Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 71 of 318
Found at i:24873577 original size:37 final size:37
Alignment explanation
Indices: 24873536--24873608 Score: 128
Period size: 37 Copynumber: 2.0 Consensus size: 37
24873526 AAATTTATAC
24873536 TTAAACTATCCTTCCGTTATCCGGTTTAACTTTTTTT
1 TTAAACTATCCTTCCGTTATCCGGTTTAACTTTTTTT
**
24873573 TTAAACTATCCTTCCGTTATCTTGTTTAACTTTTTT
1 TTAAACTATCCTTCCGTTATCCGGTTTAACTTTTTT
24873609 GTAACAGTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.53
Consensus pattern (37 bp):
TTAAACTATCCTTCCGTTATCCGGTTTAACTTTTTTT
Found at i:24873918 original size:7 final size:7
Alignment explanation
Indices: 24873908--24873954 Score: 58
Period size: 7 Copynumber: 6.4 Consensus size: 7
24873898 AAAGAGTTTA
24873908 AAAATAT
1 AAAATAT
24873915 AAAATAT
1 AAAATAT
24873922 AAAATAT
1 AAAATAT
*
24873929 AAAATTCT
1 AAAA-TAT
*
24873937 AAAAAAT
1 AAAATAT
24873944 ATAAATAT
1 A-AAATAT
24873952 AAA
1 AAA
24873955 TTTTAAAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
7 22 0.65
8 12 0.35
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (7 bp):
AAAATAT
Found at i:24873927 original size:14 final size:14
Alignment explanation
Indices: 24873908--24873954 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
24873898 AAAGAGTTTA
24873908 AAAATATAAAATAT
1 AAAATATAAAATAT
*
24873922 AAAATATAAAATTCT
1 AAAATATAAAA-TAT
*
24873937 AAAAAATATAAATAT
1 AAAATATA-AAATAT
24873952 AAA
1 AAA
24873955 TTTTAAAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 11 0.39
15 14 0.50
16 3 0.11
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (14 bp):
AAAATATAAAATAT
Found at i:24873939 original size:22 final size:20
Alignment explanation
Indices: 24873914--24873970 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
24873904 TTTAAAAATA
24873914 TAAAATATAAAATATAAAATTC
1 TAAAA-ATAAAATAT-AAATTC
*
24873936 TAAAAAATATAAATATAAATTT
1 T-AAAAATA-AAATATAAATTC
24873958 TAAAGAATAAAAT
1 TAAA-AATAAAAT
24873971 TATTATATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.23
22 14 0.45
23 10 0.32
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
TAAAAATAAAATATAAATTC
Found at i:24874054 original size:29 final size:29
Alignment explanation
Indices: 24874009--24874070 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
24873999 ATTTTATTTT
24874009 TTAAAAAAGAAATTCTAAAT-TCTAAAAA
1 TTAAAAAAGAAATTCTAAATATCTAAAAA
* * *
24874037 TTAAAAAATATATATCTAAATATCTAAAAG
1 TTAAAAAAGAAAT-TCTAAATATCTAAAAA
24874067 TTAA
1 TTAA
24874071 TGACAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.38
29 7 0.24
30 11 0.38
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.32
Consensus pattern (29 bp):
TTAAAAAAGAAATTCTAAATATCTAAAAA
Found at i:24874991 original size:12 final size:12
Alignment explanation
Indices: 24874974--24874998 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24874964 AAAATTAATA
24874974 TAAATATTTTTT
1 TAAATATTTTTT
24874986 TAAATATTTTTT
1 TAAATATTTTTT
24874998 T
1 T
24874999 GAGACATTTT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TAAATATTTTTT
Found at i:24875152 original size:63 final size:65
Alignment explanation
Indices: 24875030--24875197 Score: 152
Period size: 63 Copynumber: 2.6 Consensus size: 65
24875020 AATTACTTAC
* * * * *
24875030 ATTTTTAATAATTA-TAAT-TTTTGAATAATTTTAGATAAATTTTTTATTTATAT-TTTTTTTG-
1 ATTTTTAATAATTATTTATATTTT-AATAATTTTAGATAAATTTTTAACTTATATGGTTTTTAGA
24875091 A
65 A
*
24875092 ATTTTTAATAATTATTTATATTTTAATAATTTCTA-TTAAATTTTGTAACTT-TATGGTTTTTAG
1 ATTTTTAATAATTATTTATATTTTAATAATTT-TAGATAAATTTT-TAACTTATATGGTTTTTAG
24875155 AA
64 AA
* * *
24875157 ATATTTAAT-ATTATTATATTATATTTAATATTTTTAAATAA
1 ATTTTTAATAATTATT-TA-TAT-TTTAATAATTTTAGATAA
24875198 TTGCTAATAA
Statistics
Matches: 87, Mismatches: 9, Indels: 15
0.78 0.08 0.14
Matches are distributed among these distances:
62 14 0.16
63 22 0.25
64 22 0.25
65 11 0.13
66 5 0.06
67 13 0.15
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (65 bp):
ATTTTTAATAATTATTTATATTTTAATAATTTTAGATAAATTTTTAACTTATATGGTTTTTAGAA
Found at i:24875567 original size:3 final size:3
Alignment explanation
Indices: 24875555--24875593 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
24875545 ACTAATCTTC
24875555 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
24875594 TGCTTTTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:24879366 original size:6 final size:6
Alignment explanation
Indices: 24879358--24879408 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
24879348 TTCGGTTTCA
* *
24879358 ATTTTA ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTCG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
24879406 ATT
1 ATT
24879409 ACAATTTTGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.20, C:0.02, G:0.14, T:0.65
Consensus pattern (6 bp):
ATTTTG
Found at i:24879484 original size:42 final size:42
Alignment explanation
Indices: 24879438--24879519 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
24879428 TAATTCTGAT
*
24879438 TTAGATTTTGATTTTAATTTCAATTTCGATCTCGATTTAGAA
1 TTAGAATTTGATTTTAATTTCAATTTCGATCTCGATTTAGAA
* * ** * *
24879480 TTAGAATTTGTTTTTTATTTTGATTTGGATTTCGATTTAG
1 TTAGAATTTGATTTTAATTTCAATTTCGATCTCGATTTAG
24879520 GGTTATTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.24, C:0.06, G:0.15, T:0.55
Consensus pattern (42 bp):
TTAGAATTTGATTTTAATTTCAATTTCGATCTCGATTTAGAA
Found at i:24879518 original size:22 final size:22
Alignment explanation
Indices: 24879492--24879544 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
24879482 AGAATTTGTT
24879492 TTTTATTTTGATTTGGATTTCGA
1 TTTTATTTT-ATTTGGATTTCGA
** *
24879515 -TTTAGGGTTATTTTGATTTCGA
1 TTTTA-TTTTATTTGGATTTCGA
24879537 TTTTATTT
1 TTTTATTT
24879545 GTTATTAATG
Statistics
Matches: 23, Mismatches: 5, Indels: 5
0.70 0.15 0.15
Matches are distributed among these distances:
22 17 0.74
23 6 0.26
ACGTcount: A:0.17, C:0.04, G:0.17, T:0.62
Consensus pattern (22 bp):
TTTTATTTTATTTGGATTTCGA
Found at i:24880049 original size:15 final size:15
Alignment explanation
Indices: 24880024--24880069 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
24880014 TGAAGAAAAC
24880024 ATGTCTAGTAGTGAT
1 ATGTCTAGTAGTGAT
* *
24880039 GTGTCTGGTAGTGAT
1 ATGTCTAGTAGTGAT
24880054 ATGTCTAGTAGTGAT
1 ATGTCTAGTAGTGAT
24880069 A
1 A
24880070 GTGATGCATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.24, C:0.07, G:0.30, T:0.39
Consensus pattern (15 bp):
ATGTCTAGTAGTGAT
Found at i:24881774 original size:40 final size:40
Alignment explanation
Indices: 24881719--24881861 Score: 232
Period size: 40 Copynumber: 3.5 Consensus size: 40
24881709 TTAGTAAATG
* * *
24881719 TTTTTTAATATGCATGCACTGATTGTTGGCGTGTTGACTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
24881759 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
*
24881799 TTTTTTAATATGCATGCAGTGATTGTTGATGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
*
24881839 TTTTTTTAATATGTATGCAGTGA
1 -TTTTTTAATATGCATGCAGTGA
24881862 CTATTTTTTT
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
40 76 0.78
41 21 0.22
ACGTcount: A:0.20, C:0.10, G:0.22, T:0.48
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGTTGGTGTGTTGCCTA
Found at i:24882326 original size:20 final size:20
Alignment explanation
Indices: 24882301--24882340 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24882291 GGGGCACACA
*
24882301 CCCGTGTAGTCTGGGACATG
1 CCCGTGTAGCCTGGGACATG
*
24882321 CCCGTGTGGCCTGGGACATG
1 CCCGTGTAGCCTGGGACATG
24882341 GCCATGAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (20 bp):
CCCGTGTAGCCTGGGACATG
Found at i:24884095 original size:3 final size:3
Alignment explanation
Indices: 24884087--24884141 Score: 51
Period size: 3 Copynumber: 18.3 Consensus size: 3
24884077 TTCTTTATTC
* *
24884087 TAT TAT TAT TAT AACA TAT ATAT TAT TA- TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TA-T TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
24884132 AAT TAT TAT T
1 TAT TAT TAT T
24884142 TTTTATTTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 4 0.10
3 34 0.81
4 4 0.10
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:24884118 original size:8 final size:8
Alignment explanation
Indices: 24884090--24884140 Score: 66
Period size: 8 Copynumber: 6.1 Consensus size: 8
24884080 TTTATTCTAT
24884090 TATTATTA
1 TATTATTA
**
24884098 TAACATATA
1 TATTAT-TA
24884107 TATTATTA
1 TATTATTA
24884115 TATTATTA
1 TATTATTA
24884123 TATTATTA
1 TATTATTA
24884131 TAATTATTA
1 T-ATTATTA
24884140 T
1 T
24884141 TTTTTATTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
8 23 0.62
9 14 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (8 bp):
TATTATTA
Found at i:24885888 original size:38 final size:38
Alignment explanation
Indices: 24885837--24885960 Score: 171
Period size: 38 Copynumber: 3.3 Consensus size: 38
24885827 GTTAGCCATG
24885837 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
1 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
* *
24885875 TATACCAGCAACCATGTATAACATATGTTAAGCAACAG
1 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
* * *
24885913 TATACCAGCAGCCATGTATACCA-ACA-TAAGCAACAA
1 TATACCAGCAACCATGTATAACATATATTAAGCAACAA
* *
24885949 TTTACTAGCAAC
1 TATACCAGCAAC
24885961 AAAATTACAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
36 18 0.24
37 1 0.01
38 57 0.75
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (38 bp):
TATACCAGCAACCATGTATAACATATATTAAGCAACAA
Found at i:24887010 original size:39 final size:41
Alignment explanation
Indices: 24886966--24887166 Score: 189
Period size: 41 Copynumber: 5.0 Consensus size: 41
24886956 ATTTAAAATA
* * * *
24886966 CAGAGCAATAACGGCGTTTTACAAAAAACG-CTCTAAAAA-
1 CAGAGCAATAGCGGCGTTTTAGATAAAACGCCACTAAAAAC
* * *
24887005 CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAAC
1 CAGAGCAATAGCGGCGTTTTAGATAAAACGCCACTAAAAAC
* *
24887046 CAGAGCAGTAGCGGCGCTTTT-GATAAAACGCCGCTAAAAAC
1 CAGAGCAATAGCGGCG-TTTTAGATAAAACGCCACTAAAAAC
* ** *
24887087 CAGAGCATTAGTTGCGCTTTT-GGTAAAACGCCACTAAAAAC
1 CAGAGCAATAGCGGCG-TTTTAGATAAAACGCCACTAAAAAC
* *
24887128 CAG-GGAATTAGCGGCGCTTTTAG-TAAAACGCCGCTAAAA
1 CAGAGCAA-TAGCGGCG-TTTTAGATAAAACGCCACTAAAA
24887167 GTCATATAAC
Statistics
Matches: 136, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 24 0.18
40 10 0.07
41 98 0.72
42 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (41 bp):
CAGAGCAATAGCGGCGTTTTAGATAAAACGCCACTAAAAAC
Found at i:24887058 original size:41 final size:41
Alignment explanation
Indices: 24886990--24887166 Score: 225
Period size: 41 Copynumber: 4.4 Consensus size: 41
24886980 CGTTTTACAA
*
24886990 AAAACG-CTCTAAAAA-CAGAGCATTAGCGGCGCTTTAGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* * *
24887029 AAAACGCCACTAAAAACCAGAGCAGTAGCGGCGCTTTTGAT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* ** *
24887070 AAAACGCCGCTAAAAACCAGAGCATTAGTTGCGCTTTTGGT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
* *
24887111 AAAACGCCACTAAAAACCAGGGAATTAGCGGCGCTTTTA-GT
1 AAAACGCCACTAAAAACCAGAGCATTAGCGGCGC-TTTAGGT
*
24887152 AAAACGCCGCTAAAA
1 AAAACGCCACTAAAA
24887167 GTCATATAAC
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
39 6 0.05
40 8 0.07
41 102 0.86
42 3 0.03
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (41 bp):
AAAACGCCACTAAAAACCAGAGCATTAGCGGCGCTTTAGGT
Found at i:24887113 original size:82 final size:81
Alignment explanation
Indices: 24886990--24887166 Score: 259
Period size: 82 Copynumber: 2.2 Consensus size: 81
24886980 CGTTTTACAA
* *
24886990 AAAACG-CTCTAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGCAG
1 AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGAAG
24887054 TAGCGGCGCTTTT-GAT
66 TAGCGGCGCTTTTAG-T
** * *
24887070 AAAACGCCGCTAAAAACCAGAGCATTAGTTGCGCTTTTGGTAAAACGCCACTAAAAACCAGGGAA
1 AAAACGCCGCTAAAAA-CAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGAA
*
24887135 TTAGCGGCGCTTTTAGT
65 GTAGCGGCGCTTTTAGT
24887152 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
24887167 GTCATATAAC
Statistics
Matches: 87, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
80 6 0.07
81 8 0.09
82 72 0.83
83 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (81 bp):
AAAACGCCGCTAAAAACAGAGCATTAGCGGCGCTTTAGGTAAAACGCCACTAAAAACCAGAGAAG
TAGCGGCGCTTTTAGT
Found at i:24887346 original size:14 final size:14
Alignment explanation
Indices: 24887324--24887368 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
24887314 TTAATTATCA
*
24887324 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
24887338 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* *
24887352 ATATGGTTTAGGGT
1 TTATGGTTTAAGGT
24887366 TTA
1 TTA
24887369 AGCAGGTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:24887359 original size:21 final size:21
Alignment explanation
Indices: 24887335--24887419 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 21
24887325 TATAGTTTAA
*
24887335 GGTTTATGGTTTAAGATATAT
1 GGTTTAGGGTTTAAGATATAT
*
24887356 GGTTTAGGGTTTAAGCAGGTTTAT
1 GGTTTAGGGTTTAAG-A--TATAT
* *
24887380 GAGTTAATTATGGTTTAAGATATAA
1 G-G-T--TTAGGGTTTAAGATATAT
24887405 GGTTTAGGGTTTAAG
1 GGTTTAGGGTTTAAG
24887420 GTTTAGGAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
21 25 0.49
22 1 0.02
23 1 0.02
24 6 0.12
25 5 0.10
26 1 0.02
27 1 0.02
28 11 0.22
ACGTcount: A:0.28, C:0.01, G:0.28, T:0.42
Consensus pattern (21 bp):
GGTTTAGGGTTTAAGATATAT
Found at i:24887902 original size:8 final size:8
Alignment explanation
Indices: 24887889--24887917 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
24887879 TTATGTTTAG
24887889 TATATTAT
1 TATATTAT
24887897 TATATTAT
1 TATATTAT
24887905 TATATTAT
1 TATATTAT
24887913 TATAT
1 TATAT
24887918 AATAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:24889241 original size:15 final size:15
Alignment explanation
Indices: 24889221--24889277 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
24889211 CGATGAATTT
24889221 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
24889236 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
24889251 ATTGAATTTATATTG
1 ATTGAATTTATATTG
24889266 ATTGAA-TTATAT
1 ATTGAATTTATAT
24889278 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:24889679 original size:23 final size:23
Alignment explanation
Indices: 24889649--24889735 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
24889639 GCTTTATCGA
* *
24889649 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
24889672 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
24889693 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
24889715 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
24889736 ACTGATCGGT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:24895193 original size:43 final size:43
Alignment explanation
Indices: 24895060--24895179 Score: 195
Period size: 43 Copynumber: 2.8 Consensus size: 43
24895050 TTTCATGATC
* *
24895060 TTTAGCGGCGTTTGTGGGAAAAGTGCCGTTAAAGGTCGCGGCT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGCGGCT
* *
24895103 TTTAGCGGCGTTTGTGAGAAAAGCGCAGCTAAAGGTCGCGGCT
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGCGGCT
*
24895146 TTTAGAGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
24895180 AATATGACTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.25
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCGCGGCT
Found at i:24899194 original size:31 final size:31
Alignment explanation
Indices: 24899159--24899221 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
24899149 TTAATGTATT
* *
24899159 AATATATATGTAAAAATTTAATTGTGGTTTA
1 AATATACATGTAAAAATTTAATTGTGATTTA
* *
24899190 AATATACATTTAAAAATTTAATTTTGATTTA
1 AATATACATGTAAAAATTTAATTGTGATTTA
24899221 A
1 A
24899222 TCATACACAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (31 bp):
AATATACATGTAAAAATTTAATTGTGATTTA
Found at i:24899237 original size:33 final size:31
Alignment explanation
Indices: 24899169--24899238 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
24899159 AATATATATG
* *
24899169 TAAAAATTTAATTGTGGTTTAAATATACATT
1 TAAAAATTTAATTGTGATTTAAATACACATT
*
24899200 TAAAAATTTAATTTTGATTTAATCATACACATT
1 TAAAAATTTAATTGTGATTTAA--ATACACATT
24899233 TAAAAA
1 TAAAAA
24899239 AATAAATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 20 0.59
33 14 0.41
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.43
Consensus pattern (31 bp):
TAAAAATTTAATTGTGATTTAAATACACATT
Found at i:24901425 original size:4 final size:4
Alignment explanation
Indices: 24901418--24901462 Score: 81
Period size: 4 Copynumber: 11.2 Consensus size: 4
24901408 ACATACATAC
*
24901418 GTAT GTAT GTAT GTAT TTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
24901463 AGATACATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 39 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
GTAT
Found at i:24904375 original size:133 final size:132
Alignment explanation
Indices: 24904226--24904596 Score: 324
Period size: 131 Copynumber: 2.8 Consensus size: 132
24904216 CTTATTTTTT
* * ** * * *
24904226 AGAGTTTTTAAGAAACATGAGGGAAATTCTAAAGGGGATGTTCGATTATTTTGAACTAAC-AGGA
1 AGAGTTTTTAAGAAACATAAGGGAAATTC-AAAAGGGACCTTCAACTATTTTGAACAAACGA-GA
* ** *
24904290 AATTGCAAACCAGCATGATAGGGTACGATTCCCCAAATTGCCAAACATCGAACATTATCTTCGTT
64 AATTCCAAACCAGCACAATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTATCTTCGTT
24904355 TTGG
129 TTGG
*
24904359 AGAGTTTTT-AGAAAACATAAGTGAAATTCAAAAGGGACCTTCAACTATTTTGAACAAACGAGAA
1 AGAGTTTTTAAG-AAACATAAGGGAAATTCAAAAGGGACCTTCAACTATTTTGAACAAACGAGAA
* * * * * * ***
24904423 ATTCCAACCCAGCACAATAGGGCACGATTCCGCGAATTGTCAAATATTGAACATCGCCTTCG-TT
65 ATTCCAAACCAGCACAATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTATCTTCGTTT
**
24904487 TAA
130 TGG
* * * * *
24904490 AG-GATTTTTAA-AAGACAT-AGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAG
1 AGAG-TTTTTAAGAA-ACATAAGG-GAAATTCAAAAGGGACCTTCAACTATTTTGAACAAACGAG
* * * * * *
24904552 AAATTACAACCCAACACATTATGGCACGA-TCCCGCGAATTGCCAA
63 AAATTCCAAACCAGCACAATAGGGCACGATTCCC-CAAATTGCCAA
24904597 GTATCGAATA
Statistics
Matches: 196, Mismatches: 35, Indels: 16
0.79 0.14 0.06
Matches are distributed among these distances:
130 8 0.04
131 84 0.43
132 79 0.40
133 25 0.13
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (132 bp):
AGAGTTTTTAAGAAACATAAGGGAAATTCAAAAGGGACCTTCAACTATTTTGAACAAACGAGAAA
TTCCAAACCAGCACAATAGGGCACGATTCCCCAAATTGCCAAACATCGAACATTATCTTCGTTTT
GG
Found at i:24904551 original size:131 final size:131
Alignment explanation
Indices: 24904230--24904765 Score: 558
Period size: 132 Copynumber: 4.1 Consensus size: 131
24904220 TTTTTTAGAG
** * *
24904230 TTTTTAAGAAACATGAGG-GAAATTCTAAAGGGGATGTTCGATTATTTTGAACTAAC-AGGAAAT
1 TTTTTAA-AAACAT-AGGTGAAATTCTAAA-GGGACCTTCGATTACTTTGAACAAACGA-GAAAT
* * ** * * * * *** *
24904293 TGCAAACCAGCATGATAGGGTACGATTCCCCAAATTGCCAAACATCGAACATTATCTTCGTTTTG
62 TGCAACCCAACACAATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTA
*
24904358 GA-GA
127 AAGGA
* * * * * *
24904362 GTTTTTAGAAAACATAAGTGAAATTCAAAAGGGACCTTCAACTATTTTGAACAAACGAGAAATTC
1 -TTTTTA-AAAACATAGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAACAAACGAGAAATTG
* * *
24904427 CAACCCAGCACAATAGGGCACGATTCCGCGAATTGTCAAATATTGAACATCGCCTTCG-TTTAAA
64 CAACCCAACACAATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAA
24904491 GGA
129 GGA
* *
24904494 TTTTTAAAAGACATAGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGAAATTAC
1 TTTTTAAAA-ACATAGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAACAAACGAGAAATTGC
* * * * * *
24904559 AACCCAACACATTATGGCACGATCCCGCGAATTGCCAAGTATCGAATATCGCCTCCGTTTTAAAG
65 AACCCAACACAATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAG
24904624 GA
130 GA
* * * **
24904626 TTTATAAAAGACATGGGTGAAATTCTAAAGGGATCTTCGATTACTTTGGGCAAACGAGAAATTGC
1 TTTTTAAAA-ACATAGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAACAAACGAGAAATTGC
** * * *
24904691 AACCCAACACGTTAGGGCACGATTCCTCGAATTGCCAAATATCGGATATCGCCTTCGTTTTAAAG
65 AACCCAACACAATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAG
*
24904756 AA
130 GA
*
24904758 TTCTTAAA
1 TTTTTAAA
24904766 TAATTGTGAA
Statistics
Matches: 344, Mismatches: 53, Indels: 13
0.84 0.13 0.03
Matches are distributed among these distances:
130 3 0.01
131 106 0.31
132 211 0.61
133 23 0.07
134 1 0.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (131 bp):
TTTTTAAAAACATAGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAACAAACGAGAAATTGCA
ACCCAACACAATAGGGCACGATTCCGCGAATTGCCAAATATCGAACATCGCCTTCGTTTTAAAGG
A
Found at i:24905196 original size:32 final size:32
Alignment explanation
Indices: 24905180--24905243 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
24905170 AACGTGGTAT
24905180 ACAACTGGTTTGAAATAATAAATAACACGTAA
1 ACAACTGGTTTGAAATAATAAATAACACGTAA
24905212 ACAACTGGTTTGAAATAATAAATAACACGTAA
1 ACAACTGGTTTGAAATAATAAATAACACGTAA
24905244 TGTATAATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (32 bp):
ACAACTGGTTTGAAATAATAAATAACACGTAA
Found at i:24905201 original size:35 final size:32
Alignment explanation
Indices: 24905161--24905243 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
24905151 AATAAAATAA
*
24905161 AATAAAGAAAACGTGGTATACAACTGGTTTGAAAT
1 AATAAAGAAAAC---GTAAACAACTGGTTTGAAAT
* *
24905196 AATAAATAACACGTAAACAACTGGTTTGAAAT
1 AATAAAGAAAACGTAAACAACTGGTTTGAAAT
* *
24905228 AATAAATAACACGTAA
1 AATAAAGAAAACGTAA
24905244 TGTATAATGC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
32 35 0.78
35 10 0.22
ACGTcount: A:0.51, C:0.11, G:0.14, T:0.24
Consensus pattern (32 bp):
AATAAAGAAAACGTAAACAACTGGTTTGAAAT
Found at i:24906163 original size:33 final size:33
Alignment explanation
Indices: 24906121--24906188 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
24906111 ATTAATCACA
24906121 AAGTCCATAAGTATAATAGTATATGAGAATATT
1 AAGTCCATAAGTATAATAGTATATGAGAATATT
24906154 AAGTCCATAAGTATAATAGTATATGAGAATATT
1 AAGTCCATAAGTATAATAGTATATGAGAATATT
24906187 AA
1 AA
24906189 AATAAAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.47, C:0.06, G:0.15, T:0.32
Consensus pattern (33 bp):
AAGTCCATAAGTATAATAGTATATGAGAATATT
Found at i:24907084 original size:13 final size:15
Alignment explanation
Indices: 24907059--24907098 Score: 66
Period size: 13 Copynumber: 2.8 Consensus size: 15
24907049 TATTTTATTA
24907059 AATAAATATTAAATT
1 AATAAATATTAAATT
24907074 AA-AAA-ATTAAATT
1 AATAAATATTAAATT
24907087 AATAAATATTAA
1 AATAAATATTAA
24907099 TCGATTCACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.43
14 6 0.26
15 7 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAAATATTAAATT
Found at i:24911386 original size:20 final size:20
Alignment explanation
Indices: 24911361--24911400 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
24911351 AATATGGGTA
* *
24911361 AATTATATAGATATTCATTT
1 AATTATATAAAAATTCATTT
24911381 AATTATATAAAAATTCATTT
1 AATTATATAAAAATTCATTT
24911401 TTGGCAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
AATTATATAAAAATTCATTT
Found at i:24912751 original size:12 final size:13
Alignment explanation
Indices: 24912734--24912762 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
24912724 GTTAAGATTG
24912734 ATTTAATAT-TTA
1 ATTTAATATATTA
24912746 ATTTAATATATTA
1 ATTTAATATATTA
24912759 ATTT
1 ATTT
24912763 TGATTTGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTTAATATATTA
Found at i:24912794 original size:30 final size:31
Alignment explanation
Indices: 24912758--24912823 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
24912748 TTAATATATT
24912758 AATTTTGATT-TGGTGT-AATTGTACACATTA
1 AATTTTGATTATGGT-TCAATTGTACACATTA
* *
24912788 AATTTTGATTATGGTTCAATTGTATACATTT
1 AATTTTGATTATGGTTCAATTGTACACATTA
24912819 AATTT
1 AATTT
24912824 AATAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 11 0.34
31 21 0.66
ACGTcount: A:0.30, C:0.06, G:0.14, T:0.50
Consensus pattern (31 bp):
AATTTTGATTATGGTTCAATTGTACACATTA
Found at i:24913447 original size:11 final size:11
Alignment explanation
Indices: 24913433--24913460 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24913423 TTTTTTTGAA
24913433 TTTTTAATAAT
1 TTTTTAATAAT
24913444 TTTTTAATAAT
1 TTTTTAATAAT
24913455 TTTTTA
1 TTTTTA
24913461 TGTGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTAATAAT
Found at i:24917208 original size:36 final size:36
Alignment explanation
Indices: 24917123--24917196 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
24917113 TTAAATTTAA
24917123 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
1 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
24917159 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
1 ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
24917195 AT
1 AT
24917197 AGTATCAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.58, C:0.08, G:0.03, T:0.31
Consensus pattern (36 bp):
ATTCAAAATATAAATAAATGTAATAAACTTTAAAAC
Found at i:24923051 original size:42 final size:42
Alignment explanation
Indices: 24922968--24923053 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
24922958 GAAGCTAAAT
*
24922968 TAGATCCAAAAAACTAAGCTTGCAAGGAAAATAGTGTTTGTA
1 TAGATCCAAAAAACTAAGCTTGCAAGGAAAATACTGTTTGTA
* *
24923010 TAGATCCAGAAAATTATAG-TTGCAAGGAAAATACTAG-TTGTA
1 TAGATCCAAAAAACTA-AGCTTGCAAGGAAAATACT-GTTTGTA
24923052 TA
1 TA
24923054 AACCCTGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 36 0.92
43 3 0.08
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (42 bp):
TAGATCCAAAAAACTAAGCTTGCAAGGAAAATACTGTTTGTA
Found at i:24925410 original size:17 final size:17
Alignment explanation
Indices: 24925390--24925429 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
24925380 AAAATATTTT
24925390 AATATAATTTAATATAA
1 AATATAATTTAATATAA
24925407 AATAT--TTTAATATAA
1 AATATAATTTAATATAA
24925422 AA-ATAATT
1 AATATAATT
24925430 ATATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.10
15 12 0.57
16 2 0.10
17 5 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATATAATTTAATATAA
Found at i:24925426 original size:16 final size:15
Alignment explanation
Indices: 24925379--24925423 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
24925369 ATAAAATATT
24925379 TAAAATATTTTAATA
1 TAAAATATTTTAATA
24925394 T---A-A-TTTAATA
1 TAAAATATTTTAATA
24925404 TAAAATATTTTAATA
1 TAAAATATTTTAATA
24925419 TAAAA
1 TAAAA
24925424 ATAATTATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
10 8 0.32
11 1 0.04
12 1 0.04
13 1 0.04
14 1 0.04
15 13 0.52
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAATATTTTAATA
Found at i:24925479 original size:11 final size:10
Alignment explanation
Indices: 24925426--24925492 Score: 59
Period size: 11 Copynumber: 6.6 Consensus size: 10
24925416 ATATAAAAAT
24925426 AATTATATTAA
1 AATTATATT-A
*
24925437 AAATACTATTA
1 AATTA-TATTA
24925448 AATTATA-T-
1 AATTATATTA
24925456 -ATTATTATTA
1 AATTA-TATTA
24925466 AATTATATTA
1 AATTATATTA
*
24925476 AAATATGATTA
1 AATTAT-ATTA
24925487 AATTAT
1 AATTAT
24925493 TTATTTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
7 4 0.09
8 2 0.04
9 2 0.04
10 12 0.26
11 22 0.48
12 4 0.09
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (10 bp):
AATTATATTA
Found at i:24925489 original size:39 final size:41
Alignment explanation
Indices: 24925426--24925511 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
24925416 ATATAAAAAT
24925426 AATTATATTAAAAATACTATTAAATTATATA-TTATTATTA
1 AATTATATTAAAAATACTATTAAATTATATATTTATTATTA
* *
24925466 AATTATATT-AAAATA-TGATTAAATTATTTATTTTTTATTA
1 AATTATATTAAAAATACT-ATTAAATTATATATTTATTATTA
*
24925506 ACTTAT
1 AATTAT
24925512 TTTTAATAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 18 0.44
40 22 0.54
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.51
Consensus pattern (41 bp):
AATTATATTAAAAATACTATTAAATTATATATTTATTATTA
Found at i:24925730 original size:16 final size:16
Alignment explanation
Indices: 24925709--24925748 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
24925699 TGAATTACTG
* *
24925709 ATTACAGCTCTATTCC
1 ATTACAACTATATTCC
*
24925725 ATTACAACTATATTTC
1 ATTACAACTATATTCC
24925741 ATTACAAC
1 ATTACAAC
24925749 GAACCAAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.38
Consensus pattern (16 bp):
ATTACAACTATATTCC
Found at i:24926211 original size:21 final size:20
Alignment explanation
Indices: 24926177--24926215 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24926167 AAGGGTTTTT
24926177 TTTTGGTTAATTTACAAATAA
1 TTTTGGTTAATTTA-AAATAA
**
24926198 TTTTGGTTTTTTTAAAAT
1 TTTTGGTTAATTTAAAAT
24926216 GAAACAAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (20 bp):
TTTTGGTTAATTTAAAATAA
Found at i:24926664 original size:30 final size:27
Alignment explanation
Indices: 24926601--24926665 Score: 76
Period size: 30 Copynumber: 2.3 Consensus size: 27
24926591 TTTTTTATTT
*
24926601 ATATTATAAAAATATTATTTAATTAAA
1 ATATTATAAAAATATTATTAAATTAAA
* *
24926628 ATATTATAAATTATATTAATTAAAGTTAAG
1 ATATTATAAA-AATATT-ATTAAA-TTAAA
24926658 ATATTATA
1 ATATTATA
24926666 TTATAGGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 10 0.31
28 5 0.16
29 5 0.16
30 12 0.38
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (27 bp):
ATATTATAAAAATATTATTAAATTAAA
Found at i:24926862 original size:9 final size:9
Alignment explanation
Indices: 24926817--24926864 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
24926807 TATTAGAGTG
24926817 TATT-ATTA
1 TATTAATTA
24926825 TTATTAATT-
1 -TATTAATTA
24926834 TATTAATT-
1 TATTAATTA
24926842 TA-TAATTTA
1 TATTAA-TTA
24926851 TATTAATTA
1 TATTAATTA
24926860 TATTA
1 TATTA
24926865 TGAGATTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 3 0.09
8 12 0.34
9 14 0.40
10 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TATTAATTA
Found at i:24927098 original size:31 final size:31
Alignment explanation
Indices: 24927027--24927099 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 31
24927017 ATTAGAAAAT
* * *
24927027 AGATATTTATTAATTATTATTATTAAGTTAA
1 AGATATTTATTAATTATAATAATTAAATTAA
*
24927058 AAATATTTATTAATTA-AATAATTAAATTATA
1 AGATATTTATTAATTATAATAATTAAATTA-A
*
24927089 AGATTTTTATT
1 AGATATTTATT
24927100 TGATAAACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 10 0.29
31 25 0.71
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (31 bp):
AGATATTTATTAATTATAATAATTAAATTAA
Found at i:24927794 original size:23 final size:22
Alignment explanation
Indices: 24927767--24927829 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
24927757 TTTGCCAATT
24927767 AGGCACTTTATGTGTCGTATTTC
1 AGGCAC-TTATGTGTCGTATTTC
**
24927790 AGGCACCTCGTGTGTCG--TTTC
1 AGGCA-CTTATGTGTCGTATTTC
24927811 AGGCACTTATGTGTCGTAT
1 AGGCACTTATGTGTCGTAT
24927830 ACTGATCAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 9 0.27
21 9 0.27
22 1 0.03
23 13 0.39
24 1 0.03
ACGTcount: A:0.16, C:0.21, G:0.25, T:0.38
Consensus pattern (22 bp):
AGGCACTTATGTGTCGTATTTC
Found at i:24937226 original size:46 final size:46
Alignment explanation
Indices: 24937159--24937250 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
24937149 CACTACTCAC
* *
24937159 TGATCAGGTAGCCGGAGCTACCATTTTTCACTAATCAAGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
* * *
24937205 TGATCAGGTAGCCGAAGCTACCACTTTTCATTGATCAGGTAGCCGA
1 TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
24937251 AGCTACCACT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.26
Consensus pattern (46 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCACTAATCAAGTAGCCGA
Found at i:24937243 original size:31 final size:31
Alignment explanation
Indices: 24937205--24937263 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
24937195 AAGTAGCCGA
24937205 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
1 TGATCAGGTAGCCGAAGCTACCACTTTTCAT
24937236 TGATCAGGTAGCCGAAGCTACCACTTTT
1 TGATCAGGTAGCCGAAGCTACCACTTTT
24937264 TACTTGCCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.29
Consensus pattern (31 bp):
TGATCAGGTAGCCGAAGCTACCACTTTTCAT
Found at i:24937344 original size:50 final size:50
Alignment explanation
Indices: 24937243--24937469 Score: 355
Period size: 50 Copynumber: 4.5 Consensus size: 50
24937233 CATTGATCAG
* * * * *
24937243 GTAGCCGAAGCTACCACTTTTTACTTGCCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* * *
24937294 GTAGCTGAAGCTATCACTTATCACTTTCACTTATCCTTGATCAAATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
24937344 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
*
24937394 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCATTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
24937444 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
24937470 GTTGCCATGG
Statistics
Matches: 162, Mismatches: 14, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
50 140 0.86
51 22 0.14
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:24941914 original size:8 final size:8
Alignment explanation
Indices: 24941896--24941945 Score: 55
Period size: 9 Copynumber: 5.8 Consensus size: 8
24941886 ATTATTAGAG
24941896 TTTATTAAT
1 TTTA-TAAT
24941905 TTTATAATT
1 TTTATAA-T
*
24941914 TATTATATT
1 T-TTATAAT
24941923 TTTATAAT
1 TTTATAAT
24941931 TTTAATAAT
1 TTT-ATAAT
24941940 TTTATA
1 TTTATA
24941946 TAAATTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
8 15 0.42
9 16 0.44
10 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTATAAT
Found at i:24941932 original size:9 final size:9
Alignment explanation
Indices: 24941904--24941964 Score: 63
Period size: 9 Copynumber: 6.7 Consensus size: 9
24941894 AGTTTATTAA
24941904 TTTTATAAT
1 TTTTATAAT
24941913 TTATTAT-AT
1 TT-TTATAAT
24941922 TTTTATAAT
1 TTTTATAAT
*
24941931 TTTAATAAT
1 TTTTATAAT
*
24941940 TTTATATAAA
1 TTT-TATAAT
24941950 TTTTA-ACAT
1 TTTTATA-AT
24941959 TTTTAT
1 TTTTAT
24941965 TATATTTTTC
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
8 5 0.12
9 27 0.63
10 11 0.26
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24941953 original size:11 final size:10
Alignment explanation
Indices: 24941896--24941954 Score: 51
Period size: 9 Copynumber: 6.4 Consensus size: 10
24941886 ATTATTAGAG
24941896 TTTAT-TAA-
1 TTTATATAAT
24941904 TTT-TATAA-
1 TTTATATAAT
24941912 TTTAT-TATAT
1 TTTATATA-AT
24941922 TTT-TATAAT
1 TTTATATAAT
24941931 TTTA-ATAAT
1 TTTATATAAT
24941940 TTTATATAAAT
1 TTTATAT-AAT
24941951 TTTA
1 TTTA
24941955 ACATTTTTAT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
7 1 0.02
8 11 0.26
9 17 0.40
10 7 0.16
11 7 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTATATAAT
Found at i:24941971 original size:19 final size:18
Alignment explanation
Indices: 24941920--24941972 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
24941910 AATTTATTAT
*
24941920 ATTTTTA-TAATTTTAATA
1 ATTTTTATTAATTTTAA-C
*
24941938 ATTTTATATAAATTTTAAC
1 ATTTT-TATTAATTTTAAC
24941957 ATTTTTATTATATTTT
1 ATTTTTATTA-ATTTT
24941973 TCTGTTTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 9 0.31
19 12 0.41
20 8 0.28
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
ATTTTTATTAATTTTAAC
Found at i:24942171 original size:27 final size:30
Alignment explanation
Indices: 24942110--24942176 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 30
24942100 AAAAAATTTT
*
24942110 AATTAATTATTTTAATTAACTATAAAAACTT
1 AATTAATTATTTTAATTAAC-ATAAAAACTG
*
24942141 AATTAATTATTTTAATT-A-ATAACAA-TG
1 AATTAATTATTTTAATTAACATAAAAACTG
24942168 AATTAATTA
1 AATTAATTA
24942177 GACGTGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 10 0.29
28 6 0.18
30 1 0.03
31 17 0.50
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
AATTAATTATTTTAATTAACATAAAAACTG
Found at i:24943817 original size:3 final size:3
Alignment explanation
Indices: 24943809--24943848 Score: 53
Period size: 3 Copynumber: 13.0 Consensus size: 3
24943799 TATTTTAATT
* *
24943809 TTA TTA TTA TTA TTA TTA TTA TCA TCA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
24943849 GTGTATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:24944150 original size:15 final size:15
Alignment explanation
Indices: 24944131--24944166 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24944121 ATTATCTCTA
24944131 ATATATGTATATATT
1 ATATATGTATATATT
* *
24944146 GTATATGTTTATATT
1 ATATATGTATATATT
24944161 ATATAT
1 ATATAT
24944167 ATATTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:24949685 original size:19 final size:18
Alignment explanation
Indices: 24949661--24949708 Score: 78
Period size: 19 Copynumber: 2.6 Consensus size: 18
24949651 ACGTAAAAAG
24949661 TAAAAAGTAAAAGATGAAA
1 TAAAAA-TAAAAGATGAAA
24949680 TAAAAATAAAAAGATGAAA
1 TAAAAAT-AAAAGATGAAA
24949699 TAAAAATAAA
1 TAAAAATAAA
24949709 TAACAAAATG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.73, C:0.00, G:0.10, T:0.17
Consensus pattern (18 bp):
TAAAAATAAAAGATGAAA
Found at i:24950628 original size:16 final size:16
Alignment explanation
Indices: 24950598--24950645 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 16
24950588 GAAAATTAAT
24950598 ATAAAATCT-AAAAT-A
1 ATAAAAT-TAAAAATAA
24950613 ATAATAATTAAAAATAA
1 ATAA-AATTAAAAATAA
24950630 ATAAAATT-AAAATAA
1 ATAAAATTAAAAATAA
24950645 A
1 A
24950646 CTTAAAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
15 13 0.43
16 12 0.40
17 5 0.17
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (16 bp):
ATAAAATTAAAAATAA
Found at i:24950644 original size:11 final size:11
Alignment explanation
Indices: 24950589--24950659 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
24950579 ATAGCTTAAG
*
24950589 AAAATTAATAT
1 AAAATTAAAAT
24950600 AAAATCTAAAAT
1 AAAAT-TAAAAT
*
24950612 AATAA-T-AATT
1 AA-AATTAAAAT
*
24950622 AAAAAT-AAAT
1 AAAATTAAAAT
24950632 AAAATTAAAAT
1 AAAATTAAAAT
*
24950643 AAACTTAAAAT
1 AAAATTAAAAT
*
24950654 AGAATT
1 AAAATT
24950660 TCCTATTTTT
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 2 0.04
10 14 0.29
11 24 0.49
12 7 0.14
13 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (11 bp):
AAAATTAAAAT
Found at i:24971764 original size:53 final size:53
Alignment explanation
Indices: 24971698--24971804 Score: 171
Period size: 53 Copynumber: 2.0 Consensus size: 53
24971688 CCAATTTCTG
*
24971698 TTTTAATTTATGTTTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
1 TTTTAATTCATG-TTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
* *
24971751 TTTTAATTCATGTTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCC
1 TTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
24971804 T
1 T
24971805 CATGACACGC
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
52 5 0.10
53 45 0.90
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (53 bp):
TTTTAATTCATGTTTTCAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCC
Found at i:24971848 original size:139 final size:135
Alignment explanation
Indices: 24971575--24971891 Score: 433
Period size: 139 Copynumber: 2.3 Consensus size: 135
24971565 TTTATTTCTG
* * *
24971575 TTTTCAAAAATCGATTCATATTCCGAGAGGTGAGTTGAGCCTTTTAATTTTTTTAAAAATCAACT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTTTAAAAATCAACT
* * *
24971640 CATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTCCAATTTCTGTTTTAAT
66 CATATTGCGAGAGGTGAGTTGAGCCTC-GATCACACGCTGAGGTATTTCCAATTTCTGTTTTAAG
*
24971705 TTATGT
130 TTATGC
*
24971711 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTTTTAATTCATGTTTTCAAAAATC
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATT--T-TTTT-AAAAATC
* * *
24971775 AACTCATATTGCGAGGGGTGAGTTGAGCCTC-ATGACACGCTGAGGTATTTTCAATTTCCAT-TT
62 AACTCATATTGCGAGAGGTGAGTTGAGCCTCGATCACACGCTGAGGTATTTCCAATTT-C-TGTT
24971838 TTCAAGTTATGC
125 TT-AAGTTATGC
*
24971850 TTTTCAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
24971892 CAGGGCACGC
Statistics
Matches: 160, Mismatches: 13, Indels: 12
0.86 0.07 0.06
Matches are distributed among these distances:
135 39 0.24
136 5 0.03
137 23 0.14
138 9 0.06
139 50 0.31
140 34 0.21
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (135 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTTTTTAAAAATCAACT
CATATTGCGAGAGGTGAGTTGAGCCTCGATCACACGCTGAGGTATTTCCAATTTCTGTTTTAAGT
TATGC
Found at i:24971910 original size:87 final size:87
Alignment explanation
Indices: 24971763--24972020 Score: 327
Period size: 93 Copynumber: 2.9 Consensus size: 87
24971753 TTAATTCATG
* * *
24971763 TTTTCAAAAATCAACTCATATTGCGAGGGGTGAGTTGAGCCTCATGACACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
* *
24971828 ATTTCCATTTTTCAAGTTATGC
66 ATTTCTATTTTTCAAGTTATAC
* *
24971850 TTTTCAAAAATCAACTCATATTGCGAGACGTGAGTTGAGCCTCAGGGCACGCTGATGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
* * *
24971915 ATTTCTGTTTTTTTTTTTCAATTTATAT
66 ATTTC------TATTTTTCAAGTTATAC
* * * *
24971943 TTTTCAAAAATCAACTTAGATTGCGAGAGGTGAGTTGGGCCTCGGGGCACGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
*
24972008 AATTCTATTTTTC
66 ATTTCTATTTTTC
24972021 CAAAATCAAC
Statistics
Matches: 147, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
87 72 0.49
93 75 0.51
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (87 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGGTATTTTCA
ATTTCTATTTTTCAAGTTATAC
Found at i:24971945 original size:20 final size:20
Alignment explanation
Indices: 24971909--24971946 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
24971899 CGCTGATGTA
* *
24971909 TTTTCAATTTCTGTTTTTTT
1 TTTTCAATTTATATTTTTTT
24971929 TTTTCAATTTATATTTTT
1 TTTTCAATTTATATTTTT
24971947 CAAAAATCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
TTTTCAATTTATATTTTTTT
Found at i:24972058 original size:73 final size:73
Alignment explanation
Indices: 24971929--24972095 Score: 226
Period size: 73 Copynumber: 2.3 Consensus size: 73
24971919 CTGTTTTTTT
* * * * *
24971929 TTTTCAATTTATATTTTTCAAAAATCAACTTAGATTGCGAGAGGTGAGTTGGGCCTCGGGGCACG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCAGATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
24971994 CTGAGGTA
66 CTGAGGTA
* * * * *
24972002 TTTTCAAATTCTATTTTTCCAAAATCAACTCATATTGTGAGAGGTGGGTTGAGCCTCAGGACACG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCAGATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
24972067 CTGAGGTA
66 CTGAGGTA
* *
24972075 ATTTCAATTTCTGTTTTTCAA
1 TTTTCAATTTCTATTTTTCAA
24972096 TTTCTACTTT
Statistics
Matches: 80, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
73 80 1.00
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (73 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCAGATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
CTGAGGTA
Found at i:24972106 original size:14 final size:14
Alignment explanation
Indices: 24972076--24972109 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
24972066 GCTGAGGTAA
**
24972076 TTTCAATTTCTGTT
1 TTTCAATTTCTACT
24972090 TTTCAATTTCTACT
1 TTTCAATTTCTACT
24972104 TTTCAA
1 TTTCAA
24972110 AAATCAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.59
Consensus pattern (14 bp):
TTTCAATTTCTACT
Found at i:24972180 original size:86 final size:87
Alignment explanation
Indices: 24972003--24972182 Score: 281
Period size: 87 Copynumber: 2.1 Consensus size: 87
24971993 GCTGAGGTAT
* * * * *
24972003 TTTCAAATTCTATTTTTCCAAAATCAACTCATATTGTGAGAGGTGGGTTGAGCCTCAGGACACGC
1 TTTCAAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGC
* *
24972068 TGAGGTAATTTCAATTTCTGTT
66 TGAGGTAATTTCAATTTCTATG
*
24972090 TTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GAAACGC
1 TTTCAAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGC
24972154 TGAGGTAATTTCAATTTCTATG
66 TGAGGTAATTTCAATTTCTATG
24972176 TTTCAAA
1 TTTCAAA
24972183 AATCAACTCA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
86 32 0.38
87 52 0.62
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (87 bp):
TTTCAAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAAACGC
TGAGGTAATTTCAATTTCTATG
Found at i:24972207 original size:72 final size:71
Alignment explanation
Indices: 24972090--24972291 Score: 271
Period size: 72 Copynumber: 2.8 Consensus size: 71
24972080 AATTTCTGTT
24972090 TTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAACGCT
1 TTTCAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAACGCT
*
24972155 GAGGTAA
65 AAGGTAA
* * **
24972162 TTTCAATTTCTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACGC
1 TTTCAATTTCTAT-TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGAAACGC
*
24972227 TAAGGTAT
64 TAAGGTAA
* * **
24972235 TTTCAAATTCTATTTTTCAAAAATCAATTCATATTGCGAGAAATGAGTTGAG-CTCAG
1 TTTCAATTTCTA-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
24972292 GATCACATGC
Statistics
Matches: 115, Mismatches: 12, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
71 2 0.02
72 56 0.49
73 56 0.49
74 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (71 bp):
TTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAACGCTA
AGGTAA
Found at i:24972268 original size:73 final size:72
Alignment explanation
Indices: 24972089--24972291 Score: 282
Period size: 73 Copynumber: 2.8 Consensus size: 72
24972079 CAATTTCTGT
*
24972089 TTTTCAATTTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAACGC
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAACGC
*
24972154 TGAGGTA
66 TAAGGTA
* * * * **
24972161 ATTTCAATTTCTATGTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGGGCCTCGGGGCACG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGAAACG
24972226 CTAAGGTA
65 CTAAGGTA
* * **
24972234 TTTTCAAATTCTATTTTTCAAAAATCAATTCATATTGCGAGAAATGAGTTGAG-CTCAG
1 TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
24972292 GATCACATGC
Statistics
Matches: 114, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
71 1 0.01
72 56 0.49
73 57 0.50
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.33
Consensus pattern (72 bp):
TTTTCAATTTCTATTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGAAACGC
TAAGGTA
Found at i:24972415 original size:44 final size:44
Alignment explanation
Indices: 24972345--24972448 Score: 154
Period size: 44 Copynumber: 2.4 Consensus size: 44
24972335 ACACCAGACT
* * *
24972345 TTGTACCCCTGAAGTTGCAATGGAGCAGGTCAAAGTTACAAGTC
1 TTGTATCCCTGAAGTTACAATAGAGCAGGTCAAAGTTACAAGTC
* *
24972389 TTGTATCCCTGAAGTTACAATAGAGCAGGTTAAAGTTGCAAGTC
1 TTGTATCCCTGAAGTTACAATAGAGCAGGTCAAAGTTACAAGTC
*
24972433 TTGTCTCCCTGAAGTT
1 TTGTATCCCTGAAGTT
24972449 GTAGTGGAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (44 bp):
TTGTATCCCTGAAGTTACAATAGAGCAGGTCAAAGTTACAAGTC
Found at i:24974184 original size:17 final size:17
Alignment explanation
Indices: 24974162--24974196 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24974152 TATTCTACTT
*
24974162 TAATTTTATTATTGTTA
1 TAATTTTATTATTATTA
24974179 TAATTTTATTATTATTA
1 TAATTTTATTATTATTA
24974196 T
1 T
24974197 TATTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TAATTTTATTATTATTA
Found at i:24974190 original size:3 final size:3
Alignment explanation
Indices: 24974167--24974208 Score: 50
Period size: 3 Copynumber: 14.0 Consensus size: 3
24974157 TACTTTAATT
* *
24974167 TTA TTA TTG TTA TAA TT- TTA TTA TTA TTA TTA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
24974209 GTGTATAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:24974512 original size:15 final size:15
Alignment explanation
Indices: 24974493--24974528 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24974483 ATTATCTCTA
24974493 ATATATGTATATATT
1 ATATATGTATATATT
* *
24974508 GTATATGTTTATATT
1 ATATATGTATATATT
24974523 ATATAT
1 ATATAT
24974529 ATTATTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:24976986 original size:31 final size:31
Alignment explanation
Indices: 24976926--24976996 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
24976916 TTTTAAATAT
*
24976926 TAAATATTTTTTTAAAAATATTAATTATTTA
1 TAAATATTTTTTTAAAAATATAAATTATTTA
*
24976957 TAAA-ATTTTATTTGAAAAA-ATAAATTATTTTT
1 TAAATATTTT-TTT-AAAAATATAAATTA-TTTA
24976989 TAAATATT
1 TAAATATT
24976997 AAAATATAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 5 0.15
31 14 0.41
32 12 0.35
33 3 0.09
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (31 bp):
TAAATATTTTTTTAAAAATATAAATTATTTA
Found at i:24977049 original size:17 final size:19
Alignment explanation
Indices: 24977013--24977069 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
24977003 TAACCATTGC
24977013 AAATTTAAATATATAAAAT
1 AAATTTAAATATATAAAAT
*
24977032 AAATTTCAATA-A-AAAAT
1 AAATTTAAATATATAAAAT
* *
24977049 -AATTT-TATATATAATAT
1 AAATTTAAATATATAAAAT
24977066 AAAT
1 AAAT
24977070 ATTACACAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.09
16 6 0.19
17 9 0.28
18 4 0.12
19 10 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
AAATTTAAATATATAAAAT
Found at i:24978705 original size:21 final size:20
Alignment explanation
Indices: 24978680--24978740 Score: 61
Period size: 21 Copynumber: 3.0 Consensus size: 20
24978670 TTTCTTTCAG
*
24978680 ATTTTAAGTTTTGAGTTTTA
1 ATTTTAAGTTTTGAATTTTA
*
24978700 TATTTTAGGTTTTTGAATTTTA
1 -ATTTTAAG-TTTTGAATTTTA
*
24978722 AATTTAGAGTTTT-AATTTT
1 ATTTTA-AGTTTTGAATTTT
24978741 TTTTATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.18
21 16 0.47
22 12 0.35
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (20 bp):
ATTTTAAGTTTTGAATTTTA
Found at i:24978720 original size:22 final size:21
Alignment explanation
Indices: 24978680--24978734 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
24978670 TTTCTTTCAG
* *
24978680 ATTTTAAG-TTTTGAGTTTTA
1 ATTTTAGGTTTTTGAATTTTA
24978700 TATTTTAGGTTTTTGAATTTTA
1 -ATTTTAGGTTTTTGAATTTTA
*
24978722 AATTTAGAGTTTT
1 ATTTTAG-GTTTT
24978735 AATTTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.45
22 16 0.55
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (21 bp):
ATTTTAGGTTTTTGAATTTTA
Found at i:24979173 original size:6 final size:6
Alignment explanation
Indices: 24979162--24979194 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
24979152 ACATTCTTAT
24979162 ATTTTG ATTTTG ATTTT- ATTTTG ATTTT- ATTTT
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTT
24979195 CATCTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (6 bp):
ATTTTG
Found at i:24979183 original size:17 final size:16
Alignment explanation
Indices: 24979161--24979194 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
24979151 AACATTCTTA
24979161 TATTTTGATTTTGATTT
1 TATTTTGATTTT-ATTT
24979178 TATTTTGATTTTATTT
1 TATTTTGATTTTATTT
24979194 T
1 T
24979195 CATCTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.74
Consensus pattern (16 bp):
TATTTTGATTTTATTT
Found at i:24979184 original size:11 final size:11
Alignment explanation
Indices: 24979162--24979204 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
24979152 ACATTCTTAT
24979162 ATTTTGATTTTG
1 ATTTT-ATTTTG
24979174 ATTTTATTTTG
1 ATTTTATTTTG
*
24979185 ATTTTATTTTC
1 ATTTTATTTTG
*
24979196 ATCTTATTT
1 ATTTTATTT
24979205 ATTTTAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 24 0.83
12 5 0.17
ACGTcount: A:0.19, C:0.05, G:0.07, T:0.70
Consensus pattern (11 bp):
ATTTTATTTTG
Found at i:24982478 original size:137 final size:136
Alignment explanation
Indices: 24982232--24982517 Score: 500
Period size: 137 Copynumber: 2.1 Consensus size: 136
24982222 CATTGGGCCT
** *
24982232 AAGCCCATTCAGGTAATAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
24982297 AGCCCCTTATTCGGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACACCAGTAAA
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACACCAAT-AA
24982362 CATATGC
130 CATATGC
24982369 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
* *
24982434 AGCCCCTTATTCAGATAACAGTATGGCCCATATGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACACCAATAAC
24982499 ATATGC
131 ATATGC
24982505 AAGCCCATTTGGG
1 AAGCCCATTTGGG
24982518 GAGACTACTC
Statistics
Matches: 142, Mismatches: 7, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
136 22 0.15
137 120 0.85
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACACCAATAAC
ATATGC
Found at i:24982802 original size:25 final size:27
Alignment explanation
Indices: 24982765--24982817 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
24982755 TCAAACATGC
24982765 ATTTAGGTCAATTTAACT-CTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
* *
24982791 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTAACTACTAGGGGT
24982817 A
1 A
24982818 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTACTAGGGGT
Found at i:24984339 original size:26 final size:26
Alignment explanation
Indices: 24984303--24984412 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
24984293 CATGAAATTC
24984303 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
24984329 TTATCGTGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
24984355 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
24984381 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
24984407 TTATCA
1 TTATCA
24984413 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.35, C:0.25, G:0.06, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:24986056 original size:16 final size:18
Alignment explanation
Indices: 24986013--24986056 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
24986003 ACCACCAAAG
*
24986013 CAGAGAATAACACTAAAA
1 CAGAGAATAACACAAAAA
*
24986031 CAGAGGATAAC-CAAAAA
1 CAGAGAATAACACAAAAA
24986048 CA-AGAATAA
1 CAGAGAATAA
24986057 AATACAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 6 0.26
17 7 0.30
18 10 0.43
ACGTcount: A:0.61, C:0.16, G:0.14, T:0.09
Consensus pattern (18 bp):
CAGAGAATAACACAAAAA
Found at i:24986849 original size:15 final size:14
Alignment explanation
Indices: 24986821--24986874 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 14
24986811 TTAGCTTTAA
24986821 ATATTATTCA-TGTT
1 ATATTATT-ATTGTT
24986835 ATATATATTATTGTT
1 ATAT-TATTATTGTT
* *
24986850 ATCACTATTATTTTT
1 AT-ATTATTATTGTT
24986865 ATATTATTAT
1 ATATTATTAT
24986875 ATTATATTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
14 12 0.35
15 21 0.62
16 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (14 bp):
ATATTATTATTGTT
Found at i:24986946 original size:15 final size:15
Alignment explanation
Indices: 24986928--24986956 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
24986918 TATATGCATA
24986928 TATATTTATTATTAT
1 TATATTTATTATTAT
24986943 TATATTTATTATTA
1 TATATTTATTATTA
24986957 ATATTATTAG
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTTATTATTAT
Found at i:24987104 original size:25 final size:25
Alignment explanation
Indices: 24987057--24987278 Score: 191
Period size: 23 Copynumber: 9.2 Consensus size: 25
24987047 TATTATTATC
*
24987057 ATTTCTAATA-TATA-TATCGTATAT
1 ATTTTTAATACTATATTAT-GTATAT
*
24987081 GTTTTT-ATA-TATATTATGTATAT
1 ATTTTTAATACTATATTATGTATAT
24987104 ATTTTTAATA-T-TATTA-GTTATAT
1 ATTTTTAATACTATATTATG-TATAT
*
24987127 ATTTTTTATACTAT-TTCATGTATAT
1 ATTTTTAATACTATATT-ATGTATAT
* *
24987152 ATTTTT-ATATTATCTTATGTATAT
1 ATTTTTAATACTATATTATGTATAT
*
24987176 ATTATCTTAATAACTATATTATGTATGT
1 ATT-T-TTAAT-ACTATATTATGTATAT
* *
24987204 ATTTTTAACACTATATTATGTACAT
1 ATTTTTAATACTATATTATGTATAT
* * *
24987229 ACTTTTAAGA-T-TATTATGTATTT
1 ATTTTTAATACTATATTATGTATAT
*
24987252 ATCTTTAATA-TATA-TATGTATAT
1 ATTTTTAATACTATATTATGTATAT
24987275 ATTT
1 ATTT
24987279 ATGTAGTATT
Statistics
Matches: 165, Mismatches: 20, Indels: 27
0.78 0.09 0.13
Matches are distributed among these distances:
22 1 0.01
23 66 0.40
24 34 0.21
25 38 0.23
26 7 0.04
27 3 0.02
28 16 0.10
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (25 bp):
ATTTTTAATACTATATTATGTATAT
Found at i:24987207 original size:52 final size:47
Alignment explanation
Indices: 24987076--24987210 Score: 143
Period size: 52 Copynumber: 2.8 Consensus size: 47
24987066 ATATATATCG
*
24987076 TATATGTTTTT-ATA-TATATTATGTATATATTTTTAATATTATTAGT
1 TATATATTTTTAATACTATATTATGTATATATTTTT-ATATTATTAGT
*
24987122 TATATATTTTTTATACTAT-TTCATGTATATATTTTTATATTATCTTA-T
1 TATATATTTTTAATACTATATT-ATGTATATATTTTTATATTA--TTAGT
*
24987170 GTATATATTATCTTAATAACTATATTATGTATGTATTTTTA
1 -TATATATT-T-TTAAT-ACTATATTATGTATATATTTTTA
24987211 ACACTATATT
Statistics
Matches: 76, Mismatches: 3, Indels: 14
0.82 0.03 0.15
Matches are distributed among these distances:
46 10 0.13
47 11 0.14
48 18 0.24
49 11 0.14
50 1 0.01
51 4 0.05
52 19 0.25
53 2 0.03
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (47 bp):
TATATATTTTTAATACTATATTATGTATATATTTTTATATTATTAGT
Found at i:24987217 original size:77 final size:71
Alignment explanation
Indices: 24987065--24987278 Score: 186
Period size: 77 Copynumber: 2.9 Consensus size: 71
24987055 TCATTTCTAA
*
24987065 TATATATATCGTATATGTTTTTATATATATTATGTATATATTTTTAATATTATTAGTTATATATT
1 TATAT-TAT-GTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAGTTATATATT
* *
24987130 TTTTATAC
64 TTTAACAC
*
24987138 TAT-TTCATGTATATATTTTTATATTATCTTATGTATATATTATCTTAATAACTATATTA-TGTA
1 TATATT-ATGTATATATTTTTATA-TATATTATGTATATATT-T-TTAAT-A-T-TATTAGT-TA
*
24987201 TGTATTTTTAACAC
58 TATATTTTTAACAC
* * * * *
24987215 TATATTATGTACATACTTTTA-AGATTATTATGTATTTATCTTTAATA-TATATA-TGTATATAT
1 TATATTATGTATATATTTTTATATA-TATTATGTATATATTTTTAATATTAT-TAGT-TATATAT
24987277 TT
63 TT
24987279 ATGTAGTATT
Statistics
Matches: 118, Mismatches: 12, Indels: 24
0.77 0.08 0.16
Matches are distributed among these distances:
70 3 0.03
71 27 0.23
72 19 0.16
73 5 0.04
74 10 0.08
75 3 0.03
76 15 0.13
77 34 0.29
78 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (71 bp):
TATATTATGTATATATTTTTATATATATTATGTATATATTTTTAATATTATTAGTTATATATTTT
TAACAC
Found at i:24987454 original size:25 final size:25
Alignment explanation
Indices: 24987321--24987454 Score: 99
Period size: 25 Copynumber: 5.1 Consensus size: 25
24987311 CTAATATGTA
*
24987321 TATATTATGTAAATA-TTTTAATAC
1 TATATTATGTATATATTTTTAATAC
* * * * *
24987345 TGTATTATTTATATTTTTTTCTTGCATAT
1 TATATTATGTATA--TATTT-TT-AATAC
*
24987374 TATCTTATGTATATATATTTTAAATAAC
1 TATATTATGTATATAT-TTTT-AAT-AC
* **
24987402 TATATTATGTATGTATTTTTAACGC
1 TATATTATGTATATATTTTTAATAC
*
24987427 TATATTATGTACATATTTTTAATAC
1 TATATTATGTATATATTTTTAATAC
24987452 TAT
1 TAT
24987455 GTTTATACTT
Statistics
Matches: 82, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
24 10 0.12
25 25 0.30
26 3 0.04
27 12 0.15
28 19 0.23
29 13 0.16
ACGTcount: A:0.33, C:0.07, G:0.06, T:0.54
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAATAC
Found at i:24999728 original size:14 final size:14
Alignment explanation
Indices: 24999709--24999744 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
24999699 TGCCGAGGTA
*
24999709 TTTTCAAATTTTGT
1 TTTTCAAATTCTGT
24999723 TTTTCAAATTCTGT
1 TTTTCAAATTCTGT
24999737 TTTTCAAA
1 TTTTCAAA
24999745 AAATCAATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.06, T:0.58
Consensus pattern (14 bp):
TTTTCAAATTCTGT
Found at i:24999796 original size:90 final size:90
Alignment explanation
Indices: 24999642--24999895 Score: 390
Period size: 90 Copynumber: 2.9 Consensus size: 90
24999632 ATGTTTTAAT
*
24999642 TTCTGTTTTTC-AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
1 TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
24999706 GTATTTTCAAATTT-TGTTTTTCAAA
66 GTATTTTC-AATTTCTGTTTTTCAAA
* * *
24999731 TTCTGTTTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAG
1 TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
*
24999796 GTATTTTCAATTTCTGTTTTTCAAT
66 GTATTTTCAATTTCTGTTTTTCAAA
* * * *
24999821 TTCTG--TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACACGCTGAA
1 TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
24999884 GTATTTTCAATT
66 GTATTTTCAATT
24999896 CCTATTTTCT
Statistics
Matches: 151, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
88 63 0.42
89 16 0.11
90 72 0.48
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (90 bp):
TTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGCCGAG
GTATTTTCAATTTCTGTTTTTCAAA
Found at i:24999818 original size:14 final size:14
Alignment explanation
Indices: 24999799--24999828 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24999789 TGTCGAGGTA
24999799 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
24999813 TTTTCAATTTCTGT
1 TTTTCAATTTCTGT
24999827 TT
1 TT
24999829 CAAAAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.13, G:0.07, T:0.67
Consensus pattern (14 bp):
TTTTCAATTTCTGT
Found at i:24999941 original size:164 final size:164
Alignment explanation
Indices: 24999723--25000439 Score: 939
Period size: 164 Copynumber: 4.5 Consensus size: 164
24999713 CAAATTTTGT
* * * * * *
24999723 TTTTCAAATT-CTGTTTTTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTA
1 TTTTC-AATTCCTATTTTT-AAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCA
* *
24999787 CATGTCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTC-AAAAAATCAACTCATATTGCG
64 CACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCG
24999851 AGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAGTA
129 AGAGGTGAGTTGAGCCTCAGGTCACACGCTGAAGTA
24999887 TTTTCAATTCCTATTTTCTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTCCTATTTT-TAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCAC
*
24999952 ACGCCGAGGTATTTTCAA---------TTC-----CTGTTTCAAAAAAATTAACTCATATTGCGA
65 ACGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGA
* * *
25000003 GAGGTGAGTTGAGCCTTAGGTCAGACGCTGAGGTA
130 GAGGTGAGTTGAGCCTCAGGTCACACGCTGAAGTA
* * * * *
25000038 TTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGTGAGAGGTGAGTTGAGCCTCGGGTTACA
1 TTTTCAATTCCTATTTTTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACA
* * * *
25000103 TGTCGAGGTATTTCCAATTTCTGTTTTTTAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAG
66 CGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAG
* *
25000168 AGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTA
131 AGGTGAGTTGAGCCTCAGGTCACACGCTGAAGTA
* **
25000202 TTTTCAATTCCTATTTTT-AAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTTAGGTCACA
1 TTTTCAATTCCTATTTTTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACA
* * *
25000266 CGCCGGGGTATTTTCAATTTCTGTTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCAA
66 CGCCGAGGTATTTTCAATTTCTG-TTTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGA
*
25000331 GAGGTAAGTTGAGCCTCAGGTCACACGCTG-AGATA
130 GAGGTGAGTTGAGCCTCAGGTCACACGCTGAAG-TA
* * * * * *
25000366 TTTTTAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCGAGAGGCGAGATGAGCCTCAGATCACA
1 TTTTCAATTCCTATTTTTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACA
25000431 CGCCGAGGT
66 CGCCGAGGT
25000440 CATACGCTGA
Statistics
Matches: 484, Mismatches: 49, Indels: 39
0.85 0.09 0.07
Matches are distributed among these distances:
150 65 0.13
151 69 0.14
155 3 0.01
159 2 0.00
163 64 0.13
164 230 0.48
165 51 0.11
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (164 bp):
TTTTCAATTCCTATTTTTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCACA
CGCCGAGGTATTTTCAATTTCTGTTTTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAG
AGGTGAGTTGAGCCTCAGGTCACACGCTGAAGTA
Found at i:25000025 original size:75 final size:75
Alignment explanation
Indices: 24999813--25000128 Score: 400
Period size: 75 Copynumber: 4.2 Consensus size: 75
24999803 CAATTTCTGT
*
24999813 TTTTCAATTTCTGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
1 TTTTCAATTCCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
* *
24999877 CGCTGAAGTA
66 CGCCGAGGTA
* * * * *
24999887 TTTTCAATTCCTATTTTCTAAAAAGTCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCGGGTCAC
1 TTTTCAATTCCT-GTTTCTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCAC
24999952 ACGCCGAGGTA
65 ACGCCGAGGTA
* * * *
24999963 TTTTCAATTCCTGTTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCAGA
1 TTTTCAATTCCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
*
25000028 CGCTGAGGTA
66 CGCCGAGGTA
* * * * * * *
25000038 TTTTCAATTCCTGTTTTTTAAAAGTCAACTCGTATTGTGAGAGGTGAGTTGAGCCTCGGGTTACA
1 TTTTCAATTCCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
* *
25000103 TGTCGAGGTA
66 CGCCGAGGTA
* *
25000113 TTTCCAATTTCTGTTT
1 TTTTCAATTCCTGTTT
25000129 TTTAATTTCT
Statistics
Matches: 206, Mismatches: 34, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
74 11 0.05
75 132 0.64
76 63 0.31
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (75 bp):
TTTTCAATTCCTGTTTCTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACA
CGCCGAGGTA
Found at i:25000200 original size:89 final size:89
Alignment explanation
Indices: 25000057--25000219 Score: 238
Period size: 89 Copynumber: 1.8 Consensus size: 89
25000047 CCTGTTTTTT
* * * * *
25000057 AAAAGTCAACTCGTATTGTGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTTCCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTCCAATT
* *
25000122 TCTGTTTTTTAATTTCTGTTTCAA
66 CCTATTTTTTAATTTCTGTTTCAA
*
25000146 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATG-CTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGTC-GAGGTATTTCCAAT
25000210 TCCTATTTTT
65 TCCTATTTTT
25000220 AAAAGTCAAC
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
88 1 0.02
89 64 0.98
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.37
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGTCGAGGTATTTCCAATT
CCTATTTTTTAATTTCTGTTTCAA
Found at i:25000276 original size:74 final size:74
Alignment explanation
Indices: 25000146--25000293 Score: 206
Period size: 74 Copynumber: 2.0 Consensus size: 74
25000136 TCTGTTTCAA
* * * *
25000146 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
25000211 CCTATTTTT
66 CCTATTTTT
* * * *
25000220 AAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTTAGGTCACACGCCGGGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
* *
25000285 TCTGTTTTT
66 CCTATTTTT
25000294 TCAATTTATG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCAAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATT
CCTATTTTT
Found at i:25000296 original size:15 final size:15
Alignment explanation
Indices: 25000276--25000306 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25000266 CGCCGGGGTA
*
25000276 TTTTCAATTTCTGTT
1 TTTTCAATTTATGTT
25000291 TTTTCAATTTATGTT
1 TTTTCAATTTATGTT
25000306 T
1 T
25000307 CAAAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (15 bp):
TTTTCAATTTATGTT
Found at i:25000372 original size:239 final size:238
Alignment explanation
Indices: 24999738--25000439 Score: 745
Period size: 239 Copynumber: 2.9 Consensus size: 238
24999728 AAATTCTGTT
* ** * * *
24999738 TTTC-AAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTTACATGTCGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACGCCGAGGTATTT
24999802 TCAATTTCTGTTTTTCAATTTCTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 TCAATTTCTGTTTTTCAATTT-TGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
* * *
24999867 TCAGGTCACACGCTGA-AGTATTTTCAATTCCTATTTTCTAAAAAGTCAACTCGTATTGCGAGAG
130 TCAGGTCACACGCTGAGATTATTTTTAATTCCT-GTTTCTAAAAAGTCAACTCGTATTGCGAGAG
* *
24999931 GCGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTCAATTCCTG
194 GCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTCCTA
* * *
24999976 TTTCAAAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCAGACGCTGAGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACGCCGAGGTATTT
* * * *
25000041 TCAATTCCTG---------TTT-TTT--AAAAGTCAACTCGTATTGTGAGAGGTGAGTTGAGCCT
66 TCAATTTCTGTTTTTCAATTTTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * * * *
25000094 CGGGTTACATG-TCGAGGTATTTCCAATTTCTGTTTTTTAATTTCTGTTTCAAAAAAATCAACTC
131 CAGGTCACACGCT-GA-G-A-TT---A-------TTTTTAATTCCTGTTTCTAAAAAGTCAACTC
* * * *
25000158 ATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACATGCTGAGGTATTTTCAATTCCTA
182 GTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTCCTA
** * * * * *
25000215 TTT-TTAAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTTAGGTCACACGCCGGGGTATTT
1 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACGCCGAGGTATTT
* *
25000279 TCAATTTCTGTTTTTTCAATTTATGTTTCAAAAAAATCAACTCATATTGCAAGAGGTAAGTTGAG
66 TCAATTTCTG-TTTTTCAATTT-TGTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* *
25000344 CCTCAGGTCACACGCTGAGA-TATTTTTAATTCCTGTTTTTTAAAAGTCAACTCGTATTGCGAGA
128 CCTCAGGTCACACGCTGAGATTATTTTTAATTCCTGTTTCTAAAAAGTCAACTCGTATTGCGAGA
* *
25000408 GGCGAGATGAGCCTCAGATCACACGCCGAGGT
193 GGCGAGTTGAGCCTCAGGTCACACGCCGAGGT
25000440 CATACGCTGA
Statistics
Matches: 374, Mismatches: 58, Indels: 63
0.76 0.12 0.13
Matches are distributed among these distances:
225 1 0.00
226 44 0.12
228 3 0.01
229 2 0.01
230 3 0.01
233 1 0.00
238 64 0.17
239 193 0.52
240 10 0.03
246 1 0.00
248 2 0.01
249 2 0.01
250 3 0.01
251 1 0.00
252 1 0.00
253 42 0.11
254 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (238 bp):
TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGGTCACACGCCGAGGTATTT
TCAATTTCTGTTTTTCAATTTTGTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGTCACACGCTGAGATTATTTTTAATTCCTGTTTCTAAAAAGTCAACTCGTATTGCGAGAGGC
GAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTCCTA
Found at i:25000380 original size:90 final size:90
Alignment explanation
Indices: 25000220--25000384 Score: 240
Period size: 90 Copynumber: 1.8 Consensus size: 90
25000210 TCCTATTTTT
* * * * * *
25000220 AAAAGTCAACTCGTATTGCAAGAGGCGAGTTGAGCCTTAGGTCACACGCCGGGGTATTTTCAATT
1 AAAAATCAACTCATATTGCAAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAATT
*
25000285 TCTGTTTTTTCAATTTATGTTTCAA
66 CCTGTTTTTTCAATTTATGTTTCAA
* * *
25000310 AAAAATCAACTCATATTGCAAGAGGTAAGTTGAGCCTCAGGTCACACGCTGAGATATTTTTAATT
1 AAAAATCAACTCATATTGCAAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAATT
25000375 CCTGTTTTTT
66 CCTGTTTTTT
25000385 AAAAGTCAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
90 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (90 bp):
AAAAATCAACTCATATTGCAAGAGGCAAGTTGAGCCTCAGGTCACACGCCGAGATATTTTCAATT
CCTGTTTTTTCAATTTATGTTTCAA
Found at i:25001031 original size:36 final size:34
Alignment explanation
Indices: 25000991--25001109 Score: 98
Period size: 36 Copynumber: 3.3 Consensus size: 34
25000981 TCATTTCTAA
25000991 TATATATATATCGTATATTTTTTTATATATATTATG
1 TATATAT-TAT-GTATATTTTTTTATATATATTATG
* * *
25001027 TATATATT-TTTAATATTATTAGTTATATATATT-TT
1 TATATATTATGT-ATATT-TT-TTTATATATATTATG
* *
25001062 TATACTATTTCATGTATATATTTTTATATTATCTTATG
1 TATA-TA-TT-ATGTATATTTTTTTATA-TATATTATG
25001100 TATATATTAT
1 TATATATTAT
25001110 CTTAATAACT
Statistics
Matches: 66, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
33 1 0.02
34 6 0.09
35 10 0.15
36 27 0.41
37 11 0.17
38 9 0.14
39 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.60
Consensus pattern (34 bp):
TATATATTATGTATATTTTTTTATATATATTATG
Found at i:25001032 original size:25 final size:25
Alignment explanation
Indices: 25000988--25001195 Score: 154
Period size: 23 Copynumber: 8.4 Consensus size: 25
25000978 TTATCATTTC
25000988 TAATATATATATATCGTATAT-TTTTT
1 TAATATATAT-TAT-GTATATATTTTT
25001014 T-ATATATATTATGTATATA-TTTT
1 TAATATATATTATGTATATATTTTT
25001037 TAATAT-TATTA-GTTATATATATTTT
1 TAATATATATTATG-TATATAT-TTTT
25001062 T-ATACTAT-TTCATGTATATA-TTTT
1 TAATA-TATATT-ATGTATATATTTTT
* *
25001086 T-ATATTATCTTATGTATATATTATCT
1 TAATA-TATATTATGTATATATT-TTT
*
25001112 TAATAACTATATTATGTATGTA-TTTT
1 TAAT-A-TATATTATGTATATATTTTT
* * *
25001138 TAACACTATATTATGTACATA-CTTT
1 TAATA-TATATTATGTATATATTTTT
* *
25001163 TAATAT-TATTATGTATTTA-TCTT
1 TAATATATATTATGTATATATTTTT
25001186 TAATATATAT
1 TAATATATAT
25001196 GTATATATTT
Statistics
Matches: 152, Mismatches: 15, Indels: 32
0.76 0.08 0.16
Matches are distributed among these distances:
22 1 0.01
23 41 0.27
24 34 0.22
25 41 0.27
26 17 0.11
27 4 0.03
28 14 0.09
ACGTcount: A:0.34, C:0.05, G:0.04, T:0.56
Consensus pattern (25 bp):
TAATATATATTATGTATATATTTTT
Found at i:25001056 original size:48 final size:49
Alignment explanation
Indices: 25000983--25001381 Score: 187
Period size: 48 Copynumber: 7.8 Consensus size: 49
25000973 TATTATTATC
*
25000983 ATTTCTAATATATATATATCGTATAT-TTTTTT-ATA-TATATTATGTATAT
1 ATTTTTAATAT-TAT-TAT-GTATATATTTTTTAATACTATATTATGTATAT
25001032 ATTTTTAATATTATTA-GTTATATATATTTTT-ATACTAT-TTCATGTATAT
1 ATTTTTAATATTATTATG-TATATAT-TTTTTAATACTATATT-ATGTATAT
* *
25001081 ATTTTT-ATATTATCTTATGTATATATTATCTTAATAACTATATTATGTATGT
1 ATTTTTAATATTA--TTATGTATATATT-TTTTAAT-ACTATATTATGTATAT
* * * *
25001133 ATTTTTAACACTATATTATGTACATA-CTTTTAATA-T-TATTATGTATTT
1 ATTTTTAATA-T-TATTATGTATATATTTTTTAATACTATATTATGTATAT
* * * * * * *
25001181 ATCTTTAATA-TA-TATGTATATATTTATGTAGTATTATTAATAGTCATTTTTTT
1 ATTTTTAATATTATTATGTATATATTT-T-T--TAATACT-ATA-TTATGTATAT
* * * * *
25001234 ATTTCTAATATGTATATAT-TATGTAAATATTTTAATACTGTATTATTTATATTTT
1 ATTTTTAATAT-TAT-TATGTA--TATATTTTTTAATACTATATTATGTATA---T
* * *
25001289 TTTTCTTGCATATTATCTTATGTATATATTTTTTAAATAACTATATTATGTATGT
1 ATTT-TT-AATATTA--TTATGTATATATTTTTT-AAT-ACTATATTATGTATAT
** *
25001344 ATTTTTAACGCTTATTATGTACATA-TTTTTAATACTAT
1 ATTTTTAA-TATTATTATGTATATATTTTTTAATACTAT
25001382 GTTTATACTT
Statistics
Matches: 270, Mismatches: 39, Indels: 82
0.69 0.10 0.21
Matches are distributed among these distances:
44 9 0.03
45 4 0.01
46 6 0.02
47 4 0.01
48 38 0.14
49 38 0.14
50 18 0.07
51 14 0.05
52 36 0.13
53 32 0.12
54 11 0.04
55 12 0.04
56 14 0.05
57 14 0.05
58 20 0.07
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (49 bp):
ATTTTTAATATTATTATGTATATATTTTTTAATACTATATTATGTATAT
Found at i:25001135 original size:28 final size:25
Alignment explanation
Indices: 25000993--25001205 Score: 128
Period size: 24 Copynumber: 8.7 Consensus size: 25
25000983 ATTTCTAATA
* *
25000993 TATATATATCGTATAT-TTTTTTATA-
1 TATAT-TAT-GTATATATTTTTAAAAC
*
25001018 TATATTATGTATATATTTTTAATA-
1 TATATTATGTATATATTTTTAAAAC
* *
25001042 T-TATTA-GTTATATATATTTTTATAC
1 TATATTATG-TATATAT-TTTTAAAAC
* *
25001067 TAT-TTCATGTATATATTTTT-ATAT
1 TATATT-ATGTATATATTTTTAAAAC
*
25001091 TATCTTATGTATATATTATCTTAATAAC
1 TATATTATGTATATATT-T-TTAA-AAC
* *
25001119 TATATTATGTATGTATTTTTAACAC
1 TATATTATGTATATATTTTTAAAAC
* * *
25001144 TATATTATGTACATACTTTTAATA-
1 TATATTATGTATATATTTTTAAAAC
* *
25001168 T-TATTATGTATTTATCTTT--AA-
1 TATATTATGTATATATTTTTAAAAC
25001189 TATA-TATGTATATATTT
1 TATATTATGTATATATTT
25001206 ATGTAGTATT
Statistics
Matches: 156, Mismatches: 19, Indels: 30
0.76 0.09 0.15
Matches are distributed among these distances:
21 13 0.08
22 3 0.02
23 32 0.21
24 37 0.24
25 37 0.24
26 15 0.10
27 3 0.02
28 16 0.10
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (25 bp):
TATATTATGTATATATTTTTAAAAC
Found at i:25001204 original size:25 final size:23
Alignment explanation
Indices: 25001161--25001207 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
25001151 TGTACATACT
*
25001161 TTTAATATTATTATGTATTTATC
1 TTTAATATTATTATATATTTATC
25001184 TTTAATATATATGTATATATTTAT
1 TTTAATAT-TAT-TATATATTTAT
25001208 GTAGTATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 3 0.14
25 10 0.48
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TTTAATATTATTATATATTTATC
Found at i:25002256 original size:8 final size:8
Alignment explanation
Indices: 25002243--25002268 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
25002233 CCGAAATTCC
25002243 ATTTTCAA
1 ATTTTCAA
25002251 ATTTTCAA
1 ATTTTCAA
25002259 ATTTTCAA
1 ATTTTCAA
25002267 AT
1 AT
25002269 AATCGCCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (8 bp):
ATTTTCAA
Found at i:25002599 original size:22 final size:22
Alignment explanation
Indices: 25002557--25002599 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
25002547 AAATTATGTT
* *
25002557 ATTTTAAGGTTTATTGTTATGA
1 ATTTTAAGGTTTAATGCTATGA
25002579 ATTTT-AGGTTTAATGACTATG
1 ATTTTAAGGTTTAATG-CTATG
25002600 GTTAGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.28, C:0.02, G:0.19, T:0.51
Consensus pattern (22 bp):
ATTTTAAGGTTTAATGCTATGA
Found at i:25003213 original size:20 final size:21
Alignment explanation
Indices: 25003188--25003234 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
25003178 ACGGTTTTGG
25003188 GGTTTAAAGTTT-GGGGATAT
1 GGTTTAAAGTTTAGGGGATAT
* **
25003208 GGTTTAGAGTTTAGGGTTTAT
1 GGTTTAAAGTTTAGGGGATAT
25003229 GGTTTA
1 GGTTTA
25003235 GGGTTGGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 11 0.48
21 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (21 bp):
GGTTTAAAGTTTAGGGGATAT
Found at i:25003221 original size:7 final size:7
Alignment explanation
Indices: 25003208--25003282 Score: 109
Period size: 7 Copynumber: 11.0 Consensus size: 7
25003198 TTGGGGATAT
25003208 GGTTTAG
1 GGTTTAG
*
25003215 AGTTTAG
1 GGTTTAG
*
25003222 GGTTTAT
1 GGTTTAG
25003229 GGTTTAG
1 GGTTTAG
25003236 GG-TT-G
1 GGTTTAG
25003241 GGTTTAG
1 GGTTTAG
25003248 GGTTTAG
1 GGTTTAG
25003255 GGTTTAG
1 GGTTTAG
*
25003262 GGTTTAA
1 GGTTTAG
25003269 GGTTTAG
1 GGTTTAG
25003276 GGTTTAG
1 GGTTTAG
25003283 AGTATAATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
5 3 0.05
6 4 0.07
7 53 0.88
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
GGTTTAG
Found at i:25003328 original size:15 final size:15
Alignment explanation
Indices: 25003308--25003339 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25003298 TTTAATTTAG
25003308 AAGATAAATATAAAT
1 AAGATAAATATAAAT
*
25003323 AAGATAAATATATAT
1 AAGATAAATATAAAT
25003338 AA
1 AA
25003340 ATTATTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAGATAAATATAAAT
Found at i:25006884 original size:26 final size:26
Alignment explanation
Indices: 25006848--25006957 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
25006838 CATGAAATTC
25006848 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25006874 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25006900 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
25006926 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
25006952 TTATCA
1 TTATCA
25006958 ATTTGTATTA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25011156 original size:26 final size:26
Alignment explanation
Indices: 25011127--25011179 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
25011117 TCAAACATGC
25011127 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
25011153 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
25011179 A
1 A
25011180 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:25012699 original size:26 final size:26
Alignment explanation
Indices: 25012663--25012772 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
25012653 CATAAAATTC
25012663 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
25012689 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25012715 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
25012741 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
25012767 TTATCA
1 TTATCA
25012773 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25025817 original size:22 final size:24
Alignment explanation
Indices: 25025792--25025841 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
25025782 ATGAAAAGTG
25025792 TATACATAATA-ATACTA-A-AATA
1 TATACATAATATATA-TACATAATA
25025814 TATACATAATATATATACATAATA
1 TATACATAATATATATACATAATA
25025838 TATA
1 TATA
25025842 AAATGAACGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.52
23 4 0.16
24 8 0.32
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (24 bp):
TATACATAATATATATACATAATA
Found at i:25025824 original size:11 final size:11
Alignment explanation
Indices: 25025792--25025841 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
25025782 ATGAAAAGTG
25025792 TATACATAATA
1 TATACATAATA
*
25025803 -ATACTAAAATA
1 TATAC-ATAATA
25025814 TATACATAATATA
1 TATACAT-A-ATA
25025827 TATACATAATA
1 TATACATAATA
25025838 TATA
1 TATA
25025842 AAATGAACGT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 4 0.12
11 13 0.39
12 6 0.18
13 10 0.30
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
TATACATAATA
Found at i:25025829 original size:13 final size:13
Alignment explanation
Indices: 25025792--25025841 Score: 63
Period size: 13 Copynumber: 4.2 Consensus size: 13
25025782 ATGAAAAGTG
25025792 TATACAT-A-ATA
1 TATACATAATATA
*
25025803 -ATAC-TAAAATA
1 TATACATAATATA
25025814 TATACATAATATA
1 TATACATAATATA
25025827 TATACATAATATA
1 TATACATAATATA
25025840 TA
1 TA
25025842 AAATGAACGT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
9 1 0.03
10 5 0.15
11 3 0.09
12 4 0.12
13 21 0.62
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (13 bp):
TATACATAATATA
Done.