Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_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: 6601124
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 33
Found at i:3636921 original size:14 final size:14
Alignment explanation
Indices: 3636902--3636959 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
3636892 TTTCATTTCG
*
3636902 CGTTGCGATTTTGT
1 CGTTGCGATTTTTT
3636916 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TTT
3636932 CGCATTGCGATTTTTT
1 CG--TTGCGATTTTTT
3636948 CGTTGCGATTTT
1 CGTTGCGATTTT
3636960 CATTTCTCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 21 0.54
16 9 0.23
18 9 0.23
ACGTcount: A:0.10, C:0.17, G:0.22, T:0.50
Consensus pattern (14 bp):
CGTTGCGATTTTTT
Found at i:3636971 original size:33 final size:33
Alignment explanation
Indices: 3636885--3636975 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
3636875 ACAAATCGCA
*
3636885 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
3636918 TTGCGA-TTTCATTTCGCATTGCGATTTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
3636950 TTGCGATTTTCATTTCTCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
3636976 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.12, C:0.19, G:0.20, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:3636994 original size:20 final size:20
Alignment explanation
Indices: 3636969--3637014 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
3636959 TCATTTCTCA
3636969 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCGCG
* * *
3636989 TTGCGATAGTCATTTTCGTG
1 TTGCGATAGCCATTTCCGCG
3637009 TTGCGA
1 TTGCGA
3637015 AAGTAAACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.15, C:0.22, G:0.26, T:0.37
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCGCG
Found at i:3637522 original size:18 final size:18
Alignment explanation
Indices: 3637496--3637540 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
3637486 GTCGATCAGA
*
3637496 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
3637514 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
3637532 TGATGGCTC
1 TGATGGCTC
3637541 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:3638885 original size:20 final size:20
Alignment explanation
Indices: 3638860--3638902 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
3638850 AATAGTTTCT
3638860 GAAAATGAAAACCGCAACAC
1 GAAAATGAAAACCGCAACAC
* *
3638880 GAAAATGAAAATCGCAACGC
1 GAAAATGAAAACCGCAACAC
3638900 GAA
1 GAA
3638903 TTCGACTATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.53, C:0.21, G:0.19, T:0.07
Consensus pattern (20 bp):
GAAAATGAAAACCGCAACAC
Found at i:3639208 original size:22 final size:22
Alignment explanation
Indices: 3639181--3639224 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
3639171 GATGGAGATA
3639181 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
3639203 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
3639225 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:3639437 original size:20 final size:20
Alignment explanation
Indices: 3639412--3639464 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
3639402 GATTATGTAT
*
3639412 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTAAG
3639432 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTAAG
*
3639452 TATCTCGTTGCGA
1 TATCGCGTTGCGA
3639465 TTTTTTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTAAG
Found at i:3639498 original size:20 final size:20
Alignment explanation
Indices: 3639392--3639503 Score: 82
Period size: 20 Copynumber: 5.5 Consensus size: 20
3639382 CGCTTTGAAA
*
3639392 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
3639413 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
3639433 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
3639453 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
3639474 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
3639494 ATCGCATTGC
1 ATCGCATTGC
3639504 AATTTTCCCA
Statistics
Matches: 73, Mismatches: 16, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
19 2 0.03
20 47 0.64
21 24 0.33
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:3639509 original size:41 final size:41
Alignment explanation
Indices: 3639432--3639509 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
3639422 CGAAAGTCAG
* * * *
3639432 TATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTAT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCAATTTTTTAT
* *
3639473 TATCGCATTGCGATAGTCAGTATCGCATTGCAATTTT
1 TATCGCATTGCGAAAGTAAGTATCGCATTGCAATTTT
3639510 CCCAATTCGC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.40
Consensus pattern (41 bp):
TATCGCATTGCGAAAGTAAGTATCGCATTGCAATTTTTTAT
Found at i:3639524 original size:21 final size:21
Alignment explanation
Indices: 3639495--3639570 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
3639485 ATAGTCAGTA
*
3639495 TCGCATTGCAATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
3639516 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
3639536 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
*
3639557 TCGCGTTGCGATTT
1 TCGCATTGCGATTT
3639571 ACTTATTCGC
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 16 0.36
21 28 0.64
ACGTcount: A:0.17, C:0.25, G:0.17, T:0.41
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:3639525 original size:41 final size:41
Alignment explanation
Indices: 3639495--3639587 Score: 141
Period size: 41 Copynumber: 2.3 Consensus size: 41
3639485 ATAGTCAGTA
* *
3639495 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
* * *
3639536 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
3639577 TCGCATTGCAA
1 TCGCATTGCAA
3639588 ATTGGGAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.19, C:0.25, G:0.16, T:0.40
Consensus pattern (41 bp):
TCGCATTGCAATTTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:3639539 original size:20 final size:20
Alignment explanation
Indices: 3639514--3639585 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
3639504 AATTTTCCCA
*
3639514 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
* **
3639534 ATTCGCATTGCGATTTTCCCA
1 ATTCGCATTGCGA-TTTACTT
*
3639555 ATTCGCGTTGCGATTTACTT
1 ATTCGCATTGCGATTTACTT
3639575 ATTCGCATTGC
1 ATTCGCATTGC
3639586 AAATTGGGAA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.17, C:0.24, G:0.18, T:0.42
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACTT
Found at i:3643703 original size:2 final size:2
Alignment explanation
Indices: 3643696--3643725 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
3643686 TAAAAATAAC
3643696 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
3643726 ATTAGGATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3644218 original size:18 final size:20
Alignment explanation
Indices: 3644184--3644229 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 20
3644174 ATTTTTCAAG
*
3644184 TGGGTTGTTTCTTGAAT-TT
1 TGGGTTGGTTCTTGAATCTT
3644203 TGGGTTGGTT-TTGAATCTT
1 TGGGTTGGTTCTTGAATCTT
3644222 T-GGTTGGT
1 TGGGTTGGT
3644230 ATAGAAGCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 13 0.52
19 12 0.48
ACGTcount: A:0.09, C:0.04, G:0.33, T:0.54
Consensus pattern (20 bp):
TGGGTTGGTTCTTGAATCTT
Found at i:3645381 original size:24 final size:24
Alignment explanation
Indices: 3645354--3645407 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
3645344 ACAAATATAT
* *
3645354 GTGGCACTTCGGTGCATATTCTAC
1 GTGGCACTTCGATGCAAATTCTAC
3645378 GTGGCACTTCGATGCAAATTCTAC
1 GTGGCACTTCGATGCAAATTCTAC
*
3645402 GCGGCA
1 GTGGCA
3645408 TTTTCGACTG
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:0.26, G:0.26, T:0.28
Consensus pattern (24 bp):
GTGGCACTTCGATGCAAATTCTAC
Found at i:3647009 original size:29 final size:29
Alignment explanation
Indices: 3646977--3647034 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
3646967 TTGTTTAATC
3646977 GGTTTCTAATTTGTATATTGTATTTATTT
1 GGTTTCTAATTTGTATATTGTATTTATTT
*
3647006 GGTTTCTAATTTGTATGTTGTATTTATTT
1 GGTTTCTAATTTGTATATTGTATTTATTT
3647035 CAGTCTATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.03, G:0.16, T:0.62
Consensus pattern (29 bp):
GGTTTCTAATTTGTATATTGTATTTATTT
Found at i:3648276 original size:20 final size:20
Alignment explanation
Indices: 3648251--3648288 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
3648241 CTATATGAGT
3648251 TTGTTTTATTTATCTTTTGA
1 TTGTTTTATTTATCTTTTGA
3648271 TTGTTTTATTTATCTTTT
1 TTGTTTTATTTATCTTTT
3648289 AAATGTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.05, G:0.08, T:0.74
Consensus pattern (20 bp):
TTGTTTTATTTATCTTTTGA
Found at i:3650599 original size:15 final size:15
Alignment explanation
Indices: 3650576--3650612 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
3650566 TGAGTGTATT
*
3650576 TGTTCTGTACTTCTA
1 TGTTATGTACTTCTA
3650591 TGTTATGTACTTCTA
1 TGTTATGTACTTCTA
3650606 TGTTATG
1 TGTTATG
3650613 GTAGTCATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.16, C:0.14, G:0.16, T:0.54
Consensus pattern (15 bp):
TGTTATGTACTTCTA
Found at i:3650734 original size:54 final size:54
Alignment explanation
Indices: 3650646--3650861 Score: 290
Period size: 54 Copynumber: 4.0 Consensus size: 54
3650636 AATGTATATG
* * * *
3650646 TTGT-AATTACCATATCGACGCTATGTGTACAACCCAGGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
* * * * * *
3650699 TTATGAATTACCGTATTGACACTATGTGTGTAACCCATGTAATTTATAATAAGT
1 TTGTGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
* **
3650753 TTGTGAATTATCGTATCGGTACTATGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
* *
3650807 TTGTTAATTACTGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
1 TTGTGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
3650861 T
1 T
3650862 GAAATATTTA
Statistics
Matches: 139, Mismatches: 23, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
53 3 0.02
54 136 0.98
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.36
Consensus pattern (54 bp):
TTGTGAATTACCGTATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGT
Found at i:3651581 original size:34 final size:32
Alignment explanation
Indices: 3651519--3651588 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
3651509 CCTTACAAAC
* *
3651519 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
*
3651551 TCCCTAGCTTTTACACGGGATAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
3651585 TCCC
1 TCCC
3651589 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:3651894 original size:21 final size:21
Alignment explanation
Indices: 3651870--3651912 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3651860 CCCAGAATAG
*
3651870 AGGGAATCGGTACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
3651891 AGGGAATCGATACCCCTTCAT
1 AGGGAATCGATACCCCTTCAT
3651912 A
1 A
3651913 ATATTCAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (21 bp):
AGGGAATCGATACCCCTTCAT
Found at i:3651974 original size:21 final size:21
Alignment explanation
Indices: 3651948--3651990 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
3651938 CTGTTGAACA
3651948 GGGGGGAATCAGTACCCCCTG
1 GGGGGGAATCAGTACCCCCTG
*
3651969 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCAGTACCCCCTG
3651990 G
1 G
3651991 ACATTCTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.28, G:0.42, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCAGTACCCCCTG
Found at i:3652050 original size:21 final size:21
Alignment explanation
Indices: 3652024--3652103 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
3652014 AAAACCTGCA
3652024 GGGGGGTATCTGTACCCCCTG
1 GGGGGGTATCTGTACCCCCTG
3652045 GGGGGGTATCTGTA--CCC--
1 GGGGGGTATCTGTACCCCCTG
3652062 --GGGGTATCTGTACCCCCTG
1 GGGGGGTATCTGTACCCCCTG
* *
3652081 GGGGGGAATCTATACCCCCTG
1 GGGGGGTATCTGTACCCCCTG
3652102 GG
1 GG
3652104 CAATCTTGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 33 0.65
ACGTcount: A:0.12, C:0.28, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGGTATCTGTACCCCCTG
Found at i:3652066 original size:36 final size:36
Alignment explanation
Indices: 3652026--3652097 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
3652016 AACCTGCAGG
* *
3652026 GGGGTATCTGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
3652062 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
1 GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
3652098 CCTGGGCAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.14, C:0.28, G:0.35, T:0.24
Consensus pattern (36 bp):
GGGGTATCTGTACCCCCTGGGGGGGAATCTATACCC
Found at i:3652067 original size:15 final size:15
Alignment explanation
Indices: 3652047--3652076 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3652037 ACCCCCTGGG
3652047 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
3652062 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
3652077 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:3652225 original size:29 final size:31
Alignment explanation
Indices: 3652193--3652251 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 31
3652183 AAACTTTGAA
3652193 TAAATTCAATT-AAGTCCAAAAA-CATTTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTTT
3652222 TAAATTCAATTCAAGTCCAAAAACCATTTT
1 TAAATTCAATTCAAGTCCAAAAACCATTTT
3652252 GCCTTAAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 11 0.39
30 11 0.39
31 6 0.21
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTT
Found at i:3656214 original size:13 final size:13
Alignment explanation
Indices: 3656196--3656229 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
3656186 ATCTATGTTA
3656196 AATGATATAATTG
1 AATGATATAATTG
3656209 AATGATATAATTG
1 AATGATATAATTG
3656222 AATGATAT
1 AATGATAT
3656230 GATGACGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (13 bp):
AATGATATAATTG
Found at i:3660252 original size:62 final size:64
Alignment explanation
Indices: 3660173--3660307 Score: 202
Period size: 62 Copynumber: 2.1 Consensus size: 64
3660163 TTTGAAAACA
* * * *
3660173 TTTTGAAAATATATATAATATATAG-TTTAGAAAACATTTTTAAAA-ATATATATATTATATAG
1 TTTTGAAAACATATATAATATATAGTTTTAGAAAACATTTTGAAAATATATATATAATAAATAG
*
3660235 TTTTGAAAACATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATAATAAATAG
1 TTTTGAAAACATATATAATATATAGTTTTAGAAAACATTTTGAAAATATATATATAATAAATAG
*
3660299 TTTTTAAAA
1 TTTTGAAAA
3660308 AAATATTTTG
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
62 24 0.37
63 18 0.28
64 23 0.35
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (64 bp):
TTTTGAAAACATATATAATATATAGTTTTAGAAAACATTTTGAAAATATATATATAATAAATAG
Found at i:3660271 original size:26 final size:26
Alignment explanation
Indices: 3660209--3660272 Score: 94
Period size: 25 Copynumber: 2.5 Consensus size: 26
3660199 TTAGAAAACA
* * *
3660209 TTTTTAAAAATATATATATTATATAG
1 TTTTTGAAAACATATATAATATATAG
3660235 -TTTTGAAAACATATATAATATATAG
1 TTTTTGAAAACATATATAATATATAG
3660260 TTTTTGAAAACAT
1 TTTTTGAAAACAT
3660273 TTTGAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 22 0.65
26 12 0.35
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (26 bp):
TTTTTGAAAACATATATAATATATAG
Found at i:3660299 original size:39 final size:41
Alignment explanation
Indices: 3660245--3660332 Score: 126
Period size: 39 Copynumber: 2.2 Consensus size: 41
3660235 TTTTGAAAAC
* *
3660245 ATATATAATATATAGTTTTT-GAAAACATTTTGAAA-ATAT
1 ATATATAATAAATAGTTTTTAAAAAACATTTTGAAATATAT
*
3660284 ATATATAATAAATAGTTTTTAAAAAAATATTTTGAAATATAT
1 ATATATAATAAATAGTTTTT-AAAAAACATTTTGAAATATAT
3660326 ATATATA
1 ATATATA
3660333 TATATATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
39 19 0.44
41 13 0.30
42 11 0.26
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (41 bp):
ATATATAATAAATAGTTTTTAAAAAACATTTTGAAATATAT
Found at i:3660325 original size:2 final size:2
Alignment explanation
Indices: 3660320--3660351 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
3660310 ATATTTTGAA
3660320 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3660352 GTTTTGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3660336 original size:52 final size:51
Alignment explanation
Indices: 3660279--3660389 Score: 145
Period size: 52 Copynumber: 2.2 Consensus size: 51
3660269 ACATTTTGAA
*
3660279 AATATATATATA-ATAA-ATAGTTTTTAAAAAAATATTTTGAAATATATATAT
1 AATATATATATATATAATATAGTTTTGAAAAAAAT-TTTTGAAA-ATATATAT
* * *
3660330 ATATATATATATATATAATATAGTTTTGGAAAATATTTTTGAAAATGTATAT
1 A-ATATATATATATATAATATAGTTTTGAAAAAAATTTTTGAAAATATATAT
3660382 AATATATA
1 AATATATA
3660390 GTTTTGAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
51 8 0.15
52 19 0.36
53 12 0.23
54 14 0.26
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (51 bp):
AATATATATATATATAATATAGTTTTGAAAAAAATTTTTGAAAATATATAT
Found at i:3660390 original size:38 final size:37
Alignment explanation
Indices: 3660334--3660552 Score: 236
Period size: 38 Copynumber: 5.9 Consensus size: 37
3660324 ATATATATAT
3660334 ATATATATATATAATATAGTTTTGGAAAATATTTTTGAAA
1 ATATATATA-AT-ATATAGTTTT-GAAAATATTTTTGAAA
*
3660374 ATGTATATAATATATAGTTTTGAAAAATATTTTTGAAA
1 ATATATATAATATATAGTTTTG-AAAATATTTTTGAAA
* *
3660412 ATGTATATAATACATAGTTTTGAAAATATTTTT-AAA
1 ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
* *
3660448 A-ATATAT--TATATAGTTTTAAAAACAATTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAA-TATTTTTGAAA
* * *
3660483 A-ATATATATTATATGGTTTTGAAAACAATTTTT-AAA
1 ATATATATAATATATAGTTTTGAAAA-TATTTTTGAAA
*
3660519 AGTATATATAATATATA-TTTTTAAAATGATTTTT
1 A-TATATATAATATATAGTTTTGAAAAT-ATTTTT
3660553 ATTTTTATTT
Statistics
Matches: 159, Mismatches: 12, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
33 14 0.09
34 6 0.04
35 15 0.09
36 8 0.05
37 48 0.30
38 58 0.36
39 2 0.01
40 8 0.05
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.46
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTGAAAATATTTTTGAAA
Found at i:3660400 original size:92 final size:89
Alignment explanation
Indices: 3660245--3660420 Score: 230
Period size: 92 Copynumber: 1.9 Consensus size: 89
3660235 TTTTGAAAAC
* *
3660245 ATATATAATATATAGTTTTTGAAAACATTTTGAAAATATATATATAATAAATAGTTTTTAAAAAA
1 ATATATAATATATAGTTTTGGAAAACATTTTGAAAATATATATATAATAAATAGTTTTGAAAAAA
3660310 ATATTTTGAAATATATATATATATAT
66 AT-TTTTGAAA-ATATATATATATAT
* * *
3660336 ATATATATATAATATAGTTTTGGAAAATATTTTTG-AAA-ATGTATATAATATATAGTTTTGAAA
1 ATATATA-AT-ATATAGTTTTGGAAAACA-TTTTGAAAATATATATATAATAAATAGTTTTGAAA
* *
3660399 AATATTTTTGAAAATGTATATA
63 AAAATTTTTGAAAATATATATA
3660421 ATACATAGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
90 8 0.11
91 15 0.20
92 28 0.37
93 19 0.25
94 5 0.07
ACGTcount: A:0.47, C:0.01, G:0.08, T:0.44
Consensus pattern (89 bp):
ATATATAATATATAGTTTTGGAAAACATTTTGAAAATATATATATAATAAATAGTTTTGAAAAAA
ATTTTTGAAAATATATATATATAT
Found at i:3660551 original size:37 final size:37
Alignment explanation
Indices: 3660134--3660552 Score: 236
Period size: 37 Copynumber: 11.1 Consensus size: 37
3660124 TTAAAAGCGG
* *
3660134 TTTTTGAAACTTATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAA-ATATATATAATATATAG-TTTTGAAAATA
* *
3660173 -TTTTGAAAATATATATAATATATAGTTTAGAAAACA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAATA
3660209 TTTTT-AAAA-ATATAT-ATAT-TA----T----ATA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAATA
* * *
3660234 GTTTTGAAAACATATATAATATATAGTTTTTGAAAACA
1 TTTTTGAAAATATATATAATATATAG-TTTTGAAAATA
* * *
3660272 -TTTTGAAAATATATATATAATAAATAGTTTTTAAAAAAA
1 TTTTTG-AAA-ATATATATAATATATAG-TTTTGAAAATA
3660311 TATTTTGAAATATATATATATATATATA-TATATAT-AATATAGTTTTGGAAAATA
1 T-TTTTGAAA-ATATATATA-ATATATAGT-T-T-TGAA-A-A-----------TA
*
3660365 TTTTTGAAAATGTATATAATATATAGTTTTGAAAAATA
1 TTTTTGAAAATATATATAATATATAGTTTTG-AAAATA
* *
3660403 TTTTTGAAAATGTATATAATACATAGTTTTGAAAATA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAATA
* *
3660440 TTTTT-AAAA-ATATAT--TATATAGTTTTAAAAACAA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAA-TA
* * *
3660474 TTTTTGAAAA-ATATATATTATATGGTTTTGAAAACAA
1 TTTTTGAAAATATATATAATATATAGTTTTGAAAA-TA
*
3660511 TTTTT-AAAAGTATATATAATATATA-TTTTTAAAATGA
1 TTTTTGAAAA-TATATATAATATATAGTTTTGAAAAT-A
3660548 TTTTT
1 TTTTT
3660553 ATTTTTATTT
Statistics
Matches: 311, Mismatches: 24, Indels: 92
0.73 0.06 0.22
Matches are distributed among these distances:
25 6 0.02
26 4 0.01
27 6 0.02
28 4 0.01
29 2 0.01
33 16 0.05
34 11 0.04
35 21 0.07
36 22 0.07
37 72 0.23
38 57 0.18
39 26 0.08
40 14 0.05
41 14 0.05
42 2 0.01
43 1 0.00
49 2 0.01
50 2 0.01
51 10 0.03
52 9 0.03
53 8 0.03
54 2 0.01
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.45
Consensus pattern (37 bp):
TTTTTGAAAATATATATAATATATAGTTTTGAAAATA
Found at i:3660563 original size:5 final size:6
Alignment explanation
Indices: 3660547--3660573 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
3660537 TTTTAAAATG
3660547 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
3660574 ATATATTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:3661393 original size:6 final size:6
Alignment explanation
Indices: 3661384--3661413 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
3661374 TGAGTTTTCA
3661384 AATTTT AATTTT AATTTT AATTTT AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
3661414 TTGCAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
AATTTT
Found at i:3662383 original size:16 final size:16
Alignment explanation
Indices: 3662358--3662415 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
3662348 TCATGAACTT
3662358 TTTC-TTTTTTTCTAC
1 TTTCATTTTTTTCTAC
* *
3662373 TTTCATTTTTTTATCC
1 TTTCATTTTTTTCTAC
* *
3662389 TTTTATTTTATTCTA-
1 TTTCATTTTTTTCTAC
*
3662404 TTTTATTTTTTT
1 TTTCATTTTTTT
3662416 ATCATTTACA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
15 15 0.43
16 20 0.57
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTCATTTTTTTCTAC
Found at i:3662415 original size:31 final size:32
Alignment explanation
Indices: 3662357--3662418 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
3662347 CTCATGAACT
* *
3662357 TTTTCTTTTTTTCTACTTTCATTTTTTTATCC
1 TTTTATTTTATTCTACTTTCATTTTTTTATCC
*
3662389 TTTTATTTTATTCTA-TTTTATTTTTTTATC
1 TTTTATTTTATTCTACTTTCATTTTTTTATC
3662419 ATTTACATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (32 bp):
TTTTATTTTATTCTACTTTCATTTTTTTATCC
Found at i:3662743 original size:56 final size:56
Alignment explanation
Indices: 3662655--3662765 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
3662645 GAGTGAAAGC
*
3662655 TAGAGATGCAGTCATTCGAGACTTCTTAGAGCAAGTACAAAAAGTGGCTCGTCACG
1 TAGAGATACAGTCATTCGAGACTTCTTAGAGCAAGTACAAAAAGTGGCTCGTCACG
* *
3662711 TAGAGATACAGTCATTCTAGACTTCTTGGAGCAAGTACAAAAAGTGGCTCGTCAC
1 TAGAGATACAGTCATTCGAGACTTCTTAGAGCAAGTACAAAAAGTGGCTCGTCAC
3662766 TTGCACGTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.24
Consensus pattern (56 bp):
TAGAGATACAGTCATTCGAGACTTCTTAGAGCAAGTACAAAAAGTGGCTCGTCACG
Found at i:3667120 original size:18 final size:18
Alignment explanation
Indices: 3667083--3667121 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3667073 TTTTAAGATT
* *
3667083 TTATATTTGATTTAAATA
1 TTATATTCGATTCAAATA
*
3667101 TTATATTCGATTCAATTA
1 TTATATTCGATTCAAATA
3667119 TTA
1 TTA
3667122 CAAATATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.54
Consensus pattern (18 bp):
TTATATTCGATTCAAATA
Found at i:3668809 original size:21 final size:21
Alignment explanation
Indices: 3668784--3668830 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
3668774 AAGTCTTTAA
3668784 CTCTCGATGAGCTCATTGGTT
1 CTCTCGATGAGCTCATTGGTT
3668805 CTCTCGATGAGCTCATTGGTT
1 CTCTCGATGAGCTCATTGGTT
3668826 CTCTC
1 CTCTC
3668831 CACAATCATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.13, C:0.28, G:0.21, T:0.38
Consensus pattern (21 bp):
CTCTCGATGAGCTCATTGGTT
Found at i:3673831 original size:12 final size:13
Alignment explanation
Indices: 3673804--3673860 Score: 82
Period size: 12 Copynumber: 4.5 Consensus size: 13
3673794 ATATTATGAT
*
3673804 TTTTCAAACTTAG
1 TTTTCAAACATAG
3673817 TTTTCAAA-ATAG
1 TTTTCAAACATAG
*
3673829 TTTTCAAACTTAG
1 TTTTCAAACATAG
3673842 TTTTCAAA-ATAG
1 TTTTCAAACATAG
3673854 TTTTCAA
1 TTTTCAA
3673861 TATTGCCCAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
12 21 0.52
13 19 0.47
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:3673834 original size:25 final size:25
Alignment explanation
Indices: 3673804--3673860 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
3673794 ATATTATGAT
3673804 TTTTCAAACTTAGTTTTCAAAATAG
1 TTTTCAAACTTAGTTTTCAAAATAG
3673829 TTTTCAAACTTAGTTTTCAAAATAG
1 TTTTCAAACTTAGTTTTCAAAATAG
3673854 TTTTCAA
1 TTTTCAA
3673861 TATTGCCCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.07, T:0.46
Consensus pattern (25 bp):
TTTTCAAACTTAGTTTTCAAAATAG
Found at i:3677502 original size:2 final size:2
Alignment explanation
Indices: 3677495--3677536 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
3677485 TTTTTGAAAC
3677495 AT AT AT AT AT 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 AT AT AT AT AT
3677537 TGAAAACATT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3677557 original size:36 final size:37
Alignment explanation
Indices: 3677517--3677912 Score: 474
Period size: 38 Copynumber: 10.7 Consensus size: 37
3677507 ATATATATAT
*
3677517 ATATATATATATATATA-TATTGAAAACA-TTTTGAAA
1 ATATATATA-ATATATAGTTTTGAAAACATTTTTGAAA
3677553 ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
* *
3677590 ATATATATATTATATAGTTTTGAAAGCA-TTTTGAAA
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
3677626 ACATATATAATATATAGTTTTTGAAAACA-TTTTGAAAAAAA
1 ATATATATAATATATAG-TTTTGAAAACATTTTTG----AAA
3677667 ATATATATAATATATAGTTTT-AAAA-ATATTTTGAAA
1 ATATATATAATATATAGTTTTGAAAACAT-TTTTGAAA
* *
3677703 ATATATATAATATATAGTTTTGGAAAATAGTTTTGAAA
1 ATATATATAATATATAGTTTT-GAAAACATTTTTGAAA
* *
3677741 ATGTATATAATATATAGTTTTGAAAAATATTTTTGAAA
1 ATATATATAATATATAGTTTTG-AAAACATTTTTGAAA
* *
3677779 ATGTATATAATATATAGTTTTGAAAATATTTTTG-AA
1 ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
*
3677815 A-ATATAT--TATATAGTTTTAAAAACAATTTTTGAAA
1 ATATATATAATATATAGTTTTGAAAAC-ATTTTTGAAA
* *
3677850 ATATATATATTATATGGTTTTGAAAACAATTTTT-AAA
1 ATATATATAATATATAGTTTTGAAAAC-ATTTTTGAAA
*
3677887 AGCATATATAATATATAGTTTT-AAAA
1 A-TATATATAATATATAGTTTTGAAAA
3677913 TGATTTTTAT
Statistics
Matches: 323, Mismatches: 18, Indels: 37
0.85 0.05 0.10
Matches are distributed among these distances:
33 15 0.05
34 7 0.02
35 15 0.05
36 75 0.23
37 70 0.22
38 108 0.33
39 5 0.02
40 9 0.03
41 19 0.06
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (37 bp):
ATATATATAATATATAGTTTTGAAAACATTTTTGAAA
Found at i:3677734 original size:13 final size:12
Alignment explanation
Indices: 3677716--3677818 Score: 70
Period size: 12 Copynumber: 8.2 Consensus size: 12
3677706 TATATAATAT
3677716 ATAGTTTTGGAAA
1 ATAGTTTT-GAAA
3677729 ATAGTTTTGAAA
1 ATAGTTTTGAAA
*
3677741 AT-GTATAT-AATA
1 ATAGT-TTTGAA-A
3677753 TATAGTTTTGAAAA
1 -ATAGTTTTG-AAA
*
3677767 ATATTTTTGAAA
1 ATAGTTTTGAAA
*
3677779 AT-GTATAT-AATA
1 ATAGT-TTTGAA-A
3677791 TATAGTTTTGAAA
1 -ATAGTTTTGAAA
*
3677804 ATATTTTTGAAA
1 ATAGTTTTGAAA
3677816 ATA
1 ATA
3677819 TATTATATAG
Statistics
Matches: 72, Mismatches: 7, Indels: 23
0.71 0.07 0.23
Matches are distributed among these distances:
11 7 0.10
12 31 0.43
13 25 0.35
14 7 0.10
15 2 0.03
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (12 bp):
ATAGTTTTGAAA
Found at i:3677957 original size:31 final size:31
Alignment explanation
Indices: 3677922--3677991 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
3677912 ATGATTTTTA
*
3677922 TTTTTA-TTATATATTATATTAATATTATTT-G
1 TTTTTATTTAT-TATTATATTAATATT-TTTCC
*
3677953 TTTTTATTTATTATTTTATTAATATTTTTCC
1 TTTTTATTTATTATTATATTAATATTTTTCC
3677984 TTTTTATT
1 TTTTTATT
3677992 CCTTCTCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 3 0.09
31 28 0.80
32 4 0.11
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.70
Consensus pattern (31 bp):
TTTTTATTTATTATTATATTAATATTTTTCC
Found at i:3677978 original size:28 final size:27
Alignment explanation
Indices: 3677920--3677981 Score: 70
Period size: 28 Copynumber: 2.3 Consensus size: 27
3677910 AAATGATTTT
*
3677920 TATTTTTATTATATATTATATTAATAT
1 TATTTTTATTATATATTATATTAATAA
* * * *
3677947 TATTTGTTTTTATTTATTATTTTATTAA
1 TATTT-TTATTATATATTATATTAATAA
3677975 TATTTTT
1 TATTTTT
3677982 CCTTTTTATT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 7 0.24
28 22 0.76
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TATTTTTATTATATATTATATTAATAA
Found at i:3679556 original size:15 final size:15
Alignment explanation
Indices: 3679478--3679558 Score: 56
Period size: 15 Copynumber: 5.4 Consensus size: 15
3679468 TTTTTATTAG
* *
3679478 TATGTGAATATGATA
1 TATGTGAATGTGTTA
*
3679493 TATGTGAATGTGTTT
1 TATGTGAATGTGTTA
* * *
3679508 TACGTGAAAAGT-TTC
1 TATGTG-AATGTGTTA
* * * *
3679523 TATGCGAATATATTC
1 TATGTGAATGTGTTA
3679538 TATGTGAATGTGTTA
1 TATGTGAATGTGTTA
3679553 TATGTG
1 TATGTG
3679559 GATAAATGAT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
14 3 0.06
15 43 0.86
16 4 0.08
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (15 bp):
TATGTGAATGTGTTA
Found at i:3680162 original size:15 final size:15
Alignment explanation
Indices: 3680084--3680164 Score: 56
Period size: 15 Copynumber: 5.4 Consensus size: 15
3680074 TTTTTATTAG
* *
3680084 TATGTGAATATGATA
1 TATGTGAATGTGTTA
*
3680099 TATGTGAATGTGTTT
1 TATGTGAATGTGTTA
* * *
3680114 TACGTGAAAAGT-TTC
1 TATGTG-AATGTGTTA
* * * *
3680129 TATGCGAATATATTC
1 TATGTGAATGTGTTA
3680144 TATGTGAATGTGTTA
1 TATGTGAATGTGTTA
3680159 TATGTG
1 TATGTG
3680165 GATAAATGAT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
14 3 0.06
15 43 0.86
16 4 0.08
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.43
Consensus pattern (15 bp):
TATGTGAATGTGTTA
Found at i:3680304 original size:23 final size:23
Alignment explanation
Indices: 3680278--3680357 Score: 65
Period size: 23 Copynumber: 3.5 Consensus size: 23
3680268 GGTTCTATAC
*
3680278 GGTCCCTTCGAACAATTCTATGT
1 GGTCCCTTCGGACAATTCTATGT
* *
3680301 GGT-CCTTCAGGACAAATTCTACGC
1 GGTCCCTTC-GGAC-AATTCTATGT
* * *
3680325 GGTCCTTTGGGACAAATCTATGT
1 GGTCCCTTCGGACAATTCTATGT
*
3680348 GG-CACTTCGG
1 GGTCCCTTCGG
3680358 TGCAAATTCT
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
22 10 0.23
23 15 0.35
24 15 0.35
25 3 0.07
ACGTcount: A:0.21, C:0.25, G:0.24, T:0.30
Consensus pattern (23 bp):
GGTCCCTTCGGACAATTCTATGT
Found at i:3680328 original size:24 final size:24
Alignment explanation
Indices: 3680291--3680341 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3680281 CCCTTCGAAC
* *
3680291 AATTCTATGTGGTCCTTCAGGACA
1 AATTCTACGCGGTCCTTCAGGACA
**
3680315 AATTCTACGCGGTCCTTTGGGACA
1 AATTCTACGCGGTCCTTCAGGACA
3680339 AAT
1 AAT
3680342 CTATGTGGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
AATTCTACGCGGTCCTTCAGGACA
Found at i:3684936 original size:20 final size:20
Alignment explanation
Indices: 3684913--3684951 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
3684903 CGATATACCA
3684913 GGTAA-AAATATGATAAAACC
1 GGTAAGAAA-ATGATAAAACC
3684933 GGTAAGAAAATGATAAAAC
1 GGTAAGAAAATGATAAAAC
3684952 TAGTAAAACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.56, C:0.08, G:0.18, T:0.18
Consensus pattern (20 bp):
GGTAAGAAAATGATAAAACC
Found at i:3685036 original size:181 final size:182
Alignment explanation
Indices: 3684701--3685173 Score: 659
Period size: 181 Copynumber: 2.6 Consensus size: 182
3684691 GATCCAAATT
* * *
3684701 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCAGTATTG-AAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTA-TGAAAATGAT
* * * * * *
3684765 AAAA-TCGGTAAAGCGCTACCGGATACATTTAAAGTGGCGGTACTTTAATATAAGGATCGACACT
65 AAAACT-GGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACT
* *
3684829 TCGTGAATTTAAAAGAGAAGCAGTTTTAAG-TCCTATAAAGTATCGATACTTTTA
129 TCGTGAATTTAAAAGAGAAGCAGTTTT-AGCGCCTATAAAGTATCGATACTTTAA
* * *
3684883 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAGAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATGAAAATGATA
* * *
3684948 AAACTAGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACTGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
3685012 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTAA
* * *
3685064 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAA-CATGTATCAAAATGAT
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCA-GTATGAAAATGAT
* *
3685128 AAAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAAACTGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
3685174 CGTAAGTACG
Statistics
Matches: 259, Mismatches: 28, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
180 3 0.01
181 162 0.63
182 93 0.36
183 1 0.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCAGTATGAAAATGATA
AAACTGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTATCGATACTTTAA
Found at i:3685113 original size:20 final size:19
Alignment explanation
Indices: 3685085--3685140 Score: 58
Period size: 20 Copynumber: 2.8 Consensus size: 19
3685075 GATCCACAAC
*
3685085 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
* *
3685105 GATAAAACATGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
3685125 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
3685141 TGATACCGGA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.07
20 24 0.83
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.14, T:0.21
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:3687386 original size:21 final size:21
Alignment explanation
Indices: 3687362--3687405 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
3687352 AAGACAATCA
3687362 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
3687383 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
3687404 AG
1 AG
3687406 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:3687481 original size:33 final size:33
Alignment explanation
Indices: 3687439--3687504 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
3687429 AAATAGATGG
*
3687439 AGTGGTGAAAGAAG-TAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAG-GGTGTTAAGGGGTGA
3687472 AGTGGTGAAAGAAGTTAGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTTAGGGTGTTAAGGGGTGA
3687505 TATTAAGATG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 28 0.90
34 3 0.10
ACGTcount: A:0.30, C:0.00, G:0.47, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTAGGGTGTTAAGGGGTGA
Found at i:3689315 original size:19 final size:19
Alignment explanation
Indices: 3689291--3689339 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
3689281 AATGTAGGGT
3689291 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
3689310 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
3689329 TAATTTTGTAT
1 TAATTTTGTAT
3689340 GTGAATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:3689801 original size:200 final size:200
Alignment explanation
Indices: 3689458--3690634 Score: 2090
Period size: 200 Copynumber: 5.9 Consensus size: 200
3689448 CAATATGGCC
* * *
3689458 AACAGGGTGCAACCATAAAGTGTCAAACCATATATAAAAAGTGTCGATCCCAAAAACTTCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3689523 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
3689588 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
3689653 TGGAA
196 TGGAA
* *
3689658 AACAGGGTGCAACCATAAACTGTCGATCCATATAAAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
3689723 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
3689788 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
3689853 TGGAA
196 TGGAA
3689858 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
3689923 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
3689988 GAATATGTCTAAATAATTTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
3690053 TGGAA
196 TGGAA
* *
3690058 AACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCAAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
3690123 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
3690188 GAATATGTCTAAATAATGTGTCAACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
3690253 TGGAA
196 TGGAA
*
3690258 AACAAGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
3690323 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACAGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* *
3690388 AAATATGTCTAAATAATGTATCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
3690453 TGGAA
196 TGGAA
* *
3690458 AACATGGTGCAACCATAAAGTGTCGATCCATATATAGAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
* * *
3690523 CCAAAAGTACAATGTAATATGTAATTTTTCAATCTAACTGGTACAAGTATACCAGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * * *
3690588 GAAT-TGGTATATAAT-ATGTATCGACACTGTTTAATGTTT-TGTCGATA
131 GAATAT-GTCTA-AATAATGTGTCGACACTTTTTTA-GTTTGTGTCGATA
3690635 CTAATTTAAA
Statistics
Matches: 942, Mismatches: 32, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
199 1 0.00
200 934 0.99
201 7 0.01
ACGTcount: A:0.37, C:0.14, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:3692107 original size:6 final size:6
Alignment explanation
Indices: 3692096--3692177 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
3692086 CAAATGGTCA
* * * * *
3692096 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGATG ATGATG ATGAAG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* * * * *
3692144 CTGACG ATGAAG ATGATG ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGA
3692178 TCCAAACAAG
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (6 bp):
ATGAAG
Found at i:3692119 original size:18 final size:18
Alignment explanation
Indices: 3692096--3692159 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
3692086 CAAATGGTCA
3692096 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
* * *
3692114 ATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACG
*
3692132 ATGATGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
3692150 ATGAAGATGA
1 ATGAAGATGA
3692160 TGATGATGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGCTGACG
Found at i:3692133 original size:3 final size:3
Alignment explanation
Indices: 3692113--3692178 Score: 78
Period size: 3 Copynumber: 22.0 Consensus size: 3
3692103 TGAAGCTGAC
* * * * * *
3692113 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
3692161 GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT
3692179 CCAAACAAGT
Statistics
Matches: 51, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.36, C:0.05, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:3692145 original size:36 final size:36
Alignment explanation
Indices: 3692096--3692177 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
3692086 CAAATGGTCA
*
3692096 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGATGATGAAGCTGACGATGAAGATGACGATGATG
*
3692132 ATGATGATGAAGCTGACGATGAAGATGATGATGATG
1 ATGATGATGAAGCTGACGATGAAGATGACGATGATG
3692168 ATGATGATGA
1 ATGATGATGA
3692178 TCCAAACAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (36 bp):
ATGATGATGAAGCTGACGATGAAGATGACGATGATG
Found at i:3692178 original size:12 final size:12
Alignment explanation
Indices: 3692096--3692177 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
3692086 CAAATGGTCA
*
3692096 ATGAAGATGAAG
1 ATGATGATGAAG
* *
3692108 CTGACGATGAAG
1 ATGATGATGAAG
* *
3692120 ATGACGATGATG
1 ATGATGATGAAG
3692132 ATGATGATGAAG
1 ATGATGATGAAG
* *
3692144 CTGACGATGAAG
1 ATGATGATGAAG
*
3692156 ATGATGATGATG
1 ATGATGATGAAG
3692168 ATGATGATGA
1 ATGATGATGA
3692178 TCCAAACAAG
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.38, C:0.06, G:0.33, T:0.23
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:3694001 original size:182 final size:183
Alignment explanation
Indices: 3693388--3694318 Score: 1622
Period size: 183 Copynumber: 5.1 Consensus size: 183
3693378 TTACAGTTTT
* *
3693388 TAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
* *
3693453 GTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCG
66 GTCGACATT--TACAA-ATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCG
*
3693516 GTATAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCGACACTTTC
128 GTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
* *
3693572 TAATATTGTATTGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
* *
3693637 GTCGACATTTACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTA
66 GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
3693702 TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
131 TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
* *
3693755 TAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATA-CATTGTCAAAAAG
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAG
3693819 TGTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGT
65 TGTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGT
*
3693884 ATAAATATACCGG-TTTATGAGCGAATATGTCTACAACCTATATCGACACTTTC
130 ATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
3693937 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
* * *
3694002 GTCGACATTTACACATCGGAACCTAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTA
66 GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
3694067 TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
131 TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
3694120 TAATATTGTGTCGGTACTTTATGT-CAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
3694184 GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
66 GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
*
3694249 TAAATATACCGGTTTTATGAGCGAATAGATCTTACAACCTATATCGACACGTTT-
131 TAAATATACCGGTTTTATGAGCGAATAGGTC-TACAACCTATATCGACAC-TTTC
3694303 TAATATTGTGTCGGTA
1 TAATATTGTGTCGGTA
3694319 ATTTTAAGTA
Statistics
Matches: 714, Mismatches: 26, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
182 307 0.43
183 334 0.47
184 70 0.10
186 3 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (183 bp):
TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
TAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
Found at i:3694060 original size:365 final size:366
Alignment explanation
Indices: 3693388--3694318 Score: 1669
Period size: 365 Copynumber: 2.5 Consensus size: 366
3693378 TTACAGTTTT
* *
3693388 TAATATTGTGTCTGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
* *
3693453 GTCG--ATTGAAAAAACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCG
66 GTCGACATT--TACAA-ATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCG
3693516 GTATAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCGACACTTTCTAATATTGT
128 GTATAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCGACACTTTCTAATATTGT
* *
3693581 ATTGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATT
193 GTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATT
3693646 TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATAC
258 TACACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATAC
3693711 CGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
323 CGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
* *
3693755 TAATATTGTGTCGGTACTTTATGTCCAGATTGAAAGAAAAATGTGTCGATA-CATTGTCAAAAAG
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAG
3693819 TGTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGT
65 TGTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGT
3693884 ATAAATATACCGG-TTTATGAGCGAATATGTCTACAACCTATATCGACACTTTCTAATATTGTGT
130 ATAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCGACACTTTCTAATATTGTGT
3693948 CGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTA
195 CGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTA
*
3694013 CACATCGGAACCTAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCG
260 CACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCG
3694078 GTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
325 GTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
3694120 TAATATTGTGTCGGTACTTTATGT-CAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
1 TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
3694184 GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
66 GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
3694249 TAAATATACCGGTTTTATGAGCGAATA-GATCTTACAACCTATATCGACACGTTT-TAATATTGT
131 TAAATATACCGGTTTTATGAGCGAATATG-TC-TACAACCTATATCGACAC-TTTCTAATATTGT
3694312 GTCGGTA
193 GTCGGTA
3694319 ATTTTAAGTA
Statistics
Matches: 545, Mismatches: 11, Indels: 17
0.95 0.02 0.03
Matches are distributed among these distances:
364 111 0.20
365 264 0.48
366 101 0.19
367 66 0.12
369 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (366 bp):
TAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGT
GTCGACATTTACAAATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTA
TAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCGACACTTTCTAATATTGTGTC
GGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACATTTAC
ACATCGGAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
TTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTC
Found at i:3697189 original size:22 final size:22
Alignment explanation
Indices: 3697159--3697235 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
3697149 AATAGGTAAA
*
3697159 ATATGATGTAATAGGTAGCGCT
1 ATATAATGTAATAGGTAGCGCT
*
3697181 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCG-CT
*
3697204 ATATAATGTAATAGGTAGTGCT
1 ATATAATGTAATAGGTAGCGCT
*
3697226 -TATATTGTAA
1 ATATAATGTAA
3697236 AGTATCTATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
21 9 0.18
22 20 0.41
23 20 0.41
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGCT
Found at i:3697210 original size:23 final size:22
Alignment explanation
Indices: 3697159--3697230 Score: 99
Period size: 23 Copynumber: 3.2 Consensus size: 22
3697149 AATAGGTAAA
* *
3697159 ATATGATGTAATAGGTAGCGCT
1 ATATAATGTAATAGGTAGCGTT
3697181 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCG-TT
*
3697204 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCG-TT
3697227 ATAT
1 ATAT
3697231 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 19 0.42
23 26 0.58
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGTT
Found at i:3697498 original size:487 final size:488
Alignment explanation
Indices: 3696813--3698584 Score: 2980
Period size: 462 Copynumber: 3.7 Consensus size: 488
3696803 AGGTATGTAC
3696813 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
3696878 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
3696943 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
3697008 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAA
3697073 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
260 AAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGAC
3697138 ACTTTCAATATAATAGGT-AAAATATGATGTAATAGGTAGCGCTATATAATGTAATAGGTAGCGT
325 ACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTATATAATGTAATAGGTAGCGT
*
3697202 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCTTTTTTATAAAAGTGTCCATA
390 TTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATA
3697267 CTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
455 CTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
3697301 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
3697365 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
3697430 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
*
3697495 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACACTATTAAAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT--AA
3697560 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
259 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
3697625 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGC
324 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC-TATATAATGTAATAGGTAGC
* *
3697690 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATATATCCTTTTTATAAAAGTGTCCA
388 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCA
* *
3697755 TACTTTTTTCACTGTGAAAAACATTCATTTAAGCTT
453 TACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
*
3697791 ATCTTTTGAATGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
3697856 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
3697921 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
** ** * * * * *
3697986 ATTTTTTGT--AGGTGGAAAACATGAAA-CACTA-T-TA----AAAAAAATTG-AA-AC-A-T--
196 ATTTTTTGTGCAAAT-GAAATTATTAAATTAATATTGTAGGTGGAAAACA-TGAAACACTATTAA
* * * * *
3698036 --AAATT---ACTTAACTT---TAA---AAAAAG---TATCGATCGTTTTTATAAAAAGTATAGA
259 AAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGA
* *
3698087 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGTTAATATAATGTAATATGTAGC
324 CACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCT-ATATAATGTAATAGGTAGC
*
3698152 GTTTATATAATGTAATATGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCA
388 GTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCA
3698217 TACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
453 TACTTTTTTCACTGTGGAAAACATTCATTTAAGGTT
3698253 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
3698318 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
66 GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
3698383 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
131 TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
* *
3698448 A-TTTTTGTGCAAATGATATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATT-AAA
196 ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
**
3698511 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATTTTTTTTTATAAAAAAGTATAGA
261 AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGA-TCCTTTTTAT-AAAAAGTATAGA
3698576 CACTTTCAA
324 CACTTTCAA
3698585 CATATTATAA
Statistics
Matches: 1202, Mismatches: 45, Indels: 73
0.91 0.03 0.06
Matches are distributed among these distances:
461 8 0.01
462 387 0.32
463 5 0.00
464 1 0.00
465 6 0.00
468 4 0.00
469 7 0.01
470 2 0.00
471 8 0.01
472 1 0.00
474 5 0.00
475 5 0.00
478 7 0.01
480 1 0.00
481 4 0.00
482 2 0.00
483 7 0.01
484 6 0.00
487 205 0.17
488 153 0.13
489 50 0.04
490 182 0.15
491 146 0.12
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.40
Consensus pattern (488 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATC
TTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATA
ATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAA
AAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATAGACA
CTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTATATAATGTAATAGGTAGCGTT
TATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCATTTTTATAAAAGTGTCCATAC
TTTTTTCACTGTGGAAAACATTCATTTAAGGTT
Found at i:3697679 original size:23 final size:23
Alignment explanation
Indices: 3697648--3697720 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
3697638 ATAGGTAAAA
*
3697648 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
3697671 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
3697694 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
3697717 ATAT
1 ATAT
3697721 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:3698141 original size:23 final size:23
Alignment explanation
Indices: 3698109--3698173 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
3698099 AATAGGTAAA
* *
3698109 AATATGATGTAATAGGTAGCGTT
1 AATATAATGTAATATGTAGCGTT
3698132 AATATAATGTAATATGTAGCGTT
1 AATATAATGTAATATGTAGCGTT
*
3698155 TATATAATGTAATATGTAG
1 AATATAATGTAATATGTAG
3698174 TGCTTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (23 bp):
AATATAATGTAATATGTAGCGTT
Found at i:3698180 original size:23 final size:22
Alignment explanation
Indices: 3698110--3698182 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
3698100 ATAGGTAAAA
* *
3698110 ATATGATGTAATAGGTAGCGTT
1 ATATAATGTAATATGTAGCGTT
3698132 AATATAATGTAATATGTAGCGTTT
1 -ATATAATGTAATATGTAGCG-TT
*
3698156 ATATAATGTAATATGTAGTGCTT
1 ATATAATGTAATATGTAGCG-TT
3698179 ATAT
1 ATAT
3698183 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 43 0.96
24 2 0.04
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (22 bp):
ATATAATGTAATATGTAGCGTT
Found at i:3699519 original size:21 final size:21
Alignment explanation
Indices: 3699493--3699614 Score: 226
Period size: 21 Copynumber: 5.8 Consensus size: 21
3699483 AAAATTACTT
*
3699493 AAAATATTATTATTTTTATCA
1 AAAATATTAATATTTTTATCA
3699514 AAAATATTAATATTTTTATCA
1 AAAATATTAATATTTTTATCA
3699535 AAAATATTAATATTTTTATCA
1 AAAATATTAATATTTTTATCA
*
3699556 AAAATATTATTATTTTTATCA
1 AAAATATTAATATTTTTATCA
3699577 AAAATATTAATATTTTTATCA
1 AAAATATTAATATTTTTATCA
3699598 AAAATATTAATATTTTT
1 AAAATATTAATATTTTT
3699615 TTAACATTTC
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 98 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATATTAATATTTTTATCA
Found at i:3699763 original size:79 final size:79
Alignment explanation
Indices: 3699638--3699831 Score: 191
Period size: 79 Copynumber: 2.5 Consensus size: 79
3699628 TAAAATGTCT
* * * *
3699638 AATAATAACAAAATTTG-TAGAAA-AATAATATTTTAGATAAT-GTTTTACCAGA-TATATTAAC
1 AATAATAACAAAA-CTGATAAAAATAATAATATTTT-TAT-ATCATTTTA-CAGATTATATTAAC
*
3699699 AAAATCGGTAAAG-CGAC
62 AAAATCAGTAAAGTCGAC
* * *
3699716 AAATGATAACAAAACTGATAAAAATAATAATATTTTTATATCATTTTACTGATTTTATTAACAAA
1 -AATAATAACAAAACTGATAAAAATAATAATATTTTTATATCATTTTACAGATTATATTAACAAA
* *
3699781 ATCAGTAAAGTGGTC
65 ATCAGTAAAGTCGAC
* * *
3699796 AATAATAATAAAACTGATAGAAATAATAATTTTTTT
1 AATAATAACAAAACTGATAAAAATAATAATATTTTT
3699832 GATAATTTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
78 7 0.07
79 76 0.79
80 13 0.14
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.35
Consensus pattern (79 bp):
AATAATAACAAAACTGATAAAAATAATAATATTTTTATATCATTTTACAGATTATATTAACAAAA
TCAGTAAAGTCGAC
Found at i:3702029 original size:272 final size:272
Alignment explanation
Indices: 3701543--3702086 Score: 1088
Period size: 272 Copynumber: 2.0 Consensus size: 272
3701533 TACACAAGTA
3701543 CAAAGAGTAGCATATTTCAAATCAAATAGGTACATACTAAAGTTTTATAATCCTTAATTAATTAT
1 CAAAGAGTAGCATATTTCAAATCAAATAGGTACATACTAAAGTTTTATAATCCTTAATTAATTAT
3701608 GAACATGTACGCATTAAGTATAAAGATCTATAATCCTTAATTAATTATTAGAGATTATCATAATG
66 GAACATGTACGCATTAAGTATAAAGATCTATAATCCTTAATTAATTATTAGAGATTATCATAATG
3701673 AAATTGTTATTTTATTCATTAACTTATTGACTTTATTTGGAAGGAATTTCATGGATTTTTTATTT
131 AAATTGTTATTTTATTCATTAACTTATTGACTTTATTTGGAAGGAATTTCATGGATTTTTTATTT
3701738 AGTATCTGAATTTCTAAAGTTTATTCTCTCTTTTATTTCTCTTATAATAAGTTTTGTAGGTTATA
196 AGTATCTGAATTTCTAAAGTTTATTCTCTCTTTTATTTCTCTTATAATAAGTTTTGTAGGTTATA
3701803 TCTATAAGCTTT
261 TCTATAAGCTTT
3701815 CAAAGAGTAGCATATTTCAAATCAAATAGGTACATACTAAAGTTTTATAATCCTTAATTAATTAT
1 CAAAGAGTAGCATATTTCAAATCAAATAGGTACATACTAAAGTTTTATAATCCTTAATTAATTAT
3701880 GAACATGTACGCATTAAGTATAAAGATCTATAATCCTTAATTAATTATTAGAGATTATCATAATG
66 GAACATGTACGCATTAAGTATAAAGATCTATAATCCTTAATTAATTATTAGAGATTATCATAATG
3701945 AAATTGTTATTTTATTCATTAACTTATTGACTTTATTTGGAAGGAATTTCATGGATTTTTTATTT
131 AAATTGTTATTTTATTCATTAACTTATTGACTTTATTTGGAAGGAATTTCATGGATTTTTTATTT
3702010 AGTATCTGAATTTCTAAAGTTTATTCTCTCTTTTATTTCTCTTATAATAAGTTTTGTAGGTTATA
196 AGTATCTGAATTTCTAAAGTTTATTCTCTCTTTTATTTCTCTTATAATAAGTTTTGTAGGTTATA
3702075 TCTATAAGCTTT
261 TCTATAAGCTTT
3702087 GATTTTATAA
Statistics
Matches: 272, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
272 272 1.00
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.44
Consensus pattern (272 bp):
CAAAGAGTAGCATATTTCAAATCAAATAGGTACATACTAAAGTTTTATAATCCTTAATTAATTAT
GAACATGTACGCATTAAGTATAAAGATCTATAATCCTTAATTAATTATTAGAGATTATCATAATG
AAATTGTTATTTTATTCATTAACTTATTGACTTTATTTGGAAGGAATTTCATGGATTTTTTATTT
AGTATCTGAATTTCTAAAGTTTATTCTCTCTTTTATTTCTCTTATAATAAGTTTTGTAGGTTATA
TCTATAAGCTTT
Found at i:3702706 original size:2 final size:2
Alignment explanation
Indices: 3702699--3702736 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3702689 ACCTAACTCC
3702699 AT AT AT 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 AT AT AT
3702737 TTCATTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3703818 original size:28 final size:28
Alignment explanation
Indices: 3703785--3703901 Score: 207
Period size: 28 Copynumber: 4.2 Consensus size: 28
3703775 GAAACAGTGC
*
3703785 GTGCCTTGTACATGCAGGTGTGTGCCAT
1 GTGCCTTGTACATGCAGATGTGTGCCAT
*
3703813 GTGCCTTGTACATGCAGATGTGGGCCAT
1 GTGCCTTGTACATGCAGATGTGTGCCAT
3703841 GTGCCTTGTACATGCAGATGTGTGCCAT
1 GTGCCTTGTACATGCAGATGTGTGCCAT
*
3703869 GTGCCTTGTGCATGCAGATGTGTGCCAT
1 GTGCCTTGTACATGCAGATGTGTGCCAT
3703897 GTGCC
1 GTGCC
3703902 AATCACCTAA
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 85 1.00
ACGTcount: A:0.15, C:0.22, G:0.32, T:0.31
Consensus pattern (28 bp):
GTGCCTTGTACATGCAGATGTGTGCCAT
Found at i:3711512 original size:28 final size:28
Alignment explanation
Indices: 3711472--3711528 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
3711462 GGTTTGTGTC
3711472 CCTCTTTCTCCCTTATGGCTTTATGGTT
1 CCTCTTTCTCCCTTATGGCTTTATGGTT
*
3711500 CCTCTTTCTCCCTTATTGCTTTATGGTT
1 CCTCTTTCTCCCTTATGGCTTTATGGTT
3711528 C
1 C
3711529 TCAGTTTATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.07, C:0.30, G:0.12, T:0.51
Consensus pattern (28 bp):
CCTCTTTCTCCCTTATGGCTTTATGGTT
Found at i:3711937 original size:3 final size:3
Alignment explanation
Indices: 3711929--3711966 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
3711919 AATGTTTAAT
*
3711929 TAA TAA TAA TAA TAA T-A TAA TAA TAA TATT TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA
3711967 TTTTTTCGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 2 0.06
3 27 0.87
4 2 0.06
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:3711950 original size:11 final size:11
Alignment explanation
Indices: 3711929--3711967 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
3711919 AATGTTTAAT
3711929 TAATAATAATAA
1 TAAT-ATAATAA
3711941 TAATATAATAA
1 TAATATAATAA
*
3711952 TAATAT-TTAA
1 TAATATAATAA
3711962 TAATAT
1 TAATAT
3711968 TTTTTCGATC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 9 0.35
11 13 0.50
12 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (11 bp):
TAATATAATAA
Found at i:3712443 original size:129 final size:129
Alignment explanation
Indices: 3712195--3712573 Score: 483
Period size: 129 Copynumber: 2.9 Consensus size: 129
3712185 CTAGTCAGGG
* *
3712195 GATGACACTG-CTCATATGTGATGAAGAGTTCTTGGCCATCTTTAGGAAGGGTGATAACTCAGTT
1 GATGACAC-GACTCATATGTGATGAAGAGTTC-TGGCCATC--TA--AA-GGTGATAACACGGTT
* * *
3712259 CCTACGCGATGAGGACGACTGGTTATCAAAGGTTGACACAGCTCCTACGTGATGAGGAGATAAGG
59 CCTACGTGATGAGGACGACTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAAATAAGG
*
3712324 TCCGGT
124 TCCGGC
* * * *
3712330 GATGAGACGACTCATACGTGATGAAGAGTTCTGGCTATCTAAAGGTGATAACACGGTTCCAACGT
1 GATGACACGACTCATATGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGT
* * * * * * *
3712395 GATAAAGATGACTGGTTATCAAAGGTTGGCACGGCTCCTATGTGATGAGGAAATCAGGTCGGGC
66 GATGAGGACGACTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAAATAAGGTCCGGC
*
3712459 GATGACATGACTCATATGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGT
1 GATGACACGACTCATATGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGT
** * *
3712524 GATGAGGACGACTGGTTAT-ATGGGGTGACACGGTTCCTACGTGATGAGGA
66 GATGAGGACGACTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGA
3712574 TGGCTGGTCA
Statistics
Matches: 212, Mismatches: 31, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
128 25 0.12
129 148 0.70
130 2 0.01
132 2 0.01
134 8 0.04
135 27 0.13
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (129 bp):
GATGACACGACTCATATGTGATGAAGAGTTCTGGCCATCTAAAGGTGATAACACGGTTCCTACGT
GATGAGGACGACTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAAATAAGGTCCGGC
Found at i:3712725 original size:63 final size:66
Alignment explanation
Indices: 3712658--3712786 Score: 156
Period size: 68 Copynumber: 2.0 Consensus size: 66
3712648 AAAGTGACAA
* * *
3712658 AATTCATTTTAAGGG-AATGA-CTCAAAGATG-GTTTTGTTTCAAGAGAAACAAACTCAAAGATT
1 AATTCATTTCAAGGGAAACGATCTCAAAGATGTGTTATGTTTCAAGAGAAACAAACTCAAAGATT
3712720 T
66 T
* * * *
3712721 AATTCGTTTCAAGGGAAACGATCTCAAAGATGTTTGTTATGTTTCAAGGGAAACGATCTCAAAGA
1 AATTCATTTCAAGGGAAACGATCTCAAAGATG--TGTTATGTTTCAAGAGAAACAAACTCAAAGA
3712786 T
64 T
3712787 GTTTGTTCTG
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
63 13 0.24
64 4 0.07
65 10 0.19
68 27 0.50
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (66 bp):
AATTCATTTCAAGGGAAACGATCTCAAAGATGTGTTATGTTTCAAGAGAAACAAACTCAAAGATT
T
Found at i:3712772 original size:35 final size:34
Alignment explanation
Indices: 3712678--3712960 Score: 161
Period size: 33 Copynumber: 8.3 Consensus size: 34
3712668 AAGGGAATGA
* * * *
3712678 CTCAAAGATG-GT-TTTGTTTCAAGAGAAACAAA
1 CTCAAAGATGTTTGTTTGTTTCAAGGGAAACGAT
** *
3712710 CTCAAAGAT-TTAATTCGTTTCAAGGGAAACGAT
1 CTCAAAGATGTTTGTTTGTTTCAAGGGAAACGAT
3712743 CTCAAAGATGTTTGTTATGTTTCAAGGGAAACGAT
1 CTCAAAGATGTTTGTT-TGTTTCAAGGGAAACGAT
3712778 CTCAAAGATGTTTGTTCTG-TTCTAAGGGAAACAGA-
1 CTCAAAGATGTTTGTT-TGTTTC-AAGGGAAAC-GAT
* **** * *
3712813 CTCAAAAGAGGCGAAATTTGTTTAAAGGAAAACGAT
1 CTC-AAAGATG-TTTGTTTGTTTCAAGGGAAACGAT
* * * *
3712849 TTCAAAGATGGTTG-TTGTTTCATGAGAAAC-AGT
1 CTCAAAGATGTTTGTTTGTTTCAAGGGAAACGA-T
* ** ** *
3712882 CTCAAGGAAAATAAGATTTGTTTCAAGAGAAACGAT
1 CTCAAAG-ATGTTTG-TTTGTTTCAAGGGAAACGAT
* * * *
3712918 ATCAAAGATGGTTG-TTGTTTCCAGTGAAACAGA-
1 CTCAAAGATGTTTGTTTGTTTCAAGGGAAAC-GAT
3712951 CTCAAAGATG
1 CTCAAAGATG
3712961 ATATTTATTT
Statistics
Matches: 191, Mismatches: 44, Indels: 31
0.72 0.17 0.12
Matches are distributed among these distances:
32 10 0.05
33 66 0.35
34 12 0.06
35 57 0.30
36 41 0.21
37 5 0.03
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (34 bp):
CTCAAAGATGTTTGTTTGTTTCAAGGGAAACGAT
Found at i:3712989 original size:33 final size:33
Alignment explanation
Indices: 3712897--3712989 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
3712887 GGAAAATAAG
* * *
3712897 ATTTGTTTCAAGAGAAACGATATCAAAGATGGT
1 ATTTGTTTCAAGTGAAACAATATCAAAGATGAT
* *
3712930 -TGTTGTTTCCAGTGAAACAGA-CTCAAAGATGAT
1 AT-TTGTTTCAAGTGAAACA-ATATCAAAGATGAT
* *
3712963 ATTTATTTCAAGTGAAACAATTTCAAA
1 ATTTGTTTCAAGTGAAACAATATCAAA
3712990 ATTTGGTGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
32 2 0.04
33 44 0.92
34 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (33 bp):
ATTTGTTTCAAGTGAAACAATATCAAAGATGAT
Found at i:3713107 original size:62 final size:62
Alignment explanation
Indices: 3713029--3713236 Score: 183
Period size: 62 Copynumber: 3.3 Consensus size: 62
3713019 GTGAGACGAC
*
3713029 TTTGTTTCAA-AGGAAACAGACTTAAAGATTTTTTTCAAAAGAAATTGTCTC-AAGAGACAAAA
1 TTTGTTTCAAGA-GAAACAGACTTAAAGA-TTTTTTCAAAAGAAAATGTCTCAAAGAGACAAAA
**** * * * *
3713091 TTTGTTTCAAGAGAAAC-GATCTTATAGAGGGGCGTTTCAAGAGAAAATGACTCAAAGATTATAA
1 TTTGTTTCAAGAGAAACAGA-CTTA-A-A-GATTTTTTCAAAAGAAAATGTCTCAAAGA-GACAA
3713155 AA
61 AA
* * *
3713157 TTTGTTTCAAGTGAAACATACTTAAAGATTTTTTC--AAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGAGAAACAGACTTAAAGATTTTTTCAAAAGAAAATGTCTCAA-AGAGACAAAA
*
3713218 CTTTGTTTGAAGAGAAACA
1 -TTTGTTTCAAGAGAAACA
3713237 CTTTTAAAGG
Statistics
Matches: 114, Mismatches: 22, Indels: 20
0.73 0.14 0.13
Matches are distributed among these distances:
61 19 0.17
62 38 0.33
63 7 0.06
64 18 0.16
65 6 0.05
66 25 0.22
67 1 0.01
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (62 bp):
TTTGTTTCAAGAGAAACAGACTTAAAGATTTTTTCAAAAGAAAATGTCTCAAAGAGACAAAA
Found at i:3720315 original size:3 final size:3
Alignment explanation
Indices: 3720307--3720364 Score: 98
Period size: 3 Copynumber: 19.0 Consensus size: 3
3720297 TGTTTAATTG
3720307 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
3720355 TTTA ATA ATA
1 -ATA ATA ATA
3720365 TTTTTTCTAT
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 50 0.96
4 2 0.04
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:3739508 original size:2 final size:2
Alignment explanation
Indices: 3739503--3739527 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3739493 TGAAAAAACA
3739503 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 A
3739528 CACACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3739532 original size:2 final size:2
Alignment explanation
Indices: 3739527--3739557 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3739517 ATATATATAT
*
3739527 AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
3739558 TATATATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.55, C:0.45, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:3739562 original size:2 final size:2
Alignment explanation
Indices: 3739557--3739592 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3739547 ACACACACAC
3739557 AT AT 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 AT AT
3739593 TCAAAACGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3749207 original size:20 final size:21
Alignment explanation
Indices: 3749182--3749235 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
3749172 TCGATAAAAA
**
3749182 TAGTATCGATACTAG-ACTAG
1 TAGTATCGATACTAGCAAGAG
*
3749202 TAGTATTGATACCTAGCAAGAG
1 TAGTATCGATA-CTAGCAAGAG
3749224 TAGTATCGATAC
1 TAGTATCGATAC
3749236 CAAGTGCACA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 5 0.18
22 13 0.46
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (21 bp):
TAGTATCGATACTAGCAAGAG
Found at i:3751740 original size:60 final size:60
Alignment explanation
Indices: 3751667--3751787 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
3751657 CCTCTCAACA
3751667 ACTCCATTTTTTTGAGGGTTCTAGGTGCTGAAAAATTATGGCTAATTCCATTTGAAATAC
1 ACTCCATTTTTTTGAGGGTTCTAGGTGCTGAAAAATTATGGCTAATTCCATTTGAAATAC
*
3751727 ACTCCATTTTTTTGAGGGTTCTAGGTGCTGAAAAATTATGGCTAATTCCATTTGAATTAC
1 ACTCCATTTTTTTGAGGGTTCTAGGTGCTGAAAAATTATGGCTAATTCCATTTGAAATAC
3751787 A
1 A
3751788 GAAATCAATA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (60 bp):
ACTCCATTTTTTTGAGGGTTCTAGGTGCTGAAAAATTATGGCTAATTCCATTTGAAATAC
Found at i:3753531 original size:3 final size:3
Alignment explanation
Indices: 3753517--3753552 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
3753507 TGTCATTTCT
* *
3753517 TCA TCT TCA TCA TCA TCA TCA TCT TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
3753553 GAATCACTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (3 bp):
TCA
Found at i:3754435 original size:148 final size:148
Alignment explanation
Indices: 3754230--3754526 Score: 594
Period size: 148 Copynumber: 2.0 Consensus size: 148
3754220 AATGGAGGCT
3754230 TATTGACGGGTTGAGAATCAAGAACGAACTCGAAGTTTGATGTAGATGCCATAGATGATTTAGAT
1 TATTGACGGGTTGAGAATCAAGAACGAACTCGAAGTTTGATGTAGATGCCATAGATGATTTAGAT
3754295 AACAATTGAACTCTTCTAAGATCTTCTCAAGATGAGGTAAAACCTTCAAATGTGTAAGGCTCTGA
66 AACAATTGAACTCTTCTAAGATCTTCTCAAGATGAGGTAAAACCTTCAAATGTGTAAGGCTCTGA
3754360 TTCCAATTGTTGAGTCAA
131 TTCCAATTGTTGAGTCAA
3754378 TATTGACGGGTTGAGAATCAAGAACGAACTCGAAGTTTGATGTAGATGCCATAGATGATTTAGAT
1 TATTGACGGGTTGAGAATCAAGAACGAACTCGAAGTTTGATGTAGATGCCATAGATGATTTAGAT
3754443 AACAATTGAACTCTTCTAAGATCTTCTCAAGATGAGGTAAAACCTTCAAATGTGTAAGGCTCTGA
66 AACAATTGAACTCTTCTAAGATCTTCTCAAGATGAGGTAAAACCTTCAAATGTGTAAGGCTCTGA
3754508 TTCCAATTGTTGAGTCAA
131 TTCCAATTGTTGAGTCAA
3754526 T
1 T
3754527 CGATCGGATG
Statistics
Matches: 149, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
148 149 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (148 bp):
TATTGACGGGTTGAGAATCAAGAACGAACTCGAAGTTTGATGTAGATGCCATAGATGATTTAGAT
AACAATTGAACTCTTCTAAGATCTTCTCAAGATGAGGTAAAACCTTCAAATGTGTAAGGCTCTGA
TTCCAATTGTTGAGTCAA
Found at i:3756689 original size:38 final size:39
Alignment explanation
Indices: 3756609--3756690 Score: 112
Period size: 38 Copynumber: 2.1 Consensus size: 39
3756599 CACAAAGATT
* *
3756609 TAATCCTAGCCCTAGATTTAAGACCCTAAAGATAACTAA
1 TAATCCTAGCCCTAGATTGAAGACCATAAAGATAACTAA
* * *
3756648 TAATCCTAGCCCTATATTGAA-ACCATAAAGATATCTTA
1 TAATCCTAGCCCTAGATTGAAGACCATAAAGATAACTAA
3756686 TAATC
1 TAATC
3756691 TTAGATGTCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
38 19 0.50
39 19 0.50
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (39 bp):
TAATCCTAGCCCTAGATTGAAGACCATAAAGATAACTAA
Found at i:3758284 original size:19 final size:20
Alignment explanation
Indices: 3758251--3758290 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
3758241 CGCCTCAGTA
3758251 AAATAAGACACATA-TATAT
1 AAATAAGACACATATTATAT
* *
3758270 AAATAAGATATATATTATAT
1 AAATAAGACACATATTATAT
3758290 A
1 A
3758291 TATATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAATAAGACACATATTATAT
Found at i:3762528 original size:32 final size:32
Alignment explanation
Indices: 3762487--3762550 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
3762477 GATTCGCAAC
*
3762487 GCGAACTTCGACTATTGCATTGCGAACTTGGA
1 GCGAACTTCGACTATCGCATTGCGAACTTGGA
3762519 GCGAACTTCGACTATCGCATTGCGAACTTGGA
1 GCGAACTTCGACTATCGCATTGCGAACTTGGA
3762551 CTATCGTAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (32 bp):
GCGAACTTCGACTATCGCATTGCGAACTTGGA
Found at i:3762545 original size:21 final size:21
Alignment explanation
Indices: 3762519--3762585 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
3762509 CGAACTTGGA
3762519 GCGAACTTCGACTATCGCATT
1 GCGAACTTCGACTATCGCATT
* * **
3762540 GCGAACTTGGACTATCGTAAC
1 GCGAACTTCGACTATCGCATT
3762561 GCGAACTTCGACTATCGCATT
1 GCGAACTTCGACTATCGCATT
3762582 GCGA
1 GCGA
3762586 TTTACATATT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCATT
Found at i:3762623 original size:21 final size:21
Alignment explanation
Indices: 3762575--3762727 Score: 134
Period size: 21 Copynumber: 7.2 Consensus size: 21
3762565 ACTTCGACTA
* * *
3762575 TCGCATTGCGAT-TTACATAT
1 TCGCATTGCGATAGTCCAAAT
* *
3762595 TCGTATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAAT
* *
3762616 TCGCATTGCGATAGT-CGACT
1 TCGCATTGCGATAGTCCAAAT
*
3762636 ATCGCATTGCGATAGTCCAAGT
1 -TCGCATTGCGATAGTCCAAAT
*
3762658 TCGCATTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAAT
*
3762681 TCGCATTGCGATTTATTCCAAAT
1 TCGCATTGCGA--TAGTCCAAAT
*
3762704 TCG--TTGCGATAGTCCAAAA
1 TCGCATTGCGATAGTCCAAAT
3762723 TCGCA
1 TCGCA
3762728 ACGACTGGTG
Statistics
Matches: 112, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
19 11 0.10
20 14 0.12
21 50 0.45
22 3 0.03
23 34 0.30
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAAT
Found at i:3762642 original size:62 final size:64
Alignment explanation
Indices: 3762568--3762692 Score: 166
Period size: 62 Copynumber: 2.0 Consensus size: 64
3762558 AACGCGAACT
* * *
3762568 TCGACTATCGCATTGCGAT-TTACATA-TTCGTATTGCGA-TAGTCCAAGTTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATAGTACA-AGTTCGCATTGCGATTAGTCCAAATTCGCATTGCGATAG
* *
3762630 TCGACTATCGCATTGCGATAGTCCAAGTTCGCATTGCGATTTATTCCAAATTCGCATTGCGAT
1 TCGACTATCGCATTGCGATAGTACAAGTTCGCATTGCGA-TTAGTCCAAATTCGCATTGCGAT
3762693 TTATTCCAAA
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
62 20 0.37
63 14 0.26
65 20 0.37
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (64 bp):
TCGACTATCGCATTGCGATAGTACAAGTTCGCATTGCGATTAGTCCAAATTCGCATTGCGATAG
Found at i:3762683 original size:23 final size:23
Alignment explanation
Indices: 3762637--3762713 Score: 108
Period size: 23 Copynumber: 3.5 Consensus size: 23
3762627 TAGTCGACTA
* *
3762637 TCGCATTGCGA--TAGTCCAAGT
1 TCGCATTGCGATTTATTCCAAAT
3762658 TCGCATTGCGATTTATTCCAAAT
1 TCGCATTGCGATTTATTCCAAAT
3762681 TCGCATTGCGATTTATTCCAAAT
1 TCGCATTGCGATTTATTCCAAAT
3762704 TCG--TTGCGAT
1 TCGCATTGCGAT
3762714 AGTCCAAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
21 18 0.35
23 34 0.65
ACGTcount: A:0.23, C:0.22, G:0.18, T:0.36
Consensus pattern (23 bp):
TCGCATTGCGATTTATTCCAAAT
Found at i:3763346 original size:6 final size:6
Alignment explanation
Indices: 3763335--3763367 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
3763325 TCTCGTCTCG
3763335 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
3763368 AATACGTGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.15, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:3763511 original size:21 final size:21
Alignment explanation
Indices: 3763481--3763554 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
3763471 AATATGTAAA
*
3763481 TCGCAATGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
3763502 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCGAAGT
3763523 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCGAAGT
*
3763544 TCGCGTTGCGA
1 TCGCATTGCGA
3763555 ATCTAGAAAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (21 bp):
TCGCATTGCGATAGTCGAAGT
Found at i:3764801 original size:18 final size:18
Alignment explanation
Indices: 3764778--3764854 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
3764768 ACCGGTCATA
3764778 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
* *
3764796 ACCCGACCAGACCCATT-
1 ACCCGACCCGACCCGTTG
* *
3764813 ----TACCTGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
3764827 ACCCCACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
3764845 ACCCGACCCG
1 ACCCGACCCG
3764855 TTGACCGTTG
Statistics
Matches: 46, Mismatches: 8, Indels: 10
0.72 0.12 0.16
Matches are distributed among these distances:
13 10 0.22
18 36 0.78
ACGTcount: A:0.19, C:0.49, G:0.18, T:0.13
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:3764825 original size:31 final size:31
Alignment explanation
Indices: 3764782--3764860 Score: 113
Period size: 31 Copynumber: 2.5 Consensus size: 31
3764772 GTCATAACCC
*
3764782 GACCCGACCCGTTGACCCGACCAGACCCATT
1 GACCCGACCCGTTGACCCCACCAGACCCATT
* * * *
3764813 TACCTGACCCGTTGACCCCACCCGACCCGTT
1 GACCCGACCCGTTGACCCCACCAGACCCATT
3764844 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
3764861 GTTGACCCGT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.19, C:0.47, G:0.19, T:0.15
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCCACCAGACCCATT
Found at i:3764835 original size:13 final size:13
Alignment explanation
Indices: 3764832--3764875 Score: 61
Period size: 13 Copynumber: 3.2 Consensus size: 13
3764822 CGTTGACCCC
3764832 ACCCGACCCGTTG
1 ACCCGACCCGTTG
3764845 ACCCGACCCGTTG
1 ACCCGACCCGTTG
*
3764858 ACCGTTGACCCGTTG
1 ACC--CGACCCGTTG
3764873 ACC
1 ACC
3764876 GTTGACCGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
13 16 0.57
15 12 0.43
ACGTcount: A:0.16, C:0.43, G:0.23, T:0.18
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:3764847 original size:8 final size:8
Alignment explanation
Indices: 3764836--3764882 Score: 59
Period size: 8 Copynumber: 6.5 Consensus size: 8
3764826 GACCCCACCC
3764836 GACCCGTT
1 GACCCGTT
3764844 GACCC---
1 GACCCGTT
3764849 GACCCGTT
1 GACCCGTT
3764857 GA-CCGTT
1 GACCCGTT
3764864 GACCCGTT
1 GACCCGTT
3764872 GA-CCGTT
1 GACCCGTT
3764879 GACC
1 GACC
3764883 GGAGTTGACC
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
5 5 0.15
7 14 0.41
8 15 0.44
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (8 bp):
GACCCGTT
Found at i:3764864 original size:7 final size:7
Alignment explanation
Indices: 3764852--3764883 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
3764842 TTGACCCGAC
3764852 CCGTTGA
1 CCGTTGA
3764859 CCGTTGA
1 CCGTTGA
3764866 CCCGTTGA
1 -CCGTTGA
3764874 CCGTTGA
1 CCGTTGA
3764881 CCG
1 CCG
3764884 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:3764869 original size:15 final size:15
Alignment explanation
Indices: 3764836--3764882 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
3764826 GACCCCACCC
*
3764836 GACCCGTTGACC--C
1 GACCCGTTGACCGTT
3764849 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
3764864 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
3764879 GACC
1 GACC
3764883 GGAGTTGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.38, G:0.26, T:0.21
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:3767420 original size:24 final size:24
Alignment explanation
Indices: 3767300--3767413 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
3767290 TCGATTTGAT
3767300 TTCTGATCTGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
3767324 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
3767348 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
3767372 TT-TGATCTGTTACTTGACCT-GA
1 TTCTGATCTGATACTTGACATGGA
*
3767394 TTTCTGATATGATACTTGAC
1 -TTCTGATCTGATACTTGAC
3767414 CTGATTTATG
Statistics
Matches: 81, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
22 2 0.02
23 19 0.23
24 59 0.73
25 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:3767436 original size:24 final size:24
Alignment explanation
Indices: 3767351--3767423 Score: 78
Period size: 24 Copynumber: 3.1 Consensus size: 24
3767341 ACATGGATTC
* *
3767351 TGATCTGATACTTGACTTGGA-TT-
1 TGATATGATACTTGACCT-GATTTA
* * *
3767374 TGATCTGTTACTTGACCTGATTTC
1 TGATATGATACTTGACCTGATTTA
3767398 TGATATGATACTTGACCTGATTTA
1 TGATATGATACTTGACCTGATTTA
3767422 TG
1 TG
3767424 TTTTGATTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
22 2 0.05
23 18 0.42
24 23 0.53
ACGTcount: A:0.22, C:0.15, G:0.19, T:0.44
Consensus pattern (24 bp):
TGATATGATACTTGACCTGATTTA
Found at i:3768383 original size:21 final size:21
Alignment explanation
Indices: 3768344--3768425 Score: 60
Period size: 21 Copynumber: 3.8 Consensus size: 21
3768334 TTTATATTAT
* *
3768344 AAATAATATTTTATCATATTTA
1 AAATAATATTATA-AATATTTA
*
3768366 AAATAA-ATTATAAGATATAT-
1 AAATAATATTATAA-ATATTTA
*
3768386 ATATAATATTATAAATATTATA
1 AAATAATATTATAAATATT-TA
* *
3768408 AAATTATATCTTTAAATA
1 AAATAATAT-TATAAATA
3768426 AATGATATCA
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
20 9 0.19
21 18 0.38
22 13 0.28
23 7 0.15
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.44
Consensus pattern (21 bp):
AAATAATATTATAAATATTTA
Found at i:3768409 original size:9 final size:9
Alignment explanation
Indices: 3768372--3768415 Score: 54
Period size: 9 Copynumber: 4.7 Consensus size: 9
3768362 TTTAAAATAA
3768372 ATTATAAGAT
1 ATTATAA-AT
3768382 ATATATATAAT
1 AT-TATA-AAT
3768393 ATTATAAAT
1 ATTATAAAT
3768402 ATTATAAA-
1 ATTATAAAT
3768410 ATTATA
1 ATTATA
3768416 TCTTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
8 6 0.19
9 11 0.34
10 6 0.19
11 8 0.25
12 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (9 bp):
ATTATAAAT
Found at i:3783681 original size:13 final size:13
Alignment explanation
Indices: 3783663--3783689 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3783653 GTTGTCACAA
3783663 AGTCTTTGACTTG
1 AGTCTTTGACTTG
3783676 AGTCTTTGACTTG
1 AGTCTTTGACTTG
3783689 A
1 A
3783690 CAACCACAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.44
Consensus pattern (13 bp):
AGTCTTTGACTTG
Found at i:3786448 original size:44 final size:43
Alignment explanation
Indices: 3786290--3786567 Score: 393
Period size: 42 Copynumber: 6.5 Consensus size: 43
3786280 AAGGTTTTAT
* * * * * *
3786290 CCTTGCACATAGCAAAAGAGCCTGGGGAAAATATAAGGCTTAC
1 CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTAC
** *
3786333 CCTTGCACACAACAAATAAACAT-GGGAAACTGTAAGGCTTAC
1 CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTAC
*
3786375 CCTTACACACAACAAAGGAACCT-GGGAAACTGTAAGGCTTAC
1 CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTAC
3786417 CCTTGCACACAACAAAGGAACCTGGGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAACAAAGGAACCT-GGGGAAACTGTAAGGCTTAC
3786461 CCTTGCACACAACAAAGGAACCTGGGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAACAAAGGAACCT-GGGGAAACTGTAAGGCTTAC
**
3786505 CCTTGCACACAGTAAA-GAGACCTGGGG-AACTGTAAGGCTTAC
1 CCTTGCACACAACAAAGGA-ACCTGGGGAAACTGTAAGGCTTAC
3786547 CCTTGCACACAACAAAGGAAC
1 CCTTGCACACAACAAAGGAAC
3786568 TTGTTGTAAC
Statistics
Matches: 214, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
42 108 0.50
43 25 0.12
44 81 0.38
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (43 bp):
CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTAC
Found at i:3786474 original size:86 final size:85
Alignment explanation
Indices: 3786290--3786567 Score: 391
Period size: 86 Copynumber: 3.2 Consensus size: 85
3786280 AAGGTTTTAT
* * * * * * * *
3786290 CCTTGCACATAGCAAAAGAGCCTGGGGAAAATATAAGGCTTACCCTTGCACACAACAAATAAACA
1 CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAA-GAACC
3786355 T-GGGAAACTGTAAGGCTTAC
65 TGGGGAAACTGTAAGGCTTAC
*
3786375 CCTTACACACAACAAAGGAACCT-GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
1 CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAA-GAACC
3786439 TGGGGGAAACTGTAAGGCTTAC
65 T-GGGGAAACTGTAAGGCTTAC
**
3786461 CCTTGCACACAACAAAGGAACCTGGGGGAAACTGTAAGGCTTACCCTTGCACACAGTAAAGAGAC
1 CCTTGCACACAACAAAGGAACCT-GGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGA-AC
3786526 CTGGGG-AACTGTAAGGCTTAC
64 CTGGGGAAACTGTAAGGCTTAC
3786547 CCTTGCACACAACAAAGGAAC
1 CCTTGCACACAACAAAGGAAC
3786568 TTGTTGTAAC
Statistics
Matches: 175, Mismatches: 13, Indels: 9
0.89 0.07 0.05
Matches are distributed among these distances:
84 37 0.21
85 18 0.10
86 77 0.44
87 6 0.03
88 37 0.21
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (85 bp):
CCTTGCACACAACAAAGGAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGAACCT
GGGGAAACTGTAAGGCTTAC
Found at i:3791533 original size:42 final size:42
Alignment explanation
Indices: 3791450--3791730 Score: 409
Period size: 42 Copynumber: 6.6 Consensus size: 42
3791440 AAGGTTTTAT
* * * *
3791450 CCTTGCACATAGCAAAAGAGCCTGGGGAAAATGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTAC
3791493 CCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTAC
*
3791535 TCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTAC
*
3791577 CCTTGCACACAACAAAGGAACCTGGGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGAACCT--GGGAAACTGTAAGGCTTAC
* *
3791621 CCTTGCACACAGCAAAGAAACTTGGGGGAAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGAACCT--GGGAAACTGTAAGGCTTAC
* * *
3791665 CCTTGCATACAGCAAAGGGACCTGGGGAACTGTAAGGCTTAC
1 CCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTAC
*
3791707 CCTTGCACACAGCAAATGAACCTG
1 CCTTGCACACAGCAAAGGAACCTG
3791731 CTGTAACAAT
Statistics
Matches: 218, Mismatches: 18, Indels: 5
0.90 0.07 0.02
Matches are distributed among these distances:
42 119 0.55
43 20 0.09
44 79 0.36
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (42 bp):
CCTTGCACACAGCAAAGGAACCTGGGAAACTGTAAGGCTTAC
Found at i:3791696 original size:86 final size:85
Alignment explanation
Indices: 3791450--3791730 Score: 406
Period size: 86 Copynumber: 3.3 Consensus size: 85
3791440 AAGGTTTTAT
* * *
3791450 CCTTGCACATAGCAAA-AGAGCCTGGGGAAAATGTAAGGCTTACCCTTGCACACAGCAAAGGAAC
1 CCTTGCACACAGCAAAGA-AACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAAC
*
3791514 CTGGGAAACTGTAAGGCTTAC
65 CTGGGGAACTGTAAGGCTTAC
* * *
3791535 TCTTGCACACAGCAAAGGAACCT-GGGAAACTGTAAGGCTTACCCTTGCACACAACAAAGGAACC
1 CCTTGCACACAGCAAAGAAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACC
3791599 TGGGGGAAACTGTAAGGCTTAC
66 T-GGGG-AACTGTAAGGCTTAC
* * *
3791621 CCTTGCACACAGCAAAGAAACTTGGGGGAAACTGTAAGGCTTACCCTTGCATACAGCAAAGGGAC
1 CCTTGCACACAGCAAAGAAACCT-GGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAAC
3791686 CTGGGGAACTGTAAGGCTTAC
65 CTGGGGAACTGTAAGGCTTAC
3791707 CCTTGCACACAGCAAATG-AACCTG
1 CCTTGCACACAGCAAA-GAAACCTG
3791731 CTGTAACAAT
Statistics
Matches: 176, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
84 40 0.23
85 22 0.12
86 70 0.40
87 5 0.03
88 39 0.22
ACGTcount: A:0.33, C:0.25, G:0.25, T:0.18
Consensus pattern (85 bp):
CCTTGCACACAGCAAAGAAACCTGGGGAAACTGTAAGGCTTACCCTTGCACACAGCAAAGGAACC
TGGGGAACTGTAAGGCTTAC
Found at i:3798831 original size:20 final size:20
Alignment explanation
Indices: 3798803--3798851 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
3798793 AGAGATGTAC
* *
3798803 CGATACACTAGTCCATGCAT
1 CGATGCACTAGTCCATACAT
3798823 CGATGCACTAGTCCATACAT
1 CGATGCACTAGTCCATACAT
3798843 CGATGCACT
1 CGATGCACT
3798852 CTTAATTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (20 bp):
CGATGCACTAGTCCATACAT
Found at i:3799142 original size:20 final size:20
Alignment explanation
Indices: 3799117--3799160 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
3799107 TGTATCGATA
*
3799117 CACTAGTTCATGCATCAATG
1 CACTAGTCCATGCATCAATG
*
3799137 CACTAGTCCATGCATCGATG
1 CACTAGTCCATGCATCAATG
3799157 CACT
1 CACT
3799161 CTTAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.27
Consensus pattern (20 bp):
CACTAGTCCATGCATCAATG
Done.