATTT
6943606 CCCCCTTGA
1 CCCCCTTGA
6943615 GGGAACCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.15, C:0.33, G:0.20, T:0.31
Consensus pattern (23 bp):
CCCCCTTGAATGGGTACCGATTT
Found at i:6956724 original size:29 final size:29
Alignment explanation
Indices: 6956677--6956742 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 29
6956667 TAAAATTTGG
* *
6956677 AAAAGTTTAAGGATTAAAAAG-GTAATTTTC
1 AAAAG-TTAAGGACT-AAAAGCATAATTTTC
6956707 AAAAGTTAAGGACTAAAAGCATAATTTTC
1 AAAAGTTAAGGACTAAAAGCATAATTTTC
6956736 AAAAGTT
1 AAAAGTT
6956743 GGGTGTTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
28 5 0.15
29 23 0.70
30 5 0.15
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.30
Consensus pattern (29 bp):
AAAAGTTAAGGACTAAAAGCATAATTTTC
Found at i:6959845 original size:19 final size:20
Alignment explanation
Indices: 6959820--6959868 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
6959810 AGTACGAATT
*
6959820 ATGAAAATGAAATGAGAAAG
1 ATGAAAATGAAAAGAGAAAG
*
6959840 -TGAAAAAT-AAAAGTGAAAG
1 ATG-AAAATGAAAAGAGAAAG
6959859 ATGAAAATGA
1 ATGAAAATGA
6959869 GATATGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.16
Consensus pattern (20 bp):
ATGAAAATGAAAAGAGAAAG
Found at i:6959875 original size:7 final size:7
Alignment explanation
Indices: 6959865--6959889 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6959855 AAAGATGAAA
6959865 ATGAGAT
1 ATGAGAT
6959872 ATGAGAT
1 ATGAGAT
6959879 ATGAGAT
1 ATGAGAT
6959886 ATGA
1 ATGA
6959890 AAGTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (7 bp):
ATGAGAT
Found at i:6963883 original size:45 final size:44
Alignment explanation
Indices: 6963827--6963932 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 44
6963817 ATATGAGAGA
*
6963827 CTTATGAAATAAGTTGGGTAATGCTGGTAATAGATCCAACATAG
1 CTTAGGAAATAAGTTGGGTAATGCTGGTAATAGATCCAACATAG
* *
6963871 TCTTAGGAAATAAGTTGGGTAATGTTGGTAATAGTTCCAACATAG
1 -CTTAGGAAATAAGTTGGGTAATGCTGGTAATAGATCCAACATAG
6963916 -TTAGAGAAATAAGTTGG
1 CTTAG-GAAATAAGTTGG
6963933 AATTCTAACA
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
43 4 0.07
44 12 0.21
45 41 0.72
ACGTcount: A:0.36, C:0.08, G:0.25, T:0.31
Consensus pattern (44 bp):
CTTAGGAAATAAGTTGGGTAATGCTGGTAATAGATCCAACATAG
Found at i:6969915 original size:24 final size:24
Alignment explanation
Indices: 6969871--6969916 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6969861 TTGTATAAAC
* *
6969871 TGCACCGAAGTGCCGCTTAGAATA
1 TGCACCGAAGTGCCACATAGAATA
*
6969895 TGCACCGAAGTTCCACATAGAA
1 TGCACCGAAGTGCCACATAGAA
6969917 ATGTCCCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.22, T:0.20
Consensus pattern (24 bp):
TGCACCGAAGTGCCACATAGAATA
Found at i:6969934 original size:23 final size:23
Alignment explanation
Indices: 6969907--6969966 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6969897 CACCGAAGTT
*
6969907 CCACATAGAAATGTCCCCAAGGA
1 CCACATAGAAATGTCCCCAACGA
* * *
6969930 CCACATAGTATTGTCCCGAACGA
1 CCACATAGAAATGTCCCCAACGA
*
6969953 CTACATAGAAATGT
1 CCACATAGAAATGT
6969967 TCTGAAGGAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.37, C:0.27, G:0.17, T:0.20
Consensus pattern (23 bp):
CCACATAGAAATGTCCCCAACGA
Found at i:6970132 original size:15 final size:15
Alignment explanation
Indices: 6970095--6970135 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
6970085 ACATAGCTTG
6970095 TATCACATAGACATA
1 TATCACATAGACATA
6970110 TAATCACATAGATCAT-
1 T-ATCACATAGA-CATA
6970126 TATCACATAG
1 TATCACATAG
6970136 CTTATATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.42
16 11 0.46
17 3 0.12
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (15 bp):
TATCACATAGACATA
Found at i:6976974 original size:24 final size:24
Alignment explanation
Indices: 6976941--6976986 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6976931 TTGTATAAAT
* *
6976941 TGCACTGAAGTGCCGCATAGAATA
1 TGCACCGAAGTGCCACATAGAATA
*
6976965 TGCACCGAAGTTCCACATAGAA
1 TGCACCGAAGTGCCACATAGAA
6976987 ATGTCCCAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.20
Consensus pattern (24 bp):
TGCACCGAAGTGCCACATAGAATA
Found at i:6977016 original size:23 final size:23
Alignment explanation
Indices: 6976990--6977036 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
6976980 CATAGAAATG
*
6976990 TCCCAAAGGACCACATAATATTT
1 TCCCAAAGGACCACACAATATTT
* * *
6977013 TCCCGAAGGATCACACAGTATTT
1 TCCCAAAGGACCACACAATATTT
6977036 T
1 T
6977037 TGCGAAGGAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.28
Consensus pattern (23 bp):
TCCCAAAGGACCACACAATATTT
Found at i:6987944 original size:22 final size:21
Alignment explanation
Indices: 6987898--6987945 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
6987888 TTTTTACTTA
* *
6987898 AAATATTTAATAAAAAATATT
1 AAATATTAAATAAAAAATAAT
*
6987919 AAATATTAAATTAAAATATAAT
1 AAATATTAAA-TAAAAAATAAT
6987941 AAATA
1 AAATA
6987946 ATTTTAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATTAAATAAAAAATAAT
Found at i:6988462 original size:54 final size:54
Alignment explanation
Indices: 6988377--6988537 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
6988367 AAATATATTA
* * *
6988377 GGAGATGTACATACTTACAACAATGTTAGTATGTGTTAAGAGCTACACTTTTTG
1 GGAGATGTACATACTTACACCAATGTAAGTATGTGTTAAGTGCTACACTTTTTG
* *
6988431 GGAGATGTACATACTTATACCAATGTAAGTATGTGTTAAGTGCTATACTTTTTG
1 GGAGATGTACATACTTACACCAATGTAAGTATGTGTTAAGTGCTACACTTTTTG
* * * * *
6988485 GGAGATGTACACACTTACACGAGTGTAAGTATATCTTAAGTGCTACACTTTTT
1 GGAGATGTACATACTTACACCAATGTAAGTATGTGTTAAGTGCTACACTTTTT
6988538 ATTTCATTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (54 bp):
GGAGATGTACATACTTACACCAATGTAAGTATGTGTTAAGTGCTACACTTTTTG
Found at i:7010774 original size:6 final size:6
Alignment explanation
Indices: 7010764--7010826 Score: 58
Period size: 6 Copynumber: 10.2 Consensus size: 6
7010754 CCGTTAAATT
* *
7010764 CTCTCT CTCTCC CTCTCC CCCTCC CTCTCTC C-CTCC CTCTCC CTCCCTCC
1 CTCTCC CTCTCC CTCTCC CTCTCC CTCTC-C CTCTCC CTCTCC CT--CTCC
7010814 C-CTCC CTCCTCC C
1 CTCTCC CT-CTCC C
7010827 CCCTCCCTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
5 7 0.15
6 29 0.60
7 7 0.15
8 5 0.10
ACGTcount: A:0.00, C:0.70, G:0.00, T:0.30
Consensus pattern (6 bp):
CTCTCC
Found at i:7010787 original size:12 final size:12
Alignment explanation
Indices: 7010772--7010839 Score: 74
Period size: 12 Copynumber: 6.0 Consensus size: 12
7010762 TTCTCTCTCT
7010772 CTCCCTCTCCCC
1 CTCCCTCTCCCC
*
7010784 CTCCCTCTCTCC
1 CTCCCTCTCCCC
7010796 CTCCCTCT--CC
1 CTCCCTCTCCCC
*
7010806 CTCCCTCCCCTCC
1 CTCCCTCTCC-CC
7010819 CT-CCTC-CCCC
1 CTCCCTCTCCCC
7010829 CTCCCT-TCCCC
1 CTCCCTCTCCCC
7010840 TCCTCCACAC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
10 13 0.27
11 9 0.18
12 23 0.47
13 4 0.08
ACGTcount: A:0.00, C:0.74, G:0.00, T:0.26
Consensus pattern (12 bp):
CTCCCTCTCCCC
Found at i:7010793 original size:14 final size:14
Alignment explanation
Indices: 7010776--7010842 Score: 52
Period size: 14 Copynumber: 4.9 Consensus size: 14
7010766 CTCTCTCTCC
7010776 CTCTCCCCCTCCCT
1 CTCTCCCCCTCCCT
7010790 CTCT--CCCTCCCT
1 CTCTCCCCCTCCCT
7010802 CTC-CCTCCCTCCCCT
1 CTCTCC-CCCT-CCCT
*
7010817 CCCTCCTCCC-CCCT
1 CTCTCC-CCCTCCCT
* *
7010831 CCCTTCCCCTCC
1 CTCTCCCCCTCC
7010843 TCCACACCAT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
12 11 0.24
13 3 0.07
14 19 0.42
15 6 0.13
16 6 0.13
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (14 bp):
CTCTCCCCCTCCCT
Found at i:7010809 original size:4 final size:4
Alignment explanation
Indices: 7010772--7010834 Score: 64
Period size: 4 Copynumber: 16.5 Consensus size: 4
7010762 TTCTCTCTCT
*
7010772 CTCC CTCTC C-CC CTCC CTCT CTCC CTCC CT-- CTCC CTCC CTCCC CTCC
1 CTCC CTC-C CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CT-CC CTCC
7010819 CT-C CTCC C-CC CTCC CT
1 CTCC CTCC CTCC CTCC CT
7010835 TCCCCTCCTC
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
2 2 0.04
3 8 0.16
4 34 0.68
5 6 0.12
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
CTCC
Found at i:7010840 original size:20 final size:20
Alignment explanation
Indices: 7010772--7010890 Score: 86
Period size: 20 Copynumber: 6.0 Consensus size: 20
7010762 TTCTCTCTCT
*
7010772 CTCCCTCTCCC-CCTCCCTCT
1 CTCCC-CTCCCTCCTCCCTCC
7010792 CT-CCCTCCCT-CTCCCTCC
1 CTCCCCTCCCTCCTCCCTCC
7010810 CTCCCCTCCCTCCTCCC-CC
1 CTCCCCTCCCTCCTCCCTCC
* *
7010829 CTCCCTTCCCCTCCTCCACACC
1 CTCCCCT-CCCTCCTCC-CTCC
* * * * *
7010851 ATGCCC-CCCGCCCCCCGCC
1 CTCCCCTCCCTCCTCCCTCC
7010870 CTCCCCCTCCCTCTCTCCCTC
1 CT-CCCCTCCCTC-CTCCCTC
7010891 TCTCTCTCTC
Statistics
Matches: 77, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
18 14 0.18
19 22 0.29
20 26 0.34
21 5 0.06
22 10 0.13
ACGTcount: A:0.03, C:0.72, G:0.03, T:0.23
Consensus pattern (20 bp):
CTCCCCTCCCTCCTCCCTCC
Found at i:7010844 original size:23 final size:23
Alignment explanation
Indices: 7010775--7010845 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
7010765 TCTCTCTCTC
7010775 CCTCTCCCCCTCCCTCTCTCCCT-C-
1 CCTC-CCCCCTCCCT-TC-CCCTCCT
*
7010799 CCT-CTCCCTCCC-TCCCCTCCCT
1 CCTCCCCCCTCCCTTCCCCT-CCT
7010821 CCTCCCCCCTCCCTTCCCCTCCT
1 CCTCCCCCCTCCCTTCCCCTCCT
7010844 CC
1 CC
7010846 ACACCATGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
19 4 0.10
20 2 0.05
21 1 0.03
22 11 0.28
23 13 0.32
24 9 0.22
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (23 bp):
CCTCCCCCCTCCCTTCCCCTCCT
Found at i:7011941 original size:15 final size:14
Alignment explanation
Indices: 7011911--7011950 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
7011901 TAACCCATTA
* *
7011911 TTCTATTTTGTTTT
1 TTCTTTTTTCTTTT
7011925 TTCTTTCTTTCTTTT
1 TTCTTT-TTTCTTTT
7011940 TTCTTTTTTCT
1 TTCTTTTTTCT
7011951 GCCGATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 10 0.43
15 13 0.57
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (14 bp):
TTCTTTTTTCTTTT
Found at i:7011942 original size:7 final size:7
Alignment explanation
Indices: 7011911--7011950 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
7011901 TAACCCATTA
*
7011911 TTCTATT
1 TTCTTTT
*
7011918 TTGTTTT
1 TTCTTTT
7011925 TTCTTTCT
1 TTCTTT-T
7011933 TTCTTTT
1 TTCTTTT
7011940 TTCTTTT
1 TTCTTTT
7011947 TTCT
1 TTCT
7011951 GCCGATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (7 bp):
TTCTTTT
Found at i:7013358 original size:2 final size:2
Alignment explanation
Indices: 7013351--7013380 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7013341 GGTTAATAGA
7013351 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7013381 GAAACAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7016528 original size:37 final size:38
Alignment explanation
Indices: 7016486--7016560 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
7016476 GCCTATTTTG
* *
7016486 GTATCGATA-CTCATAGAAGTATCGATACTGGGGTAGA
1 GTATCGATATCTAATAGAAGTATCGATACTGAGGTAGA
*
7016523 GTATCGATATTCCTAATAGAATTATCGATACTGAGGTA
1 GTATCGATA-T-CTAATAGAAGTATCGATACTGAGGTA
7016561 TTTTTCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.28
40 23 0.72
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (38 bp):
GTATCGATATCTAATAGAAGTATCGATACTGAGGTAGA
Found at i:7018963 original size:185 final size:188
Alignment explanation
Indices: 7018648--7019021 Score: 727
Period size: 185 Copynumber: 2.0 Consensus size: 188
7018638 GGGATATTGT
7018648 TGGATTAAAACCCATAATTATGGGCACATATTTATAATGCATATTTTTATCATAAAATATAAATA
1 TGGATTAAAACCCATAATTATGGGCACATATTTATAATGCATATTTTTATCATAAAATATAAATA
7018713 AATTAAGTTATCAATTATGTTATAAAGTCATAAGGTATTAGAAATGTCATGGAAATAAAAATGTA
66 AATTAAGTTATCAATTATGTTATAAAGTCATAAGGTATTAGAAATGTCATGGAAATAAAAATGTA
7018778 GATATTATTAAAGTTATATTTATAATTCGATGAGGGACAGAGTTATAAGTACAAATAA
131 GATATTATTAAAGTTATATTTATAATTCGATGAGGGACAGAGTTATAAGTACAAATAA
7018836 TGGATTAAAACCCATAATTATGGGCACATA-TTATAATGCATA-TTTTATCATAAAA-ATAAATA
1 TGGATTAAAACCCATAATTATGGGCACATATTTATAATGCATATTTTTATCATAAAATATAAATA
7018898 AATTAAGTTATCAATTATGTTATAAAGTCATAAGGTATTAGAAATGTCATGGAAATAAAAATGTA
66 AATTAAGTTATCAATTATGTTATAAAGTCATAAGGTATTAGAAATGTCATGGAAATAAAAATGTA
7018963 GATATTATTAAAGTTATATTTATAATTCGATGAGGGACAGAGTTATAAGTACAAATAA
131 GATATTATTAAAGTTATATTTATAATTCGATGAGGGACAGAGTTATAAGTACAAATAA
7019021 T
1 T
7019022 AATTGATTCT
Statistics
Matches: 186, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
185 131 0.70
186 13 0.07
187 12 0.06
188 30 0.16
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.35
Consensus pattern (188 bp):
TGGATTAAAACCCATAATTATGGGCACATATTTATAATGCATATTTTTATCATAAAATATAAATA
AATTAAGTTATCAATTATGTTATAAAGTCATAAGGTATTAGAAATGTCATGGAAATAAAAATGTA
GATATTATTAAAGTTATATTTATAATTCGATGAGGGACAGAGTTATAAGTACAAATAA
Found at i:7022074 original size:16 final size:16
Alignment explanation
Indices: 7022050--7022090 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
7022040 TTTGCTGCCA
*
7022050 CATTACATTACACCAT
1 CATTCCATTACACCAT
7022066 CATTCCATTACACCAT
1 CATTCCATTACACCAT
7022082 CATTCCATT
1 CATTCCATT
7022091 CCCACCAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.32, C:0.34, G:0.00, T:0.34
Consensus pattern (16 bp):
CATTCCATTACACCAT
Found at i:7028739 original size:54 final size:54
Alignment explanation
Indices: 7028652--7028885 Score: 306
Period size: 54 Copynumber: 4.3 Consensus size: 54
7028642 TCCACATGTT
** * ** ** * * *
7028652 GTGCCAATACGGTAATTCACAAACTCGTTATGAATCACGTGGGTTGCACACATA
1 GTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
* * * * *
7028706 GTGGCAATACGGAAATTCATAAACTTATAATGAATTTCTTAGATTACACACACA
1 GTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
*
7028760 ATGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
1 GTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
7028814 GTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
1 GTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
*
7028868 ATGCCAATACCGAAAATT
1 GTGCCAATA-CGAAAATT
7028886 TCCTAGGTTA
Statistics
Matches: 158, Mismatches: 21, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
54 150 0.95
55 8 0.05
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (54 bp):
GTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACACA
Found at i:7028893 original size:36 final size:36
Alignment explanation
Indices: 7028846--7028918 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
7028836 ACTTATTATG
* *
7028846 AATTTCTTAGGTTGCACACACAATGCCAATACCGAA
1 AATTTCCTAGGTTACACACACAATGCCAATACCGAA
* * * *
7028882 AATTTCCTAGGTTACACATATAGTGCCAATACGGAA
1 AATTTCCTAGGTTACACACACAATGCCAATACCGAA
7028918 A
1 A
7028919 TTACAATACA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.37, C:0.22, G:0.15, T:0.26
Consensus pattern (36 bp):
AATTTCCTAGGTTACACACACAATGCCAATACCGAA
Found at i:7032573 original size:15 final size:15
Alignment explanation
Indices: 7032553--7032581 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7032543 TAACTCCATT
7032553 GGAGTCATTCGATAC
1 GGAGTCATTCGATAC
7032568 GGAGTCATTCGATA
1 GGAGTCATTCGATA
7032582 TGGTTCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.28
Consensus pattern (15 bp):
GGAGTCATTCGATAC
Found at i:7032608 original size:48 final size:48
Alignment explanation
Indices: 7032537--7032632 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
7032527 GTGCTTTTAA
7032537 TTCTCTTAACTCCATTGGAGTCATTCGATACGGAGTCATTCGATATGG
1 TTCTCTTAACTCCATTGGAGTCATTCGATACGGAGTCATTCGATATGG
7032585 TTCTCTTAACTCCATTGGAGTCATTCGATACGGAGTCATTCGATATGG
1 TTCTCTTAACTCCATTGGAGTCATTCGATACGGAGTCATTCGATATGG
7032633 AGCCATAGAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (48 bp):
TTCTCTTAACTCCATTGGAGTCATTCGATACGGAGTCATTCGATATGG
Found at i:7032621 original size:15 final size:15
Alignment explanation
Indices: 7032601--7032634 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
7032591 TAACTCCATT
7032601 GGAGTCATTCGATAC
1 GGAGTCATTCGATAC
*
7032616 GGAGTCATTCGATAT
1 GGAGTCATTCGATAC
7032631 GGAG
1 GGAG
7032635 CCATAGAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.26
Consensus pattern (15 bp):
GGAGTCATTCGATAC
Found at i:7033746 original size:9 final size:9
Alignment explanation
Indices: 7033740--7033766 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
7033730 TAGAGGAGTA
7033740 GGAGGAGGT
1 GGAGGAGGT
7033749 GGAGGAGGT
1 GGAGGAGGT
7033758 GGAGGAGGT
1 GGAGGAGGT
7033767 TGGAATTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.67, T:0.11
Consensus pattern (9 bp):
GGAGGAGGT
Found at i:7034689 original size:55 final size:54
Alignment explanation
Indices: 7034628--7034903 Score: 356
Period size: 54 Copynumber: 5.1 Consensus size: 54
7034618 TTGCACATGT
* * * ** **
7034628 AGTGCCAATATGGTAATTCACAAACTCATTATGAATCACGTGGGGTTGCACACAC
1 AGTGCCAATATGGAAATTCATAAACTTATTATGAATTTC-TTAGGTTGCACACAC
* * *
7034683 AATGCCAATACGGAAATTCATAAACTTAATATGAATTTCTTAGGTTGCACACAC
1 AGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
* * * *
7034737 AGTGCCAAAACGAAAAATTCATAAACTTATTATGAAATTCTTAGGTTGCACACAC
1 AGTGCCAATATG-GAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
** *
7034792 AGTGCCAATATATAAATTCATAAACTTATTACGAATTTCTTAGGTTGCACACAC
1 AGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
*
7034846 AGTGCCAATACT-GAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAT
1 AGTGCCAATA-TGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
7034900 AGTG
1 AGTG
7034904 TGTATTCGGT
Statistics
Matches: 195, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
54 115 0.59
55 80 0.41
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (54 bp):
AGTGCCAATATGGAAATTCATAAACTTATTATGAATTTCTTAGGTTGCACACAC
Found at i:7034809 original size:109 final size:108
Alignment explanation
Indices: 7034671--7034903 Score: 360
Period size: 109 Copynumber: 2.1 Consensus size: 108
7034661 AATCACGTGG
* * *
7034671 GGTTGCACACACAATGCCAATACGGAAATTCATAAACTTAATATGAATTTCTTAGGTTGCACACA
1 GGTTGCACACACAGTGCCAATACAGAAATTCATAAACTTAATACGAATTTCTTAGGTTGCACACA
7034736 CAGTGCCAAAAC-GAAAAATTCATAAACTTATTATGAAATTCTTA
66 CAGTGCCAAAACTG--AAATTCATAAACTTATTATGAAATTCTTA
* * *
7034780 GGTTGCACACACAGTGCCAATATATAAATTCATAAACTTATTACGAATTTCTTAGGTTGCACACA
1 GGTTGCACACACAGTGCCAATACAGAAATTCATAAACTTAATACGAATTTCTTAGGTTGCACACA
* *
7034845 CAGTGCCAATACTGAAATTCATAAACTTATTATGAATTTCTTA
66 CAGTGCCAAAACTGAAATTCATAAACTTATTATGAAATTCTTA
*
7034888 GGTTGCACACATAGTG
1 GGTTGCACACACAGTG
7034904 TGTATTCGGT
Statistics
Matches: 114, Mismatches: 9, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
108 43 0.38
109 70 0.61
110 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.30
Consensus pattern (108 bp):
GGTTGCACACACAGTGCCAATACAGAAATTCATAAACTTAATACGAATTTCTTAGGTTGCACACA
CAGTGCCAAAACTGAAATTCATAAACTTATTATGAAATTCTTA
Found at i:7035380 original size:21 final size:21
Alignment explanation
Indices: 7035354--7035409 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
7035344 TCGATATTCA
7035354 CATCAGTATCGATACTAAATG
1 CATCAGTATCGATACTAAATG
7035375 CATCAGTATCGATACTAAATG
1 CATCAGTATCGATACTAAATG
7035396 CATCAGTATCGATA
1 CATCAGTATCGATA
7035410 TTGTTCATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.29
Consensus pattern (21 bp):
CATCAGTATCGATACTAAATG
Found at i:7039287 original size:158 final size:157
Alignment explanation
Indices: 7039090--7039407 Score: 627
Period size: 158 Copynumber: 2.0 Consensus size: 157
7039080 GCGAGATCAT
7039090 TTAACCTAATATTAAATTATATTCTCTAAAAAGTGTTTACATGTTGGAGAAGTCTCGCGTCCTAT
1 TTAACCTAATATTAAATTATATTCTCTAAAAAGTGTTTACATGTTGGAGAAGTCTCGCGTCCTAT
7039155 AGAATGCGAGGTCTTTACATGCATGTTCTAGAACGCGATGTAGTCTTACGTGTGCCGTTTTGGGG
66 AGAATGCGAGGTCTTTACATGCATGTTCTAGAACGCGATGTAGTCTTACGTGTGCCG-TTTGGGG
7039220 CTATTTTTCCAATTAATGTCATTTGGGG
130 CTATTTTTCCAATTAATGTCATTTGGGG
7039248 TTAACCTAATATTAAATTATATTCTCTAAAAAGTGTTTACATGTTGGAGAAGTCTCGCGTCCTAT
1 TTAACCTAATATTAAATTATATTCTCTAAAAAGTGTTTACATGTTGGAGAAGTCTCGCGTCCTAT
7039313 AGAATGCGAGGTCTTTACATGCATGTTCTAGAACGCGATGTAGTCTTACGTGTGCCGTTTGGGGC
66 AGAATGCGAGGTCTTTACATGCATGTTCTAGAACGCGATGTAGTCTTACGTGTGCCGTTTGGGGC
7039378 TATTTTTCCAATTAATGTCATTTGGGG
131 TATTTTTCCAATTAATGTCATTTGGGG
7039405 TTA
1 TTA
7039408 TTTGTTTAAT
Statistics
Matches: 160, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
157 38 0.24
158 122 0.76
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (157 bp):
TTAACCTAATATTAAATTATATTCTCTAAAAAGTGTTTACATGTTGGAGAAGTCTCGCGTCCTAT
AGAATGCGAGGTCTTTACATGCATGTTCTAGAACGCGATGTAGTCTTACGTGTGCCGTTTGGGGC
TATTTTTCCAATTAATGTCATTTGGGG
Found at i:7041724 original size:40 final size:40
Alignment explanation
Indices: 7041669--7041749 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
7041659 GCGTATAGGT
7041669 AGAGGAGGGGAAGTATGGTGTTGTTTGAGGGTGGTTCACC
1 AGAGGAGGGGAAGTATGGTGTTGTTTGAGGGTGGTTCACC
7041709 AGAGGAGGGGAAGTATGGTGTTGTTTGAGGGTGGTTCACC
1 AGAGGAGGGGAAGTATGGTGTTGTTTGAGGGTGGTTCACC
7041749 A
1 A
7041750 CTTATTCGGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.21, C:0.07, G:0.44, T:0.27
Consensus pattern (40 bp):
AGAGGAGGGGAAGTATGGTGTTGTTTGAGGGTGGTTCACC
Found at i:7046092 original size:27 final size:28
Alignment explanation
Indices: 7046045--7046099 Score: 103
Period size: 27 Copynumber: 2.0 Consensus size: 28
7046035 CGACAGTAAC
7046045 TATTCTATAAAAAAACAAACTTCCTAAA
1 TATTCTATAAAAAAACAAACTTCCTAAA
7046073 TATTCTAT-AAAAAACAAACTTCCTAAA
1 TATTCTATAAAAAAACAAACTTCCTAAA
7046100 GATAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (28 bp):
TATTCTATAAAAAAACAAACTTCCTAAA
Found at i:7047103 original size:41 final size:41
Alignment explanation
Indices: 7047053--7047452 Score: 432
Period size: 41 Copynumber: 9.9 Consensus size: 41
7047043 TTTTTTGAAC
* * * *
7047053 AAACGCCGCTAAAGACTCATATTTTAGTAGCGTTTCTATAA
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* * **
7047094 AAACACCGCTAAAGA-TTGTACTTTAGTGGCGTTGCTATAA
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* * * *
7047134 AAATGTCGCTAAAGACT-GTACTTTAGTGGCATTTTTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* * * * * *
7047174 AAAGGACGATATAGAATCGTACTTTAGTGGCGTTTTTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* * * * *
7047215 AAACGCCACTAAAGAATCATACTTTAGTGGC-ATTTTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* * *
7047255 AAACGCCACTAAAGACTCGTACCTTTAGTGGCATTTTTATAC
1 AAACGCCGCTAAAGACTCGTA-CTTTAGTGGCGTTTTTATAA
* *
7047297 AAACGCCGCTAAAGACT--TACTTTAGTGGCATTTTTATAT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* *
7047336 AAACGCCGCTATAGACTCGTACTTTAGTGGGGTTTTTATAA
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* * * *
7047377 AAACACCGCTAGAGACTCGTAATTTAGTGGCGTTTTTATAC
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
* *
7047418 AAACGCCGCTATAGACTCGTGCTTTAGTGGCGTTT
1 AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTT
7047453 GTAAACAGTT
Statistics
Matches: 309, Mismatches: 44, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
39 35 0.11
40 92 0.30
41 158 0.51
42 24 0.08
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (41 bp):
AAACGCCGCTAAAGACTCGTACTTTAGTGGCGTTTTTATAA
Found at i:7047267 original size:121 final size:122
Alignment explanation
Indices: 7047051--7047452 Score: 443
Period size: 121 Copynumber: 3.3 Consensus size: 122
7047041 CATTTTTTGA
* * * * * * * *
7047051 ACAAACGCCGCTAAAGACTCATATTTTAGTAGCGTTTCTATAAAAACACCGCTAAAG-ATTGTAC
1 ACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTATAAAAACGCCGCTAAAGAATCGTAC
* * * *
7047115 TTTAGTGGCGTTGCTATAAAAATGTCGCTAAAGACT-GTACTTTAGTGGCATTTTTAT
66 TTTAGTGGCATT-TTATAAAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* * * * * *
7047172 ACAAAGGACGATATAGAATCGTACTTTAGTGGCGTTTTTATACAAACGCCACTAAAGAATCATAC
1 ACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTATAAAAACGCCGCTAAAGAATCGTAC
* *
7047237 TTTAGTGGCATTTTATACAAACGCCACTAAAGACTCGTACCTTTAGTGGCATTTTTAT
66 TTTAGTGGCATTTTATAAAAACGCCGCTAAAGACTCGTA-CTTTAGTGGCATTTTTAT
* * * * * *
7047295 ACAAACGCCGCTAAAG-A-CTTACTTTAGTGGCATTTTTATATAAACGCCGCTATAGACTCGTAC
1 ACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTATAAAAACGCCGCTAAAGAATCGTAC
** * * * *
7047358 TTTAGTGGGGTTTTTATAAAAACACCGCTAGAGACTCGTAATTTAGTGGCGTTTTTAT
66 TTTAGT-GGCATTTTATAAAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
* *
7047416 ACAAACGCCGCTATAGACTCGTGCTTTAGTGGCGTTT
1 ACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTT
7047453 GTAAACAGTT
Statistics
Matches: 231, Mismatches: 44, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
121 139 0.60
122 47 0.20
123 45 0.19
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (122 bp):
ACAAACGCCGCTATAGAATCGTACTTTAGTGGCGTTTTTATAAAAACGCCGCTAAAGAATCGTAC
TTTAGTGGCATTTTATAAAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTAT
Found at i:7047320 original size:162 final size:162
Alignment explanation
Indices: 7047051--7047448 Score: 494
Period size: 162 Copynumber: 2.5 Consensus size: 162
7047041 CATTTTTTGA
* * * * * *
7047051 ACAAACGCCGCTAAAGACTCATATTTTAGTAGCGTTTCTATAAAAACACCGCTAAAGA-TTGTAC
1 ACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTT-TATACAAACGCCGCTAAAGACTCGTAC
* * * *
7047115 TTTAGTGGCGTTGCTATAAAAATGTCGCTAAAGACTGTACTTTAGTGGCATTTTTATACAAAGGA
65 TTTAGTGGCATTGCTATAAAAACGCCGCTAAAGACTGTACTTTAGTGGCATTTTTATACAAACGA
7047180 CGATATAGAATCGTACTTTAGTGGCGTTTTTAT
130 CGATATAGAATCGTACTTTAGTGGCGTTTTTAT
* * * *
7047213 ACAAACGCCACTAAAGAATCATACTTTAGTGGCATTTTATACAAACGCCACTAAAGACTCGTACC
1 ACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTATACAAACGCCGCTAAAGACTCGTA-C
** * * *
7047278 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACT-TACTTTAGTGGCATTTTTATATAAACGC
65 TTTAGTGGCATTGCTATAAAAACGCCGCTAAAGACTGTACTTTAGTGGCATTTTTATACAAACGA
* * *
7047342 CGCTATAGACTCGTACTTTAGTGGGGTTTTTAT
130 CGATATAGAATCGTACTTTAGTGGCGTTTTTAT
* * * * * * *
7047375 AAAAACACCGCTAGAGACTCGTAATTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTGC
1 ACAAACGCCGCTAAAGACTCATAATTTAGTGGC-ATTTTATACAAACGCCGCTAAAGACTCGTAC
7047440 TTTAGTGGC
65 TTTAGTGGC
7047449 GTTTGTAAAC
Statistics
Matches: 201, Mismatches: 32, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
161 17 0.08
162 127 0.63
163 57 0.28
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (162 bp):
ACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTATACAAACGCCGCTAAAGACTCGTACT
TTAGTGGCATTGCTATAAAAACGCCGCTAAAGACTGTACTTTAGTGGCATTTTTATACAAACGAC
GATATAGAATCGTACTTTAGTGGCGTTTTTAT
Found at i:7048435 original size:9 final size:10
Alignment explanation
Indices: 7048410--7048435 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
7048400 CATGCTGAGA
7048410 TATTTTTGGT
1 TATTTTTGGT
7048420 TATTTTTGGT
1 TATTTTTGGT
7048430 TATTTT
1 TATTTT
7048436 CTCACTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.15, T:0.73
Consensus pattern (10 bp):
TATTTTTGGT
Found at i:7050262 original size:38 final size:38
Alignment explanation
Indices: 7050220--7050297 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 38
7050210 TAATTATTAT
*
7050220 TATATATAATATTAATAAATTTAATTTAAATTTAAATA
1 TATATATAATATTAATAAATTTAATTTAAATATAAATA
* * *
7050258 TATATATAATATTTATATATTTAATTTAAATATATATA
1 TATATATAATATTAATAAATTTAATTTAAATATAAATA
7050296 TA
1 TA
7050298 CCCGGTCCGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (38 bp):
TATATATAATATTAATAAATTTAATTTAAATATAAATA
Found at i:7050268 original size:32 final size:32
Alignment explanation
Indices: 7050227--7050297 Score: 98
Period size: 32 Copynumber: 2.4 Consensus size: 32
7050217 TATTATATAT
7050227 AATAT-TA-ATAA-ATTTA-AT-TTAAATTTA
1 AATATATATATAATATTTATATATTAAATTTA
*
7050254 AATATATATATAATATTTATATATTTAATTTA
1 AATATATATATAATATTTATATATTAAATTTA
7050286 AATATATATATA
1 AATATATATATA
7050298 CCCGGTCCGA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
27 5 0.13
28 2 0.05
29 4 0.11
30 5 0.13
31 2 0.05
32 20 0.53
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
AATATATATATAATATTTATATATTAAATTTA
Found at i:7050731 original size:43 final size:43
Alignment explanation
Indices: 7050703--7050970 Score: 252
Period size: 43 Copynumber: 6.2 Consensus size: 43
7050693 AATTACTAAT
7050703 GCCACTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAAC
1 GCCACTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAAC
* * * *
7050746 GCCACTAAATGCATAGTTAATAGCGACGTTTGTAAAGATAAAC
1 GCCACTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAAC
* * * *
7050789 ACCGCTAAATACACAGTCAATTA-CGGCGTTTGTAAAGATAAAC
1 GCCACTAAATACACAGTTAA-TAGTGGCGTTTGTAAAGATAAAC
* * * * *
7050832 GCCGCTAAATACACAGTCAATAGCGGCCTTTGTAAAGAAAAAC
1 GCCACTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAAC
** * ***
7050875 GCCGTTAAATACACAGTCAATAGCAACGTTTGTAAAGATAAAC
1 GCCACTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAAC
* *** * * * *
7050918 ACTGTTAAATACAAAGTCAATAGTGACGTTT-TCAAAGACAAAC
1 GCCACTAAATACACAGTTAATAGTGGCGTTTGT-AAAGATAAAC
*
7050961 GCCGCTAAAT
1 GCCACTAAAT
7050971 GTCTCGACCT
Statistics
Matches: 195, Mismatches: 27, Indels: 6
0.86 0.12 0.03
Matches are distributed among these distances:
42 3 0.02
43 190 0.97
44 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (43 bp):
GCCACTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAAC
Found at i:7050817 original size:86 final size:86
Alignment explanation
Indices: 7050707--7050970 Score: 325
Period size: 86 Copynumber: 3.1 Consensus size: 86
7050697 ACTAATGCCA
* * * * * *
7050707 CTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAACGCCACTAAATGCATAGTTAATAGCGA
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGATAAACGCCGCTAAATACAAAGTCAATAGCGA
* *
7050772 CGTTTGTAAAGATAAACACCG
66 CGTTTGTAAAGAAAAACGCCG
*
7050793 CTAAATACACAGTCAATTA-CGGCGTTTGTAAAGATAAACGCCGCTAAATACACAGTCAATAGCG
1 CTAAATACACAGTCAA-TAGCGGCGTTTGTAAAGATAAACGCCGCTAAATACAAAGTCAATAGCG
* *
7050857 GCCTTTGTAAAGAAAAACGCCG
65 ACGTTTGTAAAGAAAAACGCCG
* ** * * * *
7050879 TTAAATACACAGTCAATAGCAACGTTTGTAAAGATAAACACTGTTAAATACAAAGTCAATAGTGA
1 CTAAATACACAGTCAATAGCGGCGTTTGTAAAGATAAACGCCGCTAAATACAAAGTCAATAGCGA
*
7050944 CGTTT-TCAAAGACAAACGCCG
66 CGTTTGT-AAAGAAAAACGCCG
7050965 CTAAAT
1 CTAAAT
7050971 GTCTCGACCT
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
85 3 0.02
86 148 0.97
87 2 0.01
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (86 bp):
CTAAATACACAGTCAATAGCGGCGTTTGTAAAGATAAACGCCGCTAAATACAAAGTCAATAGCGA
CGTTTGTAAAGAAAAACGCCG
Found at i:7050884 original size:129 final size:129
Alignment explanation
Indices: 7050707--7050970 Score: 354
Period size: 129 Copynumber: 2.0 Consensus size: 129
7050697 ACTAATGCCA
* * * * * * * *
7050707 CTAAATACACAGTTAATAGTGGCGTTTGTAAAGATAAACGCCACTAAATGCATAGTTAATAGCGA
1 CTAAATACACAGTCAATAGCGGCCTTTGTAAAGAAAAACGCCACTAAATACACAGTCAATAGCAA
* *
7050772 CGTTTGTAAAGATAAACACCGCTAAATACACAGTCAATTACG-G-CGTTTGT-AAAGATAAACGC
66 CGTTTGTAAAGATAAACACCGCTAAATACAAAGTCAA-TA-GTGACGTTT-TCAAAGACAAACGC
7050834 CG
128 CG
**
7050836 CTAAATACACAGTCAATAGCGGCCTTTGTAAAGAAAAACGCCGTTAAATACACAGTCAATAGCAA
1 CTAAATACACAGTCAATAGCGGCCTTTGTAAAGAAAAACGCCACTAAATACACAGTCAATAGCAA
* *
7050901 CGTTTGTAAAGATAAACACTGTTAAATACAAAGTCAATAGTGACGTTTTCAAAGACAAACGCCG
66 CGTTTGTAAAGATAAACACCGCTAAATACAAAGTCAATAGTGACGTTTTCAAAGACAAACGCCG
7050965 CTAAAT
1 CTAAAT
7050971 GTCTCGACCT
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
127 1 0.01
128 4 0.03
129 113 0.96
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (129 bp):
CTAAATACACAGTCAATAGCGGCCTTTGTAAAGAAAAACGCCACTAAATACACAGTCAATAGCAA
CGTTTGTAAAGATAAACACCGCTAAATACAAAGTCAATAGTGACGTTTTCAAAGACAAACGCCG
Found at i:7051822 original size:22 final size:22
Alignment explanation
Indices: 7051796--7051848 Score: 54
Period size: 25 Copynumber: 2.3 Consensus size: 22
7051786 TATAACTAAA
*
7051796 AAAATATG-ATTATTATTTAAT
1 AAAATATGAATTATTAATTAAT
*
7051817 AGAAATTAAGATATTATTAATTAAT
1 A-AAA-TATGA-ATTATTAATTAAT
7051842 AAAATAT
1 AAAATAT
7051849 TTAAAATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
21 1 0.04
22 3 0.12
23 5 0.20
24 3 0.12
25 13 0.52
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (22 bp):
AAAATATGAATTATTAATTAAT
Found at i:7051875 original size:19 final size:19
Alignment explanation
Indices: 7051806--7051876 Score: 55
Period size: 15 Copynumber: 3.9 Consensus size: 19
7051796 AAAATATGAT
*
7051806 TATTATTTAATAGAAATTAAGA
1 TATTATTT-ATA-TAATTAA-A
*
7051828 TATTATTAAT-TAA-TAAA
1 TATTATTTATATAATTAAA
7051845 -A-TATTTA-A-AATTAAA
1 TATTATTTATATAATTAAA
7051860 TATTATTTATATAATTA
1 TATTATTTATATAATTA
7051877 TAAAATAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 15
0.69 0.05 0.26
Matches are distributed among these distances:
14 2 0.05
15 9 0.22
16 2 0.05
17 7 0.17
18 4 0.10
19 7 0.17
21 2 0.05
22 7 0.17
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TATTATTTATATAATTAAA
Found at i:7052901 original size:29 final size:29
Alignment explanation
Indices: 7052859--7052916 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
7052849 TAAGTCTAAA
*
7052859 GCGTACGTCGTATACTACTAAAGCGACAT
1 GCGTACGTCATATACTACTAAAGCGACAT
7052888 GCGTACGTCATATACTACTAAAGCGACAT
1 GCGTACGTCATATACTACTAAAGCGACAT
7052917 ACCGAATCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (29 bp):
GCGTACGTCATATACTACTAAAGCGACAT
Found at i:7063283 original size:22 final size:22
Alignment explanation
Indices: 7063257--7063307 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
7063247 GCCTGCTTGA
7063257 TTTGTTGT-ACCCTTCCTGCAAC
1 TTTGTT-TCACCCTTCCTGCAAC
7063279 TTTGTTTCACCCTTCCTGCAAC
1 TTTGTTTCACCCTTCCTGCAAC
7063301 TTTGTTT
1 TTTGTTT
7063308 TGAGCATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
21 1 0.04
22 27 0.96
ACGTcount: A:0.12, C:0.29, G:0.12, T:0.47
Consensus pattern (22 bp):
TTTGTTTCACCCTTCCTGCAAC
Found at i:7065350 original size:14 final size:14
Alignment explanation
Indices: 7065331--7065358 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
7065321 AAGTGAAAGA
7065331 ATAGTTATATAATT
1 ATAGTTATATAATT
7065345 ATAGTTATATAATT
1 ATAGTTATATAATT
7065359 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:7068550 original size:20 final size:20
Alignment explanation
Indices: 7068520--7068571 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
7068510 AGGTAAGAGA
*
7068520 AGTATCAATACTCTCAAGGT
1 AGTATCGATACTCTCAAGGT
*
7068540 ATTATCGATACTCTCAAGGT
1 AGTATCGATACTCTCAAGGT
*
7068560 GGTATCGATACT
1 AGTATCGATACT
7068572 ACCAGCTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (20 bp):
AGTATCGATACTCTCAAGGT
Found at i:7074532 original size:30 final size:29
Alignment explanation
Indices: 7074469--7074658 Score: 113
Period size: 29 Copynumber: 6.5 Consensus size: 29
7074459 GTAATTGTTG
* * *
7074469 TTTTAGCCCTTTAAGTTTCTGTATTTG-TA
1 TTTTAGTCCTTTAAATTTATGT-TTTGCTA
*
7074498 TTTTAGTCCTTTAACTTTATGTTTTAGCTA
1 TTTTAGTCCTTTAAATTTATGTTTT-GCTA
* * * *
7074528 TTTTATTCATGTAAATTTTTGTTTTGCTA
1 TTTTAGTCCTTTAAATTTATGTTTTGCTA
* * *
7074557 TTTTAGACCTGTAATATTT-TGTTTTGTTAA
1 TTTTAGTCCTTTAA-ATTTATGTTTTGCT-A
* * *
7074587 TTTT-TTCC-TTAAATTTCTATTTTTTACTA
1 TTTTAGTCCTTTAAA-TT-TATGTTTTGCTA
* *
7074616 TTTTGGTCCTTTAAATTTCTAT-TTTTTCTA
1 TTTTAGTCCTTTAAA-TT-TATGTTTTGCTA
*
7074646 -ATTAGTCCTTTAA
1 TTTTAGTCCTTTAA
7074659 GTTCTTATTT
Statistics
Matches: 130, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
27 1 0.01
28 8 0.06
29 62 0.48
30 47 0.36
31 12 0.09
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.59
Consensus pattern (29 bp):
TTTTAGTCCTTTAAATTTATGTTTTGCTA
Found at i:7074633 original size:31 final size:30
Alignment explanation
Indices: 7074595--7074682 Score: 117
Period size: 29 Copynumber: 2.9 Consensus size: 30
7074585 AATTTTTTCC
7074595 TTAAATTTCTATTTTTTACTATTTTGGTCCT
1 TTAAATTTCTATTTTTT-CTATTTTGGTCCT
* *
7074626 TTAAATTTCTATTTTTTCTA-ATTAGTCCT
1 TTAAATTTCTATTTTTTCTATTTTGGTCCT
*
7074655 TT-AAGTTCTTATTTTTTCTATTTTGGTC
1 TTAAATTTC-TATTTTTTCTATTTTGGTC
7074683 TCTAAAATCA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
28 5 0.10
29 20 0.40
30 8 0.16
31 17 0.34
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.61
Consensus pattern (30 bp):
TTAAATTTCTATTTTTTCTATTTTGGTCCT
Found at i:7078557 original size:25 final size:25
Alignment explanation
Indices: 7078535--7078611 Score: 122
Period size: 25 Copynumber: 3.2 Consensus size: 25
7078525 AGATCAAATC
7078535 AAAACAAAGAGAAAAGAAGCAAAGA
1 AAAACAAAGAGAAAAGAAGCAAAGA
*
7078560 AAAACAAAGAGAAAATAAGCAAAGA
1 AAAACAAAGAGAAAAGAAGCAAAGA
*
7078585 AAAACAAAGAGCAAAGAA--AAAGA
1 AAAACAAAGAGAAAAGAAGCAAAGA
7078608 AAAA
1 AAAA
7078612 GAGAGAAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
23 9 0.18
25 40 0.82
ACGTcount: A:0.74, C:0.08, G:0.17, T:0.01
Consensus pattern (25 bp):
AAAACAAAGAGAAAAGAAGCAAAGA
Found at i:7078559 original size:15 final size:15
Alignment explanation
Indices: 7078539--7078608 Score: 53
Period size: 15 Copynumber: 4.9 Consensus size: 15
7078529 CAAATCAAAA
7078539 CAAAGAGAAAAGAAG
1 CAAAGAGAAAAGAAG
7078554 C-AA-AG-AAA-AA-
1 CAAAGAGAAAAGAAG
*
7078564 CAAAGAGAAAATAAG
1 CAAAGAGAAAAGAAG
* *
7078579 CAAAGAAAAACAAAGAG
1 CAAAGAGAAA-AGA-AG
7078596 CAAAGA-AAAAGAA
1 CAAAGAGAAAAGAA
7078609 AAAGAGAGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 15
0.71 0.05 0.24
Matches are distributed among these distances:
10 1 0.02
11 4 0.09
12 5 0.11
13 5 0.11
14 5 0.11
15 12 0.27
16 5 0.11
17 8 0.18
ACGTcount: A:0.71, C:0.09, G:0.19, T:0.01
Consensus pattern (15 bp):
CAAAGAGAAAAGAAG
Found at i:7078599 original size:17 final size:16
Alignment explanation
Indices: 7078559--7078657 Score: 80
Period size: 17 Copynumber: 6.1 Consensus size: 16
7078549 AGAAGCAAAG
*
7078559 AAAAA-CAAAG-AGAA
1 AAAAAGCAAAGAAAAA
*
7078573 AATAAGCAAAGAAAAA
1 AAAAAGCAAAGAAAAA
*
7078589 CAAAGAGCAAAGAAAAA
1 -AAAAAGCAAAGAAAAA
*
7078606 GAAAAAG-AGAG-AAAA
1 -AAAAAGCAAAGAAAAA
*
7078621 AAAAATCAAAGAACAAA
1 AAAAAGCAAAGAA-AAA
7078638 AGAAAAGCAAAGAACAAA
1 A-AAAAGCAAAGAA-AAA
7078656 AA
1 AA
7078658 GAGGACAAAC
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
14 9 0.13
15 12 0.18
16 7 0.10
17 24 0.35
18 16 0.24
ACGTcount: A:0.75, C:0.08, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAAAGCAAAGAAAAA
Found at i:7078638 original size:18 final size:18
Alignment explanation
Indices: 7078546--7078657 Score: 75
Period size: 18 Copynumber: 6.2 Consensus size: 18
7078536 AAACAAAGAG
*
7078546 AAAAGAAGCAAAGAA-AA
1 AAAAAAAGCAAAGAACAA
* * * *
7078563 ACAAAGAGAAAATAAGCAA
1 AAAAAAAGCAAAGAA-CAA
* *
7078582 AGAAAAA-CAAAGAGCAA
1 AAAAAAAGCAAAGAACAA
* * *
7078599 AGAAAAAGAAAAAGAGAGAA
1 AAAAAAAG-CAAAGA-ACAA
*
7078619 AAAAAAATCAAAGAACAA
1 AAAAAAAGCAAAGAACAA
*
7078637 AAGAAAAGCAAAGAACAA
1 AAAAAAAGCAAAGAACAA
7078655 AAA
1 AAA
7078658 GAGGACAAAC
Statistics
Matches: 70, Mismatches: 20, Indels: 9
0.71 0.20 0.09
Matches are distributed among these distances:
17 20 0.29
18 25 0.36
19 17 0.24
20 8 0.11
ACGTcount: A:0.74, C:0.08, G:0.16, T:0.02
Consensus pattern (18 bp):
AAAAAAAGCAAAGAACAA
Found at i:7078657 original size:33 final size:33
Alignment explanation
Indices: 7078576--7078660 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
7078566 AAGAGAAAAT
7078576 AAGCAAAGAAAAACAAAGAGCAAAGAAAAAGAAA
1 AAGCAAAGAAAAA-AAAGAGCAAAGAAAAAGAAA
* *
7078610 AAG-AGAGAAAAAAAA-ATCAAAGAACAAA-AGAA
1 AAGCAAAGAAAAAAAAGAGCAAAGAA-AAAGA-AA
*
7078642 AAGCAAAGAACAAAAAGAG
1 AAGCAAAGAAAAAAAAGAG
7078661 GACAAACAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
31 9 0.21
32 11 0.26
33 18 0.43
34 4 0.10
ACGTcount: A:0.73, C:0.08, G:0.18, T:0.01
Consensus pattern (33 bp):
AAGCAAAGAAAAAAAAGAGCAAAGAAAAAGAAA
Found at i:7079557 original size:24 final size:23
Alignment explanation
Indices: 7079504--7079560 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 23
7079494 CGAAAGGGGC
*
7079504 AATATTTTCAAAATCTTTGATTA
1 AATATTTTCAAAATCTTTAATTA
*
7079527 AACATTTTCAAAACTCTTTTAATT-
1 AATATTTTCAAAA-TC-TTTAATTA
*
7079551 GATATTTTCA
1 AATATTTTCA
7079561 TACTTTTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 12 0.43
24 10 0.36
25 6 0.21
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (23 bp):
AATATTTTCAAAATCTTTAATTA
Found at i:7079722 original size:33 final size:33
Alignment explanation
Indices: 7079680--7079745 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
7079670 ATCACTGCTT
7079680 AAGCAATCAACATCGAATATTAGGGCATATTTG
1 AAGCAATCAACATCGAATATTAGGGCATATTTG
* * * *
7079713 AAGCAATCAACATTGAATGTTGGGGCATCTTTG
1 AAGCAATCAACATCGAATATTAGGGCATATTTG
7079746 GGGATTCAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (33 bp):
AAGCAATCAACATCGAATATTAGGGCATATTTG
Found at i:7079953 original size:37 final size:36
Alignment explanation
Indices: 7079842--7079954 Score: 129
Period size: 37 Copynumber: 3.1 Consensus size: 36
7079832 GAGTTGTTTC
* * *
7079842 TCTTGAAAACAAATTTTGTCTCGCTTGAGATATTTT
1 TCTTGAAAAAAAAATTTGTCTCGCTTGAGACATTTT
* * **
7079878 TC-TAAAAAAAAAATGTTGTCTCGTTTGAGACAAATT
1 TCTTGAAAAAAAAAT-TTGTCTCGCTTGAGACATTTT
*
7079914 TCTTGAAAAATAAATTTCGTCTCGCTTGAGACATTTT
1 TCTTGAAAAAAAAATTT-GTCTCGCTTGAGACATTTT
7079951 TCTT
1 TCTT
7079955 TTGAGATACA
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
35 9 0.15
36 23 0.37
37 30 0.48
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (36 bp):
TCTTGAAAAAAAAATTTGTCTCGCTTGAGACATTTT
Found at i:7080070 original size:36 final size:36
Alignment explanation
Indices: 7080017--7080153 Score: 127
Period size: 36 Copynumber: 3.9 Consensus size: 36
7080007 AAGATCGTTT
* *
7080017 TCTAAAAAAAAA-CT-GTCTCGCTTGAGACAATTTC
1 TCTAAAAAAAAATTTCGTCTCACTTGAGACAATTTC
* *
7080051 GCTAAAAAAAAACTTT-GTCTCACTTGAGACAATTTT
1 TCTAAAAAAAAA-TTTCGTCTCACTTGAGACAATTTC
* * * *
7080087 TCTAAAAACAAATTTGGTTTCACTTAAGACAATTTC
1 TCTAAAAAAAAATTTCGTCTCACTTGAGACAATTTC
* ** **
7080123 TCTCAAAGCAAATTTCGTCTTGCTTGAGACA
1 TCTAAAAAAAAATTTCGTCTCACTTGAGACA
7080154 TTTGTTTCCT
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
34 11 0.13
35 3 0.04
36 70 0.83
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.33
Consensus pattern (36 bp):
TCTAAAAAAAAATTTCGTCTCACTTGAGACAATTTC
Found at i:7080755 original size:28 final size:28
Alignment explanation
Indices: 7080709--7080789 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
7080699 GAGACAGTTG
*
7080709 CTTTTGAAACACATCATCTTTGAGTTTGTTT
1 CTTTTGAAACA-A--ATCTTTGAGTATGTTT
7080740 -TTCTTGAAACAAATCTTTGAGTATGTTT
1 CTT-TTGAAACAAATCTTTGAGTATGTTT
* *
7080768 CTTTTGAAATATATCTTTGAGT
1 CTTTTGAAACAAATCTTTGAGT
7080790 CGATTTCTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 32 0.71
29 2 0.04
30 3 0.07
31 8 0.18
ACGTcount: A:0.26, C:0.12, G:0.14, T:0.48
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGAGTATGTTT
Found at i:7080796 original size:28 final size:28
Alignment explanation
Indices: 7080724--7080805 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 28
7080714 GAAACACATC
** *
7080724 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTACGTTTCTCTTGAAACAA
* * * *
7080752 ATCTTTGAGTATGTTTCTTTTGAAATAT
1 ATCTTTGAGTACGTTTCTCTTGAAACAA
7080780 ATCTTTGAGT-CGATTTCTCTTGAAAC
1 ATCTTTGAGTACG-TTTCTCTTGAAAC
7080806 CATAATCCCT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
27 1 0.02
28 44 0.98
ACGTcount: A:0.24, C:0.12, G:0.15, T:0.49
Consensus pattern (28 bp):
ATCTTTGAGTACGTTTCTCTTGAAACAA
Found at i:7081064 original size:40 final size:42
Alignment explanation
Indices: 7081020--7081127 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 42
7081010 AGAACTCTTT
*
7081020 ATCACGTATGAGCAGTGTCATCCCCT-GAC-A-AGATCTCCTC
1 ATCACGTATGAGCAGTGTCATCCCCTAGACGACA-AACTCCTC
* * * * *
7081060 ATCACATAGGAGCTGTGTCA-CCCTTAGACGACCCAAACTCTTC
1 ATCACGTATGAGCAGTGTCATCCCCTAGACGA--CAAACTCCTC
7081103 ATCACGTATGAGCAGTGTCATCCCC
1 ATCACGTATGAGCAGTGTCATCCCC
7081128 ACCAACACAC
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
39 4 0.08
40 20 0.38
41 1 0.02
43 23 0.44
44 4 0.08
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (42 bp):
ATCACGTATGAGCAGTGTCATCCCCTAGACGACAAACTCCTC
Found at i:7081287 original size:3 final size:3
Alignment explanation
Indices: 7081281--7081309 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
7081271 TTTTTATTTA
7081281 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7081310 AAATTACATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:7082816 original size:59 final size:58
Alignment explanation
Indices: 7082752--7082940 Score: 150
Period size: 59 Copynumber: 3.2 Consensus size: 58
7082742 GTAATTGTTG
* * *
7082752 TTTTAGCCCTTTAAGTTTCTATATTTGTATTTTAGTCCTTTAACTTTCTGTTTTAGCTA
1 TTTTAGTCCTTTAAATTTCTAT-TTTGTATTTTAGTCCTTTAAATTTCTGTTTTAGCTA
* * * * * * * * *
7082811 TTTTAGTCCTGTAAATTTTTGTTTTGCTATTTTAGACCTGTAATTTTTTGTTTTTGTTA
1 TTTTAGTCCTTTAAATTTCTATTTTG-TATTTTAGTCCTTTAAATTTCTGTTTTAGCTA
* * * * **
7082870 TTTT-TTCC-TTAAATTTCTATTTTTACTATTTTGGTCCTTTAAATTTCTATTTTTTCTA
1 TTTTAGTCCTTTAAATTTCTA-TTTT-GTATTTTAGTCCTTTAAATTTCTGTTTTAGCTA
*
7082928 -ATTAGTCCTTTAA
1 TTTTAGTCCTTTAA
7082941 GTTCTTGTTT
Statistics
Matches: 99, Mismatches: 26, Indels: 10
0.73 0.19 0.07
Matches are distributed among these distances:
57 10 0.10
58 38 0.38
59 51 0.52
ACGTcount: A:0.19, C:0.13, G:0.09, T:0.59
Consensus pattern (58 bp):
TTTTAGTCCTTTAAATTTCTATTTTGTATTTTAGTCCTTTAAATTTCTGTTTTAGCTA
Found at i:7082850 original size:29 final size:29
Alignment explanation
Indices: 7082775--7082960 Score: 132
Period size: 30 Copynumber: 6.4 Consensus size: 29
7082765 AGTTTCTATA
* * *
7082775 TTTG-TATTTTAGTCCTTTAACTTTCTGT
1 TTTGCTATTTTAGTCCTGTAAATTTTTGT
7082803 TTTAGCTATTTTAGTCCTGTAAATTTTTGT
1 TTT-GCTATTTTAGTCCTGTAAATTTTTGT
* *
7082833 TTTGCTATTTTAGACCTGTAATTTTTTGTT
1 TTTGCTATTTTAGTCCTGTAAATTTTTG-T
* *
7082863 TTTGTTATTTT-TTCCT-TAAATTTCTAT-T
1 TTTGCTATTTTAGTCCTGTAAATTT-T-TGT
* * *
7082891 TTTACTATTTTGGTCCTTTAAATTTCTAT-T
1 TTTGCTATTTTAGTCCTGTAAATTT-T-TGT
* * * * *
7082921 TTTTCTA-ATTAGTCCTTTAAGTTCTTGTT
1 TTTGCTATTTTAGTCCTGTAAATTTTTG-T
7082950 TTTGCTATTTT
1 TTTGCTATTTT
7082961 GGTCTCTTAA
Statistics
Matches: 129, Mismatches: 19, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.01
28 20 0.16
29 52 0.40
30 56 0.43
ACGTcount: A:0.17, C:0.12, G:0.10, T:0.61
Consensus pattern (29 bp):
TTTGCTATTTTAGTCCTGTAAATTTTTGT
Found at i:7084284 original size:386 final size:386
Alignment explanation
Indices: 7083571--7084343 Score: 1528
Period size: 386 Copynumber: 2.0 Consensus size: 386
7083561 TTCTATAAAC
7083571 GGATCATCTTTTAACTTTATATTCGATTTGTAATTTTCAACATTACGACAACGTGTAAGCGACAC
1 GGATCATCTTTTAACTTTATATTCGATTTGTAATTTTCAACATTACGACAACGTGTAAGCGACAC
*
7083636 ATTACCAGTTTTTGGGCGTTGTGGGGGTGCTAATCCTTCCCCACACGTAACCGACTCCCGAATCA
66 AGTACCAGTTTTTGGGCGTTGTGGGGGTGCTAATCCTTCCCCACACGTAACCGACTCCCGAATCA
7083701 TTTTAATCGAATCTTTGGTGACACAGACCAAATTTTGTGTTATAAAATGTTTTTTCTTAAAATTA
131 TTTTAATCGAATCTTTGGTGACACAGACCAAATTTTGTGTTATAAAATGTTTTTTCTTAAAATTA
7083766 TTTTAAAAGACGTTTTTAGGTATTTGACCTAACTAACCCAAAGGTCGATGTCGACTCTTTTTCAA
196 TTTTAAAAGACGTTTTTAGGTATTTGACCTAACTAACCCAAAGGTCGATGTCGACTCTTTTTCAA
7083831 TTTAATTCCAATTAATTTCAAATCACCCAATTTTTCCAAATTAAAGTCATAATCATTTTTAAAAT
261 TTTAATTCCAATTAATTTCAAATCACCCAATTTTTCCAAATTAAAGTCATAATCATTTTTAAAAT
7083896 AATATTTAATTATTTTTACCTTAAAAAATGGTTATGACAAGTGTTGACGTCATTTAGAAAT
326 AATATTTAATTATTTTTACCTTAAAAAATGGTTATGACAAGTGTTGACGTCATTTAGAAAT
*
7083957 GGATCATCTTTTAACTTTATATTCGATTTGTAATTTTCAACATTACGACAACGTGTATGCGACAC
1 GGATCATCTTTTAACTTTATATTCGATTTGTAATTTTCAACATTACGACAACGTGTAAGCGACAC
7084022 AGTACCAGTTTTTGGGCGTTGTGGGGGTGCTAATCCTTCCCCACACGTAACCGACTCCCGAATCA
66 AGTACCAGTTTTTGGGCGTTGTGGGGGTGCTAATCCTTCCCCACACGTAACCGACTCCCGAATCA
7084087 TTTTAATCGAATCTTTGGTGACACAGACCAAATTTTGTGTTATAAAATGTTTTTTCTTAAAATTA
131 TTTTAATCGAATCTTTGGTGACACAGACCAAATTTTGTGTTATAAAATGTTTTTTCTTAAAATTA
7084152 TTTTAAAAGACGTTTTTAGGTATTTGACCTAACTAACCCAAAGGTCGATGTCGACTCTTTTTCAA
196 TTTTAAAAGACGTTTTTAGGTATTTGACCTAACTAACCCAAAGGTCGATGTCGACTCTTTTTCAA
7084217 TTTAATTCCAATTAATTTCAAATCACCCAATTTTTCCAAATTAAAGTCATAATCATTTTTAAAAT
261 TTTAATTCCAATTAATTTCAAATCACCCAATTTTTCCAAATTAAAGTCATAATCATTTTTAAAAT
7084282 AATATTTAATTATTTTTACCTTAAAAAATGGTTATGACAAGTGTTGACGTCATTTAGAAAT
326 AATATTTAATTATTTTTACCTTAAAAAATGGTTATGACAAGTGTTGACGTCATTTAGAAAT
7084343 G
1 G
7084344 CCAAATATAA
Statistics
Matches: 385, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
386 385 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.38
Consensus pattern (386 bp):
GGATCATCTTTTAACTTTATATTCGATTTGTAATTTTCAACATTACGACAACGTGTAAGCGACAC
AGTACCAGTTTTTGGGCGTTGTGGGGGTGCTAATCCTTCCCCACACGTAACCGACTCCCGAATCA
TTTTAATCGAATCTTTGGTGACACAGACCAAATTTTGTGTTATAAAATGTTTTTTCTTAAAATTA
TTTTAAAAGACGTTTTTAGGTATTTGACCTAACTAACCCAAAGGTCGATGTCGACTCTTTTTCAA
TTTAATTCCAATTAATTTCAAATCACCCAATTTTTCCAAATTAAAGTCATAATCATTTTTAAAAT
AATATTTAATTATTTTTACCTTAAAAAATGGTTATGACAAGTGTTGACGTCATTTAGAAAT
Found at i:7085345 original size:14 final size:12
Alignment explanation
Indices: 7085310--7085334 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7085300 GATTATCAAT
7085310 TGAAAATGTGAC
1 TGAAAATGTGAC
7085322 TGAAAATGTGAC
1 TGAAAATGTGAC
7085334 T
1 T
7085335 AAGAAAGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.24, T:0.28
Consensus pattern (12 bp):
TGAAAATGTGAC
Found at i:7086807 original size:22 final size:22
Alignment explanation
Indices: 7086772--7086825 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
7086762 TATTTGTATC
*
7086772 AATTATAAATTTTAAATAATAATT
1 AATTA-AAATTTTAAA-AAAAATT
7086796 AATTAAAA-TTTAAAAAAAATT
1 AATTAAAATTTTAAAAAAAATT
7086817 AATCTAAAA
1 AAT-TAAAA
7086826 AAATCAATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 9 0.32
22 11 0.39
23 3 0.11
24 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AATTAAAATTTTAAAAAAAATT
Found at i:7089140 original size:20 final size:19
Alignment explanation
Indices: 7089115--7089153 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7089105 CGTCAGTCAG
7089115 GGGTATTGATACCAACAGGT
1 GGGTATTGATACCAA-AGGT
*
7089135 GGGTATTTATACCAAAGGT
1 GGGTATTGATACCAAAGGT
7089154 TTAGTATCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (19 bp):
GGGTATTGATACCAAAGGT
Found at i:7091122 original size:21 final size:20
Alignment explanation
Indices: 7091096--7091134 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7091086 TAAGGCATTA
7091096 AACATCATAAACAAAACAAAT
1 AACATCATAAA-AAAACAAAT
*
7091117 AACATCATACAAAAACAA
1 AACATCATAAAAAAACAA
7091135 TCATCCACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.67, C:0.21, G:0.00, T:0.13
Consensus pattern (20 bp):
AACATCATAAAAAAACAAAT
Found at i:7091880 original size:20 final size:20
Alignment explanation
Indices: 7091851--7091889 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7091841 TTTCCACCAC
*
7091851 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
7091871 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
7091890 TATGGGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:7094954 original size:15 final size:15
Alignment explanation
Indices: 7094943--7094971 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7094933 ACTCAAAAAG
7094943 AAGAAAAGCAAAGAA
1 AAGAAAAGCAAAGAA
7094958 AAGAAAAG-AAAGAA
1 AAGAAAAGCAAAGAA
7094972 GTTGAAGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.76, C:0.03, G:0.21, T:0.00
Consensus pattern (15 bp):
AAGAAAAGCAAAGAA
Found at i:7106883 original size:23 final size:23
Alignment explanation
Indices: 7106820--7106930 Score: 86
Period size: 23 Copynumber: 4.9 Consensus size: 23
7106810 CATCTCCTAA
*
7106820 TTTGCACCGAAGTGCCACATA--
1 TTTGCACCGAAGTGCAACATAGG
* *
7106841 ATTGTC-CCGAA-TGACCACATAGG
1 TTTG-CACCGAAGTG-CAACATAGG
* *
7106864 TTTACACCGAAGTGTAACATAGG
1 TTTGCACCGAAGTGCAACATAGG
* * *
7106887 TTTGTACCAAATTGCAACATAGG
1 TTTGCACCGAAGTGCAACATAGG
* *
7106910 TTTGCACTGAAGTGCTACATA
1 TTTGCACCGAAGTGCAACATA
7106931 ATTGTCTCGA
Statistics
Matches: 69, Mismatches: 15, Indels: 10
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.03
21 15 0.22
22 2 0.03
23 48 0.70
24 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (23 bp):
TTTGCACCGAAGTGCAACATAGG
Found at i:7109093 original size:20 final size:20
Alignment explanation
Indices: 7109064--7109102 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7109054 TTTCCACCAC
*
7109064 ATGCAACTATATGTTCCTAA
1 ATGCAACTATATGATCCTAA
*
7109084 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
7109103 TATGGGCTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:7109961 original size:11 final size:10
Alignment explanation
Indices: 7109937--7109961 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
7109927 AGTTTCGAGA
7109937 TTTTTAAAAG
1 TTTTTAAAAG
7109947 TTTTTAAAAG
1 TTTTTAAAAG
7109957 TTTTT
1 TTTTT
7109962 GGGTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (10 bp):
TTTTTAAAAG
Found at i:7114129 original size:111 final size:111
Alignment explanation
Indices: 7114003--7114227 Score: 380
Period size: 111 Copynumber: 2.0 Consensus size: 111
7113993 AAAGTATCGA
*
7114003 TTTCAACATATTAGGTAAATTTTACCGTTTTTTTCATAATGAAACTGGTTTTGTCATATTTTTAC
1 TTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
* *
7114068 CTGGTATATTGTAAAGTATCTAT-CCTTTTTATAAAAGGATCGATAC
66 CTGGTATATTGTAAAATATCAATACCTTTTTATAAAA-GATCGATAC
7114114 TTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
1 TTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
* * *
7114179 CTGTTATATTGTAAAATATCAATACTTTTTTATAAAATATCGATAC
66 CTGGTATATTGTAAAATATCAATACCTTTTTATAAAAGATCGATAC
7114225 TTT
1 TTT
7114228 ATAGGCGCTA
Statistics
Matches: 107, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 95 0.89
112 12 0.11
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (111 bp):
TTTCAACATATTAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
CTGGTATATTGTAAAATATCAATACCTTTTTATAAAAGATCGATAC
Found at i:7114859 original size:111 final size:111
Alignment explanation
Indices: 7114663--7115477 Score: 1172
Period size: 111 Copynumber: 7.3 Consensus size: 111
7114653 TTTCAAAAAA
* * *
7114663 AAAGTAT-TGATCCTTTTTATAAAAAGTATCTATACTTTCAACATATCAGGTAAATTTTACCGGT
1 AAAGTATCT-ATCCTTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTT
* * * *
7114727 TTTGTCATAACGAAACTGGTTTTGTTATATTTGTACATGTTATATTGT
64 TTTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
* * **
7114775 AAAGTATCTATCTTTTTTATAAAATGATTAATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* *
7114840 TGTCATAATGAAACGGGTTTTGTCATATTTTTACCA-GTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTA-CATGTTATATTGT
*
7114886 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCATGTAAATTTTACCGTTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
*
7114951 TGTCATAATGAAACTGGTTTTGTCATATTTTTACCA-GTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTA-CATGTTATATTGT
*
7114997 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATAAT-TGGTAAATTTTACCGTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACAT-ATCAGGTAAATTTTACCGTTT
7115061 TTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
65 TTGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
* ** *
7115108 AAAGTATATATATTTTTTATTAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* *
7115173 TGTCATAATAAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
* * *
7115219 AAAGTATCTATCCTCTTTATAAAAGGATCGATGCTTTCAACATATCAGGTAAATTTTACCCTTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
*
7115284 TGTCATAATGAAACTGATTTTGTCATATTTTTACCTGTTATATTGT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
* * * * ** *
7115330 AAAGCATATATCCTTTTTATAAAAGTATCGATACTTTCATCATATCAAATAAATTTTACCGGTTT
1 AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
* * *
7115395 TATCATAATGAAACTGATTTTGTCATATTTTTACTTGTTATATTAT
66 TGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
* * * * *
7115441 AAAATATCGATACATTTTTAT-AAAGTATCGATGCTTT
1 AAAGTATCTAT-CCTTTTTATAAAAGGATCGATACTTT
7115478 ATAGGATCTA
Statistics
Matches: 644, Mismatches: 53, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
110 4 0.01
111 610 0.95
112 29 0.05
113 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (111 bp):
AAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTT
TGTCATAATGAAACTGATTTTGTCATATTTTTACATGTTATATTGT
Found at i:7116000 original size:25 final size:23
Alignment explanation
Indices: 7115947--7116004 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
7115937 AACATATTTT
*
7115947 ATTATATAAGCGTTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
*
7115970 ATTATATAAGTGCTACCTATTAC
1 ATTATATAAGCGCTACCTATTAC
7115993 ATTATATAAGCG
1 ATTATATAAGCG
7116005 GTATCTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTATTAC
Found at i:7116107 original size:23 final size:23
Alignment explanation
Indices: 7116057--7116101 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
7116047 AACATATTTT
*
7116057 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
* *
7116080 ATTATATAAGCGGTATCTAATA
1 ATTATATAAGCGCTACCTAATA
7116102 TGTTATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:7119317 original size:32 final size:31
Alignment explanation
Indices: 7119281--7119377 Score: 104
Period size: 32 Copynumber: 3.0 Consensus size: 31
7119271 CTTTGCTATT
*
7119281 CATTATCTGAATGCAATACTGACTCTGTTGTG
1 CATTATCTGAATACAATACTGACTCT-TTGTG
* * * * *
7119313 CATTATCTTAACATAATATTGACTCTTCTATG
1 CATTATCTGAATACAATACTGACTCTT-TGTG
*
7119345 CATTGTCTGAATACAATACTGACTCTATTGTG
1 CATTATCTGAATACAATACTGACTCT-TTGTG
7119377 C
1 C
7119378 CTCAAACACT
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
31 1 0.02
32 49 0.96
33 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (31 bp):
CATTATCTGAATACAATACTGACTCTTTGTG
Found at i:7119482 original size:13 final size:13
Alignment explanation
Indices: 7119464--7119488 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7119454 AATGAATTTT
7119464 AAGATTTTCTAAA
1 AAGATTTTCTAAA
7119477 AAGATTTTCTAA
1 AAGATTTTCTAA
7119489 GTATATTCGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:7122632 original size:18 final size:18
Alignment explanation
Indices: 7122595--7122635 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7122585 AGAACAGCAC
** *
7122595 GAGGAACAAGCACGAGCA
1 GAGGAACAAGCAAAACCA
7122613 GAGGAACAAGCAAAACCA
1 GAGGAACAAGCAAAACCA
7122631 GAGGA
1 GAGGA
7122636 TCAAATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.20, G:0.32, T:0.00
Consensus pattern (18 bp):
GAGGAACAAGCAAAACCA
Found at i:7123300 original size:16 final size:16
Alignment explanation
Indices: 7123279--7123310 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7123269 AGAGGGAGTA
7123279 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
*
7123295 ATTTCAGACTTGATTT
1 ATTTCAAACTTGATTT
7123311 CAAAATAAAA
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:0.28, C:0.12, G:0.09, T:0.50
Consensus pattern (16 bp):
ATTTCAAACTTGATTT
Found at i:7126538 original size:18 final size:18
Alignment explanation
Indices: 7126501--7126541 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
7126491 AGAACAGCAC
** *
7126501 GAGGAACAAGCACGAGCA
1 GAGGAACAAGCAAAACCA
7126519 GAGGAACAAGCAAAACCA
1 GAGGAACAAGCAAAACCA
7126537 GAGGA
1 GAGGA
7126542 TCAAATGCCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.20, G:0.32, T:0.00
Consensus pattern (18 bp):
GAGGAACAAGCAAAACCA
Found at i:7127211 original size:16 final size:16
Alignment explanation
Indices: 7127190--7127221 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7127180 AGAGGGAGTA
7127190 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
7127206 ATTTCAAACTTGATTT
1 ATTTCAAACTTGATTT
7127222 CAAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.12, G:0.06, T:0.50
Consensus pattern (16 bp):
ATTTCAAACTTGATTT
Found at i:7129513 original size:21 final size:20
Alignment explanation
Indices: 7129484--7129524 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
7129474 ATACTGAAGG
7129484 GGCAATATCAATACTCACCTT
1 GGCAATATCAATACTC-CCTT
* *
7129505 GGCAGTATCGATACTCCCTT
1 GGCAATATCAATACTCCCTT
7129525 ATGAAATCTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (20 bp):
GGCAATATCAATACTCCCTT
Found at i:7136100 original size:24 final size:24
Alignment explanation
Indices: 7136073--7136129 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
7136063 GCTTCTTTTG
7136073 CAGCTTCAGCCGCTACCATGTATT
1 CAGCTTCAGCCGCTACCATGTATT
*
7136097 CAGCTTCAGCCGCTGCCATGTATT
1 CAGCTTCAGCCGCTACCATGTATT
7136121 CAGCTTCAG
1 CAGCTTCAG
7136130 TTGTAGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.19, C:0.33, G:0.19, T:0.28
Consensus pattern (24 bp):
CAGCTTCAGCCGCTACCATGTATT
Found at i:7138970 original size:24 final size:24
Alignment explanation
Indices: 7138934--7138979 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7138924 ATCAATATGC
* *
7138934 TTTTTTAATTTCGGACAATCTCAT
1 TTTTTTAACTTCGAACAATCTCAT
7138958 TTTTTTAACTTCGAACAATCTC
1 TTTTTTAACTTCGAACAATCTC
7138980 TCTTTATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.20, G:0.07, T:0.48
Consensus pattern (24 bp):
TTTTTTAACTTCGAACAATCTCAT
Found at i:7140960 original size:43 final size:44
Alignment explanation
Indices: 7140913--7141069 Score: 203
Period size: 45 Copynumber: 3.6 Consensus size: 44
7140903 GGTGAAGAGC
*
7140913 TATAGTGGC-TTTTTTGGA-ACAAACGCCGCAAAAGGTCAAGATA
1 TATAGTGACATTTTTTGGATACAAACGCCGCAAAAGGTC-AGATA
* * *
7140956 TATAGAGGCATTTTTTGGATACAAACGCCGTAAAAGGTC-GATA
1 TATAGTGACATTTTTTGGATACAAACGCCGCAAAAGGTCAGATA
* *
7140999 TATAGTGACATTTTTTGGATGCAAACGCCGCAAAAAGGTCAGGTA
1 TATAGTGACATTTTTTGGATACAAACGCCGC-AAAAGGTCAGATA
* *
7141044 TATAGCGACGTTTTTTGGATACAAAC
1 TATAGTGACATTTTTTGGATACAAAC
7141070 ACTGTAAATT
Statistics
Matches: 100, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
43 39 0.39
44 17 0.17
45 44 0.44
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (44 bp):
TATAGTGACATTTTTTGGATACAAACGCCGCAAAAGGTCAGATA
Done.