Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_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: 1778368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 9
Found at i:845935 original size:27 final size:27
Alignment explanation
Indices: 845905--845957 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
845895 AAAAAACATA
* *
845905 TATCATATTATTTTTTTAAAAAATAAG
1 TATCATATTAATATTTTAAAAAATAAG
*
845932 TATCATATTAATATTTTACAAAATAA
1 TATCATATTAATATTTTAAAAAATAA
845958 ATATGCCAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (27 bp):
TATCATATTAATATTTTAAAAAATAAG
Found at i:846651 original size:2 final size:2
Alignment explanation
Indices: 846644--846692 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
846634 AAATACATAC
*
846644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
846686 AT A- AT AT
1 AT AT AT AT
846693 TAAAGAATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:851556 original size:6 final size:6
Alignment explanation
Indices: 851535--851580 Score: 74
Period size: 6 Copynumber: 7.7 Consensus size: 6
851525 TTTTGGTTCC
* *
851535 CTCCCA TTCTCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCC
1 CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCCCA CTCC
851581 ACTGCTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.15, C:0.63, G:0.00, T:0.22
Consensus pattern (6 bp):
CTCCCA
Found at i:854966 original size:19 final size:19
Alignment explanation
Indices: 854942--854978 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
854932 ATGACCAACA
*
854942 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
854961 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
854979 CAGTATCGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:855113 original size:20 final size:20
Alignment explanation
Indices: 855064--855130 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 20
855054 GAATATGTAA
855064 ATCGCAACGCGA-TCTGACT
1 ATCGCAACGCGATTCTGACT
*
855083 AT--CAACTCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
855101 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTGACT
*
855121 GTCGCAACGC
1 ATCGCAACGC
855131 TGAATTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
17 7 0.17
18 9 0.22
19 2 0.05
20 23 0.56
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:856000 original size:24 final size:24
Alignment explanation
Indices: 855943--856002 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
855933 TAGTCGGTAT
855943 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* * *
855967 CCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
*
855991 TCGAATTTTGAT
1 TCGAAATTTGAT
856003 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:856221 original size:14 final size:14
Alignment explanation
Indices: 856192--856228 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
856182 AGAAAAAGAA
856192 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
856207 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
856221 GAAGAAAA
1 GAAGAAAA
856229 TACCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:858288 original size:18 final size:18
Alignment explanation
Indices: 858265--858299 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
858255 AGAAAAAGGC
*
858265 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
858283 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
858300 TAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:858614 original size:140 final size:140
Alignment explanation
Indices: 858357--858639 Score: 530
Period size: 140 Copynumber: 2.0 Consensus size: 140
858347 GCAAACGTTG
858357 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
858422 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTAATTTGAATATCGCAACG
858487 CAAATTTGAC
131 CAAATTTGAC
*
858497 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTATGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
*
858562 TTGAACATTGCTATGATCTGTTCAGTTGTTATCACTTATTACACATTAATTTGAATATCGCAACG
66 TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTAATTTGAATATCGCAACG
*
858627 CGAATTTGAC
131 CAAATTTGAC
858637 TAT
1 TAT
858640 CGCAACGCGA
Statistics
Matches: 139, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 139 1.00
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.43
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGT
TTGAACATTGCTATGATCTATTCAGTTGTTATCACTTATTACACATTAATTTGAATATCGCAACG
CAAATTTGAC
Found at i:858634 original size:20 final size:20
Alignment explanation
Indices: 858609--858829 Score: 236
Period size: 20 Copynumber: 11.7 Consensus size: 20
858599 ATTACACATT
*
858609 AATTTGAATATCGCAACGCG
1 AATTTGACTATCGCAACGCG
858629 AATTTGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
858649 AATATT-ACTATCGCAACGC-
1 AAT-TTGACTATCGCAACGCG
*
858668 AA----A-AATCGCAACGCG
1 AATTTGACTATCGCAACGCG
858683 AATTTGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
858703 AATTTGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
* *
858723 ACTTTGACTATCGCAACGTG
1 AATTTGACTATCGCAACGCG
* *
858743 AATTTGATTATCGCAACGGG
1 AATTTGACTATCGCAACGCG
*
858763 AATTTGACTATCGCAACGAG
1 AATTTGACTATCGCAACGCG
*
858783 AA----A--ATCGCAAAGCG
1 AATTTGACTATCGCAACGCG
* *
858797 TATTAGACTATCGCAACGCG
1 AATTTGACTATCGCAACGCG
*
858817 AA-TTGACTTTCGC
1 AATTTGACTATCGC
858830 GTTGCGATTT
Statistics
Matches: 171, Mismatches: 17, Indels: 27
0.80 0.08 0.13
Matches are distributed among these distances:
14 20 0.12
15 3 0.02
16 1 0.01
18 1 0.01
19 12 0.07
20 132 0.77
21 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (20 bp):
AATTTGACTATCGCAACGCG
Found at i:858811 original size:114 final size:113
Alignment explanation
Indices: 858611--858829 Score: 325
Period size: 114 Copynumber: 1.9 Consensus size: 113
858601 TACACATTAA
858611 TTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATATTACTATCGCAACGCAAAAATCG
1 TTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATATTACTATCGCAACGCAAAAATCG
* *
858676 CAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGAC
66 CAAAGCGAATTAGACTATCGCAACGCGAA-TTGACTATCGCAACGCGAC
* * * *
858725 TTTGACTATCGCAACGTGAATTTGATTATCGCAACGGGAAT-TTGACTATCGCAACG-AGAAAAT
1 TTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATATT-ACTATCGCAACGCA-AAAAT
* *
858788 CGCAAAGCGTATTAGACTATCGCAACGCGAATTGACTTTCGC
64 CGCAAAGCGAATTAGACTATCGCAACGCGAATTGACTATCGC
858830 GTTGCGATTT
Statistics
Matches: 95, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
113 13 0.14
114 82 0.86
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (113 bp):
TTTGAATATCGCAACGCGAATTTGACTATCGCAACGCGAATATTACTATCGCAACGCAAAAATCG
CAAAGCGAATTAGACTATCGCAACGCGAATTGACTATCGCAACGCGAC
Found at i:858882 original size:20 final size:20
Alignment explanation
Indices: 858819--858896 Score: 102
Period size: 20 Copynumber: 3.9 Consensus size: 20
858809 GCAACGCGAA
*
858819 TTGACTTTCGCGTTGCGATT
1 TTGACTTTCGCATTGCGATT
*
858839 TTGGCTTTCGCATTGCGATT
1 TTGACTTTCGCATTGCGATT
*
858859 TTGACTTTCGCATTGTGATT
1 TTGACTTTCGCATTGCGATT
* * *
858879 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCATTGCGA
858897 AAGTGTACAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.13, C:0.17, G:0.26, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCATTGCGATT
Found at i:859012 original size:36 final size:36
Alignment explanation
Indices: 858971--859085 Score: 101
Period size: 36 Copynumber: 3.1 Consensus size: 36
858961 TTACATTTCA
*
858971 ATCAATTAAATAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
* * *
859007 ATCAATTAAACAA--ATAAACTTTTACA-AATCAACTTTTACAA
1 ATCAATTAAACAAGCACAAA----TA-AGAAT-TA--TTTACAC
859048 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
1 ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
859084 AT
1 AT
859086 TAATATTAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 22
0.68 0.08 0.24
Matches are distributed among these distances:
34 4 0.07
36 20 0.33
38 7 0.11
39 7 0.11
41 19 0.31
43 4 0.07
ACGTcount: A:0.52, C:0.16, G:0.03, T:0.29
Consensus pattern (36 bp):
ATCAATTAAACAAGCACAAATAAGAATTATTTACAC
Found at i:859050 original size:14 final size:14
Alignment explanation
Indices: 859016--859052 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
859006 CATCAATTAA
*
859016 ACAAATAAACTTTT
1 ACAAATCAACTTTT
859030 ACAAATCAACTTTT
1 ACAAATCAACTTTT
859044 ACAAATCAA
1 ACAAATCAA
859053 TTAAACAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:859080 original size:77 final size:79
Alignment explanation
Indices: 858949--859142 Score: 302
Period size: 79 Copynumber: 2.4 Consensus size: 79
858939 ATTGAAATCA
* *
858949 ACAAATCAACTTTTACATTTCAATCAATTAAATAAGCACAAATAAGAATTATTTACACA-TCA-A
1 ACAAATCAACTTTTACA----AATCAATTAAACAAGCACAAATAAGAATTATTTACACATTAATA
859012 TTAAACAAATAAACTTTT
62 TTAAACAAATAAACTTTT
859030 ACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATTAATATTAA
1 ACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATTAATATTAA
*
859095 ACAAATCAACTTTT
66 ACAAATAAACTTTT
*
859109 ACAAATCAATTTTTACAAATCAATTAAACAAGCA
1 ACAAATCAACTTTTACAAATCAATTAAACAAGCA
859143 AAAAATGCTA
Statistics
Matches: 107, Mismatches: 4, Indels: 6
0.91 0.03 0.05
Matches are distributed among these distances:
77 37 0.35
78 2 0.02
79 51 0.48
81 17 0.16
ACGTcount: A:0.51, C:0.16, G:0.03, T:0.30
Consensus pattern (79 bp):
ACAAATCAACTTTTACAAATCAATTAAACAAGCACAAATAAGAATTATTTACACATTAATATTAA
ACAAATAAACTTTT
Found at i:859132 original size:14 final size:14
Alignment explanation
Indices: 859095--859133 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
859085 TTAATATTAA
*
859095 ACAAATCAACTTTT
1 ACAAATCAATTTTT
859109 ACAAATCAATTTTT
1 ACAAATCAATTTTT
859123 ACAAATCAATT
1 ACAAATCAATT
859134 AAACAAGCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (14 bp):
ACAAATCAATTTTT
Found at i:861178 original size:20 final size:20
Alignment explanation
Indices: 861155--861209 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
861145 CGCAACGCAA
*
861155 AAATGACTATTGCAATGCGG
1 AAATGACTATCGCAATGCGG
861175 AAATGACTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
*
861194 AATTTGACTATCGCAA
1 AA-ATGACTATCGCAA
861210 CGGGATAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:861351 original size:20 final size:20
Alignment explanation
Indices: 861326--861394 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
861316 GCGATTATCC
*
861326 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAATTTCG
861346 CGTTGCGATAGTC-ATTTCCG
1 CGTTGCGATAGTCAATTT-CG
* *
861366 CGTTTCGATAGTCATTTTCG
1 CGTTGCGATAGTCAATTTCG
861386 CGTTGCGAT
1 CGTTGCGAT
861395 TTTTAAGTTT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.07
20 37 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTTCG
Found at i:863353 original size:20 final size:20
Alignment explanation
Indices: 863307--863347 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
863297 TCTGAAACTT
*
863307 AAAATTGCAACACAAAAATG
1 AAAATCGCAACACAAAAATG
*
863327 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACAAAAATG
863347 A
1 A
863348 TTATCGTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.59, C:0.17, G:0.12, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACACAAAAATG
Found at i:863415 original size:19 final size:19
Alignment explanation
Indices: 863383--863435 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
863373 GCAACGAGAT
*
863383 AATCGCAATGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
863402 AATCGCAACACGAAAATGAC
1 AATCGCAACGCG-AAATGAA
*
863422 TATCGCAACGCGAA
1 AATCGCAACGCGAA
863436 TTAAACTATC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.45, C:0.23, G:0.19, T:0.13
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:864043 original size:20 final size:20
Alignment explanation
Indices: 864018--864070 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
864008 ATTTTGTATT
864018 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
864038 ATCGCGTTGCGATAGTCAGA
1 ATCGCGTTGCGATAGTCAGA
*
864058 ATCGTGTTGCGAT
1 ATCGCGTTGCGAT
864071 TTACATATTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGA
Found at i:864199 original size:19 final size:19
Alignment explanation
Indices: 864175--864213 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
864165 TTTGTGATAC
* *
864175 TAGAGATCGCGTTGCTATT
1 TAGAGATCGCATTGCGATT
864194 TAGAGATCGCATTGCGATT
1 TAGAGATCGCATTGCGATT
864213 T
1 T
864214 TGTTGGTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.26, T:0.36
Consensus pattern (19 bp):
TAGAGATCGCATTGCGATT
Found at i:865753 original size:2 final size:2
Alignment explanation
Indices: 865746--865792 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
865736 ATCACTTAAT
* * *
865746 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT TA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
865788 TA TA T
1 TA TA T
865793 TTATTTATTT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:865793 original size:14 final size:14
Alignment explanation
Indices: 865759--865799 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
865749 ATATATATAT
* * *
865759 ATATATATATATAT
1 ATATATTTATTTAA
865773 ATATATTTATTTAA
1 ATATATTTATTTAA
865787 ATATATTTATTTA
1 ATATATTTATTTA
865800 TTTTTGACTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATATTTATTTAA
Found at i:867744 original size:36 final size:36
Alignment explanation
Indices: 867678--867855 Score: 223
Period size: 36 Copynumber: 5.0 Consensus size: 36
867668 AAAGATGAAC
* *
867678 ACTTGAATCGAAAGTG-CGATGCCTCATTCCGTTCA
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA
* * *
867713 ACATGAATCGAAAGTGCCGATGTTTCCTTCCGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA
* * * *
867749 ACTTGAATCGAAAGTGTCGATACTTCCTTCTGTTCG
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA
* *
867785 TCTTGAATCGAAAGTGTCGATGCTTCCTTCCGTTCA
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA
* * *
867821 ACTTGAATCGAAAATGCCGATGTTTCCTTTCGTTC
1 ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTC
867856 TTCTTATTCA
Statistics
Matches: 123, Mismatches: 19, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 15 0.12
36 108 0.88
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.34
Consensus pattern (36 bp):
ACTTGAATCGAAAGTGCCGATGCTTCCTTCCGTTCA
Found at i:870489 original size:18 final size:17
Alignment explanation
Indices: 870466--870508 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
870456 ATTAATTATC
870466 TTTGTAATAAATTTACAA
1 TTTGTAATAAATTT-CAA
* *
870484 TTTGTATTTAATTTCAA
1 TTTGTAATAAATTTCAA
*
870501 TTTCTAAT
1 TTTGTAAT
870509 CCCATAAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (17 bp):
TTTGTAATAAATTTCAA
Found at i:871864 original size:20 final size:20
Alignment explanation
Indices: 871820--871874 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 20
871810 AAAAACATCC
* * *
871820 TACCTAGAGGTTTTATAGAT
1 TACCCAGAGGTTTTACAAAT
*
871840 GACCCAGAGGTTTTACAAAT
1 TACCCAGAGGTTTTACAAAT
* *
871860 TACCCGGAGGATTTA
1 TACCCAGAGGTTTTA
871875 ATTTTCTAGA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (20 bp):
TACCCAGAGGTTTTACAAAT
Found at i:871993 original size:99 final size:99
Alignment explanation
Indices: 871841--872978 Score: 1553
Period size: 99 Copynumber: 11.3 Consensus size: 99
871831 TTTATAGATG
* * * *
871841 ACCCAGAGGTTTTACAAATTACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGA
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
871906 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * * * *
871940 ACCCTAAGGGTTTATAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
872005 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
*
872039 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
872104 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * *
872138 ACCCCGAGGTTTTACAGATGACCCAGAGGATTTAATTTTCTTGAACATTAAATGAGAAACTTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
** * *
872203 TTATTGCTTTCTCATTTTCATGCAAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
*
872237 ACCCTGAGGTTTTACAGATGACTCGGAGGATTTAATTTTCTTA-AACATTAAATGAGAAACTTTG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTC-TAGAACATTAAATGAGAAACTTTG
** * * *
872301 GTTATTGCTTTCTCATTTTCATGCGAAAAAATTCT
65 GAAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * * * *
872336 ACCCTAAGGTTTTACAGATGGCCCAGAGGATTTAATTTTCTTGAACATTAAATAAGAAACTTT-G
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
**
872400 ATAATCATTTTCTCATTTTCATGCGAAAACATCCT
66 A-AATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * *
872435 ACCCTGAGGCTTTACAGATGACCCTGATGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
*
872500 TAATCGCTTTCTCATTTTCATGCGAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* *
872534 ACCTTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
872599 AAATCGCTTTCTCATTTTTCATGCGAAAACATCCT
66 AAATCGCTTTCTCA-TTTTCATGCGAAAACATCCT
* *
872634 ACCCAGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAAATTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
**
872699 AAATCTTTTTCTCATTTTCATGCGAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
** * ***
872733 ACCCTGAGGTTTTACAGATGACCCTAAGGCTTTATAGATGACCCTGAGGATTTA-ATTTCTAGAA
1 ACCCTGAGGTTTTACAGATGACCCGGAGG-ATT-TA-AT-TTTCT-A-GA---ACA--T-T---A
* *
872797 CATTAAATGAGAAACTTTGGTAATCGATTTCTCATTTTCATGCGAAAACATCCT
51 -----AATGAGAAACTTTGGAAATCGCTTTCTCATTTTCATGCGAAAACATCCT
*
872851 ACCCTGAGGTTTTACAGATAACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
* * *
872916 AAATTGCTTTCTCATTTTCATACAAAAACATCCT
66 AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
* * *
872950 ACCCTAAGGTTTTACAGATAACCCAGAGG
1 ACCCTGAGGTTTTACAGATGACCCGGAGG
872979 TTCTACAAAT
Statistics
Matches: 923, Mismatches: 90, Indels: 52
0.87 0.08 0.05
Matches are distributed among these distances:
98 2 0.00
99 723 0.78
100 97 0.11
101 2 0.00
102 2 0.00
103 2 0.00
104 2 0.00
105 2 0.00
107 2 0.00
108 2 0.00
109 2 0.00
110 2 0.00
112 2 0.00
113 2 0.00
114 2 0.00
115 2 0.00
116 2 0.00
117 2 0.00
118 71 0.08
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (99 bp):
ACCCTGAGGTTTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAACTTTGG
AAATCGCTTTCTCATTTTCATGCGAAAACATCCT
Found at i:872786 original size:20 final size:20
Alignment explanation
Indices: 872733--872786 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
872723 AAAACATCCT
*
872733 ACCCTGAGGTTTTACAGATG
1 ACCCTGAGGATTTACAGATG
* * *
872753 ACCCTAAGGCTTTATAGATG
1 ACCCTGAGGATTTACAGATG
872773 ACCCTGAGGATTTA
1 ACCCTGAGGATTTA
872787 ATTTCTAGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (20 bp):
ACCCTGAGGATTTACAGATG
Found at i:872858 original size:118 final size:119
Alignment explanation
Indices: 872644--872874 Score: 392
Period size: 118 Copynumber: 1.9 Consensus size: 119
872634 ACCCAGAGGT
**
872644 TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAAATTTGGAAATCTTTTT
1 TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAAATTTGGAAATCGATTT
*
872709 CTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATGACCCTAAGGC
66 CTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATAACCCTAAGGC
* * * *
872763 TTTATAGATGACCCTGAGGATTTAA-TTTCTAGAACATTAAATGAGAAACTTTGGTAATCGATTT
1 TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAAATTTGGAAATCGATTT
872827 CTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATAACCC
66 CTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATAACCC
872875 GGAGGATTTA
Statistics
Matches: 105, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
118 82 0.78
119 23 0.22
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (119 bp):
TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATGAGAAAATTTGGAAATCGATTT
CTCATTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATAACCCTAAGGC
Found at i:872929 original size:217 final size:219
Alignment explanation
Indices: 872544--872973 Score: 713
Period size: 217 Copynumber: 2.0 Consensus size: 219
872534 ACCTTGAGGT
*
872544 TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGGAAATCGCTTT
1 TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGGAAATCGATTT
*
872609 CTCATTTTTCATGCGAAAACATCCTACCCAGAGGTTTTACAGATGACCCGGAGGATTTAATTTTC
66 CTCATTTTTCATGCGAAAACATCCTACCCAGAGGTTTTACAGATAACCCGGAGGATTTAATTTTC
* * * *
872674 TAGAACATTAAATGAGAAAATTTGGAAATCTTTTTCTCATTTTCATGCGAAAACATCCTACCCTG
131 TAGAACATTAAATGAGAAAATTTGGAAATCTCTTTCTCATTTTCATACAAAAACATCCTACCCTA
*
872739 AGGTTTTACAGATGACCCTAAGGC
196 AGGTTTTACAGATAACCCTAAGGC
* * * *
872763 TTTATAGATGACCCTGAGGATTTAA-TTTCTAGAACATTAAATGAGAAACTTTGGTAATCGATTT
1 TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGGAAATCGATTT
*
872827 CTCA-TTTTCATGCGAAAACATCCTACCCTGAGGTTTTACAGATAACCCGGAGGATTTAATTTTC
66 CTCATTTTTCATGCGAAAACATCCTACCCAGAGGTTTTACAGATAACCCGGAGGATTTAATTTTC
*
872891 TAGAACATTAAATGAGAAACTTTGGAAAT-TGCTTTCTCATTTTCATACAAAAACATCCTACCCT
131 TAGAACATTAAATGAGAAAATTTGGAAATCT-CTTTCTCATTTTCATACAAAAACATCCTACCCT
872955 AAGGTTTTACAGATAACCC
195 AAGGTTTTACAGATAACCC
872974 AGAGGTTCTA
Statistics
Matches: 197, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
216 1 0.01
217 133 0.68
218 40 0.20
219 23 0.12
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (219 bp):
TTTACAGATGACCCGGAGGATTTAATTTTCTAGAACATTAAATAAGAAACTTTGGAAATCGATTT
CTCATTTTTCATGCGAAAACATCCTACCCAGAGGTTTTACAGATAACCCGGAGGATTTAATTTTC
TAGAACATTAAATGAGAAAATTTGGAAATCTCTTTCTCATTTTCATACAAAAACATCCTACCCTA
AGGTTTTACAGATAACCCTAAGGC
Found at i:876133 original size:10 final size:10
Alignment explanation
Indices: 876120--876189 Score: 70
Period size: 10 Copynumber: 6.7 Consensus size: 10
876110 TTCTTCTTCA
876120 TTTTTCTCTT
1 TTTTTCTCTT
*
876130 TTTTTTTCTTT
1 TTTTTCTC-TT
*
876141 TTTTTTTCATT
1 TTTTTCTC-TT
876152 TTTTTCAT-TT
1 TTTTTC-TCTT
*
876162 TTTTTCTTTT
1 TTTTTCTCTT
876172 TTTTTCTCTT
1 TTTTTCTCTT
876182 TTTCTTCT
1 TTT-TTCT
876190 GATGGATGAG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
9 1 0.02
10 29 0.56
11 21 0.40
12 1 0.02
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:876150 original size:30 final size:30
Alignment explanation
Indices: 876106--876186 Score: 110
Period size: 30 Copynumber: 2.7 Consensus size: 30
876096 TGATTCAATA
* * *
876106 TCTTTTCTTCTTCATTTTTCTCTTTTTTTT
1 TCTTTTTTTTTTCATTTTTCTCATTTTTTT
*
876136 TCTTTTTTTTTTCATTTTTTTCATTTTTTT
1 TCTTTTTTTTTTCATTTTTCTCATTTTTTT
876166 TCTTTTTTTTTCTC-TTTTTCT
1 TCTTTTTTTTT-TCATTTTTCT
876187 TCTGATGGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
30 43 0.96
31 2 0.04
ACGTcount: A:0.04, C:0.16, G:0.00, T:0.80
Consensus pattern (30 bp):
TCTTTTTTTTTTCATTTTTCTCATTTTTTT
Found at i:883017 original size:3 final size:3
Alignment explanation
Indices: 883009--883048 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
882999 CTCTGTTTTG
**
883009 TAA TAA TAA TAA TAA TAA TTG TAA T-A TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
883049 TATAGTCTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:883154 original size:51 final size:50
Alignment explanation
Indices: 883091--883256 Score: 226
Period size: 51 Copynumber: 3.3 Consensus size: 50
883081 AAGTAGTGAT
* * *
883091 CAAAATGCATAAAATAAAAGAATAGTAGATAAATTAGAAATAAACATGGAC
1 CAAAATGCATAAAATAAAAGAACAGTAGCTAAATCAGAAATAAAC-TGGAC
* * *
883142 TAAAATGCATAAAATAAAAGAACAGTAGCTAAATCAAAAATAAACGGTGAC
1 CAAAATGCATAAAATAAAAGAACAGTAGCTAAATCAGAAATAAACTG-GAC
*
883193 CAAAATGCATAAAATAAAATAACAGTAGCTAAATCAGAAATAAA-TGTTGAC
1 CAAAATGCATAAAATAAAAGAACAGTAGCTAAATCAGAAATAAACTG--GAC
883244 CAAAATGCATAAA
1 CAAAATGCATAAA
883257 TTGAAAGTAT
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
50 2 0.02
51 101 0.98
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (50 bp):
CAAAATGCATAAAATAAAAGAACAGTAGCTAAATCAGAAATAAACTGGAC
Found at i:883173 original size:29 final size:28
Alignment explanation
Indices: 883141--883225 Score: 76
Period size: 29 Copynumber: 3.2 Consensus size: 28
883131 TAAACATGGA
883141 CTAAAATGCATAAAATAAAAGAACAGTAG
1 CTAAAATGCATAAAATAAAA-AACAGTAG
*
883170 CT-AAAT-CA-AAAAT---AAACGGT-G
1 CTAAAATGCATAAAATAAAAAACAGTAG
*
883191 ACCAAAATGCATAAAATAAAATAACAGTAG
1 -CTAAAATGCATAAAATAAAA-AACAGTAG
883221 CTAAA
1 CTAAA
883226 TCAGAAATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
21 1 0.02
22 6 0.14
23 5 0.12
24 2 0.05
25 5 0.12
26 5 0.12
27 2 0.05
28 5 0.12
29 11 0.26
30 1 0.02
ACGTcount: A:0.58, C:0.13, G:0.12, T:0.18
Consensus pattern (28 bp):
CTAAAATGCATAAAATAAAAAACAGTAG
Found at i:883734 original size:18 final size:18
Alignment explanation
Indices: 883711--883746 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
883701 TATTTGTAAT
* *
883711 TACATTTTATTAATTAAA
1 TACATTTAATGAATTAAA
883729 TACATTTAATGAATTAAA
1 TACATTTAATGAATTAAA
883747 ATTTGTTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (18 bp):
TACATTTAATGAATTAAA
Found at i:895019 original size:2 final size:2
Alignment explanation
Indices: 895012--895039 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
895002 ACATTTGATG
895012 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
895040 AAAGTACCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:895754 original size:21 final size:21
Alignment explanation
Indices: 895703--895755 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
895693 ATTATGACTA
895703 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
895724 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
*
895745 TCGTAATGCGA
1 TCGCAATGCGA
895756 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:895774 original size:20 final size:20
Alignment explanation
Indices: 895749--895837 Score: 97
Period size: 21 Copynumber: 4.3 Consensus size: 20
895739 CCCAATTCGT
* *
895749 AATGCGAATAAGTAAATCGC
1 AATGCGAATTAGAAAATCGC
* *
895769 AATGCGAATTTGGAAATCGC
1 AATGCGAATTAGAAAATCGC
*
895789 AATGCGAATTTGGAAAATCGC
1 AATGCGAA-TTAGAAAATCGC
*
895810 AATGCGAATTTGGAAAATCGC
1 AATGCGAA-TTAGAAAATCGC
*
895831 AACGCGA
1 AATGCGA
895838 TACTGACTTT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
20 25 0.40
21 37 0.60
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (20 bp):
AATGCGAATTAGAAAATCGC
Found at i:895808 original size:21 final size:21
Alignment explanation
Indices: 895762--895837 Score: 136
Period size: 21 Copynumber: 3.7 Consensus size: 21
895752 GCGAATAAGT
895762 AAATCGCAATGCGAATTTGG-
1 AAATCGCAATGCGAATTTGGA
895782 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
895803 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
*
895824 AAATCGCAACGCGA
1 AAATCGCAATGCGA
895838 TACTGACTTT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
20 20 0.37
21 34 0.63
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (21 bp):
AAATCGCAATGCGAATTTGGA
Found at i:895851 original size:41 final size:41
Alignment explanation
Indices: 895765--895894 Score: 108
Period size: 41 Copynumber: 3.2 Consensus size: 41
895755 AATAAGTAAA
* * ***
895765 TCGCAATGCGAATTTGG-AAATCGCAATGCGA-ATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAATCGCAACGCGATA-CT-GACTT
895806 TCGCAATGCGAATTTGGAAAATCGCAACGCGATACTGACTT
1 TCGCAATGCGAATTTGGAAAATCGCAACGCGATACTGACTT
* ***
895847 TCGCAACT-CGATACTT--ACTTTCGCAACGCGATACTGACTT
1 TCGCAA-TGCGA-ATTTGGAAAATCGCAACGCGATACTGACTT
895887 TCGCAATG
1 TCGCAATG
895895 AGATAATACA
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
39 1 0.01
40 27 0.36
41 28 0.37
42 18 0.24
43 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (41 bp):
TCGCAATGCGAATTTGGAAAATCGCAACGCGATACTGACTT
Found at i:895852 original size:20 final size:20
Alignment explanation
Indices: 895827--895892 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
895817 ATTTGGAAAA
895827 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
* *
895847 TCGCAACTCGATACTTACTT
1 TCGCAACGCGATACTGACTT
895867 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTT
895887 TCGCAA
1 TCGCAA
895893 TGAGATAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:896441 original size:20 final size:20
Alignment explanation
Indices: 896392--896450 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
896382 TTTATTCTCT
* **
896392 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATTGTCATTTTCG
896412 CGTTGCGATTGTCATTTTCG
1 CGTTGCGATTGTCATTTTCG
* *
896432 TGTTGCGATTTTCATTTTC
1 CGTTGCGATTGTCATTTTC
896451 AGAAACTATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.15, C:0.19, G:0.22, T:0.44
Consensus pattern (20 bp):
CGTTGCGATTGTCATTTTCG
Found at i:896641 original size:25 final size:24
Alignment explanation
Indices: 896587--896641 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
896577 TGTTTATTAT
* *
896587 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
896611 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
896637 TGTTT
1 TGTTT
896642 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:897791 original size:18 final size:18
Alignment explanation
Indices: 897770--897817 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
897760 TCCACTTCGG
897770 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
897788 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
897806 GAGCCATTACCT
1 GAGCCATCACCT
897818 GATCGACTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.27, C:0.44, G:0.12, T:0.17
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:898406 original size:19 final size:20
Alignment explanation
Indices: 898352--898418 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
898342 TAGTTTACTT
* *
898352 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
898372 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
898392 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
898411 TCGCAACG
1 TCGCAACG
898419 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:898466 original size:19 final size:19
Alignment explanation
Indices: 898444--898507 Score: 75
Period size: 19 Copynumber: 3.6 Consensus size: 19
898434 GAAACACAAA
898444 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
898463 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
898479 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
898496 TCGCATTGCGAT
1 TCGCATTGCGAT
898508 AGCCATTTCC
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 6 0.16
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 17 0.46
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:898526 original size:20 final size:19
Alignment explanation
Indices: 898492--898546 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 19
898482 TTGCGATTTT
*
898492 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
898511 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
898531 CATTTTCGCGTTGCGA
1 CA-TTTCGCGTTGCGA
898547 AAGTAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 24 0.75
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:898557 original size:20 final size:20
Alignment explanation
Indices: 898517--898572 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
898507 TAGCCATTTC
* * *
898517 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
898537 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
* *
898557 CGTGTTGAGAAAGTAA
1 CGCGTTGCGAAAGTAA
898573 ACTATTCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.14, G:0.29, T:0.32
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:898946 original size:21 final size:21
Alignment explanation
Indices: 898916--898974 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
898906 CTCACCTGTC
*
898916 ATCCTTCAAGAGTCCCCTCTA
1 ATCCTTCAAGAGTCCCCTATA
* * *
898937 ATCGTTCAAGAGGCCCCTATC
1 ATCCTTCAAGAGTCCCCTATA
*
898958 ATCCCTCAAGAGTCCCC
1 ATCCTTCAAGAGTCCCC
898975 CCCCCCACCG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.39, G:0.14, T:0.24
Consensus pattern (21 bp):
ATCCTTCAAGAGTCCCCTATA
Found at i:900611 original size:40 final size:40
Alignment explanation
Indices: 900556--900633 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
900546 GCAAAACAGA
*
900556 CTATCGCAACACGAAACTGACTATCGCAACGAGAAAATGG
1 CTATCGCAACACGAAAATGACTATCGCAACGAGAAAATGG
*
900596 CTATCGCAACGCGAAAATGACTATCGCAACGAGAAAAT
1 CTATCGCAACACGAAAATGACTATCGCAACGAGAAAAT
900634 CGCAATGTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.41, C:0.24, G:0.19, T:0.15
Consensus pattern (40 bp):
CTATCGCAACACGAAAATGACTATCGCAACGAGAAAATGG
Found at i:900626 original size:20 final size:20
Alignment explanation
Indices: 900554--900633 Score: 117
Period size: 20 Copynumber: 4.0 Consensus size: 20
900544 AGGCAAAACA
*
900554 GACTATCGCAAC-ACGAAACT
1 GACTATCGCAACGA-GAAAAT
900574 GACTATCGCAACGAGAAAAT
1 GACTATCGCAACGAGAAAAT
* *
900594 GGCTATCGCAACGCGAAAAT
1 GACTATCGCAACGAGAAAAT
900614 GACTATCGCAACGAGAAAAT
1 GACTATCGCAACGAGAAAAT
900634 CGCAATGTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
20 53 0.98
21 1 0.02
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (20 bp):
GACTATCGCAACGAGAAAAT
Found at i:900687 original size:20 final size:20
Alignment explanation
Indices: 900662--900717 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
900652 TCGCATTGCG
*
900662 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
900682 ATTTTCGCGTTGCGATAGTC
1 ATTTTCGCGTTGCGATAGCC
900702 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
900718 TTCCCCGTTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:900956 original size:20 final size:20
Alignment explanation
Indices: 900940--901016 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
900930 ATTGCGATTT
*
900940 TCAGAATCTCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
900960 TCAGAATCGCGTTGCGAAAG
1 TCAGAATCGCGTTGCGAAAG
*
900980 TCAGAATCGCGTTGCAAAAG
1 TCAGAATCGCGTTGCGAAAG
*
901000 TCAGTATCGCGTTGCGA
1 TCAGAATCGCGTTGCGA
901017 TTTTGTATTA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (20 bp):
TCAGAATCGCGTTGCGAAAG
Found at i:901058 original size:20 final size:20
Alignment explanation
Indices: 900949--901057 Score: 121
Period size: 20 Copynumber: 5.4 Consensus size: 20
900939 TTCAGAATCT
*
900949 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
900969 CGTTGCGAAAGTCAGAATCG
1 CGTTGCGAAAGTCAGTATCG
*
900989 CGTTGCAAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
** *
901009 CGTTGCGATTTTGT-ATTATCG
1 CGTTGCGA--AAGTCAGTATCG
*
901030 CGTTGCGATAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
901050 CATTGCGA
1 CGTTGCGA
901058 TTTACTTATT
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
19 3 0.04
20 58 0.75
21 14 0.18
22 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:901070 original size:20 final size:20
Alignment explanation
Indices: 901047--901097 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
901037 ATAGTCAGTA
901047 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
901067 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
901087 TCGCATTGCGA
1 TCGCATTGCGA
901098 ATTGGGAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:901160 original size:21 final size:21
Alignment explanation
Indices: 901104--901154 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
901094 GCGAATTGGG
901104 AAAATCGCAACGCGAAATTGT
1 AAAATCGCAACGCGAAATTGT
901125 AAAATCGCAACGCGAAATTGT
1 AAAATCGCAACGCGAAATTGT
901146 AAAATCGCA
1 AAAATCGCA
901155 TTGCGATAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.20, G:0.18, T:0.18
Consensus pattern (21 bp):
AAAATCGCAACGCGAAATTGT
Found at i:906239 original size:85 final size:84
Alignment explanation
Indices: 906084--906249 Score: 226
Period size: 85 Copynumber: 2.0 Consensus size: 84
906074 ATAAACTCTC
* * *
906084 TGACACACAATGTGTGTCATCTTCATTTATGGCGGGGGCTTCAATGACACGCAATCTAAGTCATA
1 TGACACACAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACACGCAATCGAAGTCATA
* **
906149 CATGCGTTTCATAAATTTA
66 AATGCGCGTCATAAATTTA
* * *
906168 TGACACACAAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACGCTCAAT-GAACGTTA
1 TGACACAC-AATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACACGCAATCGAA-GTCA
906232 TAAATGCGCGTCATAAAT
64 TAAATGCGCGTCATAAAT
906250 GTGTATCATA
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 10 0.14
85 61 0.86
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (84 bp):
TGACACACAATGTGTGTCATCTTAATTTATGACGGGGGCTTCAATGACACGCAATCGAAGTCATA
AATGCGCGTCATAAATTTA
Found at i:906258 original size:13 final size:13
Alignment explanation
Indices: 906242--906266 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
906232 TAAATGCGCG
906242 TCATAAATGTGTA
1 TCATAAATGTGTA
906255 TCATAAATGTGT
1 TCATAAATGTGT
906267 CATAGATTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (13 bp):
TCATAAATGTGTA
Found at i:906891 original size:20 final size:21
Alignment explanation
Indices: 906848--906906 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
906838 ATCCATTTTC
* * *
906848 AAAAGGATCGATTCCTCGG-G
1 AAAATGATCGATCCCTTGGAG
*
906868 AGAAATGATTGATCCCTTGGAG
1 A-AAATGATCGATCCCTTGGAG
906890 AAAATGATCGATCCCTT
1 AAAATGATCGATCCCTT
906907 CTCTGTTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 1 0.03
21 29 0.91
22 2 0.06
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.25
Consensus pattern (21 bp):
AAAATGATCGATCCCTTGGAG
Found at i:918960 original size:14 final size:14
Alignment explanation
Indices: 918926--918967 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
918916 CTAGTATTAT
*
918926 TTAATATAAATTTAA
1 TTAATATAAATAT-A
918941 TT-ATATAAATATA
1 TTAATATAAATATA
*
918954 TTAATATTAATATA
1 TTAATATAAATATA
918968 AACTATGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 3 0.12
14 19 0.79
15 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TTAATATAAATATA
Found at i:921696 original size:27 final size:28
Alignment explanation
Indices: 921640--921715 Score: 136
Period size: 28 Copynumber: 2.8 Consensus size: 28
921630 AAAGATTATT
921640 AAAATGTTAAAAGAAGATTATTATTAAA
1 AAAATGTTAAAAGAAGATTATTATTAAA
921668 AAAATGTTAAAAGAAGATTATTATT-AA
1 AAAATGTTAAAAGAAGATTATTATTAAA
*
921695 AAAATGTTAAAAGAATATTAT
1 AAAATGTTAAAAGAAGATTAT
921716 GAAAAATAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
27 22 0.47
28 25 0.53
ACGTcount: A:0.57, C:0.00, G:0.11, T:0.33
Consensus pattern (28 bp):
AAAATGTTAAAAGAAGATTATTATTAAA
Found at i:923264 original size:17 final size:17
Alignment explanation
Indices: 923239--923300 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 17
923229 AAATCTATAT
*
923239 TTTATAAAATTTAATTA
1 TTTAAAAAATTTAATTA
* *
923256 TTTAAAAAATATAAATAAA
1 TTTAAAAAAT-TTAAT-TA
*
923275 CTTAAAAAATTTAATT-
1 TTTAAAAAATTTAATTA
*
923291 TTAAAAAAAT
1 TTTAAAAAAT
923301 AATATTAAAC
Statistics
Matches: 35, Mismatches: 8, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
16 8 0.23
17 9 0.26
18 8 0.23
19 10 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAAAAAATTTAATTA
Found at i:935875 original size:20 final size:19
Alignment explanation
Indices: 935833--935875 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
935823 AATTTAATCG
* * *
935833 AATATATAATTTCAAATTG
1 AATATAAAATTTAAAATTC
935852 AATATAAAATCTTAAAATTC
1 AATATAAAAT-TTAAAATTC
935872 AATA
1 AATA
935876 ATATTTTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
AATATAAAATTTAAAATTC
Found at i:939078 original size:86 final size:86
Alignment explanation
Indices: 938982--939141 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 86
938972 TATGAATATC
* * *
938982 TATAAAAAAATTTGACTACGCCCAATAATGTTACGACTCACTAAGAAAGTATGTTGCGATATGGA
1 TATAAAAAAATATGACTACGCCCAATAATGTCACGACTCACTAAGAAAGTATGTTGCAATATGGA
939047 ATATTAATATTAATATTTTGT
66 ATATTAATATTAATATTTTGT
** * * ** * * * *
939068 TATAAAAAAATATGGTTGCGCCCAATAATGTCATGGTTTATTAAGAAAGTATGTTGCAATGTGTA
1 TATAAAAAAATATGACTACGCCCAATAATGTCACGACTCACTAAGAAAGTATGTTGCAATATGGA
939133 ATATTAATA
66 ATATTAATA
939142 ATTTTATTAA
Statistics
Matches: 61, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 61 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (86 bp):
TATAAAAAAATATGACTACGCCCAATAATGTCACGACTCACTAAGAAAGTATGTTGCAATATGGA
ATATTAATATTAATATTTTGT
Found at i:939703 original size:188 final size:187
Alignment explanation
Indices: 939075--939739 Score: 725
Period size: 187 Copynumber: 3.6 Consensus size: 187
939065 TGTTATAAAA
* * * * *
939075 AAATATGGTTGCGCCCAATAATGTCATGGTTTATTAAGAAAGTATGTTG-CA-ATGTGTAATATT
1 AAATATGGTTGAGCCCAAGAATGTCATGGTTCACTAAGAAAGTATGTTGTGATAT-TG-AATATT
* * * * * * * *
939138 AATAATTTTATTAATAAAATAGGTTGTGCTTAAAATGTTACCAGAGTTTAAGCTAATGGAGCCTT
64 AATATTTTTATTAATAAAATAGGTTGCGCCTAAAATATTATCAGAGTTTAAGTTGATGAAGCCTT
* ** * *
939203 ATACATTCTCACGATAACAAAATAAGTTAATAGCTGAAAATGTTAT-ACATATCTATAAA
129 AGATTTTCTCACGATAACAAAATAAGTTAAAAGCTGAAAATGTTATGA-ATATCTATAAT
* *
939262 AAATATGGTTGCA-CCTAAGAATGTCATGGTTCACTAAGAAAGTATGTTGTGATATAGAATATTA
1 AAATATGGTTG-AGCCCAAGAATGTCATGGTTCACTAAGAAAGTATGTTGTGATATTGAATATTA
* * * *
939326 ATATTTTTGTTAATAAAATGGGTTGCGCCTAAAATGTTATCAAAGTTTAAGTTGAT-AGAGCCTT
65 ATATTTTTATTAATAAAATAGGTTGCGCCTAAAATATTATCAGAGTTTAAGTTGATGA-AGCCTT
* * * ***
939390 AGGTTTTCTTACGATAATAAAATAAGTTAAATTTTGAAAATGTTATGAATATCTATAAT
129 AGATTTTCTCACGATAACAAAATAAGTTAAAAGCTGAAAATGTTATGAATATCTATAAT
* * * * *** * **
939449 AAATATGGTTGAGCCCAAGAATATTATGATTCACTAAGAAAGTAGGTTACAAT-TTGGGACGTTA
1 AAATATGGTTGAGCCCAAGAATGTCATGGTTCACTAAGAAAGTATGTTGTGATATT-GAATATTA
* *
939513 ATATTTTTATTAATAAAATAGGTTGTGCCTAAAATATTATCAGAGTTTAAGTTGATGAAACCTTA
65 ATATTTTTATTAATAAAATAGGTTGCGCCTAAAATATTATCAGAGTTTAAGTTGATGAAGCCTTA
* * *
939578 GATTTTCGCATGATAACAAAAATAAGTTAAAAGCT-AAAATATCTATGAATATCTATAAT
130 GATTTTCTCACGATAAC-AAAATAAGTTAAAAGCTGAAAATGT-TATGAATATCTATAAT
* * * * * * *
939637 AATTACGATTGTGCCCAAGAATGTCATGGTTCACTAAGAAATTAAGTTGTGATATTGAATGTTAA
1 AAATATGGTTGAGCCCAAGAATGTCATGGTTCACTAAGAAAGTATGTTGTGATATTGAATATTAA
939702 TATTTTTATTAATAAAAT-GTGTTGCGCCTAAAATATTA
66 TATTTTTATTAATAAAATAG-GTTGCGCCTAAAATATTA
939740 CTTTAACTTC
Statistics
Matches: 396, Mismatches: 70, Indels: 23
0.81 0.14 0.05
Matches are distributed among these distances:
186 2 0.01
187 273 0.69
188 117 0.30
189 4 0.01
ACGTcount: A:0.39, C:0.09, G:0.16, T:0.36
Consensus pattern (187 bp):
AAATATGGTTGAGCCCAAGAATGTCATGGTTCACTAAGAAAGTATGTTGTGATATTGAATATTAA
TATTTTTATTAATAAAATAGGTTGCGCCTAAAATATTATCAGAGTTTAAGTTGATGAAGCCTTAG
ATTTTCTCACGATAACAAAATAAGTTAAAAGCTGAAAATGTTATGAATATCTATAAT
Found at i:940043 original size:73 final size:74
Alignment explanation
Indices: 939895--940120 Score: 237
Period size: 73 Copynumber: 3.1 Consensus size: 74
939885 TCAAAATTTT
* * ***
939895 AAATATCGATACTTAATAT-ATGATAATCAATACTTTTAAATATTGAAAAATTTGA-AGATGGGA
1 AAATATCGATACTT-ATATGATGATGATCAATACTTTTAAATATTGAAAAAGTTGATAGAAAAGA
939958 TCGAAAGTTA
65 TCGAAAGTTA
* * * *
939968 AAATATTGATACTTATATGATAATGATCGATACTTTTAAATATTGAAAAAGTTGATA-AAAATAT
1 AAATATCGATACTTATATGATGATGATCAATACTTTTAAATATTGAAAAAGTTGATAGAAAAGAT
*
940032 TGAAA-TCTA
66 CGAAAGT-TA
** * * *
940041 AAATATCGATACTTATGCGATGATGACCAATACTTTTATATATTGAAAAAGTTGAT-GAAGATGA
1 AAATATCGATACTTATATGATGATGATCAATACTTTTAAATATTGAAAAAGTTGATAGAA-AAGA
* *
940105 TCTACAGTTA
65 TCGAAAGTTA
940115 AAATAT
1 AAATAT
940121 ATATACATAT
Statistics
Matches: 125, Mismatches: 22, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
72 5 0.04
73 105 0.84
74 14 0.11
75 1 0.01
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (74 bp):
AAATATCGATACTTATATGATGATGATCAATACTTTTAAATATTGAAAAAGTTGATAGAAAAGAT
CGAAAGTTA
Found at i:942987 original size:15 final size:16
Alignment explanation
Indices: 942957--942989 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
942947 ATAACGATTA
942957 TAAGATAATATTTAAT
1 TAAGATAATATTTAAT
*
942973 TAAGAT-ATTTTTAAT
1 TAAGATAATATTTAAT
942988 TA
1 TA
942990 TTTAATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (16 bp):
TAAGATAATATTTAAT
Found at i:944311 original size:60 final size:60
Alignment explanation
Indices: 944193--944313 Score: 156
Period size: 60 Copynumber: 2.0 Consensus size: 60
944183 CAATTTTATG
** * * *
944193 CTCAAACAATGACTTTCATTCTAAATTAGTTCTTAAACTTTTGAACATTTTAATTTCACC
1 CTCAAACAATGACCCTCATTCTAAATTAGTTCTCAAACTTTTGAACATTTCAAATTCACC
*
944253 CTCAAACTATGACCCTCATTCTAAATTAGTT-TCCAAACTTTTGAATC-TTTCAAATTCACC
1 CTCAAACAATGACCCTCATTCTAAATTAGTTCT-CAAACTTTTGAA-CATTTCAAATTCACC
944313 C
1 C
944314 CAAGTCATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
59 1 0.02
60 51 0.96
61 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (60 bp):
CTCAAACAATGACCCTCATTCTAAATTAGTTCTCAAACTTTTGAACATTTCAAATTCACC
Found at i:944562 original size:60 final size:59
Alignment explanation
Indices: 944433--944567 Score: 148
Period size: 59 Copynumber: 2.3 Consensus size: 59
944423 ATTAGTATAT
* * * * * *
944433 AAAT-ATAGTTTGGGATGAAATTGAAATGTTTAAAATGTTCGAGGACTAATTTAAAATG
1 AAATCATAGTTTGGGATGAAAATAAAATGATGAAAAAGTTCGAGGACTAATTTAAAATA
* * * *
944491 AAGTTATAGTTTGAGGATGAAAATAAAAT-ATGAAAAAGTTTGAGGACTAATTTAGAATA
1 AAATCATAGTTTG-GGATGAAAATAAAATGATGAAAAAGTTCGAGGACTAATTTAAAATA
944550 ATAATCATAGTTTGGGAT
1 A-AATCATAGTTTGGGAT
944568 ACAATTGGAA
Statistics
Matches: 63, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
58 3 0.05
59 37 0.59
60 23 0.37
ACGTcount: A:0.43, C:0.03, G:0.21, T:0.33
Consensus pattern (59 bp):
AAATCATAGTTTGGGATGAAAATAAAATGATGAAAAAGTTCGAGGACTAATTTAAAATA
Found at i:958351 original size:2 final size:2
Alignment explanation
Indices: 958346--958458 Score: 165
Period size: 2 Copynumber: 57.0 Consensus size: 2
958336 CCAAAGGGGG
* * *
958346 GA GA GA GA AA GA GA GA GA GA GA AA GA AA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
958388 GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA GA -A GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
958429 GA GC GA GA AA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
958459 AGCGAATAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
1 1 0.01
2 97 0.99
ACGTcount: A:0.54, C:0.01, G:0.45, T:0.00
Consensus pattern (2 bp):
GA
Found at i:962837 original size:36 final size:36
Alignment explanation
Indices: 962785--962856 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
962775 TCCAACACCG
962785 GGTTCTTCCAACAGCATTAACAATCTCCTCTTGCCA
1 GGTTCTTCCAACAGCATTAACAATCTCCTCTTGCCA
* *
962821 GGTTCTTCCAATAGCATTAACAATCTTCTCTTGCCA
1 GGTTCTTCCAACAGCATTAACAATCTCCTCTTGCCA
962857 CGGGGAACGG
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:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (36 bp):
GGTTCTTCCAACAGCATTAACAATCTCCTCTTGCCA
Found at i:984395 original size:15 final size:15
Alignment explanation
Indices: 984377--984406 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
984367 TCGTGCTTGT
984377 TAAGCTCGTTACTCG
1 TAAGCTCGTTACTCG
*
984392 TAAGCTCTTTACTCG
1 TAAGCTCGTTACTCG
984407 CCTCTTTGCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.27, G:0.17, T:0.37
Consensus pattern (15 bp):
TAAGCTCGTTACTCG
Found at i:985529 original size:20 final size:21
Alignment explanation
Indices: 985504--985542 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
985494 ACAAAAACAA
985504 TAAATTCAAT-ATTTTTAAAC
1 TAAATTCAATAATTTTTAAAC
985524 TAAATTCAATAATTTTTAA
1 TAAATTCAATAATTTTTAA
985543 CGAAATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATTCAATAATTTTTAAAC
Found at i:985548 original size:20 final size:20
Alignment explanation
Indices: 985505--985548 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
985495 CAAAAACAAT
*
985505 AAATTCAATATTTTTAAACT
1 AAATTCAATATTTTTAAACG
985525 AAATTCAATAATTTTT-AACG
1 AAATTCAAT-ATTTTTAAACG
985545 AAAT
1 AAAT
985549 AAGTTTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
AAATTCAATATTTTTAAACG
Found at i:986985 original size:17 final size:19
Alignment explanation
Indices: 986952--986990 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
986942 CTTAACAACT
986952 TATAGAACATTAAATA-TAA
1 TATAGAACA-TAAATATTAA
986971 TATAGAACA-AAATATTAA
1 TATAGAACATAAATATTAA
986989 TA
1 TA
986991 ATACAGATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 5 0.26
18 5 0.26
19 9 0.47
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (19 bp):
TATAGAACATAAATATTAA
Found at i:987512 original size:24 final size:24
Alignment explanation
Indices: 987474--987589 Score: 90
Period size: 24 Copynumber: 4.8 Consensus size: 24
987464 AACATAAATC
* *
987474 AGGTCAGGTAACATATCAGAA-TA
1 AGGTCAAGTATCATATCAGAATTA
* * * *
987497 TATGTCAAGTATCATATAAAAATTC
1 -AGGTCAAGTATCATATCAGAATTA
* * **
987522 AGGTCAGGTAACATATCAGAATCC
1 AGGTCAAGTATCATATCAGAATTA
* * *
987546 ATGTCAAGTATCATATAAAAATTA
1 AGGTCAAGTATCATATCAGAATTA
*
987570 AGGTCAAATATCATATCAGA
1 AGGTCAAGTATCATATCAGA
987590 TAACTATTCA
Statistics
Matches: 68, Mismatches: 23, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
24 67 0.99
25 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.28
Consensus pattern (24 bp):
AGGTCAAGTATCATATCAGAATTA
Found at i:987525 original size:48 final size:48
Alignment explanation
Indices: 987472--987589 Score: 182
Period size: 48 Copynumber: 2.5 Consensus size: 48
987462 AAAACATAAA
*
987472 TCAGGTCAGGTAACATATCAGAATATATGTCAAGTATCATATAAAAAT
1 TCAGGTCAGGTAACATATCAGAATACATGTCAAGTATCATATAAAAAT
*
987520 TCAGGTCAGGTAACATATCAGAATCCATGTCAAGTATCATATAAAAAT
1 TCAGGTCAGGTAACATATCAGAATACATGTCAAGTATCATATAAAAAT
* ** *
987568 TAAGGTCAAATATCATATCAGA
1 TCAGGTCAGGTAACATATCAGA
987590 TAACTATTCA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 64 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.28
Consensus pattern (48 bp):
TCAGGTCAGGTAACATATCAGAATACATGTCAAGTATCATATAAAAAT
Found at i:988325 original size:29 final size:30
Alignment explanation
Indices: 988293--988350 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
988283 TTATTTACAA
988293 AATTACAAAAATAGAACCA-TTTTAAAATT
1 AATTACAAAAATAGAACCATTTTTAAAATT
* * * *
988322 AATTACCAATATAGCACTATTTTTAAAAT
1 AATTACAAAAATAGAACCATTTTTAAAAT
988351 ATTTACTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (30 bp):
AATTACAAAAATAGAACCATTTTTAAAATT
Found at i:995553 original size:29 final size:30
Alignment explanation
Indices: 995521--995578 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
995511 TTATTTACAA
995521 AATTACAAAAATAACACCATTTT-AAAATT
1 AATTACAAAAATAACACCATTTTCAAAATT
* * * *
995550 AATTACCAATATAGCACTATTTTCAAAAT
1 AATTACAAAAATAACACCATTTTCAAAAT
995579 ATTTACTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.50, C:0.16, G:0.02, T:0.33
Consensus pattern (30 bp):
AATTACAAAAATAACACCATTTTCAAAATT
Found at i:995704 original size:29 final size:29
Alignment explanation
Indices: 995625--995705 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
995615 ACATTTTTTA
* *
995625 AAAATAATTACAAAAATAGCACCATTTTC
1 AAAATAATTACAAAAATATCACCAGTTTC
* * * * * *
995654 GAATTAATTCCCAATATGTCACCAGTTTC
1 AAAATAATTACAAAAATATCACCAGTTTC
*
995683 AAAATAATTACTAAAATATCACC
1 AAAATAATTACAAAAATATCACC
995706 CGGTTAACGG
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (29 bp):
AAAATAATTACAAAAATATCACCAGTTTC
Found at i:998958 original size:14 final size:14
Alignment explanation
Indices: 998939--998966 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
998929 TGAGGTTTGA
998939 TCCTCCAATATTCG
1 TCCTCCAATATTCG
998953 TCCTCCAATATTCG
1 TCCTCCAATATTCG
998967 GGACATATAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.36, G:0.07, T:0.36
Consensus pattern (14 bp):
TCCTCCAATATTCG
Found at i:1000013 original size:17 final size:17
Alignment explanation
Indices: 999983--1000016 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
999973 AGGCTATTTA
999983 GTGATATTTAATAAACT
1 GTGATATTTAATAAACT
* *
1000000 GTGATGTTTCATAAACT
1 GTGATATTTAATAAACT
1000017 ATGTAGTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (17 bp):
GTGATATTTAATAAACT
Found at i:1003661 original size:22 final size:23
Alignment explanation
Indices: 1003619--1003663 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1003609 ACGTGGCCTC
* *
1003619 AAAATTTTGAAAAATTATAATTT
1 AAAATTTTAAAAAAATATAATTT
1003642 AAAATTTTAAAAAAAT-TAATTT
1 AAAATTTTAAAAAAATATAATTT
1003664 TTTTTCTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAATTTTAAAAAAATATAATTT
Found at i:1005841 original size:23 final size:24
Alignment explanation
Indices: 1005815--1005864 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
1005805 TAGCTGGCCT
1005815 TCCAAT-GACGACGACAGTAATCA
1 TCCAATGGACGACGACAGTAATCA
*
1005838 TCC-ATGGACGACGACAGTGATCA
1 TCCAATGGACGACGACAGTAATCA
1005861 TCCA
1 TCCA
1005865 TGGTCTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 2 0.08
23 22 0.92
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (24 bp):
TCCAATGGACGACGACAGTAATCA
Found at i:1005865 original size:23 final size:23
Alignment explanation
Indices: 1005821--1005867 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
1005811 GCCTTCCAAT
1005821 GACGACGACAGTAATCATCCATG
1 GACGACGACAGTAATCATCCATG
*
1005844 GACGACGACAGTGATCATCCATG
1 GACGACGACAGTAATCATCCATG
1005867 G
1 G
1005868 TCTTTTCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
GACGACGACAGTAATCATCCATG
Found at i:1008616 original size:24 final size:23
Alignment explanation
Indices: 1008588--1008640 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
1008578 TTTCTAATTC
*
1008588 AAAATACAAAATTATTCAAAAA-A
1 AAAATACAAAAATA-TCAAAAATA
*
1008611 ATAAATATAAAAATATCAAAAATA
1 A-AAATACAAAAATATCAAAAATA
1008635 AAAATA
1 AAAATA
1008641 AAATACTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 13 0.50
24 13 0.50
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (23 bp):
AAAATACAAAAATATCAAAAATA
Found at i:1008641 original size:27 final size:27
Alignment explanation
Indices: 1008607--1008661 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 27
1008597 AATTATTCAA
1008607 AAAAAT-AAATA-TAAAAATATCAAAAAT
1 AAAAATAAAATACTAAAAAT-T-AAAAAT
1008634 AAAAATAAAATACTAAAAATTAAAAAT
1 AAAAATAAAATACTAAAAATTAAAAAT
1008661 A
1 A
1008662 TATTATTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
27 13 0.50
28 6 0.23
29 7 0.27
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.22
Consensus pattern (27 bp):
AAAAATAAAATACTAAAAATTAAAAAT
Found at i:1008652 original size:15 final size:14
Alignment explanation
Indices: 1008606--1008663 Score: 50
Period size: 15 Copynumber: 4.1 Consensus size: 14
1008596 AAATTATTCA
1008606 AAAAAAT-AAATAT
1 AAAAAATAAAATAT
1008619 AAAAATATCAAAA-AT
1 AAAAA-AT-AAAATAT
1008634 -AAAAATAAAATACT
1 AAAAAATAAAATA-T
*
1008648 AAAAATTAAAAATAT
1 AAAAAAT-AAAATAT
1008663 A
1 A
1008664 TTATTATATT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
12 4 0.11
13 8 0.22
14 7 0.19
15 9 0.24
16 9 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.22
Consensus pattern (14 bp):
AAAAAATAAAATAT
Found at i:1008652 original size:21 final size:20
Alignment explanation
Indices: 1008606--1008661 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
1008596 AAATTATTCA
*
1008606 AAAAAATAAATATAAAAATAT
1 AAAAAATAAAAAT-AAAATAT
*
1008627 CAAAAATAAAAATAAAATACT
1 AAAAAATAAAAATAAAATA-T
*
1008648 AAAAATTAAAAATA
1 AAAAAATAAAAATA
1008662 TATTATTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 6 0.20
21 24 0.80
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATAAAAATAAAATAT
Found at i:1008869 original size:15 final size:16
Alignment explanation
Indices: 1008844--1008876 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1008834 TTATAAAAAG
1008844 ATAAAATTTAAAAGTT
1 ATAAAATTTAAAAGTT
*
1008860 ATAAAA-TTAAAATTT
1 ATAAAATTTAAAAGTT
1008875 AT
1 AT
1008877 GTATAAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (16 bp):
ATAAAATTTAAAAGTT
Found at i:1011719 original size:31 final size:31
Alignment explanation
Indices: 1011684--1011759 Score: 143
Period size: 31 Copynumber: 2.5 Consensus size: 31
1011674 TGCCATCTTA
*
1011684 TTGATGAGAATCAGGGAAAATAGACATGATT
1 TTGATGAGAATCAGGGAAAATACACATGATT
1011715 TTGATGAGAATCAGGGAAAATACACATGATT
1 TTGATGAGAATCAGGGAAAATACACATGATT
1011746 TTGATGAGAATCAG
1 TTGATGAGAATCAG
1011760 ACAAATAACT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.41, C:0.08, G:0.25, T:0.26
Consensus pattern (31 bp):
TTGATGAGAATCAGGGAAAATACACATGATT
Found at i:1013099 original size:18 final size:17
Alignment explanation
Indices: 1013064--1013106 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
1013054 ACTAAAGTCG
**
1013064 AAACTAATTTAATTTAT
1 AAACTAATTTAAAGTAT
1013081 AAACGTAATTTAAAGTAT
1 AAAC-TAATTTAAAGTAT
*
1013099 AAAATAAT
1 AAACTAAT
1013107 ATAAGAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
AAACTAATTTAAAGTAT
Found at i:1013233 original size:19 final size:19
Alignment explanation
Indices: 1013209--1013275 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 19
1013199 AAATTTATAA
1013209 TGCGATTTTCCAAATTCGT
1 TGCGATTTTCCAAATTCGT
** *
1013228 TGCGATAGTCCAAGTTCGCGT
1 TGCGATTTTCCAAATT--CGT
1013249 TGCGATTTATTCCAAATTCGT
1 TGCGA-TT-TTCCAAATTCGT
1013270 TGCGAT
1 TGCGAT
1013276 AGTCCAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
19 13 0.34
20 1 0.03
21 16 0.42
22 1 0.03
23 7 0.18
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (19 bp):
TGCGATTTTCCAAATTCGT
Found at i:1013283 original size:19 final size:19
Alignment explanation
Indices: 1013217--1013283 Score: 80
Period size: 21 Copynumber: 3.3 Consensus size: 19
1013207 AATGCGATTT
1013217 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
* *
1013236 TCCAAGTTCGCGTTGCGATTTAT
1 TCCAAATT--CGTTGCGA--TAG
1013259 TCCAAATTCGTTGCGATAG
1 TCCAAATTCGTTGCGATAG
1013278 TCCAAA
1 TCCAAA
1013284 ATCGCAACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 15 0.38
21 16 0.40
23 9 0.22
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (19 bp):
TCCAAATTCGTTGCGATAG
Found at i:1014233 original size:42 final size:41
Alignment explanation
Indices: 1014179--1014331 Score: 188
Period size: 42 Copynumber: 3.8 Consensus size: 41
1014169 GGACTTCGAC
1014179 TATCGC-A-ACGAACTTGGACTATCGCAACGAATTTGTAATA
1 TATCGCAACACGAACTTGGACTATCGCAACGAATTTG-AATA
**
1014219 TATCGCAACACGAACTTGGACTATCGCAATAAATTTGGAATA
1 TATCGCAACACGAACTTGGACTATCGCAACGAATTT-GAATA
* *
1014261 AATCGCAACGCGAACTTGGACTATCGCAACGAATTTAGAA-A
1 TATCGCAACACGAACTTGGACTATCGCAACGAATTT-GAATA
* * *
1014302 -ATTGCAACGCGAACTTCGACTATCGCAACG
1 TATCGCAACACGAACTTGGACTATCGCAACG
1014332 CGAACTTGGA
Statistics
Matches: 101, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
40 34 0.34
41 2 0.02
42 64 0.63
43 1 0.01
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (41 bp):
TATCGCAACACGAACTTGGACTATCGCAACGAATTTGAATA
Found at i:1014257 original size:61 final size:61
Alignment explanation
Indices: 1014134--1014257 Score: 176
Period size: 61 Copynumber: 2.0 Consensus size: 61
1014124 TGCGATTTTA
* * *
1014134 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGGACTTCGACTATCGCAACGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACAAACTTG
* * * * *
1014195 GACTATCGCAACGAATTTGTAATATATCGCAACACGAACTTGGACTATCGCAATAAATTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACAAACTTG
1014256 GA
1 GA
1014258 ATAAATCGCA
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 55 1.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (61 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACAAACTTG
Found at i:1014326 original size:103 final size:102
Alignment explanation
Indices: 1014134--1014351 Score: 269
Period size: 103 Copynumber: 2.1 Consensus size: 102
1014124 TGCGATTTTA
** * * **
1014134 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGGACTTCGACTATCGCAACGAACTTGGACT
1 GACTATCGCAATAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTAGAAA
*
1014199 ATCGCAACGAATTTGTAATATATCGCAACACGAACTTG
66 ATCGCAACGAATTCG-AATATATCGCAACACGAACTTG
* *
1014237 GACTATCGCAATAAATTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTAGAAA
1 GACTATCGCAATAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTAGAAA
* * *
1014302 ATTGCAACGCGAACTTCG-A-CTATCGCAACGCGAACTTG
66 ATCGCAA--CGAA-TTCGAATATATCGCAACACGAACTTG
*
1014340 GATTATCGCAAT
1 GACTATCGCAAT
1014352 GCGAATATGT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
103 91 0.92
104 1 0.01
105 4 0.04
106 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.23
Consensus pattern (102 bp):
GACTATCGCAATAAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTAGAAA
ATCGCAACGAATTCGAATATATCGCAACACGAACTTG
Found at i:1014329 original size:21 final size:21
Alignment explanation
Indices: 1014134--1014356 Score: 142
Period size: 21 Copynumber: 10.8 Consensus size: 21
1014124 TGCGATTTTA
*
1014134 GACTATCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTG
* * *
1014153 GAATAAATCGCAACGCGGACTTC
1 GACT--ATCGCAACGCGAACTTG
1014176 GACTATCGCAA--CGAACTTG
1 GACTATCGCAACGCGAACTTG
*
1014195 GACTATCGCAA--CGAATTTG
1 GACTATCGCAACGCGAACTTG
* * *
1014214 TAATATATCGCAACACGAACTTG
1 -GA-CTATCGCAACGCGAACTTG
** *
1014237 GACTATCGCAA--TAAATTTG
1 GACTATCGCAACGCGAACTTG
*
1014256 GAATAAATCGCAACGCGAACTTG
1 GACT--ATCGCAACGCGAACTTG
* *
1014279 GACTATCGCAA--CGAATTTA
1 GACTATCGCAACGCGAACTTG
** * *
1014298 GAAAATTGCAACGCGAACTTC
1 GACTATCGCAACGCGAACTTG
1014319 GACTATCGCAACGCGAACTTG
1 GACTATCGCAACGCGAACTTG
* *
1014340 GATTATCGCAATGCGAA
1 GACTATCGCAACGCGAA
1014357 TATGTAAATC
Statistics
Matches: 156, Mismatches: 34, Indels: 26
0.72 0.16 0.12
Matches are distributed among these distances:
19 49 0.31
20 1 0.01
21 82 0.53
22 1 0.01
23 23 0.15
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (21 bp):
GACTATCGCAACGCGAACTTG
Found at i:1016664 original size:21 final size:21
Alignment explanation
Indices: 1016639--1016678 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1016629 GAAATTTGTC
*
1016639 CCGAAGGACCACTGTATATGT
1 CCGAAGGACCACTATATATGT
1016660 CCGAAGGACCACTATATAT
1 CCGAAGGACCACTATATAT
1016679 CCCTCGACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (21 bp):
CCGAAGGACCACTATATATGT
Found at i:1020859 original size:22 final size:22
Alignment explanation
Indices: 1020833--1020877 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1020823 ATATGAAATT
* *
1020833 TGTCCCGAATGACCACTGTATA
1 TGTCCCGAAGGACCACTATATA
1020855 TGTCCCGAAGGACCACTATATA
1 TGTCCCGAAGGACCACTATATA
1020877 T
1 T
1020878 CCCTTGACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (22 bp):
TGTCCCGAAGGACCACTATATA
Found at i:1023189 original size:9 final size:9
Alignment explanation
Indices: 1023163--1023192 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1023153 TTTTGTCCCG
*
1023163 TTATTATTA
1 TTATTATTT
1023172 TTATTATTT
1 TTATTATTT
1023181 TTATTATTT
1 TTATTATTT
1023190 TTA
1 TTA
1023193 ATTTTTGACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTATTATTT
Found at i:1027760 original size:29 final size:28
Alignment explanation
Indices: 1027722--1027819 Score: 142
Period size: 29 Copynumber: 3.4 Consensus size: 28
1027712 TATATTTTTT
*
1027722 ATATTATATTCCTTTAACTAGACACTATA
1 ATATTATATTCCTTTAAC-AAACACTATA
1027751 ATATTATATTCCTTTAAACAAACACTATA
1 ATATTATATTCCTTT-AACAAACACTATA
*
1027780 ATATTATATTTCTTTAACCAAACACTATA
1 ATATTATATTCCTTTAA-CAAACACTATA
*
1027809 ATCTTATATTC
1 ATATTATATTC
1027820 TTATTAAACA
Statistics
Matches: 63, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
28 2 0.03
29 58 0.92
30 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.01, T:0.42
Consensus pattern (28 bp):
ATATTATATTCCTTTAACAAACACTATA
Found at i:1038887 original size:31 final size:31
Alignment explanation
Indices: 1038851--1038909 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1038841 AACTTAAAAG
* *
1038851 AGTTTTGCAATACTGAAATTTAAATAATTTT
1 AGTTTTACAATAATGAAATTTAAATAATTTT
*
1038882 AGTTTTATAATAATGAAATTTAAATAAT
1 AGTTTTACAATAATGAAATTTAAATAAT
1038910 CCATACAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATAATGAAATTTAAATAATTTT
Found at i:1038958 original size:22 final size:22
Alignment explanation
Indices: 1038933--1039320 Score: 598
Period size: 22 Copynumber: 17.6 Consensus size: 22
1038923 ATAATAAATT
*
1038933 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
1038955 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* * * *
1038977 TTTTAAAATAATTTATTTTCATA
1 TTTTAAAATAAATCA-ATCCATA
1039000 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1039022 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1039044 TTTTAAAATAAATCAATCCGTA
1 TTTTAAAATAAATCAATCCATA
1039066 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
****
1039088 TTTTAAAATAAAAGTTTCCATA
1 TTTTAAAATAAATCAATCCATA
1039110 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1039132 TTTTAAAATAAATAAATCCATA
1 TTTTAAAATAAATCAATCCATA
1039154 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1039176 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
1039198 TTTTAAAATAAATCAATAAATA
1 TTTTAAAATAAATCAATCCATA
1039220 TTTTAAAATAAATTC-ATCCATA
1 TTTTAAAATAAA-TCAATCCATA
***
1039242 TTTTAAAATAAATGTTTCCATA
1 TTTTAAAATAAATCAATCCATA
1039264 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1039286 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
1039308 TTTTAAAATAAAT
1 TTTTAAAATAAAT
1039321 TTTAAAATAG
Statistics
Matches: 332, Mismatches: 31, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
21 1 0.00
22 311 0.94
23 20 0.06
ACGTcount: A:0.49, C:0.11, G:0.01, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1039337 original size:11 final size:12
Alignment explanation
Indices: 1039307--1039346 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1039297 ATCAATCAAT
1039307 ATTTTAAAATAA
1 ATTTTAAAATAA
*
1039319 ATTTTAAAATAG
1 ATTTTAAAATAA
1039331 A-TTT-AAAT-A
1 ATTTTAAAATAA
1039340 ATTTTAA
1 ATTTTAA
1039347 TTTCTTTGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.29
11 4 0.17
12 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (12 bp):
ATTTTAAAATAA
Found at i:1044156 original size:33 final size:32
Alignment explanation
Indices: 1044072--1044198 Score: 157
Period size: 32 Copynumber: 3.9 Consensus size: 32
1044062 TTTGAAGAGA
*
1044072 AGAT-ATTCTCAAAATTTAAATGTTTTCTTAGA
1 AGATAATTC-CAAAATTTAAATGTTTTCTTAGG
* **
1044104 AGATAATTTCAAACCTTAAATGTTTTCGTTAGG
1 AGATAATTCCAAAATTTAAATGTTTTC-TTAGG
* * *
1044137 GGATAATTCCAAAATTTAAATGTTTCCTTAAG
1 AGATAATTCCAAAATTTAAATGTTTTCTTAGG
*
1044169 AGATAATTCTAAAATTTAAATGTTTTCTTA
1 AGATAATTCCAAAATTTAAATGTTTTCTTA
1044199 TATTCTTAAA
Statistics
Matches: 80, Mismatches: 13, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
32 51 0.64
33 29 0.36
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.42
Consensus pattern (32 bp):
AGATAATTCCAAAATTTAAATGTTTTCTTAGG
Found at i:1045512 original size:2 final size:2
Alignment explanation
Indices: 1045444--1045493 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
1045434 AACATGCACC
1045444 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1045486 TA TA TA TA
1 TA TA TA TA
1045494 CAATAACAGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1047129 original size:3 final size:3
Alignment explanation
Indices: 1047121--1047191 Score: 92
Period size: 3 Copynumber: 24.0 Consensus size: 3
1047111 AATATGTAAT
1047121 TAA TAA TAA TAA TAA TAA TTAA TAA -AA -AA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1047165 TAA TAA CAT TAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1047192 AATTAAAATT
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
2 4 0.07
3 53 0.88
4 3 0.05
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:1047550 original size:43 final size:43
Alignment explanation
Indices: 1047489--1047723 Score: 153
Period size: 40 Copynumber: 5.5 Consensus size: 43
1047479 AAAGGTGATA
* * * * *
1047489 ACACGACTCATACATGATGAAGAGTTCTGGTTATCAAAGGTTG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCAAAGGTTG
* * * *
1047532 ACACGGCTCCCACGTGATGAGGAGATCAGG---TC-GAGTGATG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCAAAG-GTTG
* * * *** *
1047572 ACACGGCTCATACGTGATGAAGAGTTCTGACCATCTAAAGGTGATA
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATC-AAAGGT--TG
* *
1047618 ACACGGTTCCTACGTGATGAGGACGAT-TGGTTATCTAAGGTTG
1 ACACGGCTCCTACGTGATGAGGA-GATCTGGTTATCAAAGGTTG
* * ** *
1047661 ACACGACTCCTACGTGATGAGGAGATCTGG---CCAGGGGATG
1 ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCAAAGGTTG
*
1047701 ACACGGTTCCTACGTGATGAGGA
1 ACACGGCTCCTACGTGATGAGGA
1047724 TGACTGGCCA
Statistics
Matches: 146, Mismatches: 36, Indels: 23
0.71 0.18 0.11
Matches are distributed among these distances:
39 2 0.01
40 55 0.38
42 3 0.02
43 50 0.34
44 1 0.01
45 7 0.05
46 26 0.18
47 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (43 bp):
ACACGGCTCCTACGTGATGAGGAGATCTGGTTATCAAAGGTTG
Found at i:1047652 original size:129 final size:132
Alignment explanation
Indices: 1047362--1047720 Score: 388
Period size: 129 Copynumber: 2.7 Consensus size: 132
1047352 GACGACACTG
* * * ** * * * * *
1047362 CTCATACGTGATGAAGAGTTCGGGTCGTCTAAGGGTGACTCGGTTCCTACGTGATGAGGAGATTT
1 CTCATACATGATGAAGAGATCTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
** * *
1047427 GGTCG-GGGATGACACTACTCATACGTGATGAGGAGTTCTTGGCCATCTTTACAAAGGTGATAAC
66 GGTCGAGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGACCATC-TTA-AAAGGTGATAAC
1047491 ACGA
129 ACGA
* * *
1047495 CTCATACATGATGAAGAGTTCTGGTTATCAAAGGTTGACACGGCTCCCACGTGATGAGGAGATCA
1 CTCATACATGATGAAGAGATCTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
*
1047560 GGTCGAGTGATGACACGGCTCATACGTGATGAAGAGTTC-TGACCATC-T-AAAGGTGATAACAC
66 GGTCGAGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGACCATCTTAAAAGGTGATAACAC
*
1047622 GG
131 GA
* * * * * *
1047624 TTCCTACGTGATGAGGACGAT-TGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGATC
1 CTCATACATGATGAAGA-GATCTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGATC
* * *
1047688 TGG-CCAGGGGATGACACGGTTCCTACGTGATGA
65 TGGTCGA-GGGATGACACGGCTCATACGTGATGA
1047721 GGATGACTGG
Statistics
Matches: 193, Mismatches: 30, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
128 2 0.01
129 93 0.48
130 2 0.01
131 1 0.01
133 66 0.34
134 29 0.15
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (132 bp):
CTCATACATGATGAAGAGATCTGGTTATCAAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
GGTCGAGGGATGACACGGCTCATACGTGATGAAGAGTTCTTGACCATCTTAAAAGGTGATAACAC
GA
Found at i:1047735 original size:129 final size:129
Alignment explanation
Indices: 1047406--1047736 Score: 389
Period size: 129 Copynumber: 2.5 Consensus size: 129
1047396 GTGACTCGGT
* **
1047406 TCCTACGTGATGAGGAGATTTGGTCGGGGATGACACTACTCATACGTGATGAGGAGTTCTTGGCC
1 TCCTACGTGATGAGGAGATCTGGTCGGGGATGACACGGCTCATACGTGATGAGGAGTTC-TGGCC
*
1047471 ATCTTTACAAAGGTGATAACACGACTCATACATGATGAAGAGTTCTGGTTATCAAAGGTTGACAC
65 ATC--TA-AAAGGTGATAACACGACTCATACATGATGAAGAGATCTGGTTATCAAAGGTTGACAC
*
1047536 GGC
127 GAC
* * * * *
1047539 TCCCACGTGATGAGGAGATCAGGTCGAGTGATGACACGGCTCATACGTGATGAAGAGTTCTGACC
1 TCCTACGTGATGAGGAGATCTGGTCG-GGGATGACACGGCTCATACGTGATGAGGAGTTCTGGCC
** * * * *
1047604 ATCT-AAAGGTGATAACACGGTTCCTACGTGATGAGGACGAT-TGGTTATCTAAGGTTGACACGA
65 ATCTAAAAGGTGATAACACGACTCATACATGATGAAGA-GATCTGGTTATCAAAGGTTGACACGA
1047667 C
129 C
* * * *
1047668 TCCTACGTGATGAGGAGATCTGGCCAGGGGATGACACGGTTCCTACGTGATGAGGA-TGACTGGC
1 TCCTACGTGATGAGGAGATCTGGTC-GGGGATGACACGGCTCATACGTGATGAGGAGT-TCTGGC
1047732 CATCT
64 CATCT
1047737 TTAGGGATAA
Statistics
Matches: 169, Mismatches: 25, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
128 1 0.01
129 105 0.62
130 3 0.02
131 1 0.01
133 30 0.18
134 29 0.17
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (129 bp):
TCCTACGTGATGAGGAGATCTGGTCGGGGATGACACGGCTCATACGTGATGAGGAGTTCTGGCCA
TCTAAAAGGTGATAACACGACTCATACATGATGAAGAGATCTGGTTATCAAAGGTTGACACGAC
Found at i:1047854 original size:35 final size:36
Alignment explanation
Indices: 1047814--1047910 Score: 99
Period size: 36 Copynumber: 2.7 Consensus size: 36
1047804 GACAAAATTC
** * **
1047814 GTTTCAAGGGAAATGATCTCAAAGAT-ATTTGTTTT
1 GTTTCAAGGGAAACAAACTCAAAGATGATTAATTTT
*
1047849 GTTTCATGGGAAACAAACTCAAAGATGATTAATTTT
1 GTTTCAAGGGAAACAAACTCAAAGATGATTAATTTT
* *
1047885 GTTTCCAA-AGAAACAGACTCAAAGAT
1 GTTT-CAAGGGAAACAAACTCAAAGAT
1047911 TTTTCTTAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
35 22 0.43
36 27 0.53
37 2 0.04
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (36 bp):
GTTTCAAGGGAAACAAACTCAAAGATGATTAATTTT
Found at i:1048408 original size:36 final size:36
Alignment explanation
Indices: 1048333--1048434 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 36
1048323 ATAATTTGGA
*
1048333 AAATTGTCTCAAGTGAGACAATAAA-T-TTTTTAGAG
1 AAATTGTCTCAAGCGAGACAA-AAATTGTTTTTAGAG
* *
1048368 AAATTGTCTCAAACGAGACAAAAATTGTTTTTAGAT
1 AAATTGTCTCAAGCGAGACAAAAATTGTTTTTAGAG
**
1048404 AAATTGTCTCAAGCGAGACAAAGTTTGTTTT
1 AAATTGTCTCAAGCGAGACAAAAATTGTTTT
1048435 GAAAGAAACA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
34 3 0.05
35 20 0.34
36 36 0.61
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (36 bp):
AAATTGTCTCAAGCGAGACAAAAATTGTTTTTAGAG
Found at i:1048634 original size:36 final size:38
Alignment explanation
Indices: 1048551--1048651 Score: 107
Period size: 38 Copynumber: 2.7 Consensus size: 38
1048541 TGGAAAAATG
* * * * *
1048551 TCTCAAGCGAGACATAATTTGTTTTAAAGAGAAAGTTG
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAAGCTA
1048589 TCTCAAGTGAGACAAAATTTGTTTTTAAGA-AAA-CTA
1 TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAAGCTA
* * *
1048625 TCTCTAGTGAGACGACACTTTGTTTTT
1 TCTCAAGTGAGAC-AAAATTTGTTTTT
1048652 TTTAAGAAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
36 13 0.24
37 14 0.26
38 27 0.50
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.36
Consensus pattern (38 bp):
TCTCAAGTGAGACAAAATTTGTTTTTAAGAGAAAGCTA
Found at i:1048979 original size:4 final size:4
Alignment explanation
Indices: 1048970--1049007 Score: 60
Period size: 4 Copynumber: 9.5 Consensus size: 4
1048960 CTTATGTAAC
1048970 ATGT ATGT ATGT ATGT AT-T GATGT ATGT ATGT ATGT AT
1 ATGT ATGT ATGT ATGT ATGT -ATGT ATGT ATGT ATGT AT
1049008 TTCTCGATCT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 1 0.03
4 30 0.94
5 1 0.03
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1048995 original size:20 final size:20
Alignment explanation
Indices: 1048970--1049008 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1048960 CTTATGTAAC
1048970 ATGTATGTATGTATGTATTG
1 ATGTATGTATGTATGTATTG
1048990 ATGTATGTATGTATGTATT
1 ATGTATGTATGTATGTATT
1049009 TCTCGATCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (20 bp):
ATGTATGTATGTATGTATTG
Found at i:1049310 original size:24 final size:24
Alignment explanation
Indices: 1049274--1049338 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
1049264 CTTGTTTTTT
*
1049274 CAAAAG-TATGAAAATATCAATTAA
1 CAAAAGTTTTGAAAATAT-AATTAA
* *
1049298 -AAGAGTTTTGAAAA-ATATTTAA
1 CAAAAGTTTTGAAAATATAATTAA
1049320 TCAAAAGTTTTGAAAATAT
1 -CAAAAGTTTTGAAAATAT
1049339 TGCTCCTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
22 5 0.15
23 6 0.18
24 20 0.61
25 2 0.06
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.32
Consensus pattern (24 bp):
CAAAAGTTTTGAAAATATAATTAA
Found at i:1050209 original size:11 final size:11
Alignment explanation
Indices: 1050195--1050242 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
1050185 TGCTTTTGTC
1050195 TTCTTTTTCTT
1 TTCTTTTTCTT
1050206 TTCTTTTTCTT
1 TTCTTTTTCTT
1050217 TTGCTATTTTTCTT
1 TT-C--TTTTTCTT
**
1050231 TGATTTTTCTT
1 TTCTTTTTCTT
1050242 T
1 T
1050243 GTACTCTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
11 22 0.69
12 1 0.03
14 9 0.28
ACGTcount: A:0.04, C:0.15, G:0.04, T:0.77
Consensus pattern (11 bp):
TTCTTTTTCTT
Done.