Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007358.1 Hibiscus syriacus cultivar Beakdansim tig00019730_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104271
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:932 original size:43 final size:43
Alignment explanation
Indices: 879--1169 Score: 315
Period size: 43 Copynumber: 6.7 Consensus size: 43
869 AAGGTAATTA
* * *
879 GCGGCGTTTGTATCCAAAAATGTCGCTATAGATAT-GACCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATATCGACCTTTT
* * *
922 GCGGTGTTTGTATCAAAAAACGCCTCTATAGATAT-GATCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATATCGACCTTTT
965 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATAT-GACCTTTT
1 GCGGCGTTTGT-TCAAAAAACGCCGCTATAGATATCGACCTTTT
* * * *
1008 GCGGCGTTTGTTCCAGAAACGCC-ATGATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCT-ATAGATATCGACCTTTT
*
1051 GCGGCGTTTGTTCCAAAAAACGCCACTATAGATATAC-ACCTTTT
1 GCGGCGTTTGTT-CAAAAAACGCCGCTATAGATAT-CGACCTTTT
* * *
1095 ACGGCGTTTGTTCAAAAAATGCCGCTATAGATATCGATCTTTT
1 GCGGCGTTTGTTCAAAAAACGCCGCTATAGATATCGACCTTTT
* * * *
1138 ACGGCGTTTATTTC-AAAAACACTGCTATAGAT
1 GCGGCGTTT-GTTCAAAAAACGCCGCTATAGAT
1170 CTAGACCTAT
Statistics
Matches: 216, Mismatches: 25, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
41 1 0.00
42 18 0.08
43 158 0.73
44 37 0.17
45 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTGTTCAAAAAACGCCGCTATAGATATCGACCTTTT
Found at i:992 original size:86 final size:86
Alignment explanation
Indices: 879--1169 Score: 347
Period size: 86 Copynumber: 3.4 Consensus size: 86
869 AAGGTAATTA
* * * *
879 GCGGCGTTTGTATCCAAAAATGTCGCTATAGATATGACCTTTTGCGGTGTTTGTATCAAAAAACG
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGT-TCAAAAAACG
944 CCTCTATAGATAT-GATCTTTT
65 CCTCTATAGATATCGATCTTTT
* *
965 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAGAAACGC
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAACGC
* * *
1030 CAT-GATAGATCTCGACCTTTT
66 C-TCTATAGATATCGATCTTTT
* * * *
1051 GCGGCGTTTGT-TCCAAAAAACGCCACTATAGATATACACCTTTTACGGCGTTTGTTCAAAAAAT
1 GCGGCGTTTGTAT-CAAAAAACGCCGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCAAAAAAC
*
1115 GCCGCTATAGATATCGATCTTTT
64 GCCTCTATAGATATCGATCTTTT
* * * * *
1138 ACGGCGTTTATTTC-AAAAACACTGCTATAGAT
1 GCGGCGTTTGTATCAAAAAACGCCGCTATAGAT
1170 CTAGACCTAT
Statistics
Matches: 175, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
85 18 0.10
86 105 0.60
87 51 0.29
88 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (86 bp):
GCGGCGTTTGTATCAAAAAACGCCGCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAACGC
CTCTATAGATATCGATCTTTT
Found at i:1080 original size:129 final size:129
Alignment explanation
Indices: 906--1146 Score: 353
Period size: 129 Copynumber: 1.9 Consensus size: 129
896 AAATGTCGCT
* * * * *
906 ATAGATATGACCTTTTGCGGTGTTTGTATCAAAAAACGCCTCTATAGATAT-GATCTTTTGCGGC
1 ATAGATATGACCTTTTGCGGCGTTTGTATCAAAAAACGCCACTATAGATATACACCTTTTACGGC
*
970 GTTTGTATCAAAAAACGCCGCTATAGATAT-GACCTTTTGCGGCGTTTGTTCCAGAAACGCCATG
66 GTTTGT-TCAAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTTGTTCCAGAAACGCCATG
*
1034 ATAGATCTCGACCTTTTGCGGCGTTTGT-TCCAAAAAACGCCACTATAGATATACACCTTTTACG
1 ATAGATAT-GACCTTTTGCGGCGTTTGTAT-CAAAAAACGCCACTATAGATATACACCTTTTACG
* *
1098 GCGTTTGTTCAAAAAATGCCGCTATAGATATCGATCTTTTACGGCGTTT
64 GCGTTTGTTCAAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTT
1147 ATTTCAAAAA
Statistics
Matches: 100, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
128 8 0.08
129 61 0.61
130 31 0.31
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.33
Consensus pattern (129 bp):
ATAGATATGACCTTTTGCGGCGTTTGTATCAAAAAACGCCACTATAGATATACACCTTTTACGGC
GTTTGTTCAAAAAACGCCGCTATAGATATCGACCTTTTACGGCGTTTGTTCCAGAAACGCCATG
Found at i:1187 original size:130 final size:129
Alignment explanation
Indices: 922--1189 Score: 319
Period size: 130 Copynumber: 2.1 Consensus size: 129
912 ATGACCTTTT
* * * * *
922 GCGGTGTTTGTATCAAAAAACGCCTCTATAGATATGATCTTTTGCGGCGTTTGTATCAAAAAACG
1 GCGGCGTTTGTATCAAAAAACGCCACTATAGATATCACCTTTTACGGCGTTTGTATCAAAAAACG
* * * * * * *
987 CCGCTATAGATATGACCTTTTGCGGCGTTTGTTCCAGAAACGCCATGATAGATCTCGACCTTTT
66 CCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACACCATGATAGATCTAGACCTATG
1051 GCGGCGTTTGT-TCCAAAAAACGCCACTATAGATATACACCTTTTACGGCGTTTGT-TCAAAAAA
1 GCGGCGTTTGTAT-CAAAAAACGCCACTATAGATAT-CACCTTTTACGGCGTTTGTATCAAAAAA
* * *
1114 TGCCGCTATAGATATCGATCTTTTACGGCGTTTATTTCAAAAACA-C-TGCTATAGATCTAGACC
64 CGCCGCTATAGATAT-GACCTTTTACGGCGTTTATTCCAAAAACACCATG--ATAGATCTAGACC
1177 TATG
126 TATG
*
1181 GTGGCGTTT
1 GCGGCGTTT
1190 TTGGTTCTCA
Statistics
Matches: 118, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
128 3 0.03
129 54 0.46
130 61 0.52
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (129 bp):
GCGGCGTTTGTATCAAAAAACGCCACTATAGATATCACCTTTTACGGCGTTTGTATCAAAAAACG
CCGCTATAGATATGACCTTTTACGGCGTTTATTCCAAAAACACCATGATAGATCTAGACCTATG
Found at i:1399 original size:32 final size:32
Alignment explanation
Indices: 1341--1419 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 32
1331 GTAGTGGTGT
* *
1341 CTCCAAAAGACATG-TTTTATCTAAAAGGTAC
1 CTCCAAAAGTCATGATTTTATCAAAAAGGTAC
*
1372 CTCCAAAAGTCATGATTTTATCAAAAAGGTGC
1 CTCCAAAAGTCATGATTTTATCAAAAAGGTAC
*
1404 CTCCAAAAGTTATGAT
1 CTCCAAAAGTCATGAT
1420 GTTTTCATCA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
31 13 0.30
32 30 0.70
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (32 bp):
CTCCAAAAGTCATGATTTTATCAAAAAGGTAC
Found at i:2331 original size:29 final size:29
Alignment explanation
Indices: 2291--2464 Score: 174
Period size: 29 Copynumber: 6.1 Consensus size: 29
2281 GACCGAGGGG
* *
2291 TATTTTGGTAATTATTTCAAAAATGGTGG
1 TATTTTGGTAATTATTTTAAAAATGGTGA
* * *
2320 TATTTTTGTAATTATTTCAAAAATGGTGC
1 TATTTTGGTAATTATTTTAAAAATGGTGA
* * *
2349 TATTTTCGTAATT-TTTTTAAAA-GTTGA
1 TATTTTGGTAATTATTTTAAAAATGGTGA
* *
2376 TATTTTTGTAATTTATTTTAAAAA-AGTGA
1 TATTTTGGTAA-TTATTTTAAAAATGGTGA
* *
2405 TATTTTGGTAATTGTTTTGAAAATGGTGA
1 TATTTTGGTAATTATTTTAAAAATGGTGA
* * * *
2434 TATTTTAGAAATTATTTTGAAAATAGTGA
1 TATTTTGGTAATTATTTTAAAAATGGTGA
2463 TA
1 TA
2465 ATTGTGTAAA
Statistics
Matches: 123, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 13 0.11
28 19 0.15
29 91 0.74
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (29 bp):
TATTTTGGTAATTATTTTAAAAATGGTGA
Found at i:3209 original size:24 final size:24
Alignment explanation
Indices: 3182--3241 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 24
3172 TTTTTGACGG
* *
3182 GATACTTGACCTAGATTTTTATAT
1 GATACTTGACCTAGATTCTGATAT
* * *
3206 GATACATGACATAGATTCTGATCT
1 GATACTTGACCTAGATTCTGATAT
*
3230 GCTACTTGACCT
1 GATACTTGACCT
3242 GAATTATGTT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.28, C:0.18, G:0.15, T:0.38
Consensus pattern (24 bp):
GATACTTGACCTAGATTCTGATAT
Found at i:9443 original size:28 final size:28
Alignment explanation
Indices: 9411--9475 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
9401 GTTCCAACCC
9411 GACCCGACCCGTTGACCTGACCTGACCT
1 GACCCGACCCGTTGACCTGACCTGACCT
9439 GACCCGACCCGTTGACCTGACCTGACCT
1 GACCCGACCCGTTGACCTGACCTGACCT
*
9467 GACCTGACC
1 GACCCGACC
9476 TGACCTGACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.17
Consensus pattern (28 bp):
GACCCGACCCGTTGACCTGACCTGACCT
Found at i:9459 original size:5 final size:5
Alignment explanation
Indices: 9423--9485 Score: 90
Period size: 5 Copynumber: 12.0 Consensus size: 5
9413 CCCGACCCGT
*
9423 TGACC TGACC TGACC TGACC CGACCC GTTGACC TGACC TGACC TGACC
1 TGACC TGACC TGACC TGACC TGA-CC --TGACC TGACC TGACC TGACC
9471 TGACC TGACC TGACC
1 TGACC TGACC TGACC
9486 CGTTGAACGT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
5 47 0.89
6 2 0.04
7 2 0.04
8 2 0.04
ACGTcount: A:0.19, C:0.41, G:0.21, T:0.19
Consensus pattern (5 bp):
TGACC
Found at i:9555 original size:29 final size:28
Alignment explanation
Indices: 9508--9711 Score: 110
Period size: 29 Copynumber: 7.1 Consensus size: 28
9498 ACGTTGACTG
9508 GGTGGTATTTTGGTAATTATTTCAAAAAT
1 GGTGGTATTTT-GTAATTATTTCAAAAAT
* *
9537 GGTGGTAGTTTTGTCATTATTTTAAAAAT
1 GGTGGTA-TTTTGTAATTATTTCAAAAAT
* **
9566 GGTGTTATTTTTGTAATT-TTTTTAAAA-
1 GGTGGTA-TTTTGTAATTATTTCAAAAAT
* * * *
9593 GTTGATATTTTCATAATT-TTTTAAAAA-
1 GGTGGTATTTT-GTAATTATTTCAAAAAT
* ** * *
9620 AGTGACATTTTGGTAATTGTTTTTAAAAAT
1 GGTGGTATTTT-GTAATT-ATTTCAAAAAT
* * **
9650 GGTGATATTTTAGAAATTATTTTGAAAAT
1 GGTGGTATTTT-GTAATTATTTCAAAAAT
* * **
9679 GGTGTTATTTTAGAAATTATTTTGAAAAT
1 GGTGGTATTTT-GTAATTATTTCAAAAAT
9708 GGTG
1 GGTG
9712 ATAATTGTGT
Statistics
Matches: 148, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.03
27 31 0.21
28 8 0.05
29 87 0.59
30 18 0.12
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.49
Consensus pattern (28 bp):
GGTGGTATTTTGTAATTATTTCAAAAAT
Found at i:9601 original size:27 final size:26
Alignment explanation
Indices: 9571--9647 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
9561 AAAATGGTGT
*
9571 TATTTTTGTAATTTTTTTAAAAGTTGA
1 TATTTTCGTAATTTTTTTAAAAG-TGA
* *
9598 TATTTTCATAATTTTTTAAAAAAGTGA
1 TATTTTCGTAATTTTTT-TAAAAGTGA
* *
9625 CATTTTGGTAATTGTTTTTAAAA
1 TATTTTCGTAATT-TTTTTAAAA
9648 ATGGTGATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
27 32 0.78
28 9 0.22
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (26 bp):
TATTTTCGTAATTTTTTTAAAAGTGA
Found at i:9666 original size:17 final size:17
Alignment explanation
Indices: 9640--9695 Score: 50
Period size: 17 Copynumber: 3.6 Consensus size: 17
9630 TGGTAATTGT
*
9640 TTTTAAAAATGGTGATA
1 TTTTAGAAATGGTGATA
9657 TTTTAGAAAT--T-AT-
1 TTTTAGAAATGGTGATA
* *
9670 TTTGA-AAATGGTGTTA
1 TTTTAGAAATGGTGATA
9686 TTTTAGAAAT
1 TTTTAGAAAT
9696 TATTTTGAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
12 4 0.13
13 4 0.13
14 3 0.10
15 2 0.07
16 4 0.13
17 13 0.43
ACGTcount: A:0.38, C:0.00, G:0.16, T:0.46
Consensus pattern (17 bp):
TTTTAGAAATGGTGATA
Found at i:10458 original size:24 final size:24
Alignment explanation
Indices: 10426--10504 Score: 97
Period size: 24 Copynumber: 3.3 Consensus size: 24
10416 TATCTAATTT
10426 TTGA-CTGGATTTTGATATGATAC
1 TTGACCTGGATTTTGATATGATAC
*
10449 TTGACCTGGATTTTTATATGATAC
1 TTGACCTGGATTTTGATATGATAC
* * * * *
10473 ATGACATGGATTCTGATCTGCTAC
1 TTGACCTGGATTTTGATATGATAC
10497 TTGACCTG
1 TTGACCTG
10505 AATTATGTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 4 0.09
24 42 0.91
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.41
Consensus pattern (24 bp):
TTGACCTGGATTTTGATATGATAC
Found at i:15233 original size:2 final size:2
Alignment explanation
Indices: 15226--15263 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
15216 ATTGCCCATC
15226 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15264 TGTAATATCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16092 original size:20 final size:20
Alignment explanation
Indices: 16067--16138 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
16057 CTGATTCAAT
16067 CAGTATCGATACCGTTGAGG
1 CAGTATCGATACCGTTGAGG
*
16087 CAGTATCGATACTGTTGAGG
1 CAGTATCGATACCGTTGAGG
16107 CAGTATCGATACCGTTGA-G
1 CAGTATCGATACCGTTGAGG
16126 CAGTATCGATACC
1 CAGTATCGATACC
16139 ATTGTAAGGG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
19 14 0.28
20 36 0.72
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (20 bp):
CAGTATCGATACCGTTGAGG
Found at i:16152 original size:39 final size:39
Alignment explanation
Indices: 16068--16158 Score: 123
Period size: 39 Copynumber: 2.3 Consensus size: 39
16058 TGATTCAATC
**
16068 AGTATCGATACCGTTGAGGCAGTATCGATACTGTTGAGG
1 AGTATCGATACCGTTGAGGCAGTATCGATACCATTGAGG
16107 CAGTATCGATACCGTTGA-GCAGTATCGATACCATTGTAAGG
1 -AGTATCGATACCGTTGAGGCAGTATCGATACCATTG--AGG
16148 -GTATCGATACC
1 AGTATCGATACC
16159 AAGCAAACAT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
39 27 0.57
40 17 0.36
41 3 0.06
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.27
Consensus pattern (39 bp):
AGTATCGATACCGTTGAGGCAGTATCGATACCATTGAGG
Found at i:16905 original size:79 final size:79
Alignment explanation
Indices: 16763--17073 Score: 455
Period size: 78 Copynumber: 4.0 Consensus size: 79
16753 GAAAAAAAAG
* * * *
16763 AATGCATATGGGTGCATTAGTAGCATGAAAGGATGTCATAGCTGAAATGTATATGGGTGCATTGT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGGTACATTGT
*
16828 CAGTATAAAAGAAT
66 CAGCATAAAAGAAT
* * *
16842 AATGTATATGGGTGCATTATTGGCATGAAATGATGCCATAGCTGAAATGTATAAGGGTACATTGT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGGTACATTGT
16907 CAGC-TAAAAGAAT
66 CAGCATAAAAGAAT
* *
16920 AATGCATATGGGTGCATTATTGGCATGAAAGGTTGCCATAGCTGAAATGTATACGGGTACATTGT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGGTACATTGT
16985 CA-CATAAAAGAAT
66 CAGCATAAAAGAAT
* * * * * *
16998 AATGCGTATGGGTGCATTATTGGCATGAAAGGATTCCATCGCTGAAATGCATATGGGTGCATTAT
1 AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGGTACATTGT
*
17063 TAGCATAAAAG
66 CAGCATAAAAG
17074 TATATTTTAT
Statistics
Matches: 209, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
77 1 0.00
78 139 0.67
79 69 0.33
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.29
Consensus pattern (79 bp):
AATGCATATGGGTGCATTATTGGCATGAAAGGATGCCATAGCTGAAATGTATATGGGTACATTGT
CAGCATAAAAGAAT
Found at i:23332 original size:19 final size:19
Alignment explanation
Indices: 23308--23381 Score: 60
Period size: 20 Copynumber: 3.7 Consensus size: 19
23298 ATCTAATTTC
23308 GGTATCGATACCATAAAGG
1 GGTATCGATACCATAAAGG
* *
23327 GGTATCGGTACCATAGTAGG
1 GGTATCGATACCATA-AAGG
* *
23347 GTAGTATTGATACCATGGTAA-G
1 G--GTATCGATACCAT--AAAGG
23369 GGTATCGATACCA
1 GGTATCGATACCA
23382 AGCAACATCG
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
19 14 0.33
20 15 0.35
22 13 0.30
23 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (19 bp):
GGTATCGATACCATAAAGG
Found at i:23448 original size:95 final size:96
Alignment explanation
Indices: 23250--23450 Score: 271
Period size: 95 Copynumber: 2.1 Consensus size: 96
23240 ATACCGTTGA
* *
23250 TGAAGTATCGATACCATTGTAAGGGTATCGATACCAAGCAAACATCGAATCTAATTTCGGTATCG
1 TGAAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTCGGTATCG
* * *
23315 ATACCATAAAGGGGTATCGGTACCATAGTAG
66 ATACCACAAAGGAGTATCAGTACCATAGTAG
* * * *
23346 GGTAGTATTGATACCATGGTAAGGGTATCGATACCAAGC-AACATCGAACCTAATTTTGGTATCG
1 TGAAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTCGGTATCG
** *
23410 ATACC-CGGAGGAAGTATCAGTACCATAGTAT
66 ATACCACAAAGG-AGTATCAGTACCATAGTAG
23441 TGAAGTATCG
1 TGAAGTATCG
23451 TTACTTGGGT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
94 3 0.03
95 51 0.57
96 35 0.39
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.26
Consensus pattern (96 bp):
TGAAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAAACATCGAACCTAATTTCGGTATCG
ATACCACAAAGGAGTATCAGTACCATAGTAG
Found at i:24015 original size:79 final size:79
Alignment explanation
Indices: 23870--24110 Score: 351
Period size: 79 Copynumber: 3.1 Consensus size: 79
23860 AAACGAATGA
* ***
23870 AAAAG-ATAATGCATATGGGTGCATTATTGGCATGAAAGGATGTCATAGCTGAAATGCATGCGGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATGTCATAGCTGAAATGCATATAGG
*
23934 TACATTGTCAGTAT
66 TACATTGTCAGCAT
* *
23948 AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATTTCATAGCTGAAATGTATATAGG
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATGTCATAGCTGAAATGCATATAGG
24013 TACATTGTCAGCAT
66 TACATTGTCAGCAT
* *
24027 AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATGTCATCGTTGAAATGCATAT-GA
1 AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATGTCATAGCTGAAATGCATATAG-
* * *
24091 GTTCATTATTAGCAT
65 GTACATTGTCAGCAT
24106 AAAAG
1 AAAAG
24111 TATATTTTAT
Statistics
Matches: 147, Mismatches: 14, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
78 6 0.04
79 141 0.96
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.29
Consensus pattern (79 bp):
AAAAGAATAATGCATATGGGTGCATTATTGGCATAAAAGGATGTCATAGCTGAAATGCATATAGG
TACATTGTCAGCAT
Found at i:24903 original size:13 final size:13
Alignment explanation
Indices: 24885--24909 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24875 TCTGTGACAA
24885 GGAAATTTCAAAT
1 GGAAATTTCAAAT
24898 GGAAATTTCAAA
1 GGAAATTTCAAA
24910 GCATGCTACC
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
GGAAATTTCAAAT
Found at i:26564 original size:26 final size:25
Alignment explanation
Indices: 26515--26573 Score: 59
Period size: 25 Copynumber: 2.3 Consensus size: 25
26505 AAAAAGATAT
26515 TAAAATATTTTTTATAAATTATAA-A
1 TAAAATATTTTTTATAAA-TATAACA
26540 TAAAATATTTATTTATTTAAA-ATAACA
1 TAAAATATTT-TTTA--TAAATATAACA
*
26567 GAAAATA
1 TAAAATA
26574 ACATCTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
25 10 0.34
26 8 0.28
27 7 0.24
28 4 0.14
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (25 bp):
TAAAATATTTTTTATAAATATAACA
Found at i:28136 original size:3 final size:3
Alignment explanation
Indices: 28128--28157 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
28118 ATTATTTATT
28128 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
28158 AAGTAAAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:28223 original size:15 final size:16
Alignment explanation
Indices: 28195--28225 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
28185 GCTGCCCCTC
28195 TTTGCTCTATTCTTGT
1 TTTGCTCTATTCTTGT
28211 TTTGCTC-ATTCTTGT
1 TTTGCTCTATTCTTGT
28226 GTAAACAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.06, C:0.19, G:0.13, T:0.61
Consensus pattern (16 bp):
TTTGCTCTATTCTTGT
Found at i:28541 original size:116 final size:115
Alignment explanation
Indices: 28310--28699 Score: 516
Period size: 116 Copynumber: 3.4 Consensus size: 115
28300 GATGGAAATG
* * * * * *
28310 TTGAAATCATTCTGCCCAG-AGGTCTTAT-GAATGGCCTTGAGGTCTTATCATCTTGCACTTTAT
1 TTGAAAACATTCTGCACTGTAGGTCTTATAG-ATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
* * *
28373 GTTTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGTTCTCGAAGACTTT
65 GTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCT-GAAGGCTTT
*
28425 TTGAAAACATTCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGGACTGTAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
* *
28490 TCTTACAGATGACCTGGAGGTTTTAAATATCAGAAAGCTCATGAAGGCTTT
66 TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTC-TGAAGGCTTT
* ** *
28541 TTGAAAACA-TCCGTCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAG
1 TTGAAAACATTCTG-CACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAG
*
28605 GTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTT
65 GTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCT-CTGAAGGCTTT
* * * * *
28657 TTGAAAACATCCTGCACTGTAGGTATTACAGATGACCCGGAGG
1 TTGAAAACATTCTGCACTGTAGGTCTTATAGATGGCCCTGAGG
28700 CTTTAAATAT
Statistics
Matches: 241, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
115 19 0.08
116 217 0.90
117 5 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (115 bp):
TTGAAAACATTCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGG
TCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCTGAAGGCTTT
Found at i:28716 original size:74 final size:74
Alignment explanation
Indices: 28590--28754 Score: 294
Period size: 74 Copynumber: 2.2 Consensus size: 74
28580 AAGGTCTTAT
* * *
28590 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
28655 TTTTGAAAA
66 TTTTGAAAA
28664 CATCCTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCCTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
28729 TTTTGAAAA
66 TTTTGAAAA
*
28738 CATCCGGCACTGTAGGT
1 CATCCTGCACTGTAGGT
28755 CTTATGGATG
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 87 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (74 bp):
CATCCTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAA
Found at i:28805 original size:190 final size:190
Alignment explanation
Indices: 28482--28870 Score: 661
Period size: 190 Copynumber: 2.0 Consensus size: 190
28472 ATCATCTTGG
* * * * *
28482 ACTGTAGGTCTTACAGATGACCTGGAGGTTTTAAATATCAGAAAGCTCATGAAGGCTTTTTGAAA
1 ACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCACGAAGGCTTTTTGAAA
*
28547 ACATCCGTCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTAC
66 ACATCCGGCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTAC
* *
28612 AGATGACCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGC
131 AGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTAC
*
28672 ACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAA
1 ACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCACGAAGGCTTTTTGAAA
* * *
28737 ACATCCGGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATTATCTTGCACTGTAGGTCTTAC
66 ACATCCGGCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTAC
*
28802 AGATGACCCGGAGGCTTTAAATATCAAAAATCTCCCGAAGGCTTTTTGAAAACATCCTAC
131 AGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTAC
28862 ACTGTAGGT
1 ACTGTAGGT
28871 CTTATGGATG
Statistics
Matches: 186, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
190 186 1.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (190 bp):
ACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCACGAAGGCTTTTTGAAA
ACATCCGGCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTAC
AGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTAC
Found at i:28873 original size:116 final size:116
Alignment explanation
Indices: 28664--29228 Score: 950
Period size: 116 Copynumber: 4.9 Consensus size: 116
28654 TTTTTGAAAA
* *
28664 CATCCTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
*
28729 TTTTGAAAACATCCGGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* *
28780 TATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
*
28845 TTTTGAAAACATCCTACACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* *
28896 CATCTTGCACTGTAGGTCTTACAAATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* *
28961 TTTTGAAAACATCTTGCACTGTAGGTCCTATGGATGGCCCTGAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* * *
29012 CATCTTACACTGTAGGTCTTACAGATGACCCGGAGGCCTTAAATATCAAAAAGCTCCTGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
**
29077 TTTTGAAAACATTTTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
* * *
29128 CATCTTGCACTGTAGGTCTTACAGATGACCCAGAGGTTTTAAATATCAAAAAGCACCCGAAGGCT
1 CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
* *
29193 TTTTGAAAACATCATGCACTGTAGGTATTATGGATG
66 TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATG
29229 TGGGAAATAG
Statistics
Matches: 420, Mismatches: 29, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 420 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (116 bp):
CATCTTGCACTGTAGGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
TTTTGAAAACATCCTGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTAT
Found at i:28929 original size:306 final size:306
Alignment explanation
Indices: 28358--28986 Score: 1026
Period size: 306 Copynumber: 2.1 Consensus size: 306
28348 GAGGTCTTAT
* * * * * *
28358 CATCTTGCACTTTATGTTTTACAGATGACCCGGAGGTTTTAAATATCAAAAAGTTCTCGAAGACT
1 CATCTTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGACT
* * *
28423 TTTTGAAAACATTCTGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGGACTGTA
66 TTTTGAAAACATCCGGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTA
* * * *
28488 GGTCTTACAGATGACCTGGAGGTTTTAAATATCAGAAAGCTCATGAAGGCTTTTTGAAAACATCC
131 GGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCACGAAGGCTTTTTGAAAACATCC
*
28553 GTCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAGATGA
196 GTCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAAATGA
* *
28618 CCCGGAGGTTTTAAATATCAAAAAGCTCCCGAAGGCTTTTTGAAAA
261 CCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAA
* *
28664 CATCCTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGGCT
1 CATCTTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGACT
* *
28729 TTTTGAAAACATCCGGCACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATTATCTTGCACTGTA
66 TTTTGAAAACATCCGGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTA
* *
28794 GGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAATCTCCCGAAGGCTTTTTGAAAACATCC
131 GGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCACGAAGGCTTTTTGAAAACATCC
* *
28859 -TACACTGTAGGTCTTATGGATGGCCCTGAGGTCTTATCATCTTGCACTGTAGGTCTTACAAATG
196 GT-CACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAAATG
28923 ACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAA
260 ACCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAA
28970 CATCTTGCACTGTAGGT
1 CATCTTGCACTGTAGGT
28987 CCTATGGATG
Statistics
Matches: 297, Mismatches: 25, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
305 1 0.00
306 296 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (306 bp):
CATCTTGCACTGTAGGTATTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCCCGAAGACT
TTTTGAAAACATCCGGCACTGTAGGTCTTATAGATGGCCCTGAGGTCTTATCATCTTGCACTGTA
GGTCTTACAGATGACCCGGAGGCTTTAAATATCAAAAAGCTCACGAAGGCTTTTTGAAAACATCC
GTCACTGTAGGTCTTAGGGATGGCCCTAAGGTCTTATCATCTTGCACTGTAGGTCTTACAAATGA
CCCGGAGGCTTTAAATATCAAAAAGCTCCCAAAGGCTTTTTGAAAA
Found at i:29147 original size:22 final size:21
Alignment explanation
Indices: 29090--29148 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
29080 TGAAAACATT
*
29090 TTGCACTGTAGGTCTTATGGA
1 TTGCACTGTAGGTCTTATGCA
* *
29111 TGGCCCTG-AGGTCTTAT-CA
1 TTGCACTGTAGGTCTTATGCA
29130 TCTTGCACTGTAGGTCTTA
1 --TTGCACTGTAGGTCTTA
29149 CAGATGACCC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
19 1 0.03
20 9 0.30
21 12 0.40
22 8 0.27
ACGTcount: A:0.17, C:0.20, G:0.25, T:0.37
Consensus pattern (21 bp):
TTGCACTGTAGGTCTTATGCA
Found at i:32768 original size:16 final size:15
Alignment explanation
Indices: 32731--32768 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
32721 CGATTCAATT
32731 TTTTTTTCTTTTCTC
1 TTTTTTTCTTTTCTC
*
32746 TTATTTTCTTTTCCTC
1 TTTTTTTCTTTT-CTC
32762 TTTTTTT
1 TTTTTTT
32769 TCTTATGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTTTCTC
Found at i:34266 original size:19 final size:18
Alignment explanation
Indices: 34233--34269 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
34223 TTGTTGATCA
*
34233 CATTTTCAATTAATTCTC
1 CATTTTCAATAAATTCTC
34251 CATTTATCAATAAATTCTC
1 CATTT-TCAATAAATTCTC
34270 GAATTCATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.46
Consensus pattern (18 bp):
CATTTTCAATAAATTCTC
Found at i:35291 original size:17 final size:18
Alignment explanation
Indices: 35258--35291 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
35248 GCAAAGATGC
*
35258 AAATATAAAATGTAAAAA
1 AAATATAAAATGCAAAAA
35276 AAATAT-AAATGCAAAA
1 AAATATAAAATGCAAAA
35292 TGCAAATGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.71, C:0.03, G:0.06, T:0.21
Consensus pattern (18 bp):
AAATATAAAATGCAAAAA
Found at i:51878 original size:95 final size:94
Alignment explanation
Indices: 51736--51974 Score: 304
Period size: 95 Copynumber: 2.5 Consensus size: 94
51726 ATTCAAACAA
* *
51736 TATCAGTACCA-AGCGATGTAGTATCAATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
1 TATCGGTACCATAGC-ATGTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
*
51800 CCTAATTTTGGTATCGATAC-TGAATGGAGG
65 CCTAATTTTGGTATCGATACAGGAA-GGAGG
* **
51830 TATCGGTACCATAGCATAGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGCTACATCGAA
1 TATCGGTACCATAGCAT-GTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCGAA
* *
51895 GCTAATTTTGGTATCGATACAGGAAGGGGG
65 CCTAATTTTGGTATCGATACAGGAAGGAGG
* * * * *
51925 TATCGATACCATAGTAGGGTAGTATCGATACGATAGT-AGGGTATCGATAC
1 TATCGGTACCATAGCA-TGTAGTATCGATACCATGGTAAGGGTATCGATAC
51975 TGAAGAGCCA
Statistics
Matches: 128, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
94 25 0.20
95 100 0.78
96 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.26
Consensus pattern (94 bp):
TATCGGTACCATAGCATGTAGTATCGATACCATGGTAAGGGTATCGATACAAGGAAACATCGAAC
CTAATTTTGGTATCGATACAGGAAGGAGG
Found at i:51944 original size:19 final size:20
Alignment explanation
Indices: 51921--51974 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
51911 ATACAGGAAG
51921 GGGGTATCGATACCATAGTA
1 GGGGTATCGATACCATAGTA
*
51941 GGGTAGTATCGATACGATAGTA
1 GGG--GTATCGATACCATAGTA
51963 -GGGTATCGATAC
1 GGGGTATCGATAC
51975 TGAAGAGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 10 0.32
20 3 0.10
21 2 0.06
22 16 0.52
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (20 bp):
GGGGTATCGATACCATAGTA
Found at i:51952 original size:22 final size:22
Alignment explanation
Indices: 51924--51967 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
51914 CAGGAAGGGG
51924 GTATCGATACCATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
*
51946 GTATCGATACGATAGTAGGGTA
1 GTATCGATACCATAGTAGGGTA
51968 TCGATACTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.30, T:0.27
Consensus pattern (22 bp):
GTATCGATACCATAGTAGGGTA
Found at i:52453 original size:45 final size:45
Alignment explanation
Indices: 52404--52703 Score: 338
Period size: 45 Copynumber: 6.7 Consensus size: 45
52394 AGGATGCCAT
* * *
52404 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATACTGG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
* *
52449 AGTTGAAATGCGTAT-GGTGCATTATCAACAGAAAAGTAGGCTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
* * * *
52493 AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATGTTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
*
52538 AGTTGAAATGCATATGGGTGCATTATCAACAGAAGAA-CATGCTAG
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAA-AAGTATGCTAG
** * * * *
52583 AGTTGAAATATATATGGGTACATTATCAACAGAAATGTATACTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
** * *
52628 AGTTGAAATGCATATGGGTGTGTTATCAACAGAAAAG-ATGTTAT
1 AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
* * *
52672 AGTTTAAAGTGCATAAT-GGTGTATTATAAACA
1 AGTTGAAA-TGCAT-ATGGGTGCATTATCAACA
52704 TAAATGGAGG
Statistics
Matches: 217, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
44 53 0.24
45 161 0.74
46 3 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (45 bp):
AGTTGAAATGCATATGGGTGCATTATCAACAGAAAAGTATGCTAG
Found at i:52598 original size:90 final size:90
Alignment explanation
Indices: 52404--52664 Score: 373
Period size: 90 Copynumber: 2.9 Consensus size: 90
52394 AGGATGCCAT
* * * ** *
52404 AGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATACTGGAGTTGAAATGCGTAT-GGTG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATACTATAGTTGAAATGCATATGGGTG
*
52468 CATTATCAACAGAAAAGTAGGCTAG
66 CATTATCAACAGAAAAGCAGGCTAG
**
52493 AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATGTTATAGTTGAAATGCATATGGGTG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATACTATAGTTGAAATGCATATGGGTG
*
52558 CATTATCAACAGAAGAA-CATGCTAG
66 CATTATCAACAGAA-AAGCAGGCTAG
**
52583 AGTTGAAATATATATGGGTACATTATCAACAGAAATGTATACTATAGTTGAAATGCATATGGGTG
1 AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATACTATAGTTGAAATGCATATGGGTG
**
52648 TGTTATCAACAGAAAAG
66 CATTATCAACAGAAAAG
52665 ATGTTATAGT
Statistics
Matches: 153, Mismatches: 16, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
89 54 0.35
90 97 0.63
91 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.23, T:0.28
Consensus pattern (90 bp):
AGTTGAAATGCATATGGGTACATTATCAACAGAAATGTATACTATAGTTGAAATGCATATGGGTG
CATTATCAACAGAAAAGCAGGCTAG
Found at i:52686 original size:135 final size:133
Alignment explanation
Indices: 52402--52703 Score: 374
Period size: 135 Copynumber: 2.2 Consensus size: 133
52392 AAAGGATGCC
* * * *
52402 ATAGTTGAAATGCATATAGGTGCATTATCAACAGAAAAGTATACTGGAGTTGAAATGCGTATGGT
1 ATAGTTGAAATGCATAT-GGTGCATTATCAACAGAAAAGCATACTAGAGTTGAAATACATATGGT
* * *
52467 GCATTATCAACAGAAAAGTAGGCTAGAGTTGAAATGCATATGGGTACATTATCAACAGAAATGTA
65 ACATTATCAACAGAAAAGTAGACTAGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTA
52532 TGTT
130 TGTT
* *
52536 ATAGTTGAAATGCATATGGGTGCATTATCAACAGAAGAA-CATGCTAGAGTTGAAATATATATGG
1 ATAGTTGAAATGCATAT-GGTGCATTATCAACAGAA-AAGCATACTAGAGTTGAAATACATAT-G
* * * ***
52600 GTACATTATCAACAGAAATGTATACTATAGTTGAAATGCATATGGGTGTGTTATCAACAGAAAAG
63 GTACATTATCAACAGAAAAGTAGACTAGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAG
52665 -ATGTT
128 TATGTT
* * *
52670 ATAGTTTAAAGTGCATAATGGTGTATTATAAACA
1 ATAGTTGAAA-TGCAT-ATGGTGCATTATCAACA
52704 TAAATGGAGG
Statistics
Matches: 145, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
134 66 0.46
135 77 0.53
136 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (133 bp):
ATAGTTGAAATGCATATGGTGCATTATCAACAGAAAAGCATACTAGAGTTGAAATACATATGGTA
CATTATCAACAGAAAAGTAGACTAGAGTTGAAATGCATATGGGTACATTATCAACAGAAAAGTAT
GTT
Found at i:59003 original size:95 final size:93
Alignment explanation
Indices: 58722--59015 Score: 360
Period size: 95 Copynumber: 3.1 Consensus size: 93
58712 AAACAATATC
58722 GGTACCA-AGCGATGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTA
1 GGTACCATAGC-ATGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTA
* * *
58786 ATTTTGATATCGATGCCGAAGGGAAGTA-T
65 ATTTTGGTATCGATACCGAAGGG-GGTATT
* *
58815 GAGTACCAAAAG-ATTGTAGTATCGATACCATGGTAAGGGTATCGATACTAGGAAACATCGAACC
1 G-GTACC-ATAGCA-TGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACC
* * *
58879 TAATTTTTGTATCAAAACCGAAGGTGGGTATT
63 TAATTTTGGTATCGATACCGAAGG-GGGTATT
* ** *
58911 GGTACCATAGCATAGTAGTATTGATACCATGGTAAGGGTATCGATACCAGGCTACATCGAAGCTA
1 GGTACCATAGCAT-GTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTA
* *
58976 ATTTTGGTATCGATACTAGAAGGGGGTATC
65 ATTTTGGTATCGATAC-CGAAGGGGGTATT
*
59006 GATACCATAG
1 GGTACCATAG
59016 TAGGGGTATC
Statistics
Matches: 173, Mismatches: 19, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
93 1 0.01
94 10 0.06
95 152 0.88
96 10 0.06
ACGTcount: A:0.33, C:0.16, G:0.25, T:0.26
Consensus pattern (93 bp):
GGTACCATAGCATGTAGTATCGATACCATGGTAAGGGTATCGATACCAGGAAACATCGAACCTAA
TTTTGGTATCGATACCGAAGGGGGTATT
Found at i:59023 original size:20 final size:20
Alignment explanation
Indices: 58981--59030 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
58971 AGCTAATTTT
58981 GGTATCGATA-CTAGAAGGG
1 GGTATCGATACCTAGAAGGG
*
59000 GGTATCGATACCATAGTA-GG
1 GGTATCGATACC-TAGAAGGG
*
59020 GGTATCAATAC
1 GGTATCGATAC
59031 TGAAGAGCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 10 0.37
20 13 0.48
21 4 0.15
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (20 bp):
GGTATCGATACCTAGAAGGG
Found at i:59519 original size:45 final size:45
Alignment explanation
Indices: 59420--59577 Score: 174
Period size: 45 Copynumber: 3.5 Consensus size: 45
59410 ATGAAAATAC
**** * * *
59420 AAATGCATATGGGTGCATTATTGGCATG-AAAGGATGCCATAGTTG
1 AAATGCATATGGGTGCATTACCAACA-GAAAAGTATGCTAGAGTTG
* * *
59465 AAATACATATGGGTTCATTACCAACAGAAAAGTATGCTAGAGTTA
1 AAATGCATATGGGTGCATTACCAACAGAAAAGTATGCTAGAGTTG
* *
59510 AAATGCATATGGGTGCATTATCAATAGAAAAGTATGCTAGAGTTG
1 AAATGCATATGGGTGCATTACCAACAGAAAAGTATGCTAGAGTTG
* *
59555 AATTGTATATGGGTGCATTACCA
1 AAATGCATATGGGTGCATTACCA
59578 GCACTTACCT
Statistics
Matches: 94, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
44 1 0.01
45 93 0.99
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.29
Consensus pattern (45 bp):
AAATGCATATGGGTGCATTACCAACAGAAAAGTATGCTAGAGTTG
Found at i:60355 original size:6 final size:6
Alignment explanation
Indices: 60327--60364 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
60317 GTGCTACAAC
*
60327 AAAAAG AAAGAAG AAAAAC AAAAAG -AAAAG AAAAAG AA
1 AAAAAG AAA-AAG AAAAAG AAAAAG AAAAAG AAAAAG AA
60365 CTCCTACATC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
5 5 0.18
6 17 0.61
7 6 0.21
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:60403 original size:5 final size:5
Alignment explanation
Indices: 60388--60431 Score: 56
Period size: 5 Copynumber: 8.8 Consensus size: 5
60378 TTTGGAGTAC
60388 AAAAGG AAAAG AAAAG AAAAG --AAG AAAAG AAAAAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG -AAAAG AAAAG AAAA
60432 AGTTGAAGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
3 3 0.09
5 23 0.66
6 9 0.26
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:60423 original size:19 final size:18
Alignment explanation
Indices: 60393--60429 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
60383 AGTACAAAAG
60393 GAAAAGAAAAGAAAAGAA
1 GAAAAGAAAAGAAAAGAA
60411 GAAAAGAAAAAGAAAAGAA
1 GAAAAG-AAAAGAAAAGAA
60430 AAAGTTGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
GAAAAGAAAAGAAAAGAA
Found at i:60425 original size:11 final size:11
Alignment explanation
Indices: 60388--60433 Score: 65
Period size: 11 Copynumber: 4.0 Consensus size: 11
60378 TTTGGAGTAC
*
60388 AAAAGGAAAAG
1 AAAAGAAAAAG
60399 AAAAGAAAAGAAG
1 AAAAG-AAA-AAG
60412 AAAAGAAAAAG
1 AAAAGAAAAAG
60423 AAAAGAAAAAG
1 AAAAGAAAAAG
60434 TTGAAGAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
11 19 0.59
12 5 0.16
13 8 0.25
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:60646 original size:14 final size:15
Alignment explanation
Indices: 60611--60646 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
60601 TGTTATCTCT
60611 TCTTACC-TCTTACC
1 TCTTACCATCTTACC
60625 TCTT-CCATCTTACC
1 TCTTACCATCTTACC
60639 T-TTACCAT
1 TCTTACCAT
60647 ATTCATTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.17, C:0.39, G:0.00, T:0.44
Consensus pattern (15 bp):
TCTTACCATCTTACC
Found at i:65034 original size:44 final size:44
Alignment explanation
Indices: 64984--65325 Score: 497
Period size: 44 Copynumber: 7.7 Consensus size: 44
64974 GTAAATATGC
* * **
64984 AAATAAGCTTACGATCTTATGGAAT-AATGGCAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATA-TGGTA
65028 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
65072 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
* * * * *
65116 AAATAGGCTTACGAGCTTATGGGATAAATGGTAAATATATTGGCA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATA-TGGTA
*
65161 AAATAAGCTTACGAGCCTATGGTATAAATGATAAGTATATGGTA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
*
65205 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGATA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
* * * *
65249 AAATAAGCTTATGAGCTTATGGGATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTA-TATGGTA
65294 AAATAAGCTTACGAGCTTATGGTTAATAAATG
1 AAATAAGCTTACGAGCTTATGG-T-ATAAATG
65326 GTAAAATATT
Statistics
Matches: 269, Mismatches: 24, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
44 187 0.70
45 75 0.28
47 7 0.03
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTA
Found at i:65070 original size:20 final size:19
Alignment explanation
Indices: 65045--65119 Score: 62
Period size: 20 Copynumber: 3.6 Consensus size: 19
65035 CTTACGAGCT
65045 TATGGTATAAATGATAAGTA
1 TATGGTA-AAATGATAAGTA
*
65065 TATGGTAAAATAAGCTTACGAGCT-
1 TATGGTAAAAT--G-ATA--AG-TA
65089 TATGGTATAAATGATAAGTA
1 TATGGTA-AAATGATAAGTA
65109 TATGGTAAAAT
1 TATGGTAAAAT
65120 AGGCTTACGA
Statistics
Matches: 45, Mismatches: 2, Indels: 17
0.70 0.03 0.27
Matches are distributed among these distances:
19 9 0.20
20 16 0.36
21 1 0.02
22 4 0.09
23 1 0.02
24 9 0.20
25 5 0.11
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (19 bp):
TATGGTAAAATGATAAGTA
Found at i:65170 original size:133 final size:133
Alignment explanation
Indices: 64984--65325 Score: 569
Period size: 133 Copynumber: 2.6 Consensus size: 133
64974 GTAAATATGC
* * *
64984 AAATAAGCTTACGATCTTATGGAAT-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
65048 GGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATG
66 GGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATG
*
65113 GTA
131 ATA
* * * *
65116 AAATAGGCTTACGAGCTTATGGGATAAATGGTAAATATATTGGCAAAATAAGCTTACGAGCCTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
65181 GGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATG
66 GGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATG
65246 ATA
131 ATA
* *
65249 AAATAAGCTTATGAGCTTATGGGATAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
65314 GGTTAATAAATG
66 GG-T-ATAAATG
65326 GTAAAATATT
Statistics
Matches: 193, Mismatches: 14, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
132 22 0.11
133 163 0.84
134 1 0.01
135 7 0.04
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.32
Consensus pattern (133 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
GGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATG
ATA
Found at i:65185 original size:89 final size:88
Alignment explanation
Indices: 64984--65334 Score: 490
Period size: 89 Copynumber: 4.0 Consensus size: 88
64974 GTAAATATGC
* * **
64984 AAATAAGCTTACGATCTTATGGAAT-AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATA-TGGTAAAATAAGCTTACGAGCTTAT
*
65048 GGTATAAATGATAAGTATATGGTA
65 GGTATAAATGATAAATATATGGTA
*
65072 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTAAAATAGGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATG
* * *
65137 GGATAAATGGTAAATATATTGGCA
66 GTATAAATGATAAATATA-TGGTA
*
65161 AAATAAGCTTACGAGCCTATGGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATG
* *
65226 GTATAAATGATAAGTATATGATA
66 GTATAAATGATAAATATATGGTA
* * * *
65249 AAATAAGCTTATGAGCTTATGGGATAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGCTTAT
1 AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTA-TATGGTAAAATAAGCTTACGAGCTTAT
*
65314 GGTTAATAAATGGTAAA-ATAT
65 GG-T-ATAAATGATAAATATAT
65335 TGGATATGCA
Statistics
Matches: 235, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
88 99 0.42
89 121 0.51
90 5 0.02
91 10 0.04
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (88 bp):
AAATAAGCTTACGAGCTTATGGTATAAATGATAAGTATATGGTAAAATAAGCTTACGAGCTTATG
GTATAAATGATAAATATATGGTA
Found at i:65203 original size:20 final size:20
Alignment explanation
Indices: 65178--65245 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
65168 CTTACGAGCC
65178 TATGGTATAAATGATAAGTA
1 TATGGTATAAATGATAAGTA
*
65198 TATGGTA-AAATAAGCTTACGAGCT-
1 TATGGTATAAAT--G-ATA--AG-TA
65222 TATGGTATAAATGATAAGTA
1 TATGGTATAAATGATAAGTA
65242 TATG
1 TATG
65246 ATAAAATAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 16
0.68 0.04 0.29
Matches are distributed among these distances:
19 5 0.13
20 13 0.34
21 1 0.03
22 4 0.11
23 1 0.03
24 9 0.24
25 5 0.13
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (20 bp):
TATGGTATAAATGATAAGTA
Found at i:65777 original size:25 final size:26
Alignment explanation
Indices: 65737--65813 Score: 111
Period size: 26 Copynumber: 3.0 Consensus size: 26
65727 GATTTCCCCC
* * *
65737 ACTGTTCACGGGTACTATTCAATATT
1 ACTGTTCATGGGTACTGTTCACTATT
*
65763 ATTGTTCAT-GGTACTGTTCACTATT
1 ACTGTTCATGGGTACTGTTCACTATT
65788 ACTGTTCATGGGTACTGTTCACTATT
1 ACTGTTCATGGGTACTGTTCACTATT
65814 CATAAAAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
25 22 0.49
26 23 0.51
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (26 bp):
ACTGTTCATGGGTACTGTTCACTATT
Found at i:65941 original size:17 final size:17
Alignment explanation
Indices: 65915--65948 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65905 AATAAATTTT
* *
65915 AAATGTTTTTTGAAATC
1 AAATGGTTTTAGAAATC
65932 AAATGGTTTTAGAAATC
1 AAATGGTTTTAGAAATC
65949 CGGGTGACAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.38, C:0.06, G:0.15, T:0.41
Consensus pattern (17 bp):
AAATGGTTTTAGAAATC
Found at i:68166 original size:47 final size:47
Alignment explanation
Indices: 68096--68244 Score: 248
Period size: 47 Copynumber: 3.2 Consensus size: 47
68086 ATAAAATATT
* * *
68096 TTACCATTT--ATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
*
68141 TTACCATTTAAATTCTATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
68188 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
1 TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
68235 TTACCATTTA
1 TTACCATTTA
68245 TTAACCAATA
Statistics
Matches: 97, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
45 9 0.09
47 88 0.91
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (47 bp):
TTACCATTTAAATTCCATAAGCTCGTAAGCTTATTTTATCAATATAC
Found at i:70655 original size:16 final size:17
Alignment explanation
Indices: 70634--70667 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
70624 GTGCACAACC
70634 TCTATAG-ACTCACATA
1 TCTATAGTACTCACATA
*
70650 TCTATAGTTCTCACATA
1 TCTATAGTACTCACATA
70667 T
1 T
70668 GTACATGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.24, G:0.06, T:0.38
Consensus pattern (17 bp):
TCTATAGTACTCACATA
Found at i:70962 original size:22 final size:23
Alignment explanation
Indices: 70917--70962 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
70907 ATTAAAAGAA
* *
70917 TAGATATAAGAGGATATGATTAT
1 TAGATATAAGAGGATAAGAATAT
*
70940 TAGATATAA-ATGATAAGAATAT
1 TAGATATAAGAGGATAAGAATAT
70962 T
1 T
70963 GTTGGTGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.48, C:0.00, G:0.17, T:0.35
Consensus pattern (23 bp):
TAGATATAAGAGGATAAGAATAT
Found at i:72733 original size:30 final size:30
Alignment explanation
Indices: 72697--72787 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
72687 CGAAAGACCT
72697 ATCCATATGTTCTGGAGAACATAGGTAACC
1 ATCCATATGTTCTGGAGAACATAGGTAACC
* * * * *
72727 GTCCATATGTCCTGAAGGACATAGGTAAACT
1 ATCCATATGTTCTGGAGAACATAGGT-AACC
* *
72758 ATCCATATG-TCTCGAAAGACATAGGTAACC
1 ATCCATATGTTCTGGAGA-ACATAGGTAACC
72788 CTCGACTCTT
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
30 28 0.60
31 19 0.40
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (30 bp):
ATCCATATGTTCTGGAGAACATAGGTAACC
Found at i:72766 original size:31 final size:30
Alignment explanation
Indices: 72695--72785 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 30
72685 CCCGAAAGAC
* *
72695 CTATCCATATGTTCTGGAGAACATAGGT-AA
1 CTATCCATATG-TCTGAAGGACATAGGTAAA
**
72725 CCGTCCATATGTCCTGAAGGACATAGGTAAA
1 CTATCCATATGT-CTGAAGGACATAGGTAAA
*
72756 CTATCCATATGTCTCGAAAGACATAGGTAA
1 CTATCCATATGTCT-GAAGGACATAGGTAA
72786 CCCTCGACTC
Statistics
Matches: 51, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 1 0.02
30 24 0.47
31 26 0.51
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (30 bp):
CTATCCATATGTCTGAAGGACATAGGTAAA
Found at i:73101 original size:2 final size:2
Alignment explanation
Indices: 73050--73090 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
73040 TAACATATCT
73050 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
73091 TCATGTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:73830 original size:20 final size:20
Alignment explanation
Indices: 73805--73859 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 20
73795 ATTTAAAGTA
73805 GGTATCGGTACCCTCTACAG
1 GGTATCGGTACCCTCTACAG
*
73825 GGTATCGGTACACCCCTCTATAG
1 GGTATCGGT--A-CCCTCTACAG
73848 GGTATCGGTACC
1 GGTATCGGTACC
73860 ATACCTAGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 11 0.35
21 1 0.03
22 1 0.03
23 18 0.58
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (20 bp):
GGTATCGGTACCCTCTACAG
Found at i:73849 original size:23 final size:23
Alignment explanation
Indices: 73815--73858 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
73805 GGTATCGGTA
73815 CCCTCTACAGGGTATCGGTACAC
1 CCCTCTACAGGGTATCGGTACAC
*
73838 CCCTCTATAGGGTATCGGTAC
1 CCCTCTACAGGGTATCGGTAC
73859 CATACCTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.20, C:0.32, G:0.23, T:0.25
Consensus pattern (23 bp):
CCCTCTACAGGGTATCGGTACAC
Found at i:75388 original size:22 final size:22
Alignment explanation
Indices: 75350--75394 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
75340 AGACATCAAA
**
75350 ATGGGCGGCAATGTGAACAAGC
1 ATGGGCGGCAAAATGAACAAGC
*
75372 ATGGGCGGCAAAATGAACCAGC
1 ATGGGCGGCAAAATGAACAAGC
75394 A
1 A
75395 CTTACTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.20, G:0.33, T:0.11
Consensus pattern (22 bp):
ATGGGCGGCAAAATGAACAAGC
Found at i:82765 original size:13 final size:13
Alignment explanation
Indices: 82747--82771 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
82737 AAAGATACAG
82747 ATATTTTTAAAAT
1 ATATTTTTAAAAT
82760 ATATTTTTAAAA
1 ATATTTTTAAAA
82772 ACATAACACT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATTTTTAAAAT
Found at i:82986 original size:12 final size:12
Alignment explanation
Indices: 82971--83010 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
82961 AAATCAGATA
82971 TCAGAACATAAT
1 TCAGAACATAAT
* * *
82983 TCAGATCAGAAA
1 TCAGAACATAAT
82995 TCAGAACATAAT
1 TCAGAACATAAT
83007 TCAG
1 TCAG
83011 GTAATGTATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.47, C:0.17, G:0.12, T:0.23
Consensus pattern (12 bp):
TCAGAACATAAT
Found at i:83003 original size:24 final size:24
Alignment explanation
Indices: 82939--83010 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
82929 AAACGGAGAT
* * * * *
82939 ATCATAAATCAAAACAGAATACAA
1 ATCAGAAATCAGAACATAATTCAG
*
82963 ATCAGATATCAGAACATAATTCAG
1 ATCAGAAATCAGAACATAATTCAG
82987 ATCAGAAATCAGAACATAATTCAG
1 ATCAGAAATCAGAACATAATTCAG
83011 GTAATGTATC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 41 1.00
ACGTcount: A:0.53, C:0.17, G:0.10, T:0.21
Consensus pattern (24 bp):
ATCAGAAATCAGAACATAATTCAG
Found at i:83021 original size:24 final size:24
Alignment explanation
Indices: 82966--83033 Score: 84
Period size: 24 Copynumber: 2.8 Consensus size: 24
82956 AATACAAATC
*
82966 AGATATCAGAACATAATTCAGATC
1 AGATATCAGAACATAATTCAGATA
* *
82990 AGAAATCAGAACATAATTCAGGTA
1 AGATATCAGAACATAATTCAGATA
*
83014 ATG-TATCAGAACAAAATTCA
1 A-GATATCAGAACATAATTCA
83034 AGTCGAAAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
24 37 0.97
25 1 0.03
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.24
Consensus pattern (24 bp):
AGATATCAGAACATAATTCAGATA
Found at i:85580 original size:16 final size:15
Alignment explanation
Indices: 85559--85588 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
85549 GGGTTAATAA
85559 AAAAATAAAAACAAAT
1 AAAAAT-AAAACAAAT
85575 AAAAATAAAACAAA
1 AAAAATAAAACAAA
85589 ACAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.83, C:0.07, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAATAAAACAAAT
Found at i:85614 original size:19 final size:19
Alignment explanation
Indices: 85566--85603 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
85556 TAAAAAAATA
85566 AAAACAAATAAAAATAAAAC
1 AAAACAAA-AAAAATAAAAC
85586 AAAACAAAAAAAATAAAA
1 AAAACAAAAAAAATAAAA
85604 GAAAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.84, C:0.08, G:0.00, T:0.08
Consensus pattern (19 bp):
AAAACAAAAAAAATAAAAC
Found at i:85703 original size:44 final size:45
Alignment explanation
Indices: 85605--85704 Score: 175
Period size: 45 Copynumber: 2.2 Consensus size: 45
85595 AAAATAAAAG
*
85605 AAAGAAAAAAGGTTTAAAGGGGAGGGCGTAATTCTTTTCATCTTT
1 AAAGAAAAAAGGTTTAAAGGGGAGGGAGTAATTCTTTTCATCTTT
85650 AAAGAAAAAA-GTTTAAAGAGGGAGGGAGTAATTCTTTTCATCTTT
1 AAAGAAAAAAGGTTTAAAG-GGGAGGGAGTAATTCTTTTCATCTTT
85695 AAAGAAAAAA
1 AAAGAAAAAA
85705 ATATTTACGT
Statistics
Matches: 53, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
44 8 0.15
45 45 0.85
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (45 bp):
AAAGAAAAAAGGTTTAAAGGGGAGGGAGTAATTCTTTTCATCTTT
Found at i:87036 original size:19 final size:19
Alignment explanation
Indices: 87012--87056 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
87002 GACTGGACAC
87012 ATTGCAAGCCAATGTCCAA
1 ATTGCAAGCCAATGTCCAA
87031 ATTGCAAGCCAATGTCCAA
1 ATTGCAAGCCAATGTCCAA
*
87050 ATCGCAA
1 ATTGCAA
87057 AACCATGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.20
Consensus pattern (19 bp):
ATTGCAAGCCAATGTCCAA
Found at i:89428 original size:17 final size:17
Alignment explanation
Indices: 89408--89446 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
89398 TTTAGGGAAT
*
89408 TAGTTCATTAATTAAAC
1 TAGTTCATTAATCAAAC
*
89425 TAGTTCATTCATCAAAC
1 TAGTTCATTAATCAAAC
89442 TAGTT
1 TAGTT
89447 GTTTATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.41
Consensus pattern (17 bp):
TAGTTCATTAATCAAAC
Found at i:90824 original size:21 final size:22
Alignment explanation
Indices: 90769--90828 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
90759 ATATTTTCAT
*
90769 GAAATGGTTAAG-CACTTTCATC
1 GAAA-GGTTAAGTCACTTTAATC
* * *
90791 AAAAGGATGAGTCA-TTTAATC
1 GAAAGGTTAAGTCACTTTAATC
90812 GAAAGGTTAAGTC-CTTT
1 GAAAGGTTAAGTCACTTT
90829 CAACAAAAGA
Statistics
Matches: 29, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
21 24 0.83
22 5 0.17
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (22 bp):
GAAAGGTTAAGTCACTTTAATC
Found at i:90837 original size:21 final size:21
Alignment explanation
Indices: 90774--90837 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
90764 TTCATGAAAT
*
90774 GGTTAAG-CACTTTCATCAAAA
1 GGTTAAGTC-CTTTCAACAAAA
* * * *
90795 GGATGAGTCATTT-AATCGAAA
1 GGTTAAGTCCTTTCAA-CAAAA
90816 GGTTAAGTCCTTTCAACAAAA
1 GGTTAAGTCCTTTCAACAAAA
90837 G
1 G
90838 ATCTTAACCC
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
20 1 0.03
21 27 0.87
22 3 0.10
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.28
Consensus pattern (21 bp):
GGTTAAGTCCTTTCAACAAAA
Found at i:93074 original size:13 final size:13
Alignment explanation
Indices: 93056--93087 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
93046 CCTCGACGAG
93056 TGCTTCACGAGAT
1 TGCTTCACGAGAT
93069 TGCTTCACGAGAT
1 TGCTTCACGAGAT
93082 TGCTTC
1 TGCTTC
93088 TATAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (13 bp):
TGCTTCACGAGAT
Found at i:93751 original size:69 final size:67
Alignment explanation
Indices: 93656--93929 Score: 223
Period size: 69 Copynumber: 4.0 Consensus size: 67
93646 AGGGGTGGCC
* * *
93656 GTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAGGAGACTTGTACTTGTACACTGGA
1 GTGGAGACTTGTACTTGTATGGCTCCTT--GAGGAGGAGGAGGAGACTTGTACTTGTAGACTGGA
93721 GGAG
64 GGAG
* * * *
93725 GTGGAGACTTGTATTTGTATGACTCCTT-AGGAGGAAGAGGAGACTTATACTTGTAGACCGGTGG
1 GTGGAGACTTGTACTTGTATGGCTCCTTGAGGAGGAGGAGGAGACTTGTACTTGTAGA-C--TGG
* *
93789 GGGTGG
63 AGG-AG
* * * * * * *
93795 CAGTGGTGACTTGTATTTGTATGGTTCCTTGGAAGGAGGAGGAAGAGACTTGTACACTGGAGA-A
1 --GTGGAGACTTGTACTTGTATGGCTCCTT-G-AGGAGGAGGAGGAGACTTGTAC-TTGTAGACT
* *
93859 GGTGGAA
61 GGAGGAG
* * *
93866 GTGGAGATTTGTACTTGTATGGCTTCTTGA-GAGGA-GATGGAGACTTGTACTTGTAAACTGGAG
1 GTGGAGACTTGTACTTGTATGGCTCCTTGAGGAGGAGGA-GGAGACTTGTACTTGTAGACTGGAG
93929 G
65 G
93930 GAAGACCCTT
Statistics
Matches: 161, Mismatches: 32, Indels: 27
0.73 0.15 0.12
Matches are distributed among these distances:
65 6 0.04
66 46 0.29
67 2 0.01
68 1 0.01
69 52 0.32
70 1 0.01
72 29 0.18
75 19 0.12
76 5 0.03
ACGTcount: A:0.24, C:0.11, G:0.36, T:0.29
Consensus pattern (67 bp):
GTGGAGACTTGTACTTGTATGGCTCCTTGAGGAGGAGGAGGAGACTTGTACTTGTAGACTGGAGG
AG
Found at i:93809 original size:66 final size:66
Alignment explanation
Indices: 93667--93810 Score: 148
Period size: 66 Copynumber: 2.1 Consensus size: 66
93657 TGGTGACTTA
* * * *
93667 TACTTGTATGGCTCCTTAAGAGGAGGAGGAGGAGACTTGTACTTGTACACTGGAGGAGGTGGAGA
1 TACTTGTATGACTCCTT-A-AGGAGGAAGAGGAGACTTATACTTGTACACCGGAGGAGGTGGAGA
*
93732 CTTG
64 -TGG
* * * *
93736 TATTTGTATGACTCCTT-AGGAGGAAGAGGAGACTTATACTTGTAGACCGGTGGGGGTGGCAG-T
1 TACTTGTATGACTCCTTAAGGAGGAAGAGGAGACTTATACTTGTACACCGGAGGAGGTGG-AGAT
93799 GG
65 GG
93801 TGACTTGTAT
1 T-ACTTGTAT
93811 TTGTATGGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
65 3 0.05
66 43 0.68
67 2 0.03
69 15 0.24
ACGTcount: A:0.24, C:0.12, G:0.35, T:0.28
Consensus pattern (66 bp):
TACTTGTATGACTCCTTAAGGAGGAAGAGGAGACTTATACTTGTACACCGGAGGAGGTGGAGATG
G
Found at i:93878 original size:141 final size:141
Alignment explanation
Indices: 93647--93920 Score: 331
Period size: 141 Copynumber: 1.9 Consensus size: 141
93637 AGTGGGGGTA
* * *
93647 GGGGTGGCCGTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAGGAGACTTGTACTTG
1 GGGGTGGCAGTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAAGAGACTTGTACCTG
* * * *
93712 TACACTGGAGGAGGTGGAGACTTGTATTTGTATGACTCCTT-AGGAGGAAGA-GGAGACTTATAC
66 GACACAGGAGGAAGTGGAGACTTGTACTTGTATGACTCCTTGA-GAGG-AGATGGAGACTTATAC
93775 TTGTAGACCGGTG
129 TTGTAGACCGGTG
* * * *
93788 GGGGTGGCAGTGGTGACTTGTATTTGTATGGTTCCTT-GGAAGGAGGAGGAAGAGACTTGTACAC
1 GGGGTGGCAGTGGTGACTTATACTTGTATGGCTCCTTAAG-AGGAGGAGGAAGAGACTTGTAC-C
* * * * * *
93852 TGGAGA-AGGTGGAAGTGGAGATTTGTACTTGTATGGCTTCTTGAGAGGAGATGGAGACTTGTAC
64 TGGACACAGGAGGAAGTGGAGACTTGTACTTGTATGACTCCTTGAGAGGAGATGGAGACTTATAC
93916 TTGTA
129 TTGTA
93921 AACTGGAGGG
Statistics
Matches: 112, Mismatches: 17, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
140 4 0.04
141 103 0.92
142 5 0.04
ACGTcount: A:0.23, C:0.11, G:0.36, T:0.29
Consensus pattern (141 bp):
GGGGTGGCAGTGGTGACTTATACTTGTATGGCTCCTTAAGAGGAGGAGGAAGAGACTTGTACCTG
GACACAGGAGGAAGTGGAGACTTGTACTTGTATGACTCCTTGAGAGGAGATGGAGACTTATACTT
GTAGACCGGTG
Found at i:94923 original size:17 final size:17
Alignment explanation
Indices: 94885--94926 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
94875 GGGGGTTTTG
94885 GTAAAAATGATTAAATA
1 GTAAAAATGATTAAATA
* *
94902 ATAAAAAGTGATTTAA-A
1 GTAAAAA-TGATTAAATA
94919 GTAAAAAT
1 GTAAAAAT
94927 AAAGAATGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 13 0.62
18 7 0.33
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.29
Consensus pattern (17 bp):
GTAAAAATGATTAAATA
Found at i:101043 original size:23 final size:22
Alignment explanation
Indices: 100986--101044 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
100976 TAAACTTAAA
*
100986 ATAAAATAAAAATGAAAACTTG
1 ATAAAATAGAAATGAAAACTTG
* *
101008 A-AAAGAAATGAAATGAAAACTTT
1 ATAAA-ATA-GAAATGAAAACTTG
101031 ATAAAACTAGAAAT
1 ATAAAA-TAGAAAT
101045 AAGAATAGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
21 3 0.10
22 3 0.10
23 19 0.66
24 4 0.14
ACGTcount: A:0.63, C:0.05, G:0.10, T:0.22
Consensus pattern (22 bp):
ATAAAATAGAAATGAAAACTTG
Done.