Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008476.1 Hibiscus syriacus cultivar Beakdansim tig00111305_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: 170783
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
Found at i:963 original size:14 final size:14
Alignment explanation
Indices: 944--1000 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
934 GCGAAATGAA
*
944 AATCGCAACGACAG
1 AATCGCAACGAAAG
958 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
975 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
991 AATCGCAACG
1 AATCGCAACG
1001 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:971 original size:33 final size:33
Alignment explanation
Indices: 925--1017 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
915 GCGAAACCAA
*
925 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
958 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
991 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
1018 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:982 original size:19 final size:19
Alignment explanation
Indices: 888--1022 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
878 TAGTTTACTT
* *
888 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
908 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
927 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
946 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
960 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
979 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
993 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
1012 TCGCAATGCGA
1 TCGCAACGCGA
1023 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:1040 original size:19 final size:19
Alignment explanation
Indices: 1018--1142 Score: 89
Period size: 19 Copynumber: 7.3 Consensus size: 19
1008 AAAATCGCAA
1018 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1037 TGCGA-TCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
1050 TGCGA-TTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
1068 TGCGA--TT--CTT--CG-
1 TGCGATTTTGGTTTCGCGT
**
1080 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
1099 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
1118 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
1138 TGCGA
1 TGCGA
1143 AAGTAAACTA
Statistics
Matches: 85, Mismatches: 8, Indels: 25
0.72 0.07 0.21
Matches are distributed among these distances:
12 5 0.06
13 12 0.14
14 3 0.04
15 3 0.04
16 3 0.04
17 3 0.04
18 12 0.14
19 31 0.36
20 13 0.15
ACGTcount: A:0.09, C:0.18, G:0.29, T:0.45
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:1105 original size:31 final size:33
Alignment explanation
Indices: 1018--1105 Score: 130
Period size: 31 Copynumber: 2.8 Consensus size: 33
1008 AAAATCGCAA
1018 TGCGATTTTGGTTTCGCGTTGCGA-TCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1050 TGCGA-TTTGGTTTCGCGTTGCGATTCT-TCG-
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
1080 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
1106 TTGGTTTCGC
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
30 5 0.10
31 39 0.75
32 8 0.15
ACGTcount: A:0.08, C:0.19, G:0.28, T:0.44
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:1487 original size:180 final size:181
Alignment explanation
Indices: 1186--1557 Score: 669
Period size: 180 Copynumber: 2.0 Consensus size: 181
1176 TTGAATGGAT
*
1186 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTTTCACAGTGTTAAAGAATACACAG
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAATTTCACAGTGTTAAAGAATACACAG
*
1251 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAGCAAAAGACAAAACAAAGACAAATAC
66 TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCACCAAAAGACAAAACAAAGACAAATAC
1316 -TTTCACAGTGTTAAAGAAT-ACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ATTTCACAGTGTTAAAGAATAACAGTTTAGCAGAATTGGCAGCAACCGAAC
1365 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-ATTTCACAGTGTTAAAGAATACACA
1430 GTTTAGCAGAATTGGCAGCAA-CGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
65 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTC-ACCAAAAGACAAAACAAAGACAAAT
1494 ACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
129 AC-ATTTCACAGTGTTAAAGAATA-ACAGTTTAGCAGAATTGGCAGCAACCGAAC
1549 AAATTTACT
1 AAATTTACT
1558 AAGCAATCTA
Statistics
Matches: 185, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
179 56 0.30
180 71 0.38
182 19 0.10
184 39 0.21
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (181 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAATTTCACAGTGTTAAAGAATACACAG
TTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCACCAAAAGACAAAACAAAGACAAATAC
ATTTCACAGTGTTAAAGAATAACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:1505 original size:92 final size:91
Alignment explanation
Indices: 1186--1557 Score: 671
Period size: 92 Copynumber: 4.1 Consensus size: 91
1176 TTGAATGGAT
1186 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTTTCACAGTGTTAAAGAATACACAG
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTTTCACAGTGTTAAAGAATACACAG
1251 TTTAGCAGAATTGGCAGCAACCGAAC
66 TTTAGCAGAATTGGCAGCAACCGAAC
*
1277 AAATTTACTTTC-AGCAAAAGACAAAACAAAGACAAATACTTTCACAGTGTTAAAGAAT--ACAG
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTTTCACAGTGTTAAAGAATACACAG
1339 TTTAGCAGAATTGGCAGCAACCGAAC
66 TTTAGCAGAATTGGCAGCAACCGAAC
*
1365 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATATATTTCACAGTGTTAAAGAATACACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-CTTTCACAGTGTTAAAGAATACACA
1430 GTTTAGCAGAATTGGCAGCAA-CGAAC
65 GTTTAGCAGAATTGGCAGCAACCGAAC
1456 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATAC--TTTCACAGTGTTAAAGAATACAC
1521 AGTTTAGCAGAATTGGCAGCAACCGAAC
64 AGTTTAGCAGAATTGGCAGCAACCGAAC
1549 AAATTTACT
1 AAATTTACT
1558 AAGCAATCTA
Statistics
Matches: 270, Mismatches: 4, Indels: 12
0.94 0.01 0.04
Matches are distributed among these distances:
88 42 0.16
89 25 0.09
90 64 0.24
91 56 0.21
92 69 0.26
93 14 0.05
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (91 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTTTCACAGTGTTAAAGAATACACAG
TTTAGCAGAATTGGCAGCAACCGAAC
Found at i:3264 original size:14 final size:14
Alignment explanation
Indices: 3245--3334 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
3235 TTGAAATGAA
3245 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3259 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
3276 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
3292 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
3311 AATCGCAACGAGAG
1 AATCGCAACGAGAG
3325 AATCGCAACG
1 AATCGCAACG
3335 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:3282 original size:33 final size:33
Alignment explanation
Indices: 3237--3351 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
3227 GTCTTTGGTT
3237 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
3270 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3303 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
3336 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
3352 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:3283 original size:19 final size:18
Alignment explanation
Indices: 3244--3356 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
3234 GTTGAAATGA
3244 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
3259 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
3276 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
3292 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
3309 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
3325 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
3342 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
3357 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:3583 original size:33 final size:33
Alignment explanation
Indices: 3541--3611 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
3531 AATACTAACT
*
3541 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
3574 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
3607 TGAAA
1 TGAAA
3612 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:3845 original size:22 final size:22
Alignment explanation
Indices: 3793--3847 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
3783 TGGTTGTGAG
**
3793 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
3815 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
3837 GGATTTCTTCG
1 GGATTTCTTCG
3848 CGTAGAGAGT
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:4016 original size:20 final size:20
Alignment explanation
Indices: 3991--4182 Score: 212
Period size: 20 Copynumber: 9.7 Consensus size: 20
3981 CTTTAAATAT
3991 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4011 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4033 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4052 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4072 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4092 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4112 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4132 CGCGTTGCGA-TTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
** *
4151 CGCGTTGCGATTT-CATATT
1 CGCGTTGCGATTTACGGATA
4170 CGCGTTGCGATTT
1 CGCGTTGCGATTT
4183 TGGAAAATCG
Statistics
Matches: 145, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
19 32 0.22
20 97 0.67
21 14 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:4199 original size:21 final size:20
Alignment explanation
Indices: 4175--4251 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
4165 ATATTCGCGT
4175 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
4196 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
4216 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
4238 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
4252 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:4262 original size:20 final size:20
Alignment explanation
Indices: 4237--4288 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4227 AAGAATCGCG
*
4237 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4257 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4277 TTGCGATTCTGG
1 TTGCGATTCTGG
4289 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:10597 original size:23 final size:22
Alignment explanation
Indices: 10560--10617 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 22
10550 TAAAAACTGA
*
10560 AAAACGTGTCAAAAGATAGAA-G
1 AAAACGTGTCAAAAGACA-AATG
10582 AAAACGTGTCATAAAGACAAATG
1 AAAACGTGTCA-AAAGACAAATG
*
10605 AAAATGTGTCAAA
1 AAAACGTGTCAAA
10618 CATATAGACT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 15 0.47
23 17 0.53
ACGTcount: A:0.53, C:0.10, G:0.19, T:0.17
Consensus pattern (22 bp):
AAAACGTGTCAAAAGACAAATG
Found at i:11938 original size:2 final size:2
Alignment explanation
Indices: 11896--11925 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11886 CGAAAATTTA
11896 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11926 TGTGAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22073 original size:38 final size:38
Alignment explanation
Indices: 22030--22127 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 38
22020 TATATGTTTC
22030 AAAAATCGCTTTTTAAAAACTATATA-T-TATACGTTTTT
1 AAAAAT-G-TTTTTAAAAACTATATATTATATACGTTTTT
* *
22068 AAAAATATTTTTAAAAACTATATATTATATATGTTTTT
1 AAAAATGTTTTTAAAAACTATATATTATATACGTTTTT
*
22106 AAAAATG-TTTTCAAAACTATAT
1 AAAAATGTTTTTAAAAACTATAT
22128 TATATTATCA
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
36 17 0.31
37 15 0.28
38 22 0.41
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (38 bp):
AAAAATGTTTTTAAAAACTATATATTATATACGTTTTT
Found at i:22080 original size:36 final size:35
Alignment explanation
Indices: 21973--22097 Score: 132
Period size: 36 Copynumber: 3.5 Consensus size: 35
21963 ACAATAATAA
*
21973 TAAAAACTATATA--ATATATTTCAAAAATATGTTT
1 TAAAAACTATATATTATATGTTTCAAAAATAT-TTT
* *
22007 TCAAAAA-T-TAAATTATATGTTTCAAAAATCGCTTTT
1 T-AAAAACTATATATTATATGTTTCAAAAAT--ATTTT
* *
22043 TAAAAACTATATATTATACGTTTTTAAAAATATTTT
1 TAAAAACTATATATTATATG-TTTCAAAAATATTTT
22079 TAAAAACTATATATTATAT
1 TAAAAACTATATATTATAT
22098 ATGTTTTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 14
0.77 0.08 0.14
Matches are distributed among these distances:
33 3 0.04
34 2 0.03
35 24 0.32
36 27 0.36
37 10 0.13
38 9 0.12
ACGTcount: A:0.46, C:0.07, G:0.03, T:0.43
Consensus pattern (35 bp):
TAAAAACTATATATTATATGTTTCAAAAATATTTT
Found at i:29935 original size:11 final size:13
Alignment explanation
Indices: 29907--29932 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
29897 CTGAGATACA
29907 TCAAAGGGACCTC
1 TCAAAGGGACCTC
29920 TCAAAGGGACCTC
1 TCAAAGGGACCTC
29933 AAATGTTGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.31, G:0.23, T:0.15
Consensus pattern (13 bp):
TCAAAGGGACCTC
Found at i:35612 original size:20 final size:20
Alignment explanation
Indices: 35582--35629 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
35572 AATGATTTCC
* * *
35582 TTTTG-AAAGCAAATTTAGA
1 TTTTGAAAAGCAAAATGAAA
35601 TTTTGAAAAGCAAAATGAAA
1 TTTTGAAAAGCAAAATGAAA
35621 TTTTGAAAA
1 TTTTGAAAA
35630 ACTATTTGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.48, C:0.04, G:0.15, T:0.33
Consensus pattern (20 bp):
TTTTGAAAAGCAAAATGAAA
Found at i:36959 original size:22 final size:21
Alignment explanation
Indices: 36928--36968 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
36918 TACGATGTAA
36928 AATAAAATATTTACAACATAT
1 AATAAAATATTTACAACATAT
36949 AATAATAATATTTACAACAT
1 AATAA-AATATTTACAACAT
36969 GTACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAAAATATTTACAACATAT
Found at i:37388 original size:30 final size:29
Alignment explanation
Indices: 37318--37393 Score: 80
Period size: 30 Copynumber: 2.6 Consensus size: 29
37308 CTAAAATAAC
* * * *
37318 AAATAATATTAATAAAACTTAAAGGAGTA
1 AAATAGTATTAATAAAAATTAAAGAACTA
*
37347 ATATAGTATTAATAAAAATTAAAAGAACTA
1 AAATAGTATTAATAAAAATT-AAAGAACTA
* *
37377 AAATGGTATTAACAAAA
1 AAATAGTATTAATAAAA
37394 TACACTAAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
29 17 0.45
30 21 0.55
ACGTcount: A:0.59, C:0.04, G:0.09, T:0.28
Consensus pattern (29 bp):
AAATAGTATTAATAAAAATTAAAGAACTA
Found at i:38678 original size:3 final size:3
Alignment explanation
Indices: 38670--38753 Score: 71
Period size: 3 Copynumber: 27.3 Consensus size: 3
38660 ATGCACTAAT
* * ** * **
38670 TAA TAA TAAA TAA TAC TAA TAA TAA TAT TTT TAT TTC TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
38716 T-A TAA TAA TAA TAA TATA TAA TATA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TA-A TAA TA-A TAA TAA TAA TAA T
38754 TTTAAAGTCT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
2 2 0.03
3 57 0.84
4 9 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (3 bp):
TAA
Found at i:38726 original size:14 final size:14
Alignment explanation
Indices: 38707--38753 Score: 69
Period size: 14 Copynumber: 3.3 Consensus size: 14
38697 TTTTTATTTC
38707 TAATAATAATATAA
1 TAATAATAATATAA
38721 TAATAATAATAT-A
1 TAATAATAATATAA
38734 TAATATATAATAATAA
1 TAATA-ATAAT-ATAA
38750 TAAT
1 TAAT
38754 TTTAAAGTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.20
14 17 0.57
15 2 0.07
16 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:38743 original size:20 final size:20
Alignment explanation
Indices: 38670--38753 Score: 82
Period size: 21 Copynumber: 4.2 Consensus size: 20
38660 ATGCACTAAT
*
38670 TAATAATA-AATAATACTAA
1 TAATAATATAATAATAATAA
** * **
38689 TAATAATATTTTTATTTCTAA
1 TAATAATA-TAATAATAATAA
38710 TAATAATATAATAATAATAA
1 TAATAATATAATAATAATAA
38730 TATATAATAT-ATAATAATAA
1 TA-ATAATATAATAATAATAA
38750 TAAT
1 TAAT
38754 TTTAAAGTCT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
19 10 0.19
20 21 0.40
21 22 0.42
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
TAATAATATAATAATAATAA
Found at i:38745 original size:23 final size:24
Alignment explanation
Indices: 38709--38753 Score: 83
Period size: 23 Copynumber: 1.9 Consensus size: 24
38699 TTTATTTCTA
38709 ATAATAATATAATAATAATAATAT
1 ATAATAATATAATAATAATAATAT
38733 ATAAT-ATATAATAATAATAAT
1 ATAATAATATAATAATAATAAT
38754 TTTAAAGTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAATAATATAATAATAATAATAT
Found at i:39253 original size:125 final size:125
Alignment explanation
Indices: 38943--39659 Score: 650
Period size: 125 Copynumber: 5.6 Consensus size: 125
38933 CGTCTAAGGG
* * * * * *
38943 TGACA-AGACTCCTACATAATGAGGAAATATAGTTAGGGGATGACACTGCTCATACGTGATGAAG
1 TGACACAG-CTCCTACATAATGAGGAAATCTGGTCAGGGGATGACACTGCTCATA--TGTTCATG
* *
39007 AGTTCTTGGCCATTTTTAGGAAGGGTGATAAC-TCGGTTCCTAC-GTGATGAGGACGACTGGTTA
63 AG-TCTTGGCCA--TCTA--AA-GGTGATAACAT-GGTTCC-ACTCTGATG-GGACGACTGGTTA
39070 TCTAGGT
119 TCTAGGT
* * * *
39077 TGACATAGCTCCTACATAATGAGGAAATCTGATCATGTGATGACACTGCTCATATGTTCATGAGT
1 TGACACAGCTCCTACATAATGAGGAAATCTGGTCAGGGGATGACACTGCTCATATGTTCATGAGT
*
39142 CTTGGCCATCTAAAGGTGATAACATGGTTCCACTCTGATGGGACGACTGGTTATTTAGGT
66 CTTGGCCATCTAAAGGTGATAACATGGTTCCACTCTGATGGGACGACTGGTTATCTAGGT
* * *
39202 TGACACAACTCCTACATAATGAGGAGATCTGGTCAGGGGATGACACTGCTCATCTGTTCATGAGT
1 TGACACAGCTCCTACATAATGAGGAAATCTGGTCAGGGGATGACACTGCTCATATGTTCATGAGT
* * ** * *
39267 CTTGGCCATCT-AAGGATGATAACACT-GCT-CA-TATTG-TGATAAGTCTTGGTTATCTAGGGT
66 CTTGGCCATCTAAAGG-TGATAACA-TGGTTCCACT-CTGATGGGACGAC-TGGTTATCTA-GGT
* * * * * * *
39327 TTACA-AGGTTCCTACGTGATGAGGAAATCAGGTC-GGGTGATGACA-TGACTCATACGTGATGA
1 TGACACA-GCTCCTACATAATGAGGAAATCTGGTCAGGG-GATGACACTG-CTCATA--TGTTCA
* * * *
39389 AGAGT-TCTGGCCATCTAAAGGTGATAACACGATTCCACTCTGATGGGGACGACTGATTATCT-G
61 TGAGTCT-TGGCCATCTAAAGGTGATAACATGGTTCCACTCTGAT-GGGACGACTGGTTATCTAG
39452 AGT
124 -GT
* * * * * *
39455 TGACACAGCTCCTACATAATGAGGAGATCTAGTTAGGTGATGACACTGCTAATCTGTTCATGAGT
1 TGACACAGCTCCTACATAATGAGGAAATCTGGTCAGGGGATGACACTGCTCATATGTTCATGAGT
* * * *
39520 CTTGGACATCTAAGGGTGATAACACGGTTCCACTCTGATGGGGACGACTGGTTATCTAGGGG
66 CTTGGCCATCTAAAGGTGATAACATGGTTCCACTCTGAT-GGGACGACTGGTTATCTA-GGT
* * * * * * *
39582 TGACACGGCTCCCACGTGATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGTTCATGAGT
1 TGACACAGCTCCTACATAATGAGGAAATCTGGTCAGGGGATGACACTGCTCATATGTTCATGAGT
39647 CTTGGCCATCTAA
66 CTTGGCCATCTAA
39660 GGGATTTTGG
Statistics
Matches: 483, Mismatches: 73, Indels: 61
0.78 0.12 0.10
Matches are distributed among these distances:
123 6 0.01
124 23 0.05
125 140 0.29
126 81 0.17
127 102 0.21
128 46 0.10
129 18 0.04
130 4 0.01
131 9 0.02
132 7 0.01
134 45 0.09
135 2 0.00
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.29
Consensus pattern (125 bp):
TGACACAGCTCCTACATAATGAGGAAATCTGGTCAGGGGATGACACTGCTCATATGTTCATGAGT
CTTGGCCATCTAAAGGTGATAACATGGTTCCACTCTGATGGGACGACTGGTTATCTAGGT
Found at i:39655 original size:253 final size:252
Alignment explanation
Indices: 38950--39659 Score: 774
Period size: 253 Copynumber: 2.8 Consensus size: 252
38940 GGGTGACAAG
* * * * * * *
38950 ACTCCTACATAATGAGGAAATATAGTTAGGGGATGACACTGCTCATACGTGATGAAGAGTTCTTG
1 ACTCCTACATAATGAGGAGATCTAGTCAGGGGATGACACTGCTAAT-C-TGTTCATGAG-TCTTG
* * * * *
39015 GCCATTTTTAGGAAGGGTGATAACTCGGTTCCTAC-GTGATGAGGACGACTGGTTATCTA-GGTT
63 GACA--TCT---AAGGGTGATAACACGGTTCC-ACTATGATGGGGACGACTGGTTATCTAGGGTT
* * * * *
39078 GACATA-GCTCCTACATAATGAGGAAATCTGATCATGTGATGACACTGCTCATATGTTCATGAGT
122 GACA-AGGCTCCTACGTGATGAGGAAATCTGGTCAGGTGATGACACTGCTCATCTGTTCATGAGT
* * * *
39142 CTTGGCCATCTAAAGGTGATAACATGGTTCCACTCTGATGGGACGACTGGTTATTTAGGTTGACA
186 CTTGGCCATCTAAAGGTGATAACACGATTCCACTCTGATGGGACGACTGATTATTGAGGTTGACA
39207 CA
251 CA
* * *
39209 ACTCCTACATAATGAGGAGATCTGGTCAGGGGATGACACTGCTCATCTGTTCATGAGTCTTGGCC
1 ACTCCTACATAATGAGGAGATCTAGTCAGGGGATGACACTGCTAATCTGTTCATGAGTCTTGGAC
* * * ** * * *
39274 ATCTAAGGATGATAACACTGCT-CA-TAT--TGTGATAAGTCTTGGTTATCTAGGGTTTACAAGG
66 ATCTAAGGGTGATAACACGGTTCCACTATGATG-GGGACGAC-TGGTTATCTAGGGTTGACAAGG
* * * * * *
39335 TTCCTACGTGATGAGGAAATCAGGTCGGGTGATGACA-TGACTCATACGTGATGAAGAGT-TCTG
129 CTCCTACGTGATGAGGAAATCTGGTCAGGTGATGACACTG-CTCAT-C-TGTTCATGAGTCT-TG
39398 GCCATCTAAAGGTGATAACACGATTCCACTCTGATGGGGACGACTGATTATCTGA-GTTGACACA
190 GCCATCTAAAGGTGATAACACGATTCCACTCTGAT-GGGACGACTGATTAT-TGAGGTTGACACA
* * *
39462 GCTCCTACATAATGAGGAGATCTAGTTAGGTGATGACACTGCTAATCTGTTCATGAGTCTTGGAC
1 ACTCCTACATAATGAGGAGATCTAGTCAGGGGATGACACTGCTAATCTGTTCATGAGTCTTGGAC
* * *
39527 ATCTAAGGGTGATAACACGGTTCCACTCTGATGGGGACGACTGGTTATCTAGGGGTGACACGGCT
66 ATCTAAGGGTGATAACACGGTTCCACTATGATGGGGACGACTGGTTATCTAGGGTTGACAAGGCT
* *
39592 CCCACGTGATGAGGAGATCTGGTCAGGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATC
131 CCTACGTGATGAGGAAATCTGGTCAGGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATC
39657 TAA
196 TAA
39660 GGGATTTTGG
Statistics
Matches: 375, Mismatches: 59, Indels: 40
0.79 0.12 0.08
Matches are distributed among these distances:
247 2 0.01
248 3 0.01
249 15 0.04
250 44 0.12
251 15 0.04
252 43 0.11
253 120 0.32
254 8 0.02
255 58 0.15
256 15 0.04
257 9 0.02
258 1 0.00
259 42 0.11
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (252 bp):
ACTCCTACATAATGAGGAGATCTAGTCAGGGGATGACACTGCTAATCTGTTCATGAGTCTTGGAC
ATCTAAGGGTGATAACACGGTTCCACTATGATGGGGACGACTGGTTATCTAGGGTTGACAAGGCT
CCTACGTGATGAGGAAATCTGGTCAGGTGATGACACTGCTCATCTGTTCATGAGTCTTGGCCATC
TAAAGGTGATAACACGATTCCACTCTGATGGGACGACTGATTATTGAGGTTGACACA
Found at i:39839 original size:38 final size:37
Alignment explanation
Indices: 39767--39839 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
39757 AGGTTTTTTA
* * *
39767 TGTCTCAAATGAGATAAAATTTGTTTTGAAAGAAAAT
1 TGTCTCAAACGAGACAAAATTTGTTTCGAAAGAAAAT
* *
39804 TGTCTCAAACGAGACAATATTTTGTTTCGATAGAAA
1 TGTCTCAAACGAGACAA-AATTTGTTTCGAAAGAAA
39840 CAACATCAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
37 15 0.50
38 15 0.50
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (37 bp):
TGTCTCAAACGAGACAAAATTTGTTTCGAAAGAAAAT
Found at i:42099 original size:1 final size:1
Alignment explanation
Indices: 42095--42147 Score: 52
Period size: 1 Copynumber: 53.0 Consensus size: 1
42085 TTTTTTCATC
* * * * * *
42095 TTTTTTTTCTTTTCTTCTTTTTTTTTTCTTTTTTTTCTTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
42148 GATGGATGAG
Statistics
Matches: 40, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:42107 original size:17 final size:17
Alignment explanation
Indices: 42087--42119 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42077 TTCTTTTCTT
42087 TTTTCATCTTTTTTTTC
1 TTTTCATCTTTTTTTTC
*
42104 TTTTCTTCTTTTTTTT
1 TTTTCATCTTTTTTTT
42120 TTCTTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTCATCTTTTTTTTC
Found at i:42147 original size:19 final size:18
Alignment explanation
Indices: 42080--42145 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 18
42070 ATTCAATTTC
*
42080 TTTTCTTTTTTCATCTTTT
1 TTTTCTTTTTTC-TTTTTT
42099 TTTTCTTTTCTTCTTTTTT
1 TTTTCTTTT-TTCTTTTTT
*
42118 TTTTCTTTTTT-TTCTTT
1 TTTTCTTTTTTCTTTTTT
42135 TTTTCTTTTTT
1 TTTTCTTTTTT
42146 TTGATGGATG
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 16 0.36
18 2 0.05
19 23 0.52
20 3 0.07
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.85
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTTTT
Found at i:42147 original size:28 final size:28
Alignment explanation
Indices: 42080--42147 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
42070 ATTCAATTTC
*
42080 TTTTC-TTTTTTCATCTTTTTTTTCTTT
1 TTTTCTTTTTTTTATCTTTTTTTTCTTT
* *
42107 TCTTCTTTTTTTTTTCTTTTTTTTCTTT
1 TTTTCTTTTTTTTATCTTTTTTTTCTTT
42135 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
42148 GATGGATGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 4 0.11
28 32 0.89
ACGTcount: A:0.01, C:0.13, G:0.00, T:0.85
Consensus pattern (28 bp):
TTTTCTTTTTTTTATCTTTTTTTTCTTT
Found at i:46338 original size:13 final size:13
Alignment explanation
Indices: 46320--46344 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
46310 GTCTTATTCT
46320 TGTAACATAATTA
1 TGTAACATAATTA
46333 TGTAACATAATT
1 TGTAACATAATT
46345 TTTGTACGAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TGTAACATAATTA
Found at i:48413 original size:22 final size:21
Alignment explanation
Indices: 48382--48422 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
48372 TACGATGTAA
48382 AATAAAATATTTACAACATAT
1 AATAAAATATTTACAACATAT
48403 AATAATAATATTTACAACAT
1 AATAA-AATATTTACAACAT
48423 GTACATACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
AATAAAATATTTACAACATAT
Found at i:48990 original size:21 final size:21
Alignment explanation
Indices: 48964--49032 Score: 54
Period size: 21 Copynumber: 3.3 Consensus size: 21
48954 TCAGATTATA
48964 ATTAAACCTAAAACACTCAAT
1 ATTAAACCTAAAACACTCAAT
* * * *
48985 ATTAAAAC-AGTGAAGA-T-TAT
1 ATTAAACCTA--AAACACTCAAT
49005 AATTAAACCTAAAACACTCAAT
1 A-TTAAACCTAAAACACTCAAT
49027 ATTAAA
1 ATTAAA
49033 ACAGTGACCA
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
20 7 0.21
21 20 0.59
22 7 0.21
ACGTcount: A:0.54, C:0.16, G:0.04, T:0.26
Consensus pattern (21 bp):
ATTAAACCTAAAACACTCAAT
Found at i:49003 original size:42 final size:42
Alignment explanation
Indices: 48956--49039 Score: 168
Period size: 42 Copynumber: 2.0 Consensus size: 42
48946 ATGGAGGATC
48956 AGATTATAATTAAACCTAAAACACTCAATATTAAAACAGTGA
1 AGATTATAATTAAACCTAAAACACTCAATATTAAAACAGTGA
48998 AGATTATAATTAAACCTAAAACACTCAATATTAAAACAGTGA
1 AGATTATAATTAAACCTAAAACACTCAATATTAAAACAGTGA
49040 CCAAAATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.26
Consensus pattern (42 bp):
AGATTATAATTAAACCTAAAACACTCAATATTAAAACAGTGA
Found at i:50187 original size:3 final size:3
Alignment explanation
Indices: 50173--50257 Score: 75
Period size: 3 Copynumber: 28.0 Consensus size: 3
50163 TAATGCACTA
* * ** * *
50173 AAT AAT ACT AAT AAT AAT ATT TTT ATT ACT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
50220 AAT -AT AAT ATAT AAT ATAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT A-AT AAT A-AT AAT A-AT AAT AAT AAT AAT
50258 TTTTAAAGTC
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
2 4 0.06
3 57 0.81
4 9 0.13
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (3 bp):
AAT
Found at i:50221 original size:14 final size:13
Alignment explanation
Indices: 50204--50255 Score: 79
Period size: 14 Copynumber: 3.9 Consensus size: 13
50194 TTTATTACTA
50204 ATAATAATAATAT
1 ATAATAATAATAT
50217 AATAAT-ATAATAT
1 -ATAATAATAATAT
50230 ATAATATATAATAT
1 ATAATA-ATAATAT
50244 ATAATAATAATA
1 ATAATAATAATA
50256 ATTTTTAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.14
13 13 0.36
14 18 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:59445 original size:17 final size:17
Alignment explanation
Indices: 59423--59480 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
59413 GATTGAGCTC
59423 ACAAGAACAAAATATTT
1 ACAAGAACAAAATATTT
* * *
59440 ACAAG-AGAAAATGAAATC
1 ACAAGAACAAAAT--ATTT
59458 ACAAGAACAAAATATTT
1 ACAAGAACAAAATATTT
59475 ACAAGA
1 ACAAGA
59481 GAAAGATGAA
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
16 6 0.19
17 13 0.41
18 7 0.22
19 6 0.19
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.17
Consensus pattern (17 bp):
ACAAGAACAAAATATTT
Found at i:59464 original size:35 final size:36
Alignment explanation
Indices: 59421--59492 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
59411 AAGATTGAGC
59421 TCACAAGAACAAAATATTTACAAGAGAAA-ATGAAA
1 TCACAAGAACAAAATATTTACAAGAGAAAGATGAAA
59456 TCACAAGAACAAAATATTTACAAGAGAAAGATGAAA
1 TCACAAGAACAAAATATTTACAAGAGAAAGATGAAA
59492 T
1 T
59493 AAGAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 29 0.81
36 7 0.19
ACGTcount: A:0.58, C:0.11, G:0.12, T:0.18
Consensus pattern (36 bp):
TCACAAGAACAAAATATTTACAAGAGAAAGATGAAA
Found at i:59483 original size:19 final size:19
Alignment explanation
Indices: 59426--59483 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
59416 TGAGCTCACA
59426 AGAACAAAATATTTACAAG
1 AGAACAAAATATTTACAAG
*
59445 AGAA-AATGAA-A-TCAC-A-
1 AGAACAA--AATATTTACAAG
59461 AGAACAAAATATTTACAAG
1 AGAACAAAATATTTACAAG
59480 AGAA
1 AGAA
59484 AGATGAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 14
0.65 0.04 0.30
Matches are distributed among these distances:
15 2 0.07
16 5 0.17
17 6 0.20
18 6 0.20
19 9 0.30
20 2 0.07
ACGTcount: A:0.60, C:0.10, G:0.12, T:0.17
Consensus pattern (19 bp):
AGAACAAAATATTTACAAG
Found at i:59702 original size:21 final size:21
Alignment explanation
Indices: 59676--59717 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
59666 CCAGAATGGG
*
59676 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
59697 GGGAATCGATACTCCTTCATA
1 GGGAATCGATACCCCTTCATA
59718 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:59869 original size:33 final size:35
Alignment explanation
Indices: 59830--59955 Score: 103
Period size: 33 Copynumber: 3.5 Consensus size: 35
59820 AAACCATGCA
*
59830 GGGGGAATCTGTACCCGGGGAATCAAT-TCCCCT-
1 GGGGGAATCTGTACCCGGGGAATCAATACCCCCTG
* * * *
59863 GGGGGAATCTATTCCCGGGGAGTCGATACCCCCTG
1 GGGGGAATCTGTACCCGGGGAATCAATACCCCCTG
* **
59898 GGGGGAATCTGTTCCCCCTGGGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTG-T-ACCC---GGGGAATCAATACCCCCT-G
59939 GGGGGTAATCTGTACCC
1 GGGGG-AATCTGTACCC
59956 CCTGGACAAT
Statistics
Matches: 73, Mismatches: 11, Indels: 11
0.77 0.12 0.12
Matches are distributed among these distances:
33 23 0.32
34 5 0.07
35 10 0.14
36 1 0.01
37 3 0.04
40 18 0.25
41 7 0.10
42 6 0.08
ACGTcount: A:0.17, C:0.28, G:0.34, T:0.21
Consensus pattern (35 bp):
GGGGGAATCTGTACCCGGGGAATCAATACCCCCTG
Found at i:59942 original size:22 final size:20
Alignment explanation
Indices: 59889--59960 Score: 117
Period size: 20 Copynumber: 3.5 Consensus size: 20
59879 GGGGAGTCGA
59889 TACCCCCTGGGGGGAATCTG
1 TACCCCCTGGGGGGAATCTG
*
59909 TTCCCCCTGGGGGGAATCTG
1 TACCCCCTGGGGGGAATCTG
59929 TACCCCCTGGGGGGGTAATCTG
1 TACCCCCT-GGGGGG-AATCTG
59951 TACCCCCTGG
1 TACCCCCTGG
59961 ACAATCTGAT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
20 26 0.54
21 8 0.17
22 14 0.29
ACGTcount: A:0.12, C:0.32, G:0.33, T:0.22
Consensus pattern (20 bp):
TACCCCCTGGGGGGAATCTG
Found at i:61448 original size:19 final size:20
Alignment explanation
Indices: 61405--61452 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
61395 TCTAAATCCT
*
61405 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
61425 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
61444 TTTTCAAAA
1 TTTTCAAAA
61453 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:62692 original size:21 final size:21
Alignment explanation
Indices: 62666--62707 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
62656 CCAGAATGGG
*
62666 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
62687 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
62708 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:62857 original size:17 final size:16
Alignment explanation
Indices: 62822--62883 Score: 67
Period size: 15 Copynumber: 3.9 Consensus size: 16
62812 ACCATGCAGG
*
62822 GGGGAATCTATACCC-
1 GGGGAATCGATACCCT
62837 GGGGAATCGATACCCCT
1 GGGGAATCGATA-CCCT
*
62854 GGGGAATCTG-T-TCCT
1 GGGGAATC-GATACCCT
62869 GGGGAATCGATACCC
1 GGGGAATCGATACCC
62884 CTTGGGGGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
14 1 0.03
15 23 0.59
16 5 0.13
17 9 0.23
18 1 0.03
ACGTcount: A:0.23, C:0.26, G:0.31, T:0.21
Consensus pattern (16 bp):
GGGGAATCGATACCCT
Found at i:62873 original size:32 final size:33
Alignment explanation
Indices: 62822--62890 Score: 104
Period size: 32 Copynumber: 2.1 Consensus size: 33
62812 ACCATGCAGG
62822 GGGGAATCTATACCCGGGGAATCGATACCCC-T
1 GGGGAATCTATACCCGGGGAATCGATACCCCTT
* * *
62854 GGGGAATCTGTTCCTGGGGAATCGATACCCCTT
1 GGGGAATCTATACCCGGGGAATCGATACCCCTT
62887 GGGG
1 GGGG
62891 GGGGGAATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 28 0.85
33 5 0.15
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.22
Consensus pattern (33 bp):
GGGGAATCTATACCCGGGGAATCGATACCCCTT
Found at i:63811 original size:43 final size:42
Alignment explanation
Indices: 63749--63890 Score: 149
Period size: 43 Copynumber: 3.3 Consensus size: 42
63739 ATGGTAATTA
* *
63749 GCGGCGTTTGTATCCAAAAATGCCGCTATATGTATGACCTTTT
1 GCGGCGTTTGT-TCCAAAAATGCCGCTATATATATAACCTTTT
** * *
63792 GCGGCGTTTGTGTTAAAAAACGCCGCTATATATCTAACCTTTT
1 GCGGCGTTTGT-TCCAAAAATGCCGCTATATATATAACCTTTT
* * * *
63835 GCGGCGTTTGTTCCAAAGATGCCGCTATAGATCTCGACCTTTT
1 GCGGCGTTTGTTCCAAAAATGCCGCTATATATAT-AACCTTTT
* *
63878 GAGGTGTTTGTTC
1 GCGGCGTTTGTTC
63891 TAATAACGTC
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 18 0.22
43 65 0.78
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTGTTCCAAAAATGCCGCTATATATATAACCTTTT
Found at i:63921 original size:86 final size:86
Alignment explanation
Indices: 63749--63921 Score: 201
Period size: 86 Copynumber: 2.0 Consensus size: 86
63739 ATGGTAATTA
*
63749 GCGGCGTTTGTATCCAAAAATGCCGCTATATGTATGACCTTTTGCGGCGTTTGTGTTAAAAAACG
1 GCGGCGTTTGTATCCAAAAATGCCGCTATATGTATGACCTTTTGAGGCGTTTGTGTTAAAAAACG
* *
63814 CCGCTATATATCTAACCTTTT
66 CCACTATAGATCTAACCTTTT
* * * *
63835 GCGGCGTTTGT-TCCAAAGATGCCGCTATA-GATCTCGACCTTTTGAGGTGTTTGT-TCT-AATA
1 GCGGCGTTTGTATCCAAAAATGCCGCTATATG-TAT-GACCTTTTGAGGCGTTTGTGT-TAAAAA
* *
63896 ACGTCACTATAGATCTCAACTTTTT
63 ACGCCACTATAGATCT-AACCTTTT
63921 G
1 G
63922 TAGCGTTTTT
Statistics
Matches: 74, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.01
85 36 0.49
86 37 0.50
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (86 bp):
GCGGCGTTTGTATCCAAAAATGCCGCTATATGTATGACCTTTTGAGGCGTTTGTGTTAAAAAACG
CCACTATAGATCTAACCTTTT
Found at i:66050 original size:28 final size:28
Alignment explanation
Indices: 66010--66065 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
66000 TTGTAAAACT
66010 GATTTTGTTGAAGTAAAAGTTAATTTCA
1 GATTTTGTTGAAGTAAAAGTTAATTTCA
66038 GATTTTGTTGAAGTAAAAGTTAATTTCA
1 GATTTTGTTGAAGTAAAAGTTAATTTCA
66066 CTACAAATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (28 bp):
GATTTTGTTGAAGTAAAAGTTAATTTCA
Found at i:73333 original size:54 final size:54
Alignment explanation
Indices: 73257--73365 Score: 155
Period size: 54 Copynumber: 2.0 Consensus size: 54
73247 TTATGTCAAA
* * *
73257 TAAAACAGGAGCAAATCTTAGATACTTGTATAGTAAAAGGACTAAAACAATAAT
1 TAAAACAGAAGCAAATCTTAGATACGTGTATAGTAAAAGGACCAAAACAATAAT
* * * *
73311 TAAAACAGAAGTAGATCTTAGATTCGTGTATAGTTAAAGGACCAAAACAATAAT
1 TAAAACAGAAGCAAATCTTAGATACGTGTATAGTAAAAGGACCAAAACAATAAT
73365 T
1 T
73366 TGACCGGTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.26
Consensus pattern (54 bp):
TAAAACAGAAGCAAATCTTAGATACGTGTATAGTAAAAGGACCAAAACAATAAT
Found at i:75393 original size:13 final size:13
Alignment explanation
Indices: 75375--75464 Score: 58
Period size: 13 Copynumber: 6.8 Consensus size: 13
75365 GAAACGGATT
75375 AAATAAA-AAATAA
1 AAATAAATAAA-AA
*
75388 AAATAAATAAAAT
1 AAATAAATAAAAA
*
75401 AAATAAAGTAAAGA
1 AAATAAA-TAAAAA
* * *
75415 AAACAAATGAAAT
1 AAATAAATAAAAA
* *
75428 AAAGAAA-AAATA
1 AAATAAATAAAAA
* *
75440 CAACAAATAAAAA
1 AAATAAATAAAAA
75453 AAATAAAGTAAA
1 AAATAAA-TAAA
75465 GATAAAAATG
Statistics
Matches: 57, Mismatches: 16, Indels: 7
0.71 0.20 0.09
Matches are distributed among these distances:
12 7 0.12
13 33 0.58
14 17 0.30
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.14
Consensus pattern (13 bp):
AAATAAATAAAAA
Found at i:75401 original size:9 final size:9
Alignment explanation
Indices: 75374--75498 Score: 71
Period size: 9 Copynumber: 14.0 Consensus size: 9
75364 AGAAACGGAT
75374 TAAAT-AAA
1 TAAATAAAA
75382 -AAATAAAAA
1 TAAAT-AAAA
75391 TAAATAAAA
1 TAAATAAAA
*
75400 TAAATAAAG
1 TAAATAAAA
*
75409 TAAAGAAAA
1 TAAATAAAA
* *
75418 CAAATGAAA
1 TAAATAAAA
*
75427 TAAA-GAAA
1 TAAATAAAA
*
75435 -AAATACAA
1 TAAATAAAA
*
75443 CAAATAAAA
1 TAAATAAAA
* *
75452 AAAATAAAG
1 TAAATAAAA
75461 TAAAGATAAAAA
1 T-AA-AT-AAAA
* *
75473 TGAATAATA
1 TAAATAAAA
*
75482 TAAACAAAA
1 TAAATAAAA
75491 TAAA-AAAA
1 TAAATAAAA
75499 GAATAATAGT
Statistics
Matches: 90, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
7 7 0.08
8 10 0.11
9 58 0.64
10 8 0.09
11 3 0.03
12 4 0.04
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (9 bp):
TAAATAAAA
Found at i:75457 original size:52 final size:52
Alignment explanation
Indices: 75374--75476 Score: 145
Period size: 52 Copynumber: 2.0 Consensus size: 52
75364 AGAAACGGAT
* * *
75374 TAAATAAAAAATAAAAATAAATAAAATAAATAAAGTAAAGAAAACAAATGAAA
1 TAAAGAAAAAATAAAAACAAATAAAAAAAATAAAGTAAAGAAAA-AAATGAAA
* *
75427 TAAAGAAAAAAT-ACAACAAATAAAAAAAATAAAGTAAAGATAAAAATGAA
1 TAAAGAAAAAATAAAAACAAATAAAAAAAATAAAGTAAAGAAAAAAATGAA
75477 TAATATAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 7 0.16
52 27 0.60
53 11 0.24
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.16
Consensus pattern (52 bp):
TAAAGAAAAAATAAAAACAAATAAAAAAAATAAAGTAAAGAAAAAAATGAAA
Found at i:75761 original size:2 final size:2
Alignment explanation
Indices: 75756--75782 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
75746 AAAAATAAAC
75756 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
75783 ATAATAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76840 original size:18 final size:17
Alignment explanation
Indices: 76810--76865 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
76800 ATGTTTGTTA
*
76810 ATAATATAATAATATAT
1 ATAATAAAATAATATAT
76827 ATACATAAAATAATATAT
1 ATA-ATAAAATAATATAT
* *
76845 ATATTATAATATATATAT
1 ATAATAAAATA-ATATAT
76863 ATA
1 ATA
76866 TGAATGCTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
17 9 0.26
18 25 0.74
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAATAAAATAATATAT
Found at i:76853 original size:14 final size:14
Alignment explanation
Indices: 76810--76865 Score: 64
Period size: 14 Copynumber: 4.2 Consensus size: 14
76800 ATGTTTGTTA
76810 ATAATATA-ATAAT
1 ATAATATATATAAT
* *
76823 AT-ATATACATAAA
1 ATAATATATATAAT
*
76836 ATAATATATATATT
1 ATAATATATATAAT
76850 ATAATATATAT-AT
1 ATAATATATATAAT
76863 ATA
1 ATA
76866 TGAATGCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
12 5 0.14
13 12 0.33
14 19 0.53
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
ATAATATATATAAT
Found at i:77760 original size:121 final size:120
Alignment explanation
Indices: 77480--78265 Score: 797
Period size: 121 Copynumber: 6.5 Consensus size: 120
77470 CTGGAAAGCT
* * *
77480 CATTCGCTGTGAAGTTGAGCTTTGAATTGGATATCTTTCGTCGTGAAGTTGAAATCCAATCTAG-
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAAT-CAA---AGT
* * ** * ** * * *
77544 AGGTGGATGCAGCTTGTGGGCACGATATTCTTCGTCGTGAATTTGAAATCGTGGATAG-CT
62 A-TTGTATGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAATCGTGGAT-GCCC
77604 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAAGTATTG
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAAGTATTG
* * *
77669 TATGTTGCTGGTGAACACGATATCCTTCGTTGTGAAGTTAAAATCGAGGATGGCCC
66 TATGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAATCGTGGAT-GCCC
* * *
77725 CATTCGTCGTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTG
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAAT-CAA-AG-T-
* *
77790 CATTGTTAT-TTG-TGG-GAACA--ATATCATTCGTCGTGAAGTTGAAATCGTAGATGGCCC
62 -ATTG-TATGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAATCGTGGAT-GCCC
* *
77847 C-TTCGTTGTGAAGTTGAGCCTAGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTG
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAAGTATTG
* *
77911 TATGTTGCTGGTGAACACGATATCCTTAGTCGTGAAGTTGAAATCGTGGATGACC
66 TATGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGCCC
* * * * * * **
77966 C-TTCATCGTGAAGTTGAGCCTTAAATTGGATATCATTCGTCATGAAGTTGAAATCCAAGGGTTG
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAAGTATTG
* * * * ** *
78030 CATTGCTGTTTGTGGGCACGATACCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCC
66 TA-TGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAATCGTGGAT-GCCC
* * * *
78087 C-TTCGTTGTGAATTTGAGCCTCGAATTGGA-AGTCATTCGTTGTGAAGTTGAAATCCAATTTAA
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATA-TCCTTCGTCGTGAAGTTGAAAT-C-A---AA
** * * * * *
78150 G-AAAGAATGTTGATGGTGGACACGATATCCTTCATCGTGAAGTT-AAAGTCGTGGATGACC
60 GTATTGTATGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAA-TCGTGGATGCCC
* *
78210 CATTCATTGTGAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATC
1 CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATC
78266 CAAATTGGTT
Statistics
Matches: 562, Mismatches: 76, Indels: 49
0.82 0.11 0.07
Matches are distributed among these distances:
115 3 0.01
116 7 0.01
117 3 0.01
118 6 0.01
119 61 0.11
120 119 0.21
121 153 0.27
122 37 0.07
123 12 0.02
124 142 0.25
125 6 0.01
126 10 0.02
127 3 0.01
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (120 bp):
CATTCGTTGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAAGTATTG
TATGTTGCTGGTGAACACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATGCCC
Found at i:78092 original size:240 final size:240
Alignment explanation
Indices: 77488--78268 Score: 1032
Period size: 240 Copynumber: 3.2 Consensus size: 240
77478 CTCATTCGCT
* * * *
77488 GTGAAGTTGAGCTTTGAATTGGATATCTTTCGTCGTGAAGTTGAAATCCAATCTAGAGG-TGGA-
1 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCC-A---AG-GGTTGCAT
* * * * * *
77551 TGCAGCTTGTGGGCACGATATTCTTCGTCGTGAATTTGAAATCGTGGATAGCTCATTCGTTGTGA
61 TGCTGTTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGA
* *
77616 AGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCAAAGTATTGTATGTTGCTGGT
126 AGTTGAGCCTAGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTGCTGGT
* * * * *
77681 GAACACGATATCCTTCGTTGTGAAGTTAAAATCGAGGATGGCCCCATTCGTC
191 GAACACGATATCCTTAGTCGTGAAGTT-AAATCGTGGAT-GACCCATTCATC
* *
77733 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGTTA
1 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTG
* * * * *
77798 TTTGTGGGAACAATATCATTCGTCGTGAAGTTGAAATCGTAGATGGCCCCTTCGTTGTGAAGTTG
66 TTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAAGTTG
77863 AGCCTAGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTGCTGGTGAACA
131 AGCCTAGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTGCTGGTGAACA
77928 CGATATCCTTAGTCGTGAAGTTGAAATCGTGGATGACCC-TTCATC
196 CGATATCCTTAGTCGTGAAGTT-AAATCGTGGATGACCCATTCATC
* *
77973 GTGAAGTTGAGCCTTAAATTGGATATCATTCGTCATGAAGTTGAAATCCAAGGGTTGCATTGCTG
1 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTG
* *
78038 TTTGTGGGCACGATACCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAATTTG
66 TTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAAGTTG
* * * * ** * *
78103 AGCCTCGAATTGGA-AGTCATTCGTTGTGAAGTTGAAATCCAATTTAAGAAAGAATGTTGATGGT
131 AGCCTAGAATTGGATA-TCCTTCGTCGTGAAGTTGAAATCCAA-GT---ATTGTATGTTGCTGGT
* *
78167 GGACACGATATCCTTCA-TCGTGAAGTTAAAGTCGTGGATGACCCATTCATT
191 GAACACGATATCCTT-AGTCGTGAAGTTAAA-TCGTGGATGACCCATTCATC
* *
78218 GTGAAGTTGAGCCTTGAATTGGATATCCTTCATCGTGAAGTTGAAATCCAA
1 GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
78269 ATTGGTTTTG
Statistics
Matches: 476, Mismatches: 50, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
239 1 0.00
240 163 0.34
241 10 0.02
242 150 0.32
243 3 0.01
244 50 0.11
245 99 0.21
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (240 bp):
GTGAAGTTGAGCCTTAAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGGGTTGCATTGCTG
TTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCGTGGATAGCCCCTTCGTTGTGAAGTTG
AGCCTAGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAGTATTGTATGTTGCTGGTGAACA
CGATATCCTTAGTCGTGAAGTTAAATCGTGGATGACCCATTCATC
Found at i:78442 original size:64 final size:63
Alignment explanation
Indices: 78336--78566 Score: 336
Period size: 64 Copynumber: 3.6 Consensus size: 63
78326 GTGTCACTTC
* * * * *
78336 GAGTCCAATATACTTCGCTGCGAAGTTGAAATTGACTATGAATGAAACTAGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTCTC-GTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
* * *
78400 GAATCCAATATCCTTCATCGTGAAGTTGAAATTGGCTCTGAATGAAACTGGAAAGTTGTTTTTT
1 GAGTCCAATATCCTTC-TCGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
78464 GAGTCCAATATCCTTCGTCCTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
1 GAGTCCAATATCCTTC-TCGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
*
78528 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCT
1 GAGTCCAATATCCTTCTC-GTGAAGTTGAAATTGACTCT
78567 AAAAGCTACA
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
63 1 0.01
64 148 0.99
65 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.34
Consensus pattern (63 bp):
GAGTCCAATATCCTTCTCGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAGTTGTTTGTT
Found at i:79524 original size:99 final size:99
Alignment explanation
Indices: 79353--79550 Score: 342
Period size: 99 Copynumber: 2.0 Consensus size: 99
79343 CATCTCAATA
* *
79353 TATAAACACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGTCGGGGTGTTTAACCAATTGCCT
1 TATAAACACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCCT
79418 TAGAGGGACAGCTCAAGCTTTATTGTATAGATAT
66 TAGAGGGACAGCTCAAGCTTTATTGTATAGATAT
* *
79452 TATAATCACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCTT
1 TATAAACACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCCT
* *
79517 TAGAGGGAGAGCTCAAGCTTTATTGTATATATAT
66 TAGAGGGACAGCTCAAGCTTTATTGTATAGATAT
79551 GCTTTTATAA
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
99 93 1.00
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (99 bp):
TATAAACACCTTTATCAGGCTAGCTGAATCTTATCCATAAAGCCGGGGTGTTTAACCAATTGCCT
TAGAGGGACAGCTCAAGCTTTATTGTATAGATAT
Found at i:83873 original size:23 final size:22
Alignment explanation
Indices: 83847--83921 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 22
83837 CACCACAACT
83847 CATATAATTGCACCGAAGTGCC
1 CATATAATTGCACCGAAGTGCC
*
83869 ACATATAATTGCACCGGAGTGCC
1 -CATATAATTGCACCGAAGTGCC
* * * *
83892 TCGTAGAATTACACCGTAGTGCC
1 -CATATAATTGCACCGAAGTGCC
83915 C-TATAAT
1 CATATAAT
83922 AATGTCCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.11
22 1 0.02
23 39 0.87
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (22 bp):
CATATAATTGCACCGAAGTGCC
Found at i:84102 original size:103 final size:103
Alignment explanation
Indices: 83931--84148 Score: 382
Period size: 103 Copynumber: 2.1 Consensus size: 103
83921 TAATGTCCAT
* *
83931 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
83996 GACTTCATATATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCATACATGTTCCAAAGAATACATATATATCCCG
*
84034 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
84099 GACTTCATACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCATACATGTTCCAAAGAATACATATATATCCCG
*
84137 AAGGATCACATA
1 AAGGACCACATA
84149 GACCCTCGAC
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 109 1.00
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCATACATGTTCCAAAGAATACATATATATCCCG
Found at i:84944 original size:20 final size:19
Alignment explanation
Indices: 84907--84945 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
84897 TCTTTTTTTA
*
84907 TGGGGGAATCGGTTCCCCC
1 TGGGGGAATCGATTCCCCC
*
84926 TGGGGGTATCGATTCCCCC
1 TGGGGGAATCGATTCCCCC
84945 T
1 T
84946 AGCATTCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.10, C:0.31, G:0.33, T:0.26
Consensus pattern (19 bp):
TGGGGGAATCGATTCCCCC
Found at i:85985 original size:63 final size:63
Alignment explanation
Indices: 85913--86119 Score: 172
Period size: 63 Copynumber: 3.2 Consensus size: 63
85903 AATAAAATTG
85913 AACGTATTGAGTTACCTTAATTATATTAACAATATCTTTTTTAAATTTTGATTTCTTTGATTA
1 AACGTATTGAGTTACCTTAATTATATTAACAATATCTTTTTTAAATTTTGATTTCTTTGATTA
** * * ****
85976 AACGTATTGAGTTTAATTTGATATT-TGATT--C-ATAT-TTTTTAAGAAAAAAATTTTAAAAAA
1 AACGTATTGAG-TTACCTT-A-ATTAT-ATTAACAATATCTTTTT------TAAATTTTGATTTC
*** *
86036 TAAAATTG
56 TTTGATTA
*
86044 AACGTATTTAGTTACCTTAATTATATTAACAATATCTTTTTTAAATTTTGATTTCTTTGATTA
1 AACGTATTGAGTTACCTTAATTATATTAACAATATCTTTTTTAAATTTTGATTTCTTTGATTA
86107 AACGTATTGAGTT
1 AACGTATTGAGTT
86120 TAATTTGATA
Statistics
Matches: 103, Mismatches: 26, Indels: 30
0.65 0.16 0.19
Matches are distributed among these distances:
62 5 0.05
63 39 0.38
64 6 0.06
65 8 0.08
66 8 0.08
67 6 0.06
68 26 0.25
69 5 0.05
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (63 bp):
AACGTATTGAGTTACCTTAATTATATTAACAATATCTTTTTTAAATTTTGATTTCTTTGATTA
Found at i:86058 original size:131 final size:131
Alignment explanation
Indices: 85887--86158 Score: 510
Period size: 131 Copynumber: 2.1 Consensus size: 131
85877 ACTGTAAAAT
85887 AGAAAAAAA-TTTAAAAAATAAAATTGAACGTATTGAGTTACCTTAATTATATTAACAATATCTT
1 AGAAAAAAATTTTAAAAAATAAAATTGAACGTATTGAGTTACCTTAATTATATTAACAATATCTT
*
85951 TTTTAAATTTTGATTTCTTTGATTAAACGTATTGAGTTTAATTTGATATTTGATTCATATTTTTT
66 TTTTAAATTTTGATTTCTTTGATTAAACGTATTGAGTTTAATTTGATATCTGATTCATATTTTTT
86016 A
131 A
*
86017 AGAAAAAAATTTTAAAAAATAAAATTGAACGTATTTAGTTACCTTAATTATATTAACAATATCTT
1 AGAAAAAAATTTTAAAAAATAAAATTGAACGTATTGAGTTACCTTAATTATATTAACAATATCTT
86082 TTTTAAATTTTGATTTCTTTGATTAAACGTATTGAGTTTAATTTGATATCTGATTCATATTTTTT
66 TTTTAAATTTTGATTTCTTTGATTAAACGTATTGAGTTTAATTTGATATCTGATTCATATTTTTT
86147 A
131 A
*
86148 AGAAAACAATT
1 AGAAAAAAATT
86159 CTTTAAACAA
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
130 9 0.07
131 129 0.93
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.45
Consensus pattern (131 bp):
AGAAAAAAATTTTAAAAAATAAAATTGAACGTATTGAGTTACCTTAATTATATTAACAATATCTT
TTTTAAATTTTGATTTCTTTGATTAAACGTATTGAGTTTAATTTGATATCTGATTCATATTTTTT
A
Found at i:94044 original size:13 final size:13
Alignment explanation
Indices: 93993--94044 Score: 59
Period size: 13 Copynumber: 4.0 Consensus size: 13
93983 GTCATAAATC
93993 TATGACGCGCATT
1 TATGACGCGCATT
* *
94006 AATGACACGCATT
1 TATGACGCGCATT
* *
94019 TATGACTCACATT
1 TATGACGCGCATT
*
94032 TATGACGTGCATT
1 TATGACGCGCATT
94045 GAGCGTCATT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:107331 original size:21 final size:22
Alignment explanation
Indices: 107305--107359 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
107295 GTGCATAATA
107305 CATCGATACA-CTATGAAAGTG
1 CATCGATACACCTATGAAAGTG
* *
107326 CATCGATACATCCCTTTGAATGTG
1 CATCGATACA--CCTATGAAAGTG
107350 CATCGATACA
1 CATCGATACA
107360 TCATGAAGAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (22 bp):
CATCGATACACCTATGAAAGTG
Found at i:107372 original size:21 final size:22
Alignment explanation
Indices: 107305--107377 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 22
107295 GTGCATAATA
107305 CATCGATACA-CTATGAA-AGTG
1 CATCGATACATCTATGAAGA-TG
*
107326 CATCGATACATCCCTTTGAATG-TG
1 CATCGATACAT--CTATGAA-GATG
107350 CATCGATACATC-ATGAAGATG
1 CATCGATACATCTATGAAGATG
*
107371 CACCGAT
1 CATCGAT
107378 GCACTCCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
20 1 0.02
21 22 0.51
22 1 0.02
24 19 0.44
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (22 bp):
CATCGATACATCTATGAAGATG
Found at i:110108 original size:45 final size:45
Alignment explanation
Indices: 110028--110132 Score: 119
Period size: 45 Copynumber: 2.3 Consensus size: 45
110018 TGCACATACC
*
110028 ATGCATCGATGCACTCCATATATATTAAAATATCGAATTG-AT-TTT
1 ATGCATCGATGCACTCCATATATATTAAAACATCGAA--GCATATTT
* *
110073 ATGCATCGATGCAC-CCATGCT-TTTTCAAAACATCGAAGCATATTT
1 ATGCATCGATGCACTCCAT-ATATATT-AAAACATCGAAGCATATTT
110118 ATGCATCGATGCACT
1 ATGCATCGATGCACT
110133 ATCTGTGTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
43 1 0.02
44 9 0.17
45 42 0.81
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.33
Consensus pattern (45 bp):
ATGCATCGATGCACTCCATATATATTAAAACATCGAAGCATATTT
Found at i:115758 original size:21 final size:21
Alignment explanation
Indices: 115734--115776 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
115724 GGTATGTCAG
* *
115734 AATCGGAGGAGAAGATGAAGA
1 AATCGGAAGAGAAGAGGAAGA
*
115755 AATCGGAAGAGAATAGGAAGA
1 AATCGGAAGAGAAGAGGAAGA
115776 A
1 A
115777 CGAAGGAATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.05, G:0.35, T:0.09
Consensus pattern (21 bp):
AATCGGAAGAGAAGAGGAAGA
Found at i:120818 original size:21 final size:21
Alignment explanation
Indices: 120794--120836 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
120784 GTATTGTCAG
*
120794 AATCGGAGGAGAAGAGGAAGA
1 AATCGGAAGAGAAGAGGAAGA
120815 AATCGGAAGAGAAGAGGAAGA
1 AATCGGAAGAGAAGAGGAAGA
120836 A
1 A
120837 CGAATGAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.05, G:0.40, T:0.05
Consensus pattern (21 bp):
AATCGGAAGAGAAGAGGAAGA
Found at i:122896 original size:23 final size:23
Alignment explanation
Indices: 122854--122897 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
122844 TTTAGGTATC
*
122854 AAAACATATATTTATCTTTAGAA
1 AAAACATATATTTATATTTAGAA
122877 AAAACATATTATTT-TATTTAG
1 AAAACATA-TATTTATATTTAG
122898 TATAGTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
AAAACATATATTTATATTTAGAA
Found at i:127879 original size:42 final size:42
Alignment explanation
Indices: 127813--127894 Score: 146
Period size: 42 Copynumber: 2.0 Consensus size: 42
127803 TCCTAGCACA
*
127813 AATCTTATTATTAACACCGTATTCCTTCGTAACTCTCCGAGC
1 AATCTTATTATTAACACCGCATTCCTTCGTAACTCTCCGAGC
*
127855 AATCTTATTATTAACATCGCATTCCTTCGTAACTCTCCGA
1 AATCTTATTATTAACACCGCATTCCTTCGTAACTCTCCGA
127895 TGTGCTCGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.27, C:0.28, G:0.09, T:0.37
Consensus pattern (42 bp):
AATCTTATTATTAACACCGCATTCCTTCGTAACTCTCCGAGC
Found at i:128829 original size:15 final size:16
Alignment explanation
Indices: 128805--128837 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
128795 CATTCAAATT
128805 AATTTAAAAAT-TTTA
1 AATTTAAAAATCTTTA
*
128820 AATTTCAAAATCTTTA
1 AATTTAAAAATCTTTA
128836 AA
1 AA
128838 ACTAAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
AATTTAAAAATCTTTA
Found at i:131204 original size:83 final size:82
Alignment explanation
Indices: 131086--131518 Score: 487
Period size: 83 Copynumber: 5.3 Consensus size: 82
131076 GATATGCCTA
* * *
131086 AGTGTAATCAAACTTGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGTTTCAAT
1 AGTGTAATCAAACTCGAAGGTCTTTGTGGA-AGATAACCCTTCTAGCCTTGAGTTATGTTTCAAA
*
131151 TGATATGCCTTTGAGCTG
65 TGATGTGCCTTTGAGCTG
* *
131169 AGTGTAGTTAAACTCGAAGGTCTTTGTCGGAAGATAACCCTTCTAGCCTTGAGTTATGTTGT-AA
1 AGTGTAATCAAACTCGAAGGTCTTTGT-GGAAGATAACCCTTCTAGCCTTGAGTTATGTT-TCAA
*
131233 ATGATGTGCCTTGGAGCTG
64 ATGATGTGCCTTTGAGCTG
* * * * * * * * ** * *
131252 AGCGTAGTCTAACTCAAAAGTCTTTGATGAAAAATAACCCTTCTCGGATTGAGTTATGCTGCAAA
1 AGTGTAATCAAACTCGAAGGTCTTTG-TGGAAGATAACCCTTCTAGCCTTGAGTTATGTTTCAAA
*
131317 TGATGTGCCTTGGAGCTG
65 TGATGTGCCTTTGAGCTG
* * * * * * * *
131335 AGCGTAGTCGAACTCGATGGTC-TT-TGGCAGATAACCCTTCTTGCCTTGAGTTATGCTGCAAAT
1 AGTGTAATCAAACTCGAAGGTCTTTGTGGAAGATAACCCTTCTAGCCTTGAGTTATGTTTCAAAT
131398 GATGTGCCTTTGAGCTG
66 GATGTGCCTTTGAGCTG
* * * * *
131415 AGTGTAATCGAACTCGAAGGTCTTGGTTGGAAAATAACTCTTCTAGCCTTGAGTTATGCTGT-AA
1 AGTGTAATCAAACTCGAAGGTCTTTG-TGGAAGATAACCCTTCTAGCCTTGAGTTATG-TTTCAA
131479 ATGATGTGCCTTTGAGCTG
64 ATGATGTGCCTTTGAGCTG
131498 AGTGTAATCAAACTCGAAGGT
1 AGTGTAATCAAACTCGAAGGT
131519 TTTTTGTTTG
Statistics
Matches: 300, Mismatches: 42, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
80 68 0.23
81 1 0.00
82 2 0.01
83 225 0.75
84 4 0.01
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (82 bp):
AGTGTAATCAAACTCGAAGGTCTTTGTGGAAGATAACCCTTCTAGCCTTGAGTTATGTTTCAAAT
GATGTGCCTTTGAGCTG
Found at i:131451 original size:163 final size:166
Alignment explanation
Indices: 131086--131518 Score: 550
Period size: 163 Copynumber: 2.6 Consensus size: 166
131076 GATATGCCTA
* * * *
131086 AGTGTAATCAAACTTGAAGGTCTTTGTT-GACAGATAACCCTTCTAGCCTTGAGTTATGTTTCAA
1 AGTGTAATCAAACTCGAAGGTCTTTGTTGGA-AAATAACCCTTCTAGCCTTGAGTTATGCTGCAA
* * *
131150 TTGATATGCCTTTGAGCTGAGTGTAGTTAAACTCGAAGGTCTTTGTCGGAAGATAACCCTTCTAG
65 ATGATGTGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTCGGAAGATAACCCTTCTAG
* *
131215 CCTTGAGTTATGTTGTAAATGATGTGCCTTGGAGCTG
130 CCTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
* * * * * * * * **
131252 AGCGTAGTCTAACTCAAAAGTCTTTGATGAAAAATAACCCTTCTCGGATTGAGTTATGCTGCAAA
1 AGTGTAATCAAACTCGAAGGTCTTTGTTGGAAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
* * * * * *
131317 TGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGATGGTC-TT-T-GGCAGATAACCCTTCTTGC
66 TGATGTGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTCGGAAGATAACCCTTCTAGC
*
131379 CTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTG
131 CTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
* * * *
131415 AGTGTAATCGAACTCGAAGGTCTTGGTTGGAAAATAACTCTTCTAGCCTTGAGTTATGCTGTAAA
1 AGTGTAATCAAACTCGAAGGTCTTTGTTGGAAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
*
131480 TGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGT
66 TGATGTGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGT
131519 TTTTTGTTTG
Statistics
Matches: 222, Mismatches: 44, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
163 136 0.61
164 1 0.00
165 2 0.01
166 82 0.37
167 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (166 bp):
AGTGTAATCAAACTCGAAGGTCTTTGTTGGAAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAA
TGATGTGCCTTTGAGCTGAGTGTAGTCAAACTCGAAGGTCTTTGTCGGAAGATAACCCTTCTAGC
CTTGAGTTATGCTGCAAATGATGTGCCTTGGAGCTG
Found at i:132055 original size:43 final size:43
Alignment explanation
Indices: 131953--132062 Score: 148
Period size: 43 Copynumber: 2.6 Consensus size: 43
131943 TGATTCCCTT
* * * **
131953 CGTCGTGAAGTTGAAACCGTAGATGTGTGGGCACGATATCCTC
1 CGTCGTGGAGTTGAAATCGTGGATCCGTGGGCACGATATCCTC
* *
131996 CGTCGTGGAGTTGAAATCGTGGATCCGTTGGTACGATATCCTC
1 CGTCGTGGAGTTGAAATCGTGGATCCGTGGGCACGATATCCTC
*
132039 CGTCGTGGAGTTGAAATCGCGGAT
1 CGTCGTGGAGTTGAAATCGTGGAT
132063 GACCCCTTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.21, C:0.20, G:0.32, T:0.27
Consensus pattern (43 bp):
CGTCGTGGAGTTGAAATCGTGGATCCGTGGGCACGATATCCTC
Found at i:132109 original size:34 final size:34
Alignment explanation
Indices: 132067--132151 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 34
132057 GCGGATGACC
132067 CCTTCATCGTGAAGTTGAGCCTT-GACTT-GAATAT
1 CCTTCATCGTGAAGTTGAG-CTTCGACTTAG-ATAT
*
132101 CCTTCATCGTGAAGTTG-GCTTCGAGTTAGATAT
1 CCTTCATCGTGAAGTTGAGCTTCGACTTAGATAT
* *
132134 CATTCGTCGTGAAGTTGA
1 CCTTCATCGTGAAGTTGA
132152 AATATACTCT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
32 3 0.07
33 24 0.53
34 18 0.40
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (34 bp):
CCTTCATCGTGAAGTTGAGCTTCGACTTAGATAT
Found at i:132248 original size:64 final size:64
Alignment explanation
Indices: 132173--132303 Score: 174
Period size: 64 Copynumber: 2.0 Consensus size: 64
132163 GAGCAAATTG
* * * *
132173 TGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTGAATGAAACTGGAAAA-TTGCTTGT
1 TGAGTACAATATCATTCGATGTAAAGTTGAAATTGACTCTGAAT-AAAATGGAAAAGTTGCTTGT
* * * *
132237 TGAGTACAATATCATTTGTTGTAAAGTTGAAATTGACTCTGAATAAAATTGAAAAGTTGTTTGT
1 TGAGTACAATATCATTCGATGTAAAGTTGAAATTGACTCTGAATAAAATGGAAAAGTTGCTTGT
132301 TGA
1 TGA
132304 CAGACGCTCC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 9 0.16
64 49 0.84
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.37
Consensus pattern (64 bp):
TGAGTACAATATCATTCGATGTAAAGTTGAAATTGACTCTGAATAAAATGGAAAAGTTGCTTGT
Found at i:134320 original size:7 final size:7
Alignment explanation
Indices: 134308--134340 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
134298 ATCAATGGAT
134308 TTTTTTG
1 TTTTTTG
134315 TTTTTTG
1 TTTTTTG
134322 TTTTTTG
1 TTTTTTG
134329 TTTTTGTG
1 TTTTT-TG
134337 TTTT
1 TTTT
134341 AACATGATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (7 bp):
TTTTTTG
Found at i:138685 original size:39 final size:39
Alignment explanation
Indices: 138642--138729 Score: 124
Period size: 39 Copynumber: 2.3 Consensus size: 39
138632 GGGGAAAGGA
*
138642 ATTTGTACATAAGAGAATTTGGAATTATTAA-GGAGAGGG
1 ATTTGCACATAAGAGAATTTGGAATTATTAACGG-GAGGG
** *
138681 ATTTGCGTATAAGAGAATTTGGGATTATTAACGGGAGGG
1 ATTTGCACATAAGAGAATTTGGAATTATTAACGGGAGGG
138720 ATTTGCACAT
1 ATTTGCACAT
138730 GAGGGAAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
39 40 0.95
40 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.28, T:0.32
Consensus pattern (39 bp):
ATTTGCACATAAGAGAATTTGGAATTATTAACGGGAGGG
Found at i:139337 original size:126 final size:123
Alignment explanation
Indices: 139193--139451 Score: 412
Period size: 126 Copynumber: 2.1 Consensus size: 123
139183 CAAACATAAA
*
139193 TGCGGGAGATCAACTATTGTGTATAATAACCGAATATTACCTCGTTTTAAAAAAATCATGATGCA
1 TGCGGGAGATCAACTATTGTGCATAATAACCGAATATTACCTCGTTTTAAAAAAATCATGATGCA
*
139258 ATCTTTAAAAAGGATGTCGACCTATTTC-AGGAATTACCAGTAGTCACCCTCGGAGCATACT
66 AT-TTTAAAAA-GATGTCGACCTATTTCGA-GAATTACCAGTAATCACCC-CGGAGCATACT
* * * *
139319 TGCGGGAGATCAACTATTGTGCCTAATAACCGAATATTACCTCGTTTTTAGAAAATCATGATGTA
1 TGCGGGAGATCAACTATTGTGCATAATAACCGAATATTACCTCGTTTTAAAAAAATCATGATGCA
*
139384 GTTTTAAAAAGATGTCGACCTATTTCGAGAATTACCAGTAATCACCCCGGAGCATACT
66 ATTTTAAAAAGATGTCGACCTATTTCGAGAATTACCAGTAATCACCCCGGAGCATACT
139442 TGCGGGAGAT
1 TGCGGGAGAT
139452 ATACCATTAA
Statistics
Matches: 125, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
123 21 0.17
124 34 0.27
125 9 0.07
126 61 0.49
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (123 bp):
TGCGGGAGATCAACTATTGTGCATAATAACCGAATATTACCTCGTTTTAAAAAAATCATGATGCA
ATTTTAAAAAGATGTCGACCTATTTCGAGAATTACCAGTAATCACCCCGGAGCATACT
Found at i:140181 original size:14 final size:13
Alignment explanation
Indices: 140162--140227 Score: 53
Period size: 13 Copynumber: 4.7 Consensus size: 13
140152 AAACTTAATT
*
140162 AAAATAACAAGTAA
1 AAAATAA-AAATAA
140176 AAAATAAAAATAA
1 AAAATAAAAATAA
*
140189 AAACAGTAAAAACAA
1 AAA-A-TAAAAATAA
140204 CATAAATAACAAAT-A
1 -A-AAATAA-AAATAA
140219 AAAATAAAA
1 AAAATAAAA
140228 TAAGTACAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
12 2 0.05
13 14 0.32
14 9 0.20
15 12 0.27
16 5 0.11
17 2 0.05
ACGTcount: A:0.76, C:0.08, G:0.03, T:0.14
Consensus pattern (13 bp):
AAAATAAAAATAA
Found at i:144123 original size:13 final size:13
Alignment explanation
Indices: 144105--144129 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
144095 GTCATCAACG
144105 TACTAGTAGTATA
1 TACTAGTAGTATA
144118 TACTAGTAGTAT
1 TACTAGTAGTAT
144130 GTGATATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TACTAGTAGTATA
Found at i:163242 original size:2 final size:2
Alignment explanation
Indices: 163235--163266 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
163225 ATTAGTAATA
163235 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
163267 TAAAAATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163908 original size:2 final size:2
Alignment explanation
Indices: 163903--163939 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
163893 TATGATAAAT
163903 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 T
163940 TTTGTTATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:165283 original size:59 final size:58
Alignment explanation
Indices: 165173--165284 Score: 147
Period size: 58 Copynumber: 1.9 Consensus size: 58
165163 ACTTTAACTA
* *
165173 TCATTCTAAATTAGTCCTCAAACTTTTGAATTTTCATTCCATCCTCAAACTATGACCT
1 TCATTCTAAATTAGTCCTCAAACTTTTAAAATTTCATTCCATCCTCAAACTATGACCT
* *
165231 TCATTCTAAATTGGTCC-CAAACTTTTTAAACATTTCAATTTCATCC-CAAACTAT
1 TCATTCTAAATTAGTCCTCAAAC-TTTTAAA-ATTTC-ATTCCATCCTCAAACTAT
165285 ACATATATAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 5 0.11
58 22 0.47
59 12 0.26
60 8 0.17
ACGTcount: A:0.31, C:0.25, G:0.04, T:0.39
Consensus pattern (58 bp):
TCATTCTAAATTAGTCCTCAAACTTTTAAAATTTCATTCCATCCTCAAACTATGACCT
Done.