Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001128.1 Hibiscus syriacus cultivar Beakdansim tig00002231_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: 251207
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:763 original size:19 final size:17
Alignment explanation
Indices: 738--787 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 17
728 TATCGTAACG
738 AGAAAATCGCAATGCGAA
1 AGAAAATCGCAATGCG-A
756 ATGAAAATCGCAA--CG-
1 A-GAAAATCGCAATGCGA
771 AGAAAATCGCAATGCGA
1 AGAAAATCGCAATGCGA
788 TTTTCATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
14 11 0.39
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 11 0.39
ACGTcount: A:0.48, C:0.18, G:0.22, T:0.12
Consensus pattern (17 bp):
AGAAAATCGCAATGCGA
Found at i:775 original size:14 final size:14
Alignment explanation
Indices: 729--782 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
719 GAAACTGACT
*
729 ATCGTAACGAGAAA
1 ATCGCAACGAGAAA
743 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAAA
762 ATCGCAACGAGAAA
1 ATCGCAACGAGAAA
776 ATCGCAA
1 ATCGCAA
783 TGCGATTTTC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 17 0.50
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 11 0.32
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (14 bp):
ATCGCAACGAGAAA
Found at i:881 original size:20 final size:20
Alignment explanation
Indices: 814--881 Score: 50
Period size: 20 Copynumber: 3.4 Consensus size: 20
804 CGATTTTCTA
* *
814 GTTGCGATAGCCATTTTCGC
1 GTTGCGATATCCATTTTCAC
* *
834 GTTGCGATTTTTCA-TTTCGA-
1 GTTGCGA-TATCCATTTTC-AC
* *
854 ATTACGATATCCATTTTCAC
1 GTTGCGATATCCATTTTCAC
874 GTTGCGAT
1 GTTGCGAT
882 TTCCCCGTTG
Statistics
Matches: 34, Mismatches: 10, Indels: 8
0.65 0.19 0.15
Matches are distributed among these distances:
19 5 0.15
20 26 0.76
21 3 0.09
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (20 bp):
GTTGCGATATCCATTTTCAC
Found at i:1119 original size:20 final size:20
Alignment explanation
Indices: 1094--1143 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1084 TTTAAGATGA
1094 TTGCGATTTTCAGAATCTCG
1 TTGCGATTTTCAGAATCTCG
*** * *
1114 TTGCGAAAGTCAGATTCTTG
1 TTGCGATTTTCAGAATCTCG
1134 TTGCGATTTT
1 TTGCGATTTT
1144 GTATTATCTC
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (20 bp):
TTGCGATTTTCAGAATCTCG
Found at i:2194 original size:15 final size:15
Alignment explanation
Indices: 2174--2211 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
2164 AAGAAAAGAA
2174 GAAGAAAAAGTCCCC
1 GAAGAAAAAGTCCCC
2189 GAAGAAAAAGTCCCC
1 GAAGAAAAAGTCCCC
2204 GAAGAAAA
1 GAAGAAAA
2212 GAAAATGCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.53, C:0.21, G:0.21, T:0.05
Consensus pattern (15 bp):
GAAGAAAAAGTCCCC
Found at i:4509 original size:33 final size:33
Alignment explanation
Indices: 4472--4544 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
4462 AGAAATTACT
4472 ATCGCAACGAGAGA-ATCGCAATACGAAATGAAA
1 ATCGCAACGAGA-ATATCGCAATACGAAATGAAA
* * *
4505 ATCGCAACGCGAATTTCGCAATGCGAAATGAAA
1 ATCGCAACGAGAATATCGCAATACGAAATGAAA
4538 ATCGCAA
1 ATCGCAA
4545 TGCGAAATGA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 1 0.03
33 35 0.97
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.15
Consensus pattern (33 bp):
ATCGCAACGAGAATATCGCAATACGAAATGAAA
Found at i:4550 original size:33 final size:33
Alignment explanation
Indices: 4487--4550 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
4477 AACGAGAGAA
4487 TCGCAATACGAAATGAAAATCGCAACGCGAATT
1 TCGCAATACGAAATGAAAATCGCAACGCGAATT
* *
4520 TCGCAATGCGAAATGAAAATCGCAATGCGAA
1 TCGCAATACGAAATGAAAATCGCAACGCGAA
4551 ATGAAAATCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (33 bp):
TCGCAATACGAAATGAAAATCGCAACGCGAATT
Found at i:4568 original size:19 final size:19
Alignment explanation
Indices: 4485--4569 Score: 99
Period size: 19 Copynumber: 4.7 Consensus size: 19
4475 GCAACGAGAG
*
4485 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4504 AATCGCAACGCG-AAT---
1 AATCGCAATGCGAAATGAA
*
4519 -TTCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4537 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4556 AATCGCAACGCGAA
1 AATCGCAATGCGAA
4570 TTTAATTTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 10
0.77 0.08 0.14
Matches are distributed among these distances:
14 9 0.16
15 3 0.05
18 3 0.05
19 40 0.73
ACGTcount: A:0.45, C:0.20, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4714 original size:14 final size:14
Alignment explanation
Indices: 4695--4731 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4685 CATCAATTAA
4695 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4709 ACAAATCACCTTTT
1 ACAAATCAACTTTT
4723 ACAAATCAA
1 ACAAATCAA
4732 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6131 original size:21 final size:21
Alignment explanation
Indices: 6065--6131 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6055 GTGAATCGGG
*
6065 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
6085 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
6107 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
6128 CTCT
1 CTCT
6132 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:6150 original size:42 final size:41
Alignment explanation
Indices: 6065--6187 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
6055 GTGAATCGGG
* * * *
6065 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
6107 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
6149 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
6188 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:6580 original size:91 final size:90
Alignment explanation
Indices: 6405--6589 Score: 300
Period size: 91 Copynumber: 2.0 Consensus size: 90
6395 ATTTCAAACT
*
6405 TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
6470 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
6498 TTCAACCAAAAGATAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGATAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
6562 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
6589 T
1 T
6590 AAGCAATCTA
Statistics
Matches: 88, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 27 0.31
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGATAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:8296 original size:20 final size:19
Alignment explanation
Indices: 8265--8372 Score: 102
Period size: 20 Copynumber: 5.8 Consensus size: 19
8255 TCTTTTGGTT
8265 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
8284 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
8305 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
8324 G--A-G--AATCGCAAC-A
1 GAAATGAAAATCGCAACGA
*
8337 CGAAATGAAAATCGCAACGC
1 -GAAATGAAAATCGCAACGA
8357 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
8373 TGCGATTTTG
Statistics
Matches: 73, Mismatches: 7, Indels: 18
0.74 0.07 0.18
Matches are distributed among these distances:
13 1 0.01
14 9 0.12
16 2 0.03
17 2 0.03
19 28 0.38
20 29 0.40
21 2 0.03
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:8309 original size:40 final size:37
Alignment explanation
Indices: 8265--8372 Score: 116
Period size: 33 Copynumber: 2.9 Consensus size: 37
8255 TCTTTTGGTT
*
8265 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACG-GA-AATGAGAATCGCAACAC
**
8304 GGAAATGACTATCGCAAC-G--A-GAGAATCGCAACAC
1 -GAAATGAAAATCGCAACGGAAATGAGAATCGCAACAC
*
8338 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 GAAATGAAAATCGCAACG-GAAATGAGAATCGCAA
8373 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
33 15 0.26
34 13 0.23
35 2 0.04
37 1 0.02
38 11 0.19
40 15 0.26
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGGAAATGAGAATCGCAACAC
Found at i:8377 original size:19 final size:19
Alignment explanation
Indices: 8265--8377 Score: 110
Period size: 19 Copynumber: 6.1 Consensus size: 19
8255 TCTTTTGGTT
*
8265 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
8284 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
8304 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
8322 G--A-GAGAATCGCAACAC
1 GAAATGAAAATCGCAACGC
8338 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
8357 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
8376 GA
1 GA
8378 TTTTGGTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
14 9 0.12
15 1 0.01
16 2 0.03
17 1 0.01
18 2 0.03
19 34 0.44
20 27 0.35
21 2 0.03
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:8395 original size:19 final size:19
Alignment explanation
Indices: 8373--8439 Score: 73
Period size: 19 Copynumber: 3.5 Consensus size: 19
8363 AAAATCGCAA
* *
8373 TGCGATTTTGGTTTTGCGT
1 TGCGATTTTGATTTCGCGT
*
8392 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
8411 TGCGATAGTT-ATTTCCGCGT
1 TGCGAT-TTTGATTT-CGCGT
8431 TGCGATTTT
1 TGCGATTTT
8440 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 28 0.68
20 13 0.32
ACGTcount: A:0.10, C:0.15, G:0.25, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:9011 original size:20 final size:20
Alignment explanation
Indices: 8959--9070 Score: 120
Period size: 20 Copynumber: 5.5 Consensus size: 20
8949 GCTATGTAAA
* *
8959 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-TTACGTAT
8979 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
8999 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
*
9020 TCGCTTTGCGATTTAC-TAAT
1 TCGCATTGCGATTTACGT-AT
*
9040 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
9060 TCACATTGCGA
1 TCGCATTGCGA
9071 ATTATGAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
19 3 0.04
20 60 0.75
21 17 0.21
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:9093 original size:21 final size:21
Alignment explanation
Indices: 9067--9126 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
9057 TATTCACATT
*
9067 GCGAATTATGAAAATCGCAAC
1 GCGAATTACGAAAATCGCAAC
* *
9088 GCGAA-TACGTAAATCGCAAT
1 GCGAATTACGAAAATCGCAAC
*
9108 GCGAATTAGGAAAATCGCA
1 GCGAATTACGAAAATCGCA
9127 TTGCGATAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
20 17 0.52
21 16 0.48
ACGTcount: A:0.42, C:0.18, G:0.22, T:0.18
Consensus pattern (21 bp):
GCGAATTACGAAAATCGCAAC
Found at i:9131 original size:21 final size:21
Alignment explanation
Indices: 9066--9132 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
9056 GTATTCACAT
*
9066 TGCGAATTATGAAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* *
9087 CGCGAA-TACGTAAATCGCAA
1 TGCGAATTACGAAAATCGCAA
* *
9107 TGCGAATTAGGAAAATCGCAT
1 TGCGAATTACGAAAATCGCAA
9128 TGCGA
1 TGCGA
9133 TAGTCAGTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.45
21 21 0.55
ACGTcount: A:0.39, C:0.18, G:0.22, T:0.21
Consensus pattern (21 bp):
TGCGAATTACGAAAATCGCAA
Found at i:9150 original size:20 final size:20
Alignment explanation
Indices: 9125--9194 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 20
9115 AGGAAAATCG
*
9125 CATTGCGATAGTCAGTATCT
1 CATTGCGATAGTCAGTATCA
* ** * *
9145 CATTGCGGTTTTCCA-AATTCG
1 CATTGCGATAGT-CAGTA-TCA
9166 CATTGCGATAGTCAGTATCA
1 CATTGCGATAGTCAGTATCA
9186 CATTGCGAT
1 CATTGCGAT
9195 TTTCCAAATT
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
20 23 0.62
21 14 0.38
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.34
Consensus pattern (20 bp):
CATTGCGATAGTCAGTATCA
Found at i:9171 original size:21 final size:21
Alignment explanation
Indices: 9145--9234 Score: 78
Period size: 20 Copynumber: 4.4 Consensus size: 21
9135 GTCAGTATCT
*
9145 CATTGCGGTTTTCCAAATTCG
1 CATTGCGATTTTCCAAATTCG
** * *
9166 CATTGCGATAGT-C-AGTATCA
1 CATTGCGATTTTCCAAAT-TCG
9186 CATTGCGATTTTCCAAATTCG
1 CATTGCGATTTTCCAAATTCG
* **
9207 CATTGCGA-TTTACTTATTCG
1 CATTGCGATTTTCCAAATTCG
9227 CATTGCGA
1 CATTGCGA
9235 ATTGGGAAAA
Statistics
Matches: 54, Mismatches: 12, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
19 2 0.04
20 30 0.56
21 20 0.37
22 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.37
Consensus pattern (21 bp):
CATTGCGATTTTCCAAATTCG
Found at i:9179 original size:41 final size:41
Alignment explanation
Indices: 9122--9215 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
9112 ATTAGGAAAA
* *
9122 TCGCATTGCGATAGTCAGTATCTCATTGCGGTTTTCCAAAT
1 TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCAAAT
9163 TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCAAAT
9204 TCGCATTGCGAT
1 TCGCATTGCGAT
9216 TTACTTATTC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (41 bp):
TCGCATTGCGATAGTCAGTATCACATTGCGATTTTCCAAAT
Found at i:9276 original size:21 final size:22
Alignment explanation
Indices: 9224--9276 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
9214 ATTTACTTAT
9224 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
9245 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
9266 TCGCATTGCGA
1 TCGCATTGCGA
9277 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:10551 original size:22 final size:22
Alignment explanation
Indices: 10526--10569 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
10516 CGCAACATGC
10526 TGCTATAATTGCTGACAAAAGA
1 TGCTATAATTGCTGACAAAAGA
10548 TGCTATAATTGCTGACAAAAGA
1 TGCTATAATTGCTGACAAAAGA
10570 AATACACTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (22 bp):
TGCTATAATTGCTGACAAAAGA
Found at i:11426 original size:37 final size:37
Alignment explanation
Indices: 11350--11426 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 37
11340 TTTTTATATT
* *
11350 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATAAAAATATTATCAA
* * *
11387 TTTAATTTTTTAAAGAAAATATATAAAAATTTTA-CAA
1 TTTAATTTTGTAAAAAAAAT-TATAAAAATATTATCAA
11424 TTT
1 TTT
11427 GAAATATTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 23 0.68
38 11 0.32
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATAAAAATATTATCAA
Found at i:11584 original size:18 final size:18
Alignment explanation
Indices: 11561--11609 Score: 71
Period size: 20 Copynumber: 2.6 Consensus size: 18
11551 CTCAGTAATC
11561 TTATTCCCTGATAATCTT
1 TTATTCCCTGATAATCTT
11579 TTATTCCCACTGATAATCTT
1 TTATT-CC-CTGATAATCTT
*
11599 ATATTCCCTGA
1 TTATTCCCTGA
11610 ACCAAACACA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 9 0.32
19 4 0.14
20 15 0.54
ACGTcount: A:0.24, C:0.24, G:0.06, T:0.45
Consensus pattern (18 bp):
TTATTCCCTGATAATCTT
Found at i:33630 original size:36 final size:33
Alignment explanation
Indices: 33577--33648 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 33
33567 ACCTTACCCC
*
33577 TAACTTAAAATCCTAAATTATAAACCCTAAACCT
1 TAACTTAAAATCCTAAATCATAAACCCTAAA-CT
* *
33611 TAACTTCATAATCTCTAAATCATAAATCCTAAACT
1 TAACTT-AAAATC-CTAAATCATAAACCCTAAACT
33646 TAA
1 TAA
33649 ATCATAACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 6 0.18
35 10 0.30
36 17 0.52
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (33 bp):
TAACTTAAAATCCTAAATCATAAACCCTAAACT
Found at i:34416 original size:14 final size:14
Alignment explanation
Indices: 34396--34434 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
34386 TCTGTCTATA
34396 TTGCAGAGATTT-T
1 TTGCAGAGATTTAT
34409 TATGCAGAGATTTAT
1 T-TGCAGAGATTTAT
*
34424 TTGCAGGGATT
1 TTGCAGAGATT
34435 ACTTCCCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 1 0.04
14 20 0.87
15 2 0.09
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.41
Consensus pattern (14 bp):
TTGCAGAGATTTAT
Found at i:34762 original size:14 final size:14
Alignment explanation
Indices: 34731--34797 Score: 55
Period size: 14 Copynumber: 4.8 Consensus size: 14
34721 CTTGTTAGGG
** *
34731 TTAGAGTTTTGGAA
1 TTAGAGTTTAAGAT
34745 TTAGAGTTTAAGAT
1 TTAGAGTTTAAGAT
* *
34759 TTAGAATTT-AGGT
1 TTAGAGTTTAAGAT
*
34772 CTTAGAGTTTAATAT
1 -TTAGAGTTTAAGAT
*
34787 TTAGGGTTTAA
1 TTAGAGTTTAA
34798 AGTTTGGAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
13 3 0.07
14 37 0.88
15 2 0.05
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.45
Consensus pattern (14 bp):
TTAGAGTTTAAGAT
Found at i:34782 original size:21 final size:21
Alignment explanation
Indices: 34745--34809 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
34735 AGTTTTGGAA
*
34745 TTAGAGTTT-AAGATTTAGAAT
1 TTAGGGTTTAAAG-TTTAGAAT
*
34766 TTA-GGTCTTAGAGTTTA-ATAT
1 TTAGGGT-TTAAAGTTTAGA-AT
*
34787 TTAGGGTTTAAAGTTTGGAAT
1 TTAGGGTTTAAAGTTTAGAAT
34808 TT
1 TT
34810 GGAGATTTGA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
20 3 0.09
21 26 0.74
22 6 0.17
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.46
Consensus pattern (21 bp):
TTAGGGTTTAAAGTTTAGAAT
Found at i:36205 original size:20 final size:20
Alignment explanation
Indices: 36180--36252 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
36170 ATTTTGCACT
*
36180 ATCGCAACGCGAAATAGAAA
1 ATCGCAACGCGAAATGGAAA
* * **
36200 ATCGCAATGCGAATTTGGACT
1 ATCGCAACGCGAA-ATGGAAA
36221 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
36241 ATCGCAATGCGA
1 ATCGCAACGCGA
36253 TTTTGGACTA
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.40, C:0.21, G:0.23, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:36222 original size:41 final size:41
Alignment explanation
Indices: 36172--36274 Score: 170
Period size: 41 Copynumber: 2.5 Consensus size: 41
36162 GCATTGTGAT
*
36172 TTTGCACTATCGCAACGCGAAATAGAAAATCGCAATGCGAA
1 TTTGGACTATCGCAACGCGAAATAGAAAATCGCAATGCGAA
* *
36213 TTTGGACTATCGCAACGCGAAATGGAAAATCGCAATGCGAT
1 TTTGGACTATCGCAACGCGAAATAGAAAATCGCAATGCGAA
*
36254 TTTGGACTATCGTAACGCGAA
1 TTTGGACTATCGCAACGCGAA
36275 TTTGGAAACT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (41 bp):
TTTGGACTATCGCAACGCGAAATAGAAAATCGCAATGCGAA
Found at i:36226 original size:21 final size:21
Alignment explanation
Indices: 36172--36280 Score: 96
Period size: 21 Copynumber: 5.3 Consensus size: 21
36162 GCATTGTGAT
*
36172 TTTGCACTATCGCAACGCGAA
1 TTTGGACTATCGCAACGCGAA
* * ** *
36193 -ATAGAAAATCGCAATGCGAA
1 TTTGGACTATCGCAACGCGAA
36213 TTTGGACTATCGCAACGCGAA
1 TTTGGACTATCGCAACGCGAA
* ** * *
36234 -ATGGAAAATCGCAATGCGAT
1 TTTGGACTATCGCAACGCGAA
*
36254 TTTGGACTATCGTAACGCGAA
1 TTTGGACTATCGCAACGCGAA
36275 TTTGGA
1 TTTGGA
36281 AACTGAGTTA
Statistics
Matches: 64, Mismatches: 22, Indels: 4
0.71 0.24 0.04
Matches are distributed among these distances:
20 29 0.45
21 35 0.55
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (21 bp):
TTTGGACTATCGCAACGCGAA
Found at i:36339 original size:21 final size:21
Alignment explanation
Indices: 36312--36374 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
36302 TCGCGTTGCG
*
36312 ATATCGCAATGCGAATTTGGA
1 ATATCGCAACGCGAATTTGGA
* *
36333 CTATCGCAACGCGAA-ATGGA
1 ATATCGCAACGCGAATTTGGA
* *
36353 AAATCGCAACACGAATTTGGA
1 ATATCGCAACGCGAATTTGGA
36374 A
1 A
36375 ACTGAGTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
20 16 0.47
21 18 0.53
ACGTcount: A:0.38, C:0.19, G:0.22, T:0.21
Consensus pattern (21 bp):
ATATCGCAACGCGAATTTGGA
Found at i:59276 original size:18 final size:18
Alignment explanation
Indices: 59253--59287 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59243 TTCCATCCGG
*
59253 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
59271 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
59288 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:60408 original size:8 final size:8
Alignment explanation
Indices: 60389--60422 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
60379 GTCAACAGTA
60389 GTCAAC-G
1 GTCAACGG
60396 GTCAACGG
1 GTCAACGG
60404 GTCAACGG
1 GTCAACGG
60412 GTCAACGG
1 GTCAACGG
60420 GTC
1 GTC
60423 GGGTCAACGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.23
8 20 0.77
ACGTcount: A:0.24, C:0.26, G:0.35, T:0.15
Consensus pattern (8 bp):
GTCAACGG
Found at i:60427 original size:13 final size:13
Alignment explanation
Indices: 60395--60471 Score: 55
Period size: 13 Copynumber: 5.3 Consensus size: 13
60385 AGTAGTCAAC
60395 GGTCAACGGGTCAACG
1 GGTCAACGGGT---CG
60411 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
60424 GGTCAACGAGTCGAGTCA
1 GGTCAAC--G--G-GTCG
60442 GGTCAACGGGTCG
1 GGTCAACGGGTCG
* *
60455 GATAAACGGGTCG
1 GGTCAACGGGTCG
60468 GGTC
1 GGTC
60472 GGGTAAACGG
Statistics
Matches: 50, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 25 0.50
14 1 0.02
15 1 0.02
16 12 0.24
17 1 0.02
18 10 0.20
ACGTcount: A:0.22, C:0.22, G:0.40, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:60449 original size:31 final size:31
Alignment explanation
Indices: 60411--60489 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
60401 CGGGTCAACG
60411 GGTCAACGGGTCGGGTCAACGAGTCGAGTCA
1 GGTCAACGGGTCGGGTCAACGAGTCGAGTCA
* * * * *
60442 GGTCAACGGGTCGGATAAACGGGTCGGGTCG
1 GGTCAACGGGTCGGGTCAACGAGTCGAGTCA
* *
60473 GGTAAACGGGTTGGGTC
1 GGTCAACGGGTCGGGTC
60490 GGGTTGTGAC
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.20, C:0.19, G:0.43, T:0.18
Consensus pattern (31 bp):
GGTCAACGGGTCGGGTCAACGAGTCGAGTCA
Found at i:60492 original size:18 final size:18
Alignment explanation
Indices: 60448--60493 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
60438 GTCAGGTCAA
*
60448 CGGGTCGGATAAACGGGT
1 CGGGTCGGGTAAACGGGT
60466 CGGGTCGGGTAAACGGGT
1 CGGGTCGGGTAAACGGGT
*
60484 TGGGTCGGGT
1 CGGGTCGGGT
60494 TGTGACCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.15, C:0.15, G:0.50, T:0.20
Consensus pattern (18 bp):
CGGGTCGGGTAAACGGGT
Found at i:61324 original size:19 final size:19
Alignment explanation
Indices: 61300--61336 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61290 CTAAATGGAA
61300 CTTATGCAATAACGAAGAG
1 CTTATGCAATAACGAAGAG
*
61319 CTTATGCAATAATGAAGA
1 CTTATGCAATAACGAAGA
61337 CTACATACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (19 bp):
CTTATGCAATAACGAAGAG
Found at i:62987 original size:22 final size:23
Alignment explanation
Indices: 62924--62977 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
62914 CTTAAAATCT
*
62924 TAAATTATAAA-CT-ATAACCTC
1 TAAATCATAAACCTCATAACCTC
*
62945 TAAACCAT-AACCTCATAACCTC
1 TAAATCATAAACCTCATAACCTC
62967 TAAATCATAAA
1 TAAATCATAAA
62978 TCCTAAACCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 2 0.07
21 8 0.30
22 15 0.56
23 2 0.07
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAATCATAAACCTCATAACCTC
Found at i:70372 original size:28 final size:28
Alignment explanation
Indices: 70340--70393 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
70330 AAAGCATAAG
*
70340 TTATGATTTAGGGTTTAAAGTTTAGAGA
1 TTATGATTTAAGGTTTAAAGTTTAGAGA
*
70368 TTATGATTTAAGGTTTAAGGTTTAGA
1 TTATGATTTAAGGTTTAAAGTTTAGA
70394 AGTTGAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.44
Consensus pattern (28 bp):
TTATGATTTAAGGTTTAAAGTTTAGAGA
Found at i:73412 original size:31 final size:31
Alignment explanation
Indices: 73359--73443 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
73349 AAACTACACA
* *
73359 TTTAATACTAAAACTATTAATTTTAATT-TAT
1 TTTAATACTTAAACTATCAATTTT-ATTCTAT
* *
73390 TTTAGTACTTAAACTATCAATTTTGTTCTAT
1 TTTAATACTTAAACTATCAATTTTATTCTAT
* *
73421 TTTATTA-TCTAAACTTTCAATTT
1 TTTAATACT-TAAACTATCAATTT
73444 CTTTTTAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
30 3 0.07
31 43 0.93
ACGTcount: A:0.34, C:0.11, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTAATACTTAAACTATCAATTTTATTCTAT
Found at i:76591 original size:31 final size:31
Alignment explanation
Indices: 76555--76657 Score: 116
Period size: 32 Copynumber: 3.3 Consensus size: 31
76545 GAAGATGAAT
**
76555 TTTGATAAATTTAATAATTATTTTATAATAA
1 TTTGATAAATTTAATAACCATTTTATAATAA
* *
76586 TTTGATAAATTTTAGTGACCATTTTATAATAA
1 TTTGATAAA-TTTAATAACCATTTTATAATAA
* * * *
76618 TTTGATAAATTTTAGTGACCGTTTTATAACAA
1 TTTGATAAA-TTTAATAACCATTTTATAATAA
76650 TTTGATAA
1 TTTGATAA
76658 CCAACATCAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
31 9 0.14
32 56 0.86
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (31 bp):
TTTGATAAATTTAATAACCATTTTATAATAA
Found at i:76610 original size:32 final size:32
Alignment explanation
Indices: 76574--76657 Score: 150
Period size: 32 Copynumber: 2.6 Consensus size: 32
76564 TTTAATAATT
76574 ATTTTATAATAATTTGATAAATTTTAGTGACC
1 ATTTTATAATAATTTGATAAATTTTAGTGACC
76606 ATTTTATAATAATTTGATAAATTTTAGTGACC
1 ATTTTATAATAATTTGATAAATTTTAGTGACC
* *
76638 GTTTTATAACAATTTGATAA
1 ATTTTATAATAATTTGATAA
76658 CCAACATCAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (32 bp):
ATTTTATAATAATTTGATAAATTTTAGTGACC
Found at i:85189 original size:27 final size:28
Alignment explanation
Indices: 85136--85191 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
85126 CATATTAGAA
*
85136 AAATCAACAAACAATAACACTTATATTTTC
1 AAATCAACAAAC-A-AACACCTATATTTTC
85166 AAATCAACAAAC-AACACCTATATTTT
1 AAATCAACAAACAAACACCTATATTTT
85192 ATTTTTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 13 0.52
30 12 0.48
ACGTcount: A:0.50, C:0.21, G:0.00, T:0.29
Consensus pattern (28 bp):
AAATCAACAAACAAACACCTATATTTTC
Found at i:85873 original size:18 final size:16
Alignment explanation
Indices: 85850--85905 Score: 71
Period size: 15 Copynumber: 3.5 Consensus size: 16
85840 CACCAAACAC
85850 GGTGGTTGGAGTCCCTGT
1 GGTGGTTGGAG--CCTGT
85868 GGTGGTT-GAGCCTGT
1 GGTGGTTGGAGCCTGT
*
85883 GGTGGTTGG-GCCGGT
1 GGTGGTTGGAGCCTGT
85898 GGTGGTTG
1 GGTGGTTG
85906 TCCCGGTTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
15 25 0.69
16 1 0.03
17 3 0.08
18 7 0.19
ACGTcount: A:0.04, C:0.12, G:0.52, T:0.32
Consensus pattern (16 bp):
GGTGGTTGGAGCCTGT
Found at i:85911 original size:15 final size:15
Alignment explanation
Indices: 85860--85912 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
85850 GGTGGTTGGA
*
85860 GTCCCTGTGGTGGTT
1 GTCCCGGTGGTGGTT
** *
85875 GAGCCTGTGGTGGTT
1 GTCCCGGTGGTGGTT
**
85890 GGGCCGGTGGTGGTT
1 GTCCCGGTGGTGGTT
85905 GTCCCGGT
1 GTCCCGGT
85913 TTGTGTGGTG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.02, C:0.19, G:0.47, T:0.32
Consensus pattern (15 bp):
GTCCCGGTGGTGGTT
Found at i:87417 original size:21 final size:21
Alignment explanation
Indices: 87393--87444 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
87383 TAGTAATGAC
87393 GTGCTGATGTAGCGGTTCACA
1 GTGCTGATGTAGCGGTTCACA
87414 GTGCTGATGTAGCGGTTCACA
1 GTGCTGATGTAGCGGTTCACA
87435 GTGCTGATGT
1 GTGCTGATGT
87445 GGTAGTCCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (21 bp):
GTGCTGATGTAGCGGTTCACA
Found at i:88523 original size:60 final size:59
Alignment explanation
Indices: 88402--88525 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 59
88392 GGTAAATTCA
* *
88402 ACTATAGGGTATTACTTTGTTGAGTCCCCGACTATTAAAAGTTACAAAACGGTCTATTG
1 ACTATAGGGTATTACTTTGTTGAGTCCCCGACTATTAAAAATTACAAAACGGTCTACTG
* * ** * *
88461 ACTATAGGGTGTTGCTTTGTTGAGTTCCTTGGCTATTAAAAATTACAAAATGGTC-ACCTG
1 ACTATAGGGTATTACTTTGTTGAG-TCCCCGACTATTAAAAATTACAAAACGGTCTA-CTG
88521 ACTAT
1 ACTAT
88526 TCATTATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 23 0.42
60 32 0.58
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (59 bp):
ACTATAGGGTATTACTTTGTTGAGTCCCCGACTATTAAAAATTACAAAACGGTCTACTG
Found at i:89410 original size:60 final size:61
Alignment explanation
Indices: 89311--89424 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 61
89301 GGTGATCGAT
*
89311 TTGTAACTTTTAATAGTCGATGGACTCAAAAAAGCAATACTCAATAGTC-AGAGGACTATA
1 TTGTAACTTTTAATAGTCGATGGACTCAAAAAAGCAATACCCAATAGTCGAGAGGACTATA
* * * *
89371 TTGTAACTTTTAGTAGTCGATGGACTTAATAAAA-TAATACCCTATAGTCGAGAG
1 TTGTAACTTTTAATAGTCGATGGACTCAA-AAAAGCAATACCCAATAGTCGAGAG
89425 ACCATTTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
60 39 0.83
61 8 0.17
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (61 bp):
TTGTAACTTTTAATAGTCGATGGACTCAAAAAAGCAATACCCAATAGTCGAGAGGACTATA
Found at i:89440 original size:60 final size:60
Alignment explanation
Indices: 89314--89440 Score: 143
Period size: 60 Copynumber: 2.1 Consensus size: 60
89304 GATCGATTTG
* * *
89314 TAACTTTTAATAGTCGATGGACTCAAAAAAGCAATACTCAATAGTCAGAGGACTATATTG
1 TAACTTTTAATAGTCGATGGACTCAAAAAAGCAATACCCAATAGTCAGAGGACCATATTA
* * * *
89374 TAACTTTTAGTAGTCGATGGACTTAATAAAA-TAATACCCTATAGTC-GAGAGACCAT-TTA
1 TAACTTTTAATAGTCGATGGACTCAA-AAAAGCAATACCCAATAGTCAGAG-GACCATATTA
89433 TATACTTT
1 TA-ACTTT
89441 ACCCAAAGTT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
59 7 0.12
60 46 0.81
61 4 0.07
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (60 bp):
TAACTTTTAATAGTCGATGGACTCAAAAAAGCAATACCCAATAGTCAGAGGACCATATTA
Found at i:98646 original size:36 final size:38
Alignment explanation
Indices: 98579--98660 Score: 116
Period size: 37 Copynumber: 2.2 Consensus size: 38
98569 CCCATTATCA
* *
98579 TTTTC-AACAAACATCTACCAAACTTTGAAAAACTA-T
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACCATT
*
98615 TTTTCAAAGAAACATTTACCAAACTTT-AAAAACCATT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACCATT
98652 TTTTCAAAG
1 TTTTCAAAG
98661 TTGGTTACCA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
36 12 0.29
37 29 0.71
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.33
Consensus pattern (38 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAACCATT
Found at i:101916 original size:36 final size:38
Alignment explanation
Indices: 101848--101929 Score: 107
Period size: 37 Copynumber: 2.2 Consensus size: 38
101838 CCCATTATCA
* *
101848 TTTTC-AACAAACATCTACCAAACTTTTAAAAACTA-T
1 TTTTCAAAGAAACATCTACCAAACTTTTAAAAACCATT
* *
101884 TTTTCAAAGAAACATTTACCAAAC-TTTGAAAACCATT
1 TTTTCAAAGAAACATCTACCAAACTTTTAAAAACCATT
101921 TTTTCAAAG
1 TTTTCAAAG
101930 TTGATTACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 14 0.35
37 26 0.65
ACGTcount: A:0.43, C:0.20, G:0.04, T:0.34
Consensus pattern (38 bp):
TTTTCAAAGAAACATCTACCAAACTTTTAAAAACCATT
Found at i:103795 original size:13 final size:13
Alignment explanation
Indices: 103777--103810 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
103767 ACCCTAAAAT
103777 CATATTTTAGGTA
1 CATATTTTAGGTA
103790 CATATTTTAGGTA
1 CATATTTTAGGTA
103803 CATATTTT
1 CATATTTT
103811 GACCAAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (13 bp):
CATATTTTAGGTA
Found at i:103831 original size:31 final size:29
Alignment explanation
Indices: 103791--103859 Score: 102
Period size: 31 Copynumber: 2.3 Consensus size: 29
103781 TTTTAGGTAC
*
103791 ATATTTTAGGTACATATTTTGACCAAAAA
1 ATATTTTAGGTACATATTTCGACCAAAAA
*
103820 GATAATTTTAGGTACTTATTTCGACCAAAAA
1 -AT-ATTTTAGGTACATATTTCGACCAAAAA
103851 ATATTTTAG
1 ATATTTTAG
103860 TACTTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 7 0.19
30 4 0.11
31 25 0.69
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (29 bp):
ATATTTTAGGTACATATTTCGACCAAAAA
Found at i:104093 original size:15 final size:15
Alignment explanation
Indices: 104067--104108 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
104057 TCGATTTTGT
*
104067 CACTAAACTTTTAAA
1 CACTATACTTTTAAA
*
104082 CA-TATCACTTTTCAA
1 CACTAT-ACTTTTAAA
104097 CACTATACTTTT
1 CACTATACTTTT
104109 TTAGTGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 18 0.78
16 3 0.13
ACGTcount: A:0.36, C:0.24, G:0.00, T:0.40
Consensus pattern (15 bp):
CACTATACTTTTAAA
Found at i:106702 original size:30 final size:30
Alignment explanation
Indices: 106668--106727 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
106658 AACAAATCGA
106668 AACTGATAAATTAGATATTAAACTTGTAGT
1 AACTGATAAATTAGATATTAAACTTGTAGT
106698 AACTGATAAATTAGATATTAAACTTGTAGT
1 AACTGATAAATTAGATATTAAACTTGTAGT
106728 TTATCCTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (30 bp):
AACTGATAAATTAGATATTAAACTTGTAGT
Found at i:107220 original size:39 final size:39
Alignment explanation
Indices: 107169--107254 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
107159 ATCGGGTCGG
107169 ATATAT-ATTTAAATTAAATATATAAATATTATATATAT
1 ATATATAATTTAAATTAAATATATAAATATTATATATAT
* * *
107207 ATATTTAATTTAAATTAAATTTATTAATATTATATATAT
1 ATATATAATTTAAATTAAATATATAAATATTATATATAT
107246 ATATATAAT
1 ATATATAAT
107255 AATAATTATT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
38 5 0.12
39 38 0.88
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (39 bp):
ATATATAATTTAAATTAAATATATAAATATTATATATAT
Found at i:108573 original size:5 final size:5
Alignment explanation
Indices: 108563--108588 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
108553 AATTCGATAG
108563 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
108589 ATTAAGGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:109691 original size:229 final size:227
Alignment explanation
Indices: 109286--109734 Score: 776
Period size: 229 Copynumber: 2.0 Consensus size: 227
109276 ATAAATTATC
* * *
109286 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
109351 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
109416 TGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAA-AAATTT
131 TGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAATAAA-TT
109480 GAAACATAAATTACATAACTTTTAAAAAAGTATA
195 GAAACATAAATTACATAAC-TTTAAAAAAGTATA
*
109514 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
109579 TTAATATTGTTAAATTT-AAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
65 TTAATATTGTTAAATTTAAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAAT
* *
109643 TTTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAAT
129 TTTGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAATAAAT
109708 TGAAACATAAATTACATAACTTTAAAA
194 TGAAACATAAATTACATAACTTTAAAA
109735 GCAGTTTTAA
Statistics
Matches: 210, Mismatches: 8, Indels: 6
0.94 0.04 0.03
Matches are distributed among these distances:
228 47 0.22
229 160 0.76
230 3 0.01
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTATAGGTGGAAAACATGAAACACTATTAAATAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:109823 original size:20 final size:19
Alignment explanation
Indices: 109800--109845 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
109790 CGATATACCA
109800 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
109820 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
109840 GGTAAA
1 GGTAAA
109846 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:109990 original size:20 final size:19
Alignment explanation
Indices: 109967--110013 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
109957 CGATATAACA
*
109967 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
109987 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
110007 GGTAAAA
1 GGTAAAA
110014 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:112368 original size:33 final size:33
Alignment explanation
Indices: 112313--112375 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
112303 AAATAGATGG
*
112313 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
112346 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGG
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGG
112376 GTGATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.29, C:0.02, G:0.46, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:114202 original size:19 final size:19
Alignment explanation
Indices: 114158--114201 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
114148 AATGTCGAGT
114158 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
114177 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
114196 T-ATTTT
1 TAATTTT
114202 TTTATGTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:114655 original size:198 final size:199
Alignment explanation
Indices: 114284--115699 Score: 2614
Period size: 198 Copynumber: 7.1 Consensus size: 199
114274 TTAAGGGTCA
* *
114284 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
114349 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
114414 TAATATGTAATTTTT-AATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
114478 AATG
196 AATG
*
114482 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
114547 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
114612 TAATCTGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
114676 AATG
196 AATG
114680 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
114744 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
114809 GTAATATGTAATTTTTTAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
114873 TAATG
195 TAATG
114878 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
114943 AATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
115007 TAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
115071 AATG
196 AATG
*
115075 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
115139 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
115204 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
115269 AATG
196 AATG
115273 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
115338 AATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
* *
115402 TAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTAAAT
131 TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
115467 AATG
196 AATG
*
115471 TGTCGACACTAATATAGTTTGTTTCGATATTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCAC
115536 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
115601 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
130 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
115666 TAATG
195 TAATG
*
115671 TGTCGACACTAATATATTTTGTGTCGATA
1 TGTCGACACTAATATAGTTTGTGTCGATA
115700 CTAATTTAAA
Statistics
Matches: 1184, Mismatches: 24, Indels: 18
0.97 0.02 0.01
Matches are distributed among these distances:
196 55 0.05
197 248 0.21
198 583 0.49
199 160 0.14
200 138 0.12
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (199 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATG
Found at i:115046 original size:395 final size:396
Alignment explanation
Indices: 114284--115699 Score: 2633
Period size: 395 Copynumber: 3.6 Consensus size: 396
114274 TTAAGGGTCA
* *
114284 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCATC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
114349 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
114414 TAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
114478 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
*
114543 CATCAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
261 CACCAATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
* *
114608 AATGTAATCTGTAATTTTTCAATCTAACCGGTACAATTATACGGTTTTATGAGAGAATAAGTCTA
325 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACGGTTTTATGAGAGAATATGTCTA
114673 AATAATG
390 AATAATG
114680 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATT-AAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
*
114744 CATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
66 AATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
114809 GTAATATGTAATTTTTTAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
130 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
114873 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
195 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGT
114938 GCACCAATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
260 GCACCAATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTAT
115003 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACGGTTTTATGAGAGAATATGTCTA
325 AATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACGGTTTTATGAGAGAATATGTCTA
115068 AATAATG
390 AATAATG
*
115075 TGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCACC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
* *
115139 CATAAAGTGTCGATCCATATATAAAACGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
66 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
115204 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
131 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
115269 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
196 AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
*
115334 CACCAATAAAGTGTCGATCCATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
261 CACCAATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
*
115399 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATAATACCGGTTTTATGAGAGAATATGTCTA
326 ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAGAATATGTCTA
115464 AATAATG
390 AATAATG
*
115471 TGTCGACACTAATATAGTTTGTTTCGATATTTTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
1 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CCAGAATGAATTAAAAACAAGGTGCAC
115536 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
65 CAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
115601 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
130 GTAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
*
115666 TAATGTGTCGACACTAATATATTTTGTGTCGATA
195 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
115700 CTAATTTAAA
Statistics
Matches: 996, Mismatches: 17, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
394 85 0.09
395 416 0.42
396 289 0.29
397 20 0.02
398 186 0.19
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (396 bp):
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTGCACC
AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTAAAAACAAGGTG
CACCAATAAAGTGTCGATCCATATATAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
ATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACGGTTTTATGAGAGAATATGTCTAA
ATAATG
Found at i:117178 original size:18 final size:18
Alignment explanation
Indices: 117155--117222 Score: 55
Period size: 21 Copynumber: 3.4 Consensus size: 18
117145 ATCGGTCGCA
117155 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* *
117173 GAAGATGACGATGATGATGAT
1 GAAGATGA--A-GCTGACGAT
*
117194 GATGACGATGAAGCTGGCGAT
1 GA--A-GATGAAGCTGACGAT
117215 GAAGATGA
1 GAAGATGA
117223 TGACGATGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
18 13 0.33
19 1 0.03
20 1 0.03
21 17 0.44
22 1 0.03
23 1 0.03
24 5 0.13
ACGTcount: A:0.37, C:0.09, G:0.35, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:117179 original size:6 final size:6
Alignment explanation
Indices: 117155--117252 Score: 70
Period size: 6 Copynumber: 16.3 Consensus size: 6
117145 ATCGGTCGCA
* * * * * *
117155 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GATGAT GACGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* ** * * * * *
117203 GAAGCT GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
117251 GA
1 GA
117253 TGATCCAAAC
Statistics
Matches: 74, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 74 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:117190 original size:3 final size:3
Alignment explanation
Indices: 117170--117256 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
117160 TGAAGCTGAC
* * * * * ** *
117170 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
117218 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
117257 CCAAACAAGT
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (3 bp):
GAT
Found at i:117205 original size:42 final size:42
Alignment explanation
Indices: 117158--117248 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
117148 GGTCGCAGAA
*
117158 GATGAAGCTGACGATGAAGATGACGATGATGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
* * *
117200 GATGAAGCTGGCGATGAAGATGATGACGATGATGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
117242 GATGAAG
1 GATGAAG
117249 ATGATGATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (42 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGATGATGAC
Found at i:117256 original size:18 final size:18
Alignment explanation
Indices: 117155--117252 Score: 88
Period size: 18 Copynumber: 5.4 Consensus size: 18
117145 ATCGGTCGCA
* *
117155 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGATGAT
*
117173 GAAGATGACGATGATGAT
1 GAAGATGAAGATGATGAT
* * * *
117191 GATGATGACGATGAAGCT
1 GAAGATGAAGATGATGAT
** *
117209 GGCGATGAAGATGATGAC
1 GAAGATGAAGATGATGAT
* *
117227 GATGATGATGATGATGAT
1 GAAGATGAAGATGATGAT
117245 GAAGATGA
1 GAAGATGA
117253 TGATCCAAAC
Statistics
Matches: 63, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGATGAT
Found at i:119332 original size:183 final size:184
Alignment explanation
Indices: 118727--119387 Score: 1243
Period size: 184 Copynumber: 3.6 Consensus size: 184
118717 TATATAATAA
*
118727 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAAC
118792 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
118857 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
* *
118911 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCCAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAAC
118976 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
119041 TACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
*
119095 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAAC
119160 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAG-AAAATGTGTCGA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
*
119224 TACGATTTAAACAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
131 TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
*
119278 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAAC
1 AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAAC
*
119343 CTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCATA
66 CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATA
119388 CCATTTAAAA
Statistics
Matches: 465, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
183 171 0.37
184 294 0.63
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (184 bp):
AATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGAGCGAATAGGTCTACAAC
CTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGA
TACGATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTATAATGT
Found at i:121972 original size:23 final size:23
Alignment explanation
Indices: 121941--122004 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
121931 ATAGGTAAAC
*
121941 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
121964 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
121987 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
122005 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:122011 original size:23 final size:23
Alignment explanation
Indices: 121941--122013 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
121931 ATAGGTAAAC
* **
121941 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
121964 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
121987 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
122010 ATAT
1 ATAT
122014 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:122418 original size:22 final size:22
Alignment explanation
Indices: 122369--122431 Score: 90
Period size: 22 Copynumber: 2.8 Consensus size: 22
122359 ATAGGTAAAC
* *
122369 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTA-TCCTT
*
122392 ATATAATGTAATAGGTATCGTT
1 ATATAATGTAATAGGTATCCTT
122414 ATATAATGTAATAGGTAT
1 ATATAATGTAATAGGTAT
122432 TTATCTCGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
22 21 0.57
23 16 0.43
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTATCCTT
Found at i:122657 original size:18 final size:18
Alignment explanation
Indices: 122636--122672 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
122626 GTAATTGGAG
122636 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
122654 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
122672 T
1 T
122673 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:122680 original size:24 final size:24
Alignment explanation
Indices: 122628--122674 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
122618 TTTCATATGT
* *
122628 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
122652 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
122675 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:132390 original size:3 final size:3
Alignment explanation
Indices: 132384--132444 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
132374 AAAAAATATG
* * **
132384 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
132428 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
132445 CGATAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 5 0.10
3 42 0.84
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:132421 original size:29 final size:30
Alignment explanation
Indices: 132389--132451 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
132379 ATATGTAATA
* *
132389 ATAAATAATAATAA-AATAATAAGATGACG
1 ATAAATAATAATAATAATAATAAAATAACG
132418 AT-AATAATAATAATAATAATAAAATAACG
1 ATAAATAATAATAATAATAATAAAATAACG
132447 ATAAA
1 ATAAA
132452 AAAAACCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 11 0.37
29 17 0.57
30 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (30 bp):
ATAAATAATAATAATAATAATAAAATAACG
Found at i:132663 original size:43 final size:43
Alignment explanation
Indices: 132599--132886 Score: 216
Period size: 43 Copynumber: 6.8 Consensus size: 43
132589 TGGTGGGGAC
* **
132599 GACACTGCTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* *** *
132642 GACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAA--AT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* **
132682 GACACGACTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
* *
132725 GACACGGCTCATACGTGATGAAGAGATCTGG---TCT-GGGGAT
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGG-T
* * * * *
132765 GACACGGTTCCTACATGATGAGGACGG-CTGGCCATCTAAAGGTGAT
1 GACACGGCTCATACGTGATGAAGA-GGTCTGGTCATCT-AAGG-G-T
* * * * * * *
132811 AACACGGTTCCTACGTGATGAGGACGG-CTGGTTATCTATGGTT
1 GACACGGCTCATACGTGATGAAGA-GGTCTGGTCATCTAAGGGT
* *
132854 GACACGGCTCCTACGTGATGAAGAGATCTGGTC
1 GACACGGCTCATACGTGATGAAGAGGTCTGGTC
132887 GGGAAATGAC
Statistics
Matches: 195, Mismatches: 38, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
39 3 0.02
40 58 0.30
41 3 0.02
42 3 0.02
43 87 0.45
45 5 0.03
46 36 0.18
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (43 bp):
GACACGGCTCATACGTGATGAAGAGGTCTGGTCATCTAAGGGT
Found at i:132696 original size:40 final size:41
Alignment explanation
Indices: 132641--132785 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 41
132631 CATCTAAGGG
132641 TGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAAA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGGGAAA
* ** * *** *
132681 TGACACGACTCATACGCAATGAAGAGGTCTGGTCATCTAAGGG
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGGGAA--A
* *
132724 TGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGG-GA
1 TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGGGAAA
* * *
132764 TGACACGGTTCCTACATGATGA
1 TGACACGGCTCATACGTGATGA
132786 GGACGGCTGG
Statistics
Matches: 81, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 49 0.60
41 2 0.02
43 30 0.37
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.22
Consensus pattern (41 bp):
TGACACGGCTCATACGTGATGAAGAGATCTGGTCAGGGAAA
Found at i:132738 original size:83 final size:83
Alignment explanation
Indices: 132606--132770 Score: 305
Period size: 83 Copynumber: 2.0 Consensus size: 83
132596 GACGACACTG
132606 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
132671 GGTC-GGGAAATGACACGA
66 GGTCTGGG-AATGACACGA
132689 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
1 CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
*
132754 GGTCTGGGGATGACACG
66 GGTCTGGGAATGACACG
132771 GTTCCTACAT
Statistics
Matches: 80, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 77 0.96
84 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.21
Consensus pattern (83 bp):
CTCATACGCAATGAAGAGGTCTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCT
GGTCTGGGAATGACACGA
Found at i:132833 original size:46 final size:43
Alignment explanation
Indices: 132766--132874 Score: 137
Period size: 46 Copynumber: 2.5 Consensus size: 43
132756 TCTGGGGATG
*
132766 ACACGGTTCCTACATGATGAGGACGGCTGGCCATCTAAAGGTGATA
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCT-AAGGT--TA
** * *
132812 ACACGGTTCCTACGTGATGAGGACGGCTGGTTATCTATGGTTG
1 ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGTTA
*
132855 ACACGGCTCCTACGTGATGA
1 ACACGGTTCCTACGTGATGA
132875 AGAGATCTGG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
43 20 0.35
45 4 0.07
46 33 0.58
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (43 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGGCCATCTAAGGTTA
Found at i:132861 original size:129 final size:130
Alignment explanation
Indices: 132709--132977 Score: 382
Period size: 130 Copynumber: 2.1 Consensus size: 130
132699 ATGAAGAGGT
* * *
132709 CTGGTCATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCTGGG-GATGACACG-G
1 CTGGTTATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTC-GGGAAATGACACGAC
* ** * *
132772 TTCCTACATGATGAGGACG-GCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGATGAGGAC
65 TTCATACACAATGAAGA-GTGCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGAC
132836 GG
129 GG
* * *
132838 CTGGTTATCTATGGTTGACACGGCTCCTACGTGATGAAGAGATCTGGTCGGGAAATGACACGACT
1 CTGGTTATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGAAATGACACGACT
* *
132903 TCATACGCAATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGG
66 TCATACACAATGAAGAGTGCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGG
132968 CTGGTTATCT
1 CTGGTTATCT
132978 CTAGGATAAT
Statistics
Matches: 124, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
128 3 0.02
129 54 0.44
130 67 0.54
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.24
Consensus pattern (130 bp):
CTGGTTATCTAAGGGTGACACGGCTCATACGTGATGAAGAGATCTGGTCGGGAAATGACACGACT
TCATACACAATGAAGAGTGCTGGCCATCTAAAGGTGATAACACGGTTCCTACGTGACGAGGACGG
Found at i:133360 original size:35 final size:36
Alignment explanation
Indices: 133313--133395 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
133303 ACAAAATTCA
**
133313 TTTCAAGAGAAAC-GATCTCAAAGAT-GTTTATTTTG
1 TTTCAAGAGAAACAGAT-TCAAAGATGGTAAATTTTG
*
133348 TTTCAAGGGAAACAGATTCAAAGATGGTAAATTTTG
1 TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
133384 TTTCCAA-AGAAA
1 TTT-CAAGAGAAA
133396 TAAACTCAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
35 20 0.49
36 18 0.44
37 3 0.07
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.33
Consensus pattern (36 bp):
TTTCAAGAGAAACAGATTCAAAGATGGTAAATTTTG
Found at i:133712 original size:29 final size:28
Alignment explanation
Indices: 133666--133951 Score: 136
Period size: 29 Copynumber: 9.8 Consensus size: 28
133656 TTTCAAGAGA
*
133666 CAAA-ATTTTGTTTCCAAAGAAACAAACT
1 CAAAGATTTT-TTTTCAAAGAAACAAACT
*
133694 CAAAGATTTTTGTTTCAAAAGAAACAATCT
1 CAAAGATTTTT-TTTC-AAAGAAACAAACT
* * * * **
133724 CAAAGATTTTTTTCACACAATTGTCTCAAGAGAGA
1 CAAAGATTTTTTT-TCA-AA--G---AAACAAACT
* * * *
133759 CAAA-ACTTTGTTTCAAAGTAAATAGACT
1 CAAAGATTTTTTTTCAAAG-AAACAAACT
*
133787 CGAAGA--TTTTTTCAAACGAAAC-AACT
1 CAAAGATTTTTTTTCAAA-GAAACAAACT
* * *
133813 CACAGATTTTTATTCCAAAGGAACAAACT
1 CAAAGATTTTT-TTTCAAAGAAACAAACT
* * *
133842 CCAAGATTTTTATTCAAAAGGAACAAACT
1 CAAAGATTTTTTTTC-AAAGAAACAAACT
* *
133871 CAAAGATTTTTTTTTAAAGAGGAATAAACT
1 CAAAGATTTTTTTTCAAAGA--AACAAACT
* * *
133901 CAAAGA--CTTTTTCAAGAGGAGCAAACT
1 CAAAGATTTTTTTTCAA-AGAAACAAACT
133928 CAAAGATTTTTTTCTCAAAAGAAA
1 CAAAGATTTTTTT-TC-AAAGAAA
133952 TGTCTTTAAG
Statistics
Matches: 193, Mismatches: 41, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
26 7 0.04
27 24 0.12
28 35 0.18
29 62 0.32
30 45 0.23
31 2 0.01
32 3 0.02
33 2 0.01
34 6 0.03
35 7 0.04
ACGTcount: A:0.43, C:0.16, G:0.12, T:0.30
Consensus pattern (28 bp):
CAAAGATTTTTTTTCAAAGAAACAAACT
Found at i:133867 original size:57 final size:55
Alignment explanation
Indices: 133784--133946 Score: 166
Period size: 57 Copynumber: 2.9 Consensus size: 55
133774 AAGTAAATAG
* * * *
133784 ACTCGAAGATTTTTTCAAACGAAAC-AACTCACAGATTTTTATTCCAAAGGAACAA
1 ACTCAAAGATTTTTTCAAAAGGAACAAACTCAAAGATTTTT-TTCCAAAGGAACAA
* ** *
133839 ACTCCAAGATTTTTATTCAAAAGGAACAAACTCAAAGATTTTTTTTTAAAGAGGAATAA
1 ACTCAAAGA-TTTT-TTCAAAAGGAACAAACTCAAAGA-TTTTTTTCCAA-AGGAACAA
* * *
133898 ACTCAAAGACTTTTTCAAGAGGAGCAAACTCAAAGATTTTTTTCTCAAA
1 ACTCAAAGATTTTTTCAAAAGGAACAAACTCAAAGATTTTTTTC-CAAA
133947 AGAAATGTCT
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
55 8 0.09
56 12 0.13
57 33 0.37
58 16 0.18
59 20 0.22
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.30
Consensus pattern (55 bp):
ACTCAAAGATTTTTTCAAAAGGAACAAACTCAAAGATTTTTTTCCAAAGGAACAA
Found at i:133911 original size:27 final size:27
Alignment explanation
Indices: 133831--133939 Score: 94
Period size: 27 Copynumber: 3.9 Consensus size: 27
133821 TTTATTCCAA
* *
133831 AGGAACAAACTCCAAGA-TTTTTATTCAAA
1 AGGAACAAACTCAAAGACTTTTTA---AAG
*
133860 AGGAACAAACTCAAAGATTTTTTTTTAAAG
1 AGGAACAAACTCAAAGA---CTTTTTAAAG
* *
133890 AGGAATAAACTCAAAGACTTTTTCAAG
1 AGGAACAAACTCAAAGACTTTTTAAAG
* *
133917 AGGAGCAAACTCAAAGATTTTTT
1 AGGAACAAACTCAAAGACTTTTT
133940 TCTCAAAAGA
Statistics
Matches: 68, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
27 28 0.41
29 16 0.24
30 18 0.26
33 6 0.09
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (27 bp):
AGGAACAAACTCAAAGACTTTTTAAAG
Found at i:134263 original size:35 final size:34
Alignment explanation
Indices: 134224--134317 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 34
134214 TTAAGATATA
* **
134224 GTCTCAAATGAGACAAATTTGTTTTTAGAGAAATT
1 GTCTCAAGTGAGACAAATTTGTTTTT-GAGAAAAC
* *
134259 GTCTCAAGCGAGACAAAGTTG-TTTTGAGAAAAC
1 GTCTCAAGTGAGACAAATTTGTTTTTGAGAAAAC
*
134292 GATCTCAAGTGAGATCAACTTTGTTT
1 G-TCTCAAGTGAGA-CAAATTTGTTT
134318 AATGTGAGAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
33 7 0.15
34 15 0.31
35 24 0.50
36 2 0.04
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (34 bp):
GTCTCAAGTGAGACAAATTTGTTTTTGAGAAAAC
Found at i:134449 original size:102 final size:99
Alignment explanation
Indices: 134259--134488 Score: 267
Period size: 103 Copynumber: 2.3 Consensus size: 99
134249 TAGAGAAATT
*
134259 GTCTCAAGCGAGAC-AAAGTTGTTTTGAGAAAACGATCTCAAGTGAGATCAACTTTGTTTAATGT
1 GTCTCAAGCGAGACGAAA-TTGTTTTGAAAAAACGATCTCAAGTGAGATCAACTTTGTTTAATGT
*
134323 GAGACAAATTCGAAATTTTGATCTC-AAGGAAAAG
65 GAGACAAATTCAAAATTTTGATCTCAAAGGAAAAG
* *
134357 GTCTCAAGCGAGACGAAATTTGTTTTGAAAGAAACAGAATCT-AATGGTGAGATTAATTTTGTTT
1 GTCTCAAGCGAGACGAAA-TTGTTTTGAAA-AAAC-G-ATCTCAA--GTGAGATCAACTTTGTTT
* *
134421 TA-GTGA-ATCAAATTCAAAA-TTTGTATCTCAAAGGAAAAT
60 AATGTGAGA-CAAATTCAAAATTTTG-ATCTCAAAGGAAAAG
*
134460 GTCTCAAGCGAGACGCAATTGTTTT-AAAA
1 GTCTCAAGCGAGACGAAATTGTTTTGAAAA
134489 TTCTCAAAAT
Statistics
Matches: 115, Mismatches: 8, Indels: 16
0.83 0.06 0.12
Matches are distributed among these distances:
98 14 0.12
99 13 0.11
100 5 0.04
101 11 0.10
102 30 0.26
103 42 0.37
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (99 bp):
GTCTCAAGCGAGACGAAATTGTTTTGAAAAAACGATCTCAAGTGAGATCAACTTTGTTTAATGTG
AGACAAATTCAAAATTTTGATCTCAAAGGAAAAG
Found at i:134947 original size:4 final size:4
Alignment explanation
Indices: 134931--134976 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
134921 ATGCAAATTT
*
134931 TATG TAT- TATG TATG TATG --TG TATA TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
134976 T
1 T
134977 TTTCTCGATC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 3 0.08
4 32 0.86
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:134961 original size:18 final size:17
Alignment explanation
Indices: 134933--134968 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
134923 GCAAATTTTA
134933 TGTATTATGTATGTATG
1 TGTATTATGTATGTATG
134950 TGTATATATGTATGTATG
1 TGTAT-TATGTATGTATG
134968 T
1 T
134969 ATGTATGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.22, T:0.53
Consensus pattern (17 bp):
TGTATTATGTATGTATG
Found at i:137534 original size:224 final size:223
Alignment explanation
Indices: 137145--137596 Score: 886
Period size: 224 Copynumber: 2.0 Consensus size: 223
137135 GTGCGTACTG
137145 TCGAAAACTCTCATAATTCTTCAGCCCCATATTCGAAGCATTGTTCGATCGGGGGCCATATCAAT
1 TCGAAAACTCTCATAATTCTTCAGCCCCATATTCGAAGCATTGTTCGATCGGGGGCCATATCAAT
137210 CATGTGCTTGTATTGGCCCAGAAAAGCACTAACCAAATCCCTCCAGGAGCGACTTGAGAACGACT
66 CATGTGCTTGTATTGGCCCAGAAAAGCACTAACCAAATCCCTCCAGGAGCGACTTGAGAACGACT
137275 CAGTTGGTGGTACCACCTTGAAGCAGGTCCAATCAAACTGTCTTGAAAACAGTGGATCAACATCT
131 CAGTTGGTGGTACCACCTTGAAGCAGGTCCAATCAAACTGTCTTGAAAACAGTGGATCAACATCT
137340 GATCATTGTTAGTGTATCCAGTCATTCT
196 GATCATTGTTAGTGTATCCAGTCATTCT
*
137368 TCGAAAACTCTCATAATTCTTCATCCCCATATTCTGAAGCATTGTTCGATCGGGGGCCATATCAA
1 TCGAAAACTCTCATAATTCTTCAGCCCCATATTC-GAAGCATTGTTCGATCGGGGGCCATATCAA
137433 TCATGTGCTTGTATTGGCCCAGAAAAGCACTAACCAAATCCCTCCAGGAGCGACTTGAGAACGAC
65 TCATGTGCTTGTATTGGCCCAGAAAAGCACTAACCAAATCCCTCCAGGAGCGACTTGAGAACGAC
137498 TCAGTTGGTGGTACCACCTTGAAGCAGGTCCAATCAAACTGTCTTGAAAACAGTGGATCAACATC
130 TCAGTTGGTGGTACCACCTTGAAGCAGGTCCAATCAAACTGTCTTGAAAACAGTGGATCAACATC
137563 TGATCATTGTTAGTGTATCCAGTCATTCT
195 TGATCATTGTTAGTGTATCCAGTCATTCT
137592 TCGAA
1 TCGAA
137597 GGGCGGGAGC
Statistics
Matches: 227, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
223 33 0.15
224 194 0.85
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (223 bp):
TCGAAAACTCTCATAATTCTTCAGCCCCATATTCGAAGCATTGTTCGATCGGGGGCCATATCAAT
CATGTGCTTGTATTGGCCCAGAAAAGCACTAACCAAATCCCTCCAGGAGCGACTTGAGAACGACT
CAGTTGGTGGTACCACCTTGAAGCAGGTCCAATCAAACTGTCTTGAAAACAGTGGATCAACATCT
GATCATTGTTAGTGTATCCAGTCATTCT
Found at i:140483 original size:17 final size:17
Alignment explanation
Indices: 140461--140495 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
140451 GTCGTATTGG
140461 ATTGTACCGCTTCGATC
1 ATTGTACCGCTTCGATC
140478 ATTGTACCGCTTCGATC
1 ATTGTACCGCTTCGATC
140495 A
1 A
140496 AGTAGTACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (17 bp):
ATTGTACCGCTTCGATC
Found at i:142482 original size:3 final size:3
Alignment explanation
Indices: 142476--142536 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
142466 AAAAAATATG
* * **
142476 TAA TAA TAAA TAA TAA TAA -AA TAA TAA -GA TGA CGA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
142520 TAA TAA TAA TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA
142537 CGATAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 5 0.10
3 42 0.84
4 3 0.06
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:142513 original size:29 final size:30
Alignment explanation
Indices: 142481--142543 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 30
142471 ATATGTAATA
* *
142481 ATAAATAATAATAA-AATAATAAGATGACG
1 ATAAATAATAATAATAATAATAAAATAACG
142510 AT-AATAATAATAATAATAATAAAATAACG
1 ATAAATAATAATAATAATAATAAAATAACG
142539 ATAAA
1 ATAAA
142544 AAAAACCCGG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 11 0.37
29 17 0.57
30 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.25
Consensus pattern (30 bp):
ATAAATAATAATAATAATAATAAAATAACG
Found at i:147879 original size:46 final size:47
Alignment explanation
Indices: 147829--147937 Score: 211
Period size: 46 Copynumber: 2.3 Consensus size: 47
147819 TAATGATTAT
147829 AACCCCTAATTTGACCAAATTCAAAAATGTAATAAT-AAAAGGACAA
1 AACCCCTAATTTGACCAAATTCAAAAATGTAATAATAAAAAGGACAA
147875 AACCCCTAATTTGACCAAATTCAAAAATGTAATAATAAAAAGGACAA
1 AACCCCTAATTTGACCAAATTCAAAAATGTAATAATAAAAAGGACAA
147922 AACCCCTAATTTGACC
1 AACCCCTAATTTGACC
147938 TACAAAGAGG
Statistics
Matches: 62, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 36 0.58
47 26 0.42
ACGTcount: A:0.50, C:0.20, G:0.08, T:0.22
Consensus pattern (47 bp):
AACCCCTAATTTGACCAAATTCAAAAATGTAATAATAAAAAGGACAA
Found at i:150345 original size:18 final size:19
Alignment explanation
Indices: 150310--150346 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
150300 TCCGGAATGT
150310 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
150330 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
150347 GGATTACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:162219 original size:2 final size:2
Alignment explanation
Indices: 162212--162256 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
162202 AATTTAAAAT
* * *
162212 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
162254 TA T
1 TA T
162257 GTATGTATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (2 bp):
TA
Found at i:162257 original size:8 final size:8
Alignment explanation
Indices: 162212--162269 Score: 71
Period size: 8 Copynumber: 7.2 Consensus size: 8
162202 AATTTAAAAT
*
162212 TATATATA
1 TATATGTA
*
162220 TATATATA
1 TATATGTA
*
162228 TATATATA
1 TATATGTA
162236 TATATGTA
1 TATATGTA
*
162244 TGTATGTA
1 TATATGTA
162252 TATATGTA
1 TATATGTA
*
162260 TGTATGTA
1 TATATGTA
162268 TA
1 TA
162270 CATTTGAGTT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 45 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (8 bp):
TATATGTA
Found at i:162261 original size:4 final size:4
Alignment explanation
Indices: 162238--162268 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
162228 TATATATATA
*
162238 TATG TATG TATG TATA TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
162269 ACATTTGAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:164530 original size:2 final size:2
Alignment explanation
Indices: 164525--164551 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
164515 TTCTAAAAGT
164525 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 T
164552 TTAATATTAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:164891 original size:18 final size:19
Alignment explanation
Indices: 164856--164892 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
164846 CACGGAATGT
164856 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
164876 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
164893 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:165064 original size:15 final size:15
Alignment explanation
Indices: 165046--165076 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
165036 AAATTCTAAA
165046 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
165061 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
165076 T
1 T
165077 CTATTTGTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:181699 original size:21 final size:21
Alignment explanation
Indices: 181673--181717 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
181663 GATTTCTGGG
* *
181673 CAAGGGGAATCGTTACCCATT
1 CAAGGGGAACCGATACCCATT
*
181694 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
181715 CAA
1 CAA
181718 ACGAACAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.22, T:0.18
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:183410 original size:148 final size:149
Alignment explanation
Indices: 183227--183540 Score: 587
Period size: 148 Copynumber: 2.1 Consensus size: 149
183217 GAGTCGAGGG
183227 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
183292 ACTTGATCCCTAGTATATGTATATGATTATTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTATTAAGGAATAATATGTGGTCCTTATGGACATTATTA
183357 TAT-GCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
183375 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
183440 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGTTA
66 ACTTGATCCCTAGTATATGTATATGATTATTAAGGAATAATATGTGGTCCTTATGGACATTATTA
183505 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
183524 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
183541 TGCAATTATA
Statistics
Matches: 162, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
148 132 0.81
149 30 0.19
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTATTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:183541 original size:23 final size:23
Alignment explanation
Indices: 183508--183552 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
183498 ATTGTTATAT
*
183508 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
183531 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
183553 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:188428 original size:149 final size:149
Alignment explanation
Indices: 188248--188562 Score: 596
Period size: 149 Copynumber: 2.1 Consensus size: 149
188238 GAGTCGAGGG
188248 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
188313 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
188378 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
188397 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACATAT
1 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
188462 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
188527 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
188546 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
188563 TGTAATTATA
Statistics
Matches: 163, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
148 1 0.01
149 162 0.99
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:188563 original size:23 final size:23
Alignment explanation
Indices: 188530--188574 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
188520 ATTGTTATAT
*
188530 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
* *
188553 GGCACTTCGGTGTAATTATACG
1 GGCACTACGGTGCAATTATACG
188575 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:193840 original size:21 final size:21
Alignment explanation
Indices: 193810--193878 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 21
193800 CGTCCGTCAC
193810 TAACAACAATGATATCATATG
1 TAACAACAATGATATCATATG
* * *
193831 TAACATCAAT--TGGTC--A-C
1 TAACAACAATGAT-ATCATATG
193848 TAACAACAATGATATCATATG
1 TAACAACAATGATATCATATG
*
193869 TAACATCAAT
1 TAACAACAAT
193879 TGGTCACTCT
Statistics
Matches: 35, Mismatches: 7, Indels: 12
0.65 0.13 0.22
Matches are distributed among these distances:
17 9 0.26
18 3 0.09
19 2 0.06
20 3 0.09
21 18 0.51
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (21 bp):
TAACAACAATGATATCATATG
Found at i:193856 original size:38 final size:38
Alignment explanation
Indices: 193805--193886 Score: 164
Period size: 38 Copynumber: 2.2 Consensus size: 38
193795 TTTTACGTCC
193805 GTCACTAACAACAATGATATCATATGTAACATCAATTG
1 GTCACTAACAACAATGATATCATATGTAACATCAATTG
193843 GTCACTAACAACAATGATATCATATGTAACATCAATTG
1 GTCACTAACAACAATGATATCATATGTAACATCAATTG
193881 GTCACT
1 GTCACT
193887 CTTAAACGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (38 bp):
GTCACTAACAACAATGATATCATATGTAACATCAATTG
Found at i:194599 original size:2 final size:2
Alignment explanation
Indices: 194592--194616 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
194582 TTCTACACAT
194592 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
194617 GACTTGCTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:198899 original size:30 final size:30
Alignment explanation
Indices: 198865--198926 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
198855 GGATGGTTTA
198865 AAAATATTATAAACATACCTTAAATTTGAC
1 AAAATATTATAAACATACCTTAAATTTGAC
198895 AAAATATTATAAACATACCTTAAATTTGAC
1 AAAATATTATAAACATACCTTAAATTTGAC
198925 AA
1 AA
198927 TGAAATCACA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (30 bp):
AAAATATTATAAACATACCTTAAATTTGAC
Found at i:201494 original size:21 final size:21
Alignment explanation
Indices: 201442--201498 Score: 62
Period size: 20 Copynumber: 2.8 Consensus size: 21
201432 GTAACAACAA
201442 TCAACTATCGCAACGCGAAAT
1 TCAACTATCGCAACGCGAAAT
** * **
201463 GGAA-AATCGCAACGCGATTT
1 TCAACTATCGCAACGCGAAAT
201483 TCAACTATCGCAACGC
1 TCAACTATCGCAACGC
201499 AACGCGAAAT
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (21 bp):
TCAACTATCGCAACGCGAAAT
Found at i:201584 original size:41 final size:42
Alignment explanation
Indices: 201536--201626 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
201526 ACTGTAGACT
** *
201536 ATCGCAACAACAACTGTAGACTATCGCAACGA-ATTTGGAAA
1 ATCGCAACAACAACTGTAGACTATCGCAACGAGAAATGAAAA
* *
201577 ATCGCAACGACAACTGTAGGCTATCGCAACGAGAAATGAAAA
1 ATCGCAACAACAACTGTAGACTATCGCAACGAGAAATGAAAA
201619 ATCGCAAC
1 ATCGCAAC
201627 GCGATTTTCA
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 30 0.68
42 14 0.32
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.16
Consensus pattern (42 bp):
ATCGCAACAACAACTGTAGACTATCGCAACGAGAAATGAAAA
Found at i:201605 original size:22 final size:22
Alignment explanation
Indices: 201514--201608 Score: 106
Period size: 22 Copynumber: 4.5 Consensus size: 22
201504 GAAATGGAAA
*
201514 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
201536 ATCGCAACAACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* * **
201558 ATCGCAACG--AA-TTTGGAAA
1 ATCGCAACGACAACTGTAGACT
*
201577 ATCGCAACGACAACTGTAGGCT
1 ATCGCAACGACAACTGTAGACT
201599 ATCGCAACGA
1 ATCGCAACGA
201609 GAAATGAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
19 13 0.22
20 2 0.03
21 2 0.03
22 43 0.72
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:201642 original size:41 final size:42
Alignment explanation
Indices: 201597--201693 Score: 146
Period size: 41 Copynumber: 2.4 Consensus size: 42
201587 CAACTGTAGG
201597 CTATCGCAACGA-GAAATGAAAAATCGCAACGCGATTTTCAA
1 CTATCGCAACGACGAAATGAAAAATCGCAACGCGATTTTCAA
* * *
201638 CTATCGCAAC-ACGAAATGGAAAATCGCAATGCGATTTTCGA
1 CTATCGCAACGACGAAATGAAAAATCGCAACGCGATTTTCAA
201679 CTATCGCAACG-CGAA
1 CTATCGCAACGACGAA
201694 TTTGCGATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 1 0.02
41 50 0.98
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (42 bp):
CTATCGCAACGACGAAATGAAAAATCGCAACGCGATTTTCAA
Found at i:201645 original size:21 final size:21
Alignment explanation
Indices: 201619--201692 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
201609 GAAATGAAAA
201619 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* ** ** *
201640 ATCGCAACACGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
* *
201660 ATCGCAATGCGATTTTCGACT
1 ATCGCAACGCGATTTTCAACT
201681 ATCGCAACGCGA
1 ATCGCAACGCGA
201693 ATTTGCGATA
Statistics
Matches: 37, Mismatches: 15, Indels: 2
0.69 0.28 0.04
Matches are distributed among these distances:
20 12 0.32
21 25 0.68
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:203170 original size:12 final size:12
Alignment explanation
Indices: 203153--203179 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
203143 ATGTACCGTC
203153 CATCCATTCATA
1 CATCCATTCATA
203165 CATCCATTCATA
1 CATCCATTCATA
203177 CAT
1 CAT
203180 ACATGTATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (12 bp):
CATCCATTCATA
Done.