Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002227.1 Hibiscus syriacus cultivar Beakdansim tig00004533_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: 160391
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:77 original size:24 final size:23
Alignment explanation
Indices: 40--92 Score: 81
Period size: 24 Copynumber: 2.3 Consensus size: 23
30 CAGTATCGAA
*
40 ATTTGAT-CTGGTCAATACTCGG
1 ATTTGATATTGGTCAATACTCGG
62 ACTTTGATATTGGTCAATACTCGG
1 A-TTTGATATTGGTCAATACTCGG
86 ATTTGAT
1 ATTTGAT
93 GATGCTTCAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 1 0.04
23 12 0.43
24 15 0.54
ACGTcount: A:0.25, C:0.15, G:0.21, T:0.40
Consensus pattern (23 bp):
ATTTGATATTGGTCAATACTCGG
Found at i:2574 original size:19 final size:19
Alignment explanation
Indices: 2552--2682 Score: 85
Period size: 19 Copynumber: 7.7 Consensus size: 19
2542 GGAAATTACT
*
2552 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
*
2571 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
2585 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2604 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
* *
2618 TTCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
2637 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
2651 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
2670 ATCGCAACGCGAA
1 ATCGCAATGCGAA
2683 TTTAGTTTCG
Statistics
Matches: 83, Mismatches: 14, Indels: 30
0.65 0.11 0.24
Matches are distributed among these distances:
14 26 0.31
15 5 0.06
16 4 0.05
17 3 0.04
18 5 0.06
19 40 0.48
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:2594 original size:33 final size:33
Alignment explanation
Indices: 2552--2678 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
2542 GGAAATTACT
*
2552 ATCGCAATGCGAAATAAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
2585 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* * *
2617 TTTCGCAATGTGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
2651 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
2679 CGAATTTAGT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
32 1 0.01
33 82 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:2659 original size:66 final size:66
Alignment explanation
Indices: 2553--2685 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
2543 GAAATTACTA
2553 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2618 T
66 T
* * *
2619 TCGCAATGTGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
2684 T
66 T
2685 T
1 T
2686 AGTTTCGTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:2717 original size:19 final size:19
Alignment explanation
Indices: 2678--2738 Score: 79
Period size: 19 Copynumber: 3.2 Consensus size: 19
2668 AAATCGCAAC
* **
2678 GCGAATTTAGTTTCGTGTT
1 GCGATTTTAGTTTCGCATT
2697 GCGATTTTAGTTTCGCATT
1 GCGATTTTAGTTTCGCATT
2716 GCGATTTTCA-TTTCGCATT
1 GCGATTTT-AGTTTCGCATT
2735 GCGA
1 GCGA
2739 AATTCGCGTT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 37 0.97
20 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.23, T:0.44
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCATT
Found at i:2879 original size:14 final size:14
Alignment explanation
Indices: 2860--2896 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2850 CATCAATTAA
2860 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
2874 ACAAATCACCTTTT
1 ACAAATCAACATTT
2888 ACAAATCAA
1 ACAAATCAA
2897 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4278 original size:21 final size:21
Alignment explanation
Indices: 4245--4356 Score: 52
Period size: 21 Copynumber: 5.3 Consensus size: 21
4235 GTGAATCGGG
* *
4245 CTCTTGAATGATGGGAGGGAC
1 CTCTTCAACGATGGGAGGGAC
**
4266 CTCTTCAACGATGACAGTGG-C
1 CTCTTCAACGATGGGAG-GGAC
* *
4287 CTCTTGAACGGTGGGATGGGA-
1 CTCTTCAACGATGGGA-GGGAC
* * ** *
4308 CTC-TCGAGGAATGATAGGGGC
1 CTCTTCAACG-ATGGGAGGGAC
*
4329 CTCTTCAACGATAGGAGTGGA-
1 CTCTTCAACGATGGGAG-GGAC
4350 CTCTTCA
1 CTCTTCA
4357 GGGATGACAG
Statistics
Matches: 63, Mismatches: 21, Indels: 14
0.64 0.21 0.14
Matches are distributed among these distances:
20 6 0.10
21 48 0.76
22 9 0.14
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.24
Consensus pattern (21 bp):
CTCTTCAACGATGGGAGGGAC
Found at i:4753 original size:78 final size:79
Alignment explanation
Indices: 4605--4758 Score: 240
Period size: 78 Copynumber: 1.9 Consensus size: 79
4595 ACGACAAAAA
4605 AAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGAAGCAACCGA
1 AAAAGACAAATACTAACTTCACAGTGTTAAAGAAT--A-AGTTTAGCAGAATTGGAAGCAACCGA
4670 ATAAATTTACTTCAACC
63 ATAAATTTACTTCAACC
* *
4687 AAAAGACAAATACTAACTTCACAGTGTTAATA-AAT-AGTTTAGCAGTATTGGCAGCAACCGAAT
1 AAAAGACAAATACTAACTTCACAGTGTTAA-AGAATAAGTTTAGCAGAATTGGAAGCAACCGAAT
4750 AAATTTACT
65 AAATTTACT
4759 AAGCGATCTA
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
78 35 0.51
82 33 0.48
83 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (79 bp):
AAAAGACAAATACTAACTTCACAGTGTTAAAGAATAAGTTTAGCAGAATTGGAAGCAACCGAATA
AATTTACTTCAACC
Found at i:6474 original size:20 final size:19
Alignment explanation
Indices: 6443--6503 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
6433 TCTTTTGGTT
6443 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
6462 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
6483 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
6502 GA
1 GA
6504 GAATCGCAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.11
20 29 0.83
21 2 0.06
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:6525 original size:33 final size:33
Alignment explanation
Indices: 6468--6563 Score: 149
Period size: 33 Copynumber: 2.9 Consensus size: 33
6458 ACGAGATAAT
6468 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
6502 GAGAATCGCAACGCGAAATGACTATCGTAACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
6535 GAGAATCGCAACGC-AAATGAAAATCGCAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA
6564 TGTGATTTTG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
32 12 0.21
33 32 0.55
34 14 0.24
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:7185 original size:20 final size:20
Alignment explanation
Indices: 7160--7271 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
7150 GCTATGTAAA
7160 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
7180 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
7200 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* ** *
7221 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
7241 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
7261 TCGCATTGCGA
1 TCGCATTGCGA
7272 ATTATGAAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
19 3 0.04
20 58 0.73
21 18 0.23
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:7230 original size:41 final size:40
Alignment explanation
Indices: 7178--7394 Score: 134
Period size: 41 Copynumber: 5.3 Consensus size: 40
7168 CGATAGTAAG
* *
7178 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * *
7218 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGT
1 -ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
* * * ** * *
7259 ATTCGCATTGCGAATTATGAAAATCGCAACGCGA-ATACGT
1 ATTCGCATTGCGATTTACG-TAATCGCATTGCGATTTACCT
* * * * * * * *
7299 AAATCGCAATGCGAATTAGGAAAATTGCATTGCGATAGT-CAGT
1 -ATTCGCATTGCGATTTACG-TAATCGCATTGCGAT-TTAC-CT
* ** *
7342 A-TCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTT
1 ATTCGCATTGCGATTTACGTAA-TCGCATTGCGATTTACCT
7382 ATTCGCATTGCGA
1 ATTCGCATTGCGA
7395 ATTGGGAAAA
Statistics
Matches: 140, Mismatches: 28, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
40 27 0.19
41 108 0.77
42 2 0.01
43 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (40 bp):
ATTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCT
Found at i:7286 original size:61 final size:60
Alignment explanation
Indices: 7157--7394 Score: 189
Period size: 61 Copynumber: 3.9 Consensus size: 60
7147 GGCGCTATGT
* * *
7157 AAATCGCATTGCGA--TAGTAAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCT
1 AAATCGCATTGCGATTTACTAA-A-TCGCATTGCGATTTACGTATTCGCATTGCGATTAT-CA
* * * *
7218 AATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGA
1 AAATCGCATTGCGATTTACTAAATCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCA
** * * * * *
7279 AAATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAAATT-GCATTGCGA-TAGTCA
1 AAATCGCATTGCGATTTAC-TAAATCGCATTGCGATTTACG--TATTCGCATTGCGATTA-TCA
** * * *
7340 GTATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTATTCGCATTGCGA
1 AAATCGCATTGCGATTTACTAAA-TCGCATTGCGATTTACGTATTCGCATTGCGA
7395 ATTGGGAAAA
Statistics
Matches: 137, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
60 8 0.06
61 94 0.69
62 28 0.20
63 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (60 bp):
AAATCGCATTGCGATTTACTAAATCGCATTGCGATTTACGTATTCGCATTGCGATTATCA
Found at i:7292 original size:21 final size:21
Alignment explanation
Indices: 7268--7323 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
7258 TATTCGCATT
*
7268 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
7289 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
7309 GCGAATTAGGAAAAT
1 GCGAATTACGAAAAT
7324 TGCATTGCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.20
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:7332 original size:21 final size:21
Alignment explanation
Indices: 7261--7333 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
7251 ATTTACGTAT
* *
7261 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
7282 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
7302 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
7323 TTGCATTGCGA
1 TCGCAATGCGA
7334 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:7387 original size:20 final size:21
Alignment explanation
Indices: 7343--7394 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7333 ATAGTCAGTA
*
7343 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
7364 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
7384 TCGCATTGCGA
1 TCGCATTGCGA
7395 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:7436 original size:21 final size:22
Alignment explanation
Indices: 7384--7436 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
7374 ATTTACTTAT
7384 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
7405 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
7426 TCGCATTGCGA
1 TCGCATTGCGA
7437 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:11914 original size:54 final size:54
Alignment explanation
Indices: 11844--12162 Score: 415
Period size: 54 Copynumber: 5.9 Consensus size: 54
11834 CTGAGCAGCA
* * * * * *
11844 TTGTTCTCGTTCTGACCTGCATTTTCATTGTTGCCACTGTTGCTTTGAGTGACC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTCAGTGTTGCTCTGAGTGGCC
* * **
11898 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTAAGTGTTGCTTTGAGTGAAC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTCAGTGTTGCTCTGAGTGGCC
*
11952 TTGTTCTCGTTTTGACCTGCATTGTCATT-TCTGTCGGTGTTGCTCTGAGTGGCC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGT-TGTCAGTGTTGCTCTGAGTGGCC
* ** *
12006 TTGTTCTCGTTTTGACCTGCATTGTCACTGCCGTCAGTGTTGCTCTGATTGGCC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTCAGTGTTGCTCTGAGTGGCC
* * * *
12060 TTGTTCTCGTTTTGACCTGCATTGTCATTGCTGTCGGTGTTACTCTGAGTGGTC
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTCAGTGTTGCTCTGAGTGGCC
* * * *
12114 TTGTTCTCGTTCTGACCTGCATTTTCATTGTTTTCGGTGTTGCTCTGAG
1 TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTCAGTGTTGCTCTGAG
12163 CAGCATTTTC
Statistics
Matches: 236, Mismatches: 27, Indels: 4
0.88 0.10 0.01
Matches are distributed among these distances:
53 1 0.00
54 235 1.00
ACGTcount: A:0.10, C:0.21, G:0.24, T:0.45
Consensus pattern (54 bp):
TTGTTCTCGTTTTGACCTGCATTGTCATTGTTGTCAGTGTTGCTCTGAGTGGCC
Found at i:17322 original size:182 final size:182
Alignment explanation
Indices: 16663--17322 Score: 907
Period size: 181 Copynumber: 3.6 Consensus size: 182
16653 ATCGATACAA
* * * *
16663 AAAAATATATCGATCCATAATAGTATAACAGGTAAAAATATGATC-AAACCGGTTTC-ATTATGA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGA-CAAAACCGGTCTCGA-AATGA
* * * * * * * *
16726 AAAAACCTGTAAAGCGCTACCTAATATGTTTAAAGTATCGATTTCATTGAA-ATAAATATCGACA
64 CAAAACCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGA-TAC-TTTAATATAAGTATCGACA
*
16790 -TTTATGGAATTTAAAAGAGAAGCAGTAATAGCGCCTATAAAGTGTCGATACTTTAT
127 CTTT-TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
* * * *
16846 AAAAATGTATCGATCCATAAAAATATAACAAGTAAAAATATGACAAAACCGGTATCGAAATGACA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* * *
16911 AAACCGGTAAAGCGTTACCGAATATGTTGAAAATGTCGATACTTTAATATAAGTATAGACACTTT
66 AAACCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
* * *
16976 TGGAATTTAAAAGAGAAGTAATAATAGCGCCTATAAAGTATCGATATTTTAT
131 TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
* *
17028 -AAAATATATCGATCTATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* * * *
17092 AAACCGGTAAAGTGTTACCTAATATCTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
66 AAACCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
17157 TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
131 TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
* * * * *
17209 AAAAATACATCAATCTATAACAATATAACAGGTAAAAATATGACAAAATCGGTCTTGAAATGACA
1 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
* **
17274 AAACCGGTAAATCGCTACCGGGTATGTTGAAAGTGTCGATACTTTAATA
66 AAACCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAATA
17323 AGTACGCATA
Statistics
Matches: 426, Mismatches: 46, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
181 172 0.40
182 163 0.38
183 90 0.21
184 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACA
AAACCGGTAAAGCGCTACCGAATATGTTGAAAGTGTCGATACTTTAATATAAGTATCGACACTTT
TGGAATTTAAAAGAGAAGCAATAATAGCGCCTATAAAGTGTCGATACTTTAT
Found at i:19324 original size:22 final size:23
Alignment explanation
Indices: 19273--19326 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
19263 ACGTTTTTGT
19273 TTTA-TATATAAAATGATAGTATA
1 TTTATTATATAAAATGATAG-ATA
19296 TTTATTATATAAAATGATA-A-A
1 TTTATTATATAAAATGATAGATA
19317 TTTAATTATA
1 TTT-ATTATA
19327 AATGTAGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.14
22 7 0.24
23 4 0.14
24 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (23 bp):
TTTATTATATAAAATGATAGATA
Found at i:21664 original size:66 final size:66
Alignment explanation
Indices: 21555--21799 Score: 418
Period size: 66 Copynumber: 3.7 Consensus size: 66
21545 TTTGTATCTG
* * * * *
21555 GATGTAATTATGTTTGAGGTGAGAAAAATTAACAATAGGTTGTTGTACATGTTTCTTATACATGT
1 GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTTTCTTATACATGT
21620 T
66 T
*
21621 GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTTTCTTATAAATGT
1 GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTTTCTTATACATGT
21686 T
66 T
* *
21687 GATGTAATTATGTATGAGATGATAAAAGTTAGCAATAGGTTGTTGTACATGTTTCTTATACATGT
1 GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTTTCTTATACATGT
21752 T
66 T
21753 GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTA
1 GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTA
21800 TCTGAATGTA
Statistics
Matches: 168, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 168 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (66 bp):
GATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTACATGTTTCTTATACATGT
T
Found at i:21831 original size:117 final size:118
Alignment explanation
Indices: 21688--21917 Score: 356
Period size: 117 Copynumber: 2.0 Consensus size: 118
21678 ATAAATGTTG
* * *
21688 ATGTAATTATGTATGAGATGATAAAAGTTAGCAATAGGTTGTTGTACATGTTTCTTATACAT-GT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGGGTGTTCTACATGTTTCTTATACATAGT
* * *
21752 TG-ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGATTGTTGTATCTGA
66 AGTA-GTAATTATGTATGAGATGAGAAAAGATAACAATAGATTGTTGTATCTGA
* *
21805 ATGTAATTATGTGTGAGATGAGAAAAGTTAGCAGTAGGGTGTTCTACATGTTTCTTATACATAGT
1 ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGGGTGTTCTACATGTTTCTTATACATAGT
*
21870 AGTAGTAATTATGTATGAGATGAGAAAAGATAACAATAGGTTGTTGTA
66 AGTAGTAATTATGTATGAGATGAGAAAAGATAACAATAGATTGTTGTA
21918 CATGTTTATT
Statistics
Matches: 102, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
117 57 0.56
118 44 0.43
119 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (118 bp):
ATGTAATTATGTATGAGATGAGAAAAGTTAGCAATAGGGTGTTCTACATGTTTCTTATACATAGT
AGTAGTAATTATGTATGAGATGAGAAAAGATAACAATAGATTGTTGTATCTGA
Found at i:22400 original size:179 final size:180
Alignment explanation
Indices: 22157--22517 Score: 505
Period size: 180 Copynumber: 2.0 Consensus size: 180
22147 GTAACCGATA
* * * *
22157 AAAATATATTAGTTTTATGAGAAAATAGGTCAACATAATGTATTGATATTTTTATAAATTGTGTC
1 AAAATATATTAGTTTAATGAGAAAATAGGTCAACATAATGTATCGACATTTTGATAAATTGTGTC
* **
22222 GATACTTTTTATCTAGAATGAATG-TCAAACGAAATGCACGCATAAAGTGTCGATACATTTATTG
66 GATACTTTTTATCTAGAATGAATGCCCAAACGAAATGCACGCATAAAGTGTCGATACATTTATAA
* *
22286 TAAGTATCGATCCTC-AAAACATCGAAACCGATTATTATAAAGTAATAGGT
131 AAAGTATCGATCC-CAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
* * *
22336 AAAATATACTT-GTTTAATGAGAGAATAGGTCTACATAATGTATCGACACTTTTGA-AATTTGTG
1 AAAATATA-TTAGTTTAATGAGAAAATAGGTCAACATAATGTATCGACA-TTTTGATAAATTGTG
* * *
22399 TCGATATTTTTTGTCTAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACATTTAT
64 TCGATACTTTTTATCTAGAATGAATGCCCAAACGAAATGCACGCATAAAGTGTCGATACATTTAT
* * *
22464 AAAAAGTATTGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGT
129 AAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
22516 AA
1 AA
22518 TTTTGCAATG
Statistics
Matches: 160, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
179 72 0.45
180 88 0.55
ACGTcount: A:0.39, C:0.12, G:0.16, T:0.33
Consensus pattern (180 bp):
AAAATATATTAGTTTAATGAGAAAATAGGTCAACATAATGTATCGACATTTTGATAAATTGTGTC
GATACTTTTTATCTAGAATGAATGCCCAAACGAAATGCACGCATAAAGTGTCGATACATTTATAA
AAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAAGTAATAGGT
Found at i:23112 original size:199 final size:198
Alignment explanation
Indices: 22333--23407 Score: 1406
Period size: 200 Copynumber: 5.4 Consensus size: 198
22323 TAAAGTAATA
** * * * * *
22333 GGTA-AAATATACTTGTTTAATGAGAGAATAGGTCTACATAATGTATCGACACTTTTGAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
* * * *
22397 TGTCGATATTTTTTGTCTAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACATTT
66 TGTCGATACTTTTT-TCCAGAATGAATG-CCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
** * *
22462 ATAAAAAGTATTGATCCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAATTTTGCAAT
129 A-AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
22527 GTAACC
193 GTAACC
* *
22533 GGTATAAATATATCGGTTTAATTAGAAATCAGGTCAACATAATGTATCGACAC---TTAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
* * * **
22595 TGTTGATACATTTTGTCCAGAATAAATGCCAAACTAGGTGCACTTATAAAGTGTCGATACATTTA
66 TGTCGATAC-TTTTTTCCAGAATGAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTA
* * * * *
22660 AAATTGTATCGATTCCAAAAATATCGAAACCCATAATTATAATGTAATATGTAACTTTACAATGT
130 AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGT
22725 AACC
195 AACC
* * * * * * *
22729 GGTATAAATACACCGGTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTAAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
* * * *
22794 TGTCGAAACTTTTTGTCCAGAATGAATACCCAAACGAGGTGCACACATAAAGTGTCGATACATTT
66 TGTCGATACTTTTT-TCCAGAATGAAT-GCCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
** * *
22859 ATAAAAAGTATCGATCCCAAAAA-ATCAAAACTCATAATTATAATGTAATAGGTAATTTTGCAAT
129 A-AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
*
22923 ATAACC
193 GTAACC
* * *
22929 GATATAAATATATCGGTTTAATTAGAAAAAAGGTCAACATAATGTATCGACACTTTTTAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
* * *
22994 TGTTGATACATTTTTTCCAGAATGAATGTCAAACTAGGTGCACGCATAAAGTGTCTATACATTTA
66 TGTCGATAC-TTTTTTCCAGAATGAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTA
*
23059 AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATGT
130 AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGT
23124 AACC
195 AACC
* * * * *
23128 GGTACAAATATACCGGTTTAGTTAGAAAACATGTCAACATAATGTATCGAAACTTTTAAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
* ** * *
23193 TGTCGATACTTGTTGTCCAGAAATGAATGATAGACTAGCTGCACGCATAAAGTGTCGATACATTT
66 TGTCGATACTT-TTTTCCAG-AATGAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTT
* *
23258 AATAATT-TATCGATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTCCAAT
129 AA-AATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAAT
*
23322 GTAACT
193 GTAACC
* * * *
23328 AGTATAAATATACTGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTAAATTTG
1 GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
23393 TGTCGATACTTTTTT
66 TGTCGATACTTTTTT
23408 TAAATTACGC
Statistics
Matches: 760, Mismatches: 102, Indels: 27
0.85 0.11 0.03
Matches are distributed among these distances:
196 105 0.14
197 33 0.04
198 51 0.07
199 181 0.24
200 323 0.43
201 67 0.09
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (198 bp):
GGTATAAATATACCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTG
TGTCGATACTTTTTTCCAGAATGAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAA
AATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGCAATGTA
ACC
Found at i:23126 original size:399 final size:399
Alignment explanation
Indices: 22347--23408 Score: 1541
Period size: 399 Copynumber: 2.7 Consensus size: 399
22337 AAATATACTT
* * *
22347 GTTTAATGAGAGAATAGGTCTACATAATGTATCGACACTTTTGAAATTTGTGTCGATATTTTTTG
1 GTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACTTTTTG
* * *
22412 TCTAGAATGAATGCCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATTGAT
66 TCCAGAATGAATACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
*
22477 CCCAAAAACATCGAAACCTATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGGTATAAAT
131 CCCAAAAACATCGAAACC-ATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGATATAAAT
*
22542 ATATCGGTTTAATTAGAAATCAGGTCAACATAATGTATCGACAC---TTAAATTTGTGTTGATAC
195 ATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
* **
22604 ATTTTGTCCAGAATAAATGCCAAACTAGGTGCACTTATAAAGTGTCGATACATTTAAAATTGTAT
260 ATTTTTTCCAGAATAAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTAT
* * * *
22669 CGATTCCAAAAATATCGAAACCCATAATTATAATGTAATATGTAACTTTACAATGTAACCGGTAT
325 CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAC
22734 AAATACACCG
390 AAATACACCG
*
22744 GTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGAAACTTTTTG
1 GTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACTTTTTG
* *
22809 TCCAGAATGAATACCCAAACGAGGTGCACACATAAAGTGTCGATACATTTATAAAAAGTATCGAT
66 TCCAGAATGAATACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
* *
22874 CCCAAAAA-ATCAAAACTCATAATTATAATGTAATAGGTAATTTTGCAATATAACCGATATAAAT
131 CCCAAAAACATCGAAAC-CATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGATATAAAT
*
22938 ATATCGGTTTAATTAGAAAAAAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
195 ATATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATAC
* * *
23003 ATTTTTTCCAGAATGAATGTCAAACTAGGTGCACGCATAAAGTGTCTATACATTTAAAATTGTAT
260 ATTTTTTCCAGAATAAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTAT
* **
23068 CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAATTTTGTAATGTAACCGGTAC
325 CGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTAC
*
23133 AAATATACCG
390 AAATACACCG
* * * * * * *
23143 G-TTTAGTTAGAAAACATGTCAACATAATGTATCGAAACTTTTAAAATTTGTGTCGATACTTGTT
1 GTTTTA-TGAGAGAATAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACTTTTT
* * * * * **
23207 GTCCAGAAATGAATGA--TAGACTAGCTGCACGCATAAAGTGTCGATACATTTA-ATAATTTATC
65 GTCCAG-AATGAAT-ACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATC
* * *
23269 GATCCCAAAAACATCGAAACCCATAATTATAATATAATAGGTAATTTTCCAATGTAA-CTAGTAT
128 GATCCCAAAAACATCGAAA-CCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGA-TAT
* * *
23333 AAATATA-CTGGGTTAATTAGAAAACATGTCAACATAATGTATCGACACTTTTTAAATTTGTGTC
191 AAATATATC-GGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTT
*
23397 GATACTTTTTTT
255 GATACATTTTTT
23409 AAATTACGCT
Statistics
Matches: 600, Mismatches: 54, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
396 93 0.16
397 130 0.22
398 25 0.04
399 343 0.57
400 8 0.01
401 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (399 bp):
GTTTTATGAGAGAATAGGTCTACATAATGTATCGACACTTTTAAAATTTGTGTCGATACTTTTTG
TCCAGAATGAATACCCAAACGAGATGCACGCATAAAGTGTCGATACATTTATAAAAAGTATCGAT
CCCAAAAACATCGAAACCATAATTATAATGTAATAGGTAATTTTGCAATGTAACCGATATAAATA
TATCGGTTTAATTAGAAAACAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTTGATACA
TTTTTTCCAGAATAAATGCCAAACTAGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATC
GATCCCAAAAACATCGAAACCCATAATTATAATGTAATAGGTAACTTTACAATGTAACCGGTACA
AATACACCG
Found at i:23736 original size:15 final size:15
Alignment explanation
Indices: 23716--23761 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
23706 TTCTAAAAGA
*
23716 TCTTCTCAACCAAGC
1 TCTTCTCAACCAACC
23731 TCTTCTCAACCACAACC
1 TCTTCTCAA-C-CAACC
23748 TCTTTCTCAACCAA
1 TC-TTCTCAACCAA
23762 TCACTTCTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 9 0.33
16 4 0.15
17 7 0.26
18 7 0.26
ACGTcount: A:0.28, C:0.41, G:0.02, T:0.28
Consensus pattern (15 bp):
TCTTCTCAACCAACC
Found at i:24954 original size:6 final size:6
Alignment explanation
Indices: 24908--24953 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
24898 CAAGCGCTCA
* * * *
24908 ATGAAG ATGACG ATGAAG ATGAAG ATAAAG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
24954 TCCAAACAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.46, C:0.02, G:0.30, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:28502 original size:199 final size:199
Alignment explanation
Indices: 27878--29241 Score: 1691
Period size: 198 Copynumber: 6.8 Consensus size: 199
27868 TAATAGGTAA
* *
27878 ATAAATGTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
1 ATAAA-GTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAA
* * * * * ** * *
27942 TTTAATAGGTAAATTTACAATGTAACAGGTAGATATATA-ATAG-TTTTATAAGAAAATAAGTCT
63 TGTAATATGTAACTTTACAATGTAACCGGT--ATAAATACACCGATTTTATGAGAAAATAGGTCT
* * * *
28005 ACATAATGTATCGACACTTTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAACGA
126 ACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTA
*
28070 GGTGCATGC
191 GGTGCACGC
* * * * *
28079 ATAAAGTATTGATGCATTTAAAATTGTATCGATCCCAAAAACATCAAAACCGATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * * * * * *
28144 AATATTTAACTTTACAATGCAACCGGTAGAAATATACCGA-TTAATTAGAAAATAGGTCAACATA
66 AATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAGAAAATAGGTCTACATA
* * * * *
28208 ATGTATCGACACTTTTAAAATTTGTATCGATACTTTTTTTCCAGAATGAAAGCCAAA-TGAGGTG
131 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACT-AGGTG
*
28272 AACGC
195 CACGC
* * *
28277 ATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCGAAACACATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
** *
28342 AATATGTAACTTTACAATGTAACCAATATAAATACACCGATTTTATGAGAAAATAGGTCAACATA
66 AATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAGAAAATAGGTCTACATA
** * * * * *
28407 ATGTATCGGTACTTTTTAATTTTTTGTTGATACTTTTTGTCTAGAATGAATGACAAACTAGGTGT
131 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGC
*
28472 ATGC
196 ACGC
* ** * *
28476 ATAAAGTGTCTATACATTTAAAATTGTATCGATCCCCTAAA-ATCAAAACTCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* ** **
28540 AATATGTAACTTTACAATATAACTTGTATAAACGCACCGATTTTATGAGAAAATATAGGTCTACA
66 AATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAG-AAA-ATAGGTCTACA
* * *
28605 TAATGTATCAACACTTTTTAATTTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACTAGGT
129 TAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGT
28670 GCACGC
194 GCACGC
* *
28676 ATAAAGTGTCGATACATTTAAAATTTTATTGATCCCAAAAACATCGAAACCCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * * *
28741 AATATGTAACTTTACAATATAACTGGTATAAACACACCGGTTTTATGAGAAAATAGGTCTACATA
66 AATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAGAAAATAGGTCTACATA
* * * *
28806 ATGTATCAACAC-TTTTAATTTTGTGTCGATACTTTTTGTCTAGAATGAATGATAAACTAGGTGC
131 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGC
28870 ACGC
196 ACGC
*
28874 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGT
1 ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
* * * * *
28939 AATATGTAACTTTACAATGTAACCGGTAGAATTACACCGGTTTTACGAGAAAATAGGTCTGCATA
66 AATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAGAAAATAGGTCTACATA
* * * * *
29004 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAAAGCCAAACGAGGTGT
131 ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGC
*
29069 ATGC
196 ACGC
* * *
29073 ATAAAGTGTCGATGCATTTATTAAATT-TATTGATCCCAAAGACATCGAAACCCATAATTATAAT
1 ATAAAGTGTCGATACATTTA--AAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAAT
* * * * * * * * * *
29137 ATAATAGGTAAATTTACAATGTAACCGGTAGAAAAATACCGATATAATTAGAAAATAGGTCAACA
64 GTAATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAGAAAATAGGTCTACA
* * *
29202 TAATGTATCGCCACTTTTTAAATTTGTATCGATATTTTTT
129 TAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTT
29242 TAAATTACAC
Statistics
Matches: 1021, Mismatches: 130, Indels: 25
0.87 0.11 0.02
Matches are distributed among these distances:
197 5 0.00
198 423 0.41
199 269 0.26
200 247 0.24
201 77 0.08
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (199 bp):
ATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCGAAACCCATAATTATAATGT
AATATGTAACTTTACAATGTAACCGGTATAAATACACCGATTTTATGAGAAAATAGGTCTACATA
ATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGACAAACTAGGTGC
ACGC
Found at i:29038 original size:597 final size:598
Alignment explanation
Indices: 27878--29241 Score: 1762
Period size: 597 Copynumber: 2.3 Consensus size: 598
27868 TAATAGGTAA
** * * *
27878 ATAAATGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 ATAAA-GTGTCGATACATTTA-TAAATTTATCGATCCCAAAGACATCAAAACCCATAATTATAAT
* * * *
27943 TTAATAGGTAAATTTACAATGTAACAGGTAGATATATAATA--G-TTTTATAAGAAAATA-A-GT
64 ATAATAGGTAAATTTACAATATAACCGGTAGA-A-A-AACACCGATTTTATAAGAAAATATAGGT
* * * *
28003 CTACATAATGTATCGACACTTTATAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAC
126 CTACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGACAAAC
* * * *
28068 GAGGTGCATGCATAAAGTATTGATGCATTTAAAATTGTATCGATCCCAAAAACATCAAAACCGAT
191 GAGGTGCACGCATAAAGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCAT
* * * * *
28133 AATTATAATGTAATATTTAACTTTACAATGCAACCGGTAGAAATATACCGATTAATTAGAAAATA
256 AATTATAATGTAATATGTAACTTTACAATACAACCGGTAGAAACACACCGATTAATGAGAAAATA
* * *
28198 GGTCAACATAATGTATCGACACTTTTAAAATTTGTATCGATACTTTTTTTCCAGAATGAAAGCCA
321 GGTCAACATAATGTATCAACACTTTTAAAATTTGTATCGATACTTTTTGTCCAGAATGAAAGACA
*
28263 AATGAGGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCGAAACA
386 AATGAGGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCAAAACA
* *
28328 CATAATTATAATGTAATATGTAACTTTACAATGTAACCAATATAAATACACCGATTTTATGAGAA
451 CATAATTATAATGTAATATGTAACTTTACAATGTAACCAATAGAAATACACCGATTTTACGAGAA
** * * * *
28393 AATAGGTCAACATAATGTATCGGTACTTTTTAATTTTTTGTTGATACTTTTTGTCTAGAATGAAT
516 AATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAAA
*
28458 GACAAACTAGGTGTATGC
581 GACAAACGAGGTGTATGC
* * *
28476 ATAAAGTGTCTATACATTTA-AAATTGTATCGATCCCCTAA-A-ATCAAAACTCATAATTATAAT
1 ATAAAGTGTCGATACATTTATAAATT-TATCGAT-CCCAAAGACATCAAAACCCATAATTATAAT
* * * ** * ** *
28538 GTAATATGTAACTTTACAATATAACTTGTATAAACGCACCGATTTTATGAGAAAATATAGGTCTA
64 ATAATAGGTAAATTTACAATATAACCGGTAGAAAAACACCGATTTTATAAGAAAATATAGGTCTA
* * *
28603 CATAATGTATCAACACTTTTTAATTTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACTAG
129 CATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACGAG
* * * *
28668 GTGCACGCATAAAGTGTCGATACATTTAAAATTTTATTGATCCCAAAAACATCGAAACCCATAAT
194 GTGCACGCATAAAGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAAT
* * * * *
28733 TATAATGTAATATGTAACTTTACAATATAACTGGTATAAACACACCGGTTTTATGAGAAAATAGG
259 TATAATGTAATATGTAACTTTACAATACAACCGGTAGAAACACACC-GATTAATGAGAAAATAGG
* * * * * *
28798 TCTACATAATGTATCAACACTTTT-AATTTTGTGTCGATACTTTTTGTCTAGAATGAATGATAAA
323 TCAACATAATGTATCAACACTTTTAAAATTTGTATCGATACTTTTTGTCCAGAATGAAAGACAAA
* * * *
28862 CT-AGGTGCACGCATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCC
388 -TGAGGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCAAAACAC
** * *
28926 ATAATTATAATGTAATATGTAACTTTACAATGTAACCGGTAGAATTACACCGGTTTTACGAGAAA
452 ATAATTATAATGTAATATGTAACTTTACAATGTAACCAATAGAAATACACCGATTTTACGAGAAA
**
28991 ATAGGTCTGCATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAAAG
517 ATAGGTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAAAG
*
29056 CCAAACGAGGTGTATGC
582 ACAAACGAGGTGTATGC
* * *
29073 ATAAAGTGTCGATGCATTTATTAAATTTATTGATCCCAAAGACATCGAAACCCATAATTATAATA
1 ATAAAGTGTCGATACATTTA-TAAATTTATCGATCCCAAAGACATCAAAACCCATAATTATAATA
* * * * * *
29138 TAATAGGTAAATTTACAATGTAACCGGTAGAAAAATACCGATATAATTAG-AAA-ATAGGTCAAC
65 TAATAGGTAAATTTACAATATAACCGGTAGAAAAACACCGATTTTATAAGAAAATATAGGTCTAC
* * *
29201 ATAATGTATCGCCACTTTTTAAATTTGTATCGATATTTTTT
130 ATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTT
29242 TAAATTACAC
Statistics
Matches: 655, Mismatches: 98, Indels: 27
0.84 0.13 0.03
Matches are distributed among these distances:
592 1 0.00
593 1 0.00
594 2 0.00
595 60 0.09
596 9 0.01
597 467 0.71
598 53 0.08
599 62 0.09
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (598 bp):
ATAAAGTGTCGATACATTTATAAATTTATCGATCCCAAAGACATCAAAACCCATAATTATAATAT
AATAGGTAAATTTACAATATAACCGGTAGAAAAACACCGATTTTATAAGAAAATATAGGTCTACA
TAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTATCCAGAATGAATGACAAACGAGGT
GCACGCATAAAGTATCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCCATAATTA
TAATGTAATATGTAACTTTACAATACAACCGGTAGAAACACACCGATTAATGAGAAAATAGGTCA
ACATAATGTATCAACACTTTTAAAATTTGTATCGATACTTTTTGTCCAGAATGAAAGACAAATGA
GGTGAACGCATAAAGTGTCAATACATATAAAATTGTATCGATCCCAAAAACATCAAAACACATAA
TTATAATGTAATATGTAACTTTACAATGTAACCAATAGAAATACACCGATTTTACGAGAAAATAG
GTCAACATAATGTATCGACACTTTTTAAATTTGTGTCGATACTTTTTGTCTAGAATGAAAGACAA
ACGAGGTGTATGC
Found at i:33910 original size:198 final size:199
Alignment explanation
Indices: 33448--34168 Score: 865
Period size: 198 Copynumber: 3.6 Consensus size: 199
33438 TAAACATATG
* *
33448 TGTCGATATATTT-TCTAAAAGTATCGA-CTCCAAAAACATCGAAACCAATAATTATAATGTAAT
1 TGTCGATACATTTAT-TAAAAGTATCGATC-CCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * * * *
33511 AGGTAAATTAACAATATAACCGATATAAAATATAAC-ATTTAATTA-AAAACATGTTAACATAAT
64 AGGTAAATTTACAATGTAACCGATAT-AAATATACCGATTTTATGAGAAAATAGGTCAACATAAT
* ** * * * * *
33574 GTATCGACACTTGTGGAATTTGTGTC-A-ATACTTAATGTCTAGAATGAATGCCCAAACAAGGTA
128 GTATCGACACTTTTTAAATTTGTGTCGATATA-TT--TTTCCAGAATGAATG-TCAAACGAGGTG
33637 CATGCATAAAA
189 CATGCATAAAA
33648 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAA-CGATAATTATAATGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
*
33712 GTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAGAATAGGTCAACATAATGTA
66 GTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAAAATAGGTCAACATAATGTA
*
33777 TCGACACTTTTTAAATTTGTGTCGATATATTTTTCCAGAATGAATGTCAAACGAGTTGCATGCAT
131 TCGACACTTTTTAAATTTGTGTCGATATATTTTTCCAGAATGAATGTCAAACGAGGTGCATGCAT
*
33842 AAAG
196 AAAA
* * *
33846 TGTCGATACATTTATTAAAAATATC-ATCCCAAAAACATCGAAACCGGTAATTACAATGTAATAG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
* * * * * *
33910 GTAAATTTACAATG-AACTCGGTAGAAATATATCGGTTTTATGAGAAAATAGTTCTACATAATGT
66 GTAAATTTACAATGTAAC-CGATATAAATATACCGATTTTATGAGAAAATAGGTCAACATAATGT
* * * * *
33974 ATCGACACTTTTTAAGTTTGTGTTGATATTTTTTTCCAGAATAAATGTCCAACGAGGTGCATGCA
130 ATCGACACTTTTTAAATTTGTGTCGATATATTTTTCCAGAATGAATGTCAAACGAGGTGCATGCA
34039 TAAAA
195 TAAAA
* *
34044 TGTCGATACA--TA-TAAAATTGTATCGATCCCAAAAACTTCAAAACCGATAATTATAATGTAAT
1 TGTCGATACATTTATTAAAA--GTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * * *
34106 AGGTAAATTTGCAATGTTACCAATATAAATATACCGA-TTTAGTTAGAAAATATGTCAATATAA
64 AGGTAAATTTACAATGTAACCGATATAAATATACCGATTTTA-TGAGAAAATAGGTCAACATAA
34169 GCGCTACCTA
Statistics
Matches: 453, Mismatches: 55, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
195 5 0.01
196 2 0.00
197 29 0.06
198 270 0.60
199 63 0.14
200 76 0.17
201 5 0.01
202 3 0.01
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (199 bp):
TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGAGAAAATAGGTCAACATAATGTA
TCGACACTTTTTAAATTTGTGTCGATATATTTTTCCAGAATGAATGTCAAACGAGGTGCATGCAT
AAAA
Found at i:34210 original size:23 final size:23
Alignment explanation
Indices: 34154--34210 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
34144 TTAGTTAGAA
*
34154 AATATGTCAATATAAGCGCTACCT
1 AATATGT-TATATAAGCGCTACCT
* **
34178 ATTACATTATATAAGCGCTACCT
1 AATATGTTATATAAGCGCTACCT
34201 AATATGTTAT
1 AATATGTTAT
34211 TGTACTTGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
23 22 0.85
24 4 0.15
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (23 bp):
AATATGTTATATAAGCGCTACCT
Found at i:34266 original size:23 final size:23
Alignment explanation
Indices: 34240--34306 Score: 71
Period size: 28 Copynumber: 2.7 Consensus size: 23
34230 GGTTAAATGT
34240 CTATTTTATTATATAATTTCTAC
1 CTATTTTATTATATAATTTCTAC
34263 CTATTACATTTTATTATATAATTTCTAC
1 C---T--ATTTTATTATATAATTTCTAC
**
34291 CTATTACATTATATAA
1 CTATTTTATTATATAA
34307 GCGCTGACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
23 13 0.35
25 1 0.03
26 1 0.03
28 22 0.59
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.52
Consensus pattern (23 bp):
CTATTTTATTATATAATTTCTAC
Found at i:34273 original size:28 final size:28
Alignment explanation
Indices: 34242--34300 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
34232 TTAAATGTCT
34242 ATTTTATTATATAATTTCTACCTATTAC
1 ATTTTATTATATAATTTCTACCTATTAC
34270 ATTTTATTATATAATTTCTACCTATTAC
1 ATTTTATTATATAATTTCTACCTATTAC
34298 ATT
1 ATT
34301 ATATAAGCGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.32, C:0.14, G:0.00, T:0.54
Consensus pattern (28 bp):
ATTTTATTATATAATTTCTACCTATTAC
Found at i:35438 original size:10 final size:10
Alignment explanation
Indices: 35425--35486 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 10
35415 ATAAATAAGA
35425 GAACATAAAC
1 GAACATAAAC
*
35435 GAACACGAACGAAC
1 GAACA-TAA--A-C
35449 GAACATAAAC
1 GAACATAAAC
35459 GAACACAATAAAC
1 G-A-AC-ATAAAC
35472 GAACATAAAC
1 GAACATAAAC
35482 GAACA
1 GAACA
35487 ACACAAACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
10 18 0.42
11 6 0.14
12 3 0.07
13 10 0.23
14 6 0.14
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (10 bp):
GAACATAAAC
Found at i:35476 original size:23 final size:24
Alignment explanation
Indices: 35425--35486 Score: 99
Period size: 23 Copynumber: 2.6 Consensus size: 24
35415 ATAAATAAGA
*
35425 GAACATAAACGAACACGAACGAAC
1 GAACATAAACGAACACGAACAAAC
*
35449 GAACATAAACGAACAC-AATAAAC
1 GAACATAAACGAACACGAACAAAC
35472 GAACATAAACGAACA
1 GAACATAAACGAACA
35487 ACACAAACAC
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 20 0.56
24 16 0.44
ACGTcount: A:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (24 bp):
GAACATAAACGAACACGAACAAAC
Found at i:35494 original size:23 final size:23
Alignment explanation
Indices: 35425--35494 Score: 97
Period size: 23 Copynumber: 3.0 Consensus size: 23
35415 ATAAATAAGA
*
35425 GAACATAAACGAACACGAACGAAC
1 GAACATAAACGAACAC-AACAAAC
*
35449 GAACATAAACGAACACAATAAAC
1 GAACATAAACGAACACAACAAAC
35472 GAACATAAACGAACA-ACACAAAC
1 GAACATAAACGAACACA-ACAAAC
35495 ACGCACAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
22 1 0.02
23 25 0.60
24 16 0.38
ACGTcount: A:0.59, C:0.24, G:0.11, T:0.06
Consensus pattern (23 bp):
GAACATAAACGAACACAACAAAC
Found at i:35767 original size:14 final size:14
Alignment explanation
Indices: 35748--35790 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
35738 GCCCTCTGTT
35748 CGAACATAAATGAA
1 CGAACATAAATGAA
35762 CGAACATAAATGAA
1 CGAACATAAATGAA
** *
35776 ATAACATAAACGAA
1 CGAACATAAATGAA
35790 C
1 C
35791 ATATAATCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.58, C:0.16, G:0.12, T:0.14
Consensus pattern (14 bp):
CGAACATAAATGAA
Found at i:36391 original size:2 final size:2
Alignment explanation
Indices: 36384--36411 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
36374 AATACCTTTC
36384 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
36412 CATTACACGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:38766 original size:23 final size:23
Alignment explanation
Indices: 38740--38783 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
38730 ACCGTTGACC
*
38740 TGACCGTTGACTTTGACCAAAGT
1 TGACCGTCGACTTTGACCAAAGT
*
38763 TGACTGTCGACTTTGACCAAA
1 TGACCGTCGACTTTGACCAAA
38784 AAGTCAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (23 bp):
TGACCGTCGACTTTGACCAAAGT
Found at i:38802 original size:17 final size:17
Alignment explanation
Indices: 38780--38812 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
38770 CGACTTTGAC
38780 CAAAAAGTCAAATTTTG
1 CAAAAAGTCAAATTTTG
*
38797 CAAAAAGTCATATTTT
1 CAAAAAGTCAAATTTT
38813 ATGTTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.33
Consensus pattern (17 bp):
CAAAAAGTCAAATTTTG
Found at i:41115 original size:2 final size:2
Alignment explanation
Indices: 41108--41190 Score: 166
Period size: 2 Copynumber: 41.5 Consensus size: 2
41098 CTTCTAGATG
41108 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
41150 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
41191 CCATCTACTC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 81 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:47611 original size:23 final size:23
Alignment explanation
Indices: 47585--47645 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
47575 CTCATATAAA
*
47585 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
47608 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
47631 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
47646 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:47832 original size:103 final size:103
Alignment explanation
Indices: 47661--47878 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
47651 TAATGTCCAT
* *
47661 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTATCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCA
*
47726 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACAAATGTTCCAAAGAATACATATATGTCCCG
* * *
47764 AAGGACCATATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCA
*
47829 GACTTCACAAATGTTCCAAATAATACATATATGTCCCG
66 GACTTCACAAATGTTCCAAAGAATACATATATGTCCCG
47867 AAGGACCACATA
1 AAGGACCACATA
47879 GACCCTCGAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTATCTCACCA
GACTTCACAAATGTTCCAAAGAATACATATATGTCCCG
Found at i:49440 original size:21 final size:21
Alignment explanation
Indices: 49416--49460 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
49406 TTTTGTTCGT
* *
49416 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
49437 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
49458 TTG
1 TTG
49461 CCCAGAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:53438 original size:27 final size:27
Alignment explanation
Indices: 53395--53447 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
53385 AATTTATGCG
*
53395 TATTTTATATTTGGGTCACTGATTTAA
1 TATTTTATATTTAGGTCACTGATTTAA
*
53422 TATTTTATGTTTAGGTCACTGATTTA
1 TATTTTATATTTAGGTCACTGATTTA
53448 TTTCTGATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.15, T:0.53
Consensus pattern (27 bp):
TATTTTATATTTAGGTCACTGATTTAA
Found at i:54825 original size:23 final size:23
Alignment explanation
Indices: 54799--54859 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
54789 CTCATATAAA
*
54799 TGCACCGAAGTGCCACATAGAAT
1 TGCACCGTAGTGCCACATAGAAT
* *
54822 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACATAGAAT
54845 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
54860 TATAATAATG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACATAGAAT
Found at i:55048 original size:103 final size:103
Alignment explanation
Indices: 54875--55092 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
54865 TAATGTCCAT
* * *
54875 AAGGACCACATATTATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
54940 TACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
54978 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
55043 GACTTCACACATGTTCCAAAGAATATATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
55081 AAGGACCACATA
1 AAGGACCACATA
55093 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:56655 original size:21 final size:21
Alignment explanation
Indices: 56631--56675 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
56621 TTTTGTTCGT
* *
56631 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
56652 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
56673 TTG
1 TTG
56676 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:57676 original size:46 final size:44
Alignment explanation
Indices: 57562--57780 Score: 224
Period size: 46 Copynumber: 4.7 Consensus size: 44
57552 GTAAGCATGC
*
57562 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTAAAACA
1 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTATATTGGT-----A
*
57611 AAATAAGCTTACGAGCTTATGATATTAAATGGTAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATGA-A-TAAATGGTAAGTATATTGGTA
* * *
57657 AAATAAGCTTACGAGCTTATGGTATTAAATTGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTAT-G-AATAAATGGTAAGTATATTGGTA
* *
57703 AAATAAGCTTACGAGGTTATGGAATAAATGGTAAGTATTTTTGGTA
1 AAATAAGCTTACGAGCTTAT-GAATAAATGGTAAGTA-TATTGGTA
* * *
57749 AAATACGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTAT-GAATAAATGGT
57781 GAGGAATTTT
Statistics
Matches: 151, Mismatches: 13, Indels: 15
0.84 0.07 0.08
Matches are distributed among these distances:
45 13 0.09
46 96 0.64
47 1 0.01
48 3 0.02
49 21 0.14
50 1 0.01
51 16 0.11
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.33
Consensus pattern (44 bp):
AAATAAGCTTACGAGCTTATGAATAAATGGTAAGTATATTGGTA
Found at i:58259 original size:33 final size:33
Alignment explanation
Indices: 58219--58305 Score: 120
Period size: 33 Copynumber: 2.6 Consensus size: 33
58209 CGATGTTTTT
* *
58219 GTGCATCGGTATAATGTTCACGTCACTGTAGCA
1 GTGCATCGATACAATGTTCACGTCACTGTAGCA
* * *
58252 GTGCATCGATACATTGTTCACGTTATTGTAGCA
1 GTGCATCGATACAATGTTCACGTCACTGTAGCA
*
58285 GTGCATCGATACACTGTTCAC
1 GTGCATCGATACAATGTTCAC
58306 TATTCATAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (33 bp):
GTGCATCGATACAATGTTCACGTCACTGTAGCA
Found at i:60564 original size:21 final size:20
Alignment explanation
Indices: 60540--60578 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
60530 ATATGACAAA
60540 CTATCA-AAGTGTGAGTTTTGG
1 CTATCAGAAGT-TGA-TTTTGG
60561 CTATCAGAAGTTGATTTT
1 CTATCAGAAGTTGATTTT
60579 CTTAGTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (20 bp):
CTATCAGAAGTTGATTTTGG
Found at i:60730 original size:13 final size:13
Alignment explanation
Indices: 60647--60742 Score: 61
Period size: 15 Copynumber: 6.8 Consensus size: 13
60637 AAAAAAACAT
60647 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
60660 TAAAAAGAAAA-AA
1 -AAAAAGAAAAGAA
60673 TAGATAAAGAAAATGAA
1 -A-A-AAAGAAAA-GAA
*
60690 AACGAAGAAGAAGAA
1 AA-AAAGAA-AAGAA
**
60705 GAAAAA-ATGAAAGTG
1 -AAAAAGA--AAAGAA
60720 AAAAAGAAAAGAA
1 AAAAAGAAAAGAA
60733 AAAAAGAAAA
1 AAAAAGAAAA
60743 AAATGAGAGA
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
13 18 0.27
14 17 0.26
15 23 0.35
16 6 0.09
17 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.18, T:0.06
Consensus pattern (13 bp):
AAAAAGAAAAGAA
Found at i:60731 original size:25 final size:26
Alignment explanation
Indices: 60682--60742 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
60672 ATAGATAAAG
*
60682 AAAATGAAAACGAAGAAGAAGAAGAA
1 AAAATGAAAACGAAAAAGAAGAAGAA
**
60708 AAAATGAAAGTGAAAAAGAA-AAGAA
1 AAAATGAAAACGAAAAAGAAGAAGAA
*
60733 AAAAAGAAAA
1 AAAATGAAAA
60743 AAATGAGAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.05
Consensus pattern (26 bp):
AAAATGAAAACGAAAAAGAAGAAGAA
Found at i:60744 original size:21 final size:21
Alignment explanation
Indices: 60647--60745 Score: 53
Period size: 21 Copynumber: 4.6 Consensus size: 21
60637 AAAAAAACAT
60647 AAAAAGAAAAGAATA-AAAAGAA
1 AAAAAGAAAA-AA-AGAAAAGAA
*
60669 AAAATAG--ATAAAGAAAATGAA
1 AAAA-AGAAAAAAAGAAAA-GAA
* *
60690 AACGAAGAAGAAGAAGAAAA-AA
1 AA-AAAGAA-AAAAAGAAAAGAA
** **
60712 TGAAAGTGAAAAAGAAAAGAA
1 AAAAAGAAAAAAAGAAAAGAA
60733 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
60746 TGAGAGATGA
Statistics
Matches: 55, Mismatches: 14, Indels: 17
0.64 0.16 0.20
Matches are distributed among these distances:
19 1 0.02
20 15 0.27
21 22 0.40
22 7 0.13
23 2 0.04
24 8 0.15
ACGTcount: A:0.76, C:0.01, G:0.17, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAAAGAAAAGAA
Found at i:64642 original size:40 final size:40
Alignment explanation
Indices: 64587--64748 Score: 315
Period size: 40 Copynumber: 4.0 Consensus size: 40
64577 TGCAGGTTTA
64587 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
64627 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
64667 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
*
64707 TAATACGCTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
64747 TA
1 TA
64749 GCACTACAGT
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:65035 original size:45 final size:45
Alignment explanation
Indices: 64853--65069 Score: 274
Period size: 46 Copynumber: 4.7 Consensus size: 45
64843 GTAAGCATGC
*
64853 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATTGGTAAAAA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGT----A
* *
64901 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATATTAGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
* *
64947 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGG-AATAAATGGTAAGTATATTGGTA
* * * *
64993 AAATAAACATATGAGCTTATGGAATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
65038 AAATAAGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT
65070 GAGGAATTTT
Statistics
Matches: 153, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
45 49 0.32
46 64 0.42
48 22 0.14
49 2 0.01
50 16 0.10
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:65042 original size:91 final size:91
Alignment explanation
Indices: 64853--65069 Score: 269
Period size: 91 Copynumber: 2.3 Consensus size: 91
64843 GTAAGCATGC
* * *
64853 AAATAAGCTTACGAGCTTATGGA-ATAATGGCAAGTATATTGGTAAAAAAAATAAGCTTACGAGC
1 AAATAAGCTTACGAGCTTATGGATA-AATGGTAAGTATATTGGT---AAAAATAAACATACGAGC
*
64917 TTATGGTATTAAATGGTAAGTATATTAGTA
62 TTATGGTAATAAATGGTAAGTATATTAGTA
* *
64947 AAATAAGCTTACGAGCTTATGGTATTAAATGGTAAGTATTTTGGT-AAAATAAACATATGAGCTT
1 AAATAAGCTTACGAGCTTATGG-A-TAAATGGTAAGTATATTGGTAAAAATAAACATACGAGCTT
* *
65011 ATGG-AATAAATGGTAAGTATTTTGGTA
64 ATGGTAATAAATGGTAAGTATATTAGTA
*
65038 AAATAAGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTAT-GGATAAATGGT
65070 GAGGAATTTT
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
90 8 0.07
91 40 0.36
92 22 0.20
94 22 0.20
95 1 0.01
96 16 0.15
97 1 0.01
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (91 bp):
AAATAAGCTTACGAGCTTATGGATAAATGGTAAGTATATTGGTAAAAATAAACATACGAGCTTAT
GGTAATAAATGGTAAGTATATTAGTA
Found at i:65554 original size:33 final size:33
Alignment explanation
Indices: 65508--65586 Score: 113
Period size: 33 Copynumber: 2.4 Consensus size: 33
65498 CAATGTTTTT
*
65508 GTGCATCGGTACACTGTTCACGTTACTGTAGCA
1 GTGCATCGATACACTGTTCACGTTACTGTAGCA
* * *
65541 GTGCATCGATACACTGTTCATGTTACTGTTGTA
1 GTGCATCGATACACTGTTCACGTTACTGTAGCA
*
65574 GTACATCGATACA
1 GTGCATCGATACA
65587 TTATTCACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (33 bp):
GTGCATCGATACACTGTTCACGTTACTGTAGCA
Found at i:74546 original size:20 final size:21
Alignment explanation
Indices: 74521--74572 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
74511 TTTTCCCAAT
74521 TCGCAATGCGAATAAGT-AAA
1 TCGCAATGCGAATAAGTAAAA
* **
74541 TCGCAACGCGAATTGGTAAAA
1 TCGCAATGCGAATAAGTAAAA
74562 TCGCAATGCGA
1 TCGCAATGCGA
74573 TACTGACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 14 0.52
21 13 0.48
ACGTcount: A:0.38, C:0.19, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAATGCGAATAAGTAAAA
Found at i:74586 original size:20 final size:20
Alignment explanation
Indices: 74561--74674 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
74551 AATTGGTAAA
*
74561 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
74581 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
74601 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
74622 ATCACAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
74642 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
74662 TTCGCAACGCGAT
1 ATCGCAACGCGAT
74675 TTACATAGCG
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
19 2 0.03
20 64 0.80
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:75275 original size:19 final size:19
Alignment explanation
Indices: 75253--75436 Score: 181
Period size: 19 Copynumber: 10.1 Consensus size: 19
75243 GAAACAAAAA
* *
75253 TCGCATTGCGATGTTCATT
1 TCGCGTTGCGATTTTCATT
75272 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75291 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75310 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
75329 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
75343 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
75362 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
75376 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
75395 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
75415 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
75435 TC
1 TC
75437 AACCAAAAGA
Statistics
Matches: 138, Mismatches: 15, Indels: 24
0.78 0.08 0.14
Matches are distributed among these distances:
14 19 0.14
16 4 0.03
17 5 0.04
19 78 0.57
20 31 0.22
21 1 0.01
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:75309 original size:38 final size:37
Alignment explanation
Indices: 75253--75436 Score: 195
Period size: 33 Copynumber: 5.1 Consensus size: 37
75243 GAAACAAAAA
* *
75253 TCGCATTGCGATGTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGAT-TTCATTTCTCGTTGCGATTTTCATT
*
75291 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGA-TTTCATTTCTCGTTGCGATTTTCATT
* **
75329 TCGCGTTGCGA-TTC---TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTCATTTCTCGTTGCGATTTTCATT
**
75362 TCGCGTTGCGA-TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTCATTTCTCGTTGCGATTTTCATT
75395 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATT-TCATT-TCTCGTTGCGATTTTCATT
75435 TC
1 TC
75437 AACCAAAAGA
Statistics
Matches: 130, Mismatches: 8, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
33 48 0.37
34 10 0.08
35 1 0.01
36 5 0.04
38 46 0.35
39 2 0.02
40 18 0.14
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.43
Consensus pattern (37 bp):
TCGCGTTGCGATTTCATTTCTCGTTGCGATTTTCATT
Found at i:77605 original size:21 final size:21
Alignment explanation
Indices: 77581--77647 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
77571 TCATTCCTCG
77581 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
77602 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
77623 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
77644 AGAG
1 AGAG
77648 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:77605 original size:42 final size:42
Alignment explanation
Indices: 77529--77647 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
77519 GACTCGCCTG
* * * * * * *
77529 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
77571 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
77613 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
77648 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:79023 original size:14 final size:14
Alignment explanation
Indices: 79004--79039 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
78994 ATTGTTTAAT
79004 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
79018 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
79032 TGATTTGT
1 TGATTTGT
79040 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:79207 original size:19 final size:19
Alignment explanation
Indices: 79146--79198 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
79136 AAAAAGTACT
*
79146 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
79165 ATCGCAACGAGAAATGAAA
1 ATCGCAACGCGAAATGAAA
79184 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
79199 TAAATTCGCG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:79225 original size:19 final size:19
Alignment explanation
Indices: 79203--79353 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
79193 CGAAATTAAA
79203 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
79222 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
79237 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
79255 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
79269 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
79288 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
79303 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
79321 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
79340 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
79354 ATACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:79249 original size:33 final size:32
Alignment explanation
Indices: 79207--79333 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
79197 ATTAAATTCG
79207 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
79240 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
79273 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
79306 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
79334 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:79296 original size:66 final size:66
Alignment explanation
Indices: 79200--79332 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
79190 ACGCGAAATT
*
79200 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
79265 G
66 G
*
79266 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
79331 G
66 G
79332 A
1 A
79333 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:81644 original size:12 final size:12
Alignment explanation
Indices: 81627--81651 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81617 TCTTCGGGGA
81627 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81639 CTTTTTCTTCTT
1 CTTTTTCTTCTT
81651 C
1 C
81652 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:81853 original size:24 final size:24
Alignment explanation
Indices: 81826--81879 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
81816 CTGAAACATC
* *
81826 ATCAAAATCCGAGTATTGATCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
81850 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
81874 ATCAAA
1 ATCAAA
81880 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:82645 original size:20 final size:20
Alignment explanation
Indices: 82620--82670 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
82610 TGTATTATCT
82620 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
82640 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGAATCG
82660 CGTTGCGAAAG
1 CGTTGCGAAAG
82671 GCAATCATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.31, T:0.20
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGAATCG
Found at i:82921 original size:19 final size:20
Alignment explanation
Indices: 82883--82932 Score: 93
Period size: 19 Copynumber: 2.5 Consensus size: 20
82873 ATTCATTTGA
82883 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
82903 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
82922 CTATCGCAACG
1 CTATCGCAACG
82933 ACAAAATCGC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 17 0.57
20 13 0.43
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:83019 original size:19 final size:19
Alignment explanation
Indices: 82958--83022 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
82948 GAAATGAAAA
82958 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
82974 TCG--TTGCAATTTTCATT
1 TCGCATTGCGATTTTCATT
82991 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
83010 TCGCATTGCGATT
1 TCGCATTGCGATT
83023 CTCTCATTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.24
16 3 0.07
17 3 0.07
19 26 0.62
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:83054 original size:20 final size:20
Alignment explanation
Indices: 83029--83066 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
83019 GATTCTCTCA
83029 TTGCGATAGTCAGTTTTGTG
1 TTGCGATAGTCAGTTTTGTG
*
83049 TTGCGATAGTCTGTTTTG
1 TTGCGATAGTCAGTTTTG
83067 CCTTCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.11, G:0.29, T:0.47
Consensus pattern (20 bp):
TTGCGATAGTCAGTTTTGTG
Found at i:83168 original size:14 final size:14
Alignment explanation
Indices: 83149--83185 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
83139 CATCAATTAA
83149 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
83163 ACAAATCATCTTTT
1 ACAAATCAACATTT
83177 ACAAATCAA
1 ACAAATCAA
83186 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:85110 original size:19 final size:19
Alignment explanation
Indices: 85055--85111 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
85045 GAAACTTAAA
85055 ATCGCAACGCGAGAATGACT
1 ATCGCAACGCGA-AATGACT
*
85075 ATCGCAACGCAGAAATGGCT
1 ATCGCAACGC-GAAATGACT
*
85095 ATCGCAATGCGAAATGA
1 ATCGCAACGCGAAATGA
85112 AAATCGTAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 6 0.18
20 25 0.76
21 2 0.06
ACGTcount: A:0.37, C:0.23, G:0.25, T:0.16
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:85130 original size:14 final size:14
Alignment explanation
Indices: 85111--85168 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
85101 ATGCGAAATG
*
85111 AAAATCGTAACGAC
1 AAAATCGCAACGAC
*
85125 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
85141 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
85157 AAAATCGTAACG
1 AAAATCGCAACG
85169 CGAAACACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:85155 original size:32 final size:33
Alignment explanation
Indices: 85095--85173 Score: 124
Period size: 32 Copynumber: 2.4 Consensus size: 33
85085 AGAAATGGCT
* *
85095 ATCGCAATGCGAAATGAAAATCGTAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
85128 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
85160 ATCGTAACGCGAAA
1 ATCGCAACGCGAAA
85174 CACAAATCGC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
32 28 0.65
33 15 0.35
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:85221 original size:14 final size:14
Alignment explanation
Indices: 85202--85259 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
85192 TTTCATTTCG
85202 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
85216 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
85232 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
85248 CGTTGCGATTTT
1 CGTTGCGATTTT
85260 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:85266 original size:33 final size:33
Alignment explanation
Indices: 85185--85275 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
85175 ACAAATCGCA
*
85185 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
85218 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
85250 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
85276 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:85282 original size:19 final size:20
Alignment explanation
Indices: 85260--85303 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
85250 TTGCGATTTT
85260 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
* *
85279 CATTTCCGCGTTGCGATAGT
1 CATTTCCGCATTGCGATAGC
85299 CATTT
1 CATTT
85304 TCATGTTGCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:85311 original size:20 final size:20
Alignment explanation
Indices: 85269--85314 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
85259 TCATTTCGCA
*
85269 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
* * *
85289 TTGCGATAGTCATTTTCATG
1 TTGCGATAGCCATTTCCACG
85309 TTGCGA
1 TTGCGA
85315 AAGTAAACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.17, C:0.22, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:85816 original size:18 final size:18
Alignment explanation
Indices: 85790--85834 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
85780 GTCGATCAGA
*
85790 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
85808 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
85826 TGATGGCTC
1 TGATGGCTC
85835 CCGAAGTGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:87203 original size:20 final size:20
Alignment explanation
Indices: 87155--87213 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
87145 AATAGTTTCT
** *
87155 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
87175 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
87195 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
87214 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:87261 original size:19 final size:19
Alignment explanation
Indices: 87239--87308 Score: 140
Period size: 19 Copynumber: 3.7 Consensus size: 19
87229 GAAACTAAAA
87239 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
87258 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
87277 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
87296 TCGCGTTGCGATT
1 TCGCGTTGCGATT
87309 CTCGGTTGAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:87769 original size:20 final size:20
Alignment explanation
Indices: 87744--87795 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
87734 AGTATGTATT
87744 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
87764 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
87784 ATCTCGTTGCGA
1 ATCGCGTTGCGA
87796 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:87850 original size:20 final size:21
Alignment explanation
Indices: 87806--87857 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
87796 TTTTGTATTA
*
87806 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTACCAAT
**
87827 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
87847 TCGCATTGCGA
1 TCGCATTGCGA
87858 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.19, C:0.25, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:89378 original size:32 final size:32
Alignment explanation
Indices: 89337--89400 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
89327 TGATTTTATT
* *
89337 CCCCCTCATTTTCTATGGTTAATTATATTTTG
1 CCCCCTCATTTTCTATGATTAATTATACTTTG
* *
89369 CCCCTTCATTTTCTATTATTAATTATACTTTG
1 CCCCCTCATTTTCTATGATTAATTATACTTTG
89401 TCTAGAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.20, C:0.22, G:0.06, T:0.52
Consensus pattern (32 bp):
CCCCCTCATTTTCTATGATTAATTATACTTTG
Found at i:89935 original size:3 final size:3
Alignment explanation
Indices: 89927--89968 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
89917 TACATTTATC
89927 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
89969 ATCATTTTGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:93469 original size:38 final size:38
Alignment explanation
Indices: 93418--93496 Score: 158
Period size: 38 Copynumber: 2.1 Consensus size: 38
93408 ATGTCATTTC
93418 GTTTCTGGGTCTGGATTCTGTTTCCCAGTAAGCTTGGT
1 GTTTCTGGGTCTGGATTCTGTTTCCCAGTAAGCTTGGT
93456 GTTTCTGGGTCTGGATTCTGTTTCCCAGTAAGCTTGGT
1 GTTTCTGGGTCTGGATTCTGTTTCCCAGTAAGCTTGGT
93494 GTT
1 GTT
93497 CCTATGCTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.10, C:0.18, G:0.29, T:0.43
Consensus pattern (38 bp):
GTTTCTGGGTCTGGATTCTGTTTCCCAGTAAGCTTGGT
Found at i:94264 original size:31 final size:31
Alignment explanation
Indices: 94229--94292 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
94219 TTTTATTTTG
* *
94229 TTCCCCCTCATTTTCTATGGTTAATTATACT
1 TTCCCCCTCATTCTCTATGATTAATTATACT
* *
94260 TTCCCCTTCATTCTCTATTATTAATTATACT
1 TTCCCCCTCATTCTCTATGATTAATTATACT
94291 TT
1 TT
94293 GTCTAGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.25, G:0.03, T:0.52
Consensus pattern (31 bp):
TTCCCCCTCATTCTCTATGATTAATTATACT
Found at i:95325 original size:21 final size:23
Alignment explanation
Indices: 95296--95341 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
95286 TATAAAAATA
*
95296 AAAAATATT-AT-ATTATATTTT
1 AAAAATATTAATAAATATATTTT
*
95317 AAAATTATTAATAAATATATTTT
1 AAAAATATTAATAAATATATTTT
95340 AA
1 AA
95342 GGAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 2 0.10
23 11 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAATATTAATAAATATATTTT
Found at i:95356 original size:23 final size:22
Alignment explanation
Indices: 95303--95357 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
95293 ATAAAAAATA
*
95303 TTATATTATATTTTAAAATTAT
1 TTATAATATATTTTAAAATTAT
*
95325 TAATAAATATATTTTAAGGAATT-T
1 TTAT-AATATATTTTAA--AATTAT
95349 TTATAATAT
1 TTATAATAT
95358 TATTAAACTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 3 0.11
23 16 0.59
24 4 0.15
25 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
TTATAATATATTTTAAAATTAT
Found at i:95600 original size:23 final size:23
Alignment explanation
Indices: 95558--95611 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
95548 ATTATTATAT
95558 TATATTATTAAAAATATTAATAAA
1 TATA-TATTAAAAATATTAATAAA
* * *
95582 TATATATTAAATATGTTAATAAT
1 TATATATTAAAAATATTAATAAA
95605 TA-ATATT
1 TATATATT
95612 TTTATTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 5 0.19
23 18 0.67
24 4 0.15
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
TATATATTAAAAATATTAATAAA
Found at i:105492 original size:3 final size:3
Alignment explanation
Indices: 105484--105525 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
105474 CCTAAAAATA
105484 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
105526 ATTTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:114911 original size:11 final size:11
Alignment explanation
Indices: 114892--114920 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
114882 ATCTATTGCA
114892 TTTTT-TTATT
1 TTTTTATTATT
114902 TTTTTATTATT
1 TTTTTATTATT
114913 TTTTTATT
1 TTTTTATT
114921 TATTATATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTATTATT
Found at i:114931 original size:19 final size:19
Alignment explanation
Indices: 114891--114928 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
114881 CATCTATTGC
*
114891 ATTTTTTTATTTTTTTATT
1 ATTTTTTTATTTTTATATT
114910 ATTTTTTTATTTATTATAT
1 ATTTTTTTATTT-TTATAT
114929 ATTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (19 bp):
ATTTTTTTATTTTTATATT
Found at i:119699 original size:48 final size:48
Alignment explanation
Indices: 119641--120449 Score: 779
Period size: 48 Copynumber: 17.6 Consensus size: 48
119631 ATGGATCAAC
* *
119641 TCTCCCAGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
*
119689 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * * *
119732 T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * ** * * *
119778 TCTCAAAGAATGTTTA-ATT---TTCAG-GTTCGATCCCGATTCAATGGATCAACTC-
1 TCTCCAAG-AT-TTGATATTCCCTTCAGAGTAAG-T--GGA-AC-A-GG-TC-TCTCT
*
119830 TC-CC-AGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
*
119876 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * * *
119919 T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * * *
119965 TCTCAAAGATTTGATATTCCCCTCAGAGTAAGTGGAACAAGTCTCTAT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * * * *
120013 TCTCCAAGATCTGATATTCCTTTTAGAGTAAGCGGAACATGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
*
120061 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* *
120104 T-GCC-AGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
*
120150 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * * *
120193 T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * * *
120239 TCTCAAAGATTTGATATTCCCCTCAGAGTAAGTGGAACAAGTCTCTAT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* *
120287 TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
*
120335 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* * *
120378 T-GCC-AGATCTGATATTCCCTTCAGAATAAGTGGAACAGGTCTCT-T
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
* *
120423 TTTCCATGATTTGATATTCCCTTCAGA
1 TCTCCAAGATTTGATATTCCCTTCAGA
120450 AGAAACGGAA
Statistics
Matches: 618, Mismatches: 90, Indels: 107
0.76 0.11 0.13
Matches are distributed among these distances:
41 158 0.26
42 10 0.02
43 5 0.01
44 10 0.02
45 16 0.03
46 15 0.02
47 28 0.05
48 339 0.55
49 12 0.02
50 6 0.01
51 3 0.00
52 10 0.02
53 6 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (48 bp):
TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCTCT
Found at i:119991 original size:89 final size:89
Alignment explanation
Indices: 119832--120449 Score: 914
Period size: 89 Copynumber: 6.8 Consensus size: 89
119822 ATCAACTCTC
* * *
119832 CCAGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
119897 TTCAGAGTAAGTGGAACAAGTCTG
66 TTCAGAGTAAGTGGAACAAGTCTG
* *
119921 CCATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
* *
119986 CTCAGAGTAAGTGGAACAAGTCTCTATTCT
66 TTCAGAGTAAGTGGAACAAG--TC---T-G
* * *
120016 CCAAGATCTGATATTCCTTTTAGAGTAAGCGGAACATGTCTCTCTTCTCCAAGATTTGATATTCC
1 CC-AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCC
120081 CTTCAGAGTAAGTGGAACAAGTCTG
65 CTTCAGAGTAAGTGGAACAAGTCTG
* * *
120106 CCAGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
120171 TTCAGAGTAAGTGGAACAAGTCTG
66 TTCAGAGTAAGTGGAACAAGTCTG
* *
120195 CCATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
* *
120260 CTCAGAGTAAGTGGAACAAGTCTCTATTCT
66 TTCAGAGTAAGTGGAACAAG--TC---T-G
120290 CCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCC
1 CC-AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCC
120355 CTTCAGAGTAAGTGGAACAAGTCTG
65 CTTCAGAGTAAGTGGAACAAGTCTG
* * * *
120380 CCAGATCTGATATTCCCTTCAGAATAAGTGGAACAGGTCTCT-TTTTCCATGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
120444 TTCAGA
66 TTCAGA
120450 AGAAACGGAA
Statistics
Matches: 480, Mismatches: 35, Indels: 29
0.88 0.06 0.05
Matches are distributed among these distances:
88 26 0.05
89 277 0.58
90 4 0.01
91 6 0.01
94 6 0.01
95 4 0.01
96 157 0.33
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (89 bp):
CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
TTCAGAGTAAGTGGAACAAGTCTG
Found at i:120181 original size:274 final size:274
Alignment explanation
Indices: 119652--120449 Score: 1236
Period size: 274 Copynumber: 2.9 Consensus size: 274
119642 CTCCCAGATT
* * * *
119652 TGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAG
* *
119717 TAAGTGGAACAAG--TC---T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC
66 TAAGTGGAACAAGTCTCTATTCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC
* * * ** * * * *
119775 TCTTCTCAAAGAATGTTTAATTTTCAGGTTCGATCCCGATTCAA-TGGATCAACTCTCCCAGATT
131 TCTTCTCCAAG-A--TTTGATATTC-CCTTC-A----GAGT-AAGTGGAACAAGTCTGCCAGATT
119839 TGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAG
186 TGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAG
119904 TAAGTGGAACAAGTCTGCCATATC
251 TAAGTGGAACAAGTCTGCCATATC
119928 TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAG
* * *
119993 TAAGTGGAACAAGTCTCTATTCTCCAAGATCTGATATTCCTTTTAGAGTAAGCGGAACATGTCTC
66 TAAGTGGAACAAGTCTCTATTCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC
120058 TCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATTTGATATTCCC
131 TCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATTTGATATTCCC
120123 TTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAAC
196 TTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAAC
120188 AAGTCTGCCATATC
261 AAGTCTGCCATATC
120202 TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAG
1 TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAG
120267 TAAGTGGAACAAGTCTCTATTCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC
66 TAAGTGGAACAAGTCTCTATTCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC
*
120332 TCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCC
131 TCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATTTGATATTCCC
* * * *
120397 TTCAGAATAAGTGGAACAGGTCTCT-TTTTCCATGATTTGATATTCCCTTCAGA
196 TTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGA
120450 AGAAACGGAA
Statistics
Matches: 488, Mismatches: 26, Indels: 19
0.92 0.05 0.04
Matches are distributed among these distances:
273 28 0.06
274 323 0.66
276 74 0.15
278 3 0.01
279 3 0.01
280 8 0.02
281 1 0.00
282 3 0.01
283 45 0.09
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (274 bp):
TGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAG
TAAGTGGAACAAGTCTCTATTCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTC
TCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATTTGATATTCCC
TTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAAC
AAGTCTGCCATATC
Found at i:120742 original size:3 final size:3
Alignment explanation
Indices: 120734--120775 Score: 75
Period size: 3 Copynumber: 13.7 Consensus size: 3
120724 CCTAAAAATA
120734 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TA
120776 ATTTATATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:122212 original size:2 final size:2
Alignment explanation
Indices: 122205--122239 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
122195 GTTGTTGTGT
122205 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
122240 GTATGTTTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:124690 original size:12 final size:13
Alignment explanation
Indices: 124667--124695 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
124657 CAGCAAAATT
124667 GTTTTGTAGCGGC
1 GTTTTGTAGCGGC
124680 GTTTT-TAGCGGC
1 GTTTTGTAGCGGC
124692 GTTT
1 GTTT
124696 GTTGATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.07, C:0.14, G:0.34, T:0.45
Consensus pattern (13 bp):
GTTTTGTAGCGGC
Found at i:126141 original size:52 final size:52
Alignment explanation
Indices: 126079--126234 Score: 303
Period size: 52 Copynumber: 3.0 Consensus size: 52
126069 TGAACAATAA
126079 GGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
1 GGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
*
126131 GTTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
1 GGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
126183 GGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
1 GGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
126235 TTTGTTGTTA
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 102 1.00
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.43
Consensus pattern (52 bp):
GGTGAAGACTGTTTATGCATAAGTACTTTAATGTTTCTAAATTATAATGTAT
Found at i:126479 original size:16 final size:16
Alignment explanation
Indices: 126458--126489 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
126448 TAGCGGCGTT
*
126458 TTGTTACAAACGCCGC
1 TTGTTACAAACACCGC
126474 TTGTTACAAACACCGC
1 TTGTTACAAACACCGC
126490 AATAGGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.31, G:0.16, T:0.25
Consensus pattern (16 bp):
TTGTTACAAACACCGC
Found at i:129702 original size:21 final size:21
Alignment explanation
Indices: 129678--129736 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
129668 TGATTTATTA
**
129678 TTATGGATTTCATTTTTCTTG
1 TTATGGATTTCAAGTTTCTTG
* *
129699 TTATGGATTTTAAGTTTGTTG
1 TTATGGATTTCAAGTTTCTTG
*
129720 TTATGGATGTCAAGTTT
1 TTATGGATTTCAAGTTT
129737 ATTGGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.05, G:0.20, T:0.56
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTCTTG
Found at i:129982 original size:43 final size:43
Alignment explanation
Indices: 129934--130016 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
129924 ACCAGATCTT
*
129934 TTGCGGTGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
* *
129977 TTGCGGCGTTTTTGGGAAAAACGCTGCTAAATCTCAACAC
1 TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACAC
130017 ATAGCGCCGC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (43 bp):
TTGCGGCGTTTGTGGGAAAAACGCCGCTAAATCTCAACACCTA
Found at i:132560 original size:3 final size:3
Alignment explanation
Indices: 132552--132578 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
132542 ATGCACTTAC
132552 ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG
132579 CACTTATAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:135147 original size:27 final size:27
Alignment explanation
Indices: 135094--135147 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
135084 AACAGTCCTA
**
135094 ATTTATGAAAATTTTAAATTTTTTATT
1 ATTTATGAAAATTTTAAATTTCGTATT
135121 ATTTAT-AAAATTTTATAATTTCGTATT
1 ATTTATGAAAATTTTA-AATTTCGTATT
135148 CTTAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (27 bp):
ATTTATGAAAATTTTAAATTTCGTATT
Found at i:135278 original size:19 final size:19
Alignment explanation
Indices: 135251--135289 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
135241 TGACCCTCTA
*
135251 TATGAGTAGAGCTATTCAT
1 TATGAGTAGAGATATTCAT
*
135270 TATGGGTAGAGATATTCAT
1 TATGAGTAGAGATATTCAT
135289 T
1 T
135290 TATTCAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (19 bp):
TATGAGTAGAGATATTCAT
Found at i:146099 original size:12 final size:12
Alignment explanation
Indices: 146079--146118 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
146069 AATATTTTTC
146079 AATTAAATATTT
1 AATTAAATATTT
* *
146091 AATTTAATAATTA
1 AATTAAAT-ATTT
146104 AATTAAATATTT
1 AATTAAATATTT
146116 AAT
1 AAT
146119 GAAACATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATATTT
Found at i:146727 original size:21 final size:21
Alignment explanation
Indices: 146701--146745 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
146691 CCGCACTAAA
146701 CAGTTGACTAGTTGAGATCAT
1 CAGTTGACTAGTTGAGATCAT
146722 CAGTTGACTAGTTGAGATCAT
1 CAGTTGACTAGTTGAGATCAT
146743 CAG
1 CAG
146746 CACCCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (21 bp):
CAGTTGACTAGTTGAGATCAT
Found at i:152718 original size:19 final size:18
Alignment explanation
Indices: 152696--152737 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
152686 AATATAAACG
*
152696 TATTATATGACTATATATT
1 TATTATAT-ACTATATATA
*
152715 TATT-TATAGTATATATA
1 TATTATATACTATATATA
152732 TATTAT
1 TATTAT
152738 GTTTATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 12 0.60
18 4 0.20
19 4 0.20
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (18 bp):
TATTATATACTATATATA
Found at i:152749 original size:22 final size:22
Alignment explanation
Indices: 152707--152760 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
152697 ATTATATGAC
*
152707 TATATATT-TATTTATAGTATA
1 TATATATTATGTTTATAGTATA
*
152728 TATATATTATGTTTATATTATA
1 TATATATTATGTTTATAGTATA
*
152750 TATACATTATG
1 TATATATTATG
152761 CCGTATATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 8 0.28
22 21 0.72
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.56
Consensus pattern (22 bp):
TATATATTATGTTTATAGTATA
Found at i:152758 original size:11 final size:11
Alignment explanation
Indices: 152642--152759 Score: 57
Period size: 11 Copynumber: 10.5 Consensus size: 11
152632 CGTCCGACCT
152642 TATTATATA-A
1 TATTATATATA
152652 TATTAT-TATA
1 TATTATATATA
152662 T-TTATATAT-
1 TATTATATATA
*
152671 TAATT-TATGCTA
1 T-ATTATAT-ATA
* *
152683 TATAATATAAA
1 TATTATATATA
152694 CGTATTATATGACTA
1 --TATTATAT-A-TA
* *
152709 TATATTTATTTA
1 TAT-TATATATA
*
152721 TAGTATATATA
1 TATTATATATA
* *
152732 TATTATGTTTA
1 TATTATATATA
152743 TATTATATATA
1 TATTATATATA
*
152754 CATTAT
1 TATTAT
152760 GCCGTATATG
Statistics
Matches: 79, Mismatches: 17, Indels: 23
0.66 0.14 0.19
Matches are distributed among these distances:
9 7 0.09
10 14 0.18
11 34 0.43
12 8 0.10
13 10 0.13
14 5 0.06
15 1 0.01
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.53
Consensus pattern (11 bp):
TATTATATATA
Found at i:152840 original size:15 final size:14
Alignment explanation
Indices: 152798--152840 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
152788 CACACACACA
152798 TATATATTATATCAT
1 TATATATTATA-CAT
*
152813 TATATA-TACACAT
1 TATATATTATACAT
152826 TATATATTATTACAT
1 TATATATTA-TACAT
152841 ATTATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 9 0.38
14 5 0.21
15 10 0.42
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATATTATACAT
Found at i:154039 original size:9 final size:9
Alignment explanation
Indices: 153986--154039 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
153976 TTTTGTTTTG
*
153986 TTTTTTATC
1 TTTTTTATT
153995 TTTTTTATT
1 TTTTTTATT
154004 ATTTCTTTATT
1 -TTT-TTTATT
*
154015 TTTCTTATT
1 TTTTTTATT
*
154024 TTATTTATT
1 TTTTTTATT
154033 TTTTTTA
1 TTTTTTA
154040 AATTTAGCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
9 26 0.68
10 6 0.16
11 6 0.16
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTATT
Found at i:154071 original size:48 final size:48
Alignment explanation
Indices: 154019--154112 Score: 129
Period size: 48 Copynumber: 1.9 Consensus size: 48
154009 TTTATTTTTC
154019 TTATTTTATTTATTTT-TTTTAAATTTAGCTAACTTTTT-GGGTTTTATT
1 TTATTTTATTTATTTTCTTTTAAATTTAGCT-A-TTTTTAGGGTTTTATT
* *
154067 TTATTTTGTTTATTTTCCTTTTTAATTTAGCTATTTTTAGGGTTTT
1 TTATTTTATTTATTTT-CTTTTAAATTTAGCTATTTTTAGGGTTTT
154113 TGTATTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
48 20 0.49
49 8 0.20
50 13 0.32
ACGTcount: A:0.18, C:0.05, G:0.10, T:0.67
Consensus pattern (48 bp):
TTATTTTATTTATTTTCTTTTAAATTTAGCTATTTTTAGGGTTTTATT
Done.