Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_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: 10265705
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 47 of 49
Found at i:9712555 original size:33 final size:33
Alignment explanation
Indices: 9712513--9712604 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
9712503 AAAATCGCAA
9712513 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
9712546 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
9712579 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
9712605 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:9712926 original size:91 final size:93
Alignment explanation
Indices: 9712688--9713146 Score: 807
Period size: 91 Copynumber: 5.1 Consensus size: 93
9712678 AATGGATAAA
9712688 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
9712751 TAGCAGAATTGGCAGCAACCGAACAAA-
66 TAGCAGAATTGGCAGCAACCGAACAAAT
9712778 TTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAG-T
9712841 TTAGCAGAATTGGCAGCAACCGAACAAAT
65 TTAGCAGAATTGGCAGCAACCGAACAAAT
9712870 TTACTTTCAACCAAAAGACAAAAC-AAGACAAATA-TATTTCACAGTGTTAAAG-ATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
9712932 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
9712960 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTA-TTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
9713024 TAGCA-AATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
9713051 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--ACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
*
9713114 TAGCAGAATTGGCAGCAACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
9713142 TTACT
1 TTACT
9713147 AAGCAATCTA
Statistics
Matches: 359, Mismatches: 1, Indels: 17
0.95 0.00 0.05
Matches are distributed among these distances:
89 2 0.01
90 123 0.34
91 153 0.43
92 81 0.23
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:9714779 original size:33 final size:33
Alignment explanation
Indices: 9714734--9714879 Score: 244
Period size: 31 Copynumber: 4.5 Consensus size: 33
9714724 TCTTTTGGTT
9714734 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
9714767 GAGATGACAATCGCAAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGC-AACGAGAGAATCGCAACGC
9714801 GAAATGAAAATCGCAAC--GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
9714832 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
9714865 G-AATGAAAATCGCAA
1 GAAATGAAAATCGCAA
9714880 TGCGATTTTG
Statistics
Matches: 106, Mismatches: 4, Indels: 7
0.91 0.03 0.06
Matches are distributed among these distances:
31 31 0.29
32 14 0.13
33 30 0.28
34 31 0.29
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:9714780 original size:19 final size:18
Alignment explanation
Indices: 9714741--9714884 Score: 90
Period size: 19 Copynumber: 8.8 Consensus size: 18
9714731 GTTGAAATGA
9714741 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
9714756 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
*
9714773 ACAATCGCAA-ACGAGA-G
1 A-AATCGCAACGCGAGATG
*
9714790 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
9714807 AAAATCGCAA--C--GA-G
1 -AAATCGCAACGCGAGATG
*
9714821 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
9714838 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
9714854 -AATCGCAACGCGA-ATG
1 AAATCGCAACGCGAGATG
*
9714870 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
9714885 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 7, Indels: 39
0.69 0.05 0.27
Matches are distributed among these distances:
12 8 0.08
14 18 0.18
15 10 0.10
16 15 0.15
17 9 0.09
18 17 0.17
19 24 0.24
ACGTcount: A:0.44, C:0.22, G:0.24, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:9714915 original size:14 final size:14
Alignment explanation
Indices: 9714896--9714950 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
9714886 TTTGGTTTCG
9714896 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
9714910 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
9714929 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
9714943 CGTTGCGA
1 CGTTGCGA
9714951 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:9714928 original size:33 final size:33
Alignment explanation
Indices: 9714880--9714950 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
9714870 AAAATCGCAA
**
9714880 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
9714913 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
9714946 TGCGA
1 TGCGA
9714951 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:9714958 original size:33 final size:33
Alignment explanation
Indices: 9714891--9714972 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
9714881 GCGATTTTGG
***
9714891 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
9714924 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
9714957 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
9714973 TTCTTTATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:9715107 original size:32 final size:32
Alignment explanation
Indices: 9715071--9715139 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
9715061 TACTACTTGA
9715071 AAATCGCAACGAGAGAATAGCAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
***
9715103 AAATCGCAACGAGAGAATCTTAACGCGAAATG
1 AAATCGCAACGAGAGAATAGCAACGCGAAATG
9715135 AAATC
1 AAATC
9715140 TAAGTGAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (32 bp):
AAATCGCAACGAGAGAATAGCAACGCGAAATG
Found at i:9715468 original size:22 final size:22
Alignment explanation
Indices: 9715416--9715470 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
9715406 ATTTTAGGTG
**
9715416 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
9715438 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
9715460 GGATTTCTTCG
1 GGATTTCTTCG
9715471 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:9715491 original size:103 final size:102
Alignment explanation
Indices: 9715313--9715517 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 102
9715303 ATGGTTGTGA
9715313 GGGATTTCGCCGGAGATGGGGACGAAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAG
1 GGGATTTCGCCGGAGATGGGGACGAAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAG
9715378 TGAGAGATGGAGATGGGACTGAGTTGTGATTTTAGGT
66 TGAGAGATGGAGATGGGACTGAGTTGTGATTTTAGGT
9715415 GGGATTTCGCCGGAGATGGGGACGGAAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGA
1 GGGATTTCGCCGGAGATGGGGAC-GAAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGA
9715480 GTGAGAGATGGAGATGGGACTGAGTTGTGATTTTAGGT
65 GTGAGAGATGGAGATGGGACTGAGTTGTGATTTTAGGT
9715518 TTTAGGTTAT
Statistics
Matches: 102, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
102 23 0.23
103 79 0.77
ACGTcount: A:0.22, C:0.12, G:0.40, T:0.25
Consensus pattern (102 bp):
GGGATTTCGCCGGAGATGGGGACGAAATCTTCGGAGATGGGGACGGATTTCTTCGCCGTAGAGAG
TGAGAGATGGAGATGGGACTGAGTTGTGATTTTAGGT
Found at i:9715641 original size:20 final size:20
Alignment explanation
Indices: 9715616--9715809 Score: 212
Period size: 20 Copynumber: 9.6 Consensus size: 20
9715606 CTTTAAATAT
9715616 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
9715636 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
9715658 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
9715677 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
9715697 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
9715717 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
9715738 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
9715758 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
9715778 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
9715798 CGCGTTGCGATT
1 CGCGTTGCGATT
9715810 ATTGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
19 2 0.01
20 110 0.75
21 32 0.22
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:9715693 original size:61 final size:60
Alignment explanation
Indices: 9715616--9715809 Score: 237
Period size: 61 Copynumber: 3.2 Consensus size: 60
9715606 CTTTAAATAT
*
9715616 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTAGCGTTGCGATTTACGGATA
* * ***
9715677 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCA-TACGCGTTGCGATTTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTA-GCGTTGCGA-TTTACGGATA
* * * * ** *
9715738 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACGGATA
9715798 CGCGTTGCGATT
1 CGCGTTGCGATT
9715810 ATTGAAAATC
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.02
60 30 0.27
61 78 0.70
62 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTAGCGTTGCGATTTACGGATA
Found at i:9715786 original size:81 final size:81
Alignment explanation
Indices: 9715615--9715809 Score: 241
Period size: 81 Copynumber: 2.4 Consensus size: 81
9715605 GCTTTAAATA
** * * *
9715615 TCGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATACGC
1 TCGCGTTGCGATTTACACATACGCGTTGCGATTTTACGGATTAACGTTGCGATTTACGGATACGC
9715680 GTTGCGATATACGGAT
66 GTTGCGATATACGGAT
* * *
9715696 ACGCATTGCGATTTACCCATACGCGTTGCGATTTTACGGA-TACACGTTGCGATTTACGGATACG
1 TCGCGTTGCGATTTACACATACGCGTTGCGATTTTACGGATTA-ACGTTGCGATTTACGGATACG
* *
9715760 CGTTGCGATTTATGTG-T
65 CGTTGCGATATACG-GAT
* * *
9715777 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACACATACGCGTTGCGATT
9715810 ATTGAAAATC
Statistics
Matches: 97, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 2 0.02
81 94 0.97
82 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.36
Consensus pattern (81 bp):
TCGCGTTGCGATTTACACATACGCGTTGCGATTTTACGGATTAACGTTGCGATTTACGGATACGC
GTTGCGATATACGGAT
Found at i:9719563 original size:33 final size:32
Alignment explanation
Indices: 9719516--9719632 Score: 135
Period size: 37 Copynumber: 3.5 Consensus size: 32
9719506 AAACTCGAAT
* * * *
9719516 CCGACCTGATCCGAATATCACGCTTAAAAAAAT
1 CCGACCCGACCCGAATATCACACTT-AAAAAAC
9719549 CCGACCCGACCCGAATATCACACTTAAAAAAC
1 CCGACCCGACCCGAATATCACACTTAAAAAAC
*
9719581 CCGACCCGACTCAACTCGAATATCATACTTAAAAAAC
1 CCGACCCGA--C--C-CGAATATCACACTTAAAAAAC
9719618 CCGACCCGACCCGAA
1 CCGACCCGACCCGAA
9719633 CAAAATAAAA
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
32 19 0.26
33 23 0.31
34 1 0.01
35 1 0.01
36 1 0.01
37 29 0.39
ACGTcount: A:0.38, C:0.35, G:0.11, T:0.15
Consensus pattern (32 bp):
CCGACCCGACCCGAATATCACACTTAAAAAAC
Found at i:9724875 original size:5 final size:5
Alignment explanation
Indices: 9724865--9725046 Score: 283
Period size: 5 Copynumber: 37.8 Consensus size: 5
9724855 AACAATCTCA
9724865 TATAT TATAT TATAT TATAT TAT-T TATA- T-TAT TATAT T-TAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
9724911 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA-
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
9724960 T-TAT TATAT TATAT TATAT TATAT TATTAT TATAT TATAT TATAT TATA-
1 TATAT TATAT TATAT TATAT TATAT TA-TAT TATAT TATAT TATAT TATAT
9725009 TATTAT TATAT TATAT TATAT TATA- T-TAT TATAT TATA
1 TA-TAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
9725047 CATGGACGGA
Statistics
Matches: 166, Mismatches: 0, Indels: 22
0.88 0.00 0.12
Matches are distributed among these distances:
3 6 0.04
4 16 0.10
5 137 0.83
6 7 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:9729748 original size:82 final size:84
Alignment explanation
Indices: 9729609--9729774 Score: 318
Period size: 82 Copynumber: 2.0 Consensus size: 84
9729599 CGAATTGTTT
9729609 AGTGCTGAAACTTCTAGGTAAAAACATTGCCTTTCATGAGCTTGATGAAAGAATTCAAAAAATGT
1 AGTGCTGAAACTTCTAGGTAAAAACATTGCCTTTCATGAGCTTGATGAAAGAATTCAAAAAATGT
9729674 GGATGCCGAAGGCGGAGTA
66 GGATGCCGAAGGCGGAGTA
9729693 AGTGCTGAAACTTCTA-GTAAAAAC-TTGCCTTTCATGAGCTTGATGAAAGAATTCAAAAAATGT
1 AGTGCTGAAACTTCTAGGTAAAAACATTGCCTTTCATGAGCTTGATGAAAGAATTCAAAAAATGT
9729756 GGATGCCGAAGGCGGAGTA
66 GGATGCCGAAGGCGGAGTA
9729775 TGAGTTAATT
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
82 58 0.71
83 8 0.10
84 16 0.20
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (84 bp):
AGTGCTGAAACTTCTAGGTAAAAACATTGCCTTTCATGAGCTTGATGAAAGAATTCAAAAAATGT
GGATGCCGAAGGCGGAGTA
Found at i:9732262 original size:16 final size:16
Alignment explanation
Indices: 9732223--9732265 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
9732213 AGCATCAGTT
*
9732223 CTTATCACTCAAAATC
1 CTTATCAATCAAAATC
* *
9732239 ATTAATCAATCAAATTC
1 CTT-ATCAATCAAAATC
9732256 CTTATCAATC
1 CTTATCAATC
9732266 TTTAATTACC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.40, C:0.26, G:0.00, T:0.35
Consensus pattern (16 bp):
CTTATCAATCAAAATC
Found at i:9735565 original size:21 final size:21
Alignment explanation
Indices: 9735523--9735565 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9735513 TTTCTGGGCT
*
9735523 AGGGGAATCGATACCCATTCA
1 AGGGGAATCGATACCCACTCA
*
9735544 AGGGGAATCGATACCCCCTCA
1 AGGGGAATCGATACCCACTCA
9735565 A
1 A
9735566 ACGAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.28, G:0.23, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:9737268 original size:103 final size:103
Alignment explanation
Indices: 9737084--9737302 Score: 366
Period size: 103 Copynumber: 2.1 Consensus size: 103
9737074 GTCGAGGGTC
9737084 TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
* ** *
9737149 TTTATCTTTGGCATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
* *
9737187 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
*
9737252 TTGATCCCTAGTATATGTATATGATTCTTAAGGAATGA
66 TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
9737290 TAATGTGGTCCTT
1 T-ATGTGGTCCTT
9737303 ATGGACATTA
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
103 97 0.90
104 11 0.10
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.37
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATACATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATAC
TTGATCCCTAGCATATGTATATGATTCTTAAGGAATGA
Found at i:9737368 original size:23 final size:23
Alignment explanation
Indices: 9737314--9737386 Score: 78
Period size: 23 Copynumber: 3.3 Consensus size: 23
9737304 TGGACATTAT
*
9737314 TATATGGCACTATGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
***
9737337 TACGCGGCACTACGGTGCAATTC
1 TATATGGCACTACGGTGCAATTC
* *
9737360 TATATGGCACTTCGGAGC-ATT-
1 TATATGGCACTACGGTGCAATTC
9737381 TATATG
1 TATATG
9737387 AGTTGTGGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
21 6 0.15
22 3 0.07
23 32 0.78
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (23 bp):
TATATGGCACTACGGTGCAATTC
Found at i:9738292 original size:23 final size:23
Alignment explanation
Indices: 9738255--9738318 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
9738245 CAACTCGTAT
*
9738255 AATTGCATCGAAGTGCCACATAG
1 AATTGCACCGAAGTGCCACATAG
* *
9738278 AATTGCACCGGAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACATAG
*
9738301 AATTGCACCGTAGTGCCA
1 AATTGCACCGAAGTGCCA
9738319 TATAATAATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACATAG
Found at i:9738524 original size:98 final size:97
Alignment explanation
Indices: 9738339--9738522 Score: 293
Period size: 98 Copynumber: 1.9 Consensus size: 97
9738329 TCCATAAGGA
* *
9738339 CCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCAGACTT
1 CCACATATCATTCCTTAAGAATCATATACATATACCAGAGATCAAGTA-GTGTCTCACCAGACTT
9738404 CACACATGTTCAAAAGAATATATATCCGAATGG
65 CACACATGTTCAAAAGAATATATATCCGAATGG
*
9738437 CCACATATCATTCCTTAAGAATCATATACATATGCCA-AGATCAAGTA-TGTCTCACCAGACTT-
1 CCACATATCATTCCTTAAGAATCATATACATATACCAGAGATCAAGTAGTGTCTCACCAGACTTC
* *
9738499 ACACATGTTCCAAAGAATACATAT
66 ACACATGTTCAAAAGAATATATAT
9738523 ATGTCCCGAA
Statistics
Matches: 81, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
94 22 0.27
95 15 0.19
97 9 0.11
98 35 0.43
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (97 bp):
CCACATATCATTCCTTAAGAATCATATACATATACCAGAGATCAAGTAGTGTCTCACCAGACTTC
ACACATGTTCAAAAGAATATATATCCGAATGG
Found at i:9739896 original size:22 final size:21
Alignment explanation
Indices: 9739871--9739930 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
9739861 TTCGCTTGAG
9739871 GGGTATCGATTCCCCATTGAAT
1 GGGTATCGATTCCCC-TTGAAT
*
9739893 GGGTATTGATT-CCCTTGAAT
1 GGGTATCGATTCCCCTTGAAT
*
9739913 GGGTACCGATTCCCCTTG
1 GGGTATCGATTCCCCTTG
9739931 CCCAGAAATC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.44
21 9 0.26
22 10 0.29
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.33
Consensus pattern (21 bp):
GGGTATCGATTCCCCTTGAAT
Found at i:9746493 original size:236 final size:233
Alignment explanation
Indices: 9745963--9746435 Score: 799
Period size: 236 Copynumber: 2.0 Consensus size: 233
9745953 TCATAATGCA
* *
9745963 CCGAAGTGCCGCGTAGAATTGCACCGTAGTGCCATAT-ATAATG-CCAAAGGACCACATAGAATT
1 CCGAAGTGCCACGTAGAATTGCACCGTAG-GACATATAATAATGTCC--AGGACCACATAGAATT
9746026 CCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACATATTCAAA
63 CCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACATATTCAAA
9746091 GAATAGTATATATCCGAAGGACCGCGTAGAATTTTGTCCCGAATGACGCGTAGACCCTCTACCAT
128 GAATAGTATATATCCGAAGGACCGCGTAGAATTTTGTCCCGAATGACGCGTAGACCCTCTACCAT
9746156 TGGCATGCCAACTATACCTATATCTCATCAACATAACATGG
193 TGGCATGCCAACTATACCTATATCTCATCAACATAACATGG
* *
9746197 CCGAAGTGCCGCGTAGAATTGCACCGTAGTGCCATATAATAATGTCCAAAGGACCACATAGAATT
1 CCGAAGTGCCACGTAGAATTGCACCGTAG-GACATATAATAATGTCC--AGGACCACATAGAATT
9746262 CCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACATATTCCAA
63 CCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACATATT-CAA
9746327 AGAATA-TATATATCCGAAGGACCGCGTAGAATTTTGTCCCGAATGACCGCGTAGACCCTCTACC
127 AGAATAGTATATATCCGAAGGACCGCGTAGAATTTTGTCCCGAATGA-CGCGTAGACCCTCTACC
9746391 ATTGGCATGCCAACTATACCTATAGTTCTCATCAACATAACATGG
191 ATTGGCATGCCAACTATACCTATA--TCTCATCAACATAACATGG
9746436 GCTTTTACAT
Statistics
Matches: 233, Mismatches: 0, Indels: 7
0.97 0.00 0.03
Matches are distributed among these distances:
234 37 0.16
235 6 0.03
236 121 0.52
237 50 0.21
239 19 0.08
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (233 bp):
CCGAAGTGCCACGTAGAATTGCACCGTAGGACATATAATAATGTCCAGGACCACATAGAATTCCT
TAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACAAGACTTCACATATTCAAAGAA
TAGTATATATCCGAAGGACCGCGTAGAATTTTGTCCCGAATGACGCGTAGACCCTCTACCATTGG
CATGCCAACTATACCTATATCTCATCAACATAACATGG
Found at i:9755426 original size:29 final size:29
Alignment explanation
Indices: 9755393--9755463 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
9755383 TTATCTCCAC
*
9755393 GTGACGAGTTTCAAACGTATCACTTTTAT
1 GTGACGAGTTTCAAACGTATCACTTTAAT
* *
9755422 GTGACGAGTTTCAAACTTGTCACTTTAAT
1 GTGACGAGTTTCAAACGTATCACTTTAAT
9755451 GTGACGAGTTTCA
1 GTGACGAGTTTCA
9755464 CATGCATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (29 bp):
GTGACGAGTTTCAAACGTATCACTTTAAT
Found at i:9758035 original size:18 final size:18
Alignment explanation
Indices: 9758014--9758048 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
9758004 TCCCATCTAA
9758014 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
9758032 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
9758049 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:9758629 original size:64 final size:62
Alignment explanation
Indices: 9758538--9758696 Score: 221
Period size: 64 Copynumber: 2.5 Consensus size: 62
9758528 TAATGAAGGT
* *
9758538 ATGCATCGATGCACTACCCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTT-AATGGGG
1 ATGCATCGATGCACT-CCTATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAAT--GC
*
9758602 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAATGC
* *
9758665 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
9758697 CCTTAAACAA
Statistics
Matches: 87, Mismatches: 5, Indels: 7
0.88 0.05 0.07
Matches are distributed among these distances:
63 30 0.34
64 54 0.62
65 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAAATGC
Found at i:9761745 original size:25 final size:25
Alignment explanation
Indices: 9761717--9761764 Score: 80
Period size: 25 Copynumber: 1.9 Consensus size: 25
9761707 ATTAAAGCCT
9761717 TTTCTT-TTTACTTTTCAAGTTTTTA
1 TTTCTTCTTTA-TTTTCAAGTTTTTA
9761742 TTTCTTCTTTATTTTCAAGTTTT
1 TTTCTTCTTTATTTTCAAGTTTT
9761765 GTTTTTATGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.15, C:0.12, G:0.04, T:0.69
Consensus pattern (25 bp):
TTTCTTCTTTATTTTCAAGTTTTTA
Found at i:9764402 original size:28 final size:28
Alignment explanation
Indices: 9764354--9764410 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
9764344 TCGCCGTCGC
9764354 TTTCAAGCACTTACTCAACGACATAATG
1 TTTCAAGCACTTACTCAACGACATAATG
*
9764382 TTTCAAGCA-TTAGCTCGACGACATAATG
1 TTTCAAGCACTTA-CTCAACGACATAATG
9764410 T
1 T
9764411 AAAAAAAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.33, C:0.23, G:0.14, T:0.30
Consensus pattern (28 bp):
TTTCAAGCACTTACTCAACGACATAATG
Found at i:9765403 original size:2 final size:2
Alignment explanation
Indices: 9765396--9765426 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9765386 ATTTATCATC
9765396 AT AT 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 AT AT A
9765427 AAGATCTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9767148 original size:10 final size:10
Alignment explanation
Indices: 9767133--9767160 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
9767123 GAAAGCACTT
9767133 AAAGAAAAGG
1 AAAGAAAAGG
9767143 AAAGAAAAGG
1 AAAGAAAAGG
9767153 AAAGAAAA
1 AAAGAAAA
9767161 TCCACAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (10 bp):
AAAGAAAAGG
Found at i:9773657 original size:17 final size:16
Alignment explanation
Indices: 9773635--9773675 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
9773625 ACAGAGCCTC
9773635 TGAATCATTCAGACTAT
1 TGAATCATTCAG-CTAT
*
9773652 TGAATCATTCAGCTCT
1 TGAATCATTCAGCTAT
9773668 T-AATCATT
1 TGAATCATT
9773676 TTAAAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 7 0.30
16 4 0.17
17 12 0.52
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.39
Consensus pattern (16 bp):
TGAATCATTCAGCTAT
Found at i:9775428 original size:4 final size:4
Alignment explanation
Indices: 9775419--9775639 Score: 424
Period size: 4 Copynumber: 55.2 Consensus size: 4
9775409 GTAATCTCTT
9775419 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9775467 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9775515 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
9775563 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* *
9775611 TATG TATG TGTG TCTG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG T
9775640 GTGTCTGTGT
Statistics
Matches: 214, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
4 214 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:9775656 original size:6 final size:6
Alignment explanation
Indices: 9775617--9775799 Score: 312
Period size: 6 Copynumber: 30.5 Consensus size: 6
9775607 TATGTATGTA
* * * * * *
9775617 TGTGTG TCTGTA TGTATG TATGTG TGTCTG TGTGTC TGTGTG TGTGTG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
9775665 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
9775713 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG
9775761 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGT
1 TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGTGTG TGT
9775800 TTTGCAAATG
Statistics
Matches: 165, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 165 1.00
ACGTcount: A:0.02, C:0.02, G:0.46, T:0.50
Consensus pattern (6 bp):
TGTGTG
Found at i:9775662 original size:4 final size:4
Alignment explanation
Indices: 9775617--9775799 Score: 312
Period size: 4 Copynumber: 45.8 Consensus size: 4
9775607 TATGTATGTA
* * * * * *
9775617 TGTG TGTC TGTA TGTA TGTA TGTG TGTC TGTG TGTC TGTG TGTG TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
9775665 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
9775713 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG
9775761 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGT
1 TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGTG TGT
9775800 TTTGCAAATG
Statistics
Matches: 172, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 172 1.00
ACGTcount: A:0.02, C:0.02, G:0.46, T:0.50
Consensus pattern (4 bp):
TGTG
Found at i:9782550 original size:16 final size:14
Alignment explanation
Indices: 9782519--9782545 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9782509 TTAAAATTTA
9782519 AAATTATATCTTTG
1 AAATTATATCTTTG
9782533 AAATTATATCTTT
1 AAATTATATCTTT
9782546 TTGAATATTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
AAATTATATCTTTG
Found at i:9783180 original size:3 final size:3
Alignment explanation
Indices: 9783172--9783209 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
9783162 AATTTAACCT
9783172 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
9783210 GTATCGATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:9785896 original size:2 final size:2
Alignment explanation
Indices: 9785889--9785919 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9785879 CTAATACAAT
9785889 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 T
9785920 GGCCTAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9789238 original size:42 final size:42
Alignment explanation
Indices: 9789190--9789286 Score: 158
Period size: 42 Copynumber: 2.3 Consensus size: 42
9789180 AATTTTTTTG
*
9789190 ACTCGACTCGATTTGAATTGACTTCAAGGTGTAATTTCATAA
1 ACTCGACTCGACTTGAATTGACTTCAAGGTGTAATTTCATAA
* * *
9789232 ACTCGACTCGACTTGAATTGAGTTCGAGTTGTAATTTCATAA
1 ACTCGACTCGACTTGAATTGACTTCAAGGTGTAATTTCATAA
9789274 ACTCGACTCGACT
1 ACTCGACTCGACT
9789287 CAAAAAAAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (42 bp):
ACTCGACTCGACTTGAATTGACTTCAAGGTGTAATTTCATAA
Found at i:9793414 original size:49 final size:52
Alignment explanation
Indices: 9793311--9793432 Score: 171
Period size: 49 Copynumber: 2.4 Consensus size: 52
9793301 CTTCTTCTTC
*
9793311 ATGCGTGATTCAAACTTCTGGTTCTTCTTCTTCGGTCTTCAAGTCCATGACT
1 ATGCGTGATTCAAACTTTTGGTTCTTCTTCTTCGGTCTTCAAGTCCATGACT
* *
9793363 ATGCATGATTCAAACTTTTGG-TCTTCTTCTTC-G-C-TCAAAGTCCATGGCT
1 ATGCGTGATTCAAACTTTTGGTTCTTCTTCTTCGGTCTTC-AAGTCCATGACT
*
9793412 ATGCGGGATTCAAACTTTTGG
1 ATGCGTGATTCAAACTTTTGG
9793433 ATTTGATCTT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
48 2 0.03
49 31 0.48
50 1 0.02
51 11 0.17
52 19 0.30
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
ATGCGTGATTCAAACTTTTGGTTCTTCTTCTTCGGTCTTCAAGTCCATGACT
Found at i:9794870 original size:31 final size:32
Alignment explanation
Indices: 9794804--9794874 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 32
9794794 ATGTCACATA
*
9794804 ATTATTTTGGATGATATGATACATATTATATC
1 ATTATTTTGGATGATATGATACATATTATACC
*
9794836 ATTATTTT-GATGATAT-A-ACGTATGTCATACC
1 ATTATTTTGGATGATATGATACATAT-T-ATACC
9794867 ATTATTTT
1 ATTATTTT
9794875 AAATGACGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
29 5 0.14
30 2 0.06
31 20 0.57
32 8 0.23
ACGTcount: A:0.32, C:0.08, G:0.11, T:0.48
Consensus pattern (32 bp):
ATTATTTTGGATGATATGATACATATTATACC
Found at i:9811326 original size:16 final size:15
Alignment explanation
Indices: 9811307--9811348 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
9811297 AAATTAAACT
9811307 AAAAATGAAACAAT-TA
1 AAAAAT-AAA-AATATA
9811323 AAAAATAAAAATATA
1 AAAAATAAAAATATA
*
9811338 AAATATAAAAA
1 AAAAATAAAAA
9811349 ACAGTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 3 0.12
15 15 0.62
16 6 0.25
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAAATAAAAATATA
Found at i:9811360 original size:15 final size:15
Alignment explanation
Indices: 9811335--9811377 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
9811325 AAATAAAAAT
*
9811335 ATAAAATATAAAAAAC
1 ATAAAATA-AAACAAC
9811351 AGTAAAATAAAAACAAC
1 A-TAAAAT-AAAACAAC
9811368 ATAAAATAAA
1 ATAAAATAAA
9811378 TTCAAATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
15 3 0.12
16 7 0.29
17 13 0.54
18 1 0.04
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (15 bp):
ATAAAATAAAACAAC
Found at i:9811363 original size:16 final size:16
Alignment explanation
Indices: 9811335--9811377 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 16
9811325 AAATAAAAAT
9811335 ATAAAATATAAAA-AAC
1 ATAAAATA-AAAACAAC
9811351 AGTAAAATAAAAACAAC
1 A-TAAAATAAAAACAAC
9811368 ATAAAATAAA
1 ATAAAATAAA
9811378 TTCAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 14 0.56
17 11 0.44
ACGTcount: A:0.74, C:0.07, G:0.02, T:0.16
Consensus pattern (16 bp):
ATAAAATAAAAACAAC
Found at i:9812404 original size:13 final size:13
Alignment explanation
Indices: 9812386--9812410 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9812376 GAATTGTACA
9812386 TTTTTTTCCAACT
1 TTTTTTTCCAACT
9812399 TTTTTTTCCAAC
1 TTTTTTTCCAAC
9812411 ATGTTTGAAA
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:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTTTCCAACT
Found at i:9812811 original size:44 final size:44
Alignment explanation
Indices: 9812707--9813098 Score: 195
Period size: 44 Copynumber: 8.9 Consensus size: 44
9812697 AATATAGCAA
* * * *
9812707 AAATGACAATATTGATCAACCTCCTTCTGTGATGGAATCGAAC-
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * * *
9812750 ATAATGTCAGTGCTGATCTACCTCCTTCTGTGATAGAGTCGAGCG
1 A-AATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * *
9812795 AAATGAAAATGTTGATC--CCTCTCATTCTATGAT-GAAATCTAGCG
1 AAATGACAATGTTGATCTACCTC-C-TTCTGTGATAG-AATCGAGCG
* **** * * * * *
9812839 AGATGTTGTTGCTGATATACCTCCTTCTGTGATAGATTTGAGTG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * ** * * *
9812883 AAATGACAATGTCGGTCCCCCTCATTCTGTGATATAATCGAACG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* *** ** * * * *
9812927 AGATGATGGTACTGATCTATCTCTTTCTGTGATAGATTCGAGTG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * * *
9812971 AAATGAAAATGTCGATC--CCTCTCATTCTGTGATGGAATCGAACG
1 AAATGACAATGTTGATCTACCTC-C-TTCTGTGATAGAATCGAGCG
* * ** * * * *
9813015 AGAT-TCGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
* * * *
9813058 AAATGAAAATGTTGATCCACCTCATTCTGTGATGGAATCGA
1 AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGA
9813099 ACGAGATATT
Statistics
Matches: 240, Mismatches: 96, Indels: 25
0.66 0.27 0.07
Matches are distributed among these distances:
42 7 0.03
43 27 0.11
44 195 0.81
45 7 0.03
46 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (44 bp):
AAATGACAATGTTGATCTACCTCCTTCTGTGATAGAATCGAGCG
Found at i:9812811 original size:88 final size:85
Alignment explanation
Indices: 9812707--9813308 Score: 436
Period size: 88 Copynumber: 7.0 Consensus size: 85
9812697 AATATAGCAA
* * * *
9812707 AAATGACAATATTGATCAACCTCCTTCTGTGATGGAATCGAAC-ATAATGTCAGTGCTGATCTAC
1 AAATGAAAATGTTGATC--CCTCCTTCTGTGATGGAATCGAACGA-GATGT-GGTGCTGATCTAC
* *
9812771 CTCCTTCTGTGATAGAGTCGAGCG
62 CTCCTTCTGTGATAGATTCGAGTG
* * * * * *
9812795 AAATGAAAATGTTGATCCCTCTCATTCTATGATGAAATCTAGCGAGATGTTGTTGCTGATATACC
1 AAATGAAAATGTTGATCCCTC-C-TTCTGTGATGGAATCGAACGAGATG-TGGTGCTGATCTACC
*
9812860 TCCTTCTGTGATAGATTTGAGTG
63 TCCTTCTGTGATAGATTCGAGTG
* * * * ** * *
9812883 AAATGACAATGTCGGTCCCCCTCATTCTGTGATATAATCGAACGAGATGATGGTACTGATCTATC
1 AAATGAAAATGTTGAT--CCCTCCTTCTGTGATGGAATCGAACGAGATG-TGGTGCTGATCTACC
*
9812948 TCTTTCTGTGATAGATTCGAGTG
63 TCCTTCTGTGATAGATTCGAGTG
* *
9812971 AAATGAAAATGTCGATCCCTCTCATTCTGTGATGGAATCGAACGAGAT-TCGGTGATGATCTACC
1 AAATGAAAATGTTGATCCCTC-C-TTCTGTGATGGAATCGAACGAGATGT-GGTGCTGATCTACC
*
9813035 TCCTTCTGTGATAGATTTGAGTG
63 TCCTTCTGTGATAGATTCGAGTG
* * * * *
9813058 AAATGAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATATTGGTACTGATATATC
1 AAATGAAAATGTTGAT-C-CCTCCTTCTGTGATGGAATCGAACGAGAT-GTGGTGCTGATCTACC
* * **
9813123 TCCTTCTATGATAGAATCGAGCA
63 TCCTTCTGTGATAGATTCGAGTG
* *** ** * * * *
9813146 AAAAGTTGATACTGATCCAACTCCTTATGCGCTGG-AT-GAA--A-A--T-GT-C-AATCTACCT
1 AAATGAAAATGTTGATCC--CTCCTTCTGTGATGGAATCGAACGAGATGTGGTGCTGATCTACCT
* * *
9813201 CATTCTGTGATATATTTGAGTG
64 CCTTCTGTGATAGATTCGAGTG
* * * * * *
9813223 AAATGAAAATATTGATTCCCCTCATTTTATGATGGAATCGAACGAGATATCGATGCTGATCTACC
1 AAATGAAAATGTTGA-T-CCCTCCTTCTGTGATGGAATCGAACGAGATGT-GGTGCTGATCTACC
* *
9813288 TCTTTCTGCGATAGATTCGAG
63 TCCTTCTGTGATAGATTCGAG
9813309 CAAATAATTG
Statistics
Matches: 400, Mismatches: 86, Indels: 56
0.74 0.16 0.10
Matches are distributed among these distances:
77 41 0.10
78 4 0.01
79 7 0.02
80 1 0.00
81 1 0.00
82 1 0.00
83 1 0.00
84 2 0.00
86 15 0.04
87 76 0.19
88 239 0.60
89 7 0.02
90 5 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (85 bp):
AAATGAAAATGTTGATCCCTCCTTCTGTGATGGAATCGAACGAGATGTGGTGCTGATCTACCTCC
TTCTGTGATAGATTCGAGTG
Found at i:9813101 original size:175 final size:173
Alignment explanation
Indices: 9812707--9813313 Score: 567
Period size: 175 Copynumber: 3.5 Consensus size: 173
9812697 AATATAGCAA
* * * * * * *
9812707 AAATGACAATATTGATCAACCTCCTTCTGTGATGGAATCGAAC-ATAATGTCAGTGCTGATCTAC
1 AAATGAAAATATTGATCCACCTCATTCTGTGATGGAATCGAACGA-GATATCGGTACTGATCTAC
* * * * *
9812771 CTCCTTCTGTGATAGAGTCGAGCGAAATGAAAATGTTGATCCCTCTCATTCTATGATGAAATCTA
65 CTCCTTCTGTGATAGATTCGAG-GAAATGAAAATGTCGATCCCTCTCATTCTGTGATGGAATCGA
* * * *
9812836 GCGAGATGTTGTTGCTGATATACCTCCTTCTGTGATAGATTTGAGTG
129 ACGAGA--TTGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
* * * * * ** *
9812883 AAATGACAATGTCGGTCCCCCTCATTCTGTGATATAATCGAACGAGATGAT-GGTACTGATCTAT
1 AAATGAAAATATTGATCCACCTCATTCTGTGATGGAATCGAACGAGAT-ATCGGTACTGATCTAC
*
9812947 CTCTTTCTGTGATAGATTCGAGTGAAATGAAAATGTCGATCCCTCTCATTCTGTGATGGAATCGA
65 CTCCTTCTGTGATAGATTCGAG-GAAATGAAAATGTCGATCCCTCTCATTCTGTGATGGAATCGA
9813012 ACGAGATTCGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
129 ACGAGATT-GGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
* * * *
9813058 AAATGAAAATGTTGATCCACCTCATTCTGTGATGGAATCGAACGAGATATTGGTACTGATATATC
1 AAATGAAAATATTGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTACTGATCTACC
* * * ** ** * * * *
9813123 TCCTTCTATGATAGAATCGAGCAAA--AAGTTGATACTGATCCAACTCCTTATGCGCTGG-AT-G
66 TCCTTCTGTGATAGATTCGAGGAAATGAAAATG-T-C-GATCCCTCTCATTCTGTGATGGAATCG
* * *
9813184 AA--A-A-T-GTCA--ATCTACCTCATTCTGTGATATATTTGAGTG
128 AACGAGATTGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
* * * *
9813223 AAATGAAAATATTGATTCC-CCTCATTTTATGATGGAATCGAACGAGATATCGATGCTGATCTAC
1 AAATGAAAATATTGA-TCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTACTGATCTAC
* * *
9813287 CTCTTTCTGCGATAGATTCGAGCAAAT
65 CTCCTTCTGTGATAGATTCGAGGAAAT
9813314 AATTGAATAA
Statistics
Matches: 364, Mismatches: 58, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
165 102 0.28
166 3 0.01
167 3 0.01
169 1 0.00
170 1 0.00
171 1 0.00
172 4 0.01
173 4 0.01
174 10 0.03
175 123 0.34
176 110 0.30
177 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.32
Consensus pattern (173 bp):
AAATGAAAATATTGATCCACCTCATTCTGTGATGGAATCGAACGAGATATCGGTACTGATCTACC
TCCTTCTGTGATAGATTCGAGGAAATGAAAATGTCGATCCCTCTCATTCTGTGATGGAATCGAAC
GAGATTGGTGATGATCTACCTCCTTCTGTGATAGATTTGAGTG
Found at i:9813718 original size:36 final size:36
Alignment explanation
Indices: 9813676--9813771 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 36
9813666 CTGTTCAAGT
*
9813676 GACAAAACTCGTTTCAAGGGAAACTGTCTCAAGAGA
1 GACAAAACTCGTTTCAAGAGAAACTGTCTCAAGAGA
* *
9813712 GACAAAATTCGTTTCAATAGAAACTGTCTCAAGAGA
1 GACAAAACTCGTTTCAAGAGAAACTGTCTCAAGAGA
* *
9813748 GAC-AAACTTTGTTTCAAAAGAAAC
1 GACAAAAC-TCGTTTCAAGAGAAAC
9813772 ATACTCATGC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
35 3 0.06
36 50 0.94
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.23
Consensus pattern (36 bp):
GACAAAACTCGTTTCAAGAGAAACTGTCTCAAGAGA
Found at i:9813853 original size:37 final size:35
Alignment explanation
Indices: 9813784--9813863 Score: 88
Period size: 37 Copynumber: 2.2 Consensus size: 35
9813774 ACTCATGCTT
* *
9813784 TTGTTTTGAGAGAAACTGTCTCAAAAGTGACAAAA
1 TTGTTTTGAGAAAAACTGTCTCAAAAGAGACAAAA
* **
9813819 CTTGTTTTGAGTAAAAATTGTCTCAAGTGAGACAAAA
1 -TTGTTTTGAG-AAAAACTGTCTCAAAAGAGACAAAA
9813856 TTCGTTTT
1 TT-GTTTT
9813864 TTAGATAATC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 12 0.32
37 25 0.68
ACGTcount: A:0.35, C:0.11, G:0.19, T:0.35
Consensus pattern (35 bp):
TTGTTTTGAGAAAAACTGTCTCAAAAGAGACAAAA
Found at i:9814012 original size:20 final size:20
Alignment explanation
Indices: 9813989--9814027 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
9813979 AGTCTTATAA
9813989 ATGGCCCGAAGGACTTACTG
1 ATGGCCCGAAGGACTTACTG
*
9814009 ATGGCTCGAAGGACTTACT
1 ATGGCCCGAAGGACTTACT
9814028 CATCAAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (20 bp):
ATGGCCCGAAGGACTTACTG
Found at i:9814267 original size:42 final size:41
Alignment explanation
Indices: 9814203--9814295 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 41
9814193 CCTAAATGAC
*
9814203 TTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGAT
1 TTATCATCATGCTCGAAAGACTTACAGATGACCCGAAGGAT
* * *
9814244 TTATGCATCATGCTCGAAAGACTTACTGATGTCCCGAAGGAC
1 TTAT-CATCATGCTCGAAAGACTTACAGATGACCCGAAGGAT
9814286 TTACTCATCA
1 TTA-TCATCA
9814296 AGGAACCCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
41 4 0.09
42 41 0.89
43 1 0.02
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (41 bp):
TTATCATCATGCTCGAAAGACTTACAGATGACCCGAAGGAT
Found at i:9814485 original size:43 final size:43
Alignment explanation
Indices: 9814304--9814633 Score: 486
Period size: 43 Copynumber: 7.7 Consensus size: 43
9814294 CAAGGAACCC
* *
9814304 ACCCCTACATATCACATTGGTCCCTCTAG-TTGTCATCAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
* * *
9814346 ACCCCTACATATCACATTTGTCCCTCTAG-TTGTCATCAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
* * *
9814388 ACCTCTACATATCACGTTGGTCCCTCGAG-TTGTCATAAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
*
9814430 ACCTCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
* *
9814473 ACCCCTATATATCACGTTGGTCCCTCAAGCTTCTCATCAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
*
9814516 ACCCCTACATATCACGTTGGTCCCTCAAGCTTCTCATCAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
* * *
9814559 ACCTCTACATATCATGTTGGTCCCTCAAGCTTCTCATCAAGGA
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
* *
9814602 ACCCTTACATATCACGTTGATCCCTCAAGCTT
1 ACCCCTACATATCACGTTGGTCCCTCAAGCTT
9814634 AGTTTCTTAT
Statistics
Matches: 269, Mismatches: 18, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
42 106 0.39
43 163 0.61
ACGTcount: A:0.26, C:0.31, G:0.14, T:0.29
Consensus pattern (43 bp):
ACCCCTACATATCACGTTGGTCCCTCAAGCTTGTCATCAAGGA
Found at i:9814563 original size:22 final size:22
Alignment explanation
Indices: 9814538--9814604 Score: 55
Period size: 22 Copynumber: 3.1 Consensus size: 22
9814528 CACGTTGGTC
9814538 CCTCAAGCTTCTCATCAAGGAA
1 CCTCAAGCTTCTCATCAAGGAA
* * * *** **
9814560 CCTCTA-CATATCATGTTGGTC
1 CCTCAAGCTTCTCATCAAGGAA
9814581 CCTCAAGCTTCTCATCAAGGAA
1 CCTCAAGCTTCTCATCAAGGAA
9814603 CC
1 CC
9814605 CTTACATATC
Statistics
Matches: 28, Mismatches: 16, Indels: 2
0.61 0.35 0.04
Matches are distributed among these distances:
21 13 0.46
22 15 0.54
ACGTcount: A:0.27, C:0.33, G:0.13, T:0.27
Consensus pattern (22 bp):
CCTCAAGCTTCTCATCAAGGAA
Found at i:9816769 original size:23 final size:22
Alignment explanation
Indices: 9816742--9816816 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 22
9816732 TGATATATGA
9816742 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
9816765 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
*
9816787 AATATGTAGTACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
9816811 ATATGA
1 ATATGA
9816817 TATGAAATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.18
23 15 0.38
24 6 0.15
25 5 0.13
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:9816786 original size:46 final size:46
Alignment explanation
Indices: 9816716--9816828 Score: 178
Period size: 46 Copynumber: 2.5 Consensus size: 46
9816706 GAGATAAGCT
*
9816716 ATGTGAT-T-ATATGAAATGATATATGAATATGCAATACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
* *
9816760 ATGTGATATGATATGAAATGACATATGAATATGTAGTACGTGATAC
1 ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
9816806 ATGTGATATGATATGAAAT-ACAT
1 ATGTGATATGATATGAAATGACAT
9816829 GGTTACACAT
Statistics
Matches: 64, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
44 7 0.11
45 5 0.08
46 52 0.81
ACGTcount: A:0.41, C:0.06, G:0.19, T:0.34
Consensus pattern (46 bp):
ATGTGATATGATATGAAATGACATATGAATATGCAATACGTGATAC
Found at i:9817023 original size:35 final size:37
Alignment explanation
Indices: 9816977--9817069 Score: 136
Period size: 38 Copynumber: 2.5 Consensus size: 37
9816967 TATAAGACAT
* *
9816977 ATGATAGGTCCTTCGGGACAC-A-GACATCCTTTGGG
1 ATGATAGGTCCTTCGGGACACAATGACATCCTTCGAG
9817012 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGAG
1 ATGATAGGTCCTTCGGGACACA-ATGACATCCTTCGAG
*
9817050 ATGATAGGTTCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
9817070 TTTATATGAG
Statistics
Matches: 52, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
35 21 0.40
37 1 0.02
38 30 0.58
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (37 bp):
ATGATAGGTCCTTCGGGACACAATGACATCCTTCGAG
Found at i:9818897 original size:7 final size:7
Alignment explanation
Indices: 9818847--9818929 Score: 71
Period size: 7 Copynumber: 11.7 Consensus size: 7
9818837 ATTGGATTTC
9818847 TTTTCTT
1 TTTTCTT
9818854 TTTT-TT
1 TTTTCTT
*
9818860 ATTTCTT
1 TTTTCTT
*
9818867 TCTTCTCTC
1 T-TT-TCTT
* *
9818876 TTCTCTC
1 TTTTCTT
9818883 TTTTCTT
1 TTTTCTT
9818890 TTTTCTT
1 TTTTCTT
9818897 TTTT-TT
1 TTTTCTT
*
9818903 TTCTCTT
1 TTTTCTT
*
9818910 TTTCCTT
1 TTTTCTT
9818917 TTTATCTT
1 TTT-TCTT
9818925 TTTTC
1 TTTTC
9818930 CTATTTTATG
Statistics
Matches: 61, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
6 10 0.16
7 38 0.62
8 9 0.15
9 4 0.07
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTCTT
Found at i:9818906 original size:27 final size:28
Alignment explanation
Indices: 9818876--9818928 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
9818866 TTCTTCTCTC
9818876 TTCTCTCTTTT-CTTTTT-TCTTTTTTTT
1 TTCTCT-TTTTCCTTTTTATCTTTTTTTT
9818903 TTCTCTTTTTCCTTTTTATCTTTTTT
1 TTCTCTTTTTCCTTTTTATCTTTTTT
9818929 CCTATTTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 4 0.17
27 12 0.50
28 8 0.33
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (28 bp):
TTCTCTTTTTCCTTTTTATCTTTTTTTT
Found at i:9818930 original size:16 final size:17
Alignment explanation
Indices: 9818898--9818938 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
9818888 TTTTTTCTTT
*
9818898 TTTTTTTCTCTTTTTCC
1 TTTTTATCTCTTTTTCC
9818915 TTTTTATCT-TTTTTCC
1 TTTTTATCTCTTTTTCC
9818931 TATTTTAT
1 T-TTTTAT
9818939 GTATTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTTTATCTCTTTTTCC
Found at i:9822671 original size:16 final size:16
Alignment explanation
Indices: 9822645--9822688 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
9822635 CAATTAAAAA
*
9822645 ATAAAATATAAAAAAAC
1 ATAAAATA-AAAACAAC
9822662 AGTAAAATAAAAACAAC
1 A-TAAAATAAAAACAAC
*
9822679 ATAAATTAAA
1 ATAAAATAAA
9822689 TTAAAATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.33
17 9 0.38
18 7 0.29
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAAATAAAAACAAC
Found at i:9822674 original size:17 final size:16
Alignment explanation
Indices: 9822640--9822688 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
9822630 TTAAACAATT
9822640 AAAAA-ATAAAATATAA
1 AAAAACATAAAATA-AA
9822656 AAAAACAGTAAAATAAA
1 AAAAACA-TAAAATAAA
* *
9822673 AACAACATAAATTAAA
1 AAAAACATAAAATAAA
9822689 TTAAAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 13 0.45
17 9 0.31
18 7 0.24
ACGTcount: A:0.76, C:0.06, G:0.02, T:0.16
Consensus pattern (16 bp):
AAAAACATAAAATAAA
Found at i:9822693 original size:21 final size:21
Alignment explanation
Indices: 9822664--9822704 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
9822654 AAAAAAACAG
9822664 TAAAATAAAA-ACAACATAAAT
1 TAAAATAAAATA-AACATAAAT
*
9822685 TAAATTAAAATAAACATAAA
1 TAAAATAAAATAAACATAAA
9822705 ATATAAGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAAATAAAATAAACATAAAT
Found at i:9824389 original size:35 final size:35
Alignment explanation
Indices: 9824346--9824416 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
9824336 CTACCTCCAT
*
9824346 TATAAATATAAAGAATATATTTAAAAGATGTCTTA
1 TATAAATATAAAGAATAAATTTAAAAGATGTCTTA
9824381 TATAAATATAAAGAATAAATTTAAAAGATGTCTTA
1 TATAAATATAAAGAATAAATTTAAAAGATGTCTTA
9824416 T
1 T
9824417 GTATCCCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.52, C:0.03, G:0.08, T:0.37
Consensus pattern (35 bp):
TATAAATATAAAGAATAAATTTAAAAGATGTCTTA
Found at i:9828386 original size:22 final size:22
Alignment explanation
Indices: 9828334--9828412 Score: 70
Period size: 22 Copynumber: 3.5 Consensus size: 22
9828324 ATTATACGGT
*
9828334 ATGAACA-TACTATGAACAGTA
1 ATGAACAGTACCATGAACAGTA
* * *
9828355 ATAAATAGTACCATGAAGAGTA
1 ATGAACAGTACCATGAACAGTA
* *
9828377 ATGAACAGTAACGTGAACAGTA
1 ATGAACAGTACCATGAACAGTA
*
9828399 CCGTGAACAGTACC
1 --ATGAACAGTACC
9828413 GAATGCTAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
21 5 0.11
22 29 0.66
24 10 0.23
ACGTcount: A:0.44, C:0.16, G:0.19, T:0.20
Consensus pattern (22 bp):
ATGAACAGTACCATGAACAGTA
Found at i:9828411 original size:12 final size:12
Alignment explanation
Indices: 9828378--9828413 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
9828368 TGAAGAGTAA
*
9828378 TGAACAGTAACG
1 TGAACAGTACCG
9828390 TGAACAGTACCG
1 TGAACAGTACCG
9828402 TGAACAGTACCG
1 TGAACAGTACCG
9828414 AATGCTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:9838580 original size:22 final size:21
Alignment explanation
Indices: 9838537--9838584 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
9838527 AGGGGTTTAA
9838537 AAACC-AGTCAAGGGAGTTCG
1 AAACCAAGTCAAGGGAGTTCG
* *
9838557 AAACCAAGTACAATGGATTTCG
1 AAACCAAGT-CAAGGGAGTTCG
9838579 AAACCA
1 AAACCA
9838585 GGAAATGAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 5 0.21
21 3 0.12
22 16 0.67
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (21 bp):
AAACCAAGTCAAGGGAGTTCG
Found at i:9839523 original size:122 final size:123
Alignment explanation
Indices: 9839295--9839537 Score: 357
Period size: 122 Copynumber: 2.0 Consensus size: 123
9839285 CAAATGAATC
* * * * *
9839295 ATTTTCCGTTAAAAAAATTAATGATATTTTGAGATGTATGTTAATATGAGGTATGAGATATGATA
1 ATTTTCCGTTAAAAAAATTAATGAAATTTTGAGACGGATGTTAATATGAGGAATGAGATATGACA
* * * *
9839360 GTCATTTGAAATTTTGGGATAAGATTTTATCATATCTTAGACAACA-AGTTAACATCAA
66 GTCATTTGAAATTCTAGGATAAGAGTCTATCATATCTTAGACAACATA-TTAACATCAA
*
9839418 ATTTTCCGTT-AAAAAATTAATGAAATTTTGAGACGGATGTTAATATGAGGAATGAGATATGGCA
1 ATTTTCCGTTAAAAAAATTAATGAAATTTTGAGACGGATGTTAATATGAGGAATGAGATATGACA
9839482 GTCATTTGAAATTCTAGGATCAA-AGTCTATCATATCTTAGACAACATATTAACATC
66 GTCATTTGAAATTCTAGGAT-AAGAGTCTATCATATCTTAGACAACATATTAACATC
9839538 CAACTCAAAC
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 95 0.88
123 13 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (123 bp):
ATTTTCCGTTAAAAAAATTAATGAAATTTTGAGACGGATGTTAATATGAGGAATGAGATATGACA
GTCATTTGAAATTCTAGGATAAGAGTCTATCATATCTTAGACAACATATTAACATCAA
Found at i:9839672 original size:60 final size:60
Alignment explanation
Indices: 9839594--9839716 Score: 158
Period size: 60 Copynumber: 2.0 Consensus size: 60
9839584 AATATAATGA
** * * *
9839594 ATAGTCAAGTGACCATTTTGTAACTTTTAATAGTCGGGGGACTCAACAAAGTAATATCCT
1 ATAGTCAAGTGACCATTTTGTAACTTTTAATAGTCAAGGAACTCAACAAAGTAACAACCT
* * *
9839654 ATAGTCGAA-TGACTATTTTGTAACTTTTGATAGTCAATGAACTCAACAAAGTAACAACCT
1 ATAGTC-AAGTGACCATTTTGTAACTTTTAATAGTCAAGGAACTCAACAAAGTAACAACCT
9839714 ATA
1 ATA
9839717 ATTGGAGGAC
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
60 52 0.96
61 2 0.04
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (60 bp):
ATAGTCAAGTGACCATTTTGTAACTTTTAATAGTCAAGGAACTCAACAAAGTAACAACCT
Found at i:9840032 original size:51 final size:51
Alignment explanation
Indices: 9839970--9840097 Score: 220
Period size: 51 Copynumber: 2.5 Consensus size: 51
9839960 ATTTAATTAG
* * *
9839970 CACATGTCAAAGTATTAGATTAGAATACTATAAGAGGTTATAACAAACTTT
1 CACATGCCAAAGCATTAGATTTGAATACTATAAGAGGTTATAACAAACTTT
9840021 CACATGCCAAAGCATTAGATTTGAATACTATAAGAGGTTATAACAAACTTT
1 CACATGCCAAAGCATTAGATTTGAATACTATAAGAGGTTATAACAAACTTT
*
9840072 CACGTGCCAAAGCATTAGATTTGAAT
1 CACATGCCAAAGCATTAGATTTGAAT
9840098 TGTATCAAAG
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (51 bp):
CACATGCCAAAGCATTAGATTTGAATACTATAAGAGGTTATAACAAACTTT
Found at i:9847682 original size:17 final size:17
Alignment explanation
Indices: 9847660--9847708 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
9847650 ATCAAAACTC
9847660 TCTCCATCATCTTCTCT
1 TCTCCATCATCTTCTCT
**
9847677 TCTCCAT--TCTAATC-
1 TCTCCATCATCTTCTCT
*
9847691 TCTCCACCATCTTCTCT
1 TCTCCATCATCTTCTCT
9847708 T
1 T
9847709 TTTTTATTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 5 0.21
17 8 0.33
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (17 bp):
TCTCCATCATCTTCTCT
Found at i:9848690 original size:17 final size:17
Alignment explanation
Indices: 9848668--9848716 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 17
9848658 ATCAAAACTC
9848668 TCTCCATCATCTTCTCT
1 TCTCCATCATCTTCTCT
**
9848685 TCTCCAT--TCTAATC-
1 TCTCCATCATCTTCTCT
*
9848699 TCTCCACCATCTTCTCT
1 TCTCCATCATCTTCTCT
9848716 T
1 T
9848717 TTTTTATTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 6
0.69 0.14 0.17
Matches are distributed among these distances:
14 6 0.25
15 5 0.21
16 5 0.21
17 8 0.33
ACGTcount: A:0.14, C:0.41, G:0.00, T:0.45
Consensus pattern (17 bp):
TCTCCATCATCTTCTCT
Found at i:9853504 original size:35 final size:35
Alignment explanation
Indices: 9853464--9853533 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 35
9853454 AATCTTCATG
**
9853464 GGGTATCGATACTGA-AGGGATAGTATCGGTACCAT
1 GGGTATCGATACCAATAGGGA-AGTATCGGTACCAT
*
9853499 GGGTATCGATACCAATATGGAAGTATCGGTACCAT
1 GGGTATCGATACCAATAGGGAAGTATCGGTACCAT
9853534 TATTGCAAGG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
35 27 0.87
36 4 0.13
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (35 bp):
GGGTATCGATACCAATAGGGAAGTATCGGTACCAT
Found at i:9853646 original size:18 final size:18
Alignment explanation
Indices: 9853619--9853660 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
9853609 ATCGGTACTG
*
9853619 TACTTGTAGTACCGATAC
1 TACTTATAGTACCGATAC
9853637 TACTTATAGTACCGATAC
1 TACTTATAGTACCGATAC
9853655 TACTTA
1 TACTTA
9853661 AGTTGGAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.31, C:0.21, G:0.12, T:0.36
Consensus pattern (18 bp):
TACTTATAGTACCGATAC
Found at i:9857650 original size:35 final size:36
Alignment explanation
Indices: 9857554--9857670 Score: 209
Period size: 36 Copynumber: 3.3 Consensus size: 36
9857544 AAGTTTGCAT
*
9857554 CGATTCAAGTCGAACGGAGGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
9857590 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
*
9857626 CGATTCAAGT-GAACGGAAGAAAGCATCGGCACTTC
1 CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
9857661 CGATTCAAGT
1 CGATTCAAGT
9857671 ATTCATCTAT
Statistics
Matches: 79, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
35 34 0.43
36 45 0.57
ACGTcount: A:0.31, C:0.24, G:0.27, T:0.18
Consensus pattern (36 bp):
CGATTCAAGTCGAACGGAAGGAAGCATCGGCACTTC
Found at i:9864896 original size:22 final size:22
Alignment explanation
Indices: 9864868--9864932 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
9864858 AAAACACACC
9864868 CTTAGGGTTTGAGATTTTGAGA
1 CTTAGGGTTTGAGATTTTGAGA
9864890 CTTAGGGTTTGAGATTTTGAGA
1 CTTAGGGTTTGAGATTTTGAGA
*
9864912 CTTAGAGTTTGAGA-TTTGAGA
1 CTTAGGGTTTGAGATTTTGAGA
9864933 TTGGAGTAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
21 7 0.17
22 35 0.83
ACGTcount: A:0.25, C:0.05, G:0.31, T:0.40
Consensus pattern (22 bp):
CTTAGGGTTTGAGATTTTGAGA
Found at i:9865459 original size:2 final size:2
Alignment explanation
Indices: 9865452--9865493 Score: 50
Period size: 2 Copynumber: 21.0 Consensus size: 2
9865442 GTCCTAACTC
* *
9865452 AT AT AT AT -T AT GT AT AA AT ACT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT
9865494 TATTTTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
1 1 0.03
2 31 0.91
3 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9866775 original size:22 final size:22
Alignment explanation
Indices: 9866749--9866791 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9866739 TTAAATACTT
9866749 ATTTTAACTAAAAAATAATTTC
1 ATTTTAACTAAAAAATAATTTC
* *
9866771 ATTTTGATTAAAAAATAATTT
1 ATTTTAACTAAAAAATAATTT
9866792 AAATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTTTAACTAAAAAATAATTTC
Found at i:9868307 original size:214 final size:213
Alignment explanation
Indices: 9867554--9868837 Score: 2094
Period size: 214 Copynumber: 6.0 Consensus size: 213
9867544 TACTTTCATG
*
9867554 TTTATAATTCAAAAAAAGTGGGTCGAGA-ATAATTAAGATCAAAAATAAATTCAACCTGACCTCA
1 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGAT-AAAAATAAATTCAACCTGACCTCA
*
9867618 ATCGGTCAATTTTACACGGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCA
65 ATCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCA
* *
9867683 TTTACTCATATACAATATGAACAAAATATGTTTTCTTAAAAAAATATTAATTGTATATGTAGTTA
130 TTTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTTA
9867748 TTTACTTATTTAAACATAA
195 TTTACTTATTTAAACATAA
*
9867767 TTTATAATT-AAAAAAAGTAGGTCGAGACATAATTAAGATAAAAAATAAATTCAACCTGACCTCA
1 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGAT-AAAAATAAATTCAACCTGACCTCA
* * * *
9867831 ATCGGTCAAATTTACACGGAATTCAAGAAATACTTATCGGTCGGGTTAAGATCCAGTAATAGTCA
65 ATCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCA
* *
9867896 TATACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAACTATTAATAGTATAGGTAGTT
130 TTTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAA-TATTAATAGTATATGTAGTT
9867961 ATTTACTTATTTAAACATAA
194 ATTTACTTATTTAAACATAA
*
9867981 TTTATAATT--AAAAAAGTGGGCCGAGACATAATTAAGATTAAAAA-AAATTCAACCTGACCTCA
1 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGA-TAAAAATAAATTCAACCTGACCTCA
*
9868043 ATCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCAAGTCATAGTCA
65 ATCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCA
* * * *
9868108 TTTACTCATATACAACATGAACAAAATATGTTTTAATAAAAAAATATCAATAGTATATGTAATTA
130 TTTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTTA
9868173 TTTACTTATTTAAACATAA
195 TTTACTTATTTAAACATAA
9868192 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGATAAAAACTAAATTCAACCTGACCTCA
1 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGATAAAAA-TAAATTCAACCTGACCTCA
* * * * *
9868257 ATCGATTAATTTTACACGGAATTCAAGAAGTACTTATAGGCCGGGTTAAGATCCAGTCATAGTCA
65 ATCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCA
* *
9868322 TTTACTCATATACAATATTAACAAAATATATTTTATTAAAAAAATATTAATAGTATATGTAGTTA
130 TTTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTTA
9868387 TTTACTTATTTAAACATAA
195 TTTACTTATTTAAACATAA
*
9868406 TTTATAATTAAAAAAAAGTGGTTCGAGACATAATTAAGATAAAAAATAAATTCAACCTGACCTCA
1 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGAT-AAAAATAAATTCAACCTGACCTCA
* * *
9868471 ATCGGAT-AATTTTATACAGAGTTCTAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTC
65 ATCGG-TCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTC
* *
9868535 ATATACTTATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTT
129 ATTTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTT
*
9868600 ATTTACTTATTTAAGCATAA
194 ATTTACTTATTTAAACATAA
*
9868620 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGATCAAAAATAAATTCAACCTCACCTCA
1 TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGAT-AAAAATAAATTCAACCTGACCTCA
* * * * *
9868685 ATCGGGCAATTTTACACAGAGTTCTATAAGTACTTATCGGTCGGGTTAAGATCTAGTCATAGTCA
65 ATCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCA
**
9868750 TTTACTCATATACAATATGAACCGAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTTA
130 TTTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTTA
*
9868815 TTTACTTATTTAAACATAG
195 TTTACTTATTTAAACATAA
9868834 TTTA
1 TTTA
9868838 CTTGAAATAC
Statistics
Matches: 1000, Mismatches: 61, Indels: 19
0.93 0.06 0.02
Matches are distributed among these distances:
211 46 0.05
212 142 0.14
213 206 0.21
214 600 0.60
215 6 0.01
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (213 bp):
TTTATAATTAAAAAAAAGTGGGTCGAGACATAATTAAGATAAAAATAAATTCAACCTGACCTCAA
TCGGTCAATTTTACACAGAATTCAAGAAGTACTTATCGGTCGGGTTAAGATCCAGTCATAGTCAT
TTACTCATATACAATATGAACAAAATATGTTTTATTAAAAAAATATTAATAGTATATGTAGTTAT
TTACTTATTTAAACATAA
Found at i:9872428 original size:16 final size:16
Alignment explanation
Indices: 9872407--9872440 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9872397 GTTCATATTC
9872407 ATAAACTAATTTACTT
1 ATAAACTAATTTACTT
* *
9872423 ATAAACTTATTTATTT
1 ATAAACTAATTTACTT
9872439 AT
1 AT
9872441 TTTGATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (16 bp):
ATAAACTAATTTACTT
Found at i:9873240 original size:2 final size:2
Alignment explanation
Indices: 9873233--9873267 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
9873223 AATATTTAAT
*
9873233 TA TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9873268 GTATGTATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9873272 original size:4 final size:4
Alignment explanation
Indices: 9873265--9873303 Score: 69
Period size: 4 Copynumber: 9.8 Consensus size: 4
9873255 CATATATATA
*
9873265 TATG TATG TATG TATG TATG TATG TATG AATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
9873304 CTGGTTAGAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:9891850 original size:136 final size:136
Alignment explanation
Indices: 9891606--9891878 Score: 537
Period size: 136 Copynumber: 2.0 Consensus size: 136
9891596 ACAAACGGAC
*
9891606 TGGAGTCATAATTGCACATGTGAATGAGTAAATTAGAATAAGCATGCAATTCAAAATTAGAAATG
1 TGGAGTCATAATTGCACATGTGAACGAGTAAATTAGAATAAGCATGCAATTCAAAATTAGAAATG
9891671 GGTTGCTGACTGCATTTTAAATGTATATGAAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGC
66 GGTTGCTGACTGCATTTTAAATGTATATGAAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGC
9891736 CCTGTT
131 CCTGTT
9891742 TGGAGTCATAATTGCACATGTGAACGAGTAAATTAGAATAAGCATGCAATTCAAAATTAGAAATG
1 TGGAGTCATAATTGCACATGTGAACGAGTAAATTAGAATAAGCATGCAATTCAAAATTAGAAATG
9891807 GGTTGCTGACTGCATTTTAAATGTATATGAAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGC
66 GGTTGCTGACTGCATTTTAAATGTATATGAAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGC
9891872 CCTGTT
131 CCTGTT
9891878 T
1 T
9891879 ATCTCCCAGC
Statistics
Matches: 136, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
136 136 1.00
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.28
Consensus pattern (136 bp):
TGGAGTCATAATTGCACATGTGAACGAGTAAATTAGAATAAGCATGCAATTCAAAATTAGAAATG
GGTTGCTGACTGCATTTTAAATGTATATGAAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGC
CCTGTT
Found at i:9891928 original size:136 final size:135
Alignment explanation
Indices: 9891635--9891913 Score: 398
Period size: 136 Copynumber: 2.0 Consensus size: 135
9891625 GTGAATGAGT
*
9891635 AAATTAGAATAAGCATGCAATTCAAAATTAGAAATGGGTTGCTGACTGCATTTTAAATGTATATG
1 AAATTAGAATAAGCATACAATTCAAAATTAGAAATGGGTTGCTGACTGCATTTTAAATGTATATG
* * * * *
9891700 AAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGCCCTGTTTGGAGTCATAATTGCACATGTGA
66 AAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGCCCTGTTT-GACTCACAAATGCAAATATGA
* **
9891765 ACGAGT
130 AAGAAC
*
9891771 AAATTAGAATAAGCATGCAATTCAAAATTAGAAATGGGTTGCTGACTGCATTTTAAATGTATATG
1 AAATTAGAATAAGCATACAATTCAAAATTAGAAATGGGTTGCTGACTGCATTTTAAATGTATATG
*
9891836 AAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGCCCTGTTT-ATCTCCCAGCAAATGGAGAAT
66 AAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGCCCTGTTTGA-CT--CA-CAAATGCA-AAT
9891900 ATGAAAGAAC
126 ATGAAAGAAC
9891910 AAAT
1 AAAT
9891914 AACTTTTCTA
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
134 1 0.01
135 1 0.01
136 108 0.84
137 2 0.02
138 5 0.04
139 12 0.09
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.26
Consensus pattern (135 bp):
AAATTAGAATAAGCATACAATTCAAAATTAGAAATGGGTTGCTGACTGCATTTTAAATGTATATG
AAAACAGCCAGTAAAACTGCTTGGATAACAAAAGGCCCTGTTTGACTCACAAATGCAAATATGAA
AGAAC
Found at i:9893760 original size:2 final size:2
Alignment explanation
Indices: 9893753--9893784 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9893743 GTTTGTAATA
9893753 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
9893785 CACAAAAAAT
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:9895057 original size:31 final size:31
Alignment explanation
Indices: 9894993--9895058 Score: 91
Period size: 31 Copynumber: 2.1 Consensus size: 31
9894983 TTTTATTTTG
*
9894993 AATTTTAGATAAAATATCATTTTGACTCCTA
1 AATTTTAGATAAAATATCATTTTAACTCCTA
9895024 AATTTTAGA-AGAAATATCATTTTAAC-CCTTA
1 AATTTTAGATA-AAATATCATTTTAACTCC-TA
9895055 AATT
1 AATT
9895059 AGACTAAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (31 bp):
AATTTTAGATAAAATATCATTTTAACTCCTA
Found at i:9896183 original size:17 final size:17
Alignment explanation
Indices: 9896156--9896194 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
9896146 CATTTACAAT
9896156 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
9896172 TAATTATAAATAATATC
1 TAATTATAAATAATATC
9896189 TAATTA
1 TAATTA
9896195 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:9896323 original size:9 final size:9
Alignment explanation
Indices: 9896309--9896334 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
9896299 TATATTTAAA
9896309 GGTTAATTC
1 GGTTAATTC
9896318 GGTTAATTC
1 GGTTAATTC
9896327 GGTTAATT
1 GGTTAATT
9896335 AACCGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:9897942 original size:7 final size:7
Alignment explanation
Indices: 9897930--9897968 Score: 64
Period size: 7 Copynumber: 5.9 Consensus size: 7
9897920 TATTCTTTTT
9897930 AAAATCA
1 AAAATCA
9897937 AAAATCA
1 AAAATCA
9897944 AAAATCA
1 AAAATCA
9897951 AAAAT--
1 AAAATCA
9897956 AAAATCA
1 AAAATCA
9897963 AAAATC
1 AAAATC
9897969 TATATCTATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.17
7 25 0.83
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAATCA
Found at i:9897975 original size:6 final size:6
Alignment explanation
Indices: 9897966--9898004 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
9897956 AAAATCAAAA
*
9897966 ATCTAT ATCTAT ATCTAT ATCTAT ATATAT ATCTAT ATC
1 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATC
9898005 ATTATGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.49
Consensus pattern (6 bp):
ATCTAT
Found at i:9898243 original size:26 final size:26
Alignment explanation
Indices: 9898213--9898270 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
9898203 AGAATACCTA
9898213 TAAAAT-GACTTTTTAAAAGAAAATTT
1 TAAAATCGACTTTTT-AAAGAAAATTT
** **
9898239 TAAAATCTTCTTTTTAAAGATGATTT
1 TAAAATCGACTTTTTAAAGAAAATTT
9898265 TAAAAT
1 TAAAAT
9898271 ATGCGTTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 21 0.78
27 6 0.22
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.43
Consensus pattern (26 bp):
TAAAATCGACTTTTTAAAGAAAATTT
Found at i:9901675 original size:42 final size:42
Alignment explanation
Indices: 9901566--9901851 Score: 283
Period size: 42 Copynumber: 6.8 Consensus size: 42
9901556 ATATGTCAAG
* *
9901566 ATCTATTGCGGCGTTTTTGGAACAAACGCCGCAAAATGTCAAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
* *
9901609 ATCAATAGCGGCGCTTTTGGAACAAACGCCG-AAAAGGTCGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
* * * * **
9901651 ATCTATTGCGGCATCTTTGTAACAAATACCGCAAAAGGTCAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAT
* * *
9901693 ATATATAGCGGCGTTTTTGGATACAAACGCCGCAAAATGTCAG
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGCAAAAGGTCAT
**
9901736 ATCTATAGCGGCGTTTTTGGAACAAACATCGCAAAAGGTCGAT
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTC-AT
* ** * * * *
9901779 ATCTATAACAAC-ATTTTGAAACAAACACCGCAAATA--TCAG
1 ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAA-AGGTCAT
*
9901819 ATTTATAGCGGCGTTTTTGGATACAAACGCCGC
1 ATCTATAGCGGCGTTTTTGGA-ACAAACGCCGC
9901852 TAATTACCGA
Statistics
Matches: 196, Mismatches: 41, Indels: 13
0.78 0.16 0.05
Matches are distributed among these distances:
40 9 0.05
41 8 0.04
42 95 0.48
43 84 0.43
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.26
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGGAACAAACGCCGCAAAAGGTCAT
Found at i:9901675 original size:85 final size:86
Alignment explanation
Indices: 9901564--9901851 Score: 288
Period size: 85 Copynumber: 3.4 Consensus size: 86
9901554 CAATATGTCA
* *
9901564 AGATCTATTGCGGCGTTTTTGGAACAAACGCCGCAAAATGTCAATATCA-ATAGCGGCGCTTTTG
1 AGATCTATTGCGGCGTTTTTGGAACAAACACCGCAAAAGGTC-ATATCATATAGCGGCGCTTTTG
9901628 GA-ACAAACGCCG-AAAAGGTC
65 GATACAAACGCCGCAAAAGGTC
* * * * * *
9901648 GATATCTATTGCGGCATCTTTGTAACAAATACCGCAAAAGGTCATAT-ATATAGCGGCGTTTTTG
1 -AGATCTATTGCGGCGTTTTTGGAACAAACACCGCAAAAGGTCATATCATATAGCGGCGCTTTTG
*
9901712 GATACAAACGCCGCAAAATGTC
65 GATACAAACGCCGCAAAAGGTC
* * * ** *
9901734 AGATCTATAGCGGCGTTTTTGGAACAAACATCGCAAAAGGTCGATATC-TATAACAAC-ATTTT-
1 AGATCTATTGCGGCGTTTTTGGAACAAACACCGCAAAAGGTC-ATATCATATAGCGGCGCTTTTG
* *
9901796 GAAACAAACACCGCAAATA--TC
65 GATACAAACGCCGCAAA-AGGTC
* * *
9901817 AGATTTATAGCGGCGTTTTTGGATACAAACGCCGC
1 AGATCTATTGCGGCGTTTTTGGA-ACAAACACCGC
9901852 TAATTACCGA
Statistics
Matches: 171, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
83 25 0.15
84 44 0.26
85 85 0.50
86 17 0.10
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.25
Consensus pattern (86 bp):
AGATCTATTGCGGCGTTTTTGGAACAAACACCGCAAAAGGTCATATCATATAGCGGCGCTTTTGG
ATACAAACGCCGCAAAAGGTC
Found at i:9902569 original size:14 final size:14
Alignment explanation
Indices: 9902550--9902581 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
9902540 TCTAACTACT
9902550 GTAAAGTGCACAAC
1 GTAAAGTGCACAAC
9902564 GTAAAGTGCACAAC
1 GTAAAGTGCACAAC
9902578 GTAA
1 GTAA
9902582 CCGAATGGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (14 bp):
GTAAAGTGCACAAC
Found at i:9905929 original size:41 final size:41
Alignment explanation
Indices: 9905891--9906041 Score: 130
Period size: 42 Copynumber: 3.6 Consensus size: 41
9905881 ACCCTATTAT
*
9905891 GGCGTTTG-TATAAAAATGCCGCTAAATTACTACTCTATTGC
1 GGCGTTTGTTA-AAAAATGCCGCTAAATTACAACTCTATTGC
* * * *
9905932 GGCATTTGTTGAAAAAATGCCACTATAA--ACAACTATATTCC
1 GGCGTTTGTT-AAAAAATGCCGCTA-AATTACAACTCTATTGC
* * * *
9905973 GGCGTTTGAGCT-ATAAACGCCGCTAAATTACCACTCTATTGC
1 GGCGTTT--GTTAAAAAATGCCGCTAAATTACAACTCTATTGC
*
9906015 GGCGTTTGTTGAAAAAATGCCGTTAAA
1 GGCGTTTGTT-AAAAAATGCCGCTAAA
9906042 GTAGTATTTT
Statistics
Matches: 84, Mismatches: 17, Indels: 17
0.71 0.14 0.14
Matches are distributed among these distances:
40 4 0.05
41 33 0.39
42 42 0.50
43 5 0.06
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (41 bp):
GGCGTTTGTTAAAAAATGCCGCTAAATTACAACTCTATTGC
Found at i:9906003 original size:83 final size:82
Alignment explanation
Indices: 9905807--9906035 Score: 253
Period size: 82 Copynumber: 2.8 Consensus size: 82
9905797 TTACTAATTG
* * * * * * * * *
9905807 CGGCGTTTGTTTGATAAACGCCGCTAAATTACTTCTATATAGCGTCGTTTATTGGATAAATACCA
1 CGGCGTTTGTAT-ATAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTTGAAAAAATGCCA
* * *
9905872 CTGTAAGCAACCCTATTA
65 CTATAAACAACCATATTA
* * * *
9905890 TGGCGTTTGTATAAAAATGCCGCTAAATTACTACTCTATTGCGGCATTTGTTGAAAAAATGCCAC
1 CGGCGTTTGTATATAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTTGAAAAAATGCCAC
* *
9905955 TATAAACAACTATATTC
66 TATAAACAACCATATTA
*
9905972 CGGCGTTTG-AGCTATAAACGCCGCTAAATTACCACTCTATTGCGGCGTTTGTTGAAAAAATGCC
1 CGGCGTTTGTA--TATAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTTGAAAAAATGCC
9906036 GTTAAAGTAG
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
81 1 0.01
82 62 0.51
83 58 0.48
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (82 bp):
CGGCGTTTGTATATAAACGCCGCTAAATTACTACTCTATTGCGGCGTTTGTTGAAAAAATGCCAC
TATAAACAACCATATTA
Found at i:9908306 original size:22 final size:20
Alignment explanation
Indices: 9908281--9908330 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 20
9908271 AAACTAAATT
*
9908281 TTAATTCTTTTAAATTTTATTA
1 TTAATTATTTTAAA-TTT-TTA
9908303 TTAATTATATTTTAAATTTTTA
1 TTAA-T-TATTTTAAATTTTTA
9908325 TTAATT
1 TTAATT
9908331 TTAAAATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 1 0.04
22 11 0.44
23 4 0.16
24 8 0.32
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAATTATTTTAAATTTTTA
Found at i:9911134 original size:105 final size:106
Alignment explanation
Indices: 9911004--9911264 Score: 416
Period size: 105 Copynumber: 2.4 Consensus size: 106
9910994 AGCAAAAAAT
* *
9911004 AATTATCATAAAGTTGATTTTATGTAATGGTTCATTGAATTGGTAAATTTTATTCACACAAATAC
1 AATTATCATAAAATTGATCTTATGTAATGGTTCATTGAATTGGTAAATTTTATTCACACAAATAC
9911069 GTATTTATGGTGAAG-ACATACATACGTAATAGTGTGTAAA
66 GTATTTATGGTGAAGAACATACATACGTAATAGTGTGTAAA
*
9911109 AATTATCATAAAATTGATCTTATGTAATGGTTCATTGAATTGGTAAATTTTATTCATACAAATAC
1 AATTATCATAAAATTGATCTTATGTAATGGTTCATTGAATTGGTAAATTTTATTCACACAAATAC
9911174 GTATTTATGGTGAAGACATACATACATACATACGTAATAGTGTGTAAA
66 GTATTTATGGTGAAG------A-ACATACATACGTAATAGTGTGTAAA
*
9911222 AATTATCATAAAATTGATCTTATGTAAGGGTTCATTGAATTGG
1 AATTATCATAAAATTGATCTTATGTAATGGTTCATTGAATTGG
9911265 GCCTAATTTA
Statistics
Matches: 144, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
105 77 0.53
113 67 0.47
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (106 bp):
AATTATCATAAAATTGATCTTATGTAATGGTTCATTGAATTGGTAAATTTTATTCACACAAATAC
GTATTTATGGTGAAGAACATACATACGTAATAGTGTGTAAA
Found at i:9913514 original size:21 final size:23
Alignment explanation
Indices: 9913490--9913540 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
9913480 AAATATATTA
*
9913490 AAAGATAGAAAAAAGTGT-C-AT
1 AAAGACAGAAAAAAGTGTACTAT
* *
9913511 AAAGACATAGAAAAGTGTACTAT
1 AAAGACAGAAAAAAGTGTACTAT
9913534 AAAGACA
1 AAAGACA
9913541 AAATTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 15 0.60
22 1 0.04
23 9 0.36
ACGTcount: A:0.57, C:0.08, G:0.18, T:0.18
Consensus pattern (23 bp):
AAAGACAGAAAAAAGTGTACTAT
Found at i:9914175 original size:95 final size:95
Alignment explanation
Indices: 9914012--9914202 Score: 337
Period size: 95 Copynumber: 2.0 Consensus size: 95
9914002 TTGGTCGTTG
*
9914012 TTACTTATATATTCTATCAATTTGATCATACTTTAATAAATATAAACTTAACCCTCAAATCAAAT
1 TTACTTATATATTCTATCAATTAGATCATACTTTAATAAATATAAACTTAACCCTCAAATCAAAT
*
9914077 AGTGCCATGGGTCACTGCTGTCAAGTGTAA
66 AGTGCCATGGGTCACTACTGTCAAGTGTAA
*
9914107 TTACTTATATATTCTATCAATTAGGTCATACTTTAATAAATATAAACTTAACCCTCAAATCAAAT
1 TTACTTATATATTCTATCAATTAGATCATACTTTAATAAATATAAACTTAACCCTCAAATCAAAT
* *
9914172 AGTGTCATGTGTCACTACTGTCAAGTGTAA
66 AGTGCCATGGGTCACTACTGTCAAGTGTAA
9914202 T
1 T
9914203 GACATGTGTC
Statistics
Matches: 91, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
95 91 1.00
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (95 bp):
TTACTTATATATTCTATCAATTAGATCATACTTTAATAAATATAAACTTAACCCTCAAATCAAAT
AGTGCCATGGGTCACTACTGTCAAGTGTAA
Found at i:9914259 original size:16 final size:16
Alignment explanation
Indices: 9914235--9914268 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
9914225 GATGATTAAA
*
9914235 TTTATTTTAATATATT
1 TTTAATTTAATATATT
9914251 TTTAATTTAATATATT
1 TTTAATTTAATATATT
9914267 TT
1 TT
9914269 CTCACCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTAATTTAATATATT
Found at i:9914442 original size:24 final size:25
Alignment explanation
Indices: 9914415--9914464 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
9914405 ATTTTTATTC
*
9914415 TTATCTTAACT-TAAAAATAAATTT
1 TTATCTTAACTACAAAAATAAATTT
* *
9914439 TTATTTTAACTACAAAAATATATTT
1 TTATCTTAACTACAAAAATAAATTT
9914464 T
1 T
9914465 ATTTTTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (25 bp):
TTATCTTAACTACAAAAATAAATTT
Found at i:9914463 original size:25 final size:24
Alignment explanation
Indices: 9914410--9914469 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
9914400 GTTCAATTTT
* * *
9914410 TATTCTTATCTTAACTTAAAAATA
1 TATTTTTATTTTAACTCAAAAATA
*
9914434 AATTTTTATTTTAACTACAAAAATA
1 TATTTTTATTTTAACT-CAAAAATA
9914459 TA-TTTTATTTT
1 TATTTTTATTTT
9914470 TATCTTTACT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 22 0.73
25 8 0.27
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (24 bp):
TATTTTTATTTTAACTCAAAAATA
Found at i:9914469 original size:30 final size:30
Alignment explanation
Indices: 9914435--9914502 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
9914425 TTAAAAATAA
* *
9914435 ATTTTTAT-TTTAACTACAAAAATATATTTT
1 ATTTTTATCTTT-ACTACAAAAAAATATATT
*
9914465 ATTTTTATCTTTACTCCAAAAAAATATATT
1 ATTTTTATCTTTACTACAAAAAAATATATT
9914495 ATATTTTA
1 AT-TTTTA
9914503 ACTGTAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTTTATCTTTACTACAAAAAAATATATT
Found at i:9918647 original size:31 final size:31
Alignment explanation
Indices: 9918597--9918672 Score: 100
Period size: 31 Copynumber: 2.5 Consensus size: 31
9918587 TTCAAAAAAT
*
9918597 ATAAGTTTTGGTCACTTATGTTAAT-GTTTTA
1 ATAAGTTTTGGTCAATTATGTT-ATCGTTTTA
* *
9918628 ATAAGATTTAGTCAATTATGTTATCGTTTTA
1 ATAAGTTTTGGTCAATTATGTTATCGTTTTA
*
9918659 TTAAGTTTTGGTCA
1 ATAAGTTTTGGTCA
9918673 CTTAGATGGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 2 0.05
31 36 0.95
ACGTcount: A:0.28, C:0.07, G:0.16, T:0.50
Consensus pattern (31 bp):
ATAAGTTTTGGTCAATTATGTTATCGTTTTA
Found at i:9921033 original size:12 final size:12
Alignment explanation
Indices: 9921016--9921050 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
9921006 ATCTCGGCTC
9921016 GTGCTCGTGCTT
1 GTGCTCGTGCTT
*
9921028 GTGCTCGTGTTT
1 GTGCTCGTGCTT
*
9921040 GTGCTCATGCT
1 GTGCTCGTGCT
9921051 CATGGTCGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.23, G:0.31, T:0.43
Consensus pattern (12 bp):
GTGCTCGTGCTT
Found at i:9925989 original size:44 final size:44
Alignment explanation
Indices: 9925926--9926013 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
9925916 AGGATTTCAT
9925926 GGTGGATACCCAACTTAGTTATCTAAGTTCAAAGTGGTCAAATG
1 GGTGGATACCCAACTTAGTTATCTAAGTTCAAAGTGGTCAAATG
9925970 GGTGGATACCCAACTTAGTTATCTAAGTTCAAAGTGGTCAAATG
1 GGTGGATACCCAACTTAGTTATCTAAGTTCAAAGTGGTCAAATG
9926014 AAACAATGAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.30
Consensus pattern (44 bp):
GGTGGATACCCAACTTAGTTATCTAAGTTCAAAGTGGTCAAATG
Found at i:9928995 original size:21 final size:20
Alignment explanation
Indices: 9928945--9928999 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
9928935 AGGTTTATAT
*
9928945 ATAATTTTTT-TTCAATTAA
1 ATAATTTTTTATTCAATAAA
*
9928964 ATCAATATTTTTATTGAATAAAA
1 AT-AAT-TTTTTATTCAAT-AAA
9928987 ATAATTTTTTATT
1 ATAATTTTTTATT
9929000 ATTTCGAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 3 0.10
21 13 0.43
22 8 0.27
23 4 0.13
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (20 bp):
ATAATTTTTTATTCAATAAA
Found at i:9936333 original size:16 final size:16
Alignment explanation
Indices: 9936312--9936348 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
9936302 AGATATGAAC
9936312 TATATGTGTTACATGA
1 TATATGTGTTACATGA
**
9936328 TATATGTGTTAGGTGA
1 TATATGTGTTACATGA
9936344 TATAT
1 TATAT
9936349 ATGACCACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.03, G:0.22, T:0.46
Consensus pattern (16 bp):
TATATGTGTTACATGA
Found at i:9939966 original size:20 final size:20
Alignment explanation
Indices: 9939941--9939978 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9939931 ACTATGACCC
*
9939941 AAAGTTTCGATACTCTTGTA
1 AAAGTTTCGATACCCTTGTA
9939961 AAAGTTTCGATACCCTTG
1 AAAGTTTCGATACCCTTG
9939979 CCTAGAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (20 bp):
AAAGTTTCGATACCCTTGTA
Found at i:9941711 original size:10 final size:10
Alignment explanation
Indices: 9941682--9941760 Score: 92
Period size: 10 Copynumber: 8.1 Consensus size: 10
9941672 GCTGTTGGAA
9941682 AACCGGTTTG
1 AACCGGTTTG
*
9941692 -ACCAGTTTTG
1 AACC-GGTTTG
9941702 AACCGGTTTG
1 AACCGGTTTG
*
9941712 -ACCGGTTCG
1 AACCGGTTTG
9941721 AACCGGTTTG
1 AACCGGTTTG
*
9941731 -ACCGGTCTG
1 AACCGGTTTG
9941740 AACCGGTTTG
1 AACCGGTTTG
*
9941750 AACCGGGTTG
1 AACCGGTTTG
9941760 A
1 A
9941761 CCCGACCCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
9 19 0.33
10 36 0.62
11 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.30, T:0.28
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:9941725 original size:19 final size:19
Alignment explanation
Indices: 9941682--9941755 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
9941672 GCTGTTGGAA
* *
9941682 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
9941702 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
9941721 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
9941740 AACCGGTTTGAACCGG
1 AACCGGTTTG-ACCGG
9941756 GTTGACCCGA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
18 2 0.04
19 30 0.60
20 18 0.36
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:9941730 original size:29 final size:30
Alignment explanation
Indices: 9941698--9941760 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 30
9941688 TTTGACCAGT
*
9941698 TTTGAACCGGTTTG-ACCGGTTCGAACCGG
1 TTTGAACCGGTCTGAACCGGTTCGAACCGG
*
9941727 TTTG-ACCGGTCTGAACCGGTTTGAACCGG
1 TTTGAACCGGTCTGAACCGGTTCGAACCGG
*
9941756 GTTGA
1 TTTGA
9941761 CCCGACCCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 8 0.28
29 21 0.72
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.29
Consensus pattern (30 bp):
TTTGAACCGGTCTGAACCGGTTCGAACCGG
Found at i:9941778 original size:17 final size:17
Alignment explanation
Indices: 9941756--9941813 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
9941746 TTTGAACCGG
* *
9941756 GTTGACCCGACCCAACT
1 GTTGACCCGACCCGACC
9941773 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
* *
9941790 GTTTAACCGACCCGACC
1 GTTGACCCGACCCGACC
9941807 GTTGACC
1 GTTGACC
9941814 GTTGACCGTG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 35 1.00
ACGTcount: A:0.21, C:0.41, G:0.21, T:0.17
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:9941815 original size:7 final size:7
Alignment explanation
Indices: 9941803--9941852 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
9941793 TAACCGACCC
9941803 GACCGTT
1 GACCGTT
9941810 GACCGTT
1 GACCGTT
9941817 GACCG-T
1 GACCGTT
9941823 GACCGTT
1 GACCGTT
9941830 GACCG-T
1 GACCGTT
9941836 GACCGTT
1 GACCGTT
9941843 GACCGTT
1 GACCGTT
9941850 GAC
1 GAC
9941853 TTTCTTTGAC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.29
7 29 0.71
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (7 bp):
GACCGTT
Found at i:9941827 original size:13 final size:13
Alignment explanation
Indices: 9941803--9941848 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
9941793 TAACCGACCC
9941803 GACCGTTGACCGTT
1 GACCG-TGACCGTT
9941817 GACCGTGACCGTT
1 GACCGTGACCGTT
9941830 GACCGTGACCGTT
1 GACCGTGACCGTT
9941843 GACCGT
1 GACCGT
9941849 TGACTTTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 27 0.84
14 5 0.16
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.24
Consensus pattern (13 bp):
GACCGTGACCGTT
Found at i:9941828 original size:20 final size:20
Alignment explanation
Indices: 9941803--9941852 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
9941793 TAACCGACCC
9941803 GACCGTTGACCGTTGACCG-T
1 GACCGTTGACCG-TGACCGTT
9941823 GACCGTTGACCGTGACCGTT
1 GACCGTTGACCGTGACCGTT
9941843 GACCGTTGAC
1 GACCGTTGAC
9941853 TTTCTTTGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.16, C:0.30, G:0.30, T:0.24
Consensus pattern (20 bp):
GACCGTTGACCGTGACCGTT
Found at i:9948949 original size:10 final size:10
Alignment explanation
Indices: 9948920--9948988 Score: 81
Period size: 10 Copynumber: 7.1 Consensus size: 10
9948910 GCTGCTGGAA
9948920 AACCGGTTTG
1 AACCGGTTTG
*
9948930 -ACCAGTTTTG
1 AACC-GGTTTG
9948940 AACCGGTTTG
1 AACCGGTTTG
*
9948950 -ACCGGTTCG
1 AACCGGTTTG
9948959 AACCGGTTTG
1 AACCGGTTTG
*
9948969 -ACCGGTCTG
1 AACCGGTTTG
9948978 AACCGGTTTG
1 AACCGGTTTG
9948988 A
1 A
9948989 CCCGACCCGA
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
9 19 0.39
10 27 0.55
11 3 0.06
ACGTcount: A:0.19, C:0.23, G:0.29, T:0.29
Consensus pattern (10 bp):
AACCGGTTTG
Found at i:9948963 original size:19 final size:19
Alignment explanation
Indices: 9948920--9948990 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
9948910 GCTGCTGGAA
* *
9948920 AACCGGTTTGACCAGTTTTG
1 AACCGGTTTGACC-GGTTCG
9948940 AACCGGTTTGACCGGTTCG
1 AACCGGTTTGACCGGTTCG
9948959 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTC-G
9948978 AACCGGTTTGACC
1 AACCGGTTTGACC
9948991 CGACCCGACT
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
18 2 0.04
19 33 0.69
20 13 0.27
ACGTcount: A:0.18, C:0.25, G:0.28, T:0.28
Consensus pattern (19 bp):
AACCGGTTTGACCGGTTCG
Found at i:9949007 original size:17 final size:17
Alignment explanation
Indices: 9948985--9949041 Score: 105
Period size: 17 Copynumber: 3.4 Consensus size: 17
9948975 CTGAACCGGT
*
9948985 TTGACCCGACCCGACTG
1 TTGACCCGACCCGACCG
9949002 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
9949019 TTGACCCGACCCGACCG
1 TTGACCCGACCCGACCG
9949036 TTGACC
1 TTGACC
9949042 GTTGACCGTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.18, C:0.44, G:0.23, T:0.16
Consensus pattern (17 bp):
TTGACCCGACCCGACCG
Done.