Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007837.1 Hibiscus syriacus cultivar Beakdansim tig00110186_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: 1003650
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:1245 original size:19 final size:19
Alignment explanation
Indices: 1223--1548 Score: 414
Period size: 19 Copynumber: 18.4 Consensus size: 19
1213 CGGAAAATAC
*
1223 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1242 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
1256 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
1276 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1290 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1309 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1328 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
1342 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1361 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
1380 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
1394 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
1413 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1432 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1451 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1470 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1489 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
1503 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1522 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
1541 AATCGCAA
1 AATCGCAA
1549 CGAGATAATC
Statistics
Matches: 271, Mismatches: 10, Indels: 52
0.81 0.03 0.16
Matches are distributed among these distances:
14 48 0.18
15 2 0.01
16 16 0.06
17 14 0.05
18 3 0.01
19 175 0.65
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:1310 original size:33 final size:34
Alignment explanation
Indices: 1223--1548 Score: 321
Period size: 33 Copynumber: 9.2 Consensus size: 34
1213 CGGAAAATAC
* *
1223 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
1256 AATCGCAATGCGGAAATGAAAATCGCAACGA-GAG
1 AATCGCAATGC-GAAATGAAAATCGCAACGATGAA
1290 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
*
1328 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
* *
1361 AATCGCAATGCGAAATGAAAATCGCAACGA-CAG
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
*
1394 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
1432 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
1470 AATCGCAATGCGAAATGAAAATCGCAACGA--AA
1 AATCGCAATGCGAAATGAAAATCGCAACGATGAA
1502 GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 -AATCGCAATGCGAAATGAAAATCGCAA--CG--ATGAA
1541 AATCGCAA
1 AATCGCAA
1549 CGAGATAATC
Statistics
Matches: 257, Mismatches: 12, Indels: 43
0.82 0.04 0.14
Matches are distributed among these distances:
32 2 0.01
33 109 0.42
34 32 0.12
35 9 0.04
36 6 0.02
37 4 0.02
38 93 0.36
39 2 0.01
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (34 bp):
AATCGCAATGCGAAATGAAAATCGCAACGATGAA
Found at i:1484 original size:161 final size:156
Alignment explanation
Indices: 1254--1586 Score: 551
Period size: 161 Copynumber: 2.1 Consensus size: 156
1244 TCCCAACATG
*
1254 AAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATG
1 AAAATCGCAATGC-GAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATG
*
1319 CGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
65 CGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1384 GCAACGACAGAATCGCAATGCGAAATT
130 GCAACGACAGAATCGCAATGCGAAATT
1411 AAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGC
1 AAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAAAATCGC
1476 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
61 AATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
1541 AATCGCAACGAGATAATCGCAATGCGAAATT
126 AATCGCAACGACAGAATCGCAATGCGAAATT
*
1572 ATAAA-CGCATTGCGA
1 A-AAATCGCAATGCGA
1587 TTTTCATTTC
Statistics
Matches: 165, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
156 16 0.10
157 13 0.08
158 2 0.01
160 1 0.01
161 130 0.79
162 3 0.02
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.15
Consensus pattern (156 bp):
AAAATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAATGC
GAAATGAAAATCGCAACGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCG
CAACGACAGAATCGCAATGCGAAATT
Found at i:1586 original size:52 final size:52
Alignment explanation
Indices: 1251--1570 Score: 541
Period size: 52 Copynumber: 6.0 Consensus size: 52
1241 AAATCCCAAC
1251 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1304 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
1356 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
1408 ATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAGAATCGCAATGCGAA
*
1465 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
1517 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1569 AT
1 AT
1571 TATAAACGCA
Statistics
Matches: 253, Mismatches: 9, Indels: 11
0.93 0.03 0.04
Matches are distributed among these distances:
52 185 0.73
53 17 0.07
54 2 0.01
55 2 0.01
56 1 0.00
57 46 0.18
ACGTcount: A:0.47, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:1667 original size:19 final size:19
Alignment explanation
Indices: 1577--1659 Score: 113
Period size: 20 Copynumber: 4.6 Consensus size: 19
1567 AAATTATAAA
1577 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1596 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
1616 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
1632 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
1649 CGCATTGCGAT
1 CGCATTGCGAT
1660 AGTCATTTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 6 0.11
16 7 0.12
17 7 0.12
19 17 0.30
20 19 0.34
ACGTcount: A:0.14, C:0.24, G:0.18, T:0.43
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:1783 original size:14 final size:14
Alignment explanation
Indices: 1764--1800 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1754 GCATCAATAC
1764 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1778 ACAAATCATCTTTT
1 ACAAATCAACTTTT
1792 ACAAATCAA
1 ACAAATCAA
1801 TTAAACATCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:3788 original size:33 final size:33
Alignment explanation
Indices: 3742--3834 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
3732 GCGAAACCAA
**
3742 AATCGCAACGCGAAATGAAAATCGCAACGGCAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
3775 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
3808 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
3835 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.46, C:0.22, G:0.22, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:3799 original size:19 final size:19
Alignment explanation
Indices: 3705--3839 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
3695 TAGTTTACTT
* *
3705 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
3725 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
3744 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3763 TCGCAACG-G-CA-G--AA
1 TCGCAACGCGAAATGAAAA
*
3777 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
3796 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
3810 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
3829 TCGCAATGCGA
1 TCGCAACGCGA
3840 TTTTGGTTTC
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
14 17 0.18
15 1 0.01
16 8 0.08
17 8 0.08
18 1 0.01
19 49 0.51
20 12 0.12
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:3813 original size:14 final size:14
Alignment explanation
Indices: 3761--3817 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
3751 GCGAAATGAA
**
3761 AATCGCAACGGCAG
1 AATCGCAACGAAAG
3775 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
3792 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
3808 AATCGCAACG
1 AATCGCAACG
3818 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 4 0.11
17 6 0.17
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:3857 original size:19 final size:19
Alignment explanation
Indices: 3835--3963 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
3825 AAAATCGCAA
3835 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3854 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
3868 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
3887 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
3901 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
3920 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
3939 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
3959 TGCGA
1 TGCGA
3964 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:3877 original size:33 final size:33
Alignment explanation
Indices: 3835--3926 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
3825 AAAATCGCAA
3835 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
3868 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
3901 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
3927 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:4163 original size:92 final size:93
Alignment explanation
Indices: 4007--4476 Score: 894
Period size: 92 Copynumber: 5.1 Consensus size: 93
3997 TTGAATGGAT
4007 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4071 AGTTTAGCAGAATT-GCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4098 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4163 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4191 -AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4255 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4283 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4347 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
4375 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAGACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4440 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4468 AAATTTACT
1 AAATTTACT
4477 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 2, Indels: 6
0.98 0.01 0.02
Matches are distributed among these distances:
91 28 0.08
92 233 0.62
93 112 0.30
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4328 original size:184 final size:186
Alignment explanation
Indices: 4007--4476 Score: 894
Period size: 185 Copynumber: 2.5 Consensus size: 186
3997 TTGAATGGAT
4007 AAATTTACTTTCAACCAAAAGACAAAAC-AAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4071 AGTTTAGCAGAATT-GCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4135 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
4191 -AATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4255 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
4320 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
4375 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAGACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4440 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
4477 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 2, Indels: 5
0.98 0.01 0.02
Matches are distributed among these distances:
183 27 0.10
184 103 0.37
185 151 0.54
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:6199 original size:14 final size:14
Alignment explanation
Indices: 6180--6269 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
6170 TTGAAATGAA
6180 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6194 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
6211 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
6227 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
6246 AATCGCAACGAGAG
1 AATCGCAACGAGAG
6260 AATCGCAACG
1 AATCGCAACG
6270 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:6217 original size:33 final size:33
Alignment explanation
Indices: 6172--6286 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
6162 TCTTTTGGTT
6172 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
6205 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6238 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
6271 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
6287 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:6218 original size:19 final size:18
Alignment explanation
Indices: 6179--6291 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
6169 GTTGAAATGA
6179 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
6194 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
6211 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
6227 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
6244 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
6260 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
6277 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
6292 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:6322 original size:14 final size:14
Alignment explanation
Indices: 6303--6357 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
6293 TTTGGTTTCG
6303 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
6317 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
6336 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
6350 CGTTGCGA
1 CGTTGCGA
6358 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:6335 original size:33 final size:33
Alignment explanation
Indices: 6287--6357 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6277 AAAATCGCAA
**
6287 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6320 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
6353 TGCGA
1 TGCGA
6358 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:6365 original size:33 final size:33
Alignment explanation
Indices: 6298--6379 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
6288 GCGATTTTGG
***
6298 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
6331 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
6364 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
6380 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:6384 original size:20 final size:20
Alignment explanation
Indices: 6310--6398 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
6300 TCGCGTTGCG
6310 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
6330 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
6343 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
6363 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
6383 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
6399 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:6519 original size:33 final size:33
Alignment explanation
Indices: 6477--6547 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
6467 AATACTAACT
*
6477 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
6510 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
6543 TGAAA
1 TGAAA
6548 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:6780 original size:22 final size:22
Alignment explanation
Indices: 6728--6782 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
6718 TGGTTGTGAG
**
6728 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
6750 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
6772 GGATTTCTTCG
1 GGATTTCTTCG
6783 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:6952 original size:20 final size:20
Alignment explanation
Indices: 6927--7119 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
6917 CTTTAAATAT
6927 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
6947 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
6969 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
6988 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
7008 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
7028 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
7048 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
7068 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
7088 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
7108 CGCGTTGCGATT
1 CGCGTTGCGATT
7120 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:7114 original size:60 final size:60
Alignment explanation
Indices: 6927--7119 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
6917 CTTTAAATAT
**
6927 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
6988 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
7048 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
7108 CGCGTTGCGATT
1 CGCGTTGCGATT
7120 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:7200 original size:20 final size:20
Alignment explanation
Indices: 7175--7226 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
7165 AAGAATCGCG
*
7175 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7195 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
7215 TTGCGATTCTGG
1 TTGCGATTCTGG
7227 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:12503 original size:42 final size:43
Alignment explanation
Indices: 12444--12526 Score: 141
Period size: 42 Copynumber: 2.0 Consensus size: 43
12434 AATTAGATGA
*
12444 CCGGATTTTTTACCGGATTAAAAACCGTTTTTTTTA-AAACTG
1 CCGGATTTTTTACCGGATTAAAAACCGATTTTTTTATAAACTG
*
12486 CCGGATTTTTTACCGGATTAAAAACTGATTTTTTTATAAAC
1 CCGGATTTTTTACCGGATTAAAAACCGATTTTTTTATAAAC
12527 CGGTTTTTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 34 0.89
43 4 0.11
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (43 bp):
CCGGATTTTTTACCGGATTAAAAACCGATTTTTTTATAAACTG
Found at i:14139 original size:12 final size:12
Alignment explanation
Indices: 14122--14147 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14112 ATTGTGCTCT
14122 ATAGATTGTTCA
1 ATAGATTGTTCA
14134 ATAGATTGTTCA
1 ATAGATTGTTCA
14146 AT
1 AT
14148 TACAAAGCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (12 bp):
ATAGATTGTTCA
Found at i:37589 original size:30 final size:29
Alignment explanation
Indices: 37536--37694 Score: 130
Period size: 30 Copynumber: 5.4 Consensus size: 29
37526 TTCAAAAAGT
* * *
37536 ATATATTTTATT-TTTTACGTAACTTACTAA
1 ATATATTTTATTCTTATA-TTAACTTA-AAA
*
37566 ATATATTTTATTCGTATATTAACTTAAAAA
1 ATATATTTTATTCTTATATTAACTT-AAAA
* * *
37596 ATGTATATTATTCTTATTTTAACTTAAAA
1 ATATATTTTATTCTTATATTAACTTAAAA
*
37625 ATATATTATTTATTCTTATCTTAACTTTAAAA
1 ATATA-T-TTTATTCTTATATTAAC-TTAAAA
* *
37657 TATATATTTTATTATTAT-TT---TAAAAA
1 -ATATATTTTATTCTTATATTAACTTAAAA
37683 ATATATTTTATT
1 ATATATTTTATT
37695 ACTATCTTAT
Statistics
Matches: 110, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
25 12 0.11
26 5 0.05
29 8 0.07
30 44 0.40
31 29 0.26
32 7 0.06
33 5 0.05
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.53
Consensus pattern (29 bp):
ATATATTTTATTCTTATATTAACTTAAAA
Found at i:37641 original size:31 final size:30
Alignment explanation
Indices: 37555--37679 Score: 137
Period size: 31 Copynumber: 4.1 Consensus size: 30
37545 ATTTTTTACG
* * *
37555 TAACTTACTAAATATAT-TTTATTCGTATAT
1 TAACTTA-AAAATATATATTTATTCTTATTT
*
37585 TAACTTAAAAA-ATGTATATTATTCTTATTT
1 TAACTTAAAAATATATAT-TTATTCTTATTT
*
37615 TAACTTAAAAATATATTATTTATTCTTATCT
1 TAACTTAAAAATATA-TATTTATTCTTATTT
* *
37646 TAACTTTAAAATATATATTTTATTATTATTT
1 TAACTTAAAAATATATA-TTTATTCTTATTT
37677 TAA
1 TAA
37680 AAAATATATT
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
28 3 0.04
29 4 0.05
30 30 0.37
31 41 0.51
32 3 0.04
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (30 bp):
TAACTTAAAAATATATATTTATTCTTATTT
Found at i:37675 original size:62 final size:59
Alignment explanation
Indices: 37530--37679 Score: 151
Period size: 62 Copynumber: 2.4 Consensus size: 59
37520 AGACTATTCA
* *
37530 AAAAGTATATATTTTATTTT-TTACGTAACTTACTAAATATATTTTATTCGTATATTAACTT
1 AAAA-TATATATTTTATTTTATT--TTAACTTACAAAATATATTTTATTCGTATATTAACTT
* * * * *
37591 AAAAAATGTATATTATTCTTATTTTAACTTA-AAAATATATTATTTATTCTTATCTTAACTTT
1 AAAATATATATTTTATT-TTATTTTAACTTACAAAATATA-T-TTTATTCGTATATTAAC-TT
37653 AAAATATATATTTTATTATTATTTTAA
1 AAAATATATATTTTATT-TTATTTTAA
37680 AAAATATATT
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
59 7 0.10
60 18 0.25
61 21 0.29
62 27 0.37
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (59 bp):
AAAATATATATTTTATTTTATTTTAACTTACAAAATATATTTTATTCGTATATTAACTT
Found at i:37711 original size:25 final size:25
Alignment explanation
Indices: 37651--37703 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
37641 TATCTTAACT
* * *
37651 TTAAAATATATATTTTATTATTATT
1 TTAAAAAATATATTTTATTACTATC
37676 TTAAAAAATATATTTTATTACTATC
1 TTAAAAAATATATTTTATTACTATC
37701 TTA
1 TTA
37704 TGACATATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (25 bp):
TTAAAAAATATATTTTATTACTATC
Found at i:41014 original size:2 final size:2
Alignment explanation
Indices: 41007--41045 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
40997 AATGACCTTT
41007 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 T
41046 CTGTTCTCTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:49892 original size:18 final size:18
Alignment explanation
Indices: 49869--49914 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
49859 ACCGGTCACA
49869 ACCCGACCCGA-CTCGTTG
1 ACCCGACCCGATCT-GTTG
49887 ACCCGACCCGATCTGTTG
1 ACCCGACCCGATCTGTTG
49905 ACCCGACCCG
1 ACCCGACCCG
49915 TTGACCGTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 25 0.93
19 2 0.07
ACGTcount: A:0.17, C:0.46, G:0.22, T:0.15
Consensus pattern (18 bp):
ACCCGACCCGATCTGTTG
Found at i:55343 original size:55 final size:55
Alignment explanation
Indices: 55272--55500 Score: 370
Period size: 55 Copynumber: 4.2 Consensus size: 55
55262 TACCAAATGA
* *
55272 CACTATGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
* *
55326 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATAAG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
* *
55381 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGA
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
* *
55436 CACTTTGCGTGCAAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
*
55491 CACTGTGTGT
1 CACTTTGTGT
55501 ACAACCCATG
Statistics
Matches: 160, Mismatches: 14, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
54 11 0.07
55 149 0.93
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (55 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
Found at i:55440 original size:110 final size:109
Alignment explanation
Indices: 55272--55532 Score: 378
Period size: 110 Copynumber: 2.4 Consensus size: 109
55262 TACCAAATGA
* *
55272 CACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTG
1 CACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGCGTG
*
55337 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATAAG
66 CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAAG
* *
55381 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATTGACACTTTGCGT
1 CACTATGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGCGT
* *
55446 GCAAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
65 GCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAAG
* * * * * * * *
55491 CACTGTGTGTACAACCCATGAAATTCATCATATGTTGATGAA
1 CACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAA
55533 CGATAGTATA
Statistics
Matches: 136, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
109 35 0.26
110 101 0.74
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (109 bp):
CACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACTTTGCGTG
CAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAAG
Found at i:55629 original size:45 final size:45
Alignment explanation
Indices: 55569--55768 Score: 292
Period size: 45 Copynumber: 4.4 Consensus size: 45
55559 CCCCTTTTCC
** * *
55569 ATGCATAACAATGCATTATAGACATGAAAGGGTGCCATAAATGAA
1 ATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATGAA
* *
55614 ATACATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAA
1 ATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATGAA
* *
55659 ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATAAA
1 ATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATGAA
*
55704 ATGCATAACGGTGCATTATCGACATGAAAGTATGCCATAAATGAAA
1 ATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATG-AA
* *
55750 ATGCATAATGGTGTATTAT
1 ATGCATAACGGTGCATTAT
55769 AAGCATGAAC
Statistics
Matches: 141, Mismatches: 13, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
45 122 0.87
46 19 0.13
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (45 bp):
ATGCATAACGGTGCATTATCGACATGAAAGGATGCCATAAATGAA
Found at i:56959 original size:41 final size:41
Alignment explanation
Indices: 56898--56981 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
56888 CATTCCACCT
*
56898 TGCTCGATGATTACAACACTTAACGAAGCATCTCAAGAATA
1 TGCTCGACGATTACAACACTTAACGAAGCATCTCAAGAATA
* *
56939 TGCTCGACGATTACATCACTTAACGAAGTATCTCAAGAATA
1 TGCTCGACGATTACAACACTTAACGAAGCATCTCAAGAATA
56980 TG
1 TG
56982 TTCGTTACAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.26
Consensus pattern (41 bp):
TGCTCGACGATTACAACACTTAACGAAGCATCTCAAGAATA
Found at i:60676 original size:24 final size:24
Alignment explanation
Indices: 60589--60681 Score: 69
Period size: 24 Copynumber: 3.9 Consensus size: 24
60579 ATCTTATTTA
* * * *
60589 TGATTTGAATTCTGTTTTGACATC
1 TGATCTGAATTCTGTTCTGATAAC
* **
60613 TGATCTGAAATCTGTTCTGATTCC
1 TGATCTGAATTCTGTTCTGATAAC
* * * *
60637 TAACCTGGATTTTGTTCTGATAAC
1 TGATCTGAATTCTGTTCTGATAAC
* *
60661 TGATCTGAATTATGTTTTGAT
1 TGATCTGAATTCTGTTCTGAT
60682 TTTTGATATC
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (24 bp):
TGATCTGAATTCTGTTCTGATAAC
Found at i:60856 original size:2 final size:2
Alignment explanation
Indices: 60849--60881 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60839 CAGATGGGGG
60849 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 T
60882 GTTTTAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66266 original size:23 final size:23
Alignment explanation
Indices: 66205--66268 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
66195 ATCATCTATT
* *
66205 TTATAAATATACTAATAATTATG
1 TTATAAACATACTAATATTTATG
* *
66228 TCAATAGTACAT--TAATATTTATG
1 T-TATA-AACATACTAATATTTATG
66251 TTATAAACATACTAATAT
1 TTATAAACATACTAATAT
66269 AAAAATATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
21 4 0.13
22 3 0.10
23 18 0.58
24 3 0.10
25 3 0.10
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (23 bp):
TTATAAACATACTAATATTTATG
Found at i:66441 original size:24 final size:24
Alignment explanation
Indices: 66376--66434 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 24
66366 TCATTCAATG
* * *
66376 AAATTAATTTAATAAAAAATAAATA
1 AAATCAATTTAATATATAA-AAATA
*
66401 ATATCAATTTAATATATAAAAATA
1 AAATCAATTTAATATATAAAAATA
66425 AAAT-AATTTA
1 AAATCAATTTA
66435 CTAATATCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 6 0.21
24 8 0.28
25 15 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATCAATTTAATATATAAAAATA
Found at i:67243 original size:23 final size:23
Alignment explanation
Indices: 67196--67245 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
67186 AATAATATGT
**
67196 TAGGTAGCGCTTATATAATGTAA
1 TAGGTAGCGCTTATATAATAAAA
67219 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCGCTTATATAATAAAA
67242 TAGG
1 TAGG
67246 CATTTAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.32
Consensus pattern (23 bp):
TAGGTAGCGCTTATATAATAAAA
Found at i:67305 original size:87 final size:87
Alignment explanation
Indices: 67159--67321 Score: 263
Period size: 87 Copynumber: 1.9 Consensus size: 87
67149 TATGTTATAT
* * *
67159 CATTTAACAAAAAATATTATCAAGTACAATAATATGTTAGGTAGCGCTTATATAATGTAATAGGT
1 CATTTAACAAAAAATATTATCAAGTACAATAACATATTAGGTAGCGATTATATAATGTAATAGGT
* *
67224 AGCGCTTATATAATAAAATAGG
66 AACACTTATATAATAAAATAGG
* *
67246 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGATTATATAATGTAATAGGT
1 CATTTAACAAAAAATATTATCAAGTACAATAACATATTAGGTAGCGATTATATAATGTAATAGGT
67311 AACACTTATAT
66 AACACTTATAT
67322 TGACCTATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 69 1.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (87 bp):
CATTTAACAAAAAATATTATCAAGTACAATAACATATTAGGTAGCGATTATATAATGTAATAGGT
AACACTTATATAATAAAATAGG
Found at i:67730 original size:200 final size:196
Alignment explanation
Indices: 67322--67845 Score: 651
Period size: 200 Copynumber: 2.6 Consensus size: 196
67312 ACACTTATAT
* *
67322 TGACCTATTTTCTAAGT-AAACTGGTATATTTATA-CCGATAACATTGCAAATTTACCTATTACA
1 TGACCTATTTTCTAA-TAAAACTGGTATATTTATATCAGAT-ACATTGTAAATTTACCTATTACA
* *
67385 TTATAATTATCGGTTTCAATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACACTTTATG
64 TTATAATTATCGGTTTCGATG--TTTTGGATCGATA-ATTTTAATAAATGTATCGACACTTTATG
* *
67448 CATGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATAC
126 CATGCACCCCGTTGGGCATTCATTATGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATAC
*
67513 ATTATT
191 ATTATC
* * * *
67519 TAGACCTATTTTCTCATAAAACTGATATATTTATATCGGATACATTGTAAATTTACCTATCACAT
1 T-GACCTATTTTCTAATAAAACTGGTATATTTATATCAGATACATTGTAAATTTACCTATTACAT
* * * * **
67584 TGTAATTATCAGTTTTGATGTTTGTGAGATCGATATTTTTAATAAATGTATCGACACTTTATGTG
65 TATAATTATCGGTTTCGATGTTT-TG-GATCGATAATTTTAATAAATGTATCGACACTTTATGCA
* * * * *
67649 TGCACCCCGTTTGGCATTTATTATGGACAAAAAGTATCGACACAAATTTAAATAGTGTCGATACT
128 TGCACCCCGTTGGGCATTCATTATGGA-AAAAAGTATCGACACAAACTTAAAAAGTGTCGATACA
67714 TTATGC
192 TTAT-C
* * * *
67720 TGACCTATTTTCTTATAAAACCGGTATATTTATATCAGCTACACTGTAAATTTACCTATTACATT
1 TGACCTATTTTCTAATAAAACTGGTATATTTATATCAGATACATTGTAAATTTACCTATTACATT
* * *
67785 ATAATTATCGGCTTCGATGTTATTGGGATCAATACTTTTAATAAATGTATCGACACTTTAT
66 ATAATTATCGGTTTCGATGTT-TT-GGATCGATAATTTTAATAAATGTATCGACACTTTAT
67846 ATTCTGGACA
Statistics
Matches: 282, Mismatches: 34, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
196 3 0.01
197 7 0.02
198 75 0.27
199 48 0.17
200 146 0.52
201 3 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.39
Consensus pattern (196 bp):
TGACCTATTTTCTAATAAAACTGGTATATTTATATCAGATACATTGTAAATTTACCTATTACATT
ATAATTATCGGTTTCGATGTTTTGGATCGATAATTTTAATAAATGTATCGACACTTTATGCATGC
ACCCCGTTGGGCATTCATTATGGAAAAAAGTATCGACACAAACTTAAAAAGTGTCGATACATTAT
C
Found at i:68129 original size:15 final size:15
Alignment explanation
Indices: 68078--68129 Score: 68
Period size: 15 Copynumber: 3.5 Consensus size: 15
68068 TAAGACATTA
* *
68078 CCCGCCCCGCATCCG
1 CCCGCCCCACATCCT
* *
68093 CTCGCCACACATCCT
1 CCCGCCCCACATCCT
68108 CCCGCCCCACATCCT
1 CCCGCCCCACATCCT
68123 CCCGCCC
1 CCCGCCC
68130 AGCTAAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.12, C:0.65, G:0.12, T:0.12
Consensus pattern (15 bp):
CCCGCCCCACATCCT
Found at i:71013 original size:29 final size:29
Alignment explanation
Indices: 70981--71041 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
70971 GTCAAAGAAA
70981 GTCAACGGTCAACGGTCGGGTCGGGTCGG
1 GTCAACGGTCAACGGTCGGGTCGGGTCGG
*
71010 GTCAACGGTCAACGGTCGGGTCTGGTCGG
1 GTCAACGGTCAACGGTCGGGTCGGGTCGG
71039 GTC
1 GTC
71042 GGGTCAGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.13, C:0.25, G:0.43, T:0.20
Consensus pattern (29 bp):
GTCAACGGTCAACGGTCGGGTCGGGTCGG
Found at i:71111 original size:20 final size:21
Alignment explanation
Indices: 71075--71113 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
71065 CAGACCGGTC
*
71075 AAACCGGTTCGAACCGGTTGA
1 AAACCGGTTCAAACCGGTTGA
71096 AAACCGGTT-AAACCGGTT
1 AAACCGGTTCAAACCGGTT
71114 TCCAGCAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.31, C:0.23, G:0.26, T:0.21
Consensus pattern (21 bp):
AAACCGGTTCAAACCGGTTGA
Found at i:78298 original size:24 final size:24
Alignment explanation
Indices: 78271--78354 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
78261 GTCAAAGAAA
78271 GTCAACGGTCAACGGTCGGGTCGG
1 GTCAACGGTCAACGGTCGGGTCGG
* *
78295 GTCAACGGTCAACGATCGGGTCTG
1 GTCAACGGTCAACGGTCGGGTCGG
*
78319 GTC--GGGTCAACGGTCGGGTCGG
1 GTCAACGGTCAACGGTCGGGTCGG
78341 GTCAGACCGGTCAA
1 GTCA-A-CGGTCAA
78355 ATCGATTCAG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
22 19 0.38
24 25 0.50
26 6 0.12
ACGTcount: A:0.18, C:0.25, G:0.39, T:0.18
Consensus pattern (24 bp):
GTCAACGGTCAACGGTCGGGTCGG
Found at i:78387 original size:19 final size:19
Alignment explanation
Indices: 78346--78409 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
78336 GTCGGGTCAG
* *
78346 ACCGGTCAAATCGATTC-A
1 ACCGGTCAAACCGGTTCGA
78364 GACCGGTCAAACCGGTTCGA
1 -ACCGGTCAAACCGGTTCGA
*
78384 ACCGGTTGAAACCGG-TCAGA
1 ACCGG-TCAAACCGGTTC-GA
78404 ACCGGT
1 ACCGGT
78410 TGAAAACCGG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
19 23 0.59
20 16 0.41
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTCGA
Found at i:78397 original size:20 final size:21
Alignment explanation
Indices: 78372--78430 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
78362 CAGACCGGTC
78372 AAACCGGTTCGAACCGGTTG-
1 AAACCGGTTCGAACCGGTTGA
78392 AAACCGG-TCAGAACCGGTTGA
1 AAACCGGTTC-GAACCGGTTGA
*
78413 AAACCGGTT-AAACCGGTT
1 AAACCGGTTCGAACCGGTT
78431 TCCAGCAGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 2 0.06
20 25 0.71
21 7 0.20
22 1 0.03
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (21 bp):
AAACCGGTTCGAACCGGTTGA
Found at i:78409 original size:30 final size:28
Alignment explanation
Indices: 78365--78429 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 28
78355 ATCGATTCAG
78365 ACCGGTCAAACCGGTTCG-AACCGGTTGAA
1 ACCGGTCAAACCGGTT-GAAACCGGTT-AA
78394 ACCGGTCAGAACCGGTTGAAAACCGGTTAA
1 ACCGGTCA-AACCGGTTG-AAACCGGTTAA
78424 ACCGGT
1 ACCGGT
78430 TTCCAGCAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 9 0.27
30 16 0.48
31 8 0.24
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (28 bp):
ACCGGTCAAACCGGTTGAAACCGGTTAA
Found at i:78430 original size:9 final size:10
Alignment explanation
Indices: 78372--78430 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
78362 CAGACCGGTC
78372 AAACCGGTTCG
1 AAACCGGTT-G
78383 -AACCGGTTG
1 AAACCGGTTG
*
78392 AAACCGG-TC
1 AAACCGGTTG
78401 AGAACCGGTTG
1 A-AACCGGTTG
78412 AAAACCGGTT-
1 -AAACCGGTTG
78422 AAACCGGTT
1 AAACCGGTT
78431 TCCAGCAGCC
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
9 12 0.29
10 20 0.48
11 9 0.21
12 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.19
Consensus pattern (10 bp):
AAACCGGTTG
Found at i:79945 original size:38 final size:38
Alignment explanation
Indices: 79894--79972 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
79884 TCCAACCAAA
*
79894 ACTATTTCAACATTAAAGATTAAAATAATTCTTTAAGT
1 ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
79932 ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
1 ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
79970 ACT
1 ACT
79973 TTAAACACAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (38 bp):
ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
Found at i:80167 original size:22 final size:21
Alignment explanation
Indices: 80142--80183 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
80132 TACCTAAATA
*
80142 AAATATGTATATCTATAATTTC
1 AAATATATATATCTA-AATTTC
*
80164 AAATTTATATATCTAAATTT
1 AAATATATATATCTAAATTT
80184 AACATAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (21 bp):
AAATATATATATCTAAATTTC
Found at i:84753 original size:24 final size:24
Alignment explanation
Indices: 84711--84757 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
84701 GACATGTCAT
*
84711 TTCATCACTTTAGACACATGATAC
1 TTCATCACTTTAGAAACATGATAC
*
84735 TTCATCACTTTATAAACATGATA
1 TTCATCACTTTAGAAACATGATA
84758 TTTGTTACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.21, G:0.06, T:0.36
Consensus pattern (24 bp):
TTCATCACTTTAGAAACATGATAC
Found at i:86556 original size:324 final size:323
Alignment explanation
Indices: 85219--86876 Score: 2093
Period size: 318 Copynumber: 5.2 Consensus size: 323
85209 AATCATAAAG
* * * **
85219 ACATCTCTATAATTATTGCTTATAGAAAAGAAAATTTTAAATAGGATATTACAAAGAAAAAAAAT
1 ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAAAAAAAT
* *
85284 ATTATTTTGGTGCTCGGAACACCGACTTCCTATTTATTGAAAATCATTTGGCCACCATCATTTGT
66 ATTATTTTGGTGCTCGGAACACCGA-TTCCTATCTGTTGAAAATCATTTGGCCACCATCATTTGT
* *
85349 GGAGAGATGTGAAATTGGAG-------TTATAAGAATAGAAAATGAATCAGAAAGTAGGAAGTTG
130 GGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTTG
* * *
85407 TATATTCATTCAGCCAAACAACCTCCATATGTCTT-GCACAACACAAATAGACTGCACCAGGCAA
195 TATATTCATTCAGCCAAACAACC-CCAGATGT-TTGGCACAACACAAATAGGCTGCACCAGGAAA
* * *
85471 ACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCCCTCTATTCAAGAA
258 ACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAG
85536 A
323 A
* * * * *
85537 AAATCTCTATACATAATACTTATAGAAAAGAAAGTTCCAAATAGGGATTTTACAAAG-AAAAAAA
1 ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATA-GGATATTACAAAGAAAAAAAA
** * * * *
85601 TATTATTTTATTGCTCGAAACACCGATTCCCTGTCTGTTGAAAATTATTTGGCCACAATCATTTG
65 TATTATTTTGGTGCTCGGAACACCGATT-CCTATCTGTTGAAAATCATTTGGCCACCATCATTTG
* *
85666 CGGAGAGATGTGAAATTGAAGTTAT--A--AT---AATAGAGAATGAATTAGAAAGTAGGAAGTT
129 TGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTT
* * * * * * **
85724 GTATATTCATTTAGCCAAACAAGCTCAAATGTTCGACACAACACAAATAGGCCACACCAGGAAAA
194 GTATATTCATTCAGCCAAACAACCCCAGATGTTTGGCACAACACAAATAGGCTGCACCAGGAAAA
* * *
85789 CATCAAGTTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTATATTCAAGAGA
259 CATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGA
* *
85854 ACATCTCTATACTTGTTTCTTATAGAAAA-AAAGTTTCAAATAGGATATTAC-AA-AAAAAAAAT
1 ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAAAAAAAT
** * ***
85916 ATTATTTTGGTGCTCGGAACACCGATTCCCTATCTACTGAAAGTCATTTGGCCATTGTCATTTGT
66 ATTATTTTGGTGCTCGGAACACCGATT-CCTATCTGTTGAAAATCATTTGGCCACCATCATTTGT
* *
85981 GAAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAATTG
130 GGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTTG
* ** * *
86046 TATATTCATTCAGCCAAACAACCCCCAGATGTTCGGCACATTACAAATAGGTTGTACCAGGAAAA
195 TATATTCATTCAGCCAAACAA-CCCCAGATGTTTGGCACAACACAAATAGGCTGCACCAGGAAAA
* * * * * *
86111 TATCAAGTTTGAAACCAGTTATAATTATCTCCTATACTTCATCACCTTCCTCTCTATTTAAGAGA
259 CATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGA
* * *
86176 ACATCTTTATACTTATTTCTTATAGAAAAAAAAGTTTCAAATAGGATATTACAAAGAAAAAAATA
1 ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAG-AAAAAA-A
* ** * ** *
86241 ATATTATTTTGGTGCTCGAAACACCGATT-GGATCTGTTGAAAATCATTCGGCCATTACCATTTG
64 ATATTATTTTGGTGCTCGGAACACCGATTCCTATCTGTTGAAAATCATTTGGCCACCATCATTTG
* *
86305 TGAAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAAAGAATGAATTAGAAAGTAGGAAGTT
129 TGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTT
* **
86370 GTATATTCATTCAGCCAAACAACCCCAGATGTTTAGCACAACACAAATAGGCTGCACCAAAAAAA
194 GTATATTCATTCAGCCAAACAACCCCAGATGTTTGGCACAACACAAATAGGCTGCACCAGGAAAA
* * * *
86435 CATCGAGGTTAAAACCAGTCATAATTACCTCCTATACTTCATCCCCTTTCTTTCTATTCAAGAGA
259 CATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGA
* *
86500 ACATCTCTATACCTATTTCTTATAGAAAAGAAAGTTCCAAATAGAATATTACAAAG--AAAAAAT
1 ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAAAAAAAT
* ** * **
86563 ATTATTTTGGTGCTCGGGACATAGATTCCCTATCTGCTGAAAAATCATTTGGCCACCATCAAATG
66 ATTATTTTGGTGCTCGGAACACCGATT-CCTATCTGTTG-AAAATCATTTGGCCACCATCATTTG
* * * * * *
86628 TGGAGAGATATGAAATTTGAGTTATAACTTATAATACTAGAGAATGAATCAGAAAGTAGGAAGTT
129 TGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTT
* * * * * *
86693 GCATATTCATTCAGCCAAAAAACCCTCAGATGTTCGGCACAGCAGAAATAGGCTGGCTACACCAA
194 GTATATTCATTCAGCCAAACAACCC-CAGATGTTTGGCACAACACAAATAGGCT-G---CACCAG
* *
86758 GAAAACATCGAGGTTGAAACCATTCATAATTACCTCCTATACTTCATCACCTTCATCTCTATTCA
254 GAAAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCA
86823 AGAGA
319 AGAGA
*
86828 ACATCTCTATACTTATTGCTTATAGAAAAGAAAGTTCCAAATA-GATATT
1 ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATT
86877 CTCAGTTAAA
Statistics
Matches: 1162, Mismatches: 148, Indels: 51
0.85 0.11 0.04
Matches are distributed among these distances:
314 85 0.07
315 8 0.01
316 14 0.01
317 116 0.10
318 167 0.14
319 12 0.01
320 26 0.02
321 56 0.05
322 127 0.11
323 121 0.10
324 167 0.14
325 113 0.10
326 6 0.01
327 34 0.03
328 110 0.09
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (323 bp):
ACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAAAAAAAT
ATTATTTTGGTGCTCGGAACACCGATTCCTATCTGTTGAAAATCATTTGGCCACCATCATTTGTG
GAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAAGTTGT
ATATTCATTCAGCCAAACAACCCCAGATGTTTGGCACAACACAAATAGGCTGCACCAGGAAAACA
TCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAGAGA
Found at i:88128 original size:27 final size:26
Alignment explanation
Indices: 88077--88129 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
88067 TAGGTTTCAC
*
88077 AATGCTTTTGAAAAGTACTATAAGAA
1 AATGCTTTTGAAAAGTACTAAAAGAA
*
88103 AATGTCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTAC-TAAAAGAA
88130 GCTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTAAAAGAA
Found at i:91058 original size:169 final size:169
Alignment explanation
Indices: 90779--91124 Score: 674
Period size: 169 Copynumber: 2.0 Consensus size: 169
90769 TGGTGATCGG
90779 AACATCGACTCCCTATTTACTGAAAATCATTTGGCCACCATCATTCGTGGAGAGATGTGAAATTG
1 AACATCGACTCCCTATTTACTGAAAATCATTTGGCCACCATCATTCGTGGAGAGATGTGAAATTG
90844 GAGTTATAAGAATAGAGAATTAATCAGAAAGTAGGAAGTCGTATATTCATTCAGTCAAACAACAT
66 GAGTTATAAGAATAGAGAATTAATCAGAAAGTAGGAAGTCGTATATTCATTCAGTCAAACAACAT
90909 CCAGATGTCCGGCACAACACAAATAGGCTGCACCAGGAA
131 CCAGATGTCCGGCACAACACAAATAGGCTGCACCAGGAA
90948 AACATCGACTCCCTATTTACTGAAAATCATTTGGCCACCATCATTCGTGGAGAGATGTGAAATTG
1 AACATCGACTCCCTATTTACTGAAAATCATTTGGCCACCATCATTCGTGGAGAGATGTGAAATTG
* *
91013 GAGTTATAATAATAGAGAATTAATCAGAAAGTAGGAAGTCGTATATTCATTCAGTCAAACAACCT
66 GAGTTATAAGAATAGAGAATTAATCAGAAAGTAGGAAGTCGTATATTCATTCAGTCAAACAACAT
91078 CCAGATGTCCGGCACAACACAAATAGGCTGCACCAGGAA
131 CCAGATGTCCGGCACAACACAAATAGGCTGCACCAGGAA
91117 AACATCGA
1 AACATCGA
91125 GGATGAAACC
Statistics
Matches: 175, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 175 1.00
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.24
Consensus pattern (169 bp):
AACATCGACTCCCTATTTACTGAAAATCATTTGGCCACCATCATTCGTGGAGAGATGTGAAATTG
GAGTTATAAGAATAGAGAATTAATCAGAAAGTAGGAAGTCGTATATTCATTCAGTCAAACAACAT
CCAGATGTCCGGCACAACACAAATAGGCTGCACCAGGAA
Found at i:91560 original size:325 final size:324
Alignment explanation
Indices: 90957--91880 Score: 1317
Period size: 325 Copynumber: 2.9 Consensus size: 324
90947 AAACATCGAC
* * *
90957 TCCCTATTTACTGAAAATCATTTGGCCACCATCATTCGTGGAGAGATGTGAAATTGGAGTTAT--
1 TCCCTATATGCTGAAAATCATTTGGCCACCATCATTTGTGGAGAGATGTGAAATTGGAGTTATAA
* * * *
91020 A--AT-A-ATAGAGAATTAATCAGAAAGTAGGAAGTCGTATATTCATTCAGTCAAACAACCTCCA
66 ATTATAAGATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
* * * *
91081 GATGTCCGGCACAACACAAATAGGCTGCACCAGGAAAACATCGAGGATGAAACCAATCATAATTA
131 GATGTTCGGCACAGCACAAATAGGCTGCACCAGAAAAACATCGAGGCTGAAACCAATCATAATTA
* * *
91146 CCTCCTATACTTCATCATCTTCATCTCTATTCAAGAAAAAATCTCTATACTTATTACTTATAGAA
196 CCTCCTATACTTCATCATCTTCATCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAA
** *
91211 AAGAAAGTTTCAAATAGGATATTACAAAGAAAAAAAATATTATTTTGGTGCTC-GGAACACCGAT
261 AAGAAAGTTTCAAATAAAATATTACAAAGAAAAAAAATATTATTTTGGTGCTCAGG-ACACAGAT
* * *** *
91275 TTCCTATATGCTGAAAATCATTTGACCATTGTCATTTGTGAAGAGATGTGAAATTGGAGTTATAA
1 TCCCTATATGCTGAAAATCATTTGGCCACCATCATTTGTGGAGAGATGTGAAATTGGAGTTATAA
* * *
91340 ATTATAAGGATAGAGAATGAATTAGAAAGTAGGAAGTTGTATATTCATTCGGCCAAAAAACCCCC
66 ATTATAA-GATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCC
91405 AGATGTTCGGCACAGCACAAATAGGCTGCACCAGAAAAACATCGAGGCTGAAACCAATCATAATT
130 AGATGTTCGGCACAGCACAAATAGGCTGCACCAGAAAAACATCGAGGCTGAAACCAATCATAATT
* ** * *
91470 ACCTCTTATACTTCATCCCCTTCCTTTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGA
195 ACCTCCTATACTTCATCATCTTCATCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGA
* *
91535 AAAGAAAGTTCCAAATAAAATATTACAAAGAAAAAAAATATTATTTTGGTGCTCAGGACATAGAT
260 AAAGAAAGTTTCAAATAAAATATTACAAAGAAAAAAAATATTATTTTGGTGCTCAGGACACAGAT
91600 TCCCTATATGCTGAAAATCATTTGGCCACCATCATTTGTGGAGAGATGTGAAATTGGAGTTATAA
1 TCCCTATATGCTGAAAATCATTTGGCCACCATCATTTGTGGAGAGATGTGAAATTGGAGTTATAA
* * *
91665 CTTATAAGAATAGAGAATGAATCA-AAATGTAGGAAGTTGTAAATTCATTCAGCCAAACAACCCT
66 ATTATAAG-ATAGAGAATGAATCAGAAA-GTAGGAAGTTGTATATTCATTCAGCCAAACAACCCC
* * * * *
91729 CAGATGTTCGGCACAGCAGAAACATGCTAGCTACACCA-AGAAAACATTGAGGCTGAAACCAGTC
129 CAGATGTTCGGCACAGCACAAATA-G---GCTGCACCAGA-AAAACATCGAGGCTGAAACCAATC
* *
91793 ATAATTACCTCCTATACTTCATCATCTTTATCTCTATTCAAGAGAACATCTCTATACTTATTGAT
189 ATAATTACCTCCTATACTTCATCATCTTCATCTCTATTCAAGAGAACATCTCTATACTTATTGCT
91858 TATAGAAAAGAAAGTTTCAAATA
254 TATAGAAAAGAAAGTTTCAAATA
91881 TATTTCTCTA
Statistics
Matches: 533, Mismatches: 58, Indels: 19
0.87 0.10 0.03
Matches are distributed among these distances:
318 54 0.10
320 1 0.00
322 2 0.00
323 1 0.00
324 4 0.01
325 357 0.67
326 3 0.01
328 1 0.00
329 110 0.21
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (324 bp):
TCCCTATATGCTGAAAATCATTTGGCCACCATCATTTGTGGAGAGATGTGAAATTGGAGTTATAA
ATTATAAGATAGAGAATGAATCAGAAAGTAGGAAGTTGTATATTCATTCAGCCAAACAACCCCCA
GATGTTCGGCACAGCACAAATAGGCTGCACCAGAAAAACATCGAGGCTGAAACCAATCATAATTA
CCTCCTATACTTCATCATCTTCATCTCTATTCAAGAGAACATCTCTATACTTATTGCTTATAGAA
AAGAAAGTTTCAAATAAAATATTACAAAGAAAAAAAATATTATTTTGGTGCTCAGGACACAGAT
Found at i:93133 original size:27 final size:26
Alignment explanation
Indices: 93082--93134 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
93072 TAGGTTTGGC
*
93082 AATGCTTTTGAAAAGTATTATAAGAA
1 AATGCTTTTGAAAAGTATTAAAAGAA
*
93108 AATGCCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAG-TATTAAAAGAA
93135 GTTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 14 0.61
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTATTAAAAGAA
Found at i:93763 original size:318 final size:321
Alignment explanation
Indices: 93186--94480 Score: 1419
Period size: 318 Copynumber: 4.0 Consensus size: 321
93176 AACTTAAAAT
* *
93186 AAAAAATATTATTTTGGTGCTCGAAACACCGACTCCCTATCTACTGAAAATCATTTGGGCACCAT
1 AAAAAATATTATTTTGGTGCTCGAAACACCGATTCCCTATCTACTGAAAATCATTTGGCCACCAT
* * *
93251 CATTTGTGGAGATATGTGAAATTGGAGTTATAAGAATAGAGAATGAATAAGAAAGTAGGAAGTTG
66 CATTTGTGGAGAGATGTGAAATTGGAGTTATAATAATAGAGAATGAATCAGAAAGTAGGAAGTTG
* * * ** * * *
93316 TATATTCACTCAGCCAAACAACCTCCAGATG-TCCG-ACA-CA-ACACACTTAGACTGTACCAGG
131 TAAATTCATTCAGCCAAACAACCTCCAGATGTTCCGCACAGCACAAACAAATAGGCTGCACCAAG
* *
93377 AAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATTACCTTCCTCTCTATTCAA
196 AAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCATCTCTATTCAA
* *
93442 GAAAAAATCTCTATACTTATTACTTATAGAAAATAAAGTTTCAAATAGTATATTACAAAGAA
261 GAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAGTTTCAAATAGAATATTACAAAG-A
* * * *
93504 AAAAAATATTATTTTGGTGCTTGAAACACCGATTTCCTATCTACTGAAAATTATTTGGCCACTAT
1 AAAAAATATTATTTTGGTGCTCGAAACACCGATTCCCTATCTACTGAAAATCATTTGGCCACCAT
* * *
93569 CATTTGTGGAGAGATGTGAAATTGGTGTTATAATAATAGAGAATGAATCGGAAAGTAGGAAGTCG
66 CATTTGTGGAGAGATGTGAAATTGGAGTTATAATAATAGAGAATGAATCAGAAAGTAGGAAGTTG
* * * *
93634 TATATTCATTCAGTCAAACAACCTCCAGATG-TCCG-ACA-TA-AAACAAATAGGTTGCACCAAG
131 TAAATTCATTCAGCCAAACAACCTCCAGATGTTCCGCACAGCACAAACAAATAGGCTGCACCAAG
* * *
93695 AAAACATCGAGGATGAAACCAATCATAATTACCTCCTATACTTCATCACCTTTATCTTTATTCAA
196 AAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCATCTCTATTCAA
*
93760 GAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAGTTTCAAATAGGATATTACAAAG-
261 GAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAGTTTCAAATAGAATATTACAAAGA
* * * * ***
93820 AAAAAATATTATTTTGGTGCTCGGAACACCGATTTCCTATCTGCTGAAAATCATTTGACCATTGT
1 AAAAAATATTATTTTGGTGCTCGAAACACCGATTCCCTATCTACTGAAAATCATTTGGCCACCAT
* * *
93885 CATTTGTGAAGAGATGTGAAATTGGAGTTATAAATTATAATAATAGAGAATGAATTAGAAAGTAC
66 CATTTGTGGAGAGATGTGAAATTGGAG-------TTATAATAATAGAGAATGAATCAGAAAGTAG
* *
93950 GAAGTTGTAAATTCATTCAGCCAAACAACCCCCAGATGTTCGGTATAGCACAAATAGGCTGCACC
124 GAAGTTGTAAATTCATTCAGCCAAACAACCTCCAGATGTTC-----CGCAC----A----GCA-C
* * * *
94015 AGAAAAACATCGAGGCTGAAACC-AGTAAAACATCAAGGCTGAAACCAGTCATAATTACCTCCTA
175 A-AACAA-AT--AGGCTG-CACCAAG-AAAACATCGAGGATGAAACCAGTCATAATTACCTCCTA
* * * * * * * *
94079 TACTTCACCCCCTGCTTTTCTATTCAAGAGAAGATCTCTATACTTATTGCTTATAGAAAAGAAAG
234 TACTTCATCACCTTCATCTCTATTCAAGAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAG
* * *
94144 TTCCAAATAGAAAATTACAAACA
299 TTTCAAATAGAATATTACAAAGA
* * * ** * * *
94167 AAAAATTTTTATTTTGGTGCTC-AGGACATTGATTCCCTATATGCTGAAAATCATTTGGCCACCG
1 AAAAAATATTATTTTGGTGCTCGA-AACACCGATTCCCTATCTACTGAAAATCATTTGGCCACCA
* * *
94231 TCATTTGTGGAGAGATATGAAATTAGAGTTATAACTTCTAAGAATAGAGAATGAATCAGAATGTA
65 TCATTTGTGGAGAGATGTGAAATTGGAGTTATAA----T---AATAGAGAATGAATCAGAAAGTA
* * **
94296 GGAAGTTGTAAAATTCATTCAGCCAAACAACCT-CAGATGTTCGGCACAGCAGAAACATGCTA-G
123 GGAAGTTGT-AAATTCATTCAGCCAAACAACCTCCAGATGTTCCGCACAGCACAAACA-AATAGG
* * *
94359 CTACACCAAGAAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCTCCTTCAT
186 CTGCACCAAGAAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCAT
* * * * *
94424 CTCTATACAAGAGAACATCCCTATACTTATTGCTTATAGAAAAGAAAGTTTCAAATA
251 CTCTATTCAAGAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAGTTTCAAATA
94481 TATTTCTCTA
Statistics
Matches: 832, Mismatches: 102, Indels: 76
0.82 0.10 0.08
Matches are distributed among these distances:
316 83 0.10
318 287 0.34
323 62 0.07
324 2 0.00
328 105 0.13
329 6 0.01
330 3 0.00
332 4 0.00
333 1 0.00
334 4 0.00
338 1 0.00
339 1 0.00
340 6 0.01
341 1 0.00
342 8 0.01
343 2 0.00
344 1 0.00
345 7 0.01
346 111 0.13
347 115 0.14
348 22 0.03
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (321 bp):
AAAAAATATTATTTTGGTGCTCGAAACACCGATTCCCTATCTACTGAAAATCATTTGGCCACCAT
CATTTGTGGAGAGATGTGAAATTGGAGTTATAATAATAGAGAATGAATCAGAAAGTAGGAAGTTG
TAAATTCATTCAGCCAAACAACCTCCAGATGTTCCGCACAGCACAAACAAATAGGCTGCACCAAG
AAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCATCTCTATTCAA
GAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAGTTTCAAATAGAATATTACAAAGA
Found at i:94044 original size:23 final size:23
Alignment explanation
Indices: 94012--94063 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
94002 AATAGGCTGC
* *
94012 ACCAGAAAAACATCGAGGCTGAA
1 ACCAGTAAAACATCAAGGCTGAA
94035 ACCAGTAAAACATCAAGGCTGAA
1 ACCAGTAAAACATCAAGGCTGAA
94058 ACCAGT
1 ACCAGT
94064 CATAATTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (23 bp):
ACCAGTAAAACATCAAGGCTGAA
Found at i:95688 original size:27 final size:26
Alignment explanation
Indices: 95637--95689 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
95627 TAGGTTTGGC
*
95637 AATGCTTTTGAAAAGTACTATAAGAA
1 AATGCTTTTGAAAAGTACTAAAAGAA
*
95663 AATGTCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTAC-TAAAAGAA
95690 GTTGAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTAAAAGAA
Found at i:97820 original size:24 final size:24
Alignment explanation
Indices: 97803--97848 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
97793 ACATGTCATT
*
97803 TCATCACTTTGGACACATGATACG
1 TCATCACTTTAGACACATGATACG
97827 TCATCACTTTAGACACATGATA
1 TCATCACTTTAGACACATGATA
97849 TGTGCTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (24 bp):
TCATCACTTTAGACACATGATACG
Found at i:98568 original size:27 final size:27
Alignment explanation
Indices: 98516--98569 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
98506 TAGGTTTGGC
**
98516 AATGCTTTTGAAAAGTACTTTTAAGAA
1 AATGCTTTTGAAAAGTACTTAAAAGAA
*
98543 AATGTCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTACTTAAAAGAA
98570 GTTGAGTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (27 bp):
AATGCTTTTGAAAAGTACTTAAAAGAA
Found at i:98652 original size:11 final size:12
Alignment explanation
Indices: 98634--98662 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
98624 GTAAAATAAC
98634 TATTTTTTGTAA
1 TATTTTTTGTAA
98646 T-TTTTTTGTAA
1 TATTTTTTGTAA
98657 TATTTT
1 TATTTT
98663 GATTATAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (12 bp):
TATTTTTTGTAA
Found at i:100319 original size:27 final size:26
Alignment explanation
Indices: 100268--100320 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
100258 TAGGTTTGGC
*
100268 AATGCTTTTGAAAAGTACTATAAGAA
1 AATGCTTTTGAAAAGTACTAAAAGAA
*
100294 AATGTCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTAC-TAAAAGAA
100321 GTTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTAAAAGAA
Found at i:101946 original size:3 final size:3
Alignment explanation
Indices: 101938--102008 Score: 72
Period size: 3 Copynumber: 23.0 Consensus size: 3
101928 ACTGTTAATT
* * *
101938 TTA TTA TTA TTA TTG TTCA TTTA TTG TT- TCA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TT-A -TTA TTA TTA TTA -TTA TTA TTA TTA TTA
*
101985 TTA TTA TTA TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA
102009 ATTTGACTTT
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
2 1 0.02
3 51 0.89
4 3 0.05
5 2 0.04
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:106110 original size:17 final size:18
Alignment explanation
Indices: 106088--106121 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
106078 TTGAAAGGTC
*
106088 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
106105 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
106122 ACAGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:111272 original size:17 final size:18
Alignment explanation
Indices: 111250--111283 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
111240 TTGAAAGGGC
*
111250 TGGAA-TAAATGATAAGT
1 TGGAATTAAATAATAAGT
111267 TGGAATTAAATAATAAG
1 TGGAATTAAATAATAAG
111284 ACAGAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (18 bp):
TGGAATTAAATAATAAGT
Found at i:115963 original size:35 final size:32
Alignment explanation
Indices: 115900--115965 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
115890 TTATTTTGAT
* *
115900 TTTGTCTCCTCGTTTTTCATGGTCAATTATAC
1 TTTGTCTCCTCCTTTTTCATGATCAATTATAC
*
115932 TTTGTCTCCTCCTCATTTTCTATGATTAATTATA
1 TTTGTCTCCTCCT--TTTTC-ATGATCAATTATA
115966 TTTACTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.43
34 5 0.18
35 11 0.39
ACGTcount: A:0.18, C:0.21, G:0.09, T:0.52
Consensus pattern (32 bp):
TTTGTCTCCTCCTTTTTCATGATCAATTATAC
Found at i:117038 original size:35 final size:32
Alignment explanation
Indices: 116975--117040 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
116965 TTATTTTGAT
* *
116975 TTTGTCTCCTCGTTTTTCATGGTCAATTATAC
1 TTTGTCTCCTCCTTTTTCATGATCAATTATAC
*
117007 TTTGTCTCCTCCTCATTTTCTATGATTAATTATA
1 TTTGTCTCCTCCT--TTTTC-ATGATCAATTATA
117041 TTTACTCTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 12 0.43
34 5 0.18
35 11 0.39
ACGTcount: A:0.18, C:0.21, G:0.09, T:0.52
Consensus pattern (32 bp):
TTTGTCTCCTCCTTTTTCATGATCAATTATAC
Found at i:121237 original size:9 final size:9
Alignment explanation
Indices: 121223--121252 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
121213 ATAAAATTAT
121223 TTAATAAAA
1 TTAATAAAA
121232 TTAATAAAA
1 TTAATAAAA
121241 TTAATAAAA
1 TTAATAAAA
121250 TTA
1 TTA
121253 TTTAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TTAATAAAA
Found at i:121353 original size:23 final size:24
Alignment explanation
Indices: 121313--121366 Score: 92
Period size: 23 Copynumber: 2.3 Consensus size: 24
121303 TAATGATTAA
*
121313 ATGTAAATTAATATAGTTTAGTTT
1 ATGTAAATTAATATAGTTTAATTT
121337 ATGTAAATT-ATATAGTTTAATTT
1 ATGTAAATTAATATAGTTTAATTT
121360 ATGTAAA
1 ATGTAAA
121367 GAAAAAATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
23 20 0.69
24 9 0.31
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (24 bp):
ATGTAAATTAATATAGTTTAATTT
Found at i:121582 original size:17 final size:16
Alignment explanation
Indices: 121558--121607 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
121548 GTTTCCGCCC
121558 TTAA-TATAATTATATA
1 TTAATTATAATTA-ATA
121574 TTAATTAT-ATTAATA
1 TTAATTATAATTAATA
121589 -TAATTA-ATATTAATA
1 TTAATTATA-ATTAATA
121604 TTAA
1 TTAA
121608 CTTAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 6 0.20
15 10 0.33
16 11 0.37
17 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATTATAATTAATA
Found at i:121597 original size:9 final size:9
Alignment explanation
Indices: 121558--121598 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
121548 GTTTCCGCCC
121558 TTAATATAA
1 TTAATATAA
121567 TT-ATAT-A
1 TTAATATAA
121574 TTAAT-TATA
1 TTAATATA-A
121583 TTAATATAA
1 TTAATATAA
121592 TTAATAT
1 TTAATAT
121599 TAATATTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
7 4 0.14
8 6 0.21
9 16 0.57
10 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (9 bp):
TTAATATAA
Found at i:121604 original size:40 final size:42
Alignment explanation
Indices: 121558--121780 Score: 119
Period size: 44 Copynumber: 5.2 Consensus size: 42
121548 GTTTCCGCCC
121558 TTAATATAATTATATAT-TA-A-TTATATTAA-TATAATTAATA
1 TTAATATAATTATATATATATAGTT-TA-TAATTATAATTAATA
*
121598 TTAATATTAACTTAATATATATATAGTTTATAATTTGTAATTAATA
1 TTAATA-TAA-TT-ATATATATATAGTTTATAA-TTATAATTAATA
* * * * *
121644 TTAATATAAATATAGTCTATAAAATTAATATTAA-TATAACT-ATA
1 TTAATATAATTATA-TATATATAGTT--TA-TAATTATAATTAATA
* * *
121688 TT-TTATAAATTATATA-GTATAGTTTATAAATTATAGTTAATA
1 TTAATAT-AATTATATATATATAGTTTAT-AATTATAATTAATA
* *
121730 -TAAT-TATATTAATATAATATATAGCTTATAAACTATAA-T-ATA
1 TTAATATA-ATT-ATAT-ATATATAGTTTAT-AATTATAATTAATA
121772 TTAATATAA
1 TTAATATAA
121781 ATTACAGTTA
Statistics
Matches: 140, Mismatches: 20, Indels: 43
0.69 0.10 0.21
Matches are distributed among these distances:
39 1 0.01
40 11 0.08
41 13 0.09
42 18 0.13
43 20 0.14
44 43 0.31
45 11 0.08
46 20 0.14
47 3 0.02
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (42 bp):
TTAATATAATTATATATATATAGTTTATAATTATAATTAATA
Found at i:121605 original size:30 final size:29
Alignment explanation
Indices: 121566--121752 Score: 87
Period size: 30 Copynumber: 6.6 Consensus size: 29
121556 CCTTAATATA
121566 ATTATATATTAATTATATTAATATAATTAAT
1 ATTA-ATATTAATTATATTAATATAATT-AT
*
121597 ATTAATATTAACTTA-ATATATATATAGTT-T
1 ATTAATATTAA-TTATAT-TA-ATATAATTAT
* *
121627 A-TAATTTGTAATTAATATTAATATAAATAT
1 ATTAATAT-TAATT-ATATTAATATAATTAT
* *
121657 AGTCT-ATA-AAATTAATATTAATATAACTAT
1 A-T-TAATATTAATT-ATATTAATATAATTAT
* * * *
121687 ATT-TTATAAATTATA-TAGTATAGTT-T
1 ATTAATATTAATTATATTAATATAATTAT
*
121713 A-TAA-ATT-A-TA-GTTAATATAATTAT
1 ATTAATATTAATTATATTAATATAATTAT
121737 ATTAATA-TAATATATA
1 ATTAATATTAAT-TATA
121753 GCTTATAAAC
Statistics
Matches: 119, Mismatches: 17, Indels: 42
0.67 0.10 0.24
Matches are distributed among these distances:
23 10 0.08
24 3 0.03
25 7 0.06
26 4 0.03
27 7 0.06
28 8 0.07
29 19 0.16
30 40 0.34
31 11 0.09
32 9 0.08
33 1 0.01
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.48
Consensus pattern (29 bp):
ATTAATATTAATTATATTAATATAATTAT
Found at i:121621 original size:17 final size:15
Alignment explanation
Indices: 121570--121621 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
121560 AATATAATTA
121570 TATATTAATT-ATAT
1 TATATTAATTAATAT
121584 TA-ATATAATTAATAT
1 TATAT-TAATTAATAT
121599 TAATATTAACTTAATAT
1 T-ATATTAA-TTAATAT
121616 ATATAT
1 -TATAT
121622 AGTTTATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
13 2 0.06
14 7 0.22
15 5 0.16
16 4 0.12
17 13 0.41
18 1 0.03
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATTAATTAATAT
Found at i:121841 original size:20 final size:22
Alignment explanation
Indices: 121800--121902 Score: 88
Period size: 22 Copynumber: 4.8 Consensus size: 22
121790 AAGATAATTA
121800 ACATTAATATAAACTATATAGT
1 ACATTAATATAAACTATATAGT
121822 ACATTAATATAAA-T-TATAGT
1 ACATTAATATAAACTATATAGT
** * * *
121842 TTATAAATTATATACTATA-GGT
1 ACATTAA-TATAAACTATATAGT
* *
121864 -TATAAAGTATAAACTATATAGT
1 ACATTAA-TATAAACTATATAGT
*
121886 ACACTAATATAAACTAT
1 ACATTAATATAAACTAT
121903 TGTTTATAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 10
0.76 0.13 0.12
Matches are distributed among these distances:
20 10 0.15
21 22 0.34
22 28 0.43
23 5 0.08
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.38
Consensus pattern (22 bp):
ACATTAATATAAACTATATAGT
Found at i:121860 original size:21 final size:21
Alignment explanation
Indices: 121829--121881 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
121819 AGTACATTAA
* * *
121829 TATAAATTATAGTTTATAAAT
1 TATAAACTATAGGTTATAAAG
*
121850 TATATACTATAGGTTATAAAG
1 TATAAACTATAGGTTATAAAG
121871 TATAAACTATA
1 TATAAACTATA
121882 TAGTACACTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.42
Consensus pattern (21 bp):
TATAAACTATAGGTTATAAAG
Found at i:121917 original size:21 final size:20
Alignment explanation
Indices: 121827--121917 Score: 67
Period size: 21 Copynumber: 4.3 Consensus size: 20
121817 ATAGTACATT
*
121827 AATATAAATTATAGTTTATA
1 AATATAAACTATAGTTTATA
* *
121847 AATTATATACTATAGGTTATA
1 AA-TATAAACTATAGTTTATA
* *
121868 AAGTATAAACTATA-TAGTACA
1 AA-TATAAACTATAGT-TTATA
*
121889 CTAATATAAACTATTGTTTATA
1 --AATATAAACTATAGTTTATA
121911 AACTATA
1 AA-TATA
121918 GGTTACATAT
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
20 4 0.07
21 34 0.63
22 13 0.24
23 3 0.06
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (20 bp):
AATATAAACTATAGTTTATA
Found at i:121951 original size:20 final size:21
Alignment explanation
Indices: 121924--122020 Score: 105
Period size: 20 Copynumber: 4.7 Consensus size: 21
121914 TATAGGTTAC
121924 ATATATAGTTTATATA-ACAT
1 ATATATAGTTTATATATACAT
*
121944 ATAAATAGATTGTATATATACAT
1 ATATATAG-TT-TATATATACAT
121967 ATACTATA-TGTTATATAT--AT
1 ATA-TATAGT-TTATATATACAT
121987 ATATATAGTTTATATATAC-T
1 ATATATAGTTTATATATACAT
*
122007 ATACATAGTTTATA
1 ATATATAGTTTATA
122021 CATATATGTA
Statistics
Matches: 66, Mismatches: 3, Indels: 16
0.78 0.04 0.19
Matches are distributed among these distances:
19 12 0.18
20 27 0.41
21 2 0.03
22 14 0.21
23 8 0.12
24 3 0.05
ACGTcount: A:0.43, C:0.05, G:0.06, T:0.45
Consensus pattern (21 bp):
ATATATAGTTTATATATACAT
Found at i:121991 original size:63 final size:61
Alignment explanation
Indices: 121924--122048 Score: 162
Period size: 61 Copynumber: 2.0 Consensus size: 61
121914 TATAGGTTAC
* * *
121924 ATATATAGTTTATATA-ACATATAAATAGATTGTATATATACATATACTATATGTTATATATAT
1 ATATATAGTTTATATATAC-TATAAATAG-TT-TATACATACATATACTATAAGTTACATATAT
* * *
121987 ATATATAGTTTATATATACTATACATAGTTTATACATATATGTACTATAAGTTACATATAT
1 ATATATAGTTTATATATACTATAAATAGTTTATACATACATATACTATAAGTTACATATAT
122048 A
1 A
122049 GTTTACATGT
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
61 27 0.49
62 2 0.04
63 24 0.44
64 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.44
Consensus pattern (61 bp):
ATATATAGTTTATATATACTATAAATAGTTTATACATACATATACTATAAGTTACATATAT
Found at i:122897 original size:16 final size:16
Alignment explanation
Indices: 122876--122913 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
122866 GGATATGTCT
122876 CGGCAATACCTTTTTA
1 CGGCAATACCTTTTTA
122892 CGGCAATACCTTTTTA
1 CGGCAATACCTTTTTA
122908 CGGCAA
1 CGGCAA
122914 CATTAACATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (16 bp):
CGGCAATACCTTTTTA
Found at i:124550 original size:2 final size:2
Alignment explanation
Indices: 124508--124535 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
124498 ATGTTTAATG
124508 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
124536 CATTAAACAT
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:124761 original size:28 final size:28
Alignment explanation
Indices: 124719--124774 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
124709 ACTATATATA
* *
124719 TATATATATATATATATTACTTATATTAGT
1 TATACATACATATATA-TAC-TATATTAGT
124749 TATACATACATATATATACTATATTA
1 TATACATACATATATATACTATATTA
124775 ATATAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 3 0.12
30 14 0.58
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (28 bp):
TATACATACATATATATACTATATTAGT
Found at i:124778 original size:17 final size:17
Alignment explanation
Indices: 124758--124808 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
124748 TTATACATAC
124758 ATATATATACTATATTA
1 ATATATATACTATATTA
* *
124775 ATATAAATAGTTTATATTA
1 ATATATATA--CTATATTA
*
124794 ATATATAAACTATAT
1 ATATATATACTATAT
124809 ACTTTTTATA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATATATACTATATTA
Found at i:124809 original size:2 final size:2
Alignment explanation
Indices: 124711--124800 Score: 52
Period size: 2 Copynumber: 47.0 Consensus size: 2
124701 TTCTATAAAC
124711 TA TA TA TA TA TA TA TA TA TA TA TA T- TA CT- TA TA T- TA GT- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA
* * * *
124751 TA CA TA CA TA TA TA TA CTA TA T- TA -A TA TA AA TA GTT TA TA T-
1 TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA
124792 TA -A TA TA TA
1 TA TA TA TA TA
124801 AACTATATAC
Statistics
Matches: 68, Mismatches: 8, Indels: 24
0.68 0.08 0.24
Matches are distributed among these distances:
1 8 0.12
2 55 0.81
3 5 0.07
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:124839 original size:15 final size:14
Alignment explanation
Indices: 124815--124919 Score: 72
Period size: 15 Copynumber: 7.1 Consensus size: 14
124805 ATATACTTTT
*
124815 TATAGCTTATACATA
1 TATAGTTTATA-ATA
124830 TATAGTTTAT-ATA
1 TATAGTTTATAATA
*
124843 CATAGTTTAT-ATA
1 TATAGTTTATAATA
124856 TATAGTTCATATAA-A
1 TATAGTT--TATAATA
* * *
124871 CATAATTTATATACA
1 TATAGTTTATA-ATA
124886 TATAGCTTATAATAATTA
1 TATAG-TT-T-ATAA-TA
124904 TATAGTTTATAATA
1 TATAGTTTATAATA
124918 TA
1 TA
124920 AACTTATATT
Statistics
Matches: 73, Mismatches: 8, Indels: 19
0.73 0.08 0.19
Matches are distributed among these distances:
13 25 0.34
14 5 0.07
15 26 0.36
16 4 0.05
17 4 0.05
18 9 0.12
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.45
Consensus pattern (14 bp):
TATAGTTTATAATA
Found at i:124847 original size:13 final size:13
Alignment explanation
Indices: 124831--124887 Score: 69
Period size: 13 Copynumber: 4.2 Consensus size: 13
124821 TTATACATAT
124831 ATAGTTTATATAC
1 ATAGTTTATATAC
*
124844 ATAGTTTATATAT
1 ATAGTTTATATAC
*
124857 ATAGTTCATATAAAC
1 ATAGTT--TATATAC
*
124872 ATAATTTATATAC
1 ATAGTTTATATAC
124885 ATA
1 ATA
124888 TAGCTTATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
13 27 0.73
15 10 0.27
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (13 bp):
ATAGTTTATATAC
Found at i:124852 original size:28 final size:27
Alignment explanation
Indices: 124816--124897 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
124806 TATACTTTTT
* *
124816 ATAGCTTATACATATATAGTTTATATAC
1 ATAGTTTATA-ATATATAGTTTATAAAC
124844 ATAGTTTAT-ATATATAGTTCATATAAAC
1 ATAGTTTATAATATATAGTT--TATAAAC
* * *
124872 ATAATTTATATACATATAGCTTATAA
1 ATAGTTTATA-ATATATAGTTTATAA
124898 TAATTATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
26 10 0.22
28 27 0.60
30 8 0.18
ACGTcount: A:0.43, C:0.09, G:0.06, T:0.43
Consensus pattern (27 bp):
ATAGTTTATAATATATAGTTTATAAAC
Found at i:124856 original size:26 final size:27
Alignment explanation
Indices: 124827--124883 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 27
124817 TAGCTTATAC
* *
124827 ATATATAGTT-TATATACATAGTTTAT
1 ATATATAGTTATATAAACATAATTTAT
124853 ATATATAGTTCATATAAACATAATTTAT
1 ATATATAGTT-ATATAAACATAATTTAT
124881 ATA
1 ATA
124884 CATATAGCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 10 0.37
28 17 0.63
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (27 bp):
ATATATAGTTATATAAACATAATTTAT
Found at i:124940 original size:13 final size:13
Alignment explanation
Indices: 124711--124949 Score: 59
Period size: 13 Copynumber: 18.8 Consensus size: 13
124701 TTCTATAAAC
124711 TATATATATATA-
1 TATATATATATAT
124723 TATATATATATAT
1 TATATATATATAT
124736 TACT-TATAT-TAGT
1 TA-TATATATATA-T
* *
124749 TATACATACATA-
1 TATATATATATAT
*
124761 TATATA-CTATAT
1 TATATATATATAT
*
124773 TA-ATATAAATAGT
1 TATATATATATA-T
124786 T-TATAT-TA-AT
1 TATATATATATAT
*
124796 ATATAAACTATATACT
1 -TATATA-TATATA-T
**
124812 T-T-T-TATAGCT
1 TATATATATATAT
*
124822 TATACATATATAGT
1 TATATATATATA-T
*
124836 T-TATATACATAGT
1 TATATATATATA-T
124849 T-TATATATATAGT
1 TATATATATATA-T
* *
124862 TCATATAAACATAATT
1 T-ATATATATAT-A-T
* *
124878 TATATACATATAGC
1 TATATATATATA-T
124892 T-TATA-ATA-AT
1 TATATATATATAT
* *
124902 TATATAGTTTATAA
1 TATATA-TATATAT
*
124916 TATAAACT-TATAT
1 TATATA-TATATAT
124929 TATATATATATA-
1 TATATATATATAT
124941 TATAT-TATA
1 TATATATATA
124950 ATTTTTTTTC
Statistics
Matches: 168, Mismatches: 32, Indels: 55
0.66 0.13 0.22
Matches are distributed among these distances:
10 4 0.02
11 22 0.13
12 38 0.23
13 66 0.39
14 17 0.10
15 17 0.10
16 4 0.02
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (13 bp):
TATATATATATAT
Found at i:132498 original size:29 final size:29
Alignment explanation
Indices: 132456--132531 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
132446 CTTTTAAAAA
* * ***
132456 AATTACCAAAATAGCACCCATTTCGAATT
1 AATTCCCAAAATAGCACCAAAACCGAATT
*
132485 AATTCCCAGAATAGCACCAAAACCGAATT
1 AATTCCCAAAATAGCACCAAAACCGAATT
*
132514 AATTCCCATAATAGCACC
1 AATTCCCAAAATAGCACC
132532 GGTCAATTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.42, C:0.28, G:0.08, T:0.22
Consensus pattern (29 bp):
AATTCCCAAAATAGCACCAAAACCGAATT
Found at i:132563 original size:18 final size:18
Alignment explanation
Indices: 132540--132585 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
132530 CCGGTCAATT
132540 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
132558 GTCAACGGGTCGGGTCGG
1 GTCAACGGGTCGGGTCGG
*
132576 GTAAACGGGT
1 GTCAACGGGT
132586 AAACGGGTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.20, G:0.48, T:0.17
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGG
Found at i:132622 original size:10 final size:10
Alignment explanation
Indices: 132598--132652 Score: 69
Period size: 9 Copynumber: 5.6 Consensus size: 10
132588 ACGGGTCGTG
132598 ACCGGTC-AA
1 ACCGGTCAAA
132607 ACCGGTCAAA
1 ACCGGTCAAA
*
132617 ATCGGTTCAAA
1 ACCGG-TCAAA
*
132628 ACCGGT-TAA
1 ACCGGTCAAA
132637 ACCGGTCAAA
1 ACCGGTCAAA
132647 ACCGGT
1 ACCGGT
132653 TTCCAGCGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
9 15 0.38
10 15 0.38
11 9 0.23
ACGTcount: A:0.35, C:0.27, G:0.22, T:0.16
Consensus pattern (10 bp):
ACCGGTCAAA
Found at i:132628 original size:11 final size:11
Alignment explanation
Indices: 132605--132653 Score: 61
Period size: 10 Copynumber: 4.8 Consensus size: 11
132595 GTGACCGGTC
132605 AAACCGG-TCA
1 AAACCGGTTCA
*
132615 AAATCGGTTCA
1 AAACCGGTTCA
132626 AAACCGGTT--
1 AAACCGGTTCA
132635 AAACCGG-TCA
1 AAACCGGTTCA
132645 AAACCGGTT
1 AAACCGGTT
132654 TCCAGCGTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.21
10 13 0.39
11 12 0.36
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.18
Consensus pattern (11 bp):
AAACCGGTTCA
Found at i:132653 original size:19 final size:19
Alignment explanation
Indices: 132598--132653 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
132588 ACGGGTCGTG
*
132598 ACCGGTC-AAACCGGTCAAA
1 ACCGGTCAAAACCGGT-TAA
*
132617 ATCGGTTCAAAACCGGTTAA
1 ACCGG-TCAAAACCGGTTAA
132637 ACCGGTCAAAACCGGTT
1 ACCGGTCAAAACCGGTT
132654 TCCAGCGTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 8 0.25
21 8 0.25
ACGTcount: A:0.34, C:0.27, G:0.21, T:0.18
Consensus pattern (19 bp):
ACCGGTCAAAACCGGTTAA
Found at i:134751 original size:25 final size:25
Alignment explanation
Indices: 134723--134770 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
134713 TTTTGACAAA
*
134723 TTTTAAAATATAACATATAATTTTT
1 TTTTAAAACATAACATATAATTTTT
*
134748 TTTTGAAACATAACATATAATTT
1 TTTTAAAACATAACATATAATTT
134771 GTTGATTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (25 bp):
TTTTAAAACATAACATATAATTTTT
Found at i:140831 original size:55 final size:55
Alignment explanation
Indices: 140760--140988 Score: 352
Period size: 55 Copynumber: 4.2 Consensus size: 55
140750 TACCAAATGA
*
140760 CACTATGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
140814 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGAG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
** * *
140869 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTGA
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
* * * *
140924 CACATTGCGTGCAAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGG
1 CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
*
140979 CACTATGTGT
1 CACTTTGTGT
140989 ACAACCCACG
Statistics
Matches: 157, Mismatches: 17, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
54 11 0.07
55 146 0.93
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (55 bp):
CACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGG
Found at i:140936 original size:110 final size:109
Alignment explanation
Indices: 140756--141020 Score: 363
Period size: 110 Copynumber: 2.4 Consensus size: 109
140746 TGATTACCAA
* *
140756 ATGA-CACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 ATGAGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACATT
*
140820 GTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
66 GCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* ** *
140864 ATGAGCACTTTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATTGACACAT
1 ATGAGCACTATGTGTGC-AAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACAT
*
140929 TGCGTGCAAATCTAAGAAATTCATAATAAGTTTATGAATTTCCGT
65 TGCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
* * * * * * *
140974 AT-AGGCACTATGTGTACAACCCACGAAATTCATCATATGTTGATGAA
1 ATGA-GCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAA
141021 CGACCGTATA
Statistics
Matches: 138, Mismatches: 16, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
108 4 0.03
109 36 0.26
110 98 0.71
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (109 bp):
ATGAGCACTATGTGTGCAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGACACATT
GCGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGT
Found at i:141112 original size:45 final size:45
Alignment explanation
Indices: 141057--141265 Score: 310
Period size: 45 Copynumber: 4.6 Consensus size: 45
141047 CCCCTTTTCC
* *
141057 ATGCATAACGGTGCATTATAGGCATGAAAGGGTGCCATAAATGAA
1 ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAA
* *
141102 ATACATAACGGTGTATTATCGGCATGAAAGGATGCCATAAATGAA
1 ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAA
141147 ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAA
1 ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAA
* * *
141192 ATGCATAACGGTGCATTATCGACATGAAAGTATGCCATAAATAAAA
1 ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAAT-GAA
** **
141238 ATGCATAATAGTGCATTATAAGCATGAA
1 ATGCATAACGGTGCATTATCGGCATGAA
141266 TAGATGCATT
Statistics
Matches: 149, Mismatches: 14, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
45 124 0.83
46 25 0.17
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.24
Consensus pattern (45 bp):
ATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAA
Found at i:142452 original size:41 final size:41
Alignment explanation
Indices: 142395--142478 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
142385 CATTCCACCT
142395 TGCTCGATGATTACAACACTTAACGAAGCATCTCAAGAATA
1 TGCTCGATGATTACAACACTTAACGAAGCATCTCAAGAATA
142436 TGCTCGATGATTACAACACTTAACGAAGCATCTCAAGAATA
1 TGCTCGATGATTACAACACTTAACGAAGCATCTCAAGAATA
142477 TG
1 TG
142479 TTCGTTACAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
TGCTCGATGATTACAACACTTAACGAAGCATCTCAAGAATA
Found at i:147312 original size:50 final size:51
Alignment explanation
Indices: 147189--147316 Score: 168
Period size: 51 Copynumber: 2.5 Consensus size: 51
147179 TTAGCAGTAA
* * **
147189 AGCGCGCCCCCTACACCGCGCTATACGATGATTTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACTGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
*
147240 AGCGCGCCCCCTGCACTGCGCTATACGGTGAGCTGGCGCCACGT-GGGTAT
1 AGCGCGCCCCCTGCACTGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
* * * *
147290 AGTGCGGCCCTTGCAGTGCGCTATACG
1 AGCGCGCCCCCTGCACTGCGCTATACG
147317 CCATGCAGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 29 0.43
51 39 0.57
ACGTcount: A:0.16, C:0.33, G:0.32, T:0.20
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACTGCGCTATACGATGAGCTGGCGCCACGTGGGGTAT
Found at i:147406 original size:49 final size:51
Alignment explanation
Indices: 147353--147449 Score: 162
Period size: 51 Copynumber: 1.9 Consensus size: 51
147343 GTACCACGCT
*
147353 ATACCTTTACTCCT-A-ATAATTTTATATAGCGCGGGGCAGGTACCGCAAC
1 ATACCTTTACTCCTGACATAATTTTATATAACGCGGGGCAGGTACCGCAAC
*
147402 ATACCTTTACTCCTGACATAATTTTATATAATGCGGGGCAGGTACCGC
1 ATACCTTTACTCCTGACATAATTTTATATAACGCGGGGCAGGTACCGC
147450 GTTTTGTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 14 0.32
50 1 0.02
51 29 0.66
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (51 bp):
ATACCTTTACTCCTGACATAATTTTATATAACGCGGGGCAGGTACCGCAAC
Found at i:153230 original size:107 final size:111
Alignment explanation
Indices: 153052--153257 Score: 339
Period size: 107 Copynumber: 1.9 Consensus size: 111
153042 ATTCTTAATC
*
153052 TAATAATCATGCATTAAATGAATAAAAATAATTATTAATAATAATTTAAATTAAATTAAAATGTT
1 TAATAATCATGCATTAAATGAATAAAAATAATTATTAATAATAATTTAAATTAAATTAAAACGTT
*
153117 AAAATGTTACCGTATCAGCAAAGTGTCGAGATATTTAATTATTATA
66 AAAATGTTACCGTATCAGCAAAGTGTAGAGATATTTAATTATTATA
* * *
153163 TAATAATCATGCATT-AAT-AA-ATAACTAA-TATTACTAATAATTTAAATTAAATTAAAACGTT
1 TAATAATCATGCATTAAATGAATAAAAATAATTATTAATAATAATTTAAATTAAATTAAAACGTT
153224 AAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
153258 ATGATTTCCA
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
107 64 0.71
108 6 0.07
109 2 0.02
110 3 0.03
111 15 0.17
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (111 bp):
TAATAATCATGCATTAAATGAATAAAAATAATTATTAATAATAATTTAAATTAAATTAAAACGTT
AAAATGTTACCGTATCAGCAAAGTGTAGAGATATTTAATTATTATA
Found at i:153387 original size:12 final size:10
Alignment explanation
Indices: 153373--153413 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
153363 TACCTTAAAA
*
153373 GAGAGTATTT
1 GAGAGAATTT
153383 GAGAGAAATTT
1 GAGAG-AATTT
153394 -AGAGAATTT
1 GAGAGAATTT
153403 GAGAGAATTT
1 GAGAGAATTT
153413 G
1 G
153414 GTATGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:153615 original size:51 final size:50
Alignment explanation
Indices: 153524--153650 Score: 173
Period size: 51 Copynumber: 2.5 Consensus size: 50
153514 AGATATACAG
* * * **
153524 GTATAGCGCGCTGCAGGGGCCGTGCTATACCCACGTGGCGCCAGCTCACC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* *
153574 GTATAGCGCGGTGCAGGGGGCGCGTTATACCCCACGTGGCGCCAAATCATC
1 GTATAGCGCGGTGCAGGGGGCGCGCTATA-CCCACGTGGCGCCAAATCACC
*
153625 GTATAGAGCGGTGCAGGGGGCGCGCT
1 GTATAGCGCGGTGCAGGGGGCGCGCT
153651 TTATTGCTAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
50 25 0.37
51 42 0.63
ACGTcount: A:0.17, C:0.30, G:0.36, T:0.17
Consensus pattern (50 bp):
GTATAGCGCGGTGCAGGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:157459 original size:87 final size:87
Alignment explanation
Indices: 157313--157475 Score: 274
Period size: 87 Copynumber: 1.9 Consensus size: 87
157303 TATGTTATAT
*
157313 CATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAGCACTTATATAATGTAATAGGT
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGATAGCACTTATATAATGTAATAGGT
* *
157378 AGCGCTTATATAATAAAAAAGG
66 AACACTTATATAATAAAAAAGG
*
157400 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGGTAGCGA-TTATATAATGTAATAGG
1 CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGATAGC-ACTTATATAATGTAATAGG
157464 TAACACTTATAT
65 TAACACTTATAT
157476 TGACCTGTTT
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
87 70 0.99
88 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (87 bp):
CATTTAACCAGAAATATTATCAAGTACAATAACATATTAGATAGCACTTATATAATGTAATAGGT
AACACTTATATAATAAAAAAGG
Found at i:157905 original size:200 final size:198
Alignment explanation
Indices: 157470--157999 Score: 692
Period size: 200 Copynumber: 2.7 Consensus size: 198
157460 TAGGTAACAC
* *
157470 TTATATTGACCTGTTTTCTTAGT-AAACTGGTATATTTATA-CCAGTAACATTGCAAATTTACCT
1 TTATATTGACCTGTTTTCTTA-TAAAACTGGTATATTTATATCAAGT-ACATTGTAAATTTACCT
* * * *
157533 ATTACATTATAATTATCGGTTTCGATGTTTTTTGGATCGATGCAATTT--TAAATGTATTGACAC
64 ATTACATTATAATTATCGGTTTCGATG-TTTTGGGATCGATAC-TTTTAATAAATGTATCGACAC
* * *
157596 TTTATGCATGCACCTCGTTGGGCATTCATTCTGGAAAAAAGTATCGACACAAACTTAAAAAGTGT
127 TTTATGCATGCACCCCGTTGGGCATTCATTATGGAAAAAAATATCGACACAAACTTAAAAAGTGT
157661 CGATACA
192 CGATACA
* * * *** *
157668 TTAT-TTAGACATGTTTTCTCATAAAACTGATATATTTATATTGGGTACATTGTAAATTTATCTA
1 TTATATT-GACCTGTTTTCTTATAAAACTGGTATATTTATATCAAGTACATTGTAAATTTACCTA
* * *
157732 TCACATTGTAATTATCGGTTTCGATATTTGTGGGATCGATACTTTTAATAAATGTATCGACACTT
65 TTACATTATAATTATCGGTTTCGATGTTT-TGGGATCGATACTTTTAATAAATGTATCGACACTT
* * * *
157797 TATGCGTGCACCCCGTTTGGCATTCATTATGGACAAAAAATATCGACACAAATTTAAATAGTGTC
129 TATGCATGCACCCCGTTGGGCATTCATTATGGA-AAAAAATATCGACACAAACTTAAAAAGTGTC
*
157862 GATACT
193 GATACA
* * * *
157868 TTATACTGACCTATTTTCTTATAAAACCGGTATATTTATATCAATTACATTGTAAATTTACCTAT
1 TTATATTGACCTGTTTTCTTATAAAACTGGTATATTTATATCAAGTACATTGTAAATTTACCTAT
*
157933 TACATTATAATTATCGGCTTCGATGTTATTGGGATCGATACTTTTAATAAATGTATCGACACTTT
66 TACATTATAATTATCGGTTTCGATGTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTT
157998 AT
130 AT
158000 ATTCTGGACA
Statistics
Matches: 285, Mismatches: 38, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
197 9 0.03
198 81 0.28
199 47 0.16
200 146 0.51
201 2 0.01
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (198 bp):
TTATATTGACCTGTTTTCTTATAAAACTGGTATATTTATATCAAGTACATTGTAAATTTACCTAT
TACATTATAATTATCGGTTTCGATGTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTA
TGCATGCACCCCGTTGGGCATTCATTATGGAAAAAAATATCGACACAAACTTAAAAAGTGTCGAT
ACA
Found at i:158123 original size:177 final size:178
Alignment explanation
Indices: 157826--158170 Score: 460
Period size: 177 Copynumber: 1.9 Consensus size: 178
157816 GCATTCATTA
* * * * *
157826 TGGACAAAAAATATCGACACAAATTTAAATAGTGTCGATACTTTATACTGACCTATTTTCTTATA
1 TGGACAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATACTGACATATTTTCTAATA
*
157891 AAACCGGTATATTTATATCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGCTTCGA
66 AAACCGGTATATTTATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGCTTCGA
*
157956 TGTTATTGGGATCGATACTTTTA-ATAAATGTATCGACACTTTATATTC
131 TATTATTGGGATCGATACTTTTAGA-AAATGTATCGACACTTTATATTC
* * ** *
158004 TGGACAATAAGTATCGACACAAATTCAAAAAGTGTCGATACATTATGTTGACATGTTTTCTAAT-
1 TGGACAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATACTGACATATTTTCTAATA
* * ** * * * *
158068 TAACCTGTATATTTATACCGGTTACATTGTTAATTTACCTATTACATTATAATTATTGGTTTTGA
66 AAACCGGTATATTTATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGCTTCGA
* * *
158133 TATTTTTGGGGTCGATGCTTTTAGAAAATGTATCGACA
131 TATTATTGGGATCGATACTTTTAGAAAATGTATCGACA
158171 GCTATTTAGC
Statistics
Matches: 143, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
177 88 0.62
178 55 0.38
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.40
Consensus pattern (178 bp):
TGGACAAAAAATATCGACACAAATTCAAAAAGTGTCGATACATTATACTGACATATTTTCTAATA
AAACCGGTATATTTATACCAATTACATTGTAAATTTACCTATTACATTATAATTATCGGCTTCGA
TATTATTGGGATCGATACTTTTAGAAAATGTATCGACACTTTATATTC
Found at i:159645 original size:38 final size:38
Alignment explanation
Indices: 159594--159672 Score: 140
Period size: 38 Copynumber: 2.1 Consensus size: 38
159584 TCCAACCAAA
* *
159594 ACTATTTCAACATTAAAGATTAAAATAATTCTTTTAGT
1 ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
159632 ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
1 ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
159670 ACT
1 ACT
159673 TTGAACACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (38 bp):
ACTATTTCAACATTAAAGATTAAAATAATTATTTAAGT
Found at i:161845 original size:34 final size:35
Alignment explanation
Indices: 161801--161870 Score: 106
Period size: 34 Copynumber: 2.0 Consensus size: 35
161791 CAAGAGAATC
**
161801 TCTCCATATTTATTACTTGC-AAAAAAGTTCAGGA
1 TCTCCATATTTATTACTAACAAAAAAAGTTCAGGA
*
161835 TCTCTATATTTATTACTAACAAAAAAAGTTCAGGA
1 TCTCCATATTTATTACTAACAAAAAAAGTTCAGGA
161870 T
1 T
161871 AGGAAATTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 17 0.53
35 15 0.47
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (35 bp):
TCTCCATATTTATTACTAACAAAAAAAGTTCAGGA
Found at i:163887 original size:20 final size:20
Alignment explanation
Indices: 163858--163912 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
163848 AGTAATCCTA
163858 TTCC-CTGGTAATCTTTTAT
1 TTCCACTGGTAATCTTTTAT
163877 TTCCACTGGTAATCTTTTAT
1 TTCCACTGGTAATCTTTTAT
163897 TTCCACTGGTAATCTT
1 TTCCACTGGTAATCTT
163913 ACATTCCGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.11
20 31 0.89
ACGTcount: A:0.18, C:0.22, G:0.11, T:0.49
Consensus pattern (20 bp):
TTCCACTGGTAATCTTTTAT
Found at i:165952 original size:637 final size:642
Alignment explanation
Indices: 165059--166717 Score: 2129
Period size: 637 Copynumber: 2.6 Consensus size: 642
165049 ACTAATCATA
* * * *
165059 AAGACAACATCTCTATAATTATTGCTTATAGAAAAGAAAGTTTTAAATAGGATATTACAAAGAAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTTCAAATAGGATATTACAAAGAAA
* * *
165124 AAATATTATTTTGGTGCTCGGAACACCGACTT-CCTATTTATTGAAAATCATTTGGCCACCATCA
66 AAATATTATTTTGGTGCTCGGAACACC-AATTCCCTATCTACTGAAAATCATTTGGCCACCATCA
165188 TTTGTGGAGAGATGTGAAATTGGAG-T-T--A--TAAGAATAGAGAATGAATCAAAAAGTAGGAA
130 TTTGTGGAGAGATGTGAAATTGGAGTTATAAATTTAAGAATAGAGAATGAATCAAAAAGTAGGAA
* * * * *
165247 GTTGCATATTCATTCAACCAAACAACCTCCAGATG-TCTTGCACAACACAAATAGATTGCACTAG
195 GTTGCATATTCATTCAACCAAACAACCCCCAGATGTTC-GGCACAACACAAATAGGTTGTACCAG
* * * * *
165311 GAAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCATCTTCCCCTCTATTCA
259 GAAAACATCGAGGTTGAAACCAATTATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCA
* * * * * *
165376 AGAAAAAAACTCTATACATAATACTTATAGAAAAGAAAGTTCCAAATAGGAATTTTACAAAG-AA
324 AGAGAACATCTCTATACTTATTACTTATAGAAAAGAAAGTTCCAAATAGG-ATATTACAAAGAAA
* * * * * * * *
165440 AAAA-ATATTATTTTATTGCTCGGAACATCGATTCCCTATCTGTTGAAAATTATTTGGCCATAAT
388 AAAATATATTATTTTAGTGCTCGAAACACCGATT--CGATATGCTGAAAATCATTTGGCCATAAC
* *
165504 CATTTGCGGAGAGATGTGAAATTGGAGTTAT-AATAAT-AG-AT-AATGAATTAGAAAGTAGGAA
451 CATTTGCGAAGAGATATGAAATTGGAGTTATAAATAATAAGAATAAATGAATTAGAAAGTAGGAA
* * * * *
165565 GTTGTATATTCATTTAGCCAAATAAGCCCAAATGTTCGA-CACAACATAAATAGG-TCGCACCAG
516 GTTGTATATTCATTCAGCCAAACAACCCCAAATGTT-GAGCACAACACAAATAGGCT-GCACCAA
* **
165628 GAAAACATCAAGTTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTATATTC
579 AAAAACATCAAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTATATTC
165692 AAGAGAACATCTCTATACTTATTTCTTATAGAAAA-AAAGTTTCAAATAGGATATTAC-AA-AAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTTCAAATAGGATATTACAAAGAAA
* ***
165754 AAATATTATTTTGGTGCTCGGAACACCAATTCCCTATCTACTGAAAGTCATTTGGCCATTGTCAT
66 AAATATTATTTTGGTGCTCGGAACACCAATTCCCTATCTACTGAAAATCATTTGGCCACCATCAT
* *
165819 TTGTGAAGAGATGTGAAATTGGAGTTATAAATTTTAAGAATAGAGAATGAATTAAAAAGTAGGAA
131 TTGTGGAGAGATGTGAAATTGGAGTTATAAA-TTTAAGAATAGAGAATGAATCAAAAAGTAGGAA
* * **
165884 ATTGTATATTCATTCAACCAAACAACCCCCAGATGTTCGGCACATTACAAATAGGTTGTACCAGG
195 GTTGCATATTCATTCAACCAAACAACCCCCAGATGTTCGGCACAACACAAATAGGTTGTACCAGG
* * * *
165949 AAAATATCAAGTTTGAAACCAATTATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTTAA
260 AAAACATCGAGGTTGAAACCAATTATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAA
* * * *
166014 GAGAACATCTTTATACTTATTTCTTATAGAAAAAAAAGTTTCAAATAGGATATTACAAAGAAAAA
325 GAGAACATCTCTATACTTATTACTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAAAA
* * *
166079 AATATATTATTTTGGTGCTCGAAACACCGATTGGATATGCTGAAAATCATTTGGCCATTACCATT
390 AATATATTATTTTAGTGCTCGAAACACCGATTCGATATGCTGAAAATCATTTGGCCATAACCATT
* *
166144 TGTGAAGAGATATGAAATTGGAGTTATAAATTATAAGAATAAAGAATGAATTAGAAAGTAGGAAG
455 TGCGAAGAGATATGAAATTGGAGTTATAAATAATAAGAAT--A-AATGAATTAGAAAGTAGGAAG
* *
166209 TTGTATATTCATTCAGCCAAACAACCCCAGATGTTTAGCACAACACAAATAGGCTGCACCAAAAA
517 TTGTATATTCATTCAGCCAAACAACCCCAAATGTTGAGCACAACACAAATAGGCTGCACCAAAAA
* * * * *
166274 AACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCCCCTTTCTTTCTATTC
582 AACATCAAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTATATTC
* * *
166335 AATAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGAATATTACAAAGAAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTTCAAATAGGATATTACAAAGAAA
* * *
166400 AAATATTATTTTGGTGCTCAGG-ACA-TAGATTCCCTATCTGCTAAAAAATCATTTGGCCACCAT
66 AAATATTATTTTGGTGCTC-GGAACACCA-ATTCCCTATCTACT-GAAAATCATTTGGCCACCAT
** * * * * * *
166463 CAAATGTGGAGAGATATGAAATTTGAGTTATAACTTATAATACTAGAGAATGAATCAGAAAGTAG
128 CATTTGTGGAGAGATGTGAAATTGGAGTTATAAATT-TAAGAATAGAGAATGAATCAAAAAGTAG
* * * * *
166528 GAAGTTGCATATTCATTCAGCCAAACAACCCTCAGATGTTCGGCACAGCAGAAATAGGCTGGCTA
192 GAAGTTGCATATTCATTCAACCAAACAACCCCCAGATGTTCGGCACAACACAAATAGG-TTG-T-
* * * * *
166593 CACCAAGAAAACATCGAGGTTGAAACTATTTATAATTACCTCCTATATTTCATCACCTTCATCTC
254 -ACCAGGAAAACATCGAGGTTGAAACCAATTATAATTACCTCCTATACTTCATCACCTTCCTCTC
*
166658 TATTCAAGAGAACATCTCTATACTTATTGCTTATAGAAAAGAAAGTTCCAAATA-GATATT
318 TATTCAAGAGAACATCTCTATACTTATTACTTATAGAAAAGAAAGTTCCAAATAGGATATT
166718 CTCAGTTAAA
Statistics
Matches: 883, Mismatches: 112, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
629 3 0.00
630 80 0.09
631 3 0.00
632 22 0.02
633 32 0.04
634 1 0.00
636 60 0.07
637 190 0.22
638 29 0.03
639 2 0.00
642 1 0.00
643 162 0.18
644 21 0.02
645 3 0.00
646 40 0.05
647 120 0.14
648 2 0.00
649 1 0.00
650 6 0.01
651 105 0.12
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (642 bp):
AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTTCAAATAGGATATTACAAAGAAA
AAATATTATTTTGGTGCTCGGAACACCAATTCCCTATCTACTGAAAATCATTTGGCCACCATCAT
TTGTGGAGAGATGTGAAATTGGAGTTATAAATTTAAGAATAGAGAATGAATCAAAAAGTAGGAAG
TTGCATATTCATTCAACCAAACAACCCCCAGATGTTCGGCACAACACAAATAGGTTGTACCAGGA
AAACATCGAGGTTGAAACCAATTATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTCAAG
AGAACATCTCTATACTTATTACTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAAAAA
ATATATTATTTTAGTGCTCGAAACACCGATTCGATATGCTGAAAATCATTTGGCCATAACCATTT
GCGAAGAGATATGAAATTGGAGTTATAAATAATAAGAATAAATGAATTAGAAAGTAGGAAGTTGT
ATATTCATTCAGCCAAACAACCCCAAATGTTGAGCACAACACAAATAGGCTGCACCAAAAAAACA
TCAAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTATATTC
Found at i:166450 original size:323 final size:322
Alignment explanation
Indices: 165059--166717 Score: 2007
Period size: 323 Copynumber: 5.2 Consensus size: 322
165049 ACTAATCATA
* * * **
165059 AAGACAACATCTCTATAATTATTGCTTATAGAAAAGAAAGTTTTAAATAGGATATTACAAAGAAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAA
* ** *
165124 AAATATTATTTTGGTGCTCGGAACACCGACTT-CCTATTTATTGAAAATCATTTGGCCACCATCA
66 AAATATTATTTTGGTGCTCGGAACACCGA-TTCCCTATCTGCTGAAAATCATTTGGCCATCATCA
* *
165188 TTTGTGGAGAGATGTGAAATTGGAG-------TTATAAGAATAGAGAATGAATCAAAAAGTAGGA
130 TTTGTGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGA
* * ** *
165246 AGTTGCATATTCATTCAACCAAACAACCTCCAGATGTCTT-GCACAACACAAATAGATTGCACTA
195 AGTTGTATATTCATTCAGCCAAACAACC-CCAGATGT-TTGGCACAACACAAATAGGCTGCACCA
* * *
165310 GGAAAACATCGAGGATGAAACCAGTCATAATTACCTCCTATACTTCATCATCTTCCCCTCTATTC
258 GGAAAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTC
* * * * * * *
165375 AAGAAAAAAACTCTATACATAATACTTATAGAAAAGAAAGTTCCAAATAGGAATTTTACAAAGAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGG-ATATTACAAAG-A
** * * * *
165440 AAAAATATTATTTTATTGCTCGGAACATCGATTCCCTATCTGTTGAAAATTATTTGGCCATAATC
64 AAAAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATC
* *
165505 ATTTGCGGAGAGATGTGAAATTGGAGTTAT--A--AT---AATAGATAATGAATTAGAAAGTAGG
129 ATTTGTGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGG
* * * * * * *
165563 AAGTTGTATATTCATTTAGCCAAATAAGCCCAAATGTTCGACACAACATAAATAGG-TCGCACCA
194 AAGTTGTATATTCATTCAGCCAAACAACCCCAGATGTTTGGCACAACACAAATAGGCT-GCACCA
* * *
165627 GGAAAACATCAAGTTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTATATTC
258 GGAAAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTC
*
165692 AAGAGAACATCTCTATACTTATTTCTTATAGAAAA-AAAGTTTCAAATAGGATATTAC-AA-AAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAA
* * * **
165754 AAATATTATTTTGGTGCTCGGAACACCAATTCCCTATCTACTGAAAGTCATTTGGCCATTGTCAT
66 AAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCAT
* * *
165819 TTGTGAAGAGATGTGAAATTGGAGTTATAAATTTTAAGAATAGAGAATGAATTAAAAAGTAGGAA
131 TTGTGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAA
* * * ** * *
165884 ATTGTATATTCATTCAACCAAACAACCCCCAGATGTTCGGCACATTACAAATAGGTTGTACCAGG
196 GTTGTATATTCATTCAGCCAAACAA-CCCCAGATGTTTGGCACAACACAAATAGGCTGCACCAGG
* * * * * *
165949 AAAATATCAAGTTTGAAACCAATTATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTT
260 AAAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTC
* * *
166012 AAGAGAACATCTTTATACTTATTTCTTATAGAAAAAAAAGTTTCAAATAGGATATTACAAAGAAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAG--A
* ** * * *
166077 AAAATATATTATTTTGGTGCTCGAAACACCGATT--GGATATGCTGAAAATCATTTGGCCATTAC
64 AAAA-ATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCAT
* * *
166140 CATTTGTGAAGAGATATGAAATTGGAGTTATAAATTATAAGAATAAAGAATGAATTAGAAAGTAG
128 CATTTGTGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAG
*
166205 GAAGTTGTATATTCATTCAGCCAAACAACCCCAGATGTTTAGCACAACACAAATAGGCTGCACCA
193 GAAGTTGTATATTCATTCAGCCAAACAACCCCAGATGTTTGGCACAACACAAATAGGCTGCACCA
** * * * *
166270 AAAAAACATCGAGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCCCCTTTCTTTCTATTC
258 GGAAAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTC
* *
166335 AATAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGAATATTACAAAGAAA
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAA
** * *
166400 AAATATTATTTTGGTGCTCAGG-ACATAGATTCCCTATCTGCTAAAAAATCATTTGGCCACCATC
66 AAATATTATTTTGGTGCTC-GGAACACCGATTCCCTATCTGCT-GAAAATCATTTGGCCATCATC
** * * * * * *
166464 AAATGTGGAGAGATATGAAATTTGAGTTATAACTTATAATACTAGAGAATGAATCAGAAAGTAGG
129 ATTTGTGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGG
* * * *
166529 AAGTTGCATATTCATTCAGCCAAACAACCCTCAGATGTTCGGCACAGCAGAAATAGGCTGGCTAC
194 AAGTTGTATATTCATTCAGCCAAACAACCC-CAGATGTTTGGCACAACACAAATAGGCT-G---C
* * * * * *
166594 ACCAAGAAAACATCGAGGTTGAAACTATTTATAATTACCTCCTATATTTCATCACCTTCATCTCT
254 ACCAGGAAAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCT
166659 ATTC
319 ATTC
*
166663 AAGAGAACATCTCTATACTTATTGCTTATAGAAAAGAAAGTTCCAAATA-GATATT
1 AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATT
166718 CTCAGTTAAA
Statistics
Matches: 1155, Mismatches: 154, Indels: 57
0.85 0.11 0.04
Matches are distributed among these distances:
312 84 0.07
314 3 0.00
315 6 0.01
316 59 0.05
317 125 0.11
318 126 0.11
319 46 0.04
320 146 0.13
321 31 0.03
322 8 0.01
323 243 0.21
324 133 0.12
325 6 0.01
326 27 0.02
327 5 0.00
328 107 0.09
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (322 bp):
AAGAGAACATCTCTATACTTATTTCTTATAGAAAAGAAAGTTCCAAATAGGATATTACAAAGAAA
AAATATTATTTTGGTGCTCGGAACACCGATTCCCTATCTGCTGAAAATCATTTGGCCATCATCAT
TTGTGGAGAGATGTGAAATTGGAGTTATAAATTATAAGAATAGAGAATGAATTAGAAAGTAGGAA
GTTGTATATTCATTCAGCCAAACAACCCCAGATGTTTGGCACAACACAAATAGGCTGCACCAGGA
AAACATCGAGGTTGAAACCAGTCATAATTACCTCCTATACTTCATCACCTTCCTCTCTATTC
Found at i:167970 original size:27 final size:26
Alignment explanation
Indices: 167919--167971 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
167909 TAGGTTTCAC
*
167919 AATGCTTTTGAAAAGTACTATAAGAA
1 AATGCTTTTGAAAAGTACTAAAAGAA
*
167945 AATGTCTTTT-AAAAGTTCTTAAAAGAA
1 AATG-CTTTTGAAAAGTAC-TAAAAGAA
167972 GTTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (26 bp):
AATGCTTTTGAAAAGTACTAAAAGAA
Found at i:171151 original size:23 final size:23
Alignment explanation
Indices: 171119--171170 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
171109 AATAGGCTGC
*
171119 ACCAGAAAAACATCGAGGCTGAA
1 ACCAGTAAAACATCGAGGCTGAA
*
171142 ACCAGTAAAACATCGCGGCTGAA
1 ACCAGTAAAACATCGAGGCTGAA
171165 ACCAGT
1 ACCAGT
171171 CATAATTACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.25, G:0.21, T:0.12
Consensus pattern (23 bp):
ACCAGTAAAACATCGAGGCTGAA
Found at i:171478 original size:347 final size:347
Alignment explanation
Indices: 170795--171494 Score: 962
Period size: 347 Copynumber: 2.0 Consensus size: 347
170785 AATAGGCTGC
*
170795 ACCAGGAAAACATCGAGGATGAAAACAATCATAATTACCTCCTATACTTCATCACCTTCATCTCT
1 ACCAGTAAAACATCGAGGATGAAAACAATCATAATTACCTCCTATACTTCATCACCTTCATCTCT
* * * *
170860 ATTCAAGAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAGTTTCAAATAGGATATTACAAA
66 ATTCAAGAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAATTCCAAATAGAAAATTACAAA
* * * *
170925 GAAAAAAATATTATTTTGGTGCTCGGAACACCGATTTCCTATCTGCTGAAAATCATTTGACCATT
131 GAAAAAAATATTATTTTGGTGCTCGGAACACAGATTCCCTATATGCTGAAAATCATTTGACCACT
* * * * * *
170990 GTCATTTGTGAAGAGATGTGAAATTTGAGTTATAAATTATAATAATAGATAATGAATAAGAAAGT
196 GTCATTTGTGAAGAGATATGAAATTGGAGTTATAAATTATAAGAATAGAGAATAAATAAGAAAGC
* * * *
171055 AGGAAGTTGTAAATTCATTCAGCCAAACAATCCCCAGATGTTCGGTATAACACAAATAGGCTGCA
261 AGGAAGTTGTAAATTCATTCAGCCAAACAATCCCCAGATGTTCGGCACAACAAAAACAGGCTGCA
171120 CCAGAAAAACATCGAGGCTGAA
326 CCAGAAAAACATCGAGGCTGAA
* * * * * * *
171142 ACCAGTAAAACATCGCGGCTGAAACCAGTCATAATTACCTCCTATACTTCATCCCCTTCTTTTCT
1 ACCAGTAAAACATCGAGGATGAAAACAATCATAATTACCTCCTATACTTCATCACCTTCATCTCT
* * *
171207 ATTCAAGAGAATATCTCTATACTTATTGCTTATAGAAAAGAAAATTCCAAATAGAAAATTAC-AA
66 ATTCAAGAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAATTCCAAATAGAAAATTACAAA
* *
171271 -AAAAAAA-ATTATTTTGGTGCTCAGG-ACATAGATTCCCTATATGCTGAAAATCATTTGGCCAC
131 GAAAAAAATATTATTTTGGTGCTC-GGAACACAGATTCCCTATATGCTGAAAATCATTTGACCAC
* * * * *
171333 TGTCATTTGTGGAGAGATATGAAATTGGAGTTATAACTTATAAGAATATAGAATAAATCAGAATG
195 TGTCATTTGTGAAGAGATATGAAATTGGAGTTATAAATTATAAGAATAGAGAATAAATAAGAAAG
* *
171398 CAGGAAGTTGTAAATTCATTCAGCCAAACAA-CCTCAGATGTTCGGCACAGCAAAAACAGGCTAG
260 CAGGAAGTTGTAAATTCATTCAGCCAAACAATCCCCAGATGTTCGGCACAACAAAAACAGGCT-G
171462 CTACACCA-AGAAAACATCGAGGCTGAA
324 ---CACCAGA-AAAACATCGAGGCTGAA
171489 ACCAGT
1 ACCAGT
171495 CATAATTACC
Statistics
Matches: 309, Mismatches: 38, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
343 25 0.08
344 132 0.43
345 9 0.03
346 3 0.01
347 140 0.45
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (347 bp):
ACCAGTAAAACATCGAGGATGAAAACAATCATAATTACCTCCTATACTTCATCACCTTCATCTCT
ATTCAAGAAAAAATCTCTATACTTATTACTTATAGAAAAGAAAATTCCAAATAGAAAATTACAAA
GAAAAAAATATTATTTTGGTGCTCGGAACACAGATTCCCTATATGCTGAAAATCATTTGACCACT
GTCATTTGTGAAGAGATATGAAATTGGAGTTATAAATTATAAGAATAGAGAATAAATAAGAAAGC
AGGAAGTTGTAAATTCATTCAGCCAAACAATCCCCAGATGTTCGGCACAACAAAAACAGGCTGCA
CCAGAAAAACATCGAGGCTGAA
Done.