Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008879.1 Hibiscus syriacus cultivar Beakdansim tig00112123_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: 283077
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
File 1 of 2
Found at i:1512 original size:19 final size:19
Alignment explanation
Indices: 1490--1557 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
1480 ATCGCAACGA
1490 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1509 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1528 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
1542 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
1558 TTTCATTTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1632 original size:20 final size:20
Alignment explanation
Indices: 1575--1632 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
1565 TCGCATTGCG
* *
1575 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
1595 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
1615 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
1633 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:2713 original size:24 final size:24
Alignment explanation
Indices: 2686--2739 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
2676 GTATTCGAAA
* *
2686 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
2710 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
2734 TTTGAT
1 TTTGAT
2740 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:2929 original size:12 final size:12
Alignment explanation
Indices: 2912--2936 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2902 CATATATCCT
2912 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2924 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2936 G
1 G
2937 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:5235 original size:20 final size:19
Alignment explanation
Indices: 5210--5327 Score: 58
Period size: 19 Copynumber: 6.7 Consensus size: 19
5200 CTTAATGTCC
* **
5210 ATCGCAACGCGGAAATTACT
1 ATCGCAACGC-GAAATGAAA
*
5230 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
5249 ATCGCAACGC----T-AAT
1 ATCGCAACGCGAAATGAAA
* **
5263 TTCGCAATACGAAATGAAA
1 ATCGCAACGCGAAATGAAA
**
5282 ATCGCAA--CG--A-GGGA
1 ATCGCAACGCGAAATGAAA
*
5296 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
5315 ATCGCAACGCGAA
1 ATCGCAACGCGAA
5328 TTTAATTTCG
Statistics
Matches: 72, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
14 18 0.25
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
19 37 0.51
20 9 0.12
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:5252 original size:19 final size:19
Alignment explanation
Indices: 5230--5327 Score: 63
Period size: 19 Copynumber: 5.7 Consensus size: 19
5220 GGAAATTACT
5230 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
5249 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
* *
5263 TTCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
5282 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
5296 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5315 ATCGCAACGCGAA
1 ATCGCAATGCGAA
5328 TTTAATTTCG
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 29 0.50
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:5276 original size:33 final size:33
Alignment explanation
Indices: 5231--5330 Score: 141
Period size: 33 Copynumber: 3.0 Consensus size: 33
5221 GAAATTACTA
*
5231 TCGCAATGCGAAATGAAAATCGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
* *
5264 TCGCAATACGAAATGAAAATCGCAACGAGGGAA--
1 TCGCAATGCGAAATGAAAATCGCAAC--GCGAATT
5297 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
5330 T
1 T
5331 AATTTCGCGT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
31 4 0.07
33 51 0.88
35 3 0.05
ACGTcount: A:0.41, C:0.20, G:0.21, T:0.18
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:5345 original size:19 final size:20
Alignment explanation
Indices: 5323--5365 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
5313 AAATCGCAAC
5323 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
5342 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
5362 GCGA
1 GCGA
5366 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:5350 original size:14 final size:14
Alignment explanation
Indices: 5351--5384 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5341 TGCGATTTTC
5351 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
5365 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
5379 ATTTTC
1 ATTTTC
5385 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:5525 original size:14 final size:14
Alignment explanation
Indices: 5506--5542 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
5496 CATCAATTAA
5506 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
5520 ACAAATCACCTTTT
1 ACAAATCAACTTTT
5534 ACAAATCAA
1 ACAAATCAA
5543 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6961 original size:21 final size:21
Alignment explanation
Indices: 6895--6961 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6885 GTGAATCGGG
*
6895 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
6915 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
6937 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
6958 CTCT
1 CTCT
6962 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:6980 original size:42 final size:41
Alignment explanation
Indices: 6895--7017 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
6885 GTGAATCGGG
* * * *
6895 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAATGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
*
6937 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAATGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
6979 CTCTTCAATGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAATGGTGGGAGGGGACTCTCGA-GGATGATAGG
7018 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.24
Consensus pattern (41 bp):
CTCTTGAATGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:9079 original size:19 final size:19
Alignment explanation
Indices: 8962--9146 Score: 174
Period size: 19 Copynumber: 10.1 Consensus size: 19
8952 TCTTTTGGTT
*
8962 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
8981 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
9001 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
9019 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
9035 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
9053 --AA--ACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
9068 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
9088 GAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
9107 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
9126 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
9145 GA
1 GA
9147 TTTTGGTTTC
Statistics
Matches: 138, Mismatches: 15, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
14 18 0.13
15 2 0.01
16 4 0.03
17 3 0.02
18 3 0.02
19 61 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:9100 original size:39 final size:38
Alignment explanation
Indices: 8962--9146 Score: 156
Period size: 33 Copynumber: 5.1 Consensus size: 38
8952 TCTTTTGGTT
* * *
8962 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATAAAAATCGCAACGC
** * *
9001 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
** * *
9035 GAAATGACTATCGCGAC-C---A-AACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
9068 GAAATGAAAATCGCAACCGCGAAATAAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATAAAAATCGCAACGC
* *
9107 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
9145 GA
1 GA
9147 TTTTGGTTTC
Statistics
Matches: 126, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
33 41 0.33
34 16 0.13
35 2 0.02
38 24 0.19
39 29 0.23
40 14 0.11
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGC
Found at i:9175 original size:19 final size:19
Alignment explanation
Indices: 9142--9186 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
9132 AAAATCGCAA
*
9142 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
9161 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
9180 TGCGATT
1 TGCGATT
9187 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:9809 original size:21 final size:21
Alignment explanation
Indices: 9776--9876 Score: 59
Period size: 20 Copynumber: 4.9 Consensus size: 21
9766 TGCGAAAGTA
* * *
9776 AGTATCTCGTTGCGATTTTTT
1 AGTATCGCATTGCGATTTTTC
* **
9797 ATTATCGCATTGCGA-TAGTC
1 AGTATCGCATTGCGATTTTTC
*
9817 AGTATCGCATTGCGATTTTCCC
1 AGTATCGCATTGCGATTTT-TC
* *
9839 AAT-TCGCGTTGCGATTTACTT-
1 AGTATCGCATTGCGATTT--TTC
9860 A-T-TCGCATTGCGATTTT
1 AGTATCGCATTGCGATTTT
9877 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
18 1 0.02
20 30 0.48
21 27 0.44
22 3 0.05
23 1 0.02
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.43
Consensus pattern (21 bp):
AGTATCGCATTGCGATTTTTC
Found at i:9832 original size:20 final size:20
Alignment explanation
Indices: 9739--9832 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
9729 CGCTATGTAA
*
9739 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
9759 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
9779 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
9800 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
9820 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
9833 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:9851 original size:41 final size:41
Alignment explanation
Indices: 9760--9894 Score: 139
Period size: 41 Copynumber: 3.3 Consensus size: 41
9750 AAAGTCAGTA
* * * ** *
9760 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
9800 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* **
9842 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
9883 TCGCGTTGCGAT
1 TCGCGTTGCGAT
9895 TTACTTATTC
Statistics
Matches: 79, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
40 3 0.04
41 74 0.94
42 2 0.03
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:9886 original size:21 final size:20
Alignment explanation
Indices: 9821--9913 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
9811 ATAGTCAGTA
*
9821 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
9842 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
*
9862 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACCAAT
* **
9883 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACCAAT
9903 TCGCATTGCGA
1 TCGCATTGCGA
9914 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATTTACCAAT
Found at i:9895 original size:41 final size:41
Alignment explanation
Indices: 9821--9913 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
9811 ATAGTCAGTA
9821 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
9862 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
9903 TCGCATTGCGA
1 TCGCATTGCGA
9914 ATTGGGAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.17, C:0.25, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:11199 original size:30 final size:30
Alignment explanation
Indices: 11163--11224 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
11153 GACACTTGTC
11163 TATCCTAGAGTAGTGTGCAGTATACGAGTA
1 TATCCTAGAGTAGTGTGCAGTATACGAGTA
11193 TATCCTAGAGTAGTGTGCAGTATACGAGTA
1 TATCCTAGAGTAGTGTGCAGTATACGAGTA
11223 TA
1 TA
11225 CTCATTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.31, C:0.13, G:0.26, T:0.31
Consensus pattern (30 bp):
TATCCTAGAGTAGTGTGCAGTATACGAGTA
Found at i:11332 original size:83 final size:83
Alignment explanation
Indices: 11193--11347 Score: 310
Period size: 83 Copynumber: 1.9 Consensus size: 83
11183 TATACGAGTA
11193 TATCCTAGAGTAGTGTGCAGTATACGAGTATACTCATTTTCTTCATTGCACTTGATAGCATGAGC
1 TATCCTAGAGTAGTGTGCAGTATACGAGTATACTCATTTTCTTCATTGCACTTGATAGCATGAGC
11258 ATTTATTACCATGATGTC
66 ATTTATTACCATGATGTC
11276 TATCCTAGAGTAGTGTGCAGTATACGAGTATACTCATTTTCTTCATTGCACTTGATAGCATGAGC
1 TATCCTAGAGTAGTGTGCAGTATACGAGTATACTCATTTTCTTCATTGCACTTGATAGCATGAGC
11341 ATTTATT
66 ATTTATT
11348 GAACACTTTT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 72 1.00
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.38
Consensus pattern (83 bp):
TATCCTAGAGTAGTGTGCAGTATACGAGTATACTCATTTTCTTCATTGCACTTGATAGCATGAGC
ATTTATTACCATGATGTC
Found at i:12843 original size:61 final size:61
Alignment explanation
Indices: 12664--12894 Score: 213
Period size: 61 Copynumber: 3.8 Consensus size: 61
12654 AGGTTCCGTT
* ** *
12664 ATTAAT-TAACTAATTAAAGG-CCTAACTGAAAGAAGCTAAACTTATTAGGCTCAGTTATTA
1 ATTAATATAACTAATT-AAGGACCTAATTGAAAGAAGCTAAACTTATTAGATTCAATTATTA
* ** * *
12724 ATTAATTTAACTAATTAAGGATGTAACTT-AAAGAAGCTAAACTTATTAGGCTT-GATTATTA
1 ATTAATATAACTAATTAAGGACCTAA-TTGAAAGAAGCTAAACTTATTA-GATTCAATTATTA
* *
12785 ATTAATATAACTAATTAAGGACCTAATTGCAAATAA-CTAAACTCATTAGATTCAATTATTA
1 ATTAATATAACTAATTAAGGACCTAATTG-AAAGAAGCTAAACTTATTAGATTCAATTATTA
* * * * * * *
12846 ATGAATATAATTAAATAAGAACATAATTTAAAGATA-CTTAACTTATTAG
1 ATTAATATAACTAATTAAGGACCTAATTGAAAGA-AGCTAAACTTATTAG
12895 GATTAAACAT
Statistics
Matches: 140, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
60 19 0.14
61 113 0.81
62 8 0.06
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (61 bp):
ATTAATATAACTAATTAAGGACCTAATTGAAAGAAGCTAAACTTATTAGATTCAATTATTA
Found at i:12877 original size:122 final size:121
Alignment explanation
Indices: 12664--12895 Score: 272
Period size: 122 Copynumber: 1.9 Consensus size: 121
12654 AGGTTCCGTT
* * * *
12664 ATTAATTAACTAATTAAAGGCCTAACTGAAAGAAGCTAAACTTATTAGGCTCAGTTATTAATTAA
1 ATTAATTAACTAATTAAAGGCCTAACTGAAAGAAGCTAAACTCATTAGACTCAATTATTAATGAA
* * * **
12729 TTTAACTAATTAAGGATGTAACTTAAAGA-AGCTAAACTTATTAGGCTTGATTATTA
66 TATAACTAAATAAGAACATAACTTAAAGATA-CTAAACTTATTAGGCTTGATTATTA
* * *
12785 ATTAATATAACTAATT-AAGGACCTAATTGCAAATAA-CTAAACTCATTAGATTCAATTATTAAT
1 ATTAAT-TAACTAATTAAAGG-CCTAACTG-AAAGAAGCTAAACTCATTAGACTCAATTATTAAT
* * *
12848 GAATATAATTAAATAAGAACATAATTTAAAGATACTTAACTTATTAGG
63 GAATATAACTAAATAAGAACATAACTTAAAGATACTAAACTTATTAGG
12896 ATTAAACATA
Statistics
Matches: 92, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
121 10 0.11
122 76 0.83
123 6 0.07
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (121 bp):
ATTAATTAACTAATTAAAGGCCTAACTGAAAGAAGCTAAACTCATTAGACTCAATTATTAATGAA
TATAACTAAATAAGAACATAACTTAAAGATACTAAACTTATTAGGCTTGATTATTA
Found at i:17382 original size:21 final size:21
Alignment explanation
Indices: 17356--17417 Score: 115
Period size: 21 Copynumber: 3.0 Consensus size: 21
17346 TCATATAGAC
*
17356 AGGCAGAGAGACTAACATTAT
1 AGGCAGAGAGACTAACATGAT
17377 AGGCAGAGAGACTAACATGAT
1 AGGCAGAGAGACTAACATGAT
17398 AGGCAGAGAGACTAACATGA
1 AGGCAGAGAGACTAACATGA
17418 CGCCAATTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.44, C:0.15, G:0.27, T:0.15
Consensus pattern (21 bp):
AGGCAGAGAGACTAACATGAT
Found at i:18995 original size:17 final size:17
Alignment explanation
Indices: 18959--18991 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
18949 AAAAAAAAGC
18959 TAAGATAAATAAATAAA
1 TAAGATAAATAAATAAA
18976 TAAGAT-AATAAATAAA
1 TAAGATAAATAAATAAA
18992 ATAAAAGCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAGATAAATAAATAAA
Found at i:19541 original size:30 final size:29
Alignment explanation
Indices: 19502--19559 Score: 80
Period size: 30 Copynumber: 2.0 Consensus size: 29
19492 AATGTATATA
19502 AAAAGAATAGAAATAAAATATAAATAAAAG
1 AAAAGAATAGAAATAAAA-ATAAATAAAAG
* * *
19532 AAAATAATAGTAATATAAATAAATAAAA
1 AAAAGAATAGAAATAAAAATAAATAAAA
19560 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (29 bp):
AAAAGAATAGAAATAAAAATAAATAAAAG
Found at i:19572 original size:21 final size:20
Alignment explanation
Indices: 19497--19573 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
19487 ATATTAATGT
*
19497 ATATAAAAAGAATAGAAATAAA
1 ATATAAAAA-AA-ATAAATAAA
* * *
19519 ATATAAATAAAAGAAA-ATA
1 ATATAAAAAAAATAAATAAA
* *
19538 ATAGTAATATAAATAAATAAA
1 ATA-TAAAAAAAATAAATAAA
19559 ATATTAAAAAAAATA
1 ATA-TAAAAAAAATA
19574 TACATATAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
19 5 0.12
20 14 0.33
21 16 0.37
22 8 0.19
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.23
Consensus pattern (20 bp):
ATATAAAAAAAATAAATAAA
Found at i:20712 original size:22 final size:23
Alignment explanation
Indices: 20671--20718 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
20661 AGAAAAAATG
20671 TAAATATAATATAATTTATAATA
1 TAAATATAATATAATTTATAATA
20694 TAAATAT-ATAT-ATTATATAATA
1 TAAATATAATATAATT-TATAATA
20716 TAA
1 TAA
20719 GGACGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.12
22 14 0.58
23 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAATATAATATAATTTATAATA
Found at i:20953 original size:20 final size:20
Alignment explanation
Indices: 20930--20971 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
20920 GAATCATTCG
20930 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
*
20950 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
20970 TC
1 TC
20972 AGAGTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:21231 original size:105 final size:105
Alignment explanation
Indices: 21029--22700 Score: 3019
Period size: 105 Copynumber: 16.0 Consensus size: 105
21019 CGTTGTGAAG
* * * *
21029 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTG
1 CTGAATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
* *
21094 TCTGGAGTCCAATATCCTTCGTTGTGAGGTTGAAATTGGCT
65 TCCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
21135 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
21200 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
21240 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
**
21305 ATGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
21345 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
21410 CTGGAGTCCAATATCCTTTGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
21450 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
21515 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
21555 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
21620 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
21660 CTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
21725 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
21765 TTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
21830 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
21870 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
21935 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
21975 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
22040 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
22080 CTGAATTTGAGAAATGTTTGTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
22145 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
22185 CTGAATTTGAGAAATGTTTGTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
22250 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
* *
22290 CTGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
22355 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
22395 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
22460 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
22500 CTGAATTTGAGAAATGTTTGTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
22565 CCGGAGTCCAATATCCTTCGTTGTGAAGTTG--A------
66 CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
22597 ---AA-TTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG-
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
22657 CCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CC-GGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
22698 CTG
1 CTG
22701 GGTAAAACCT
Statistics
Matches: 1521, Mismatches: 33, Indels: 26
0.96 0.02 0.02
Matches are distributed among these distances:
92 2 0.00
93 85 0.06
94 2 0.00
95 1 0.00
103 1 0.00
105 1418 0.93
106 12 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CCGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:22665 original size:93 final size:93
Alignment explanation
Indices: 22501--22694 Score: 345
Period size: 93 Copynumber: 2.1 Consensus size: 93
22491 AAATTGGCTC
* * *
22501 TGAATTTGAGAAATGTTTGTTGACAGCCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
1 TGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
22566 CGGAGTCCAATATCCTTCGTTGTGAAGT
66 CGGAGTCCAATATCCTTCGTTGTGAAGT
22594 TGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG-C
1 TGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
22658 CTGGAGTCCAATATCCTTCGTTGTGAAGT
66 C-GGAGTCCAATATCCTTCGTTGTGAAGT
22687 TGAAATTG
1 TGAAATTG
22695 GCTCTGGGTA
Statistics
Matches: 97, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
92 2 0.02
93 95 0.98
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.33
Consensus pattern (93 bp):
TGAAATTGAGAAATATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTC
CGGAGTCCAATATCCTTCGTTGTGAAGT
Found at i:23510 original size:47 final size:48
Alignment explanation
Indices: 23444--23535 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 48
23434 TTTTCCTCTT
* ** *
23444 TTTTCTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACG
1 TTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
*
23492 TTTT-TTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
23536 GCGAAGTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 35 0.90
48 4 0.10
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.46
Consensus pattern (48 bp):
TTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACG
Found at i:33971 original size:17 final size:17
Alignment explanation
Indices: 33935--33967 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
33925 AAAAAAAAGC
33935 TAAGATAAATAAATAAA
1 TAAGATAAATAAATAAA
33952 TAAGAT-AATAAATAAA
1 TAAGATAAATAAATAAA
33968 ATAAAGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAGATAAATAAATAAA
Found at i:34502 original size:38 final size:33
Alignment explanation
Indices: 34460--34538 Score: 88
Period size: 38 Copynumber: 2.2 Consensus size: 33
34450 TAAAAAGAAG
34460 AAATAAAATATAATAAAAGAAATAATAGTAATATAAAT-
1 AAATAAAATAT--TAAAA-AAAT-ATA--AATATAAATA
*
34498 AAATAAAATATTAAAAAAATATACATATAAATA
1 AAATAAAATATTAAAAAAATATAAATATAAATA
34531 AAATAAAA
1 AAATAAAA
34539 CGAATAGATG
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
32 8 0.21
33 8 0.21
34 3 0.08
35 4 0.10
36 5 0.13
38 11 0.28
ACGTcount: A:0.71, C:0.01, G:0.03, T:0.25
Consensus pattern (33 bp):
AAATAAAATATTAAAAAAATATAAATATAAATA
Found at i:36720 original size:37 final size:37
Alignment explanation
Indices: 36662--36766 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
36652 CCTTTTCGCC
*
36662 CTACTAGAATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
36699 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * * *
36736 CTACTATGATTTAAACTCATAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
36767 CCACAAGAAC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:37510 original size:13 final size:13
Alignment explanation
Indices: 37478--37513 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
37468 GATTTATATA
37478 TTTATTTGTTTTT
1 TTTATTTGTTTTT
*
37491 GTT-TTTGTTTTT
1 TTTATTTGTTTTT
37503 TTTATTTGTTT
1 TTTATTTGTTT
37514 ATATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.06, C:0.00, G:0.11, T:0.83
Consensus pattern (13 bp):
TTTATTTGTTTTT
Found at i:37620 original size:4 final size:4
Alignment explanation
Indices: 37607--37655 Score: 64
Period size: 4 Copynumber: 12.2 Consensus size: 4
37597 TATATTTTAA
* *
37607 TATT TCATT TATT TATT TATT TATT TATT TA-T TATT TTTT TACT TATT
1 TATT T-ATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
37655 T
1 T
37656 TTATTCTTCA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
3 3 0.08
4 32 0.82
5 4 0.10
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.73
Consensus pattern (4 bp):
TATT
Found at i:37656 original size:12 final size:12
Alignment explanation
Indices: 37615--37672 Score: 57
Period size: 12 Copynumber: 4.8 Consensus size: 12
37605 AATATTTCAT
* *
37615 TTATTTATTTAT
1 TTATTTTTTTAC
*
37627 TTATTTATTTA-
1 TTATTTTTTTAC
37638 TTATTTTTTTAC
1 TTATTTTTTTAC
37650 TTATTTTTATT-C
1 TTATTTTT-TTAC
37662 TTCATTTTTTT
1 TT-ATTTTTTT
37673 TTTCATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
11 10 0.24
12 24 0.57
13 8 0.19
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (12 bp):
TTATTTTTTTAC
Found at i:37677 original size:12 final size:12
Alignment explanation
Indices: 37640--37683 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
37630 TTTATTTATT
37640 ATTTTTTTACTT-
1 ATTTTTTT-CTTC
37652 ATTTTTATTCTTC
1 ATTTTT-TTCTTC
*
37665 ATTTTTTTTTTC
1 ATTTTTTTCTTC
37677 ATTTTTT
1 ATTTTTT
37684 CATTTTTCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 21 0.72
13 8 0.28
ACGTcount: A:0.14, C:0.09, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTTTTCTTC
Found at i:42121 original size:17 final size:16
Alignment explanation
Indices: 42083--42146 Score: 69
Period size: 16 Copynumber: 3.9 Consensus size: 16
42073 TCTAATCAAG
*
42083 AACAAAA-AAGAAAATA
1 AACAAAAGAA-AAAAAA
*
42099 AGCAAAAGAAGAAAAAA
1 AACAAAAGAA-AAAAAA
42116 AAC-AAAGAAAAAGAAA
1 AACAAAAGAAAAA-AAA
42132 AACAAAAGAAAAAAA
1 AACAAAAGAAAAAAA
42147 GAAAGAACAA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
15 3 0.07
16 20 0.48
17 19 0.45
ACGTcount: A:0.81, C:0.06, G:0.11, T:0.02
Consensus pattern (16 bp):
AACAAAAGAAAAAAAA
Found at i:42122 original size:16 final size:16
Alignment explanation
Indices: 42083--42159 Score: 63
Period size: 16 Copynumber: 4.9 Consensus size: 16
42073 TCTAATCAAG
* *
42083 AACAAAAAAGAAAATA
1 AACAAAGAAGAAAAAA
*
42099 AGCAAAAGAAGAAAAAA
1 AAC-AAAGAAGAAAAAA
42116 AACAAAGAA-AAAGAAA
1 AACAAAGAAGAAA-AAA
42132 AAC-AA-AAG-AAAAA
1 AACAAAGAAGAAAAAA
* *
42145 AAGAAAGAACAAAAA
1 AACAAAGAAGAAAAA
42160 TCAAAAAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
13 5 0.10
14 6 0.12
15 7 0.14
16 18 0.37
17 13 0.27
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.01
Consensus pattern (16 bp):
AACAAAGAAGAAAAAA
Found at i:42130 original size:6 final size:6
Alignment explanation
Indices: 42107--42173 Score: 53
Period size: 6 Copynumber: 10.5 Consensus size: 6
42097 TAAGCAAAAG
* * * *
42107 AAGAAA AAAAACA AAGAAA AAGAAA AACAAA AGAAAAA AAGAAA GAACAAA
1 AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA A-AGAAA AAGAAA -AAGAAA
*
42158 AATCAAA AAGAAA AAG
1 AA-GAAA AAGAAA AAG
42174 GGACAAAAAG
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
6 29 0.58
7 21 0.42
ACGTcount: A:0.81, C:0.06, G:0.12, T:0.01
Consensus pattern (6 bp):
AAGAAA
Found at i:42133 original size:20 final size:18
Alignment explanation
Indices: 42102--42172 Score: 61
Period size: 19 Copynumber: 3.7 Consensus size: 18
42092 GAAAATAAGC
*
42102 AAAAGAAGAAAAAAAACAA
1 AAAAAAAGAAAAAAAA-AA
* *
42121 AGAAAAAGAAAAACAAAAG
1 AAAAAAAGAAAAA-AAAAA
42140 AAAAAAAGAAAGAACAAAAA
1 AAAAAAAGAAA-AA-AAAAA
**
42160 TCAAAAAGAAAAA
1 AAAAAAAGAAAAA
42173 GGGACAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 24 0.56
20 19 0.44
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAAAA
Found at i:42168 original size:45 final size:45
Alignment explanation
Indices: 42080--42173 Score: 111
Period size: 45 Copynumber: 2.1 Consensus size: 45
42070 AGATCTAATC
* * *
42080 AAGAACAAAAAAGAAAATAAGCAAAAGAAGAAAAAAAACAAAGAAA
1 AAGAAAAAAAAAGAAAAAAAG-AAAAGAACAAAAAAAACAAAGAAA
*
42126 AAGAAAAACAAAAGAAAAAAAG-AAAGAACAAAAATCAA-AAAGAAA
1 AAGAAAAA-AAAAGAAAAAAAGAAAAGAACAAAAA-AAACAAAGAAA
42171 AAG
1 AAG
42174 GGACAAAAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
45 21 0.50
46 9 0.21
47 12 0.29
ACGTcount: A:0.79, C:0.06, G:0.13, T:0.02
Consensus pattern (45 bp):
AAGAAAAAAAAAGAAAAAAAGAAAAGAACAAAAAAAACAAAGAAA
Found at i:43867 original size:106 final size:106
Alignment explanation
Indices: 43740--44796 Score: 1533
Period size: 106 Copynumber: 10.0 Consensus size: 106
43730 ATATCATGCC
* * * *
43740 ACTCGAGACAACACAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
43805 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
43846 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
43911 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
43952 ACTTCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
*
44017 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGA
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
44058 ACTCCAGACAACGCGAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
**
44123 AATTTCAGAGCCAATTTCAACTTCACAATGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
44164 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGATGGTTGTCAACAAACAATTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
*
44229 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * *
44270 ACTCAAGACAACACAAGTTCAACTTCAC-AGCGAAGGGACGGCTGGTTGTCAA-CAACAATTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGA-CGAAGGGACGGCTGGTTGTCAATAAACAATTTCC
* * *
44333 CAATTTCAGAGCCAGTTTCAACTTCGCAACGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** *
44375 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAATAAACAATTTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
*
44440 AATTTCAGAGCCAATTTCAACTTCACAGTGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
*
44481 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGATC-GCTGGTTGTCAATAAACAACTTCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGA-CGGCTGGTTGTCAATAAACAATTTCC
* * * *
44545 CAATTTCAGAGTCAATTTCAACTTCTCAGTGAAGGATCTTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * * *
44587 AC-CCAAGACAACACAAGCCCAACTTCACGACAAAGGGGCGGCTGATTGTCAAT-AA-AATTT--
1 ACTCC-AGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCC
*
44647 C-A-TTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 CAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * * * * *
44687 ACTCGAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
** * *
44752 GGTTCCAGAGCCAATTTCAACTTCAC-GACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAG-CGAAGGATATTGG
44793 ACTC
1 ACTC
44797 GGAACAATGC
Statistics
Matches: 867, Mismatches: 70, Indels: 28
0.90 0.07 0.03
Matches are distributed among these distances:
100 77 0.09
101 4 0.00
102 6 0.01
104 5 0.01
105 102 0.12
106 672 0.78
107 1 0.00
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACGGCTGGTTGTCAATAAACAATTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:45553 original size:37 final size:37
Alignment explanation
Indices: 45495--45599 Score: 131
Period size: 37 Copynumber: 2.8 Consensus size: 37
45485 CCTTTTCGTC
* *
45495 CTACTAGAATTCAAACTCCTAAAAATATGATAGAAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAG-AATT
* *
45533 -TTCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
* * *
45569 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
45600 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
36 3 0.05
37 55 0.95
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
Found at i:46367 original size:27 final size:29
Alignment explanation
Indices: 46319--46382 Score: 71
Period size: 27 Copynumber: 2.3 Consensus size: 29
46309 ATATGTATAC
46319 TTTTATATTTGATTTATATATTTATTTAT
1 TTTTATATTTGATTTATATATTTATTTAT
* * *
46348 TTTTAT-TTTTATTT-TTTATTTGTTTA-
1 TTTTATATTTGATTTATATATTTATTTAT
*
46374 TATTATATT
1 TTTTATATT
46383 ATATTTTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 5 0.17
27 12 0.40
28 7 0.23
29 6 0.20
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (29 bp):
TTTTATATTTGATTTATATATTTATTTAT
Found at i:46491 original size:20 final size:20
Alignment explanation
Indices: 46468--46519 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
46458 ATTTTATTTA
*
46468 TTTATTTATTTATTTTTCCT
1 TTTATTTATTTATTTTTACT
46488 TTTATTTTTATTTATTTTTACT
1 TTTA--TTTATTTATTTTTACT
46510 TATT-TTTATT
1 T-TTATTTATT
46520 CTTCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
20 10 0.36
22 16 0.57
23 2 0.07
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTATTTATTTATTTTTACT
Found at i:49135 original size:27 final size:29
Alignment explanation
Indices: 49100--49168 Score: 101
Period size: 29 Copynumber: 2.5 Consensus size: 29
49090 CAGAAAACGA
49100 TTTTCG-AAA-ATTTATATATTATATAGT
1 TTTTCGAAAACATTTATATATTATATAGT
*
49127 TTTTTGAAAACATTTATATATTATATAGT
1 TTTTCGAAAACATTTATATATTATATAGT
49156 TTTT--AAAACATTT
1 TTTTCGAAAACATTT
49169 TTGAGAAATT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 14 0.36
28 3 0.08
29 22 0.56
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (29 bp):
TTTTCGAAAACATTTATATATTATATAGT
Found at i:49151 original size:29 final size:27
Alignment explanation
Indices: 49109--49168 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 27
49099 ATTTTCGAAA
49109 ATTTATATATTATATAGTTTTTTGAAAAC
1 ATTTATATATTATATAG-TTTTT-AAAAC
49138 ATTTATATATTATATAGTTTTTAAAAC
1 ATTTATATATTATATAGTTTTTAAAAC
49165 ATTT
1 ATTT
49169 TTGAGAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 9 0.29
28 5 0.16
29 17 0.55
ACGTcount: A:0.38, C:0.03, G:0.05, T:0.53
Consensus pattern (27 bp):
ATTTATATATTATATAGTTTTTAAAAC
Found at i:49497 original size:37 final size:36
Alignment explanation
Indices: 49140--49501 Score: 498
Period size: 37 Copynumber: 10.0 Consensus size: 36
49130 TTGAAAACAT
* *
49140 TTATATATTATATAGTTTTTAAAACATTTTTGAGAAA
1 TTATATAATATATAGTTTTAAAAACATTTTTGA-AAA
* *
49177 TTATATGATATATAGTTTTAAAAACATTTATGAAAAA
1 TTATATAATATATAGTTTTAAAAACATTTTTG-AAAA
*****
49214 TTATATAATATATAGTTTTAATTTTTTTTTTG-AAA
1 TTATATAATATATAGTTTTAAAAACATTTTTGAAAA
*
49249 TTATATAATGTATAGTTTTAAAAACATTTTTG-AAA
1 TTATATAATATATAGTTTTAAAAACATTTTTGAAAA
*
49284 TTATATAATGTATAGTTTTAAAAGACATTTTTGAAAAA
1 TTATATAATATATAGTTTTAAAA-ACATTTTTG-AAAA
*
49322 TTATATAATATATAGGTTTAAAAACATTTTTGAAAAA
1 TTATATAATATATAGTTTTAAAAACATTTTTG-AAAA
49359 TTATATAATATATAGTTTTAAAAACATTTTTG-AAA
1 TTATATAATATATAGTTTTAAAAACATTTTTGAAAA
*
49394 TTATATAATGTATAGTTTTAAAAACATTTTTG-AAA
1 TTATATAATATATAGTTTTAAAAACATTTTTGAAAA
*
49429 TTATATAATGTATAGTTTTAAAAAACATTTTTGAAAA
1 TTATATAATATATAGTTTT-AAAAACATTTTTGAAAA
*
49466 TTATATAATATATAGTTTTAAAAATATTTTTTGAAA
1 TTATATAATATATAGTTTTAAAAACA-TTTTTGAAA
49502 TATATATTTT
Statistics
Matches: 295, Mismatches: 23, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
35 111 0.38
36 28 0.09
37 131 0.44
38 25 0.08
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (36 bp):
TTATATAATATATAGTTTTAAAAACATTTTTGAAAA
Found at i:49497 original size:145 final size:144
Alignment explanation
Indices: 49140--49501 Score: 573
Period size: 145 Copynumber: 2.5 Consensus size: 144
49130 TTGAAAACAT
* * * *
49140 TTATATATTATATAGTTTT-TAAAACATTTTTGAGAAATTATATGATATATAGTTTTAAAAACAT
1 TTATATAATGTATAGTTTTAAAAAACATTTTTGA-AAATTATATAATATATAGTTTTAAAAACAT
* *****
49204 TTATGAAAAATTATATAATATATAGTTTTAATTTTTTTTTTGAAATTATATAATGTATAGTTTTA
65 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAATTATATAATGTATAGTTTTA
49269 AAAACATTTTTGAAA
130 AAAACATTTTTGAAA
* *
49284 TTATATAATGTATAGTTTTAAAAGACATTTTTGAAAAATTATATAATATATAGGTTTAAAAACAT
1 TTATATAATGTATAGTTTTAAAAAACATTTTTG-AAAATTATATAATATATAGTTTTAAAAACAT
49349 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAATTATATAATGTATAGTTTTA
65 TTTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAATTATATAATGTATAGTTTTA
49414 AAAACATTTTTGAAA
130 AAAACATTTTTGAAA
*
49429 TTATATAATGTATAGTTTTAAAAAACATTTTTGAAAATTATATAATATATAGTTTTAAAAATATT
1 TTATATAATGTATAGTTTTAAAAAACATTTTTGAAAATTATATAATATATAGTTTTAAAAACA-T
49494 TTTTGAAA
65 TTTTGAAA
49502 TATATATTTT
Statistics
Matches: 200, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
144 45 0.22
145 154 0.77
146 1 0.00
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (144 bp):
TTATATAATGTATAGTTTTAAAAAACATTTTTGAAAATTATATAATATATAGTTTTAAAAACATT
TTTGAAAAATTATATAATATATAGTTTTAAAAACATTTTTGAAATTATATAATGTATAGTTTTAA
AAACATTTTTGAAA
Found at i:49524 original size:3 final size:3
Alignment explanation
Indices: 49516--49623 Score: 121
Period size: 3 Copynumber: 34.3 Consensus size: 3
49506 TATTTTATAG
* *
49516 TAT TAT TAT TAT TAT TAT TAT TAT TTT CTATT TACT TGT T-T TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT -TA-T TA-T TAT TAT TAT T-AT
49564 TAGT TATT TAT T-T TATT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TA-T TA-T TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49611 TAT TAT TAT TAT T
1 TAT TAT TAT TAT T
49624 TCTTTCGTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
2 4 0.04
3 71 0.76
4 17 0.18
5 1 0.01
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:58289 original size:56 final size:57
Alignment explanation
Indices: 58195--58311 Score: 173
Period size: 56 Copynumber: 2.1 Consensus size: 57
58185 AATTTTATAG
* * *
58195 AGATCGACACAAATAAAATTTTAGGGTGGTATATAACTAACTAA-TGAAGAAAATTC
1 AGATCGACACAAATAAAATTTTAGGGTGATATAAAACTAACTAATTGAAAAAAATTC
* **
58251 AGATCGACACAAATAAAATTTTAGGGTTATATAAAACTATTTAATTGAAAAAAATTC
1 AGATCGACACAAATAAAATTTTAGGGTGATATAAAACTAACTAATTGAAAAAAATTC
58308 AGAT
1 AGAT
58312 TTTAAAATAC
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
56 39 0.72
57 15 0.28
ACGTcount: A:0.48, C:0.09, G:0.14, T:0.29
Consensus pattern (57 bp):
AGATCGACACAAATAAAATTTTAGGGTGATATAAAACTAACTAATTGAAAAAAATTC
Found at i:64427 original size:12 final size:12
Alignment explanation
Indices: 64410--64434 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
64400 GTTACAGTTG
64410 GAGGAGATGAAC
1 GAGGAGATGAAC
64422 GAGGAGATGAAC
1 GAGGAGATGAAC
64434 G
1 G
64435 GGGAAGAGAA
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:0.44, T:0.08
Consensus pattern (12 bp):
GAGGAGATGAAC
Found at i:76598 original size:16 final size:16
Alignment explanation
Indices: 76577--76608 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
76567 TCGATTAACC
76577 TATGCTTATTCCATCT
1 TATGCTTATTCCATCT
76593 TATGCTTATTCCATCT
1 TATGCTTATTCCATCT
76609 AGTTTATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (16 bp):
TATGCTTATTCCATCT
Found at i:78510 original size:20 final size:19
Alignment explanation
Indices: 78479--78531 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
78469 CAAAACTATG
*
78479 CTAGTATTGATACTG-ACC
1 CTAGTATCGATACTGAACC
*
78497 CTTCAGTATCGATATTGAACC
1 C-T-AGTATCGATACTGAACC
78518 CTAGGTATCGATAC
1 CTA-GTATCGATAC
78532 CGACGTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 1 0.04
19 2 0.07
20 21 0.75
21 4 0.14
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (19 bp):
CTAGTATCGATACTGAACC
Found at i:78630 original size:20 final size:22
Alignment explanation
Indices: 78605--78658 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 22
78595 TGAGAAGGGT
78605 AGTATCGATACTCTT-G-GTT-G
1 AGTATCGATACT-TTAGTGTTGG
78625 AGTATCGATACTTTAGTGTTGG
1 AGTATCGATACTTTAGTGTTGG
*
78647 GGTATCGATACT
1 AGTATCGATACT
78659 GACCTGCGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 2 0.07
20 13 0.43
21 3 0.10
22 12 0.40
ACGTcount: A:0.22, C:0.13, G:0.26, T:0.39
Consensus pattern (22 bp):
AGTATCGATACTTTAGTGTTGG
Found at i:78756 original size:20 final size:20
Alignment explanation
Indices: 78731--78782 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
78721 CCTATGGAGA
*
78731 GTATCGATACTCTACCTTGG
1 GTATCGATACTCTACCCTGG
78751 GTATCGATACTCTACCCTGG
1 GTATCGATACTCTACCCTGG
78771 GTATCGATACTC
1 GTATCGATACTC
78783 CCTCGAGTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACTCTACCCTGG
Found at i:81796 original size:5 final size:5
Alignment explanation
Indices: 81786--81816 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
81776 GAAATTGGAA
81786 GAGTG GAGTG GAGTG GAGTG GAGTG GAGTG G
1 GAGTG GAGTG GAGTG GAGTG GAGTG GAGTG G
81817 CATACGTCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.61, T:0.19
Consensus pattern (5 bp):
GAGTG
Found at i:82894 original size:2 final size:2
Alignment explanation
Indices: 82816--82882 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
82806 TTATGGCACT
82816 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
82858 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 T
82883 CATTTTATAT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:83276 original size:59 final size:61
Alignment explanation
Indices: 83211--83329 Score: 147
Period size: 59 Copynumber: 2.0 Consensus size: 61
83201 ATTTCATATT
* *
83211 TAAACTACGATTAT-CATTCTAAATTAGTCCTCAAAC-TTTT-AACATTT-TAGTTTCATCCC
1 TAAACTA-GATCATCCATTCTAAATTAGTCCCCAAACATTTTCAACATTTCTA-TTTCATCCC
* * *
83270 TAAACTATATCCTCCATTCTAAATTGGTCCCCAAACATTTTCAACATTTCTATTTCATCC
1 TAAACTAGATCATCCATTCTAAATTAGTCCCCAAACATTTTCAACATTTCTATTTCATCC
83330 GAAGTTATAT
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
58 3 0.06
59 27 0.53
60 4 0.08
61 15 0.29
62 2 0.04
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.39
Consensus pattern (61 bp):
TAAACTAGATCATCCATTCTAAATTAGTCCCCAAACATTTTCAACATTTCTATTTCATCCC
Found at i:83575 original size:57 final size:59
Alignment explanation
Indices: 83460--83604 Score: 172
Period size: 57 Copynumber: 2.5 Consensus size: 59
83450 TCTGGATGAA
* *
83460 TTTAAGGATGAAATTGGAAGGTTAAAAAGTTTAGGGACTAATTTAGAACACGAGTCATAG
1 TTTAAGGATGAAATTGGAATGTTAAAAAG-TTAAGGACTAATTTAGAACACGAGTCATAG
* *
83520 TTTAAGGATGAAATTGGAATGTT-CAAA-TTAAGGACTAATTTAG-A-ATGAGTATCATAG
1 TTTAAGGATGAAATTGGAATGTTAAAAAGTTAAGGACTAATTTAGAACACGAG--TCATAG
* * *
83577 TTTGAGGATGAAATTAGAATATTAAAAA
1 TTTAAGGATGAAATTGGAATGTTAAAAA
83605 ATATAGGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
55 4 0.05
56 1 0.01
57 41 0.55
58 3 0.04
59 3 0.04
60 22 0.30
ACGTcount: A:0.42, C:0.05, G:0.22, T:0.31
Consensus pattern (59 bp):
TTTAAGGATGAAATTGGAATGTTAAAAAGTTAAGGACTAATTTAGAACACGAGTCATAG
Found at i:83636 original size:60 final size:57
Alignment explanation
Indices: 83514--83643 Score: 152
Period size: 60 Copynumber: 2.2 Consensus size: 57
83504 AGAACACGAG
* * * * * * * * *
83514 TCATAGTTTAAGGATGAAATTGGAATGTTCAAATTAAGGACTAATTTAGAATGAGTA
1 TCATAGTTTGAGGATGAAATTAGAATATTAAAAATAAGGACCAATATAAAATGAGGA
83571 TCATAGTTTGAGGATGAAATTAGAATATTAAAAAATATAGGAACCAATATAAAATGAGGA
1 TCATAGTTTGAGGATGAAATTAGAATATT-AAAAATA-AGG-ACCAATATAAAATGAGGA
83631 TCATAGTTTGAGG
1 TCATAGTTTGAGG
83644 TCATATGATG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
57 26 0.43
58 5 0.08
59 3 0.05
60 27 0.44
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (57 bp):
TCATAGTTTGAGGATGAAATTAGAATATTAAAAATAAGGACCAATATAAAATGAGGA
Found at i:94850 original size:60 final size:60
Alignment explanation
Indices: 94749--94905 Score: 181
Period size: 60 Copynumber: 2.6 Consensus size: 60
94739 GGAAAAATAG
* ** * * *
94749 AAATATTCAAAAGTTTGGGGACTAATTTAGAAAGTGACTCATAATTT-AGAGATGAAATTA
1 AAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGACTCATAATTTGAGA-ATAAAATTA
* * * * *
94809 GAATTTTTAAAAGTTTCAGGACTAATTTAGAATGAGACTCATAGTTTGGGAATAAAATTA
1 AAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGACTCATAATTTGAGAATAAAATTA
* *
94869 AAATATTTAAAAGTTTAAGGACAAATTTATAATGAGA
1 AAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGA
94906 GTAATAGTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
60 79 0.98
61 2 0.02
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (60 bp):
AAATATTTAAAAGTTTAAGGACTAATTTAGAATGAGACTCATAATTTGAGAATAAAATTA
Found at i:95709 original size:31 final size:31
Alignment explanation
Indices: 95674--95742 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
95664 AATAAAAACA
*
95674 TAAGATATGATCACTTTCGTTTTTATTTAAT
1 TAAGATATGATCACCTTCGTTTTTATTTAAT
95705 TAAGATATGATCACCTTCGTTTTTATTTAAT
1 TAAGATATGATCACCTTCGTTTTTATTTAAT
95736 TAA-ATAT
1 TAAGATAT
95743 ACTATCACAG
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 4 0.11
31 33 0.89
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (31 bp):
TAAGATATGATCACCTTCGTTTTTATTTAAT
Found at i:95963 original size:19 final size:17
Alignment explanation
Indices: 95923--95964 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
95913 TAAGTTAAAA
95923 AATATATTTAATAAGTT
1 AATATATTTAATAAGTT
**
95940 AATATATTTTTTAAGTT
1 AATATATTTAATAAGTT
95957 AATATATT
1 AATATATT
95965 AAAATATTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (17 bp):
AATATATTTAATAAGTT
Found at i:96268 original size:10 final size:10
Alignment explanation
Indices: 96253--96280 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
96243 TGGAAGATTA
96253 AATTTATTTT
1 AATTTATTTT
96263 AATTTATTTT
1 AATTTATTTT
96273 AATTTATT
1 AATTTATT
96281 AAAGTATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
AATTTATTTT
Found at i:109837 original size:21 final size:22
Alignment explanation
Indices: 109811--109852 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
109801 AAAATCCTTT
109811 TATTATTTAAATTT-AAATATA
1 TATTATTTAAATTTGAAATATA
*
109832 TATTATTTTAATTTGAAATAT
1 TATTATTTAAATTTGAAATAT
109853 TCAAAGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TATTATTTAAATTTGAAATATA
Found at i:109874 original size:63 final size:63
Alignment explanation
Indices: 109740--109892 Score: 155
Period size: 63 Copynumber: 2.3 Consensus size: 63
109730 ACTAAATATA
* * *
109740 TTTTAATATTCAAATTTAAACAGATAATATTATCTTTTAATTTGAAATATCCAAAACATTTAAAA
1 TTTTAATATTCAAAGTT-AA-ATAT-ATATTA--TTTTAATTTGAAATATCCAAAACATATAAAA
109805 TCC
61 TCC
* * * * ** *
109808 TTTTATTATTTAAATTTAAATATATATTATTTTAATTTGAAATATTCAAAGTATATAATTAT-C
1 TTTTAATATTCAAAGTTAAATATATATTATTTTAATTTGAAATATCCAAAACATATAA-AATCC
109871 TTTTAATATTCAAAGTTAAATA
1 TTTTAATATTCAAAGTTAAATA
109893 GATAATAAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
63 45 0.62
64 2 0.03
65 6 0.08
66 3 0.04
67 2 0.03
68 15 0.21
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (63 bp):
TTTTAATATTCAAAGTTAAATATATATTATTTTAATTTGAAATATCCAAAACATATAAAATCC
Found at i:123315 original size:25 final size:22
Alignment explanation
Indices: 123268--123320 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
123258 TAATAATAAT
123268 AACAATAATAATTAAATATATA
1 AACAATAATAATTAAATATATA
123290 AACATATAA-AATATAAATATAAATA
1 AACA-ATAATAAT-TAAATAT--ATA
123315 AACAAT
1 AACAAT
123321 GACTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 11 0.41
24 2 0.07
25 7 0.26
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (22 bp):
AACAATAATAATTAAATATATA
Found at i:124629 original size:3 final size:3
Alignment explanation
Indices: 124616--124685 Score: 53
Period size: 3 Copynumber: 25.0 Consensus size: 3
124606 GGTCTGTTTG
* *
124616 TAA TGA TAA TAA T-A TAA TAA TAA -AA TAA -AA -AA TAA TAG T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
* *
124660 TAA -AA TAA TAA TAA TAT TAA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
124686 AAAAGAAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
2 11 0.21
3 40 0.75
4 2 0.04
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:124658 original size:20 final size:20
Alignment explanation
Indices: 124629--124689 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 20
124619 TGATAATAAT
124629 ATAATAATAAAATAAAAAATA
1 ATAAT-ATAAAATAAAAAATA
*
124650 ATAGTAT-AAATAAAATAATA
1 ATAATATAAAATAAAA-AATA
124670 ATAATATTAAAAATAAAAAA
1 ATAATA-T-AAAATAAAAAA
124690 GAAATGGATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 8 0.24
20 11 0.32
21 5 0.15
22 2 0.06
23 8 0.24
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
ATAATATAAAATAAAAAATA
Found at i:124658 original size:23 final size:22
Alignment explanation
Indices: 124623--124689 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
124613 TTGTAATGAT
124623 AATAATATAATAATAAAATAAAA
1 AATAATAT-ATAATAAAATAAAA
*
124646 AATAATAGTATAAATAAAAT-AAT
1 AATAATA-TAT-AATAAAATAAAA
124669 AATAATAT-T-A-AAAATAAAA
1 AATAATATATAATAAAATAAAA
124688 AA
1 AA
124690 GAAATGGATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
18 5 0.13
19 5 0.13
21 1 0.03
22 1 0.03
23 18 0.46
24 9 0.23
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.27
Consensus pattern (22 bp):
AATAATATATAATAAAATAAAA
Found at i:125396 original size:122 final size:122
Alignment explanation
Indices: 125052--125745 Score: 993
Period size: 122 Copynumber: 5.7 Consensus size: 122
125042 TTAAGGCAAT
* *
125052 GTTGAACAAGTTCTTCTCATTATGAACTTCTTC-TCCTTCTTCAGATGAGATCTTCTCATTATAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGA
* * * * * *
125116 ACACTTT-TGGAAATGTTGATGCTGATATATCTCCTTCTGTGATAGAGTCATGC-AAAG
65 AC-TTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
* *
125173 GTTGAACAAGTTCTTCTCATTATGAACTTTTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAT
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGA-
* * * * * * *
125238 A-TTTCTCTAGAAAAGTTGATGATGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAG
65 ACTTT-TCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
* *
125296 GTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTATTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* *
125361 CTTTTCTGGAAATGTTGATGCTGATCTATATCCTTCTGGGATAAAATCAAGCAAAAT
66 CTTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
* *
125418 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAAATGAGTTCTCCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
125483 CTTTTCTGGTAATGTTGATGTTGATTTATCTCCTTCTGGGATAAAATCAAGCAAAAG
66 CTTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
* * *
125540 GTTGAACAAATTCTTCTCATTATGAACTTATTTTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* *
125605 CTTTTCTTGTAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
66 CTTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
* *
125662 GTTGAACAAGTTCTTCTTATTATGAACTTCTTC-TCATTCTTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTCTTCAGATGAGTTCTTCTCATTATGA
* *
125726 ACTCTTCCGGAAATGTTGAT
65 ACTTTTCTGGAAATGTTGAT
125746 CAATTGAGTG
Statistics
Matches: 518, Mismatches: 48, Indels: 13
0.89 0.08 0.02
Matches are distributed among these distances:
120 2 0.00
121 59 0.11
122 390 0.75
123 67 0.13
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.40
Consensus pattern (122 bp):
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTTTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGGGATAAAATCAAGCAAAAG
Found at i:126151 original size:22 final size:22
Alignment explanation
Indices: 126124--126194 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
126114 AAATCTTTCT
*
126124 TCTTTGAAAAGAGAATGTATCA
1 TCTTTGAAAAGAGAATATATCA
* * *
126146 TTTTTGAAGAGAGAATCTATCA
1 TCTTTGAAAAGAGAATATATCA
126168 TCTTTGAAAAGAGAATATATCA
1 TCTTTGAAAAGAGAATATATCA
126190 TCTTT
1 TCTTT
126195 AAAGAATGTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATATATCA
Found at i:126178 original size:44 final size:44
Alignment explanation
Indices: 126115--126199 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
126105 AAATCCAATA
* * * * *
126115 AATCTTTCTTCTTTGAAAAGAGAATGTATCATTTTTGAAGAGAG
1 AATCTATCATCTTTGAAAAGAGAATATATCATCTTTAAAGAGAG
126159 AATCTATCATCTTTGAAAAGAGAATATATCATCTTTAAAGA
1 AATCTATCATCTTTGAAAAGAGAATATATCATCTTTAAAGA
126200 ATGTAGATGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (44 bp):
AATCTATCATCTTTGAAAAGAGAATATATCATCTTTAAAGAGAG
Found at i:126551 original size:20 final size:20
Alignment explanation
Indices: 126526--126571 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
126516 ATCGCAACAT
*
126526 TGGTTCAACGCCATAATTAC
1 TGGTTCAACACCATAATTAC
*
126546 TGGTTCAGCACCATAATTAC
1 TGGTTCAACACCATAATTAC
126566 TGGTTC
1 TGGTTC
126572 GTAAAACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (20 bp):
TGGTTCAACACCATAATTAC
Found at i:126874 original size:18 final size:18
Alignment explanation
Indices: 126819--126868 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
126809 TATATGAAAG
126819 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTTGAA
126837 AATAAATTGAATTTTGAA
1 AATAAATTGAATTTTGAA
126855 AATAAATTGAATTT
1 AATAAATTGAATTT
126869 CAAAAAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (18 bp):
AATAAATTGAATTTTGAA
Found at i:138028 original size:2 final size:2
Alignment explanation
Indices: 138021--138058 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
138011 ATTTTAAGAA
138021 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
138059 CTTTATTTTT
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:138400 original size:14 final size:15
Alignment explanation
Indices: 138381--138412 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
138371 TATTAATATA
138381 AAAAAATAAGT-AAT
1 AAAAAATAAGTAAAT
138395 AAAAAATAAGTAAAT
1 AAAAAATAAGTAAAT
138410 AAA
1 AAA
138413 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (15 bp):
AAAAAATAAGTAAAT
Found at i:139872 original size:3 final size:3
Alignment explanation
Indices: 139864--139946 Score: 80
Period size: 3 Copynumber: 28.0 Consensus size: 3
139854 GGCCTGTTTG
* * * *
139864 TAA TAA TAA TAA TAT TAT TAT TAA TAA T-A TAA TAA TAA TAA TAG T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
139910 TAAA TAA TAA TAA TAA TAA TAA CAA TAT TAA AAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
139947 AAAACAAATG
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
2 3 0.04
3 62 0.93
4 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:144996 original size:32 final size:32
Alignment explanation
Indices: 144957--145068 Score: 116
Period size: 32 Copynumber: 3.5 Consensus size: 32
144947 TACGATGTTG
*
144957 TGCATTATCTGAATGCAACATTGACACTATTA
1 TGCATTATCTGAATGCAACACTGACACTATTA
* ** *
144989 TGCATTATTTGAATGTGACACTGACACGATTA
1 TGCATTATCTGAATGCAACACTGACACTATTA
* * * * * *
145021 TGTATTACCTGAATGTAACACTGACCCTGTTG
1 TGCATTATCTGAATGCAACACTGACACTATTA
*
145053 TGCATTAACTGAATGC
1 TGCATTATCTGAATGC
145069 GACATTAAGG
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 64 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (32 bp):
TGCATTATCTGAATGCAACACTGACACTATTA
Found at i:145066 original size:64 final size:63
Alignment explanation
Indices: 144917--145072 Score: 161
Period size: 64 Copynumber: 2.5 Consensus size: 63
144907 TGCAAACCTA
* * * * * *
144917 ACACTGTTGTGTATTATCCGAATGTGACACTACGATGTTGTGCATTATCTGAATGCAACATTG
1 ACACTGTTGTGCATTATCTGAATGTGACACTACGACGTTATGCATTACCTGAATGCAACACTG
* * * * *
144980 ACACTATTATGCATTATTTGAATGTGACACTGAC-ACGATTATGTATTACCTGAATGTAACACTG
1 ACACTGTTGTGCATTATCTGAATGTGACACT-ACGACG-TTATGCATTACCTGAATGCAACACTG
* * *
145044 ACCCTGTTGTGCATTAACTGAATGCGACA
1 ACACTGTTGTGCATTATCTGAATGTGACA
145073 TTAAGGTCAA
Statistics
Matches: 74, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
63 28 0.38
64 46 0.62
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (63 bp):
ACACTGTTGTGCATTATCTGAATGTGACACTACGACGTTATGCATTACCTGAATGCAACACTG
Found at i:145417 original size:29 final size:30
Alignment explanation
Indices: 145362--145424 Score: 119
Period size: 29 Copynumber: 2.1 Consensus size: 30
145352 CATAGAAACA
145362 CATGTTTTACATAAAAAAATGTCACCTAAT
1 CATGTTTTACATAAAAAAATGTCACCTAAT
145392 CATGTTTTACAT-AAAAAATGTCACCTAAT
1 CATGTTTTACATAAAAAAATGTCACCTAAT
145421 CATG
1 CATG
145425 AAACTAATCA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 21 0.64
30 12 0.36
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.33
Consensus pattern (30 bp):
CATGTTTTACATAAAAAAATGTCACCTAAT
Found at i:155935 original size:13 final size:14
Alignment explanation
Indices: 155911--155939 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
155901 CGAAGCTAAA
155911 CCCTGCCCCCTGCC
1 CCCTGCCCCCTGCC
155925 CCCTG-CCCCTGCC
1 CCCTGCCCCCTGCC
155938 CC
1 CC
155940 TCATCGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.00, C:0.72, G:0.14, T:0.14
Consensus pattern (14 bp):
CCCTGCCCCCTGCC
Found at i:155940 original size:6 final size:7
Alignment explanation
Indices: 155911--155939 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
155901 CGAAGCTAAA
155911 CCCTGCC
1 CCCTGCC
155918 CCCTGCC
1 CCCTGCC
155925 CCCTG-C
1 CCCTGCC
155931 CCCTGCC
1 CCCTGCC
155938 CC
1 CC
155940 TCATCGTCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.00, C:0.72, G:0.14, T:0.14
Consensus pattern (7 bp):
CCCTGCC
Found at i:165615 original size:13 final size:13
Alignment explanation
Indices: 165597--165626 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
165587 GTCACAACCC
165597 GACCCGACCCATT
1 GACCCGACCCATT
*
165610 GACCCGACCCGTT
1 GACCCGACCCATT
165623 GACC
1 GACC
165627 GTTGACCGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.47, G:0.20, T:0.13
Consensus pattern (13 bp):
GACCCGACCCATT
Found at i:168216 original size:24 final size:24
Alignment explanation
Indices: 168094--168209 Score: 146
Period size: 24 Copynumber: 4.8 Consensus size: 24
168084 TTCGATTTGA
*
168094 ATTCTGATATGATACTTGACATGG
1 ATTCTGATCTGATACTTGACATGG
168118 ATTCTGATCTGATA-TCTGACATGG
1 ATTCTGATCTGATACT-TGACATGG
*
168142 ATTCTGATCTGATACTTGACTTGG
1 ATTCTGATCTGATACTTGACATGG
* * *
168166 ATTCTGATCTGTTACTTGACCT-A
1 ATTCTGATCTGATACTTGACATGG
*
168189 ATTTCTGATATGATACTTGAC
1 A-TTCTGATCTGATACTTGAC
168210 CTGATTTATG
Statistics
Matches: 82, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
23 2 0.02
24 79 0.96
25 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.18, T:0.41
Consensus pattern (24 bp):
ATTCTGATCTGATACTTGACATGG
Found at i:173186 original size:19 final size:19
Alignment explanation
Indices: 173164--173202 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
173154 AAACATTCTC
173164 TGATCTTGAAATTATTCCT
1 TGATCTTGAAATTATTCCT
173183 TGATCTTGAAATTATTCCT
1 TGATCTTGAAATTATTCCT
173202 T
1 T
173203 AACAAACTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (19 bp):
TGATCTTGAAATTATTCCT
Found at i:178370 original size:11 final size:12
Alignment explanation
Indices: 178344--178372 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
178334 ACATCAATTT
178344 AGTTAGGTGAAG
1 AGTTAGGTGAAG
178356 AGTTAGGTG-AG
1 AGTTAGGTGAAG
178367 AGTTAG
1 AGTTAG
178373 TTATTTGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.31, C:0.00, G:0.41, T:0.28
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:183072 original size:11 final size:12
Alignment explanation
Indices: 183046--183075 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
183036 ATATCAATTT
183046 AGTTAGGTGAAG
1 AGTTAGGTGAAG
183058 AGTTAGGTG-AG
1 AGTTAGGTGAAG
183069 AGTTAGG
1 AGTTAGG
183076 GATTTGTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.30, C:0.00, G:0.43, T:0.27
Consensus pattern (12 bp):
AGTTAGGTGAAG
Found at i:184869 original size:19 final size:19
Alignment explanation
Indices: 184845--184892 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
184835 CCTTATTTTT
*
184845 TTAAAAATAATTTTTTTAA
1 TTAAAAATAATTATTTTAA
184864 TTAAAAAGT-ATTATTTTAA
1 TTAAAAA-TAATTATTTTAA
184883 TTAAAAATAA
1 TTAAAAATAA
184893 AATTTCAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (19 bp):
TTAAAAATAATTATTTTAA
Found at i:184897 original size:18 final size:19
Alignment explanation
Indices: 184858--184897 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
184848 AAAATAATTT
**
184858 TTTTAATTAAAAAGTATTA
1 TTTTAATTAAAAAGTAAAA
184877 TTTTAATTAAAAA-TAAAA
1 TTTTAATTAAAAAGTAAAA
184895 TTT
1 TTT
184898 CAAAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTTAATTAAAAAGTAAAA
Found at i:202693 original size:2 final size:2
Alignment explanation
Indices: 202686--202723 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
202676 AACTTAACAA
*
202686 AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
202724 TTAAACAGAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:204013 original size:20 final size:20
Alignment explanation
Indices: 203990--204030 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
203980 GAAAAATAGG
*
203990 TGTATGCATGCATGCGTGTA
1 TGTATGCATGCATGCATGTA
*
204010 TGTATGTATGCATGCATGTA
1 TGTATGCATGCATGCATGTA
204030 T
1 T
204031 ACTTTATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (20 bp):
TGTATGCATGCATGCATGTA
Found at i:205096 original size:2 final size:2
Alignment explanation
Indices: 205084--205144 Score: 113
Period size: 2 Copynumber: 30.0 Consensus size: 2
205074 TACCTAATAA
205084 AT AT CAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
205127 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
205145 TTGTGTCAGG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 56 0.97
3 2 0.03
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:214494 original size:21 final size:19
Alignment explanation
Indices: 214455--214497 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
214445 TTAACAGACT
*
214455 CCTAAACTGACTTTAACAA
1 CCTAAACTGACTCTAACAA
214474 CCTAAACTGACTGACTAACAA
1 CCTAAACTGACT--CTAACAA
214495 CCT
1 CCT
214498 CTGCTAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.40, C:0.30, G:0.07, T:0.23
Consensus pattern (19 bp):
CCTAAACTGACTCTAACAA
Found at i:214688 original size:35 final size:36
Alignment explanation
Indices: 214630--214738 Score: 121
Period size: 36 Copynumber: 3.1 Consensus size: 36
214620 CCCTGAACAA
* *
214630 TTGAATCGAAAGTGCGGACGCTTCCTTCCGTTCA-C
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATC
* * * *
214665 TTGAATCGAAATTGCCGATGCTTCCTTCTGTCCATT
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATC
* * * *
214701 TTGAATTGAAAGTGCTGATGCTTCCTTTCGTTCTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATC
214737 TT
1 TT
214739 ATTCACCTTC
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
35 29 0.49
36 30 0.51
ACGTcount: A:0.18, C:0.24, G:0.19, T:0.39
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCATC
Found at i:214721 original size:36 final size:35
Alignment explanation
Indices: 214630--214727 Score: 115
Period size: 35 Copynumber: 2.8 Consensus size: 35
214620 CCCTGAACAA
* * *
214630 TTGAATCGAAAGTGCGGACGCTTCCTTCCGTTCAC
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTCCAC
* * *
214665 TTGAATCGAAATTGCCGATGCTTCCTTCTGTCCATT
1 TTGAATCGAAAGTGCCGATGCTTCCTTCCGTCCA-C
* *
214701 TTGAATTGAAAGTGCTGATGCTTCCTT
1 TTGAATCGAAAGTGCCGATGCTTCCTT
214728 TCGTTCTTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
35 29 0.55
36 24 0.45
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (35 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTCCGTCCAC
Found at i:224303 original size:20 final size:21
Alignment explanation
Indices: 224253--224303 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
224243 ATATACATAT
224253 TATATATA-TTATATATGTAA
1 TATATATATTTATATATGTAA
224273 TAT-TATTATTTAT-TACTG-AA
1 TATATA-TATTTATATA-TGTAA
224293 TATATATATTT
1 TATATATATTT
224304 TGACATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 8 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATATTTATATATGTAA
Found at i:225586 original size:215 final size:213
Alignment explanation
Indices: 225217--225646 Score: 817
Period size: 215 Copynumber: 2.0 Consensus size: 213
225207 GGGTTTTTTT
225217 TTTTGATTTCTGAAGGAAGGAATGAAACTGAAATTGGTTTTTTTTTGAGTCATATTTAAGCCCAT
1 TTTTGATTTCTGAAGGAAGGAATGAAACTGAAATTGGTTTTTTTTTGAGTCATATTTAAGCCCAT
225282 TCGACCCACGTGGACCATGACCGGATCCACGTGCTTTCACGCAAAATGGGAGCAATCTCAGTTTT
66 TCGACCCACGTGGACCATGACCGGATCCACGTGCTTTCACGCAAAATGGGAGCAATCTCAGTTTT
225347 AGTCCTTTTATTTTAAATCCTTCCATTTTCATCCCCAAA-GAATTTAAAACCATCCGCGTGTTTC
131 AGTCCTTTTATTTTAAATCCTTCCATTTTCATCCCCAAACGAATTT-AAACCATCCGCGTGTTTC
225411 TATCTAAAATAGGGTAAAC
195 TATCTAAAATAGGGTAAAC
225430 TTTTGATTTCTGAAGGAAGGAATGAAACTGAAATTGGTTTTTTTTTTGAGTCATATATTAAGCCC
1 TTTTGATTTCTGAAGGAAGGAATGAAACTGAAATTGG-TTTTTTTTTGAGTCATAT-TTAAGCCC
225495 ATTCGACCCACGTGGACCATGACCGGATCCACGTGCTTTCACGCAAAATGGGAGCAATCTCAGTT
64 ATTCGACCCACGTGGACCATGACCGGATCCACGTGCTTTCACGCAAAATGGGAGCAATCTCAGTT
225560 TTAGTCCTTTTATTTTAAATCCTTCCATTTTCATCCCCAAACTGAATTTAAACCATCCGCGTGTT
129 TTAGTCCTTTTATTTTAAATCCTTCCATTTTCATCCCCAAAC-GAATTTAAACCATCCGCGTGTT
225625 TCTATCTAAAATAGGGTAAAC
193 TCTATCTAAAATAGGGTAAAC
225646 T
1 T
225647 ACCCTTTGAT
Statistics
Matches: 213, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
213 37 0.17
214 18 0.08
215 114 0.54
216 38 0.18
217 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (213 bp):
TTTTGATTTCTGAAGGAAGGAATGAAACTGAAATTGGTTTTTTTTTGAGTCATATTTAAGCCCAT
TCGACCCACGTGGACCATGACCGGATCCACGTGCTTTCACGCAAAATGGGAGCAATCTCAGTTTT
AGTCCTTTTATTTTAAATCCTTCCATTTTCATCCCCAAACGAATTTAAACCATCCGCGTGTTTCT
ATCTAAAATAGGGTAAAC
Found at i:226126 original size:199 final size:201
Alignment explanation
Indices: 225778--226177 Score: 616
Period size: 199 Copynumber: 2.0 Consensus size: 201
225768 TGGATTTTAA
* *
225778 TTTTAATTATCTTTCTATATTACATTATAATATTTGTATATATTTTATATCCTTATTAGTTTTTT
1 TTTTAATTATCTTTCTATATTACATTATAATATTTATATATATTTTATA-CCTTATTAGTTGTTT
*
225843 TTTATACACTCGTATATATGTATTATTAGAATAGTATTATTTCACTTATATGTTTAATTATATAT
65 TTTATACACTCGTATACATGTATTATTAGAATAGTATTATTTCACTTATATGTTTAATTATATAT
*
225908 ATATATGTATATATACACATTTTGTA-TTTACCCTATTTGTTTACTTCTTTATTATTATATTTAT
130 ATATATATATATATACACATTTTGTATTTTACCCTATTT-TTTACTTCTTTA-TATTATATTTAT
225972 TTACATTAG
193 TTACATTAG
225981 TTTTAATTATCTTT-TATATTACATTATAATATTTATATATATTTTATA-C-TATTA-TTAGTTT
1 TTTTAATTATCTTTCTATATTACATTATAATATTTATATATATTTTATACCTTATTAGTT-GTTT
* * *
226042 TTTATACATTCGTATACATTTATTATTAGTATAGTATTATTTCA-TT-TATGTGTTATATTATAT
65 TTTATACACTCGTATACATGTATTATTAGAATAGTATTATTTCACTTATATGT-TTA-ATTATAT
* *
226105 ATATATGTATATATGTACACATTTTGTATTTTACCCTATTTTTTACTTCTTTATATTATATTTAT
128 ATATATATATATATATACACATTTTGTATTTTACCCTATTTTTTACTTCTTTATATTATATTTAT
226170 TTACATTA
193 TTACATTA
226178 TTTATTTTTT
Statistics
Matches: 184, Mismatches: 9, Indels: 13
0.89 0.04 0.06
Matches are distributed among these distances:
197 5 0.03
198 27 0.15
199 92 0.50
200 13 0.07
202 33 0.18
203 14 0.08
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.56
Consensus pattern (201 bp):
TTTTAATTATCTTTCTATATTACATTATAATATTTATATATATTTTATACCTTATTAGTTGTTTT
TTATACACTCGTATACATGTATTATTAGAATAGTATTATTTCACTTATATGTTTAATTATATATA
TATATATATATATACACATTTTGTATTTTACCCTATTTTTTACTTCTTTATATTATATTTATTTA
CATTAG
Found at i:226363 original size:14 final size:14
Alignment explanation
Indices: 226337--226377 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
226327 TATATATATA
226337 TATTTTC-TTATTT
1 TATTTTCATTATTT
226350 TATTTTCATTATTT
1 TATTTTCATTATTT
*
226364 T-TTTATTATTATTT
1 TATTT-TCATTATTT
226378 ACATGTACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTCATTATTT
Found at i:233886 original size:43 final size:44
Alignment explanation
Indices: 233824--233911 Score: 169
Period size: 43 Copynumber: 2.0 Consensus size: 44
233814 GACACTCTGG
233824 TGGACAATACGGCCGGGAACGCCTACTTTTCATTCATGGATGGA
1 TGGACAATACGGCCGGGAACGCCTACTTTTCATTCATGGATGGA
233868 TGGAC-ATACGGCCGGGAACGCCTACTTTTCATTCATGGATGGA
1 TGGACAATACGGCCGGGAACGCCTACTTTTCATTCATGGATGGA
233911 T
1 T
233912 TTTCGGGTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 39 0.89
44 5 0.11
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (44 bp):
TGGACAATACGGCCGGGAACGCCTACTTTTCATTCATGGATGGA
Found at i:237791 original size:106 final size:106
Alignment explanation
Indices: 237523--238090 Score: 966
Period size: 106 Copynumber: 5.4 Consensus size: 106
237513 CAGGTTTTAC
* *
237523 CAAGCGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTCCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
237588 GACGAAGGGACCGCTGGTTGTC-A-AAACATTTCTCAATCT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATCT
237627 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
237692 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATCT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATCT
237733 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
237798 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATCT
*
237839 C-AGAGCCAATTTCAACTTCACAACGGAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
237903 GACGAAGGGACCGCTGGTTGTCAACAAACATCTTCTCAATTT
66 GACGAAGGGACCGCTGGTTGTCAACAAACAT-TTCTCAATCT
* *
237945 C-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
* *
238009 GACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAGT-T
66 GACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATCT
* * * *
238050 CCAGAACCAATTTCAACTTCACGACGGAGGATATTGGACTC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
238091 GGAACATACT
Statistics
Matches: 446, Mismatches: 13, Indels: 8
0.96 0.03 0.02
Matches are distributed among these distances:
104 85 0.19
105 96 0.22
106 263 0.59
107 2 0.00
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (106 bp):
CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATCT
Found at i:237923 original size:211 final size:212
Alignment explanation
Indices: 237523--238090 Score: 982
Period size: 211 Copynumber: 2.7 Consensus size: 212
237513 CAGGTTTTAC
* *
237523 CAAGCGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTCCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
*
237588 GACGAAGGGACCGCTGGTTGTC-A-AAACATTTCTCAATCTCAAGAGCCAATTTCAACTTCACAA
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTC-AGAGCCAATTTCAACTTCACAA
*
237651 CGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
130 CGGAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAA
237716 CAAACAT-TTCTCAATCT
195 CAAACATCTTCTCAATCT
237733 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
237798 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
66 GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
237863 GGAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
131 GGAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
*
237928 AAACATCTTCTCAATTT
196 AAACATCTTCTCAATCT
* *
237945 C-AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCAC
1 CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
* * * * *
238009 GACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAGTTCCAGAACCAATTTCAACTTCACGA
66 GACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTTCAGAGCCAATTTCAACTTCACAA
238074 CGGAGGATATTGGACTC
130 CGGAGGATATTGGACTC
238091 GGAACATACT
Statistics
Matches: 342, Mismatches: 12, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
210 85 0.25
211 184 0.54
212 73 0.21
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.23
Consensus pattern (212 bp):
CAAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCAC
GACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAAC
GGAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAAC
AAACATCTTCTCAATCT
Found at i:238631 original size:20 final size:21
Alignment explanation
Indices: 238581--238631 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 21
238571 ATATACATAT
238581 TATATATA-TTATATATGTAA
1 TATATATATTTATATATGTAA
238601 TAT-TATTATTTAT-TACTG-AA
1 TATATA-TATTTATATA-TGTAA
238621 TATATATATTT
1 TATATATATTT
238632 TGACATTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
19 2 0.07
20 17 0.63
21 8 0.30
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
TATATATATTTATATATGTAA
Found at i:240019 original size:12 final size:13
Alignment explanation
Indices: 240002--240041 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
239992 ATTATTTCAC
240002 TTATATGT-TATA
1 TTATATGTATATA
*
240014 TTATATATATATA
1 TTATATGTATATA
240027 TATATATGTATATA
1 T-TATATGTATATA
240041 T
1 T
240042 GTACACATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 12 0.50
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (13 bp):
TTATATGTATATA
Found at i:240309 original size:212 final size:209
Alignment explanation
Indices: 239892--240305 Score: 662
Period size: 203 Copynumber: 2.0 Consensus size: 209
239882 TGGATTTTAA
* *
239892 TTTTAATTATCTTTCTATATTACATTATAATATTTGTATATATTTTATATCCTTATTAGTTTTTT
1 TTTTAATTATCTTTCTATATTACATTATAATATTTATATATATTTTATA-CCTTATTAGTTGTTT
*
239957 TTTATACACTCGTATATATGTATTATTAGAATAGTATTATTTCACTTATATGTTATATTATATAT
65 TTTATACACTCGTATACATGTATTATTAGAATAGTATTATTTCACTTATATG-T-TATTATATAT
240022 ATATATATATATGTATATATGTACACATTTTGTATTTTACCCTATTTGTTTACTTCTTTATTATT
128 ATATATATATATGTATATATGTACACATTTTGTATTTTACCCTATTTGTTTACTTCTTTATTATT
240087 ATATTTATTTACATTAG
193 ATATTTATTTACATTAG
*
240104 TTTTAATTATCTTTTTATATTACATTATAATATTTATATATATTTTATA-C-TATTA-TTAGTTT
1 TTTTAATTATCTTTCTATATTACATTATAATATTTATATATATTTTATACCTTATTAGTT-GTTT
* * * *
240166 TTTATACATTCGTATACATTTATTATTAGTATAGTATTATTTCA-TT-TATG-TGTTATAT-TAT
65 TTTATACACTCGTATACATGTATTATTAGAATAGTATTATTTCACTTATATGTTATTATATATAT
*
240227 ATATATATATGTATATATGTACACATTTTGTATTTTACCCTATTTTTTTACTTCTTTATTATTAT
130 ATATATATATGTATATATGTACACATTTTGTATTTTACCCTATTTGTTTACTTCTTTATTATTAT
240292 ATTTATTTACATTA
195 ATTTATTTACATTA
240306 TTTATTTTTT
Statistics
Matches: 192, Mismatches: 9, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
203 81 0.42
204 7 0.04
207 4 0.02
208 4 0.02
209 48 0.25
210 1 0.01
212 47 0.24
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.57
Consensus pattern (209 bp):
TTTTAATTATCTTTCTATATTACATTATAATATTTATATATATTTTATACCTTATTAGTTGTTTT
TTATACACTCGTATACATGTATTATTAGAATAGTATTATTTCACTTATATGTTATTATATATATA
TATATATATGTATATATGTACACATTTTGTATTTTACCCTATTTGTTTACTTCTTTATTATTATA
TTTATTTACATTAG
Found at i:243280 original size:31 final size:30
Alignment explanation
Indices: 243212--243364 Score: 89
Period size: 31 Copynumber: 4.9 Consensus size: 30
243202 AATCATGGAT
243212 TTTGATAAATTTAAT--T-GTTTTTATAACA
1 TTTGATAAATTTAATGATCG-TTTTATAACA
* *
243240 TTTCAATAAATTTAATGATCGTTTTGTAACAA
1 TTT-GATAAATTTAATGATCGTTTTATAAC-A
* * *
243272 TTTGATAAAAGTTAATGATCATTTTTTATAATA
1 TTTGAT-AAATTTAATGATC--GTTTTATAACA
* * *
243305 GTTT-AGTAAGTTTAATGATCATTTTATGACAA
1 -TTTGA-TAAATTTAATGATCGTTTTATAAC-A
* * * *
243337 TTTAATAAGTTTGATGATCATTTTATAA
1 TTTGATAAATTTAATGATCGTTTTATAA
243365 TTTTGAAAAG
Statistics
Matches: 99, Mismatches: 14, Indels: 21
0.74 0.10 0.16
Matches are distributed among these distances:
28 3 0.03
29 11 0.11
31 42 0.42
32 19 0.19
33 13 0.13
34 11 0.11
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (30 bp):
TTTGATAAATTTAATGATCGTTTTATAACA
Found at i:243298 original size:65 final size:64
Alignment explanation
Indices: 243229--243360 Score: 151
Period size: 65 Copynumber: 2.0 Consensus size: 64
243219 AATTTAATTG
* *
243229 TTTTTATAACA-TTTCAATAAATTTAATGATCGTTTTGTAACAATTTGATAAAAG-TTAATGATC
1 TTTTTATAACAGTTT-AATAAATTTAATGATCATTTTATAACAATTT-A-AAAAGTTTAATGATC
243292 AT
63 AT
* * * * * *
243294 TTTTTATAATAGTTTAGTAAGTTTAATGATCATTTTATGACAATTTAATAAGTTTGATGATCAT
1 TTTTTATAACAGTTTAATAAATTTAATGATCATTTTATAACAATTTAAAAAGTTTAATGATCAT
243358 TTT
1 TTT
243361 ATAATTTTGA
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
63 4 0.07
64 14 0.25
65 36 0.63
66 3 0.05
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.48
Consensus pattern (64 bp):
TTTTTATAACAGTTTAATAAATTTAATGATCATTTTATAACAATTTAAAAAGTTTAATGATCAT
Found at i:243323 original size:33 final size:33
Alignment explanation
Indices: 243229--243360 Score: 114
Period size: 31 Copynumber: 4.1 Consensus size: 33
243219 AATTTAATTG
*
243229 TTTTTATAAC-ATTTCAATAAATTTAATGATC--
1 TTTTTATAACAATTT-AATAAGTTTAATGATCAT
* * *
243260 GTTTTGTAACAATTTGATAAAAG-TTAATGATCAT
1 TTTTTATAACAATTT-A-ATAAGTTTAATGATCAT
* * *
243294 TTTTTATAATAGTTTAGTAAGTTTAATGATCA-
1 TTTTTATAACAATTTAATAAGTTTAATGATCAT
* *
243326 -TTTTATGACAATTTAATAAGTTTGATGATCAT
1 TTTTTATAACAATTTAATAAGTTTAATGATCAT
243358 TTT
1 TTT
243361 ATAATTTTGA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
31 34 0.44
32 17 0.22
33 16 0.21
34 11 0.14
ACGTcount: A:0.36, C:0.06, G:0.11, T:0.48
Consensus pattern (33 bp):
TTTTTATAACAATTTAATAAGTTTAATGATCAT
Found at i:245144 original size:41 final size:41
Alignment explanation
Indices: 245083--245194 Score: 136
Period size: 41 Copynumber: 2.7 Consensus size: 41
245073 CGTAATAGAC
* *
245083 ACATCGTTTGTGACATTTTTTTAACAAATACCACAATAAGAT
1 ACATAGTTTGTGACA-TTTTTTAACAAACACCACAATAAGAT
* *
245125 ACATAGTTTGTGACATTTTTTAACAAACACCGCAATATGAT
1 ACATAGTTTGTGACATTTTTTAACAAACACCACAATAAGAT
* * * *
245166 ATATAGTTAGTGGC-TTTTTTAACTAACAC
1 ACATAGTTTGTGACATTTTTTAACAAACAC
245195 AATTATTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 14 0.23
41 34 0.55
42 14 0.23
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (41 bp):
ACATAGTTTGTGACATTTTTTAACAAACACCACAATAAGAT
Found at i:245505 original size:19 final size:19
Alignment explanation
Indices: 245481--245517 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
245471 ATTGAGTGAG
* *
245481 TGGGTTTGCTCGAATTGAA
1 TGGGTTTACACGAATTGAA
245500 TGGGTTTACACGAATTGA
1 TGGGTTTACACGAATTGA
245518 TCTCGATCGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.30, T:0.35
Consensus pattern (19 bp):
TGGGTTTACACGAATTGAA
Found at i:247480 original size:20 final size:20
Alignment explanation
Indices: 247386--247754 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
247376 GATTTTCCAT
* ** *
247386 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
247406 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
247426 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
247446 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
247466 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
247486 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
247506 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
247526 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
247546 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
247566 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
247586 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
247606 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
247626 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
247646 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
247666 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
247686 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
247706 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
247726 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
247746 AATCACAAC
1 AATCGCAAC
247755 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:248464 original size:24 final size:24
Alignment explanation
Indices: 248425--248471 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
248415 AAATTTGGTC
248425 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
248449 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
248472 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:250994 original size:19 final size:19
Alignment explanation
Indices: 250972--251276 Score: 347
Period size: 19 Copynumber: 17.4 Consensus size: 19
250962 CGGAAAATAC
*
250972 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
250991 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
251005 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
251024 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
251038 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
251057 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
251076 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
251090 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
251109 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
251128 AATCG-AA-CCGACAT---
1 AATCGCAATGCGAAATGAA
*
251142 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
251161 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
251180 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
251198 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
251217 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
251231 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
251250 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
251269 AATCGCAA
1 AATCGCAA
251277 CGAGATAATC
Statistics
Matches: 247, Mismatches: 13, Indels: 52
0.79 0.04 0.17
Matches are distributed among these distances:
14 45 0.18
15 4 0.02
16 16 0.06
17 16 0.06
18 22 0.09
19 144 0.58
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:251014 original size:33 final size:34
Alignment explanation
Indices: 250972--251298 Score: 189
Period size: 33 Copynumber: 9.5 Consensus size: 34
250962 CGGAAAATAC
*
250972 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
* * * *
251005 AATCGCAACGCGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
*
251038 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * * * *
251076 AATCGCAACGAGAGAATCG-CAAT-GCGA-AATGAA
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAATGAA
* *
251109 AATCGCAATGCGAAATGAAAAT-CGAAC--CGACA
1 AATCGCAATGCGAAATGAAAATCCCAACAATGA-A
* *
251141 TAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAA
1 -AATCGCAATGCGAAATGAAAATC-CCA-AC--AATGAA
*
251180 AATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
*
251217 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCCCAA--C--AATGAA
* * *
251250 AATCGCAATGCGAAATGAAAATCGCAACGA-GAT
1 AATCGCAATGCGAAATGAAAATCCCAACAATGAA
251283 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
251299 TATAAACGCA
Statistics
Matches: 244, Mismatches: 24, Indels: 52
0.76 0.08 0.16
Matches are distributed among these distances:
31 3 0.01
32 8 0.03
33 138 0.57
34 3 0.01
35 14 0.06
36 5 0.02
37 23 0.09
38 40 0.16
39 7 0.03
40 3 0.01
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCCCAACAATGAA
Done.