Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006928.1 Hibiscus syriacus cultivar Beakdansim tig00017775_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: 127706
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:30 original size:20 final size:20
Alignment explanation
Indices: 5--46 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1 CCAA
5 CCGAACGCCATGTGCAGATC
1 CCGAACGCCATGTGCAGATC
25 CCGAACGCCATGTGCAGATC
1 CCGAACGCCATGTGCAGATC
45 CC
1 CC
47 TAGAACTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.38, G:0.24, T:0.14
Consensus pattern (20 bp):
CCGAACGCCATGTGCAGATC
Found at i:287 original size:12 final size:12
Alignment explanation
Indices: 270--316 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
260 ACAGAGATAT
270 CAGAAATCAGAG
1 CAGAAATCAGAG
* *
282 CAGAAATCATAA
1 CAGAAATCAGAG
*
294 CAGAATTCAGAG
1 CAGAAATCAGAG
306 CAGAAATCAGA
1 CAGAAATCAGA
317 TAAAATATCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.51, C:0.17, G:0.19, T:0.13
Consensus pattern (12 bp):
CAGAAATCAGAG
Found at i:371 original size:2 final size:2
Alignment explanation
Indices: 364--430 Score: 68
Period size: 2 Copynumber: 34.5 Consensus size: 2
354 CATAAATAAC
* * * *
364 TA TA TA TA TA TG T- TA TA TA -A TT TA TA TG TA CT- TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA
404 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
431 TGTATATGAC
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
1 3 0.05
2 51 0.93
3 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1904 original size:18 final size:17
Alignment explanation
Indices: 1873--1915 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
1863 TTACCCTTTT
*
1873 TATATTTTCTTT-CTT-
1 TATATTTTATTTCCTTC
1888 TAT-TTTTATTTCCTTC
1 TATATTTTATTTCCTTC
1904 TATATTTTATTT
1 TATATTTTATTT
1916 TGTTATTTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 7 0.29
15 6 0.25
16 3 0.12
17 8 0.33
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (17 bp):
TATATTTTATTTCCTTC
Found at i:1973 original size:3 final size:3
Alignment explanation
Indices: 1965--1992 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
1955 GTCATGTATA
1965 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1993 TCTTCATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:2010 original size:17 final size:17
Alignment explanation
Indices: 1988--2073 Score: 61
Period size: 17 Copynumber: 4.9 Consensus size: 17
1978 ATTATTATTA
*
1988 TTATTTCTTCATTTTAT
1 TTATTTCTTCATTTTCT
2005 TTATTT-TT-ATCTTTGCT
1 TTATTTCTTCAT-TTT-CT
*
2022 TTATTTCTCATTATTTTCT
1 TTATTTCT--TCATTTTCT
*
2041 TTATTTCATGCATTTT-T
1 TTATTTC-TTCATTTTCT
*
2058 TTACTTTCTTTATTTT
1 TTA-TTTCTTCATTTT
2074 TAATTTTTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 16
0.73 0.06 0.21
Matches are distributed among these distances:
15 2 0.04
16 5 0.09
17 23 0.41
18 10 0.18
19 9 0.16
20 5 0.09
21 2 0.04
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.70
Consensus pattern (17 bp):
TTATTTCTTCATTTTCT
Found at i:2054 original size:21 final size:20
Alignment explanation
Indices: 2020--2064 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
2010 TTTATCTTTG
2020 CTTTATTTCTCATTATTTT-
1 CTTTATTTCTCATTATTTTA
*
2039 CTTTATTTCATGCATTTTTTTA
1 CTTTATTTC-T-CATTATTTTA
2061 CTTT
1 CTTT
2065 CTTTATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 1 0.05
21 8 0.36
22 4 0.18
ACGTcount: A:0.16, C:0.16, G:0.02, T:0.67
Consensus pattern (20 bp):
CTTTATTTCTCATTATTTTA
Found at i:3914 original size:13 final size:13
Alignment explanation
Indices: 3898--3956 Score: 54
Period size: 13 Copynumber: 4.7 Consensus size: 13
3888 TTTTTTGTGT
*
3898 GTTTGTGTTGTTC
1 GTTTATGTTGTTC
3911 GTTTAT-TGTGTTC
1 GTTTATGT-TGTTC
3924 GTTTATGTTCGTTC
1 GTTTATGTT-GTTC
*
3938 G-TT-CGTT-TTC
1 GTTTATGTTGTTC
3948 GTTTATGTT
1 GTTTATGTT
3957 CGTTTATTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
10 4 0.11
11 2 0.05
12 7 0.18
13 19 0.50
14 6 0.16
ACGTcount: A:0.05, C:0.10, G:0.24, T:0.61
Consensus pattern (13 bp):
GTTTATGTTGTTC
Found at i:6771 original size:98 final size:95
Alignment explanation
Indices: 6527--6783 Score: 288
Period size: 95 Copynumber: 2.7 Consensus size: 95
6517 GCTTATAATT
* *
6527 TTATATATATACAATAAAGCTTGAGTTGTCCCTATAAAGCATTTGGTTAAACGCCCCAGCTTTAT
1 TTATATATATACAATAAA-CTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTAT
* *
6592 GGATAAGAGTTAGCTAGACTGATAAAGGTGA
65 AGAGAAGAGTTAGCTAGACTGATAAAGGTGA
* * * * *
6623 TTATA-CTATACAATAAAGCTTGAGTTATCCCTCTAAAGCAATTGGTTAAACGTCTCGGCTTTAT
1 TTATATATATACAATAAA-CTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTAT
*
6687 AGAGAATA-TTCAGCTA-ACCTGATAAAGGTGATAA
65 AGAGAAGAGTT-AGCTAGA-CTGATAAAGGTG---A
* * * *
6721 TTATATATATACAATAATA-TTAAGTTGTCCCTCTAGAGAAATTGGTTAAACGCTCCAGCTTTA
1 TTATATATATACAATAA-ACTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTA
6784 GGGATTCAGC
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
94 3 0.02
95 74 0.55
96 5 0.04
98 42 0.31
99 10 0.07
100 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.33
Consensus pattern (95 bp):
TTATATATATACAATAAACTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTATA
GAGAAGAGTTAGCTAGACTGATAAAGGTGA
Found at i:7971 original size:21 final size:21
Alignment explanation
Indices: 7937--8016 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
7927 AATTTACTCA
*
7937 AAACAAAGTTTTGTTTCTCTTG
1 AAACAAA-TTTTGTCTCTCTTG
7959 AAACAAATTTTGTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
* *
7980 AGAC--A-GTT-TC-C-CTTG
1 AAACAAATTTTGTCTCTCTTG
7995 AAACAAATTTTGTCTCTCTTG
1 AAACAAATTTTGTCTCTCTTG
8016 A
1 A
8017 GACAGTTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
15 7 0.15
16 1 0.02
17 3 0.06
18 4 0.09
19 3 0.06
20 1 0.02
21 21 0.45
22 7 0.15
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (21 bp):
AAACAAATTTTGTCTCTCTTG
Found at i:7995 original size:36 final size:36
Alignment explanation
Indices: 7949--8317 Score: 340
Period size: 36 Copynumber: 10.4 Consensus size: 36
7939 ACAAAGTTTT
*
7949 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
7985 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
8021 GTTTCCCTTGAAACAAA------ATCT-TTGA-ATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* * * * *
8049 TGTTTTACATT-AAACAAATTTCGTCTCCCTTGAAACA
1 -G-TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
** * * * * *
8086 GTTTCTTTTGGAACTAAGTTTTATCTCTCTTCAGATA
1 GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
*
8123 GTTTCTCTTGAAACAAATTTTGTCTTTGTCTATCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTC----TC--TCTTGAGACA
*
8165 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
8201 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
* *
8237 GTTTCCCTTGAAACAAA----ATCT-TC--GA-ATA
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
*
8265 TGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 -GTTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACA
8303 GTTTCCCTTGAAACA
1 GTTTCCCTTGAAACA
8318 CCCACCGTTG
Statistics
Matches: 274, Mismatches: 31, Indels: 56
0.76 0.09 0.16
Matches are distributed among these distances:
28 4 0.01
29 28 0.10
30 12 0.04
31 2 0.01
32 3 0.01
34 3 0.01
35 8 0.03
36 131 0.48
37 45 0.16
38 4 0.01
40 2 0.01
42 32 0.12
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACA
Found at i:8193 original size:21 final size:21
Alignment explanation
Indices: 8168--8232 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
8158 TGAGACAGTT
8168 TCTCTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
* *
8189 TCTCTTGAGAC--A-GTT-TC
1 TCTCTTGAAACAAATTTTGTC
8206 -C-CTTGAAACAAATTTTGTC
1 TCTCTTGAAACAAATTTTGTC
8225 TCTCTTGA
1 TCTCTTGA
8233 GACAGTTTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
15 7 0.21
16 1 0.03
17 3 0.09
18 4 0.12
19 3 0.09
20 1 0.03
21 15 0.44
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.42
Consensus pattern (21 bp):
TCTCTTGAAACAAATTTTGTC
Found at i:8205 original size:78 final size:72
Alignment explanation
Indices: 8060--8317 Score: 244
Period size: 78 Copynumber: 3.6 Consensus size: 72
8050 GTTTTACATT
* * * * * * *
8060 AAACAAATTTCGTCTCCCTTGAAACAGTTTCTTTTGGAACTAAGTTTTATCTCTCTTCAGATAGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAATTTTATCTCTCTTCAGACAGT
*
8125 TTCTCTTG
65 TTCCCTTG
* *
8133 AAACAAATTTTGTCTTTGTCTATCTTGAGACAGTTTCTCTTGAAACAAATTTTGTCTCTCTTGAG
1 AAACAAATTTTGTC----TC--TCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTCAG
8198 ACAGTTTCCCTTG
60 ACAGTTTCCCTTG
* * *
8211 AAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAA----ATCT-TC--GA-ATATGT
1 AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTCAGACA-GT
8268 TTCCCTTG
65 TTCCCTTG
* *
8276 AAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA
1 AAAC-AAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
8318 CCCACCGTTG
Statistics
Matches: 163, Mismatches: 14, Indels: 23
0.81 0.07 0.12
Matches are distributed among these distances:
64 2 0.01
65 16 0.10
66 36 0.22
67 2 0.01
68 3 0.02
72 26 0.16
73 13 0.08
74 2 0.01
77 2 0.01
78 41 0.25
79 20 0.12
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (72 bp):
AAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATTTTATCTCTCTTCAGACAGTT
TCCCTTG
Found at i:8306 original size:66 final size:65
Alignment explanation
Indices: 8193--8385 Score: 230
Period size: 66 Copynumber: 2.9 Consensus size: 65
8183 TTTGTCTCTC
* *
8193 TTGAGA-CAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATC
1 TTGAGATC-GTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAACC
8257 -
65 G
* **
8257 TTCGA-ATATGTTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACACCC
1 TT-GAGAT-CGTTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACA-AA
8321 ACCG
62 ACCG
* ** *
8325 TTGAGATCGTTTCCCTTGAAACAAATTTCGTCTCGTTTGAGACAATTTTCCCTTGAAACAA
1 TTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGAC-AGTTTCCCTTGAAACAA
8386 GAAATTTTAT
Statistics
Matches: 110, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
64 3 0.03
65 16 0.15
66 54 0.49
67 33 0.30
68 4 0.04
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (65 bp):
TTGAGATCGTTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAAAACCG
Found at i:8952 original size:43 final size:42
Alignment explanation
Indices: 8846--8965 Score: 154
Period size: 41 Copynumber: 2.9 Consensus size: 42
8836 TGCAGCAAAG
* *
8846 AATCCATGATTTCAACTCCACGACGGAGGAAATCGTACTCAC
1 AATCCACGATTTCAACTCCACGACGGAGGAAATCGTACCCAC
*
8888 -ATCCACGATTTCAACTCCACGACGGA-GAATATTGTACCCAC
1 AATCCACGATTTCAACTCCACGACGGAGGAA-ATCGTACCCAC
* * *
8929 AAATCCACGATTTCAACTTCACGACGAAGGATATCGT
1 -AATCCACGATTTCAACTCCACGACGGAGGAAATCGT
8966 GCCAAATCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
40 3 0.04
41 34 0.51
43 28 0.42
44 2 0.03
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
AATCCACGATTTCAACTCCACGACGGAGGAAATCGTACCCAC
Found at i:11071 original size:3 final size:3
Alignment explanation
Indices: 11063--11143 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
11053 ATTATGTTTC
11063 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
11111 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11144 TCATATTTTT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.32, C:0.00, G:0.01, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11435 original size:17 final size:16
Alignment explanation
Indices: 11409--11441 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
11399 TTTCTTTGTT
11409 TTTATATATATTTTTA
1 TTTATATATATTTTTA
11425 TTTATTATATATTTTTA
1 TTTA-TATATATTTTTA
11442 CCCTTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATATATATTTTTA
Found at i:11451 original size:19 final size:16
Alignment explanation
Indices: 11408--11464 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 16
11398 TTTTCTTTGT
11408 TTTTATATATATTTTTA
1 TTTT-TATATATTTTTA
11425 TTTATTATATATTTTTA
1 TTT-TTATATATTTTTA
*
11442 CCCTTTTTATATTTTCTTTA
1 ---TTTTTATATATT-TTTA
11462 TTT
1 TTT
11465 ATTTTTATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 18 0.53
18 1 0.03
19 8 0.24
20 7 0.21
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTATATATTTTTA
Found at i:11549 original size:3 final size:3
Alignment explanation
Indices: 11541--11598 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
11531 GCCATGTATA
11541 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
11589 TAT TAT TAT T
1 TAT TAT TAT T
11599 TTCTTCATTT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:11660 original size:45 final size:43
Alignment explanation
Indices: 11594--11700 Score: 119
Period size: 45 Copynumber: 2.4 Consensus size: 43
11584 ATTATTATTA
* *
11594 TTATTTTC-TTCATTTTATTTATTTTATTCA-TTTTTACCTTTTCT
1 TTATTTTCATT-ATTTTATTTATTTCATGCATTTTTTA-C-TTTCT
*
11638 TTATTTCTCATTATTTTCTTTATTTCATGCATTTTTTTACTTTCT
1 TTATTT-TCATTATTTTATTTATTTCATGCA-TTTTTTACTTTCT
*
11683 TTATTTTCATTTTTTTAT
1 TTATTTTCATTATTTTAT
11701 CTAACAAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
44 16 0.30
45 29 0.54
46 3 0.06
47 6 0.11
ACGTcount: A:0.16, C:0.13, G:0.01, T:0.70
Consensus pattern (43 bp):
TTATTTTCATTATTTTATTTATTTCATGCATTTTTTACTTTCT
Found at i:15460 original size:12 final size:12
Alignment explanation
Indices: 15440--15486 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 12
15430 ACGGAGATAT
15440 CAGAAATCAGAA
1 CAGAAATCAGAA
* *
15452 CATAAATCAGAG
1 CAGAAATCAGAA
*
15464 CAGAAATCATAA
1 CAGAAATCAGAA
*
15476 CAGAATTCAGA
1 CAGAAATCAGA
15487 GTAGAAACCA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.53, C:0.17, G:0.15, T:0.15
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:15467 original size:24 final size:24
Alignment explanation
Indices: 15440--15498 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
15430 ACGGAGATAT
*
15440 CAGAAATCAGAACATAAATCAGAG
1 CAGAAATCAGAACAGAAATCAGAG
* *
15464 CAGAAATCATAACAGAATTCAGAG
1 CAGAAATCAGAACAGAAATCAGAG
* *
15488 TAGAAACCAGA
1 CAGAAATCAGA
15499 TAAAATATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.53, C:0.17, G:0.17, T:0.14
Consensus pattern (24 bp):
CAGAAATCAGAACAGAAATCAGAG
Found at i:16834 original size:14 final size:14
Alignment explanation
Indices: 16815--16842 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
16805 CGGGTCAGGT
16815 CGGGTTGGGTCAAA
1 CGGGTTGGGTCAAA
16829 CGGGTTGGGTCAAA
1 CGGGTTGGGTCAAA
16843 ATTGGGGTTA
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:0.21, C:0.14, G:0.43, T:0.21
Consensus pattern (14 bp):
CGGGTTGGGTCAAA
Found at i:17761 original size:2 final size:2
Alignment explanation
Indices: 17750--17835 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
17740 AAAAATGATC
17750 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17791 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17833 AT A
1 AT A
17836 AACTCAAATC
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 82 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19243 original size:14 final size:15
Alignment explanation
Indices: 19210--19249 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
19200 TAATAATTTG
19210 TTTTAATTTAATATAA
1 TTTT-ATTTAATATAA
19226 -TTTATTT-ATATAA
1 TTTTATTTAATATAA
19239 TTTTA-TTAATA
1 TTTTATTTAATA
19250 AATCCATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 8 0.36
14 11 0.50
15 3 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTATTTAATATAA
Found at i:21671 original size:13 final size:13
Alignment explanation
Indices: 21655--21688 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
21645 CAATCTTAAA
21655 AAACAATTTTGAG
1 AAACAATTTTGAG
*
21668 AAACAACTTTGAG
1 AAACAATTTTGAG
*
21681 ACACAATT
1 AAACAATT
21689 CACAAAGTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (13 bp):
AAACAATTTTGAG
Found at i:25867 original size:21 final size:20
Alignment explanation
Indices: 25838--25880 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
25828 ATCGTCGATA
25838 TTTTTTATTATCAT-TTTATT
1 TTTTTTATTA-CATCTTTATT
25858 TTTTTATATTACATCTTTATT
1 TTTTT-TATTACATCTTTATT
25879 TT
1 TT
25881 CTCTCCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTTTATTACATCTTTATT
Found at i:26230 original size:16 final size:16
Alignment explanation
Indices: 26209--26244 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26199 CAATCAGATC
*
26209 TGTTTGTATTTATTTT
1 TGTTTGAATTTATTTT
*
26225 TGTTTGAATTTTTTTT
1 TGTTTGAATTTATTTT
26241 TGTT
1 TGTT
26245 AGATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.11, C:0.00, G:0.14, T:0.75
Consensus pattern (16 bp):
TGTTTGAATTTATTTT
Found at i:31760 original size:15 final size:16
Alignment explanation
Indices: 31719--31762 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
31709 TGTAAAAAAA
* *
31719 ATTAATTAAATAAAAT
1 ATTAAATAAATTAAAT
*
31735 ATTAAAAAAATTAAAT
1 ATTAAATAAATTAAAT
31751 -TTAAATAAATTA
1 ATTAAATAAATTA
31763 CTAACAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTAAATAAATTAAAT
Found at i:31771 original size:27 final size:25
Alignment explanation
Indices: 31713--31772 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 25
31703 TATATCTGTA
*
31713 AAAAAAATTAATTAAATAAAATATT
1 AAAAAAATTAATTAAATAAAATACT
*
31738 AAAAAAATTAAATTTAAATAAATTACT
1 AAAAAAATT-AA-TTAAATAAAATACT
*
31765 AACAAAAT
1 AAAAAAAT
31773 ACTAAATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 9 0.30
26 2 0.07
27 19 0.63
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (25 bp):
AAAAAAATTAATTAAATAAAATACT
Found at i:32502 original size:21 final size:21
Alignment explanation
Indices: 32473--32526 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
32463 GCGTTGCATT
32473 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
* *
32494 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
32515 TCGCGTTGCGAT
1 TCGCGTTGCGAT
32527 TTTCCATTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:32540 original size:20 final size:20
Alignment explanation
Indices: 32515--32702 Score: 103
Period size: 20 Copynumber: 9.6 Consensus size: 20
32505 TAGTTGAAAA
*
32515 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
32535 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
* *
32555 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
* *
32577 T-GTCGTTGCGATTTTTCAAAT
1 TCG-CGTTGCGA-TTTTCCAGT
* *
32598 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCAGT
*
32618 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-AGT
* **
32639 T--TGTTGCGA------AAA
1 TCGCGTTGCGATTTTCCAGT
* *
32651 TCACGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCAGT
32671 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCAGT
32691 TCGCGTTGCGAT
1 TCGCGTTGCGAT
32703 AGTCTACAGT
Statistics
Matches: 130, Mismatches: 21, Indels: 34
0.70 0.11 0.18
Matches are distributed among these distances:
12 3 0.02
14 7 0.05
18 1 0.01
19 15 0.12
20 70 0.54
21 9 0.07
22 24 0.18
23 1 0.01
ACGTcount: A:0.16, C:0.21, G:0.23, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCAGT
Found at i:32583 original size:22 final size:22
Alignment explanation
Indices: 32558--32629 Score: 87
Period size: 22 Copynumber: 3.4 Consensus size: 22
32548 TTCCAGTTCG
32558 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
32580 CGTTGCGAT--TTTTCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
32599 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
32621 CGTTGCGAT
1 CGTTGCGAT
32630 TTTCCAAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 19 0.49
ACGTcount: A:0.18, C:0.18, G:0.25, T:0.39
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:32610 original size:41 final size:41
Alignment explanation
Indices: 32538--32647 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 41
32528 TTCCATTTCG
*
32538 CGTTGCGATTTTCC-AGTTCGCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATT--CGTTGCGATAGTCTACAGTTGT
*
32580 CGTTGCGATTTTTCAAATTCGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
*
32621 CGTTGCGATTTTCCAAATTTGTTGCGA
1 CGTTGCGATTTTCCAAATTCGTTGCGA
32648 AAATCACGTT
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
41 47 0.75
42 13 0.21
43 3 0.05
ACGTcount: A:0.17, C:0.19, G:0.24, T:0.40
Consensus pattern (41 bp):
CGTTGCGATTTTCCAAATTCGTTGCGATAGTCTACAGTTGT
Found at i:32642 original size:22 final size:22
Alignment explanation
Indices: 32518--32642 Score: 68
Period size: 22 Copynumber: 6.0 Consensus size: 22
32508 TTGAAAATCG
32518 CGTTGCGATTTTCC--ATTTCG-
1 CGTTGCGATTTTCCAAATTT-GT
* *
32538 CGTTGCGATTTTCC-AGTTCG-
1 CGTTGCGATTTTCCAAATTTGT
** * * *
32558 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTTGT
*
32580 CGTTGCGATTTTTCAAA--T-T
1 CGTTGCGATTTTCCAAATTTGT
** * * *
32599 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAAATTTGT
32621 CGTTGCGATTTTCCAAATTTGT
1 CGTTGCGATTTTCCAAATTTGT
32643 TGCGAAAATC
Statistics
Matches: 75, Mismatches: 24, Indels: 10
0.69 0.22 0.09
Matches are distributed among these distances:
19 13 0.17
20 27 0.36
21 5 0.07
22 30 0.40
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (22 bp):
CGTTGCGATTTTCCAAATTTGT
Found at i:32646 original size:19 final size:19
Alignment explanation
Indices: 32581--32647 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 19
32571 TACAGTTGTC
* *
32581 GTTGCGATTTTTCAAATTC
1 GTTGCGATTTTCCAAATTT
** * *
32600 GTTGCGATAGTCTACAGTTGT
1 GTTGCGATTTTCCA-AATT-T
32621 CGTTGCGATTTTCCAAATTT
1 -GTTGCGATTTTCCAAATTT
32641 GTTGCGA
1 GTTGCGA
32648 AAATCACGTT
Statistics
Matches: 35, Mismatches: 10, Indels: 6
0.69 0.20 0.12
Matches are distributed among these distances:
19 17 0.49
20 4 0.11
21 3 0.09
22 11 0.31
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.42
Consensus pattern (19 bp):
GTTGCGATTTTCCAAATTT
Found at i:33540 original size:22 final size:22
Alignment explanation
Indices: 33511--33603 Score: 95
Period size: 22 Copynumber: 4.4 Consensus size: 22
33501 AATTTGAAAA
33511 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* *
33533 TTCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
33555 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
33574 ATCGCAACGAC-ATTGTAGACT
1 ATCGCAACGACAACTGTAGACT
33595 ATCGCAACG
1 ATCGCAACG
33604 CGAAAGGAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
19 13 0.23
20 3 0.05
21 13 0.23
22 27 0.48
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:33640 original size:21 final size:21
Alignment explanation
Indices: 33614--33687 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
33604 CGAAAGGAAA
33614 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
33635 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
* *
33655 ATCGCAACACGGTTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
33676 ATAGCAACGCGA
1 ATCGCAACGCGA
33688 AATGGAAAAT
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 13 0.35
21 24 0.65
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:33653 original size:81 final size:81
Alignment explanation
Indices: 33552--33707 Score: 212
Period size: 81 Copynumber: 1.9 Consensus size: 81
33542 ACAACTGTAG
* *
33552 ACTATCGCAACGAATTTGGAAAATCGCAACGAC-ATTGT-AGACTATCGCAACGCGAAA-GGAAA
1 ACTATCGCAACGAATATGGAAAATCGCAAC-ACGATTGTCA-ACTATAGCAACGCGAAATGGAAA
33614 ATCGCAACGCGATTTTCA
64 ATCGCAACGCGATTTTCA
* *
33632 ACTATCGCAACGCGAA-ATGGAAAATCGCAACACGGTTTTCAACTATAGCAACGCGAAATGGAAA
1 ACTATCGCAA--CGAATATGGAAAATCGCAACACGATTGTCAACTATAGCAACGCGAAATGGAAA
33696 ATCGCAACGCGA
64 ATCGCAACGCGA
33708 AATGGAAAAT
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
80 12 0.18
81 33 0.49
82 22 0.33
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (81 bp):
ACTATCGCAACGAATATGGAAAATCGCAACACGATTGTCAACTATAGCAACGCGAAATGGAAAAT
CGCAACGCGATTTTCA
Found at i:33660 original size:20 final size:20
Alignment explanation
Indices: 33595--33731 Score: 132
Period size: 20 Copynumber: 6.8 Consensus size: 20
33585 ATTGTAGACT
33595 ATCGCAACGCGAAA-GGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
33614 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
33635 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* *** ** *
33655 ATCGCAACACGGTTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
33676 ATAGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
33696 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
33716 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
33732 CAACGCGAAT
Statistics
Matches: 89, Mismatches: 26, Indels: 5
0.74 0.22 0.04
Matches are distributed among these distances:
19 12 0.13
20 50 0.56
21 27 0.30
ACGTcount: A:0.40, C:0.23, G:0.22, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:33671 original size:41 final size:41
Alignment explanation
Indices: 33552--33703 Score: 197
Period size: 41 Copynumber: 3.8 Consensus size: 41
33542 ACAACTGTAG
* *
33552 ACTATCGCAA--CGAATTTGGAAAATCGCAACGAC-ATTGT-A
1 ACTATCGCAACGCGAA-ATGGAAAATCGCAAC-ACGATTTTCA
*
33591 GACTATCGCAACGCGAAA-GGAAAATCGCAACGCGATTTTCA
1 -ACTATCGCAACGCGAAATGGAAAATCGCAACACGATTTTCA
*
33632 ACTATCGCAACGCGAAATGGAAAATCGCAACACGGTTTTCA
1 ACTATCGCAACGCGAAATGGAAAATCGCAACACGATTTTCA
*
33673 ACTATAGCAACGCGAAATGGAAAATCGCAAC
1 ACTATCGCAACGCGAAATGGAAAATCGCAAC
33704 GCGAAATGGA
Statistics
Matches: 101, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
39 1 0.01
40 44 0.44
41 52 0.51
42 4 0.04
ACGTcount: A:0.39, C:0.23, G:0.20, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGCGAAATGGAAAATCGCAACACGATTTTCA
Found at i:34072 original size:268 final size:268
Alignment explanation
Indices: 33735--34269 Score: 1043
Period size: 268 Copynumber: 2.0 Consensus size: 268
33725 CGAAATGCAA
33735 CGCGAATTTGCGATAGTGGAGATCGCAATGCGAATTAAAGATCGCATTGCGATTTTGTTGGTCAT
1 CGCGAATTTGCGATAGTGGAGATCGCAATGCGAATTAAAGATCGCATTGCGATTTTGTTGGTCAT
33800 TTTCGCAAATCCAAAAAAAGTTGGTCAAAATCGTATATTATCTAGGATTTTTGGTCAATGAAGTT
66 TTTCGCAAATCCAAAAAAAGTTGGTCAAAATCGTATATTATCTAGGATTTTTGGTCAATGAAGTT
33865 ATTTTCTCTTTAAATTATTGTAAGTAGATAAGAAATAATTTTTTAAAATAACTATCAGTATCCCA
131 ATTTTCTCTTTAAATTATTGTAAGTAGATAAGAAATAATTTTTTAAAATAACTATCAGTATCCCA
33930 TTTATAAGTCAACTAATTTAAATTGAATATTTCAAAGACGAAAACAATCTTTTCAATTCAATTTA
196 TTTATAAGTCAACTAATTTAAATTGAATATTTCAAAGACGAAAACAATCTTTTCAATTCAATTTA
33995 TTCTATTT
261 TTCTATTT
*
34003 CGCGAATTTGCGATAGTTGAGATCGCAATGCGAATTAAAGATCGCATTGCGATTTTGTTGGTCAT
1 CGCGAATTTGCGATAGTGGAGATCGCAATGCGAATTAAAGATCGCATTGCGATTTTGTTGGTCAT
*
34068 TTTCGTAAATCCAAAAAAAGTTGGTCAAAATCGTATATTATCTAGGATTTTTGGTCAATGAAGTT
66 TTTCGCAAATCCAAAAAAAGTTGGTCAAAATCGTATATTATCTAGGATTTTTGGTCAATGAAGTT
*
34133 ATTTTCTCTTTAAATTATTGTAAGTAGATAAGAAATAATTTTTTAAAATAACTATTAGTATCCCA
131 ATTTTCTCTTTAAATTATTGTAAGTAGATAAGAAATAATTTTTTAAAATAACTATCAGTATCCCA
34198 TTTATAAGTCAACTAATTTAAATTGAATATTTCAAAGACGAAAACAATCTTTTCAATTCAATTTA
196 TTTATAAGTCAACTAATTTAAATTGAATATTTCAAAGACGAAAACAATCTTTTCAATTCAATTTA
34263 TTCTATT
261 TTCTATT
34270 AGTAAATATT
Statistics
Matches: 264, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
268 264 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (268 bp):
CGCGAATTTGCGATAGTGGAGATCGCAATGCGAATTAAAGATCGCATTGCGATTTTGTTGGTCAT
TTTCGCAAATCCAAAAAAAGTTGGTCAAAATCGTATATTATCTAGGATTTTTGGTCAATGAAGTT
ATTTTCTCTTTAAATTATTGTAAGTAGATAAGAAATAATTTTTTAAAATAACTATCAGTATCCCA
TTTATAAGTCAACTAATTTAAATTGAATATTTCAAAGACGAAAACAATCTTTTCAATTCAATTTA
TTCTATTT
Found at i:36551 original size:17 final size:17
Alignment explanation
Indices: 36529--36564 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
36519 GATTTAATAA
36529 ATTATTTTAAAAA-AAAT
1 ATTA-TTTAAAAATAAAT
36546 ATTATTTAAAAATAAAT
1 ATTATTTAAAAATAAAT
36563 AT
1 AT
36565 ACACACATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTATTTAAAAATAAAT
Found at i:37628 original size:31 final size:30
Alignment explanation
Indices: 37593--37656 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
37583 TATCATAACA
37593 TAATAACTT-TCACAATTATTTTATAATATAT
1 TAATAA-TTATCACAATTATTTTATAATAT-T
* **
37624 TAATAATTATTATTATTATTTTATAATATT
1 TAATAATTATCACAATTATTTTATAATATT
37654 TAA
1 TAA
37657 AAAGTTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 6 0.21
31 23 0.79
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (30 bp):
TAATAATTATCACAATTATTTTATAATATT
Found at i:37665 original size:31 final size:31
Alignment explanation
Indices: 37607--37665 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
37597 AACTTTCACA
*
37607 ATTATTTTATAATATATTAATAATTATTATT
1 ATTATTTTATAATATATTAAAAATTATTATT
37638 ATTATTTTATAATAT-TTAAAAAGTTATT
1 ATTATTTTATAATATATTAAAAA-TTATT
37666 TTAATATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (31 bp):
ATTATTTTATAATATATTAAAAATTATTATT
Found at i:38501 original size:22 final size:21
Alignment explanation
Indices: 38474--38515 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
38464 GATTCTTAAT
38474 TATTTAATAATAAATAT-TCAAG
1 TATTT-AT-ATAAATATATCAAG
38496 TATTTATATAAATATATCAA
1 TATTTATATAAATATATCAA
38516 TTCAAACTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 6 0.32
22 5 0.26
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TATTTATATAAATATATCAAG
Found at i:39901 original size:6 final size:7
Alignment explanation
Indices: 39873--39900 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
39863 AAATAATATA
39873 TATTTTT
1 TATTTTT
39880 TATTTTT
1 TATTTTT
39887 TATTTTT
1 TATTTTT
39894 TATTTTT
1 TATTTTT
39901 AACGGGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TATTTTT
Found at i:40021 original size:17 final size:16
Alignment explanation
Indices: 39989--40020 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
39979 TCCTCTTAAA
39989 ATTTTATAACTTTTTT
1 ATTTTATAACTTTTTT
*
40005 ATTTTATAAATTTTTT
1 ATTTTATAACTTTTTT
40021 TTCTTAATAT
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:0.03, G:0.00, T:0.69
Consensus pattern (16 bp):
ATTTTATAACTTTTTT
Found at i:47267 original size:27 final size:27
Alignment explanation
Indices: 47219--47280 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
47209 AGAGCTCGGA
*
47219 GTATTTTGATCAAGTTGAAGTTCATGG
1 GTATTTTGATCAAGTTGAAGTTCAGGG
* ** * *
47246 GTATTTTGGTCATTTTGGAGTTTAGGG
1 GTATTTTGATCAAGTTGAAGTTCAGGG
47273 GTATTTTG
1 GTATTTTG
47281 CTAATTTCAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.05, G:0.29, T:0.47
Consensus pattern (27 bp):
GTATTTTGATCAAGTTGAAGTTCAGGG
Found at i:48268 original size:20 final size:20
Alignment explanation
Indices: 48243--48317 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
48233 GTCAGACCCA
48243 TTCGAGTTGACTCAAGCTGG
1 TTCGAGTTGACTCAAGCTGG
* * *
48263 TTCGAGTTGACTC-GGTTCAG
1 TTCGAGTTGACTCAAGCT-GG
*
48283 TTCGAGTTGACTCAACCTGG
1 TTCGAGTTGACTCAAGCTGG
*
48303 CTCGAGTTGACTCAA
1 TTCGAGTTGACTCAA
48318 ACCAGTTCTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.93
21 1 0.02
ACGTcount: A:0.20, C:0.23, G:0.27, T:0.31
Consensus pattern (20 bp):
TTCGAGTTGACTCAAGCTGG
Found at i:48324 original size:40 final size:40
Alignment explanation
Indices: 48243--48325 Score: 112
Period size: 40 Copynumber: 2.1 Consensus size: 40
48233 GTCAGACCCA
* * ****
48243 TTCGAGTTGACTCAAGCTGGTTCGAGTTGACTCGGTTCAG
1 TTCGAGTTGACTCAACCTGGCTCGAGTTGACTCAAACCAG
48283 TTCGAGTTGACTCAACCTGGCTCGAGTTGACTCAAACCAG
1 TTCGAGTTGACTCAACCTGGCTCGAGTTGACTCAAACCAG
48323 TTC
1 TTC
48326 TAGGGTGTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.30
Consensus pattern (40 bp):
TTCGAGTTGACTCAACCTGGCTCGAGTTGACTCAAACCAG
Found at i:52189 original size:26 final size:22
Alignment explanation
Indices: 52112--52179 Score: 93
Period size: 21 Copynumber: 3.0 Consensus size: 22
52102 AAGTTTATGG
*
52112 GTATTTTGGTTATTTTGGAGTTCAA
1 GTATTTTGGTTA-TTT-CA-TTCAA
52137 GTATTTTGGTTATTTCATTCAA
1 GTATTTTGGTTATTTCATTCAA
52159 -TATTTTGGTTATTTCATTCAA
1 GTATTTTGGTTATTTCATTCAA
52180 TCCAGTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
21 21 0.50
22 5 0.12
23 1 0.02
24 3 0.07
25 12 0.29
ACGTcount: A:0.22, C:0.07, G:0.16, T:0.54
Consensus pattern (22 bp):
GTATTTTGGTTATTTCATTCAA
Found at i:75740 original size:20 final size:20
Alignment explanation
Indices: 75717--75764 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
75707 TGATTAAATC
75717 ATAAAAT-ATTCATCAAA-AAA
1 ATAAAATAATT-AT-AAATAAA
75737 ATAAAATTAATTATAAATAAA
1 ATAAAA-TAATTATAAATAAA
75758 ATAAAAT
1 ATAAAAT
75765 TCAATTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 10 0.40
21 12 0.48
22 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAAATAATTATAAATAAA
Found at i:79778 original size:19 final size:18
Alignment explanation
Indices: 79749--79795 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
79739 ACCGAATTAA
*
79749 AATAA-AATAAAACATAT
1 AATAATAATAAAACAAAT
*
79766 AATAAATAATAAAAGAAAT
1 AAT-AATAATAAAACAAAT
79785 AATAATAATAA
1 AATAATAATAA
79796 TATTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 3 0.12
18 10 0.38
19 13 0.50
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AATAATAATAAAACAAAT
Found at i:79872 original size:2 final size:2
Alignment explanation
Indices: 79860--79899 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
79850 ATTTTAAAAC
79860 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
79900 TCGAAATGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:79877 original size:38 final size:37
Alignment explanation
Indices: 79801--79875 Score: 116
Period size: 36 Copynumber: 2.0 Consensus size: 37
79791 AATAATATTT
79801 TTTTCAAAAATATTTCCCAAAACTATATAATATATATA
1 TTTTCAAAAATATTT-CCAAAACTATATAATATATATA
* *
79839 TTTTCAAAAATATTT-TAAAACTATATTATATATATA
1 TTTTCAAAAATATTTCCAAAACTATATAATATATATA
79875 T
1 T
79876 ATATATATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 20 0.57
38 15 0.43
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (37 bp):
TTTTCAAAAATATTTCCAAAACTATATAATATATATA
Found at i:79918 original size:59 final size:57
Alignment explanation
Indices: 79824--79936 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 57
79814 TTCCCAAAAC
*
79824 TATATAATATATATATTTTCAAAAATATTTTAAAACTATATTA-TATATATATATATA
1 TATATAATATATATATATTCAAAAATATTTTAAAACTATA-TAGTATATATATATATA
* *
79881 TATATATATATATATATATTC-GAAATGTTTTCCAAAACTATATAGTATATATATAT
1 TATATA-ATATATATATATTCAAAAATATTTT--AAAACTATATAGTATATATATAT
79937 TTTAAAATGT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
57 14 0.29
58 15 0.31
59 20 0.41
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (57 bp):
TATATAATATATATATATTCAAAAATATTTTAAAACTATATAGTATATATATATATA
Found at i:79935 original size:39 final size:38
Alignment explanation
Indices: 79879--80019 Score: 194
Period size: 39 Copynumber: 3.7 Consensus size: 38
79869 TATATATATA
* *
79879 TATATATATATATATATATATTCGAAATGTTTTCCAAAAC
1 TATATAT-TATATATATAT-TTCAAAATGTTTTCAAAAAC
* *
79919 TATATAGTATATATATATTTTAAAATGTTTTCAAAAAC
1 TATATATTATATATATATTTCAAAATGTTTTCAAAAAC
* *
79957 TATATATTATATATATGTTTTCAAAATGTTTTCAAAAAT
1 TATATATTATATATAT-ATTTCAAAATGTTTTCAAAAAC
79996 TATATATTATATATAT-TTTCAAAA
1 TATATATTATATATATATTTCAAAA
80020 CCGATTTTTA
Statistics
Matches: 92, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
37 8 0.09
38 32 0.35
39 46 0.50
40 6 0.07
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.46
Consensus pattern (38 bp):
TATATATTATATATATATTTCAAAATGTTTTCAAAAAC
Found at i:79960 original size:27 final size:28
Alignment explanation
Indices: 79930--79982 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
79920 ATATAGTATA
*
79930 TATATATTTTA-AAATGTTTTCAAAAAC
1 TATATATTATATAAATGTTTTCAAAAAC
*
79957 TATATATTATATATATGTTTTCAAAA
1 TATATATTATATAAATGTTTTCAAAA
79983 TGTTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (28 bp):
TATATATTATATAAATGTTTTCAAAAAC
Found at i:84918 original size:3 final size:3
Alignment explanation
Indices: 84910--84937 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
84900 TTGGTTCTAC
84910 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
84938 CTTTTACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:88813 original size:29 final size:29
Alignment explanation
Indices: 88771--88851 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
88761 TTTCATATGT
88771 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
88799 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
*
88828 TCGTGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
88852 ATATCACATA
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
28 7 0.14
29 38 0.76
30 5 0.10
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:89384 original size:64 final size:64
Alignment explanation
Indices: 89228--89384 Score: 167
Period size: 64 Copynumber: 2.5 Consensus size: 64
89218 TAATGAAGGG
* * * * **
89228 ATGCATCGATGAAAAACTTGTGCATCGGTGCATAAAATGCATTCGATGTTTTATTATTAATGGA
1 ATGCATCGATGCATACCTTGTGCATCGATGCATAAAATGCATTCGATGTTTTATTATTAAAAGA
* * * *
89292 ATGCATCGATGCATGCCTTATGCTTCGATGCACT-AATTGCATTCGATGTTTATATT-TTAAAAG
1 ATGCATCGATGCATACCTTGTGCATCGATGCA-TAAAATGCATTCGATGTTT-TATTATTAAAAG
89355 A
64 A
*
89356 GTGCATCGATGCACTACC-TGTGCATCGAT
1 ATGCATCGATGCA-TACCTTGTGCATCGAT
89385 ACACCTTCAA
Statistics
Matches: 76, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
64 68 0.89
65 8 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCATACCTTGTGCATCGATGCATAAAATGCATTCGATGTTTTATTATTAAAAGA
Found at i:93367 original size:23 final size:23
Alignment explanation
Indices: 93341--93386 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
93331 CACCACAGCT
*
93341 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
93364 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
93387 TATAATAATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:93604 original size:149 final size:149
Alignment explanation
Indices: 93364--93667 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
93354 CGAAGTGCCA
93364 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* *
93429 CATATACATATACTATGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTGCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
93494 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
93513 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCATATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
93578 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
93643 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
93662 CGTAGA
1 CGTAGA
93668 CCCTCTACCC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:94229 original size:63 final size:63
Alignment explanation
Indices: 94123--94281 Score: 203
Period size: 63 Copynumber: 2.5 Consensus size: 63
94113 TAATGAAGGC
* * * *
94123 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTA-AAGAA
** **
94186 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
* * *
94249 ATACATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
94282 CTTCAACAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
63 80 0.95
64 4 0.05
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACGACATTCGATGTTCATATTTAAAGAA
Found at i:100411 original size:23 final size:23
Alignment explanation
Indices: 100385--100430 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
100375 CACCACAGCT
* *
100385 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
*
100408 CGTAGAATTACACCGTAGTGCCA
1 CGTAGAATTACACCGAAGTGCCA
100431 TATAATAATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (23 bp):
CGTAGAATTACACCGAAGTGCCA
Found at i:100647 original size:149 final size:149
Alignment explanation
Indices: 100408--100709 Score: 586
Period size: 149 Copynumber: 2.0 Consensus size: 149
100398 CGAAGTGCCA
*
100408 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAACTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
100473 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
100538 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
100557 CGTAGAACTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAACTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
100622 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
100687 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
100706 CGTA
1 CGTA
100710 AACCCTCTAC
Statistics
Matches: 151, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (149 bp):
CGTAGAACTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:101273 original size:63 final size:63
Alignment explanation
Indices: 101167--101325 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 63
101157 TAATGGAGGC
* *** * *
101167 ATGCATCGATGCACTCCTGATGCATCGATGCACTGAGGGCATTCGATGTTCAT-TTTATTAGAA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACAACATTCAATGTTCATATTTA-AAGAA
** **
101230 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACAACATTCAATGTTTGTATTTAAATTA
1 ATGCATCGATGCACTCCTTATGCATCGATGCACTGACAACATTCAATGTTCATATTTAAAGAA
* *
101293 ATGCATCGATGCACTTCATATGCATCGATGCAC
1 ATGCATCGATGCACTCCTTATGCATCGATGCAC
101326 CTTCAACAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
63 79 0.95
64 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTTATGCATCGATGCACTGACAACATTCAATGTTCATATTTAAAGAA
Found at i:101317 original size:19 final size:20
Alignment explanation
Indices: 101293--101330 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
101283 ATTTAAATTA
101293 ATGCATCGATGCA-CTTCAT
1 ATGCATCGATGCACCTTCAT
101312 ATGCATCGATGCACCTTCA
1 ATGCATCGATGCACCTTCA
101331 ACAAATTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (20 bp):
ATGCATCGATGCACCTTCAT
Found at i:105084 original size:29 final size:29
Alignment explanation
Indices: 105042--105122 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
105032 TTTCATATGT
105042 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
105070 TCATGTAGCTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTCTTGTGA
105099 TCATGTAGCTCATGTCATGTTCTC
1 TCATGTAGCTCATGTCAT-TTCTC
105123 ATATCACATA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
28 7 0.14
29 39 0.76
30 5 0.10
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (29 bp):
TCATGTAGCTCATGTCATTTCTCTTGTGA
Found at i:105568 original size:64 final size:64
Alignment explanation
Indices: 105499--105655 Score: 176
Period size: 64 Copynumber: 2.5 Consensus size: 64
105489 TAATGAAGGT
* * **
105499 ATGCATCGATGCACTACTTGTGCATCGGTGCA-TAAAATGCATTCGATGTTT-TATGATTAACGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACT-AAATGCATTCGATGTTTATAT-ATTAAAAG
105562 A
64 A
* * * *
105563 ATGCATCGATGCA-TGCCTTATGCATCGATGCACTAATTGTATTCGATGTTTATATTTTAAAAGA
1 ATGCATCGATGCACT-ACTTATGCATCGATGCACTAAATGCATTCGATGTTTATATATTAAAAGA
* *
105627 GTGCATCGATGCACTACCTATGCATCGAT
1 ATGCATCGATGCACTACTTATGCATCGAT
105656 ACACATTCAA
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
63 1 0.01
64 72 0.92
65 5 0.06
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACTAAATGCATTCGATGTTTATATATTAAAAGA
Found at i:110330 original size:17 final size:16
Alignment explanation
Indices: 110297--110327 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
110287 GGCAAACACG
110297 TTTTTTATTTCATTTC
1 TTTTTTATTTCATTTC
110313 TTTTTTATTTCATTT
1 TTTTTTATTTCATTT
110328 TCTATTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTATTTCATTTC
Found at i:110335 original size:17 final size:16
Alignment explanation
Indices: 110299--110335 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
110289 CAAACACGTT
*
110299 TTTTATTTCATTTCTT
1 TTTTATTTCATTTCTA
110315 TTTTATTTCATTTTCTA
1 TTTTATTTCA-TTTCTA
110332 TTTT
1 TTTT
110336 CTTCATTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTCATTTCTA
Found at i:114016 original size:8 final size:7
Alignment explanation
Indices: 113999--114055 Score: 78
Period size: 7 Copynumber: 7.7 Consensus size: 7
113989 GCTCTAAATT
113999 GAAAAAA
1 GAAAAAA
114006 GAAAAAGA
1 GAAAAA-A
114014 GAAAAAGA
1 GAAAAA-A
114022 GAAAAAA
1 GAAAAAA
114029 GAACAAAA
1 GAA-AAAA
114037 GAAAAAA
1 GAAAAAA
*
114044 GAGAAAA
1 GAAAAAA
114051 GAAAA
1 GAAAA
114056 TAAGGTGGGC
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
7 24 0.52
8 22 0.48
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (7 bp):
GAAAAAA
Found at i:114019 original size:15 final size:14
Alignment explanation
Indices: 113999--114055 Score: 78
Period size: 15 Copynumber: 3.9 Consensus size: 14
113989 GCTCTAAATT
113999 GAAAAAAGAAAAAGA
1 GAAAAAAGAAAAA-A
114014 GAAAAAGAGAAAAAA
1 GAAAAA-AGAAAAAA
114029 GAACAAAAGAAAAAA
1 GAA-AAAAGAAAAAA
*
114044 GAGAAAAGAAAA
1 GAAAAAAGAAAA
114056 TAAGGTGGGC
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
14 9 0.23
15 20 0.51
16 10 0.26
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAAAA
Found at i:115369 original size:110 final size:106
Alignment explanation
Indices: 115199--115406 Score: 258
Period size: 110 Copynumber: 1.9 Consensus size: 106
115189 ACGGTGAAGG
* *
115199 ATATTGGACTCAAGACAACACAAGCTCAACTTCACAACGAATGGGTGACTAGTTGTCAACAAACA
1 ATATTAGACTCAAGACAACACAAGCTCAACTTCACAACGAATGGGTGACTAGCTGTCAACAAACA
* *
115264 ACTTCTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAATA
66 ACTTCCCAG-TTC---CAGAGACAATTTCAACTTCACAGCGAATA
* * * *
115309 ATATTAGACTCGAGACAGCACAAGCTCAACTTCACAGCGAA-GGG-GCAGCTGGCTGTCAACAAA
1 ATATTAGACTCAAGACAACACAAGCTCAACTTCACAACGAATGGGTG-A-CTAGCTGTCAACAAA
* *
115372 TAATTTCCCAGTTCCAGAGACAATTTCAACTTCAC
64 CAACTTCCCAGTTCCAGAGACAATTTCAACTTCAC
115407 GACGGAGGAT
Statistics
Matches: 86, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
106 20 0.23
108 1 0.01
109 7 0.08
110 58 0.67
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (106 bp):
ATATTAGACTCAAGACAACACAAGCTCAACTTCACAACGAATGGGTGACTAGCTGTCAACAAACA
ACTTCCCAGTTCCAGAGACAATTTCAACTTCACAGCGAATA
Found at i:117441 original size:4 final size:4
Alignment explanation
Indices: 117432--117478 Score: 69
Period size: 4 Copynumber: 11.5 Consensus size: 4
117422 TATTGTTTCC
117432 TTAT TTAT TTA- TTAT TTAT TTAT TTAT TTAT TTAT CTTAT TCTAT TT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT -TTAT T-TAT TT
117479 TGTCTTTATT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
3 3 0.08
4 29 0.73
5 8 0.20
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.72
Consensus pattern (4 bp):
TTAT
Found at i:119376 original size:2 final size:2
Alignment explanation
Indices: 119369--119411 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
119359 TATGTATGTG
119369 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119411 T
1 T
119412 GTCTCTTAAC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.