Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008548.1 Hibiscus syriacus cultivar Beakdansim tig00111440_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: 1170587
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 7
Found at i:968085 original size:14 final size:14
Alignment explanation
Indices: 968067--968112 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
968057 TAATAATAAT
968067 AATAAAATAAGATA
1 AATAAAATAAGATA
*
968081 GAT-AAATAAGGATA
1 AATAAAATAA-GATA
*
968095 AATAAAA-AAGAAA
1 AATAAAATAAGATA
968108 AATAA
1 AATAA
968113 TAAAAAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 14 0.52
14 10 0.37
15 3 0.11
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (14 bp):
AATAAAATAAGATA
Found at i:968120 original size:23 final size:23
Alignment explanation
Indices: 968061--968120 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
968051 ATATAATAAT
* * *
968061 AATAATAATAAAATAAGATAGATA
1 AATAATAA-AAAATAAAAAAGAAA
** *
968085 AATAAGGATAAATAAAAAAGAAA
1 AATAATAAAAAATAAAAAAGAAA
968108 AATAATAAAAAAT
1 AATAATAAAAAAT
968121 TAGAGAACAT
Statistics
Matches: 27, Mismatches: 9, Indels: 1
0.73 0.24 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (23 bp):
AATAATAAAAAATAAAAAAGAAA
Found at i:969296 original size:3 final size:3
Alignment explanation
Indices: 969285--969319 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
969275 TATTAAAAAA
*
969285 AAT ATT AAT AAT AAT AAT AAT AAT AA- AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
969320 TACACGATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:973902 original size:2 final size:2
Alignment explanation
Indices: 973895--973923 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
973885 TTATGATGTT
973895 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
973924 ATATATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:981498 original size:120 final size:120
Alignment explanation
Indices: 981285--981526 Score: 430
Period size: 120 Copynumber: 2.0 Consensus size: 120
981275 TTAATTATTG
*
981285 AATAAAATGAATTTAATAGTCTAGAGTGATTATAAGAGTAATATATATGTTCAAAATCTTTCTTA
1 AATAAAAGGAATTTAATAGTCTAGAGTGATTATAAGAGTAATATATATGTTCAAAATCTTTCTTA
981350 TTTATTGATAACGCGCACACACCATGCAAATGCAATTGCTCGAACTCAAGACCTC
66 TTTATTGATAACGCGCACACACCATGCAAATGCAATTGCTCGAACTCAAGACCTC
* * *
981405 AATAAAAGGAATTTAATAGTCTGGAGTGATTATAAGAGTAGTATATATGTTCAAAATCTTTTTTA
1 AATAAAAGGAATTTAATAGTCTAGAGTGATTATAAGAGTAATATATATGTTCAAAATCTTTCTTA
* *
981470 TTTATTGATAATGCGCACACACCATGCAAATGCAATTGCTCGAACTCAGGACCTC
66 TTTATTGATAACGCGCACACACCATGCAAATGCAATTGCTCGAACTCAAGACCTC
981525 AA
1 AA
981527 GAGAGAATAA
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.32
Consensus pattern (120 bp):
AATAAAAGGAATTTAATAGTCTAGAGTGATTATAAGAGTAATATATATGTTCAAAATCTTTCTTA
TTTATTGATAACGCGCACACACCATGCAAATGCAATTGCTCGAACTCAAGACCTC
Found at i:982602 original size:2 final size:2
Alignment explanation
Indices: 982595--982635 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
982585 TCAATTTGTA
982595 AT AT AT AT AT 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 AT AT AT AT AT A
982636 AATTTTATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:984715 original size:21 final size:21
Alignment explanation
Indices: 984680--984724 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
984670 CTTAATTATC
* * *
984680 TATTTTTAATGAATTTAGATA
1 TATTTTTAATAAATTCAAATA
*
984701 TATTTTTCATAAATTCAAATA
1 TATTTTTAATAAATTCAAATA
984722 TAT
1 TAT
984725 AATATATAAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.51
Consensus pattern (21 bp):
TATTTTTAATAAATTCAAATA
Found at i:991095 original size:21 final size:21
Alignment explanation
Indices: 991071--991113 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
991061 GTGACGTGCC
991071 TTTATTTGAAATACTTATTTT
1 TTTATTTGAAATACTTATTTT
991092 TTTATTTGAAATACTTATTTT
1 TTTATTTGAAATACTTATTTT
991113 T
1 T
991114 ATAACTTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTATTTGAAATACTTATTTT
Found at i:991714 original size:33 final size:33
Alignment explanation
Indices: 991677--991748 Score: 126
Period size: 33 Copynumber: 2.2 Consensus size: 33
991667 AATTTGATGG
*
991677 ATTTGACCATTCATAGGTAAATTTAATAGAGTT
1 ATTTGACCATTCATAGGTAAATTTAATAGAATT
*
991710 ATTTGACCATTCTTAGGTAAATTTAATAGAATT
1 ATTTGACCATTCATAGGTAAATTTAATAGAATT
991743 ATTTGA
1 ATTTGA
991749 GTTTGGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (33 bp):
ATTTGACCATTCATAGGTAAATTTAATAGAATT
Found at i:994525 original size:60 final size:58
Alignment explanation
Indices: 994418--994578 Score: 157
Period size: 60 Copynumber: 2.7 Consensus size: 58
994408 GTTATTGGAT
* * * * * * **
994418 TGTTCAAAAGTTT-GGGACTATTTATAAA-GAGGGTCATAGTTTGGGGATGAATTTGTCA
1 TGTTCAAAAGTTTAAGAACAATTTA-AAATGA-GGTCATAGTTTAGGGATAAAATTGAAA
994476 TGTTCAAAAG-TTATAGAACCAATTTAAAATGAGAGTCATAGTTTAGGGATAAAATTGAAA
1 TGTTCAAAAGTTTA-AGAA-CAATTTAAAATGAG-GTCATAGTTTAGGGATAAAATTGAAA
* *
994536 TGTTTAAAAGTTTAAGAATAATTTAAAATGAGGTTCATAGTTT
1 TGTTCAAAAGTTTAAGAACAATTTAAAATGAGG-TCATAGTTT
994579 GAGTATGTGT
Statistics
Matches: 86, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
57 2 0.02
58 11 0.13
59 28 0.33
60 42 0.49
61 3 0.03
ACGTcount: A:0.38, C:0.06, G:0.21, T:0.35
Consensus pattern (58 bp):
TGTTCAAAAGTTTAAGAACAATTTAAAATGAGGTCATAGTTTAGGGATAAAATTGAAA
Found at i:999670 original size:15 final size:14
Alignment explanation
Indices: 999649--999705 Score: 62
Period size: 14 Copynumber: 4.0 Consensus size: 14
999639 ATTGATTTTC
*
999649 TGGAAATTGAATTA
1 TGGAAAATGAATTA
999663 TGGAAAATGAATTA
1 TGGAAAATGAATTA
* *
999677 CT-GAAATTTGAATTC
1 -TGGAAA-ATGAATTA
999692 TGGAAAATGAATTA
1 TGGAAAATGAATTA
999706 CATTTCTGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.44, C:0.04, G:0.19, T:0.33
Consensus pattern (14 bp):
TGGAAAATGAATTA
Found at i:999695 original size:29 final size:28
Alignment explanation
Indices: 999651--999706 Score: 94
Period size: 29 Copynumber: 2.0 Consensus size: 28
999641 TGATTTTCTG
999651 GAAATTGAATTATGGAAAATGAATTACT
1 GAAATTGAATTATGGAAAATGAATTACT
*
999679 GAAATTTGAATTCTGGAAAATGAATTAC
1 GAAA-TTGAATTATGGAAAATGAATTAC
999707 ATTTCTGGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 4 0.15
29 22 0.85
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (28 bp):
GAAATTGAATTATGGAAAATGAATTACT
Found at i:999944 original size:27 final size:27
Alignment explanation
Indices: 999897--999948 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 27
999887 ATCATAAAAC
999897 ATAATATTATTTTTTTAAAATATTAAA
1 ATAATATTATTTTTTTAAAATATTAAA
999924 ATAAT-TTATTTATTATT-AAATATTA
1 ATAATATTATTT-TT-TTAAAATATTA
999949 TTTTTGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 6 0.26
27 15 0.65
28 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
ATAATATTATTTTTTTAAAATATTAAA
Found at i:1000304 original size:20 final size:20
Alignment explanation
Indices: 1000279--1000392 Score: 113
Period size: 20 Copynumber: 5.7 Consensus size: 20
1000269 AATTGGGAAA
*
1000279 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1000299 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * *
1000319 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
1000340 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
1000360 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
1000380 TTCGCAACGCGAT
1 ATCGCAACGCGAT
1000393 TTACATAGCG
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:1000323 original size:61 final size:61
Alignment explanation
Indices: 1000276--1000392 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1000266 GCGAATTGGG
* * * * *
1000276 AAAATCGCAATGCGATACTGACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * *
1000337 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGAT
1000393 TTACATAGCG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTGACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:1001015 original size:33 final size:33
Alignment explanation
Indices: 1000973--1001107 Score: 162
Period size: 33 Copynumber: 3.9 Consensus size: 33
1000963 CAAAATCGCA
** *
1000973 TTGCGATTTTCATTTCGCGTTGTGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
** *
1001006 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCGCG
1 TTGCGATAGTCATTTCGCGTTGCGA--TTC---TCTCG
1001044 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1001077 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
1 TTGCGATAGTCATTT-CGCGTTGCGATTCTC
1001108 ATTATCTCGT
Statistics
Matches: 91, Mismatches: 5, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
33 43 0.47
34 15 0.16
35 3 0.03
36 3 0.03
38 27 0.30
ACGTcount: A:0.11, C:0.23, G:0.22, T:0.44
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:1001090 original size:71 final size:73
Alignment explanation
Indices: 1000967--1001132 Score: 246
Period size: 71 Copynumber: 2.3 Consensus size: 73
1000957 CGAAACCAAA
* * **
1000967 ATCGCATTGCGATTTTCATTTCGCGTTGTGATTCTCTCGTTGCGATTTTCATTT-CGCGTTGCGA
1 ATCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGA
*
1001031 TTTTCATT
66 TTCTCATT
**
1001039 -TCGCGTTGCGATAGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGA
1 ATCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGA
1001103 TTCTCATT
66 TTCTCATT
*
1001111 ATCTCGTTGCGATTTTCATTTC
1 ATCGCGTTGCGATTTTCATTTC
1001133 AACCAAAAGA
Statistics
Matches: 82, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
71 47 0.57
72 17 0.21
73 18 0.22
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (73 bp):
ATCGCGTTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCCGCGTTGCGA
TTCTCATT
Found at i:1001109 original size:20 final size:19
Alignment explanation
Indices: 1000968--1001132 Score: 152
Period size: 19 Copynumber: 9.1 Consensus size: 19
1000958 GAAACCAAAA
*
1000968 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
1000987 TCGCGTTGTGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
1001001 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1001020 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1001039 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
1001058 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
1001072 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
1001091 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
1001111 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
1001131 TC
1 TC
1001133 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 24
0.75 0.09 0.15
Matches are distributed among these distances:
14 19 0.16
16 5 0.04
17 5 0.04
19 58 0.49
20 31 0.26
21 1 0.01
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1003510 original size:14 final size:14
Alignment explanation
Indices: 1003491--1003526 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1003481 ATTGTTTAAT
1003491 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
1003505 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
1003519 TGATTTGT
1 TGATTTGT
1003527 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:1003657 original size:19 final size:19
Alignment explanation
Indices: 1003633--1003679 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
1003623 AAAAAGTACT
*
1003633 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1003652 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
1003671 ATCGCAACG
1 ATCGCAACG
1003680 AGAGAATAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:1003726 original size:19 final size:19
Alignment explanation
Indices: 1003704--1003854 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
1003694 CGAAATTAAA
1003704 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1003723 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
1003738 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
1003756 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
1003770 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
1003789 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
1003804 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
1003822 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
1003841 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
1003855 AGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:1003750 original size:33 final size:32
Alignment explanation
Indices: 1003708--1003834 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
1003698 ATTAAATTCG
1003708 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
1003741 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
1003774 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
1003807 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
1003835 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:1003786 original size:66 final size:66
Alignment explanation
Indices: 1003701--1003833 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
1003691 ACGCGAAATT
*
1003701 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1003766 G
66 G
*
1003767 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1003832 G
66 G
1003833 A
1 A
1003834 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:1006143 original size:12 final size:12
Alignment explanation
Indices: 1006126--1006150 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1006116 TCTTCGGGGA
1006126 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1006138 CTTTTTCTTCTT
1 CTTTTTCTTCTT
1006150 C
1 C
1006151 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:1007580 original size:20 final size:20
Alignment explanation
Indices: 1007485--1007572 Score: 97
Period size: 20 Copynumber: 4.4 Consensus size: 20
1007475 CAACGGGGAA
1007485 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
*
1007505 ATCGCAACGCGAAACTGGCT
1 ATCGCAACGCGAAAATGGCT
** ***
1007525 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACGCGAAAATG-GCT
*
1007545 ATCACAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
1007565 ATCGCAAC
1 ATCGCAAC
1007573 TAGAAAATCG
Statistics
Matches: 52, Mismatches: 14, Indels: 4
0.74 0.20 0.06
Matches are distributed among these distances:
19 4 0.08
20 43 0.83
21 5 0.10
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:1007643 original size:19 final size:19
Alignment explanation
Indices: 1007618--1007666 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1007608 GATTTTCTCG
1007618 TTACGATTTTCATTTCGCA
1 TTACGATTTTCATTTCGCA
*
1007637 TTGCGATTTTCATTTCGCA
1 TTACGATTTTCATTTCGCA
1007656 TTACGATTTTC
1 TTACGATTTTC
1007667 TCGTTACGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (19 bp):
TTACGATTTTCATTTCGCA
Found at i:1007822 original size:14 final size:14
Alignment explanation
Indices: 1007803--1007839 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1007793 CATCAATTAA
1007803 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1007817 ACAAATCATCTTTT
1 ACAAATCAACATTT
1007831 ACAAATCAA
1 ACAAATCAA
1007840 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1009307 original size:21 final size:20
Alignment explanation
Indices: 1009283--1009342 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
1009273 AACGGTGAGG
1009283 GGGGACTCTTGAGGGA-GGATA
1 GGGGACTCTTGAGGGATGG--A
* **
1009304 GGGGCCTCTTGAACGATTGGA
1 GGGGACTCTTGAGGGA-TGGA
1009325 GGGGACTCTTGAGGGATG
1 GGGGACTCTTGAGGGATG
1009343 ACAGGTGAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
23 2 0.06
ACGTcount: A:0.20, C:0.13, G:0.45, T:0.22
Consensus pattern (20 bp):
GGGGACTCTTGAGGGATGGA
Found at i:1009721 original size:20 final size:20
Alignment explanation
Indices: 1009706--1009776 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1009696 CACGAAACTT
1009706 AAAATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
**
1009726 ACTATCGCAACGCGAAAATG
1 AAAATCGCAACGCGAAAATG
*** *
1009746 GCTATCGCAATGCG-AAATG
1 AAAATCGCAACGCGAAAATG
1009765 AAAATCGCAACG
1 AAAATCGCAACG
1009777 ACAAAATCGC
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 13 0.30
20 30 0.70
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:1009784 original size:14 final size:14
Alignment explanation
Indices: 1009765--1009855 Score: 65
Period size: 14 Copynumber: 5.9 Consensus size: 14
1009755 ATGCGAAATG
1009765 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
1009779 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
1009798 AAAATCGCAACGAC
1 AAAATCGCAACGAC
* *
1009812 AAAATCGCAATGCAAA
1 AAAATCGCAA--CGAC
1009828 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
1009844 AAAATCGTAACG
1 AAAATCGCAACG
1009856 CGAAACACAA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
14 30 0.49
15 1 0.02
16 8 0.13
17 2 0.03
18 10 0.16
19 10 0.16
ACGTcount: A:0.49, C:0.22, G:0.16, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:1009791 original size:33 final size:33
Alignment explanation
Indices: 1009749--1009860 Score: 190
Period size: 33 Copynumber: 3.4 Consensus size: 33
1009739 GAAAATGGCT
1009749 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1009782 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
1009815 ATCGCAATGCAAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
1009847 ATCGTAACGCGAAA
1 ATCGCAATGCGAAA
1009861 CACAAATCGC
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
32 27 0.36
33 48 0.64
ACGTcount: A:0.48, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:1009868 original size:65 final size:66
Alignment explanation
Indices: 1009749--1009871 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 66
1009739 GAAAATGGCT
* * *
1009749 ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCGCAATGCGAAATGAAAATCGCAACGACAA
1 ATCGCAATGCAAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
1009814 A
66 A
*
1009815 ATCGCAATGCAAAATG-AAATCGCAACGACAAAATCGTAACGCGAAA-CACAAATCGCA
1 ATCGCAATGCAAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCA-AAATCGCA
1009872 TTGCGATTTT
Statistics
Matches: 52, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 1 0.02
65 36 0.69
66 15 0.29
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.12
Consensus pattern (66 bp):
ATCGCAATGCAAAATGAAAATCGCAACGACAAAATCGCAACGCGAAATCAAAATCGCAACGACAA
A
Found at i:1009889 original size:19 final size:19
Alignment explanation
Indices: 1009867--1009930 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
1009857 GAAACACAAA
1009867 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
1009886 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
1009902 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1009919 TCGCATTGCGAT
1 TCGCATTGCGAT
1009931 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1009967 original size:20 final size:20
Alignment explanation
Indices: 1009915--1009958 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
1009905 TTGCGATTTT
* *
1009915 CATTT-CGCATTGCGATAGC
1 CATTTCCGCGTTGCAATAGC
*
1009934 CATTTCCGCGTTGCAATAGT
1 CATTTCCGCGTTGCAATAGC
1009954 CATTT
1 CATTT
1009959 TCGTGTTGCG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCGTTGCAATAGC
Found at i:1011848 original size:20 final size:20
Alignment explanation
Indices: 1011815--1011872 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
1011805 AATAGTTTGT
**
1011815 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACAC
**
1011835 GAAAATGACTATCGCAATGC
1 GAAAATGACTATCGCAACAC
**
1011855 GAATTTGACTATCGCAAC
1 GAAAATGACTATCGCAAC
1011873 GAGAGAATCG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (20 bp):
GAAAATGACTATCGCAACAC
Found at i:1012163 original size:22 final size:22
Alignment explanation
Indices: 1012136--1012179 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
1012126 GATGGAGATA
1012136 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
1012158 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
1012180 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:1012393 original size:20 final size:20
Alignment explanation
Indices: 1012368--1012419 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
1012358 ATTATGTATT
1012368 ATCGCGTTGCGAAAGTCAGA
1 ATCGCGTTGCGAAAGTCAGA
*
1012388 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGAAAGTCAGA
*
1012408 ATCTCGTTGCGA
1 ATCGCGTTGCGA
1012420 TTTTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.25
Consensus pattern (20 bp):
ATCGCGTTGCGAAAGTCAGA
Found at i:1012453 original size:20 final size:20
Alignment explanation
Indices: 1012428--1012481 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
1012418 GATTTTGTAT
1012428 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
1012448 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
*
1012468 TATCGCATTACGAT
1 TATCGCATTGCGAT
1012482 TTTCCCAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:1012482 original size:61 final size:61
Alignment explanation
Indices: 1012350--1012484 Score: 180
Period size: 61 Copynumber: 2.2 Consensus size: 61
1012340 TTTGAAAATT
* * * *
1012350 GCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATC
1 GCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATC
* * * * *
1012411 TCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATC
1 GCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATC
*
1012472 GCATTACGATTTT
1 GCATTGCGATTTT
1012485 CCCAATTCGC
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (61 bp):
GCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATC
Found at i:1012500 original size:61 final size:61
Alignment explanation
Indices: 1012367--1012502 Score: 148
Period size: 61 Copynumber: 2.2 Consensus size: 61
1012357 GATTATGTAT
* * * * * * ** *
1012367 TATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTAT
1 TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAA
* * *
1012428 TATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTACGATTTTCCCAA
1 TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTT-CCAA
1012490 T-TCGCGTTGCGAT
1 TATCGCGTTGCGAT
1012503 TTACTTATTC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
TATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTACGATTTTCCAA
Found at i:1013025 original size:21 final size:20
Alignment explanation
Indices: 1012979--1013045 Score: 52
Period size: 21 Copynumber: 3.4 Consensus size: 20
1012969 TTTTGTTATA
*
1012979 ATATTAAAATATTATATTAT
1 ATATTAAAATATTATATAAT
1012999 ATTATTAGAAATATTA-ATAAAT
1 A-TATTA-AAATATTATAT-AAT
*
1013021 ATATTTTAAATATT-T-TAAT
1 ATA-TTAAAATATTATATAAT
1013040 A-ATTAA
1 ATATTAA
1013046 TATTTTGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 13
0.71 0.05 0.24
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 4 0.10
20 2 0.05
21 16 0.41
22 13 0.33
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATATTAAAATATTATATAAT
Found at i:1019386 original size:2 final size:2
Alignment explanation
Indices: 1019381--1019434 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1019371 ATAATTTACC
1019381 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1019423 TA TA TA TA TA TA
1 TA TA TA TA TA TA
1019435 GAAAGAGAAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1020129 original size:17 final size:18
Alignment explanation
Indices: 1020103--1020136 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1020093 AAACAAGTAT
*
1020103 AGATATAATA-TTATTTA
1 AGATAAAATATTTATTTA
1020120 AGATAAAATATTTATTT
1 AGATAAAATATTTATTT
1020137 GATCACTCGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
AGATAAAATATTTATTTA
Found at i:1020637 original size:12 final size:12
Alignment explanation
Indices: 1020622--1020665 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
1020612 AACAGAAGGA
1020622 AAACCAGAAATC
1 AAACCAGAAATC
* *
1020634 AAACAAGAAATT
1 AAACCAGAAATC
**
1020646 AAACCAGAAGCC
1 AAACCAGAAATC
1020658 AAACCAGA
1 AAACCAGA
1020666 GTCTAAAGAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.59, C:0.23, G:0.11, T:0.07
Consensus pattern (12 bp):
AAACCAGAAATC
Found at i:1027858 original size:29 final size:30
Alignment explanation
Indices: 1027793--1027864 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
1027783 TAAAATCATA
* * * *
1027793 ATTTTAGTCCCTAAACTTTTCAAAGTTTAT
1 ATTTTAGTCACTAAACTTTCCAAAGCTTAC
* *
1027823 ACTTTAGGCACTAAACTTTCCAAA-CTTAC
1 ATTTTAGTCACTAAACTTTCCAAAGCTTAC
1027852 ATTTTAGTCACTA
1 ATTTTAGTCACTA
1027865 GACAAAATTT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
29 14 0.41
30 20 0.59
ACGTcount: A:0.32, C:0.21, G:0.07, T:0.40
Consensus pattern (30 bp):
ATTTTAGTCACTAAACTTTCCAAAGCTTAC
Found at i:1033530 original size:30 final size:30
Alignment explanation
Indices: 1033494--1033561 Score: 109
Period size: 30 Copynumber: 2.3 Consensus size: 30
1033484 GAGACGGCGG
1033494 CGGCGGCGGGGTCATAAAACCAGGCGAAGA
1 CGGCGGCGGGGTCATAAAACCAGGCGAAGA
* *
1033524 CGGCGGCGGGGTCATAAAACCAGGTGAAGG
1 CGGCGGCGGGGTCATAAAACCAGGCGAAGA
*
1033554 CAGCGGCG
1 CGGCGGCG
1033562 ACATCTGGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.24, G:0.43, T:0.07
Consensus pattern (30 bp):
CGGCGGCGGGGTCATAAAACCAGGCGAAGA
Found at i:1036791 original size:15 final size:15
Alignment explanation
Indices: 1036773--1036852 Score: 74
Period size: 15 Copynumber: 5.3 Consensus size: 15
1036763 TTTATTATTA
1036773 TATTTATATAAATAT
1 TATTTATATAAATAT
* *
1036788 TATTTTTATTAAAATAA
1 TATTTATA-T-AAATAT
*
1036805 TATTTATATAATTAT
1 TATTTATATAAATAT
*
1036820 TATTTATTTAAATA-
1 TATTTATATAAATAT
* *
1036834 TATTAAT-TAATTAT
1 TATTTATATAAATAT
1036848 TATTT
1 TATTT
1036853 GTGCTAATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
13 5 0.10
14 10 0.19
15 23 0.44
16 2 0.04
17 12 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATTTATATAAATAT
Found at i:1036812 original size:32 final size:31
Alignment explanation
Indices: 1036771--1036852 Score: 107
Period size: 32 Copynumber: 2.7 Consensus size: 31
1036761 TTTTTATTAT
*
1036771 TATATTTATATAAATATTATTTTTATTAAAA
1 TATATTTATATAATTATTATTTTTATTAAAA
*
1036802 TAATATTTATATAATTATTA--TTTATTTAAA
1 T-ATATTTATATAATTATTATTTTTATTAAAA
*
1036832 TATATTAAT-TAATTATTATTT
1 TATATTTATATAATTATTATTT
1036853 GTGCTAATTA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
28 9 0.20
29 7 0.16
30 11 0.24
31 1 0.02
32 17 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (31 bp):
TATATTTATATAATTATTATTTTTATTAAAA
Found at i:1036842 original size:21 final size:19
Alignment explanation
Indices: 1036805--1036848 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
1036795 ATTAAAATAA
* *
1036805 TATTTATATAATTATTATT
1 TATTTAAATAATTATTAAT
1036824 TATTTAAATATATTAATTAAT
1 TATTTAAATA-ATT-ATTAAT
1036845 TATT
1 TATT
1036849 ATTTGTGCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.43
20 3 0.14
21 9 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTTAAATAATTATTAAT
Found at i:1036864 original size:29 final size:29
Alignment explanation
Indices: 1036771--1036866 Score: 79
Period size: 32 Copynumber: 3.2 Consensus size: 29
1036761 TTTTTATTAT
* *
1036771 TATATTTATATAAATATTATTTTTAT-TAAAA
1 TATATTAATATAATTATTA--TTTATCT-AAA
* *
1036802 TAATATTTATATAATTATTATTTATTTAAA
1 T-ATATTAATATAATTATTATTTATCTAAA
* *
1036832 TATATTAAT-TAATTATTATTTGTGCTAAT
1 TATATTAATATAATTATTATTTAT-CTAAA
1036861 TATATT
1 TATATT
1036867 TTTTTTGTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
28 13 0.23
29 16 0.28
30 9 0.16
31 2 0.04
32 17 0.30
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (29 bp):
TATATTAATATAATTATTATTTATCTAAA
Found at i:1039485 original size:17 final size:19
Alignment explanation
Indices: 1039463--1039515 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 19
1039453 TATAATAATT
1039463 AATATTAT-TT-ATTATAA
1 AATATTATATTAATTATAA
*
1039480 AATATTTATTATTAATTTTAA
1 AATA-TTA-TATTAATTATAA
*
1039501 AATATTATAATAATT
1 AATATTATATTAATT
1039516 TAACCTTTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 4 0.13
18 3 0.10
19 8 0.27
20 5 0.17
21 10 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATATTATATTAATTATAA
Found at i:1039491 original size:21 final size:21
Alignment explanation
Indices: 1039465--1039506 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1039455 TAATAATTAA
*
1039465 TATTATTTATTATAAAATATT
1 TATTATTAATTATAAAATATT
*
1039486 TATTATTAATTTTAAAATATT
1 TATTATTAATTATAAAATATT
1039507 ATAATAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATTATTAATTATAAAATATT
Found at i:1039516 original size:19 final size:21
Alignment explanation
Indices: 1039477--1039516 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
1039467 TTATTTATTA
*
1039477 TAAAATATTTATTATTAATTT
1 TAAAATATTTATTAATAATTT
1039498 TAAAATA-TTA-TAATAATTT
1 TAAAATATTTATTAATAATTT
1039517 AACCTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 3 0.17
21 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAAAATATTTATTAATAATTT
Found at i:1041595 original size:21 final size:21
Alignment explanation
Indices: 1041554--1041595 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1041544 CTATTTTTCA
1041554 TTCAAGAACACTTATTGTGCT
1 TTCAAGAACACTTATTGTGCT
1041575 TTCAAGAACACTTATTGTGCT
1 TTCAAGAACACTTATTGTGCT
1041596 CAATTGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (21 bp):
TTCAAGAACACTTATTGTGCT
Found at i:1046941 original size:21 final size:22
Alignment explanation
Indices: 1046892--1046953 Score: 72
Period size: 23 Copynumber: 2.8 Consensus size: 22
1046882 ATACCCTCGT
*
1046892 AAGGGAACCGATTCCCCCTTTG
1 AAGGGAACCGATTCCCCCATTG
*
1046914 AATGGGAACCGATTCCCTCATTG
1 AA-GGGAACCGATTCCCCCATTG
* *
1046937 -AGGGAATCGATACCCCC
1 AAGGGAACCGATTCCCCC
1046954 CACGGGTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 13 0.38
22 3 0.09
23 18 0.53
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.21
Consensus pattern (22 bp):
AAGGGAACCGATTCCCCCATTG
Found at i:1052710 original size:15 final size:16
Alignment explanation
Indices: 1052690--1052732 Score: 61
Period size: 15 Copynumber: 2.7 Consensus size: 16
1052680 CAGACTCGAT
1052690 CGAGTTGACTCAGT-G
1 CGAGTTGACTCAGTAG
1052705 CGAGTTGACTCAGTCAG
1 CGAGTTGACTCAGT-AG
*
1052722 GGAGTTGACTC
1 CGAGTTGACTC
1052733 CGTGGGCCGG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 14 0.56
17 11 0.44
ACGTcount: A:0.21, C:0.21, G:0.33, T:0.26
Consensus pattern (16 bp):
CGAGTTGACTCAGTAG
Found at i:1059196 original size:13 final size:13
Alignment explanation
Indices: 1059178--1059206 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1059168 ACCGGTCATT
1059178 ACCCGTTGACCCG
1 ACCCGTTGACCCG
1059191 ACCCGTTGACCCG
1 ACCCGTTGACCCG
1059204 ACC
1 ACC
1059207 GGACCGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.14
Consensus pattern (13 bp):
ACCCGTTGACCCG
Found at i:1059292 original size:29 final size:29
Alignment explanation
Indices: 1059226--1059382 Score: 106
Period size: 29 Copynumber: 5.4 Consensus size: 29
1059216 ACCGTTGACC
* ** *
1059226 GGTGCTATTCTGAGAATTAATTCAATTTT
1 GGTGCTATTTTGAGAATTAATTCAAAATG
* * *
1059255 GATGTTATTCTGAGAATTAATTCAAAATG
1 GGTGCTATTTTGAGAATTAATTCAAAATG
* ** *
1059284 GGTGATATTTTG-GTAATTTTTTGGGAAAA--
1 GGTGCTATTTTGAG-AATTAATT--CAAAATG
* * * *
1059313 AGTGATATTTTAAGAATTAATTCAAAATT
1 GGTGCTATTTTGAGAATTAATTCAAAATG
*
1059342 GGTGCTATTTTG-GTAATTAATTCAAAAAG
1 GGTGCTATTTTGAG-AATTAATTCAAAATG
1059371 GGTGCTATTTTG
1 GGTGCTATTTTG
1059383 GTAATTATTA
Statistics
Matches: 100, Mismatches: 21, Indels: 14
0.74 0.16 0.10
Matches are distributed among these distances:
27 4 0.04
28 2 0.02
29 89 0.89
30 1 0.01
31 4 0.04
ACGTcount: A:0.32, C:0.06, G:0.20, T:0.42
Consensus pattern (29 bp):
GGTGCTATTTTGAGAATTAATTCAAAATG
Found at i:1059383 original size:29 final size:29
Alignment explanation
Indices: 1059269--1059397 Score: 113
Period size: 29 Copynumber: 4.5 Consensus size: 29
1059259 TTATTCTGAG
*
1059269 AATTAATTCAAAATGGGTGATATTTTGGT
1 AATTAATTCAAAAAGGGTGATATTTTGGT
** * *
1059298 AATTTTTTGGGAAAAA--GTGATATTTTAAG-
1 AATTAATT--CAAAAAGGGTGATATTTT-GGT
** *
1059327 AATTAATTCAAAATTGGTGCTATTTTGGT
1 AATTAATTCAAAAAGGGTGATATTTTGGT
*
1059356 AATTAATTCAAAAAGGGTGCTATTTTGGT
1 AATTAATTCAAAAAGGGTGATATTTTGGT
*
1059385 AATT-ATTAAAAAA
1 AATTAATTCAAAAA
1059398 AAGTGTTATT
Statistics
Matches: 80, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
27 4 0.05
28 9 0.11
29 62 0.77
30 1 0.01
31 4 0.05
ACGTcount: A:0.38, C:0.04, G:0.18, T:0.40
Consensus pattern (29 bp):
AATTAATTCAAAAAGGGTGATATTTTGGT
Found at i:1059407 original size:28 final size:29
Alignment explanation
Indices: 1059343--1059408 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
1059333 TTCAAAATTG
* **
1059343 GTGCTATTTTGGTAATTAATTCAAAAAGG
1 GTGCTATTTTGGTAATTAATTAAAAAAAA
1059372 GTGCTATTTTGGTAATT-ATTAAAAAAAA
1 GTGCTATTTTGGTAATTAATTAAAAAAAA
*
1059400 GTGTTATTT
1 GTGCTATTT
1059409 GTGTAAAATG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 16 0.48
29 17 0.52
ACGTcount: A:0.35, C:0.05, G:0.18, T:0.42
Consensus pattern (29 bp):
GTGCTATTTTGGTAATTAATTAAAAAAAA
Found at i:1060736 original size:17 final size:19
Alignment explanation
Indices: 1060709--1060747 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1060699 ATATCTGTAT
1060709 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
1060727 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
1060746 TA
1 TA
1060748 AGTTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:1075719 original size:30 final size:31
Alignment explanation
Indices: 1075683--1075751 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
1075673 CTTTTAAAAC
*
1075683 TTGCAATACAGT-CCCCAACATTTAGTCCGT
1 TTGCAATACAGTCCCCCAACATTTAGTACGT
** * *
1075713 TTGCAATATGGTCCCCCAACATTTATTATGT
1 TTGCAATACAGTCCCCCAACATTTAGTACGT
1075744 TTGCAATA
1 TTGCAATA
1075752 TGATCCCCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 10 0.30
31 23 0.70
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (31 bp):
TTGCAATACAGTCCCCCAACATTTAGTACGT
Found at i:1075733 original size:31 final size:31
Alignment explanation
Indices: 1075695--1075759 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
1075685 GCAATACAGT
* *
1075695 CCCCAACATTTAGTCCGTTTGCAATATGGTC
1 CCCCAACATTTAGTACGTTTGCAATATGATC
* *
1075726 CCCCAACATTTATTATGTTTGCAATATGATC
1 CCCCAACATTTAGTACGTTTGCAATATGATC
1075757 CCC
1 CCC
1075760 GACCGTTTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (31 bp):
CCCCAACATTTAGTACGTTTGCAATATGATC
Found at i:1078314 original size:10 final size:10
Alignment explanation
Indices: 1078266--1078331 Score: 68
Period size: 9 Copynumber: 6.7 Consensus size: 10
1078256 CCCCGCCCCG
1078266 ATTATA-TAT
1 ATTATATTAT
1078275 A-TATATATAT
1 ATTATAT-TAT
1078285 ATATATATATAT
1 AT-TATAT-TAT
1078297 ATTATATTAT
1 ATTATATTAT
1078307 ATTATATT-T
1 ATTATATTAT
*
1078316 TTTATATTA-
1 ATTATATTAT
1078325 ATTATAT
1 ATTATAT
1078332 ATAATTCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
8 4 0.08
9 15 0.30
10 15 0.30
11 5 0.10
12 11 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTATATTAT
Found at i:1078333 original size:2 final size:2
Alignment explanation
Indices: 1078268--1078313 Score: 71
Period size: 2 Copynumber: 24.5 Consensus size: 2
1078258 CCGCCCCGAT
1078268 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1078308 T- TA TA T
1 TA TA TA T
1078314 TTTTTATATT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
1 3 0.07
2 38 0.93
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:1080154 original size:24 final size:24
Alignment explanation
Indices: 1080107--1080154 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1080097 AAATCTTATA
*
1080107 TGGCACTACGGTGCAAATTCTACG
1 TGGCACTACGGTGCAAATTATACG
* *
1080131 TGGCACTTCGGTGCAATTTATACG
1 TGGCACTACGGTGCAAATTATACG
1080155 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (24 bp):
TGGCACTACGGTGCAAATTATACG
Found at i:1082954 original size:21 final size:21
Alignment explanation
Indices: 1082928--1082983 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
1082918 TCTTGGTGTT
1082928 TTAAGCTTATATAAACTTTAC
1 TTAAGCTTATATAAACTTTAC
1082949 TTAAGCTTATATAAACTTTAC
1 TTAAGCTTATATAAACTTTAC
1082970 TTAAGCTTATATAA
1 TTAAGCTTATATAA
1082984 CTCCCAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.43
Consensus pattern (21 bp):
TTAAGCTTATATAAACTTTAC
Found at i:1083498 original size:31 final size:31
Alignment explanation
Indices: 1083460--1083518 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1083450 AAACGGTCAT
1083460 GGACCATATTGCAAACAGG-CTAAATGTTGGG
1 GGACCATATTGCAAA-AGGACTAAATGTTGGG
*
1083491 GGACCATATTGCAAATGGACTAAATGTT
1 GGACCATATTGCAAAAGGACTAAATGTT
1083519 AAGGGATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.25
Consensus pattern (31 bp):
GGACCATATTGCAAAAGGACTAAATGTTGGG
Found at i:1084001 original size:2 final size:2
Alignment explanation
Indices: 1083994--1084020 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1083984 TTTCCAAAGG
1083994 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1084021 ACATTGTCAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:1089033 original size:36 final size:36
Alignment explanation
Indices: 1088957--1089034 Score: 93
Period size: 36 Copynumber: 2.2 Consensus size: 36
1088947 ATCGATGATG
* ** * * * *
1088957 AACCTGTATAAGGAATTATTAGCTTGATTCGAGTTG
1 AACCTATATAAGGAATTACCAGCTTAATTAGAGCTA
1088993 AACCTATATAAGGAATTACCAGCTTAATTAGAGCTA
1 AACCTATATAAGGAATTACCAGCTTAATTAGAGCTA
1089029 AACCTA
1 AACCTA
1089035 CAGAGACTTC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (36 bp):
AACCTATATAAGGAATTACCAGCTTAATTAGAGCTA
Found at i:1089866 original size:27 final size:26
Alignment explanation
Indices: 1089816--1089866 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
1089806 GGTATCTTAA
**
1089816 GTCATTTACAGTTCATGGGCATTTTG
1 GTCATTTACAGTTCAAAGGCATTTTG
*
1089842 GTCATTTTACAGTTCAAAGGTATTT
1 GTCA-TTTACAGTTCAAAGGCATTT
1089867 CAATCATTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.24, C:0.14, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTACAGTTCAAAGGCATTTTG
Found at i:1091476 original size:2 final size:2
Alignment explanation
Indices: 1091465--1091505 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
1091455 GCGCGCACAC
*
1091465 AT AT AC AT AT 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 AT AT AT AT AT A
1091506 AAACCCATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:1092207 original size:26 final size:24
Alignment explanation
Indices: 1092154--1092210 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
1092144 AAAAAAATAC
* * *
1092154 GAGAGGAGCGGTATCTGCTCATAT
1 GAGAGAAGAGGTATATGCTCATAT
1092178 GAGAGAAGAGGTATATGCTCATAT
1 GAGAGAAGAGGTATATGCTCATAT
*
1092202 AAGAGAAGA
1 GAGAGAAGA
1092211 CATAACCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.37, C:0.11, G:0.32, T:0.21
Consensus pattern (24 bp):
GAGAGAAGAGGTATATGCTCATAT
Found at i:1096155 original size:12 final size:12
Alignment explanation
Indices: 1096138--1096164 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1096128 TCTCGGTTTC
1096138 TTTATATACTAA
1 TTTATATACTAA
1096150 TTTATATACTAA
1 TTTATATACTAA
1096162 TTT
1 TTT
1096165 TGAATACGGT
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:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTATATACTAA
Found at i:1096185 original size:56 final size:56
Alignment explanation
Indices: 1096092--1096203 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 56
1096082 GGGTGAGATC
* * ** **
1096092 AATTTTTATACTAATTTTGAGTTTGGTTTCCGGTTTTCTCGGTTTCTT-TATATACT
1 AATTTATATACTAATTTTGAATACGGTTTCCAATTTTCTC-GTTTCTTCTATATACT
* *
1096148 AATTTATATACTAATTTTGAATACGGTTTTCAATTTTCTCGTTTCTTCTCTATACT
1 AATTTATATACTAATTTTGAATACGGTTTCCAATTTTCTCGTTTCTTCTATATACT
1096204 CGAACCTAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 7 0.15
56 40 0.85
ACGTcount: A:0.21, C:0.14, G:0.11, T:0.54
Consensus pattern (56 bp):
AATTTATATACTAATTTTGAATACGGTTTCCAATTTTCTCGTTTCTTCTATATACT
Found at i:1099047 original size:31 final size:32
Alignment explanation
Indices: 1099007--1099066 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
1098997 TTTTATGGTA
*
1099007 TTTAGATAAATTTATTAA-TGATTTTATAATCT
1 TTTAGATAAATTTAATAAGT-ATTTTATAATCT
1099039 TTTA-ATAAATTTAATAAGTATTTTATAA
1 TTTAGATAAATTTAATAAGTATTTTATAA
1099067 ATTTTATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 21 0.81
32 5 0.19
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.52
Consensus pattern (32 bp):
TTTAGATAAATTTAATAAGTATTTTATAATCT
Found at i:1099050 original size:20 final size:20
Alignment explanation
Indices: 1099027--1099073 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
1099017 TTTATTAATG
*
1099027 ATTTTATAA-TCTTTTAATAA
1 ATTTTATAAGTATTTT-ATAA
*
1099047 ATTTAATAAGTATTTTATAA
1 ATTTTATAAGTATTTTATAA
1099067 ATTTTAT
1 ATTTTAT
1099074 TGACGAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
ATTTTATAAGTATTTTATAA
Found at i:1099212 original size:16 final size:16
Alignment explanation
Indices: 1099191--1099223 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1099181 ATAGATTTTG
1099191 GTTTTAAT-TATATATC
1 GTTTTAATATAT-TATC
1099207 GTTTTAATATATTATC
1 GTTTTAATATATTATC
1099223 G
1 G
1099224 ATTGAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.30, C:0.06, G:0.09, T:0.55
Consensus pattern (16 bp):
GTTTTAATATATTATC
Found at i:1100892 original size:24 final size:24
Alignment explanation
Indices: 1100865--1100922 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
1100855 CACCACAGCT
* *
1100865 CGTATAAATTGCACCGAAGTGCCA
1 CGTAGAAATGGCACCGAAGTGCCA
1100889 CGTAGAAATGGCACCGAAGTGCCA
1 CGTAGAAATGGCACCGAAGTGCCA
1100913 CGTAGAAATG
1 CGTAGAAATG
1100923 TATCGTAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.17
Consensus pattern (24 bp):
CGTAGAAATGGCACCGAAGTGCCA
Found at i:1103317 original size:30 final size:30
Alignment explanation
Indices: 1103283--1103343 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
1103273 GTACCGATAC
1103283 TTCTCTTCTGGGTACTGATACCTAATTCGG
1 TTCTCTTCTGGGTACTGATACCTAATTCGG
1103313 TTCTCTTCTGGGTACTGATACCTAATTCGG
1 TTCTCTTCTGGGTACTGATACCTAATTCGG
1103343 T
1 T
1103344 ATCAATACCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.16, C:0.23, G:0.20, T:0.41
Consensus pattern (30 bp):
TTCTCTTCTGGGTACTGATACCTAATTCGG
Found at i:1110894 original size:24 final size:24
Alignment explanation
Indices: 1110843--1110896 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1110833 GTATTCAAAA
*
1110843 TTTGATCTTGGTCAATACCCGTAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
1110867 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
1110891 TTTGAT
1 TTTGAT
1110897 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.20, C:0.19, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:1113197 original size:18 final size:18
Alignment explanation
Indices: 1113164--1113204 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1113154 AAGCAAAAGG
**
1113164 AAATCAAAATTGCAATCA
1 AAATCAAAATCCCAATCA
1113182 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
1113200 CAATC
1 AAATC
1113205 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.24, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1114121 original size:31 final size:31
Alignment explanation
Indices: 1114083--1114273 Score: 319
Period size: 31 Copynumber: 6.2 Consensus size: 31
1114073 GGTCACAATA
1114083 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1114114 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1114145 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1114176 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
1114207 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1114238 TAAACTGTTCATATATACCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1114269 TAAAC
1 TAAAC
1114274 CCTCGACTCT
Statistics
Matches: 148, Mismatches: 12, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
31 148 1.00
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:1114128 original size:15 final size:15
Alignment explanation
Indices: 1114108--1114191 Score: 50
Period size: 15 Copynumber: 5.5 Consensus size: 15
1114098 TGCCTTTAAA
1114108 CATATGTAGACTGTT
1 CATATGTAGACTGTT
*
1114123 CATATGT-GCCT-TT
1 CATATGTAGACTGTT
* *
1114136 AAACATATATAAACTGTT
1 ---CATATGTAGACTGTT
*
1114154 CATATGT-GCCT-TT
1 CATATGTAGACTGTT
1114167 AAACATATGTAGACTGTT
1 ---CATATGTAGACTGTT
1114185 CATATGT
1 CATATGT
1114192 GCCTTTAAAC
Statistics
Matches: 51, Mismatches: 8, Indels: 20
0.65 0.10 0.25
Matches are distributed among these distances:
13 4 0.08
14 5 0.10
15 20 0.39
16 13 0.25
17 5 0.10
18 4 0.08
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.39
Consensus pattern (15 bp):
CATATGTAGACTGTT
Found at i:1114895 original size:64 final size:64
Alignment explanation
Indices: 1114783--1115003 Score: 209
Period size: 64 Copynumber: 3.5 Consensus size: 64
1114773 TAATGAAGGT
* * ** ** * **
1114783 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGTT-A-TATTGCTGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT--TTCATTATTAATGG
1114846 G
64 G
* *
1114847 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTTGATGTTTCATTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTTTCATTATTAATGGG
* * *
1114911 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTTTATT-TTAAT-AG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATG-TTTCATTATTAATGGG
* * *
1114974 AGTGCATCGATGCACTTCATGTGCATCGAT
1 A-TGCATCGATGCACTACTTATGCATCGAT
1115004 ACACCTTCAA
Statistics
Matches: 132, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
62 2 0.02
63 4 0.03
64 120 0.91
65 6 0.05
ACGTcount: A:0.25, C:0.18, G:0.22, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTTTCATTATTAATGGG
Found at i:1115549 original size:3 final size:3
Alignment explanation
Indices: 1115541--1115572 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
1115531 TCTCGTACAT
*
1115541 GAA GAA GAA GAA GAA GAA GAA GAA GAT GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1115573 GAATATCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.34, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:1117965 original size:31 final size:31
Alignment explanation
Indices: 1117924--1118117 Score: 307
Period size: 31 Copynumber: 6.3 Consensus size: 31
1117914 AGAGGTCACA
1117924 ATATAAACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
* *
1117955 ATGTAGACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
*
1117986 ATATAAACTATTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
*
1118017 ATATAGACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
1118048 ATATAAACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
* * * *
1118079 ATGTAAACTGTTTATATATACCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
*
1118110 ATGTAAAC
1 ATATAAAC
1118118 CCTCGACTCT
Statistics
Matches: 151, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 151 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (31 bp):
ATATAAACTGTTCATATGTGCCTTTAAACAT
Found at i:1118803 original size:64 final size:63
Alignment explanation
Indices: 1118626--1118804 Score: 207
Period size: 64 Copynumber: 2.8 Consensus size: 63
1118616 TAATGAAGGT
* * * ** * * **
1118626 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGTAATATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT-TTAATATTAATGGG
* * * *
1118690 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCCTTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-TGAATTGCATTCGATGTTT-AATATTAATGGG
1118754 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT
1 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT
1118805 TTATTTTAAA
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 94 0.98
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTAATATTAATGGG
Found at i:1121663 original size:16 final size:16
Alignment explanation
Indices: 1121642--1121693 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
1121632 ATAAACTGTT
1121642 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
*
1121658 CATATGTAGACTATT---
1 CATATGT-GCCT-TTAAA
1121673 CATATGTGCCTTTAAA
1 CATATGTGCCTTTAAA
1121689 CATAT
1 CATAT
1121694 ATAAATTGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
13 2 0.07
14 3 0.10
15 7 0.24
16 12 0.41
17 3 0.10
18 2 0.07
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (16 bp):
CATATGTGCCTTTAAA
Found at i:1121675 original size:31 final size:31
Alignment explanation
Indices: 1121633--1121823 Score: 292
Period size: 31 Copynumber: 6.2 Consensus size: 31
1121623 GGTCACAATA
1121633 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* * *
1121664 TAGACTATTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
*
1121695 TAAATTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* * *
1121726 TAGACTGTTCATATATGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1121757 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* * *
1121788 TAAACTATTCATATATACCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1121819 TAAAC
1 TAAAC
1121824 CCTCGACTCT
Statistics
Matches: 143, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 143 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:1121727 original size:62 final size:62
Alignment explanation
Indices: 1121630--1121823 Score: 334
Period size: 62 Copynumber: 3.1 Consensus size: 62
1121620 AGAGGTCACA
*
1121630 ATATAAACTGTTCATATGTGCCTTTAAACATATGTAGACTATTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACATATGTAGACTATTCATATATGCCTTTAAACAT
* *
1121692 ATATAAATTGTTCATATGTGCCTTTAAACATATGTAGACTGTTCATATATGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACATATGTAGACTATTCATATATGCCTTTAAACAT
* *
1121754 ATATAAACTGTTCATATGTGCCTTTAAACATATGTAAACTATTCATATATACCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACATATGTAGACTATTCATATATGCCTTTAAACAT
*
1121816 ATGTAAAC
1 ATATAAAC
1121824 CCTCGACTCT
Statistics
Matches: 124, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 124 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (62 bp):
ATATAAACTGTTCATATGTGCCTTTAAACATATGTAGACTATTCATATATGCCTTTAAACAT
Found at i:1122902 original size:23 final size:23
Alignment explanation
Indices: 1122876--1122953 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
1122866 CACCACAGCT
1122876 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1122899 CATATAATTGCACCGAAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
1122922 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1122945 TATAATAAT
1 CAT-ATAAT
1122954 GTCCATAAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
23 42 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1123083 original size:18 final size:18
Alignment explanation
Indices: 1123055--1123108 Score: 81
Period size: 18 Copynumber: 3.0 Consensus size: 18
1123045 GAATACATAT
*
1123055 ATGTCCCGAAGGACCACA
1 ATGTCACGAAGGACCACA
*
1123073 ATGTCATGAAGGACCACA
1 ATGTCACGAAGGACCACA
*
1123091 ATGTCCCGAAGGACCACA
1 ATGTCACGAAGGACCACA
1123109 TATCATTCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.35, C:0.30, G:0.22, T:0.13
Consensus pattern (18 bp):
ATGTCACGAAGGACCACA
Found at i:1123201 original size:139 final size:139
Alignment explanation
Indices: 1122951--1123211 Score: 495
Period size: 139 Copynumber: 1.9 Consensus size: 139
1122941 GCCATATAAT
*
1122951 AATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1 AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1123016 GTCTCACAAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCATG
66 GTCTCACAAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCATG
1123081 AAGGACCAC
131 AAGGACCAC
*
1123090 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1 AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
*
1123155 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
66 GTCTCACAAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
1123212 TATCATTCCT
Statistics
Matches: 119, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 119 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.25
Consensus pattern (139 bp):
AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
GTCTCACAAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCATG
AAGGACCAC
Found at i:1123270 original size:103 final size:103
Alignment explanation
Indices: 1123091--1123310 Score: 413
Period size: 103 Copynumber: 2.1 Consensus size: 103
1123081 AAGGACCACA
* *
1123091 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1123156 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
1123194 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAATGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1123259 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
1123297 ATGTCCCGAAGGAC
1 ATGTCCCGAAGGAC
1123311 TTCATAGACC
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 114 1.00
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (103 bp):
ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:1127970 original size:18 final size:18
Alignment explanation
Indices: 1127943--1127996 Score: 99
Period size: 18 Copynumber: 3.0 Consensus size: 18
1127933 GAATACATAT
1127943 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
*
1127961 ATGTCTCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
1127979 ATGTCCCGAAGGACCACA
1 ATGTCCCGAAGGACCACA
1127997 TATCATTCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.13
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACA
Found at i:1128089 original size:139 final size:139
Alignment explanation
Indices: 1127839--1128099 Score: 486
Period size: 139 Copynumber: 1.9 Consensus size: 139
1127829 GCCATATAAT
*
1127839 AATGTCCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGACCAAGTATGT
1 AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGACCAAGTATGT
1127904 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCTCG
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCTCG
1127969 AAGGACCAC
131 AAGGACCAC
* *
1127978 AATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGT
1 AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGACCAAGTATGT
*
1128043 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAATGACCACA
66 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACA
1128100 TATCATTCCT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
139 118 1.00
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (139 bp):
AATGTCCAGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGACCAAGTATGT
GTCTCACCAGACTTCACACATGTTCCAAAGAATACATATATGTCCCGAAGGACCACAATGTCTCG
AAGGACCAC
Found at i:1128158 original size:103 final size:103
Alignment explanation
Indices: 1127979--1128205 Score: 427
Period size: 103 Copynumber: 2.2 Consensus size: 103
1127969 AAGGACCACA
* *
1127979 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCTAGGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1128044 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
*
1128082 ATGTCCCGAATGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1 ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
1128147 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
1128185 ATGTCCCGAAGGACCACATAT
1 ATGTCCCGAAGGACCACATAT
1128206 ACCCTAGACT
Statistics
Matches: 120, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 120 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.26
Consensus pattern (103 bp):
ATGTCCCGAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTG
TCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
Found at i:1132620 original size:31 final size:31
Alignment explanation
Indices: 1132582--1132770 Score: 283
Period size: 31 Copynumber: 6.2 Consensus size: 31
1132572 GGTCACAATA
1132582 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1132613 TAGACTGTTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1132644 TAAACTGTTCATATGTGCCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* * *
1132675 TAGACTGCTCATATGTGCCTTTAAACATATA
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1132706 TAAATTGTTCATATGTGTCTTTAAACATA--
1 TAAACTGTTCATATGTGCCTTTAAACATATG
* *
1132735 TAAACTGTTCATATATACCTTTAAACATATG
1 TAAACTGTTCATATGTGCCTTTAAACATATG
1132766 TAAAC
1 TAAAC
1132771 CCTCGACTCT
Statistics
Matches: 141, Mismatches: 15, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
29 25 0.18
31 116 0.82
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (31 bp):
TAAACTGTTCATATGTGCCTTTAAACATATG
Found at i:1133387 original size:64 final size:64
Alignment explanation
Indices: 1133279--1133455 Score: 187
Period size: 64 Copynumber: 2.8 Consensus size: 64
1133269 TAATGAAGGT
* * * ** ** * **
1133279 ATGCATTGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGT-AATATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT-GTCAATATTAATGGG
* * *
1133343 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-CGAATTGCATTCGATGTGTCAATATTAATGGG
* *
1133407 ATGCATCGATGCATTACTTATGCATCGATGCATGAATTGCATTCGATGT
1 ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGT
1133456 TTTTATTTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.02
64 92 0.98
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (64 bp):
ATGCATCGATGCACTACTTATGCATCGATGCACGAATTGCATTCGATGTGTCAATATTAATGGG
Found at i:1136413 original size:31 final size:31
Alignment explanation
Indices: 1136372--1136565 Score: 325
Period size: 31 Copynumber: 6.3 Consensus size: 31
1136362 AGAGGTCACA
1136372 ATATAAACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
*
1136403 ATATAGACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
1136434 ATATAAACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
*
1136465 ATATAGACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
1136496 ATATAAACTGTTCATATGTGCCTTTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
* * * *
1136527 ATGTAAACTGTTCATATATACCATTAAACAT
1 ATATAAACTGTTCATATGTGCCTTTAAACAT
*
1136558 ATGTAAAC
1 ATATAAAC
1136566 CCTCGACTCT
Statistics
Matches: 155, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 155 1.00
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (31 bp):
ATATAAACTGTTCATATGTGCCTTTAAACAT
Found at i:1137251 original size:64 final size:63
Alignment explanation
Indices: 1137074--1137252 Score: 216
Period size: 64 Copynumber: 2.8 Consensus size: 63
1137064 TAATGAAGGT
* * * ** * * **
1137074 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAAGGTATTCGATGTAGTAATATTGCTGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGT-TTAATATTAATGGG
* * *
1137138 ATGCATCGATGCACTCCTTATGCATCGATGCACCG-ATTGCATTCGATGTTTCACTATTAATGGG
1 ATGCATCGATGCACTACTTATGCATCGATGCA-TGAATTGCATTCGATGTTT-AATATTAATGGG
1137202 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT
1 ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTT
1137253 TTATTTTAAA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
63 2 0.02
64 96 0.98
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (63 bp):
ATGCATCGATGCACTACTTATGCATCGATGCATGAATTGCATTCGATGTTTAATATTAATGGG
Found at i:1138223 original size:20 final size:20
Alignment explanation
Indices: 1138182--1138223 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1138172 CACTTATTTT
* *
1138182 GCGTTGCGAATTTACCTTTC
1 GCGTTCCGAATTTACCTATC
1138202 GCGTTCCGAATTTGA-CTATC
1 GCGTTCCGAATTT-ACCTATC
1138222 GC
1 GC
1138224 ATTGTACATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.17, C:0.26, G:0.21, T:0.36
Consensus pattern (20 bp):
GCGTTCCGAATTTACCTATC
Found at i:1138669 original size:18 final size:18
Alignment explanation
Indices: 1138648--1138684 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1138638 GTAATTGGAG
1138648 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1138666 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1138684 T
1 T
1138685 ATAAATTTCG
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:1138691 original size:24 final size:24
Alignment explanation
Indices: 1138640--1138692 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1138630 TTTCATATGT
* * *
1138640 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
1138664 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
1138688 AATTT
1 AATTT
1138693 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:1139038 original size:39 final size:39
Alignment explanation
Indices: 1138995--1139081 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
1138985 TCCGATGCTC
1138995 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
*
1139034 ATCAAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1139073 ATCAAAATC
1 ATCAAAATC
1139082 TACAACTTGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:1139311 original size:20 final size:20
Alignment explanation
Indices: 1139286--1139395 Score: 97
Period size: 20 Copynumber: 5.8 Consensus size: 20
1139276 AAACTGAAAA
1139286 TCGCGTTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* *
1139306 TCGCGTTTCGAATTTGACTA
1 TCGCGTTGCGAATTTGACTT
** *
1139326 TCGC--AACG--CTT-A-TT
1 TCGCGTTGCGAATTTGACTT
*
1139340 TCGCATTGCGAATTTGACTT
1 TCGCGTTGCGAATTTGACTT
* *
1139360 TCGCGTTGCAAATTTAACTT
1 TCGCGTTGCGAATTTGACTT
*
1139380 TCACGTTGCGAATTTG
1 TCGCGTTGCGAATTTG
1139396 TACCTTCAAC
Statistics
Matches: 69, Mismatches: 15, Indels: 12
0.72 0.16 0.12
Matches are distributed among these distances:
14 5 0.07
15 1 0.01
16 4 0.06
18 4 0.06
19 1 0.01
20 54 0.78
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGAATTTGACTT
Found at i:1140992 original size:21 final size:21
Alignment explanation
Indices: 1140968--1141066 Score: 105
Period size: 21 Copynumber: 4.7 Consensus size: 21
1140958 GTGGGTGGGA
* *
1140968 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAATGATGAGAGGGG
*
1140989 CCTCTTGAACTG-TGGGAGGGG
1 CCTCTTGAA-TGATGAGAGGGG
*
1141010 CTTCTTCG-ATGATGAGAGGGG
1 CCTCTT-GAATGATGAGAGGGG
*
1141031 CCTCTTGAATGAT-AGGAGGCG
1 CCTCTTGAATGATGA-GAGGGG
1141052 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
1141067 TAGGTGCATC
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
20 4 0.06
21 58 0.89
22 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.25
Consensus pattern (21 bp):
CCTCTTGAATGATGAGAGGGG
Found at i:1141049 original size:42 final size:42
Alignment explanation
Indices: 1140968--1141066 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
1140958 GTGGGTGGGA
* * *
1140968 CCTCTTGAACGATGACAGGGGCCTCTTGAACTGTGGGAGGGG
1 CCTCTTGAATGATGACAGGGGCCTCTTGAACTGTAGGAGGCG
* *
1141010 CTTCTTCG-ATGATGAGAGGGGCCTCTTGAA-TGATAGGAGGCG
1 CCTCTT-GAATGATGACAGGGGCCTCTTGAACTG-TAGGAGGCG
1141052 CCTCTTGAATGATGA
1 CCTCTTGAATGATGA
1141067 TAGGTGCATC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.06
42 44 0.92
43 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.34, T:0.25
Consensus pattern (42 bp):
CCTCTTGAATGATGACAGGGGCCTCTTGAACTGTAGGAGGCG
Found at i:1143108 original size:13 final size:13
Alignment explanation
Indices: 1143090--1143121 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1143080 AGTATTTGTC
1143090 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
*
1143103 TTTGTTTTTTCTT
1 TTTGTTTTGTCTT
1143116 TTTGTT
1 TTTGTT
1143122 GAAGAAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.81
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:1143652 original size:20 final size:21
Alignment explanation
Indices: 1143629--1143759 Score: 107
Period size: 20 Copynumber: 6.5 Consensus size: 21
1143619 TTTAACTTTT
1143629 GCGTTGCGAATTTGAC-TATC
1 GCGTTGCGAATTTGACATATC
*
1143649 GCGTTGCGAATTTGACTTAT-
1 GCGTTGCGAATTTGACATATC
* *
1143669 GTGTTGCG-ATTT-ACAAATTC
1 GCGTTGCGAATTTGACATA-TC
1143689 GCGTTGCGAATTTGAC-TATC
1 GCGTTGCGAATTTGACATATC
* *
1143709 GTGTTGCGAATTTAGA-AAATC
1 GCGTTGCGAATTT-GACATATC
**
1143730 GCAATGCG-ATTT-ACATATTC
1 GCGTTGCGAATTTGACATA-TC
*
1143750 GCATTGCGAA
1 GCGTTGCGAA
1143760 ATTAGAAACT
Statistics
Matches: 89, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
18 4 0.04
19 7 0.08
20 57 0.64
21 19 0.21
22 2 0.02
ACGTcount: A:0.25, C:0.17, G:0.23, T:0.35
Consensus pattern (21 bp):
GCGTTGCGAATTTGACATATC
Found at i:1143691 original size:40 final size:41
Alignment explanation
Indices: 1143646--1143731 Score: 131
Period size: 40 Copynumber: 2.1 Consensus size: 41
1143636 GAATTTGACT
1143646 ATCGCGTTGCGAATTTGACTTAT-GTGTTGCG-ATTTACAAA
1 ATCGCGTTGCGAATTTGAC-TATCGTGTTGCGAATTTACAAA
* *
1143686 TTCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTAGAAA
1 ATCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTACAAA
1143727 ATCGC
1 ATCGC
1143732 AATGCGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
39 3 0.07
40 26 0.63
41 12 0.29
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
ATCGCGTTGCGAATTTGACTATCGTGTTGCGAATTTACAAA
Found at i:1144086 original size:20 final size:20
Alignment explanation
Indices: 1144061--1144109 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
1144051 ACGATCTTCT
*
1144061 TGTTTCCGTGTTCGAATCAC
1 TGTTTCCGCGTTCGAATCAC
1144081 TGTTTCCGCGTTCGAATCAC
1 TGTTTCCGCGTTCGAATCAC
1144101 TGTTTCCGC
1 TGTTTCCGC
1144110 TGAAGACAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.29, G:0.20, T:0.39
Consensus pattern (20 bp):
TGTTTCCGCGTTCGAATCAC
Found at i:1147626 original size:18 final size:17
Alignment explanation
Indices: 1147572--1147620 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1147562 TTGGACCCTT
* *
1147572 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1147590 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1147608 AGTGCATTCGATG
1 AGTGCA-TCGATG
1147621 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1147790 original size:65 final size:65
Alignment explanation
Indices: 1147592--1147801 Score: 220
Period size: 65 Copynumber: 3.2 Consensus size: 65
1147582 TGCACTAAGA
* * **
1147592 GTGCATCGATGCATCAAGTGCATTCGATGTTTCAAAAT-AGCCAGAGTGCATCGATGCAT-GATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAG-GTGCATCGATGCATGGATT
1147655 G
65 G
* *
1147656 GTGCATCGATGCATCAAATACATTCGATGTTTTC-ATAAAATCCTCA-GTGCATCGATGCATGG-
1 GTGCATCGATGCATCAAATGCATTCGATG-TTTCAATATAAT--TCAGGTGCATCGATGCATGGA
1147718 TAT-
63 T-TG
* * *
1147721 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTAATTCATGGTGCATTGATGCATGGATT
1 GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCA-GGTGCATCGATGCATGGATT
1147785 G
65 G
1147786 GTGCATC-AGTGCATCA
1 GTGCATCGA-TGCATCA
1147802 CCCTGAAAAA
Statistics
Matches: 122, Mismatches: 12, Indels: 23
0.78 0.08 0.15
Matches are distributed among these distances:
62 3 0.02
63 3 0.02
64 51 0.42
65 61 0.50
66 2 0.02
67 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATCAAATGCATTCGATGTTTCAATATAATTCAGGTGCATCGATGCATGGATTG
Found at i:1152902 original size:23 final size:21
Alignment explanation
Indices: 1152874--1152954 Score: 83
Period size: 23 Copynumber: 3.7 Consensus size: 21
1152864 TGCATGACCC
1152874 TGTGCATCGATGCACATTCAA
1 TGTGCATCGATGCACATTCAA
* *
1152895 CCTGTGCATCGGTGCACCTTC-A
1 --TGTGCATCGATGCACATTCAA
*
1152917 TGGTGTATCGATGCACATTCAA
1 T-GTGCATCGATGCACATTCAA
*
1152939 GGATGCATCGATGCAC
1 TG-TGCATCGATGCAC
1152955 TGTTATGTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
20 1 0.02
21 16 0.33
22 14 0.29
23 17 0.35
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (21 bp):
TGTGCATCGATGCACATTCAA
Found at i:1152931 original size:21 final size:21
Alignment explanation
Indices: 1152902--1152973 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
1152892 CAACCTGTGC
*
1152902 ATCGGTGCACCTTCATGGTGT
1 ATCGATGCACCTTCATGGTGT
* * *
1152923 ATCGATGCACATTCAAGGATGC
1 ATCGATGCACCTTCATGG-TGT
*
1152945 ATCGATGCA-CTGTTAT-GTGT
1 ATCGATGCACCT-TCATGGTGT
1152965 ATCGATGCA
1 ATCGATGCA
1152974 TGAAGCACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
20 11 0.27
21 17 0.41
22 13 0.32
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
ATCGATGCACCTTCATGGTGT
Found at i:1158798 original size:18 final size:17
Alignment explanation
Indices: 1158744--1158792 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 17
1158734 TTAGACCCTT
* *
1158744 AGTGCATCGGTGCACTAA
1 AGTGCATCGATGCA-TCA
1158762 GAGTGCATCGATGCATCA
1 -AGTGCATCGATGCATCA
1158780 AGTGCATTCGATG
1 AGTGCA-TCGATG
1158793 TTTCAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 6 0.22
18 8 0.30
19 13 0.48
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (17 bp):
AGTGCATCGATGCATCA
Found at i:1158850 original size:64 final size:63
Alignment explanation
Indices: 1158763--1158922 Score: 187
Period size: 64 Copynumber: 2.5 Consensus size: 63
1158753 GTGCACTAAG
* *
1158763 AGTGCATCGATGCATCAAGTGCATTCGATGTTTCA-AAATAGCCAGAGTGCATCAATGCATGACT
1 AGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAA-AGCCACAGTGCATCAATGCATG-CT
* * * * * * *
1158827 GGTGCATTGATACATCAAATGCATTCGATGTTTTCATAAAATCCTCAGTGCATCGATGCATGGT
1 AGTGCATCGATGCATCAAATGCATTCGATG-TTTCATAAAAGCCACAGTGCATCAATGCATGCT
* *
1158891 ATTGCATCGATGCATGAAATGCATTCGATGTT
1 AGTGCATCGATGCATCAAATGCATTCGATGTT
1158923 CAATTTAATT
Statistics
Matches: 80, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 2 0.03
64 52 0.65
65 23 0.29
66 3 0.04
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (63 bp):
AGTGCATCGATGCATCAAATGCATTCGATGTTTCATAAAAGCCACAGTGCATCAATGCATGCT
Found at i:1158918 original size:18 final size:18
Alignment explanation
Indices: 1158875--1158920 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
1158865 AAATCCTCAG
* *
1158875 TGCATCGATGCATGGTAT
1 TGCATCGATGCATGGAAA
1158893 TGCATCGATGCAT-GAAA
1 TGCATCGATGCATGGAAA
1158910 TGCATTCGATG
1 TGCA-TCGATG
1158921 TTCAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.30
Consensus pattern (18 bp):
TGCATCGATGCATGGAAA
Done.