Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold160
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: 5021213
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 92036 characters in sequence are not A, C, G, or T
File 1 of 30
Found at i:949 original size:88 final size:88
Alignment explanation
Indices: 815--981 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
805 TTGCATCAGC
* * *
815 ATTTGCATCTTTTCATATGCTTTTGCCTTCCTATTGATGCTTGCATTTGCATTATTTCACCTACA
1 ATTTGCATCTTTCCATATGCATTTGCCTTCCTATTGATGCTTGCATTTGCATTATTTCACATACA
* *
880 TCTGCATTTTAGATAACATTGTT
66 TCTACACTTTAGATAACATTGTT
*
903 ATTTGCAT-TATTCCATATGCATTTGCCCTT-CTATTGATGTTTGCATTTGCATTATTTCACATA
1 ATTTGCATCT-TTCCATATGCATTTG-CCTTCCTATTGATGCTTGCATTTGCATTATTTCACATA
*
966 TATCTACACTTTAGAT
64 CATCTACACTTTAGAT
982 GACGCTTAGT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
87 1 0.01
88 65 0.93
89 4 0.06
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (88 bp):
ATTTGCATCTTTCCATATGCATTTGCCTTCCTATTGATGCTTGCATTTGCATTATTTCACATACA
TCTACACTTTAGATAACATTGTT
Found at i:2223 original size:47 final size:48
Alignment explanation
Indices: 1997--2322 Score: 269
Period size: 48 Copynumber: 6.8 Consensus size: 48
1987 ACTCAAATCT
* * * *** *
1997 TCCCTCATTTGACTATATTGGTGTTAAGGCCTGGTCAAACTCAAATCT
1 TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
* * * * *
2045 TCCTTCGTTTGACTGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCA
1 TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
* * **
2093 TCCCTCATTTAACTGTATTGGTGTTAAGGCTTGGTCAAACAATTTTCA
1 TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
* * *
2141 TCCCTCATTTAATTGTATTAGTGTTAGGGCCTGGTCAAACTCTTTCCA
1 TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
* ** * * *
2189 -CCCCCATTTGTTTGTATTGGTTTTAAGACTTGGTCAAACTCTTTTCA
1 TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
* * * * ** * * * *
2236 TCTCTTATTTGACTT-CATCAGTGTTAGGGCCTAGTCGAACTCCTTTCA
1 TCCCTCATTT-AATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
* * * * *
2284 TCCTTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAA
1 TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAA
2323 GTCGCCTCTC
Statistics
Matches: 219, Mismatches: 56, Indels: 6
0.78 0.20 0.02
Matches are distributed among these distances:
47 39 0.18
48 178 0.81
49 2 0.01
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (48 bp):
TCCCTCATTTAATTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCA
Found at i:2234 original size:95 final size:97
Alignment explanation
Indices: 2058--2309 Score: 287
Period size: 95 Copynumber: 2.6 Consensus size: 97
2048 TTCGTTTGAC
* * * *
2058 TGTATTGGTGTTAGGGCCTGGTCAAACTCTTTTCATCCCTCATTTAACTGTATTGGTGTTAAGGC
1 TGTATTAGTGTTAGGGCCTGGTCAAACTCTTTCCATCCCCCATTTAACTGTATTGGTGTTAAGAC
2123 TTGGTCAAACAATTTTCATCCCTCATTT-AAT
66 TTGGTCAAACAATTTTCATCCCTCATTTGAAT
*** *
2154 TGTATTAGTGTTAGGGCCTGGTCAAACTCTTTCCA-CCCCCATTTGTTTGTATTGGTTTTAAGAC
1 TGTATTAGTGTTAGGGCCTGGTCAAACTCTTTCCATCCCCCATTTAACTGTATTGGTGTTAAGAC
** * * *
2218 TTGGTCAAACTCTTTTCATCTCTTATTTGACT
66 TTGGTCAAACAATTTTCATCCCTCATTTGAAT
* * * * ** *
2250 T-CATCAGTGTTAGGGCCTAGTCGAACTCCTTT-CATCCTTCATTTGACTGTATTGGTGTTA
1 TGTATTAGTGTTAGGGCCTGGTCAAACT-CTTTCCATCCCCCATTTAACTGTATTGGTGTTA
2310 GGGCCTAGTC
Statistics
Matches: 131, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
95 71 0.54
96 60 0.46
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (97 bp):
TGTATTAGTGTTAGGGCCTGGTCAAACTCTTTCCATCCCCCATTTAACTGTATTGGTGTTAAGAC
TTGGTCAAACAATTTTCATCCCTCATTTGAAT
Found at i:2322 original size:96 final size:94
Alignment explanation
Indices: 1997--2322 Score: 332
Period size: 96 Copynumber: 3.4 Consensus size: 94
1987 ACTCAAATCT
* *** * *
1997 TCCCTCATTTGACTATATTGGTGTTAAGGCCTGGTCAAACTCAAATCTTCCTTCGTTTGACTGTA
1 TCCCTCATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCCTT-ATTTGACT-TA
* *
2062 TTGGTGTTAGGGCCTGGTCAAACTCTTTTCA
64 TTAGTGTTAGGGCCTGGTCAAACTCCTTTCA
* * ** * * *
2093 TCCCTCATTTAACTGTATTGGTGTTAAGGCTTGGTCAAACAATTTTCATCCCTCATTTAATTGTA
1 TCCCTCATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCAT-CCTTATTTGACT-TA
2158 TTAGTGTTAGGGCCTGGTCAAACT-CTTTCCA
64 TTAGTGTTAGGGCCTGGTCAAACTCCTTT-CA
* ** * * *
2189 -CCCCCATTTGTTTGTATTGGTTTTAAGACTTGGTCAAACTCTTTTCATCTCTTATTTGACTTCA
1 TCCCTCATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATC-CTTATTTGACTT-A
* * *
2253 TCAGTGTTAGGGCCTAGTCGAACTCCTTTCA
64 TTAGTGTTAGGGCCTGGTCAAACTCCTTTCA
* * *
2284 TCCTTCATTTGACTGTATTGGTGTTAGGGCCTAGTCAAA
1 TCCCTCATTTGACTGTATTGGTGTTAAGGCCTGGTCAAA
2323 GTCGCCTCTC
Statistics
Matches: 186, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
94 2 0.01
95 75 0.40
96 106 0.57
97 3 0.02
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (94 bp):
TCCCTCATTTGACTGTATTGGTGTTAAGGCCTGGTCAAACTCTTTTCATCCTTATTTGACTTATT
AGTGTTAGGGCCTGGTCAAACTCCTTTCA
Found at i:2419 original size:43 final size:44
Alignment explanation
Indices: 2340--2453 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 44
2330 CTCTCCTGTC
* ** *
2340 TGACATATGGTTACCACCCAGGTCAGATTTTTCTCATTTCGATT
1 TGACATATGGTTACCACCCAGGTCAAATTTGCCTCATTCCGATT
* *
2384 TGACGTATGGTT-CCACCCTA-GTCAAATTTGCCTCATTCCTATT
1 TGACATATGGTTACCACCC-AGGTCAAATTTGCCTCATTCCGATT
* * *
2427 TGACATATGGCTACTACCCTGGTCAAA
1 TGACATATGGTTACCACCCAGGTCAAA
2454 CGATTCGCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
43 34 0.60
44 23 0.40
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (44 bp):
TGACATATGGTTACCACCCAGGTCAAATTTGCCTCATTCCGATT
Found at i:2650 original size:43 final size:43
Alignment explanation
Indices: 2561--2733 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 43
2551 TTGACCTTGC
* * * * * *
2561 AGACTTATTCACCCTTAAGCCTGCATGTTGGCTTTAACCCCAG
1 AGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTAACCCTAG
* * *
2604 AGACTTCCTCACCCTTAAGTCTGCCTATCGGCTTTAACCGTGG
1 AGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTAACCCTAG
** * * *
2647 AGACTTCTTTGCCCTAAAGTCTACCTATCGGCTTTGACCCTAG
1 AGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTAACCCTAG
* * * *
2690 AGACTTCTTC-CTCCTTAAGTCTGCCTGTCAGCTTTGACCATAG
1 AGACTTCTTCAC-CCTTAAGTCTGCCTATCGGCTTTAACCCTAG
2733 A
1 A
2734 TTGTTTTCCA
Statistics
Matches: 106, Mismatches: 23, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
42 1 0.01
43 105 0.99
ACGTcount: A:0.21, C:0.31, G:0.17, T:0.32
Consensus pattern (43 bp):
AGACTTCTTCACCCTTAAGTCTGCCTATCGGCTTTAACCCTAG
Found at i:2801 original size:42 final size:43
Alignment explanation
Indices: 2755--2873 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 43
2745 CCACCGTTTG
*
2755 CCCGTCGACTTAGACCCAGGAGACTTCTTCATCCACT-ATCTA
1 CCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCACTCATCTA
** * * ** *
2797 CCCGTCGGCTTAGACATAAGAGACTTTTTCAT-CTTTCATCTT
1 CCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCACTCATCTA
* * *
2839 CCCGTTGGCTTAGACCCGGGTGACTTCTTCATCCA
1 CCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCA
2874 TCGTCTGCTT
Statistics
Matches: 59, Mismatches: 16, Indels: 3
0.76 0.21 0.04
Matches are distributed among these distances:
41 2 0.03
42 56 0.95
43 1 0.02
ACGTcount: A:0.20, C:0.32, G:0.17, T:0.31
Consensus pattern (43 bp):
CCCGTCGGCTTAGACCCAGGAGACTTCTTCATCCACTCATCTA
Found at i:3301 original size:43 final size:43
Alignment explanation
Indices: 3150--3336 Score: 142
Period size: 43 Copynumber: 4.4 Consensus size: 43
3140 GACTTGAGAA
* * * ** * *
3150 ACTTCCTCTATCAACTGTCTACCCATTGTCTTTGACCTGAGAG
1 ACTTCCTTTATCAACTGTCTACCCATCGACTCAGACCCGGGAG
* * ** * ** **
3193 ACTTTCTTCATCTTCTGTATACCCATCGGTTTTGACCCGGGAG
1 ACTTCCTTTATCAACTGTCTACCCATCGACTCAGACCCGGGAG
* * * * * **
3236 ACTT-CTTCATCCACTGTCTACCCCTCGGCTCAGTCTTGGGAG
1 ACTTCCTTTATCAACTGTCTACCCATCGACTCAGACCCGGGAG
* *
3278 ACTTCCTTTATCAACTGTTTACCCATCGACTTAGACCCGGGAG
1 ACTTCCTTTATCAACTGTCTACCCATCGACTCAGACCCGGGAG
3321 ACTTCCTTTATCAACT
1 ACTTCCTTTATCAACT
3337 ATTAGCCCGT
Statistics
Matches: 113, Mismatches: 30, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
42 32 0.28
43 81 0.72
ACGTcount: A:0.19, C:0.31, G:0.16, T:0.34
Consensus pattern (43 bp):
ACTTCCTTTATCAACTGTCTACCCATCGACTCAGACCCGGGAG
Found at i:3355 original size:128 final size:126
Alignment explanation
Indices: 2892--3375 Score: 352
Period size: 128 Copynumber: 3.8 Consensus size: 126
2882 TTAAACCTAA
* * * * *
2892 GAGACTTCCTTTATCAACTATCTGCCCATTGGCTTTGACCCGGGAGACTTTCTTCATCTTTAATC
1 GAGACTTCCTTTATCAACTATCTACCCATCGACTTTGACCCGGGAGACTTTCTTCATCTCTAATA
* * * * ** **
2957 TACTCC-TCAGCTTTGACTCGAGAGACTTCTTCACCCACCGTCTGTCTGTCGGCTCAGTCCCGG
66 TAC-CCGTCGGCTTTGACCCGGGAGACTTCTTCATCCACCGTC--TCCCTCGGCTCAGTCTTGG
* * * * * * * *
3020 GAGATTTCCTTTATCAACCATTTGCCCATC-AGCTTTGACCGGGGAAAC-TTCTTCATCTTTCAT
1 GAGACTTCCTTTATCAACTATCTACCCATCGA-CTTTGACCCGGGAGACTTTCTTCATCTCTAAT
* * * * * * * * *
3083 TTGCCCGTTGG-TTTAGACCTGGGAGACTTCTTCATCCACCGTCTCCTTGCTGACTTAGACTTGA
65 ATACCCGTCGGCTTT-GACCCGGGAGACTTCTTCATCCACCGTCTCCCT-C-GGCTCAGTCTTGG
* * * * * * * *
3147 GAAACTTCCTCTATCAACTGTCTACCCATTGTCTTTGACCTGAGAGACTTTCTTCATCTTCT-GT
1 GAGACTTCCTTTATCAACTATCTACCCATCGACTTTGACCCGGGAGACTTTCTTCATC-TCTAAT
* * *
3211 ATACCCATCGGTTTTGACCCGGGAGACTTCTTCATCCACTGTCTACCCCTCGGCTCAGTCTTGG
65 ATACCCGTCGGCTTTGACCCGGGAGACTTCTTCATCCACCGTCT--CCCTCGGCTCAGTCTTGG
* * * * * *
3275 GAGACTTCCTTTATCAACTGTTTACCCATCGACTTAGACCCGGGAGACTTCCTTTATCAACT-AT
1 GAGACTTCCTTTATCAACTATCTACCCATCGACTTTGACCCGGGAGACTTTCTTCATC-TCTAAT
** *
3339 -TAGCCCGTCGGCTTTGACCTAGGAAACTTTCTTCATC
65 ATA-CCCGTCGGCTTTGACCCGGGAGAC-TTCTTCATC
3376 TTTCATTTGC
Statistics
Matches: 276, Mismatches: 67, Indels: 25
0.75 0.18 0.07
Matches are distributed among these distances:
125 3 0.01
126 6 0.02
127 86 0.31
128 163 0.59
129 15 0.05
130 3 0.01
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.34
Consensus pattern (126 bp):
GAGACTTCCTTTATCAACTATCTACCCATCGACTTTGACCCGGGAGACTTTCTTCATCTCTAATA
TACCCGTCGGCTTTGACCCGGGAGACTTCTTCATCCACCGTCTCCCTCGGCTCAGTCTTGG
Found at i:3480 original size:42 final size:42
Alignment explanation
Indices: 3404--3501 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
3394 TTTGACCTTA
* *
3404 GAGACTTCTTCATCCACCGTCTACCCATCAGCTTAGACCCGG
1 GAGATTTCTTCATCCACCGTCTACCCATCAGCTTAGACCCAG
* * * ** *
3446 GAGATTTCTTCATCCACCGTTTGCCCGTTGGCTTAGACCTAG
1 GAGATTTCTTCATCCACCGTCTACCCATCAGCTTAGACCCAG
3488 GAGACTTT-TTCATC
1 GAGA-TTTCTTCATC
3502 TTTCGTTGCC
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
42 44 0.94
43 3 0.06
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (42 bp):
GAGATTTCTTCATCCACCGTCTACCCATCAGCTTAGACCCAG
Found at i:3574 original size:42 final size:41
Alignment explanation
Indices: 3480--3578 Score: 108
Period size: 42 Copynumber: 2.4 Consensus size: 41
3470 CCGTTGGCTT
* * ** * *
3480 AGACCTAGGAGACTTTTTCATCTTTCGTTGCCCATCAGTTC
1 AGACCCAGGAGACTTCTAAATCTTTCATTGCCCATCAGCTC
* * *
3521 AGACTCGGGAGACTTCTAAATCTTTCATCTGCCCGTCAGCTC
1 AGACCCAGGAGACTTCTAAATCTTTCAT-TGCCCATCAGCTC
3563 AGACCCAGGAGACTTC
1 AGACCCAGGAGACTTC
3579 CTTTTTCAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 21 0.46
42 25 0.54
ACGTcount: A:0.22, C:0.29, G:0.19, T:0.29
Consensus pattern (41 bp):
AGACCCAGGAGACTTCTAAATCTTTCATTGCCCATCAGCTC
Found at i:3652 original size:42 final size:42
Alignment explanation
Indices: 3507--3733 Score: 161
Period size: 42 Copynumber: 5.4 Consensus size: 42
3497 TCATCTTTCG
* * ** *
3507 TTGCCCATCAGTTCAGACTCGGGAGACTTCTAAATCTTTCAT
1 TTGCCCATCGGCTCAGACTCGGGAGACTTCTCCATCATTCAT
* * * * * *** *
3549 CTGCCCGTCAGCTCAGACCCAGGAGACTTCCTTTTTCAATCAT
1 TTGCCCATCGGCTCAGACTCGGGAGACTT-CTCCATCATTCAT
* * * * *
3592 CTGCCCATCGGTTGAGACTTGGGAGACTTGCT-CATCTTTCAT
1 TTGCCCATCGGCTCAGACTCGGGAGACTT-CTCCATCATTCAT
* * * *
3634 TTGCCCGTTGGCTTAGACTCGGGAGACTTTTCCATCATTCAT
1 TTGCCCATCGGCTCAGACTCGGGAGACTTCTCCATCATTCAT
* * * *
3676 TTGCCTATCGGCTCAGACTCGGGAGACTTTCTTCTTCA-TCTT
1 TTGCCCATCGGCTCAGACTCGGGAGAC-TTCTCCATCATTCAT
*
3718 TTTCCCATCGGCTCAG
1 TTGCCCATCGGCTCAG
3734 CCTTGGGAAA
Statistics
Matches: 142, Mismatches: 40, Indels: 6
0.76 0.21 0.03
Matches are distributed among these distances:
41 1 0.01
42 102 0.72
43 39 0.27
ACGTcount: A:0.18, C:0.29, G:0.19, T:0.33
Consensus pattern (42 bp):
TTGCCCATCGGCTCAGACTCGGGAGACTTCTCCATCATTCAT
Found at i:4996 original size:167 final size:162
Alignment explanation
Indices: 4674--5209 Score: 677
Period size: 167 Copynumber: 3.2 Consensus size: 162
4664 TTTCATTAGT
* * *
4674 TTTTGAA-TTTTTCCCTGAAATTTCTCTTTCTTC-AAAATACGGAGTTTTCTACTTCGTGGATTT
1 TTTTGAATTTTTTCCTTGAAATTCCCCTTT-TTCTAAAATAC-GAGTTTTCTAC-TC-TGGATTT
* *
4737 TTTCGAGGGTATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTTATAT
62 TTTCGAGGGAATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATAT
*
4802 TAATTCAATTTTAGAAAAACAAATTCATTTTTATGAG
127 TAATT-AATTTTTGAAAAACAAATTCATTTTTATGAG
*
4839 TTTTGAATTTTTTCCTTGAAATTCCCCTTTTTCTGAAATACAGAGTTTTCTACTCCATGGATTTT
1 TTTTGAATTTTTTCCTTGAAATTCCCCTTTTTCTAAAATAC-GAGTTTTCTACT-C-TGGA-TTT
4904 TTTCGAGGGAATTTTTCTTGGTTTTAAATTTTTAAAATTCATCAAACATCATTATTTATTTCATA
62 TTTCGAGGGAATTTTTCTTGGTTTT-AATTTTTAAAATTCATCAAACATCATTATTTATTTCATA
* *
4969 TTAATTTATTTTTGAAAAACAAATTCATTTTCATGAG
126 TTAATTAATTTTTGAAAAACAAATTCATTTTTATGAG
* * * *
5006 TTTTGGATTTTTTCCTTAAAATTCCCCTTTTTCCT-AAGTACGATGTTTTCTACTCTGTAAATTT
1 TTTTGAATTTTTTCCTTGAAATTCCCCTTTTT-CTAAAATACGA-GTTTTCTACTCTG--GATTT
* * *
5070 CTTCAAGGGAA-TTTTCTTGGTTTTTAATTTTT-AAATTCATAAAACATCATTATTTATTTCATA
62 TTTCGAGGGAATTTTTCTTGG-TTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATA
* * * *
5133 TTAATTCAGTTTTAAAAAACAAATTCATTTTTATGGG
126 TTAATTAATTTTTGAAAAACAAATTCATTTTTATGAG
** * *
5170 TTTTTTATTTTTCTTCGTGAAATTCCCCTTTTTCTAAAAT
1 TTTTGAATTTTT-TCCTTGAAATTCCCCTTTTTCTAAAAT
5210 GTGGTGTTTT
Statistics
Matches: 330, Mismatches: 29, Indels: 24
0.86 0.08 0.06
Matches are distributed among these distances:
164 74 0.22
165 49 0.15
166 60 0.18
167 101 0.31
168 46 0.14
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.49
Consensus pattern (162 bp):
TTTTGAATTTTTTCCTTGAAATTCCCCTTTTTCTAAAATACGAGTTTTCTACTCTGGATTTTTTC
GAGGGAATTTTTCTTGGTTTTAATTTTTAAAATTCATCAAACATCATTATTTATTTCATATTAAT
TAATTTTTGAAAAACAAATTCATTTTTATGAG
Found at i:5871 original size:11 final size:11
Alignment explanation
Indices: 5850--5884 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
5840 CCAAAAAGAG
*
5850 AGAAAAAAAAA
1 AGAAAGAAAAA
5861 AGGAAAGAAAAA
1 A-GAAAGAAAAA
5873 AGAAAGAAAAA
1 AGAAAGAAAAA
5884 A
1 A
5885 TAGGGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAAAGAAAAA
Found at i:6812 original size:51 final size:51
Alignment explanation
Indices: 6737--6853 Score: 164
Period size: 51 Copynumber: 2.3 Consensus size: 51
6727 ATGAATAATA
* * *
6737 CAATG-ATTGATACATTCTATTTTTTTACCCAGATGTATCGATACGTTTTT
1 CAATGTATCGATACATTCTATTTTTTTACCCAAATGTATCGATACATTTTT
* *
6787 CAATGTATCGATACATTCTGTTTTTTTACCTAAATGTATCGATACATTTTT
1 CAATGTATCGATACATTCTATTTTTTTACCCAAATGTATCGATACATTTTT
* *
6838 CAAAGTATCAATACAT
1 CAATGTATCGATACAT
6854 CTAGTTAATT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
50 5 0.08
51 54 0.92
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.44
Consensus pattern (51 bp):
CAATGTATCGATACATTCTATTTTTTTACCCAAATGTATCGATACATTTTT
Found at i:7512 original size:18 final size:19
Alignment explanation
Indices: 7474--7522 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
7464 ATAATGGACA
7474 GTATCGATACATGACCAAAT
1 GTATCGATACATGA-CAAAT
*
7494 GTATCGATACTTG-CAAAT
1 GTATCGATACATGACAAAT
7512 GTATCGATACA
1 GTATCGATACA
7523 GGTGATTGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 15 0.56
20 12 0.44
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (19 bp):
GTATCGATACATGACAAAT
Found at i:7618 original size:10 final size:10
Alignment explanation
Indices: 7603--7632 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7593 ACATTAGCTT
7603 GTAACGGCTA
1 GTAACGGCTA
7613 GTAACGGCTA
1 GTAACGGCTA
*
7623 GTAATGGCTA
1 GTAACGGCTA
7633 TATTTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (10 bp):
GTAACGGCTA
Found at i:8993 original size:20 final size:20
Alignment explanation
Indices: 8962--9018 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
8952 GTCAAAACCC
*
8962 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
8982 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
9002 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
9019 TTAAAAGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:9109 original size:13 final size:13
Alignment explanation
Indices: 9091--9148 Score: 53
Period size: 13 Copynumber: 3.9 Consensus size: 13
9081 ACACACAGTA
9091 TGTATCGATACAT
1 TGTATCGATACAT
9104 TGTATCGATACACCAT
1 TGTATCGAT--A-CAT
9120 AAAATGTATCGATACAT
1 ----TGTATCGATACAT
9137 TGTATCGATACA
1 TGTATCGATACA
9149 CCATAAAATG
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 21 0.55
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 9 0.24
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:9129 original size:20 final size:20
Alignment explanation
Indices: 9104--9168 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
9094 ATCGATACAT
9104 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
9124 TGTATCGAT--A-CAT----
1 TGTATCGATACACCATAAAA
9137 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
9157 TGTATCGATACA
1 TGTATCGATACA
9169 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 21 0.55
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:9132 original size:33 final size:33
Alignment explanation
Indices: 9071--9171 Score: 168
Period size: 33 Copynumber: 3.1 Consensus size: 33
9061 GTAGTTAAAC
* **
9071 TTGTATCGATACA-CACAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
9103 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
9136 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
9169 TTG
1 TTG
9172 GCTTGTAACG
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 13 0.20
33 52 0.80
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:17803 original size:20 final size:20
Alignment explanation
Indices: 17755--17811 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
17745 GTCAAAACCC
*
17755 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
17775 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* * *
17795 TGCATTGTATCCATACA
1 TGAAATGTATCGATACA
17812 TGAAAAGAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:18747 original size:20 final size:20
Alignment explanation
Indices: 18716--18772 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
18706 GTCAAAACCC
*
18716 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
18736 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
18756 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
18773 TTAAAAGAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:18886 original size:33 final size:33
Alignment explanation
Indices: 18844--18925 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
18834 TACACACAGT
18844 ATGTATCGATACATTGTATCAATACACCATAAA
1 ATGTATCGATACATTGTATCAATACACCATAAA
*
18877 ATGTATCGATACATTGTATCGATACACCATAAA
1 ATGTATCGATACATTGTATCAATACACCATAAA
18910 ATGTATCGATACATTG
1 ATGTATCGATACATTG
18926 GCTTGTAACG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACATTGTATCAATACACCATAAA
Found at i:18896 original size:13 final size:13
Alignment explanation
Indices: 18878--18902 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18868 CACCATAAAA
18878 TGTATCGATACAT
1 TGTATCGATACAT
18891 TGTATCGATACA
1 TGTATCGATACA
18903 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:18916 original size:20 final size:20
Alignment explanation
Indices: 18858--18922 Score: 72
Period size: 20 Copynumber: 3.6 Consensus size: 20
18848 ATCGATACAT
*
18858 TGTATCAATACACCATAAAA
1 TGTATCGATACACCATAAAA
18878 TGTATCGAT--A-CAT----
1 TGTATCGATACACCATAAAA
18891 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
18911 TGTATCGATACA
1 TGTATCGATACA
18923 TTGGCTTGTA
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
13 9 0.24
15 1 0.03
16 3 0.08
17 3 0.08
18 1 0.03
20 20 0.54
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:24709 original size:13 final size:13
Alignment explanation
Indices: 24691--24728 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
24681 CAGCATTCTC
* *
24691 TGTATCAATACAT
1 TGTATCGATACAG
24704 TGTATCGATACAG
1 TGTATCGATACAG
24717 TGTATCGATACA
1 TGTATCGATACA
24729 AAGGGTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:26614 original size:25 final size:26
Alignment explanation
Indices: 26585--26652 Score: 93
Period size: 26 Copynumber: 2.7 Consensus size: 26
26575 AAGAAAATTG
26585 TTTTATTAAGGGGGAGAAA-TTTTTA
1 TTTTATTAAGGGGGAGAAATTTTTTA
**
26610 TTTTATTAAAAGGGAGAAATTTTTTA
1 TTTTATTAAGGGGGAGAAATTTTTTA
* *
26636 TTTGATAAAGGGGGAGA
1 TTTTATTAAGGGGGAGA
26653 GAAAAGGAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
25 17 0.47
26 19 0.53
ACGTcount: A:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (26 bp):
TTTTATTAAGGGGGAGAAATTTTTTA
Found at i:27225 original size:13 final size:13
Alignment explanation
Indices: 27207--27231 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
27197 ATAATGCACA
27207 GTATCGATACATT
1 GTATCGATACATT
27220 GTATCGATACAT
1 GTATCGATACAT
27232 GACCAAATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:27244 original size:20 final size:21
Alignment explanation
Indices: 27219--27271 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
27209 ATCGATACAT
*
27219 TGTATCGATACATG-ACCA-AA
1 TGTATCGATACATGCA-AAGAA
*
27239 TGTATCGATACTTGCAAAGAA
1 TGTATCGATACATGCAAAGAA
27260 TGTATCGATACA
1 TGTATCGATACA
27272 GGTGATTGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATGCAAAGAA
Found at i:27326 original size:19 final size:20
Alignment explanation
Indices: 27302--27353 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
27292 CTTAACTGTT
27302 TGTATCGATACAT-A-CAAGA
1 TGTATCGATACATGACCAA-A
27321 TGTATCGATACATGACCAAA
1 TGTATCGATACATGACCAAA
27341 TGTATCGATACAT
1 TGTATCGATACAT
27354 TGGCTTGTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
19 13 0.42
20 15 0.48
21 3 0.10
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
TGTATCGATACATGACCAAA
Found at i:33571 original size:20 final size:20
Alignment explanation
Indices: 33546--33595 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
33536 ACCCTGAAAA
*
33546 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
33566 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
33586 GTATCGATAC
1 GTATCGATAC
33596 TTGAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:33687 original size:13 final size:13
Alignment explanation
Indices: 33669--33693 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33659 ACACATAGTA
33669 TGTATCGATACAT
1 TGTATCGATACAT
33682 TGTATCGATACA
1 TGTATCGATACA
33694 CCATAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:33690 original size:32 final size:33
Alignment explanation
Indices: 33649--33716 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
33639 GTAGCCAAAT
**
33649 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
*
33681 TTGTATCGATACACCATAAAATGTATCGATAGA
1 TTGTATCGATACACCATAAAATGTATCGATACA
33714 TTG
1 TTG
33717 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:42334 original size:19 final size:20
Alignment explanation
Indices: 42310--42360 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
42300 TAGCCAAACT
* **
42310 TGTATCAATACA-CATAGTA
1 TGTATCGATACACCATAAAA
42329 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
42349 TGTATCGATACA
1 TGTATCGATACA
42361 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.39
20 17 0.61
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:43266 original size:27 final size:27
Alignment explanation
Indices: 43236--43667 Score: 481
Period size: 27 Copynumber: 15.9 Consensus size: 27
43226 CCACGATTTA
43236 GTGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
43263 GTGGCAATCATTTTATGTCCACAACTCC
1 GTGGC-ATCCTTTTAAGTCCACAACTCC
*
43291 ATGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
43318 ATGGTATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
43345 GTGGCAATCTTTTTAAGTCCACAACTCC
1 GTGGC-ATCCTTTTAAGTCCACAACTCC
* *
43373 ATGGCACCCTTTTAAGTCCACAACAT-C
1 GTGGCATCCTTTTAAGTCCACAAC-TCC
*
43400 ATGGCATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
43427 GTGGCATCCTTTTAAGTCCACGACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
43454 ATGGCAGTCTTTTTAAGTCCATAACTCC
1 GTGGCA-TCCTTTTAAGTCCACAACTCC
* ** * **
43482 GTGGTATCCTTTTAAGTCCATGATTAT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* *
43509 GTGGCATCCTTTTAAGTCCACGACTCT
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * *
43536 GTGGTAAT-CTCTTTAAGTCCATAACTCT
1 GTGG-CATCCT-TTTAAGTCCACAACTCC
* **
43564 ATGATATCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* * * *
43591 GTGGCACCCTTTTAAGTCTAGAACTTC
1 GTGGCATCCTTTTAAGTCCACAACTCC
*
43618 GTGGCACCCTTTTAAGTCCACAACTCC
1 GTGGCATCCTTTTAAGTCCACAACTCC
* **
43645 ATGGCCCCCTTTTAAGTCCACAA
1 GTGGCATCCTTTTAAGTCCACAA
43668 GTCAGTGCCA
Statistics
Matches: 347, Mismatches: 50, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.00
27 253 0.73
28 93 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (27 bp):
GTGGCATCCTTTTAAGTCCACAACTCC
Found at i:43359 original size:82 final size:81
Alignment explanation
Indices: 43241--43667 Score: 516
Period size: 82 Copynumber: 5.2 Consensus size: 81
43231 ATTTAGTGGC
* *
43241 ATCCTTTTAAGTCCACAACTCCGTGGCAATCATTTTATGTCCACAACTCCATGGCATCCTTTTAA
1 ATCCTTTTAAGTCCACAACTCCGTGGC-ATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAA
43306 GTCCACAACTCCATGGT
65 GTCCACAACTCCATGGT
* *
43323 ATCCTTTTAAGTCCACAACTCCGTGGCAATCTTTTTAAGTCCACAACTCCATGGCACCCTTTTAA
1 ATCCTTTTAAGTCCACAACTCCGTGGC-ATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAA
*
43388 GTCCACAACAT-CATGGC
65 GTCCACAAC-TCCATGGT
* *
43405 ATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACGACTCCATGGCAGTCTTTTTAA
1 ATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCA-TCCTTTTAA
* *
43470 GTCCATAACTCCGTGGT
65 GTCCACAACTCCATGGT
** * ** * ** *
43487 ATCCTTTTAAGTCCATGATTATGTGGCATCCTTTTAAGTCCACGACTCTGTGGTAAT-CTCTTTA
1 ATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGG-CATCCT-TTTA
* * *
43551 AGTCCATAACTCTATGAT
64 AGTCCACAACTCCATGGT
* * * * * *
43569 ATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCTAGAACTTCGTGGCACCCTTTTAAG
1 ATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAAG
*
43634 TCCACAACTCCATGGC
66 TCCACAACTCCATGGT
**
43650 CCCCTTTTAAGTCCACAA
1 ATCCTTTTAAGTCCACAA
43668 GTCAGTGCCA
Statistics
Matches: 297, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
81 63 0.21
82 232 0.78
83 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.32
Consensus pattern (81 bp):
ATCCTTTTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACAACTCCATGGCATCCTTTTAAG
TCCACAACTCCATGGT
Found at i:43413 original size:109 final size:109
Alignment explanation
Indices: 43237--43667 Score: 487
Period size: 109 Copynumber: 4.0 Consensus size: 109
43227 CACGATTTAG
* * *
43237 TGGC-ATCCTTTTAAGTCCACAACTCCGTGGCAATCATTTTATGTCCACAAC-TCCATGGCATCC
1 TGGCAATCCTTTTAAGTCCACAACTCCGTGGC-ACCCTTTTAAGTCCACAACAT-CATGGCATCC
* *
43300 TTTTAAGTCCACAACTCCATGGTATCCTTTTAAGTCCACAACTCCG
64 TTTTAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCA
* *
43346 TGGCAATCTTTTTAAGTCCACAACTCCATGGCACCCTTTTAAGTCCACAACATCATGGCATCCTT
1 TGGCAATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACATCATGGCATCCTT
* *
43411 TTAAGTCCACAACTCCGTGGCATCCTTTTAAGTCCACGACTCCA
66 TTAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCA
* * * * * * ** *
43455 TGGCAGTCTTTTTAAGTCCATAACTCCGTGGTATCCTTTTAAGTCCATGATTAT-GTGGCATCCT
1 TGGCAATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCA-CAACATCATGGCATCCT
* ** * * *
43519 TTTAAGTCCACGACTCTGTGGTAAT-CTCTTTAAGTCCATAACTCTA
65 TTTAAGTCCACAACTCCATGG-CATCCT-TTTAAGTCCACAACTCCA
* * * * *
43565 T-G-ATATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCTAGAACTTCGTGGCACCCT
1 TGGCA-ATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACATCATGGCATCCT
**
43628 TTTAAGTCCACAACTCCATGGCCCCCTTTTAAGTCCACAA
65 TTTAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAA
43668 GTCAGTGCCA
Statistics
Matches: 273, Mismatches: 41, Indels: 17
0.82 0.12 0.05
Matches are distributed among these distances:
108 16 0.06
109 210 0.77
110 47 0.17
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (109 bp):
TGGCAATCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACATCATGGCATCCTT
TTAAGTCCACAACTCCATGGCATCCTTTTAAGTCCACAACTCCA
Found at i:43694 original size:28 final size:28
Alignment explanation
Indices: 43618--44443 Score: 673
Period size: 28 Copynumber: 29.1 Consensus size: 28
43608 CTAGAACTTC
* * *
43618 GTGGCACCCTTT-TAAGTCCACAACTCCA
1 GTGGCACCCTTTCAAAGCCCACAAGT-CA
* * *
43646 -TGGCCCCCTTT-TAAGTCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
43672 GTGCCACCCTTCCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
**
43700 GTGGCA-CCTTTCTTAAAGCCCACACAAGTTG
1 GTGGCACCCTTTC--AAAG-CC-CACAAGTCA
*
43731 GT-GCTAACCCTTTCTAAAGTCCATACCAA-TCA
1 GTGGC--ACCCTTTC-AAAG-CC-CA-CAAGTCA
* *
43763 GTGGCAACCTCTTTCTTAAAGCCTA-AAGTTA
1 GTGGC-ACC-CTTTC--AAAGCCCACAAGTCA
* *
43794 GTGGTACCCTTTCAAAGCCCACAAGACA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* ** * *
43822 ATGGCTTCATTTCAAAGCCCACAAGTAA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
43850 GTGGCACCCTTTCAAAGCCCATATGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
43878 GTGGCATCCTTTCAAAGCCTACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
43906 GTGGCA-CCTTTCCAAAGCCCACAAGTTA
1 GTGGCACCCTTT-CAAAGCCCACAAGTCA
* * * *
43934 GTGGCATCTTTTTAAAGCTCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * *
43962 ATGGCA-GCTTCTCGAAGCCCATATGTCA
1 GTGGCACCCTT-TCAAAGCCCACAAGTCA
* * *
43990 GTGGCATCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
44018 GTGGCACCTTTTCAAAGCCTACAAATCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
44046 GTGGCACCTTTTCAAAGCTCACTAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * * * * *
44074 GTAGAATCTTTTTAAAGCCCATATGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
44102 ATGGCATCCTTTTAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
44130 GTGGCACCCTTTTAAAGCCCACAAGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
44158 GTGGCACCCTTTAAAAGCCCACATGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
44186 GTGGCATCCTTTCAAAGCCTACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
44214 GTGGCACCTTTTTAAAGCTCATAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
44242 GTGGCACCTTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * * *
44270 GTGGCA-CCTTCTCGAAGCCTACATGTTA
1 GTGGCACCCTT-TCAAAGCCCACAAGTCA
*
44298 GTGGCATCCTTTCAAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* *
44326 GTGGCACCTTTTCAAAGCCTACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * *
44354 GTGGCACCTTTTCAAAGCCCACAGGTTA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
* * **
44382 GTGGCATCTTTTTGAAGCCCACAAGTCA
1 GTGGCACCCTTTCAAAGCCCACAAGTCA
*
44410 GTGGCATCCTTTCAAAGCCCACACAAGTCA
1 GTGGCACCCTTTCAAAG-CC-CACAAGTCA
44440 GTGG
1 GTGG
44444 TAACTTTCTC
Statistics
Matches: 651, Mismatches: 124, Indels: 44
0.79 0.15 0.05
Matches are distributed among these distances:
26 2 0.00
27 52 0.08
28 496 0.76
29 22 0.03
30 22 0.03
31 15 0.02
32 19 0.03
33 18 0.03
34 5 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
GTGGCACCCTTTCAAAGCCCACAAGTCA
Found at i:44431 original size:112 final size:113
Alignment explanation
Indices: 43664--44443 Score: 754
Period size: 112 Copynumber: 6.8 Consensus size: 113
43654 TTTTAAGTCC
* * * *
43664 ACAAGTCAGTGCCACCCTTCCAAAGCCCACAAGTCAGTGGCACCTTTCTTAAAGCCCACACAAGT
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTT-TCAAAG-CC-CACAAGT
** * * *
43729 TGGT-GCTAACCCTTTCTAAAGTCCATACCAA-TCAGTGGCAACCTCTTTCTTAAAGCCT
63 CAGTGGC--ATCCTTTC-AAAG-CC-CA-CAAGTCAGTGGCATCCT-TTTC--AAAGCCT
* * * * * ** * *
43787 A-AAGTTAGTGGTACCCTTTCAAAGCCCACAAGACAATGGCTTCATTTCAAAGCCCACAAGTAAG
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAG
* * * *
43851 TGGCACCCTTTCAAAGCCCATATGTTAGTGGCATCC-TTTCAAAGCCT
66 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCT
* * * * * * *
43898 ACAAGTTAGTGGCACCTTTCCAAAGCCCACAAGTTAGTGGCATCTTTTTAAAGCTCACAAGTCAA
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAG
* * * * *
43963 TGGCA-GCTTCTCGAAGCCCATATGTCAGTGGCATCCTTTT-AAAGCCC
66 TGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCT
* * * * *
44010 ACAAGTTAGTGGCACCTTTTCAAAGCCTACAAATCAGTGGCACCTTTTCAAAGCTCACTAGTCAG
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAG
* * * * * * * *
44075 TAGAATCTTTTTAAAGCCCATATGTCAATGGCATCCTTTT-AAAGCCC
66 TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCT
* * * *
44122 ACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTTAGTGGCACCCTTTAAAAGCCCACATGTCA
1 ACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
* *
44186 GTGGCATCCTTTCAAAGCCTACAAGTCAGTGGCA-CCTTTTTAAAG-CT
65 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCT
* * * * * *
44233 CATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTCTCGAAGCCTACATGTTA
1 -ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCA
44298 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCT
65 GTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCT
* * * **
44346 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAGGTTAGTGGCATCTTTTTGAAGCCCACAAGTCAG
1 ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAG
44411 TGGCATCCTTTCAAAGCCCACACAAGTCAGTGG
66 TGGCATCCTTTCAAAG-CC-CACAAGTCAGTGG
44444 TAACTTTCTC
Statistics
Matches: 559, Mismatches: 85, Indels: 35
0.82 0.13 0.05
Matches are distributed among these distances:
111 24 0.04
112 422 0.75
113 19 0.03
114 14 0.03
115 11 0.02
116 2 0.00
117 4 0.01
118 8 0.01
119 9 0.02
120 4 0.01
121 5 0.01
122 36 0.06
123 1 0.00
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.26
Consensus pattern (113 bp):
ACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAG
TGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCT
Found at i:45539 original size:51 final size:51
Alignment explanation
Indices: 45477--45577 Score: 168
Period size: 51 Copynumber: 2.0 Consensus size: 51
45467 ACAATACATG
45477 TATCGACACATTCTGTTTTTTTACCTC-GATGTATCGATACATTTTTCAATT
1 TATCGACACATTCTGTTTTTTTACC-CAGATGTATCGATACATTTTTCAATT
* *
45528 TATCGATACATTCTGTTTTTTTACCCAGATGTATTGATACATTTTTCAAT
1 TATCGACACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCAAT
45578 GTTTCAATAC
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 46 0.98
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.48
Consensus pattern (51 bp):
TATCGACACATTCTGTTTTTTTACCCAGATGTATCGATACATTTTTCAATT
Found at i:45588 original size:51 final size:51
Alignment explanation
Indices: 45484--45589 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
45474 ATGTATCGAC
*
45484 ACATTCTGTTTTTTTACCTCGATGTATCGATACATTTTTCAATTTATCGAT
1 ACATTCTGTTTTTTTACCTCGATGTATCGATACATTTTTCAATTTATCAAT
*
45535 ACATTCTGTTTTTTTACC-CAGATGTATTGATACATTTTTCAATGTT-TCAAT
1 ACATTCTGTTTTTTTACCTC-GATGTATCGATACATTTTTCAAT-TTATCAAT
45586 ACAT
1 ACAT
45590 CTAGTTAATT
Statistics
Matches: 51, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
50 1 0.02
51 48 0.94
52 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.48
Consensus pattern (51 bp):
ACATTCTGTTTTTTTACCTCGATGTATCGATACATTTTTCAATTTATCAAT
Found at i:52371 original size:20 final size:20
Alignment explanation
Indices: 52346--52405 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
52336 ATATTATATC
52346 GATACATGATGAATTGTATT
1 GATACATGATGAATTGTATT
*
52366 GATACAT--T--A---TATC
1 GATACATGATGAATTGTATT
52379 GATACATGATGAATTGTATT
1 GATACATGATGAATTGTATT
52399 GATACAT
1 GATACAT
52406 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
13 10 0.32
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 17 0.55
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (20 bp):
GATACATGATGAATTGTATT
Found at i:52380 original size:33 final size:33
Alignment explanation
Indices: 52338--52406 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
52328 GGTACAATAT
52338 ATTATATCGATACATGATGAATTGTATTGATAC
1 ATTATATCGATACATGATGAATTGTATTGATAC
52371 ATTATATCGATACATGATGAATTGTATTGATAC
1 ATTATATCGATACATGATGAATTGTATTGATAC
52404 ATT
1 ATT
52407 GCTTGTAACG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (33 bp):
ATTATATCGATACATGATGAATTGTATTGATAC
Found at i:58547 original size:389 final size:389
Alignment explanation
Indices: 57830--58608 Score: 1549
Period size: 389 Copynumber: 2.0 Consensus size: 389
57820 TGAATCCTCC
57830 TTGATTTCATGATTACACCAAGTTGTTATATGTCTTAAACATTTCTTATACTTGTATACTCTATT
1 TTGATTTCATGATTACACCAAGTTGTTATATGTCTTAAACATTTCTTATACTTGTATACTCTATT
57895 GTCTTTATCATACTTCTATGAAAATCCTTGTTTAATGACCTTGTTTCCACAAAAGTGACATTTTT
66 GTCTTTATCATACTTCTATGAAAATCCTTGTTTAATGACCTTGTTTCCACAAAAGTGACATTTTT
57960 GGTCATTTGAAATGAAATGTTGCACTTTTTGATGTTTTATTTGGTTAATCTATGTGATGTAGTGA
131 GGTCATTTGAAATGAAATGTTGCACTTTTTGATGTTTTATTTGGTTAATCTATGTGATGTAGTGA
58025 TTTTTGATGATTTTGTCTTGTTTTTGGATGAATTTGGTGTTTAAATTTGTTGTGTTAATGAATTA
196 TTTTTGATGATTTTGTCTTGTTTTTGGATGAATTTGGTGTTTAAATTTGTTGTGTTAATGAATTA
*
58090 TACTTATGCGATATGTTTAGGGTCTATAGGGTAGGAATCGATACTAATTTTCGACATTTTTCTGA
261 TACTTATGCGATATGTTTAGGGTCTATAGGGTAGGAATCGATACTAATTTTCAACATTTTTCTGA
58155 AAATTTTTCAGAACGTATCGATACATTAAAGCATGTATCGATATATCTAGAAAACCCAGATGTA
326 AAATTTTTCAGAACGTATCGATACATTAAAGCATGTATCGATATATCTAGAAAACCCAGATGTA
58219 TTGATTTCATGATTACACCAAGTTGTTATATGTCTTAAACATTTCTTATACTTGTATACTCTATT
1 TTGATTTCATGATTACACCAAGTTGTTATATGTCTTAAACATTTCTTATACTTGTATACTCTATT
58284 GTCTTTATCATACTTCTATGAAAATCCTTGTTTAATGACCTTGTTTCCACAAAAGTGACATTTTT
66 GTCTTTATCATACTTCTATGAAAATCCTTGTTTAATGACCTTGTTTCCACAAAAGTGACATTTTT
58349 GGTCATTTGAAATGAAATGTTGCACTTTTTGATGTTTTATTTGGTTAATCTATGTGATGTAGTGA
131 GGTCATTTGAAATGAAATGTTGCACTTTTTGATGTTTTATTTGGTTAATCTATGTGATGTAGTGA
58414 TTTTTGATGATTTTGTCTTGTTTTTGGATGAATTTGGTGTTTAAATTTGTTGTGTTAATGAATTA
196 TTTTTGATGATTTTGTCTTGTTTTTGGATGAATTTGGTGTTTAAATTTGTTGTGTTAATGAATTA
58479 TACTTATGCGATATGTTTAGGGTCTATAGGGTAGGAATCGATACTAATTTTCAACATTTTTCTGA
261 TACTTATGCGATATGTTTAGGGTCTATAGGGTAGGAATCGATACTAATTTTCAACATTTTTCTGA
58544 AAATTTTTCAGAACGTATCGATACATTAAAGCATGTATCGATATATCTAGAAAACCCAGATGTA
326 AAATTTTTCAGAACGTATCGATACATTAAAGCATGTATCGATATATCTAGAAAACCCAGATGTA
58608 T
1 T
58609 CGATACAACA
Statistics
Matches: 389, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
389 389 1.00
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.44
Consensus pattern (389 bp):
TTGATTTCATGATTACACCAAGTTGTTATATGTCTTAAACATTTCTTATACTTGTATACTCTATT
GTCTTTATCATACTTCTATGAAAATCCTTGTTTAATGACCTTGTTTCCACAAAAGTGACATTTTT
GGTCATTTGAAATGAAATGTTGCACTTTTTGATGTTTTATTTGGTTAATCTATGTGATGTAGTGA
TTTTTGATGATTTTGTCTTGTTTTTGGATGAATTTGGTGTTTAAATTTGTTGTGTTAATGAATTA
TACTTATGCGATATGTTTAGGGTCTATAGGGTAGGAATCGATACTAATTTTCAACATTTTTCTGA
AAATTTTTCAGAACGTATCGATACATTAAAGCATGTATCGATATATCTAGAAAACCCAGATGTA
Found at i:61105 original size:13 final size:13
Alignment explanation
Indices: 61087--61113 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
61077 ATATTATGCT
61087 TTGTATCAATACA
1 TTGTATCAATACA
61100 TTGTATCAATACA
1 TTGTATCAATACA
61113 T
1 T
61114 GGACAATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TTGTATCAATACA
Found at i:61435 original size:19 final size:19
Alignment explanation
Indices: 61411--61464 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
61401 ATTCAACGAT
*
61411 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTA
61430 TTGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
61449 TTGTATCGATACATAA
1 TTGTATCGATACATAA
61465 TTAGCTACTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:68429 original size:15 final size:13
Alignment explanation
Indices: 68410--68484 Score: 73
Period size: 13 Copynumber: 5.5 Consensus size: 13
68400 AAGTGATGAA
68410 AAAAAAACACACACAC
1 AAAAAAA-A-ACA-AC
68426 AAAAAAAAACAAC
1 AAAAAAAAACAAC
*
68439 AAAAAAACAAAAAAC
1 -AAAAAA-AAACAAC
68454 AAAAAAAAACAA-
1 AAAAAAAAACAAC
68466 AAAAAACAAA-AAC
1 AAAAAA-AAACAAC
68479 AAAAAA
1 AAAAAA
68485 CATAGAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
12 8 0.15
13 16 0.30
14 15 0.28
15 7 0.13
16 7 0.13
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAC
Found at i:68429 original size:18 final size:17
Alignment explanation
Indices: 68408--68484 Score: 86
Period size: 17 Copynumber: 4.4 Consensus size: 17
68398 AAAAGTGATG
* *
68408 AAAAAAAAACACACACAC
1 AAAAAAAAACA-ACAAAA
68426 AAAAAAAAACAACAAAA
1 AAAAAAAAACAACAAAA
68443 AAACAAAAAACAA-AAAA
1 AAA-AAAAAACAACAAAA
68460 AAACAAAAAA-AACAAAA
1 AAA-AAAAAACAACAAAA
68477 ACAAAAAA
1 A-AAAAAA
68485 CATAGAAAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
16 2 0.04
17 30 0.56
18 22 0.41
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAACAACAAAA
Found at i:68442 original size:10 final size:10
Alignment explanation
Indices: 68424--68482 Score: 72
Period size: 10 Copynumber: 6.1 Consensus size: 10
68414 AAACACACAC
68424 ACAAAAAAAA
1 ACAAAAAAAA
68434 ACAACAAAAAA
1 ACAA-AAAAAA
68445 AC---AAAAA
1 ACAAAAAAAA
68452 ACAAAAAAAA
1 ACAAAAAAAA
68462 AC-AAAAAAA
1 ACAAAAAAAA
68471 ACAAAAACAAA
1 ACAAAAA-AAA
68482 A
1 A
68483 AACATAGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
7 7 0.16
9 9 0.21
10 15 0.35
11 12 0.28
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (10 bp):
ACAAAAAAAA
Found at i:68451 original size:9 final size:9
Alignment explanation
Indices: 68427--68477 Score: 68
Period size: 9 Copynumber: 5.6 Consensus size: 9
68417 CACACACACA
68427 AAAAAAAAC
1 AAAAAAAAC
68436 AACAAAAAA-
1 AA-AAAAAAC
*
68445 ACAAAAAAC
1 AAAAAAAAC
68454 AAAAAAAAAC
1 -AAAAAAAAC
68464 AAAAAAAAC
1 AAAAAAAAC
68473 AAAAA
1 AAAAA
68478 CAAAAAACAT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
8 6 0.16
9 17 0.46
10 14 0.38
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:68464 original size:25 final size:26
Alignment explanation
Indices: 68428--68484 Score: 91
Period size: 25 Copynumber: 2.2 Consensus size: 26
68418 ACACACACAA
68428 AAAAAAACAAC-AAAAAAACAAAAAAC
1 AAAAAAACAACAAAAAAAAC-AAAAAC
68454 AAAAAAA-AACAAAAAAAACAAAAAC
1 AAAAAAACAACAAAAAAAACAAAAAC
68479 AAAAAA
1 AAAAAA
68485 CATAGAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
25 15 0.50
26 15 0.50
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAACAACAAAAAAAACAAAAAC
Found at i:68495 original size:1 final size:1
Alignment explanation
Indices: 68426--68484 Score: 55
Period size: 1 Copynumber: 59.0 Consensus size: 1
68416 ACACACACAC
* * * * * * *
68426 AAAAAAAAACAACAAAAAAACAAAAAACAAAAAAAAACAAAAAAAACAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
68485 CATAGAAAAA
Statistics
Matches: 44, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:68495 original size:26 final size:26
Alignment explanation
Indices: 68409--68484 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 26
68399 AAAGTGATGA
* *
68409 AAAAAAAACACACACACAAAAAAAAAC
1 AAAAAAAACA-AAAAACAAAAAAAAAC
68436 AACAAAAAAACAAAAAACAAAAAAAAAC
1 -A-AAAAAAACAAAAAACAAAAAAAAAC
68464 AAAAAAAAC-AAAAACAAAAAA
1 AAAAAAAACAAAAAACAAAAAA
68485 CATAGAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
25 12 0.27
26 8 0.18
27 1 0.02
28 15 0.33
29 9 0.20
ACGTcount: A:0.84, C:0.16, G:0.00, T:0.00
Consensus pattern (26 bp):
AAAAAAAACAAAAAACAAAAAAAAAC
Found at i:68756 original size:18 final size:16
Alignment explanation
Indices: 68733--68789 Score: 69
Period size: 17 Copynumber: 3.4 Consensus size: 16
68723 GTTCTTTTCC
*
68733 AAAAAAGGAAACAAAA
1 AAAAAAAGAAACAAAA
*
68749 CAAAAAAAGAAAAAAAA
1 -AAAAAAAGAAACAAAA
68766 AAGAAAGAAGAAACAAAA
1 AA-AAA-AAGAAACAAAA
68784 AAAAAA
1 AAAAAA
68790 GAAGAAGGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 3 0.09
17 20 0.57
18 12 0.34
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAAGAAACAAAA
Found at i:68790 original size:18 final size:18
Alignment explanation
Indices: 68740--68795 Score: 80
Period size: 18 Copynumber: 3.2 Consensus size: 18
68730 TCCAAAAAAG
*
68740 GAAACAAAACAAAAA-AA
1 GAAACAAAAAAAAAAGAA
68757 GAAA-AAAAAAAGAAAGAA
1 GAAACAAAAAAA-AAAGAA
68775 GAAACAAAAAAAAAAGAA
1 GAAACAAAAAAAAAAGAA
68793 GAA
1 GAA
68796 GGGAAAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 6 0.17
17 7 0.20
18 15 0.43
19 7 0.20
ACGTcount: A:0.82, C:0.05, G:0.12, T:0.00
Consensus pattern (18 bp):
GAAACAAAAAAAAAAGAA
Found at i:69872 original size:27 final size:27
Alignment explanation
Indices: 69842--70230 Score: 121
Period size: 27 Copynumber: 12.7 Consensus size: 27
69832 CACTCTTTTT
* *
69842 CCTTCTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
69869 CCTTTTAAACCCACAACTCCGTGGCACCTTTC
1 CCTTTTAAGCCCACAACTCCGTGGCA-----C
* *
69901 TCCTTTTAAGTCCACAACTCTGTGGCAC
1 -CCTTTTAAGCCCACAACTCCGTGGCAC
**
69929 CCTTTTAAGCCCACAACTCAATGGCATC
1 CCTTTTAAGCCCACAACTCCGTGGCA-C
* * * * *
69957 TCTTTCCAAAGTCCACGACTCAGTGGCATC
1 CCTTT--TAAGCCCACAACTCCGTGGCA-C
** *
69987 TTTTCTCTCAAGCCCACAATTCCGTGGCACTC
1 CCTT-T-T-AAGCCCACAACTCCGTGGCA--C
* * *
70019 TTTTTCCTTCTAAACCCACGACTCCGTGGCACTCTTTTTTC
1 -----CCTTTTAAGCCCACAACTCCGTGGCA---------C
* * *
70060 CCTTTTAAGTCCACGACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
70087 CTTCTTTTCAAAGCCCACAACTCTGTGGCAC
1 C--CTTTT--AAGCCCACAACTCCGTGGCAC
* * *
70118 TATTTTTCCTTCTAAGTCCACAACTTCGTGGCAC
1 -------CCTTTTAAGCCCACAACTCCGTGGCAC
70152 CCTTTTAAGCCCACAACTCCGTGGCACCTTTC
1 CCTTTTAAGCCCACAACTCCGTGGCA-----C
* *
70184 TCCTTTTAAGTCCACAACTCTGTGGCAC
1 -CCTTTTAAGCCCACAACTCCGTGGCAC
70212 CCTTTTAAGCCCACAACTC
1 CCTTTTAAGCCCACAACTC
70231 AATGGCATCT
Statistics
Matches: 278, Mismatches: 43, Indels: 82
0.69 0.11 0.20
Matches are distributed among these distances:
27 89 0.32
28 7 0.03
29 5 0.02
30 23 0.08
31 36 0.13
32 4 0.01
33 47 0.17
34 35 0.13
35 1 0.00
36 26 0.09
37 2 0.01
38 1 0.00
41 2 0.01
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.31
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:69920 original size:60 final size:61
Alignment explanation
Indices: 69747--70056 Score: 297
Period size: 60 Copynumber: 5.0 Consensus size: 61
69737 TACCTTCTTA
* *
69747 AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAACCCACAACTCCGTGGCACTC-TTTTT-CCTTTTAAGTCCACAACTCCGTGGCACC--CTTTT
* *
69812 CAAAGCCCATAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTT
1 -AAA-CCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* *
69875 AAACCCACAACTCCGTGGCAC-CTTTCTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
1 AAACCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* ** * * * * **
69935 AAGCCCACAACTCAATGGCA-TCTCTTTCC---AAAGTCCACGACTCAGTGGCATCTTTTCTCT
1 AAACCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCA-CCCTT-T-T
* * * ** * *
69995 CAAGCCCACAATTCCGTGGCACTCTTTTTCCTTCTAAACCCACGACTCCGTGGCACTCTTTT
1 -AAACCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
70057 TTCCCTTTTA
Statistics
Matches: 207, Mismatches: 27, Indels: 24
0.80 0.10 0.09
Matches are distributed among these distances:
57 18 0.09
58 3 0.01
59 1 0.00
60 60 0.29
61 34 0.16
62 12 0.06
63 6 0.03
64 4 0.02
65 43 0.21
66 8 0.04
67 18 0.09
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.31
Consensus pattern (61 bp):
AAACCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:70021 original size:32 final size:34
Alignment explanation
Indices: 69999--70435 Score: 236
Period size: 34 Copynumber: 13.5 Consensus size: 34
69989 TTCTCTCAAG
*
69999 CCCACAATTCCGTGGCACTCTTTTTCCTTCTAAA
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * *
70033 CCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAG
1 CCCACAACTCCGTGGCACTC-TTTTT-CCTTCTAAA
* * * *
70069 TCCACGACTCTGTGGCAC-CTTCTT--TTC-AAA
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * *
70099 GCCCACAACTCTGTGGCACTATTTTTCCTTCTAAG
1 -CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * * *
70134 TCCACAACTTCGTGGCA--C-----CCTTTTAAG
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * *
70161 CCCACAACTCCGTGGCAC-CTTTCTCCTTTTAAG
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * * *
70194 TCCACAACTCTGTGGCA--C-----CCTTTTAAG
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
** *
70221 CCCACAACTCAATGGCA-TCTCTTT-C--C-AAA
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * *
70250 GTCCACGACTCAGTGGCA-TC--TTTCC-TCTAAA
1 -CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* *
70281 GCCCACAATTCCGTGGCATTCTTTTTCCTTCTAAA
1 -CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
* * *
70316 CCCACGACTCCGTGGCACTCTTTTTCCCTTTTAAG
1 CCCACAACTCCGTGGCACTCTTTTT-CCTTCTAAA
* * *
70351 TCCACGACTCCGTGGCAC-CTTCTT--TTC-AAA
1 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
*
70381 GCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAA
1 -CCCACAACTCCGTGGCACTCTTTTT-CCTTCTAAA
70417 GCCCACAACTCCGTGGCAC
1 -CCCACAACTCCGTGGCAC
70436 CTTGTTCTTT
Statistics
Matches: 321, Mismatches: 48, Indels: 66
0.74 0.11 0.15
Matches are distributed among these distances:
27 46 0.14
28 5 0.02
29 3 0.01
30 21 0.07
31 53 0.17
32 13 0.04
33 24 0.07
34 71 0.22
35 40 0.12
36 45 0.14
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.31
Consensus pattern (34 bp):
CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAA
Found at i:70148 original size:101 final size:100
Alignment explanation
Indices: 69965--70452 Score: 434
Period size: 101 Copynumber: 5.0 Consensus size: 100
69955 TCTCTTTCCA
* *
69965 AAGTCCACGACTCAGTGGCATCTT-TTCTCTC-AAGCCCACAATTCCGTGGCACTCTTTTTCCTT
1 AAGTCCACGACTCAGTGGCACCTTCTT-T-TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTT
* *
70028 CTAAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTT
64 CTAAGCCCACAACTCCGTGGCACTC-TTTTTCCCTTTT
* * *
70066 AAGTCCACGACTCTGTGGCACCTTCTTTTCAAAGCCCACAACTCTGTGGCACTATTTTTCCTTCT
1 AAGTCCACGACTCAGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
70131 AAGTCCACAACTTCGTGGCA--------CCCTTTT
66 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* * * * * *
70158 AAGCCCACAACTCCGTGGCACCTTTCTCCTTT-TAAGTCCACAACTCTGTGGCA--C-----CCT
1 AAGTCCACGACTCAGTGGCACC-TTCT--TTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
* ** * *
70215 TTTAAGCCCACAACTCAATGGCA-TCTCTTT-CC---A
63 TCTAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* ** * *
70248 AAGTCCACGACTCAGTGGCATCTT-TCCTCTAAAGCCCACAATTCCGTGGCATTCTTTTTCCTTC
1 AAGTCCACGACTCAGTGGCACCTTCTTTTC-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTC
* *
70312 TAAACCCACGACTCCGTGGCACTCTTTTTCCCTTTT
65 TAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
* *
70348 AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAGTCCACGACTCAGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTC
* *
70413 TAAAGCCCACAACTCCGTGGCAC-CTTGTT-CTTTTT
65 T-AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
70448 AAGTC
1 AAGTC
70453 ACAACTTCGT
Statistics
Matches: 309, Mismatches: 49, Indels: 59
0.74 0.12 0.14
Matches are distributed among these distances:
86 1 0.00
87 21 0.07
88 18 0.06
89 2 0.01
90 19 0.06
92 26 0.08
93 6 0.02
94 19 0.06
95 24 0.08
96 6 0.02
97 2 0.01
100 61 0.20
101 83 0.27
102 21 0.07
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (100 bp):
AAGTCCACGACTCAGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
Found at i:70209 original size:60 final size:61
Alignment explanation
Indices: 70024--70339 Score: 275
Period size: 60 Copynumber: 5.1 Consensus size: 61
70014 CACTCTTTTT
* * * *
70024 CCTTCTAAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTC-TTTTT-CCTTTTAAGTCCACAACTCTGTGGCAC
* * *
70087 CTTCTTTTCAAAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAGTCCACAACT-TCGTGGCA
1 C--CTTTT--AAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCT-GTGGCA
70151 C
61 C
*
70152 CCTTTTAAGCCCACAACTCCGTGGCAC-CTTTCTCCTTTTAAGTCCACAACTCTGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
** * * * *
70212 CCTTTTAAGCCCACAACTCAATGGCA-TCTCTTTCC---AAAGTCCACGACTCAGTGGCATC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCA-C
* * * * * ** * *
70270 TTTCCTCTAAAGCCCACAATTCCGTGGCATTCTTTTTCCTTCTAAACCCACGACTCCGTGGCAC
1 ---CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
*
70334 TCTTTT
1 CCTTTT
70340 TCCCTTTTAA
Statistics
Matches: 207, Mismatches: 31, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
57 18 0.09
58 1 0.00
60 58 0.28
61 45 0.22
62 8 0.04
63 6 0.03
64 2 0.01
65 45 0.22
66 5 0.02
67 19 0.09
ACGTcount: A:0.21, C:0.35, G:0.13, T:0.32
Consensus pattern (61 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCTGTGGCAC
Found at i:70254 original size:283 final size:283
Alignment explanation
Indices: 69747--70436 Score: 1256
Period size: 283 Copynumber: 2.4 Consensus size: 283
69737 TACCTTCTTA
69747 AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
*
69812 CAAAGCCCATAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
66 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
69877 ACCCACAACTCCGTGGCACCTTTCTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCA
131 ACCCACAACTCCGTGGCACCTTTCTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCA
* *
69942 CAACTCAATGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTTCTCTCAAGCCCACAAT
196 CAACTCAATGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTCTAAAGCCCACAAT
70007 TCCGTGGCACTCTTTTTCCTTCT
261 TCCGTGGCACTCTTTTTCCTTCT
*
70030 AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCTGTGGCACCTTCTTTT
1 AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
* * *
70095 CAAAGCCCACAACTCTGTGGCACTATTTTTCCTTCTAAGTCCACAACTTCGTGGCACCCTTTTAA
66 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
*
70160 GCCCACAACTCCGTGGCACCTTTCTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCA
131 ACCCACAACTCCGTGGCACCTTTCTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCA
70225 CAACTCAATGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTCTAAAGCCCACAAT
196 CAACTCAATGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTCTAAAGCCCACAAT
*
70290 TCCGTGGCATTCTTTTTCCTTCT
261 TCCGTGGCACTCTTTTTCCTTCT
70313 AAACCCACGACTCCGTGGCACTC-TTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
1 AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
* *
70377 CAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAAGCCCACAACTCCGTGGCACC
66 CAAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT-AAGTCCACAACTCCGTGGCACC
70437 TTGTTCTTTT
Statistics
Matches: 390, Mismatches: 15, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
282 68 0.17
283 302 0.77
284 20 0.05
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.31
Consensus pattern (283 bp):
AAACCCACGACTCCGTGGCACTCTTTTTTCCCTTTTAAGTCCACGACTCCGTGGCACCTTCTTTT
CAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGTCCACAACTCCGTGGCACCCTTTTAA
ACCCACAACTCCGTGGCACCTTTCTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCCA
CAACTCAATGGCATCTCTTTCCAAAGTCCACGACTCAGTGGCATCTTTCCTCTAAAGCCCACAAT
TCCGTGGCACTCTTTTTCCTTCT
Found at i:70363 original size:35 final size:34
Alignment explanation
Indices: 70212--70471 Score: 195
Period size: 34 Copynumber: 7.9 Consensus size: 34
70202 TCTGTGGCAC
** *
70212 CCTTTTAAGCCCACAACTCAATGGCA-TCTCTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
70245 CC---AAAGTCCACGACTCAGTGGCA-TC--TTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * * *
70273 CCTCTAAAGCCCACAATTCCGTGGCATTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
70307 CCTTCTAAACCCACGACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
70341 CCCTTTTAAGTCCACGACTCCGTGGCAC-CTTCTT
1 -CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
**
70375 --TTCAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
*
70407 CCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTT
1 -CCTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT
* * *
70442 CTTTTTAAG-TCACAACTTCGTGGCA-TCTTT
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTT
70472 CACCCTTTTA
Statistics
Matches: 183, Mismatches: 31, Indels: 27
0.76 0.13 0.11
Matches are distributed among these distances:
28 5 0.03
30 19 0.10
31 38 0.21
32 24 0.13
33 5 0.03
34 40 0.22
35 31 0.17
36 21 0.11
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTT
Found at i:70448 original size:100 final size:100
Alignment explanation
Indices: 70248--70472 Score: 278
Period size: 100 Copynumber: 2.3 Consensus size: 100
70238 TCTCTTTCCA
* * * *
70248 AAGTCCACGACTCAGTGGCATCTTTCCTCTAAAGCCCACAATTCCGTGGCATTCTTTTTCCTTCT
1 AAGTCCACGACTCCGTGGCACCTTTCCTCTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
* *
70313 AAACCCACGACTCCGTGGCACTCTTTTTCCCTTTT
66 AAACCCACAACTCCGTGGCACTCTTGTTCCCTTTT
* *
70348 AAGTCCACGACTCCGTGGCACC-TTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 AAGTCCACGACTCCGTGGCACCTTTCCTCT-AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTT
* *
70412 TTAAAGCCCACAACTCCGTGGCAC-CTTGTT-CTTTTT
64 CTAAA-CCCACAACTCCGTGGCACTCTTGTTCCCTTTT
* * *
70448 AAGT-CACAACTTCGTGGCATCTTTC
1 AAGTCCACGACTCCGTGGCACCTTTC
70473 ACCCTTTTAA
Statistics
Matches: 108, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
99 19 0.18
100 59 0.55
101 13 0.12
102 17 0.16
ACGTcount: A:0.20, C:0.34, G:0.14, T:0.33
Consensus pattern (100 bp):
AAGTCCACGACTCCGTGGCACCTTTCCTCTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
AAACCCACAACTCCGTGGCACTCTTGTTCCCTTTT
Found at i:70464 original size:32 final size:35
Alignment explanation
Indices: 70277--70470 Score: 176
Period size: 35 Copynumber: 5.8 Consensus size: 35
70267 ATCTTTCCTC
* * * *
70277 TAAAGCCCACAATTCCGTGGCATTCTTTTTCCTTC
1 TAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTT
* *
70312 TAAA-CCCACGACTCCGTGGCACTCTTTTTCCCTTT
1 TAAAGCCCACAACTCCGTGGCACTCTTGTT-CCTTT
* *
70347 T-AAGTCCACGACTCCGTGGCAC-C---TT-CTTT
1 TAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTT
*
70376 TCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 T-AAAGCCCACAACTCCGTGGCACTCTTGTT-CCTTT
70413 TAAAGCCCACAACTCCGTGGCAC-CTTGTT-CTTT
1 TAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTT
* * *
70446 TTAAG-TCACAACTTCGTGGCA-TCTT
1 TAAAGCCCACAACTCCGTGGCACTCTT
70471 TCACCCTTTT
Statistics
Matches: 137, Mismatches: 11, Indels: 25
0.79 0.06 0.14
Matches are distributed among these distances:
29 5 0.04
31 21 0.15
32 18 0.13
33 8 0.06
34 25 0.18
35 33 0.24
36 22 0.16
37 5 0.04
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (35 bp):
TAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTT
Found at i:70478 original size:67 final size:67
Alignment explanation
Indices: 70211--70522 Score: 238
Period size: 66 Copynumber: 4.7 Consensus size: 67
70201 CTCTGTGGCA
** * * * * *
70211 CCCTTTT-AAGCCCACAACTCAATGGCATC-TCTTTCCAAAGTCCACGACTCAGTGGCA-TC--T
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
70271 TT
66 TT
* * * * *
70273 -CC-TCTAAAGCCCACAATTCCGTGGCATTCTTTTTCCTTCTAAA-CCCACGACTCCGTGGCACT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-CCTTCTT--TTC-AAAGCCCACAACTCCGTGGCACT
70335 CTTTTT
62 CTTTTT
* *
70341 CCCTTTT-AAGTCCACGACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
70405 TT
66 TT
* * *
70407 CCCTTTTAAAGCCCACAACTCCGTGGCACCTTGTTCTTTT-TAAG-TCACAACTTCGTGGCA-TC
1 CCCTTTTAAAGCCCACAACTCCGTGGCACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACTC
**
70469 TTTCA
63 TTTTT
* * *
70474 CCCTTTTAAAGCCGACACAAGTCGGTGGCAACC--CTTCTCAAAGCCCACA
1 CCCTTTTAAAGCC--CACAACTCCGTGGC-ACCTTCTTTTCAAAGCCCACA
70523 CAAGTCGGTG
Statistics
Matches: 202, Mismatches: 27, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
60 2 0.01
61 19 0.09
62 2 0.01
63 3 0.01
65 24 0.12
66 42 0.21
67 42 0.21
68 22 0.11
69 34 0.17
70 12 0.06
ACGTcount: A:0.22, C:0.35, G:0.13, T:0.30
Consensus pattern (67 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTT
TT
Found at i:70518 original size:32 final size:33
Alignment explanation
Indices: 70473--70641 Score: 238
Period size: 33 Copynumber: 5.2 Consensus size: 33
70463 GGCATCTTTC
*
70473 ACCCTT-T-TAAAGCCGACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
70504 ACCCTTCTC-AAAGCCCACACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
** *
70536 ACCC-TCTCTAAAGCCCACACAAGTTAGTCGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
70568 ACCATTCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
* *
70601 ACCATTCTCTAAAGCCCGCACAAGTCGGTGGCA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
70634 ACCCTTCT
1 ACCCTTCT
70642 AAGCCCCATA
Statistics
Matches: 124, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
31 10 0.08
32 50 0.40
33 64 0.52
ACGTcount: A:0.28, C:0.34, G:0.18, T:0.20
Consensus pattern (33 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:70754 original size:43 final size:43
Alignment explanation
Indices: 70649--71105 Score: 356
Period size: 43 Copynumber: 9.8 Consensus size: 43
70639 TCTAAGCCCC
* *
70649 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACC----TC--CAAGTCCA
* * *
70698 ATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCATGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTCCAAGTCCA
*
70741 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACC----TC--C---AAGTCCA
* * *
70793 ATATAGCTGGCCCTAAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCTA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACC---T-C--C---AAGTCCA
* * *
70845 ATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCCAAGCCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTCCAAGTCCA
* *
70888 ATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C-TC--CAAGTCCA
* * * **
70937 ATGTAGCTGGCCTTGAATCAGTACATTGGCACCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTCCAAGTCCA
*
70980 ATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCTTCTTTAAGTCCA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACC-TC--C---AAGTCCA
* * ** *
71029 ATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCTA
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCTCCAAGTCCA
*
71072 ATATAGCTGGCCTTGAATCAGGATATTGGCACCT
1 ATATAGCTGGCCTTGAATCAGCATATTGGCACCT
71106 TTTCCATCTT
Statistics
Matches: 342, Mismatches: 44, Indels: 50
0.78 0.10 0.11
Matches are distributed among these distances:
43 143 0.42
44 2 0.01
45 3 0.01
46 3 0.01
47 4 0.01
48 3 0.01
49 102 0.30
51 4 0.01
52 78 0.23
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (43 bp):
ATATAGCTGGCCTTGAATCAGCATATTGGCACCTCCAAGTCCA
Found at i:70814 original size:52 final size:51
Alignment explanation
Indices: 70736--71222 Score: 447
Period size: 52 Copynumber: 10.0 Consensus size: 51
70726 GCACCTCCAT
*
70736 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTTCATCTTTAA
* *
70788 GTCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTTTCCATCTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAA
* * *
70840 GTCTAATGTAGCTGGCCTTGAATCAGCACATTGGCACC---TC--C---AA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
* * *
70883 GCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA--TCTTCATCTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
* * *
70932 GTCCAATGTAGCTGGCCTTGAATCAGTACATTGGCA------C--CTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
* *
70975 GTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC--TTCTTCTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
* *
71024 GTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA------C--CTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
* *
71067 GTCTAATATAGCTGGCCTTGAATCAGGATATTGGCACCTTTTCCATCTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAA
* * * *
71119 GTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAA
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC--TTT-TCATCTTTAA
* * * * * *
71174 GCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTT
1 GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTT
71223 TCTCATCTTC
Statistics
Matches: 361, Mismatches: 46, Indels: 57
0.78 0.10 0.12
Matches are distributed among these distances:
43 109 0.30
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 1 0.00
49 73 0.20
50 1 0.00
51 8 0.02
52 119 0.33
53 2 0.01
54 1 0.00
55 39 0.11
56 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (51 bp):
GTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAA
Found at i:70814 original size:95 final size:92
Alignment explanation
Indices: 70649--70826 Score: 293
Period size: 95 Copynumber: 1.9 Consensus size: 92
70639 TCTAAGCCCC
* * *
70649 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCCTAA
70714 ATCAGCACATTGGCACCTCCATGTCCA
66 ATCAGCACATTGGCACCTCCATGTCCA
70741 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTTCATCTTTAAGTCCAATATAGCTGGCCC
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACC--TTT-ATCTTTAAGTCCAATATAGCTGGCCC
*
70806 TAAATCAGCATATTGGCACCT
63 TAAATCAGCACATTGGCACCT
70827 TTTCCATCTT
Statistics
Matches: 79, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
92 33 0.42
94 3 0.04
95 43 0.54
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (92 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATATAGCTGGCCCTAA
ATCAGCACATTGGCACCTCCATGTCCA
Found at i:70953 original size:92 final size:94
Alignment explanation
Indices: 70782--71160 Score: 559
Period size: 92 Copynumber: 4.0 Consensus size: 94
70772 CCTTTTTCAT
* * * *
70782 CTTTAAGTCCAATATAGCTGGCCCTAAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCTAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTCTTCCATCTTTAAGTCCAAT
70847 GTAGCTGGCCTTGAATCAGCACATTGGCAC
65 GTAGCTGGCCTTGAATCAGCACATTGGCAC
** * *
70877 CTCCAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA-TCTT-CATCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTTCCATCTTTAAGTCCAATG
*
70940 TAGCTGGCCTTGAATCAGTACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
70969 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC-CTT-CTTCTTTAAGTCCAATG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTTCCATCTTTAAGTCCAATG
71032 TAGCTGGCCTTGAATCAGCACATTGGCAC
66 TAGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
71061 CTTTAAGTCTAATATAGCTGGCCTTGAATCAGGATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTCTTCCATCTTTAAGTCCAAT
*
71126 GTAGCTGGCCTTGAATCAGCACATTGACATC
65 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
71157 CTTT
1 CTTT
71161 TTCTCATCTT
Statistics
Matches: 257, Mismatches: 22, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
92 168 0.65
93 4 0.02
94 2 0.01
95 78 0.30
96 5 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (94 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:72049 original size:19 final size:18
Alignment explanation
Indices: 72024--72091 Score: 74
Period size: 19 Copynumber: 3.9 Consensus size: 18
72014 AATTCAACGA
*
72024 TTTGTATTGATACATAAG
1 TTTGTATCGATACATAAG
72042 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
72058 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
72074 TATTGTATCGATACATAA
1 T-TTGTATCGATACATAA
72092 TTAGCTACTA
Statistics
Matches: 42, Mismatches: 1, Indels: 13
0.75 0.02 0.23
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
18 1 0.02
19 26 0.62
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:72062 original size:32 final size:32
Alignment explanation
Indices: 72026--72088 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
72016 TTCAACGATT
* *
72026 TGTATTGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
72058 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
72089 TAATTAGCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:72063 original size:13 final size:13
Alignment explanation
Indices: 72045--72069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
72035 ACATAAGTGT
72045 TGTATCGATACAA
1 TGTATCGATACAA
72058 TGTATCGATACA
1 TGTATCGATACA
72070 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:75305 original size:20 final size:20
Alignment explanation
Indices: 75280--75318 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
75270 CTACCATCGT
75280 TTGTATCGATACATGGTATA
1 TTGTATCGATACATGGTATA
*
75300 TTGTATCGATACATTGTAT
1 TTGTATCGATACATGGTAT
75319 CGATACATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.18, T:0.44
Consensus pattern (20 bp):
TTGTATCGATACATGGTATA
Found at i:75315 original size:13 final size:13
Alignment explanation
Indices: 75299--75326 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
75289 TACATGGTAT
75299 ATTGTATCGATAC
1 ATTGTATCGATAC
75312 ATTGTATCGATAC
1 ATTGTATCGATAC
75325 AT
1 AT
75327 AATGAATTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:75317 original size:33 final size:33
Alignment explanation
Indices: 75280--75347 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
75270 CTACCATCGT
**
75280 TTGTATCGATACATGGT-ATATTGTATCGATACA
1 TTGTATCGATACATAATGA-ATTGTATCGATACA
75313 TTGTATCGATACATAATGAATTGTATCGATACA
1 TTGTATCGATACATAATGAATTGTATCGATACA
75346 TT
1 TT
75348 ACTTGTAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (33 bp):
TTGTATCGATACATAATGAATTGTATCGATACA
Found at i:75335 original size:20 final size:20
Alignment explanation
Indices: 75312--75408 Score: 74
Period size: 20 Copynumber: 4.8 Consensus size: 20
75302 GTATCGATAC
75312 ATTGTATCGATACATAATGA
1 ATTGTATCGATACATAATGA
*
75332 ATTGTATCGATACATTACTTGTA
1 ATTGTATCGATACA-TA-ATG-A
* * * *
75355 ATGGCTAT-AATTTCA-AATCA
1 ATTG-TATCGA-TACATAATGA
*
75375 A-TGTATCGATACATTATGA
1 ATTGTATCGATACATAATGA
75394 ATTGTATCGATACAT
1 ATTGTATCGATACAT
75409 GGCTATGGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 16
0.68 0.13 0.19
Matches are distributed among these distances:
18 6 0.10
19 6 0.10
20 29 0.50
21 3 0.05
22 3 0.05
23 5 0.09
24 6 0.10
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATAATGA
Found at i:79635 original size:34 final size:35
Alignment explanation
Indices: 79597--79663 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
79587 CCTTACAACA
79597 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
79631 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
79664 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:80140 original size:13 final size:13
Alignment explanation
Indices: 80122--80147 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80112 CAATTTTTTG
80122 TGTATCGATACAT
1 TGTATCGATACAT
80135 TGTATCGATACAT
1 TGTATCGATACAT
80148 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:80162 original size:32 final size:33
Alignment explanation
Indices: 80102--80165 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
80092 TACAAGCCAA
** *
80102 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATACTTGGTGTATCGATACAT
80135 TGTATCGATAC-ATACTTGGTGTATCGATACA
1 TGTATCGATACAATACTTGGTGTATCGATACA
80166 AGTTTGGCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.61
33 11 0.39
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATACTTGGTGTATCGATACAT
Found at i:80232 original size:20 final size:20
Alignment explanation
Indices: 80207--80279 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
80197 CAACTTTTTT
80207 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
* ****
80227 ATGTATCGATATATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
80248 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
80268 ATGTATCGATAC
1 ATGTATCGATAC
80280 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:80245 original size:41 final size:41
Alignment explanation
Indices: 80186--80279 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
80176 CTGCCAAGAA
*
80186 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
* *
80227 ATGTATCGATATATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
80268 ATGTATCGATAC
1 ATGTATCGATAC
80280 TTTGAATTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:80252 original size:21 final size:21
Alignment explanation
Indices: 80186--80261 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 21
80176 CTGCCAAGAA
* *
80186 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
80207 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
*
80227 ATGTATCGATATATCTTTTTC
1 ATGTATCGATACATCTTTTTC
80248 ATGTATCGATACAT
1 ATGTATCGATACAT
80262 TGCAACATGT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 14 0.33
21 28 0.67
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:81066 original size:18 final size:18
Alignment explanation
Indices: 81043--81079 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
81033 AAGAGGGAAA
81043 TTGTTAGGATCTTGGTTT
1 TTGTTAGGATCTTGGTTT
81061 TTGTTAGGATCTTGGTTT
1 TTGTTAGGATCTTGGTTT
81079 T
1 T
81080 GATATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.05, G:0.27, T:0.57
Consensus pattern (18 bp):
TTGTTAGGATCTTGGTTT
Found at i:81444 original size:13 final size:13
Alignment explanation
Indices: 81426--81450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
81416 TAGCCAAACT
81426 TGTATCGATACAA
1 TGTATCGATACAA
81439 TGTATCGATACA
1 TGTATCGATACA
81451 CAAAAAATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:85542 original size:15 final size:15
Alignment explanation
Indices: 85522--85552 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
85512 TAAAAATGTC
*
85522 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
85537 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
85552 C
1 C
85553 TAAACGAAAT
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:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:87640 original size:13 final size:13
Alignment explanation
Indices: 87622--87660 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
87612 ACATTTTTCT
87622 TTGTATCGATACA
1 TTGTATCGATACA
87635 TTGTATCGATACA
1 TTGTATCGATACA
*
87648 CTGTATCGATACA
1 TTGTATCGATACA
87661 GGAGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:87824 original size:20 final size:19
Alignment explanation
Indices: 87783--87825 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
87773 ATCTTTTACA
87783 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
87803 AAATCACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
87823 AAA
1 AAA
87826 ACCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.30, C:0.21, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:91474 original size:20 final size:19
Alignment explanation
Indices: 91449--91486 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 19
91439 TTTCAAATGC
91449 TTGTATCGATACATTATGAA
1 TTGTATCGATACA-TATGAA
91469 TTGTATCGATACATATGA
1 TTGTATCGATACATATGA
91487 GCATGAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.39
Consensus pattern (19 bp):
TTGTATCGATACATATGAA
Found at i:97684 original size:19 final size:17
Alignment explanation
Indices: 97647--97680 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
97637 TAAAAACAAT
*
97647 AAAAATAAAAGCTCTTG
1 AAAAATAAAAACTCTTG
97664 AAAATATAAAAACTCTT
1 AAAA-ATAAAAACTCTT
97681 TGAACTTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.56, C:0.12, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAAATAAAAACTCTTG
Found at i:97961 original size:34 final size:32
Alignment explanation
Indices: 97918--97982 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
97908 TACAAGCCAA
97918 TGTATCGATACAAT-TTGGTCATGTATCGATACAT
1 TGTATCGATAC-ATCTT-GT-ATGTATCGATACAT
97952 TGTATCGATACATCTTGTATGTATCGATACA
1 TGTATCGATACATCTTGTATGTATCGATACA
97983 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 13 0.43
33 4 0.13
34 13 0.43
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATCTTGTATGTATCGATACAT
Found at i:97971 original size:15 final size:13
Alignment explanation
Indices: 97939--97964 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
97929 AATTTGGTCA
97939 TGTATCGATACAT
1 TGTATCGATACAT
97952 TGTATCGATACAT
1 TGTATCGATACAT
97965 CTTGTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:98071 original size:20 final size:21
Alignment explanation
Indices: 98024--98076 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
98014 ACTAATCACC
*
98024 TGTATCGATACATTCTTTGTA
1 TGTATCGATACATTCTTGGTA
*
98045 AGTATCGATACA-T-TTGGTCA
1 TGTATCGATACATTCTTGGT-A
98065 TGTATCGATACA
1 TGTATCGATACA
98077 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 4 0.14
20 13 0.46
21 11 0.39
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATTCTTGGTA
Found at i:98082 original size:13 final size:13
Alignment explanation
Indices: 98064--98088 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
98054 ACATTTGGTC
98064 ATGTATCGATACA
1 ATGTATCGATACA
98077 ATGTATCGATAC
1 ATGTATCGATAC
98089 TATGCATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:98121 original size:20 final size:19
Alignment explanation
Indices: 98098--98136 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
98088 CTATGCATTA
98098 TGTATCGATACATTTGAAGG
1 TGTATCGATACATTT-AAGG
98118 TGTATCGATACATTTAAGG
1 TGTATCGATACATTTAAGG
98137 GTTTTGACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATTTAAGG
Found at i:98711 original size:22 final size:22
Alignment explanation
Indices: 98644--98711 Score: 111
Period size: 22 Copynumber: 3.1 Consensus size: 22
98634 TTTTCTTTTC
98644 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
*
98666 TATCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
98688 TCTCCCCCTTAAT-AAAACAATT
1 TCTCCCCCTTAATCAAAA-AATT
98710 TC
1 TC
98712 CTTTAATCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
21 4 0.09
22 39 0.91
ACGTcount: A:0.37, C:0.31, G:0.00, T:0.32
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:100592 original size:13 final size:13
Alignment explanation
Indices: 100574--100611 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
100564 ATAAACCCTT
*
100574 TGTATCGATACAC
1 TGTATCGATACAA
100587 TGTATCGATACAA
1 TGTATCGATACAA
*
100600 TGTATCAATACA
1 TGTATCGATACA
100612 GAGAATGCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:106795 original size:34 final size:32
Alignment explanation
Indices: 106752--106814 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 32
106742 TACAAGCCAA
106752 TGTATCGATACAAT-TTGGTCATGTATCGATACAT
1 TGTATCGATAC-ATCTT-GT-ATGTATCGATACAT
106786 TGTATCGATACATCTTGTATGTATCGATA
1 TGTATCGATACATCTTGTATGTATCGATA
106815 TAAACAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
32 11 0.39
33 4 0.14
34 13 0.46
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATCTTGTATGTATCGATACAT
Found at i:106805 original size:15 final size:13
Alignment explanation
Indices: 106773--106798 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
106763 AATTTGGTCA
106773 TGTATCGATACAT
1 TGTATCGATACAT
106786 TGTATCGATACAT
1 TGTATCGATACAT
106799 CTTGTATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:107532 original size:98 final size:98
Alignment explanation
Indices: 107337--107529 Score: 223
Period size: 98 Copynumber: 2.0 Consensus size: 98
107327 ACTGTTCTTG
* * * *
107337 AACTTAGTAAGATTTAAATCTTATTTTTGCTTGAATTGTCATCATTGAAGATACTCCAACCCTCT
1 AACTTAGTAAGATTTAAACCTTATTTTTGCTTAAATTGTCATCATAGAAGATACTCCAACCCTAT
* **
107402 TCTTCTAAGGGTATACTCTAACCTTATTTTTAA
66 TCTTCTAAGGGTATACTCCAACCCCATTTTTAA
* * * *
107435 AACTT-GTCAAGATTTAAACCTTATTTTTGCTTAAATTGTTATCATCAG-GGATATTCCAACCTT
1 AACTTAGT-AAGATTTAAACCTTATTTTTGCTTAAATTGTCATCAT-AGAAGATACTCCAACCCT
*
107498 ATTCCTT-TGAGGG-ATACTCCAACCCCATTTTT
64 ATT-CTTCTAAGGGTATACTCCAACCCCATTTTT
107530 TAACCAAAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
97 18 0.22
98 58 0.73
99 4 0.05
ACGTcount: A:0.28, C:0.20, G:0.11, T:0.41
Consensus pattern (98 bp):
AACTTAGTAAGATTTAAACCTTATTTTTGCTTAAATTGTCATCATAGAAGATACTCCAACCCTAT
TCTTCTAAGGGTATACTCCAACCCCATTTTTAA
Found at i:110688 original size:157 final size:155
Alignment explanation
Indices: 110359--110918 Score: 521
Period size: 157 Copynumber: 3.6 Consensus size: 155
110349 TACTTTAGAG
* * * * * * *
110359 ATAAAAATGGGGTTAGAGTATCCCATTGAAAATAACGGGGTTGGAATATCCCCGA-GAT-GAAAA
1 ATAAAAATGAGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAA
* * *
110422 TCTTAATATTTTGGGAAAAAAAATAGGGTTTGAGTA-CCCTCTTAGAAATAACGGGATTGGAGTA
66 TC--AATATTTT-GG-AAAAAAATCGGGTTGGAGTATCCC-CTCAGAAATAACGGG-TTGGAGTA
* * **
110486 TCCC--TGAGATGAGGAATTTAATATTTT-AGAA
125 TCCCAATG-GATGA-AAAATCGATATTTTGA-AA
* *
110517 AT--AAATCGACGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGCAAAAA
1 ATAAAAAT-GAGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAA
*
110580 ATCAATATTTTGGAAAAAAATCGGAGTTGGAGTATCCCCTCAGAAATAATGAGGTTGGAGTATCC
65 ATCAATATTTTGGAAAAAAATCGG-GTTGGAGTATCCCCTCAGAAATAACG-GGTTGGAGTATCC
110645 ACAATGG-TGAAAAATCGATATTTTGAAA
128 -CAATGGATGAAAAATCGATATTTTGAAA
* ** ** * * *
110673 ATAAAAATGAGGTTGGAGTATTCCCTCAAAAATAATGGGGTAGGAGTATCCTCGATGGTGAAAAA
1 ATAAAAATGAGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAA
* * *
110738 TCGATATTTTGGAAATAAAATTGGGATTGGAGTATCCCTTC-GAAAATAACGGGGTTGGAGTATC
66 TCAATATTTTGGAAA-AAAATCGGG-TTGGAGTATCCCCTCAG-AAATAAC-GGGTTGGAGTAT-
* * ** *
110802 CCCAATGGTTAAAAAATCGACGTTTTGGAA
126 CCCAATGGATGAAAAATCGATATTTTGAAA
* * *
110832 ATAAAAATGGGGTTGGAGAATCTCCTTGAAAATAA-AGGGGTTGGAGTATCCCCGATGGTAAAAA
1 ATAAAAATGAGGTTGGAGTATCCCCTTGAAAATAACA-GGGTTGGAGTATCCCCGATGGTAAAAA
** *
110896 ATTGATATTTTGGAAATAAATCG
65 ATCAATATTTTGGAAAAAAATCG
110919 ATAAGGTGGT
Statistics
Matches: 335, Mismatches: 48, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
155 10 0.03
156 50 0.15
157 122 0.36
158 57 0.17
159 96 0.29
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (155 bp):
ATAAAAATGAGGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGTAAAAAA
TCAATATTTTGGAAAAAAATCGGGTTGGAGTATCCCCTCAGAAATAACGGGTTGGAGTATCCCAA
TGGATGAAAAATCGATATTTTGAAA
Found at i:110863 original size:80 final size:78
Alignment explanation
Indices: 110359--110915 Score: 502
Period size: 79 Copynumber: 7.1 Consensus size: 78
110349 TACTTTAGAG
* * * *
110359 ATAAAAATGGGGTTAGAGTATCCCATTGAAAATAACGGGGTTGGAATATCCCCGA-GAT-GAAAA
1 ATAAAAATGGGGTTGGAGTATCCC-TTGAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAAAA
*
110422 TCTTAATATTTTGGGAA
65 TC--GATATTTT-GGAA
* * * * * * **
110439 A-AAAAATAGGGTTTGAGTA-CCCTCTTAGAAATAACGGGATTGGAGTATCCCTGA-GATGAGGA
1 ATAAAAATGGGGTTGGAGTATCCCT-TGA-AAATAACGGGGTTGGAGTATCCCCGATGGT-AAAA
* ** *
110501 ATTTAATATTTTAGAA
63 AATCGATATTTTGGAA
** * *
110517 AT--AAATCGACGTTGGAGTATCCCCTTGAAAATAACAGGGTTGGAGTATCCCCGATGGCAAAAA
1 ATAAAAAT-GGGGTTGGAGTAT-CCCTTGAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAAA
*
110580 ATCAATATTTTGG-A
64 ATCGATATTTTGGAA
* * * * * * * *
110594 A-AAAAATCGGAGTTGGAGTATCCCCTCAGAAATAATGAGGTTGGAGTATCCACAATGGTGAAAA
1 ATAAAAAT-GGGGTTGGAGTATCCCTTGA-AAATAACGGGGTTGGAGTATCCCCGATGGTAAAAA
*
110658 ATCGATATTTTGAAA
64 ATCGATATTTTGGAA
* ** * * * *
110673 ATAAAAATGAGGTTGGAGTATTCCCTCAAAAATAATGGGGTAGGAGTATCCTCGATGGTGAAAAA
1 ATAAAAATGGGGTTGGAGTA-TCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAAAA
110738 TCGATATTTTGGAA
65 TCGATATTTTGGAA
* * *
110752 ATAAAATTGGGATTGGAGTATCCCTTCGAAAATAACGGGGTTGGAGTATCCCCAATGGTTAAAAA
1 ATAAAAATGGGGTTGGAGTATCCCTT-GAAAATAACGGGGTTGGAGTATCCCCGATGG-TAAAAA
**
110817 ATCGACGTTTTGGAA
64 ATCGATATTTTGGAA
* *
110832 ATAAAAATGGGGTTGGAGAATCTCCTTGAAAATAAAGGGGTTGGAGTATCCCCGATGGTAAAAAA
1 ATAAAAATGGGGTTGGAGTATC-CCTTGAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAAAA
*
110897 TTGATATTTTGGAA
65 TCGATATTTTGGAA
110911 ATAAA
1 ATAAA
110916 TCGATAAGGT
Statistics
Matches: 391, Mismatches: 68, Indels: 37
0.79 0.14 0.07
Matches are distributed among these distances:
77 12 0.03
78 113 0.29
79 176 0.45
80 82 0.21
81 8 0.02
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (78 bp):
ATAAAAATGGGGTTGGAGTATCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATGGTAAAAAAT
CGATATTTTGGAA
Found at i:110881 original size:159 final size:158
Alignment explanation
Indices: 110527--110915 Score: 509
Period size: 159 Copynumber: 2.5 Consensus size: 158
110517 ATAAATCGAC
* * *
110527 GTTGGAGTATCCCCTTGAAAATAACA-GGGTTGGAGTATCCCCGATGGCAAAAAATCAATATTTT
1 GTTGGAGTATCTCCTTGAAAATAA-AGGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTT
* *
110591 GGAAA-AAAATCGGAGTTGGAGTATCCCCTCAGAAATAATGAGGTTGGAGTATCCACAATGGTGA
65 GGAAATAAAATCGGAGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCACAATGGTAA
*
110655 AAAATCGATATTTTGAAAATAAAAATGAG
130 AAAATCGACATTTTGAAAATAAAAATGAG
** * * * *
110684 GTTGGAGTAT-TCCCTCAAAAATAATGGGGTAGGAGTATCCTCGATGGTGAAAAATCGATATTTT
1 GTTGGAGTATCT-CCTTGAAAATAAAGGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTT
* * * *
110748 GGAAATAAAATTGG-GATTGGAGTATCCCTTC-GAAAATAACGGGGTTGGAGTATCCCCAATGGT
65 GGAAATAAAATCGGAG-TTGGAGTATCCCCTCAG-AAATAACGAGGTTGGAGTATCCACAATGG-
* * *
110811 TAAAAAATCGACGTTTTGGAAATAAAAATGGG
127 TAAAAAATCGACATTTTGAAAATAAAAATGAG
* *
110843 GTTGGAGAATCTCCTTGAAAATAAAGGGGTTGGAGTATCCCCGATGGTAAAAAATTGATATTTTG
1 GTTGGAGTATCTCCTTGAAAATAAAGGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTG
110908 GAAATAAA
66 GAAATAAA
110916 TCGATAAGGT
Statistics
Matches: 198, Mismatches: 27, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
157 60 0.30
158 47 0.24
159 90 0.45
160 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (158 bp):
GTTGGAGTATCTCCTTGAAAATAAAGGGGTTGGAGTATCCCCGATGGTAAAAAATCGATATTTTG
GAAATAAAATCGGAGTTGGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCACAATGGTAAA
AAATCGACATTTTGAAAATAAAAATGAG
Found at i:110941 original size:56 final size:57
Alignment explanation
Indices: 110866--110973 Score: 157
Period size: 56 Copynumber: 1.9 Consensus size: 57
110856 CTTGAAAATA
* *
110866 AAGGGGTTGGAGTATCCCCGATGGT-AAAAAA-TTGATATTTTGGAAATAAATCGAT
1 AAGGGGTTAGAGTATCCCCGATGATAAAAAAATTTGATATTTTGGAAATAAATCGAT
* *
110921 AAGGTGGTTAGAGTTTCCCCGATGATAAAAAAATTTGATGTTTTGGAAATAAA
1 AAGG-GGTTAGAGTATCCCCGATGATAAAAAAATTTGATATTTTGGAAATAAA
110974 AAAATCAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
55 4 0.09
56 18 0.39
57 6 0.13
58 18 0.39
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.31
Consensus pattern (57 bp):
AAGGGGTTAGAGTATCCCCGATGATAAAAAAATTTGATATTTTGGAAATAAATCGAT
Found at i:113305 original size:20 final size:21
Alignment explanation
Indices: 113280--113333 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
113270 CATTTTAGGC
113280 ATGTATCGATACATTCACT-T
1 ATGTATCGATACATTCACTAT
*
113300 ATGTATCGATACATTTACTAT
1 ATGTATCGATACATTCACTAT
* *
113321 TTGTATCAATACA
1 ATGTATCGATACA
113334 AATTATAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATTCACTAT
Found at i:118195 original size:12 final size:12
Alignment explanation
Indices: 118180--118204 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
118170 TAATTTTCAA
118180 TATCAAAGATGT
1 TATCAAAGATGT
118192 TATCAAAGATGT
1 TATCAAAGATGT
118204 T
1 T
118205 TTTCAAGCAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TATCAAAGATGT
Found at i:118792 original size:33 final size:32
Alignment explanation
Indices: 118731--118798 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
118721 GTAGCTAAAC
**
118731 TTGTATCGATACACATAGTATGTATCGATACA
1 TTGTATCGATACACATAAAATGTATCGATACA
*
118763 TTGTATCGATGCATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CATAAAATGTATCGATACA
118796 TTG
1 TTG
118799 GCTTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACACATAAAATGTATCGATACA
Found at i:124975 original size:13 final size:13
Alignment explanation
Indices: 124957--124981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
124947 CAACATTCTT
124957 TGTATCGATACAC
1 TGTATCGATACAC
124970 TGTATCGATACA
1 TGTATCGATACA
124982 AGGGGATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:125148 original size:20 final size:20
Alignment explanation
Indices: 125113--125153 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
125103 CAAAATTCTT
125113 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
125135 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
125154 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:126834 original size:33 final size:33
Alignment explanation
Indices: 126777--126859 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
126767 TAAATTTTTT
*
126777 ATTAAGGGGGAGAA--AGAGATAAGTGCTTATG
1 ATTAAGGGGGAGAATGCGAGATAAGTGCTTATG
126808 ATTAAGGGGGAGAATGCGAGATAAGTGCTTATG
1 ATTAAGGGGGAGAATGCGAGATAAGTGCTTATG
*
126841 ATTAAGAGGGAGAATGCGA
1 ATTAAGGGGGAGAATGCGA
126860 ATTTGTTGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 14 0.29
33 34 0.71
ACGTcount: A:0.37, C:0.05, G:0.36, T:0.22
Consensus pattern (33 bp):
ATTAAGGGGGAGAATGCGAGATAAGTGCTTATG
Found at i:127460 original size:20 final size:20
Alignment explanation
Indices: 127435--127484 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
127425 ACCCTGAAAA
*
127435 GTATCGATACACATTTAATT
1 GTATCGATACACATTGAATT
** *
127455 GTATCGATACATGTTGCATT
1 GTATCGATACACATTGAATT
127475 GTATCGATAC
1 GTATCGATAC
127485 TTGAAAAAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (20 bp):
GTATCGATACACATTGAATT
Found at i:127579 original size:32 final size:33
Alignment explanation
Indices: 127538--127605 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
127528 GTAGCTAAAC
**
127538 TTGTATTGATACA-CATAGTATGTATCGATACA
1 TTGTATTGATACATCATAAAATGTATCGATACA
127570 TTGTATTGATACATCATAAAATGTATCGATACA
1 TTGTATTGATACATCATAAAATGTATCGATACA
127603 TTG
1 TTG
127606 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (33 bp):
TTGTATTGATACATCATAAAATGTATCGATACA
Found at i:132639 original size:13 final size:13
Alignment explanation
Indices: 132621--132646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132611 ATACAAAGAT
132621 CAATGTATCGATA
1 CAATGTATCGATA
132634 CAATGTATCGATA
1 CAATGTATCGATA
132647 TATGGAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:132667 original size:33 final size:33
Alignment explanation
Indices: 132622--132697 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
132612 TACAAAGATC
*
132622 AATGTATCGATACAATGTATCGATATATGGAAT
1 AATGTATCGATACAATGTATCGATACATGGAAT
* * *
132655 ATTGTATTGATACAATGTATCGATACATTGAAT
1 AATGTATCGATACAATGTATCGATACATGGAAT
132688 AATGTATCGA
1 AATGTATCGA
132698 AACATTTCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (33 bp):
AATGTATCGATACAATGTATCGATACATGGAAT
Found at i:132744 original size:13 final size:13
Alignment explanation
Indices: 132728--132753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
132718 CAGGGCAACT
132728 TTGTATCGATACA
1 TTGTATCGATACA
132741 TTGTATCGATACA
1 TTGTATCGATACA
132754 ACACTTATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:133042 original size:49 final size:49
Alignment explanation
Indices: 132984--133094 Score: 123
Period size: 49 Copynumber: 2.2 Consensus size: 49
132974 AACCATTTTC
* * * * * *
132984 GCCAGGCGATATTGGTCTTAAAGATAAAGCTGCTAATATGCTGATTCGAG
1 GCCA-GCGATATTGGACTTAAAAATAAAGATGCCAATATACTGATTCAAG
* * *
133034 GCCAGCGATATCGGACTTAAAAATGATGATGCCAATATACTGATTCAAG
1 GCCAGCGATATTGGACTTAAAAATAAAGATGCCAATATACTGATTCAAG
*
133083 TCCAGCGATATT
1 GCCAGCGATATT
133095 TGGCTTATGC
Statistics
Matches: 50, Mismatches: 11, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
49 46 0.92
50 4 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCAGCGATATTGGACTTAAAAATAAAGATGCCAATATACTGATTCAAG
Found at i:133181 original size:88 final size:87
Alignment explanation
Indices: 133024--133260 Score: 253
Period size: 88 Copynumber: 2.7 Consensus size: 87
133014 TGCTAATATG
* * * * * * *
133024 CTGATTCGAGGCCAGCGATATCGGACTTAAAAATGATGATGCCAATATACTGATTCAAGTCCAGC
1 CTGATTCAAGGCCAGCGACATCGG-CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAAC
* *
133089 GATATTTGGCTTATGCCAATGTG
65 GATATTGGGCTTATGCCAATGTA
* * * * * *
133112 TTGATTCAATGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATGCTGATTTAAGGCTAAT
1 CTGATTCAAGGCCAGCGACATCGG-CTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAAC
*
133177 GATATTGGGCTTGTGCCAATGTA
65 GATATTGGGCTTATGCCAATGTA
* * * *
133200 CTGATTCAAGGCCAGCGACATTAGGCTTGAAGAAG-A-ATGCCAATGTGCTGATTCAAGGCCA
1 CTGATTCAAGGCCAGCGACA-TCGGCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
133261 GTGATTGGTC
Statistics
Matches: 122, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
86 22 0.18
87 1 0.01
88 96 0.79
89 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (87 bp):
CTGATTCAAGGCCAGCGACATCGGCTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCAACG
ATATTGGGCTTATGCCAATGTA
Found at i:133281 original size:47 final size:45
Alignment explanation
Indices: 133190--133321 Score: 124
Period size: 47 Copynumber: 2.8 Consensus size: 45
133180 ATTGGGCTTG
*
133190 TGCCAATGTACTGATTCAAGGCCAGCGACATTAGGCTTGAAGAAGAA
1 TGCCAATGTACTGATTCAAGGCCAGCGA-ATTAGGCTTAAAGAAG-A
* * *
133237 TGCCAATGTGCTGATTCAAGGCCAGTG-ATT-GGTCTTAAAGAGAAGG
1 TGCCAATGTACTGATTCAAGGCCAGCGAATTAGG-CTT-AA-AGAAGA
* * * *
133283 TGCTAATATACTGATTCAGGGCCAGCGATATTGGGCTTA
1 TGCCAATGTACTGATTCAAGGCCAGCGA-ATTAGGCTTA
133322 TGCCAATGTG
Statistics
Matches: 70, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
44 2 0.03
45 6 0.09
46 23 0.33
47 31 0.44
48 6 0.09
49 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (45 bp):
TGCCAATGTACTGATTCAAGGCCAGCGAATTAGGCTTAAAGAAGA
Found at i:133326 original size:132 final size:135
Alignment explanation
Indices: 133101--133353 Score: 332
Period size: 132 Copynumber: 1.9 Consensus size: 135
133091 TATTTGGCTT
* * *
133101 ATGCCAATGTGTTGATTCAATGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATACTGAT
* * * *
133166 TTAAGGCTAATGATATTGGGCTTGTGCCAATGTACTGATTCAAGGCCAGCGACATTAGGCTTGAA
66 TCAAGGCCAACGATATTGGGCTTATGCCAATGTACTGATTCAAGGCCAGCGACATTAGGCTTGAA
133231 GAAGA
131 GAAGA
** * * *
133236 ATGCCAATGTGCTGATTCAAGGCC-A-GTGATTGGTCTTAAAGA-GAAGGTGCTAATATACTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATACTGAT
* * * * *
133298 TCAGGGCCAGCGATATTGGGCTTATGCCAATGTGCTGATTTAAGGCTAGCGACATT
66 TCAAGGCCAACGATATTGGGCTTATGCCAATGTACTGATTCAAGGCCAGCGACATT
133354 GGTCTTAGAG
Statistics
Matches: 101, Mismatches: 17, Indels: 3
0.83 0.14 0.02
Matches are distributed among these distances:
132 64 0.63
133 14 0.14
134 1 0.01
135 22 0.22
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (135 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATACTGAT
TCAAGGCCAACGATATTGGGCTTATGCCAATGTACTGATTCAAGGCCAGCGACATTAGGCTTGAA
GAAGA
Done.