Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005983.1 Hibiscus syriacus cultivar Beakdansim tig00014064_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: 781742
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 3 of 5
Found at i:604533 original size:30 final size:30
Alignment explanation
Indices: 604473--604533 Score: 70
Period size: 30 Copynumber: 2.0 Consensus size: 30
604463 ATGGTATGTC
* ** *
604473 TACATCAAAAAAAGTGATGATGTTTTTAAA
1 TACATCAAAAAAAGTAATGATAATTATAAA
604503 TACATCAAAAAAAAGTAAT-ATAATTATAAA
1 TACATC-AAAAAAAGTAATGATAATTATAAA
604533 T
1 T
604534 TAATTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (30 bp):
TACATCAAAAAAAGTAATGATAATTATAAA
Found at i:617608 original size:17 final size:15
Alignment explanation
Indices: 617572--617602 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
617562 AAATTATAAA
617572 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
617587 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
617602 T
1 T
617603 TTATTTTTTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:618991 original size:102 final size:103
Alignment explanation
Indices: 618828--619029 Score: 325
Period size: 102 Copynumber: 1.9 Consensus size: 103
618818 ATGTTTTTTG
*
618828 AGTTCAGGTCACAATGGAACCTATTCCCCCCCCCCGAACCAAATCCAATAGCAAAGAGACTAAAA
1 AGTTCAGGTCACAATGGAACCTATT----CCCACCGAACCAAATCCAATAGCAAAGAGACTAAAA
618893 CAGACGAATCATGTTAATCTAACTTATCCAACAATTTTTCTT
62 CAGACGAATCATGTTAATCTAACTTATCCAACAATTTTTCTT
* * *
618935 AGTTCAGGTCACAATGGAACCTATT-CCATCGAACCCAATCCAATAGCAAAGAGACTAAAACATA
1 AGTTCAGGTCACAATGGAACCTATTCCCACCGAACCAAATCCAATAGCAAAGAGACTAAAACAGA
618999 CGAATCATGTTAATCTAACTTATCCAACAAT
66 CGAATCATGTTAATCTAACTTATCCAACAAT
619030 AGTTTAAACA
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
102 66 0.73
107 25 0.27
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (103 bp):
AGTTCAGGTCACAATGGAACCTATTCCCACCGAACCAAATCCAATAGCAAAGAGACTAAAACAGA
CGAATCATGTTAATCTAACTTATCCAACAATTTTTCTT
Found at i:619933 original size:35 final size:35
Alignment explanation
Indices: 619893--619965 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
619883 AGAAATCTAA
*
619893 GAGAAGCTGCTAAAGGTGTTAATTGTTATCAATCC
1 GAGAAGCTGCTAAAGGCGTTAATTGTTATCAATCC
*
619928 GAGAAGCTGCTAAAGGCGTTAATTGTTATCAATTC
1 GAGAAGCTGCTAAAGGCGTTAATTGTTATCAATCC
619963 GAG
1 GAG
619966 CTCAAGAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAAGCTGCTAAAGGCGTTAATTGTTATCAATCC
Found at i:623551 original size:2 final size:2
Alignment explanation
Indices: 623544--623582 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
623534 TTGGAAAGCT
623544 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
623583 GATCAAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:623892 original size:22 final size:22
Alignment explanation
Indices: 623867--623911 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
623857 CGCGGCCCAT
623867 GGGGCACGCCTTAGGCCACGTA
1 GGGGCACGCCTTAGGCCACGTA
* *
623889 GGGGTATGCCTTAGGCCACGTA
1 GGGGCACGCCTTAGGCCACGTA
623911 G
1 G
623912 AGGTATAGCG
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:0.18, C:0.27, G:0.38, T:0.18
Consensus pattern (22 bp):
GGGGCACGCCTTAGGCCACGTA
Found at i:623916 original size:22 final size:22
Alignment explanation
Indices: 623874--623917 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
623864 CATGGGGCAC
*
623874 GCCTTAGGCCACGTAGGGGTAT
1 GCCTTAGGCCACGTAGAGGTAT
623896 GCCTTAGGCCACGTAGAGGTAT
1 GCCTTAGGCCACGTAGAGGTAT
623918 AGCGCGGGGC
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:0.20, C:0.23, G:0.34, T:0.23
Consensus pattern (22 bp):
GCCTTAGGCCACGTAGAGGTAT
Found at i:624203 original size:21 final size:18
Alignment explanation
Indices: 624148--624205 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 18
624138 CTGTCTAGTG
624148 TATATTTTATTATATTTTT
1 TATATTTTATTA-ATTTTT
624167 TATATTTTGTATTTAATTTATT
1 TATA-TTT-TA-TTAATTT-TT
624189 TAATATTTTACTTAATT
1 T-ATATTTTA-TTAATT
624206 AAATTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 4 0.12
20 3 0.09
21 14 0.42
22 9 0.27
23 3 0.09
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TATATTTTATTAATTTTT
Found at i:625707 original size:18 final size:18
Alignment explanation
Indices: 625686--625722 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
625676 TCTTGATGGT
625686 TGCTGACGGTTATTATGA
1 TGCTGACGGTTATTATGA
625704 TGCTGACGGTTATTATGA
1 TGCTGACGGTTATTATGA
625722 T
1 T
625723 TGGTTCAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.27, T:0.41
Consensus pattern (18 bp):
TGCTGACGGTTATTATGA
Found at i:626478 original size:13 final size:13
Alignment explanation
Indices: 626437--626480 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
626427 TATTTAGTAC
*
626437 TTTTTATTGTAGT
1 TTTTTATTGTAAT
* * *
626450 TGTTTATTGGACT
1 TTTTTATTGTAAT
626463 TTTTTATTGTAAT
1 TTTTTATTGTAAT
626476 TTTTT
1 TTTTT
626481 TATTTATAAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.68
Consensus pattern (13 bp):
TTTTTATTGTAAT
Found at i:626544 original size:33 final size:34
Alignment explanation
Indices: 626502--626583 Score: 105
Period size: 33 Copynumber: 2.4 Consensus size: 34
626492 TAATACTTAC
*
626502 TTTAATTTGTTAATATGGTTGGA-TTTATT-TTAA
1 TTTATTTTGTTAATATGGTTGGACTTT-TTGTTAA
* *
626535 TTTATTTTGTTAAAATTGTTGGACTTTTTGTTAA
1 TTTATTTTGTTAATATGGTTGGACTTTTTGTTAA
626569 TTTATTTTGCTTAAT
1 TTTATTTTG-TTAAT
626584 TTTGTTTATT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 22 0.52
34 16 0.38
35 4 0.10
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.60
Consensus pattern (34 bp):
TTTATTTTGTTAATATGGTTGGACTTTTTGTTAA
Found at i:629732 original size:18 final size:19
Alignment explanation
Indices: 629709--629746 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
629699 CCCAGTAATC
629709 TTATTCT-CTGATAATCTT
1 TTATTCTACTGATAATCTT
629727 TTATTCTCACTGATAATCTT
1 TTATTCT-ACTGATAATCTT
629747 ACATTCCGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
20 11 0.61
ACGTcount: A:0.24, C:0.18, G:0.05, T:0.53
Consensus pattern (19 bp):
TTATTCTACTGATAATCTT
Found at i:630183 original size:28 final size:29
Alignment explanation
Indices: 630129--630183 Score: 69
Period size: 28 Copynumber: 1.9 Consensus size: 29
630119 AAAAAAATGT
**
630129 AAAAAACAATCTTGGTTTTTTGTAAATAA
1 AAAAAACAATCTTGGTTTTTTAAAAATAA
630158 AAAAAACAAGT-TT-GTTTTTTAAAAAT
1 AAAAAACAA-TCTTGGTTTTTTAAAAAT
630184 TACCCGGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 11 0.48
29 11 0.48
30 1 0.04
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.38
Consensus pattern (29 bp):
AAAAAACAATCTTGGTTTTTTAAAAATAA
Found at i:631399 original size:21 final size:21
Alignment explanation
Indices: 631375--631420 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
631365 AATTTATGCG
631375 TTTAATATCTAAATTATCAAT
1 TTTAATATCTAAATTATCAAT
* * * *
631396 TTTAGTATTTAAATTTTTAAT
1 TTTAATATCTAAATTATCAAT
631417 TTTA
1 TTTA
631421 TGTTGATTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (21 bp):
TTTAATATCTAAATTATCAAT
Found at i:634764 original size:41 final size:41
Alignment explanation
Indices: 634707--634932 Score: 292
Period size: 41 Copynumber: 5.5 Consensus size: 41
634697 ACCATTTTTA
* * * *
634707 AAACTATCACAACGCGAAATGGAAAATCACAACGACACTAT
1 AAACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGT
*
634748 AAACTATCGCAACGCGAAATGGAAAATCGCAACGACACTGT
1 AAACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGT
*
634789 AGACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGT
1 AAACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGT
* * *
634830 AGACTATCGCAACGCGAAATGGAAAACCGCAACG-CGATTTT
1 AAACTATCGCAACGCGAAATGGAAAACCGCAACGAC-ACTGT
* * ** * *
634871 CAACTATCGCAACGCGAAATGAAAAACCGCAACGTGATTTT
1 AAACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGT
*
634912 CAACTATCGCAACGCGAAATG
1 AAACTATCGCAACGCGAAATG
634933 AAACGCGAAA
Statistics
Matches: 172, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
40 1 0.01
41 171 0.99
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.15
Consensus pattern (41 bp):
AAACTATCGCAACGCGAAATGGAAAACCGCAACGACACTGT
Found at i:634778 original size:20 final size:20
Alignment explanation
Indices: 634753--634904 Score: 78
Period size: 20 Copynumber: 7.5 Consensus size: 20
634743 ACTATAAACT
634753 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* **
634773 ATCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
634794 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* * **
634814 ACCGCAA--CGACACTGTAGACT
1 ATCGCAACGCGA-AATG--GAAA
634835 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
* ** ** *
634855 ACCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
*
634876 ATCGCAACGCGAAATGAAAA
1 ATCGCAACGCGAAATGGAAA
*
634896 ACCGCAACG
1 ATCGCAACG
634905 TGATTTTCAA
Statistics
Matches: 94, Mismatches: 27, Indels: 22
0.66 0.19 0.15
Matches are distributed among these distances:
18 6 0.06
19 6 0.06
20 39 0.41
21 31 0.33
22 6 0.06
23 6 0.06
ACGTcount: A:0.39, C:0.26, G:0.21, T:0.13
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:634799 original size:21 final size:21
Alignment explanation
Indices: 634773--634843 Score: 67
Period size: 21 Copynumber: 3.4 Consensus size: 21
634763 GAAATGGAAA
634773 ATCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
* **
634794 ATCGCAACG-CGAAATG--GAAA
1 ATCGCAACGAC--ACTGTAGACT
*
634814 ACCGCAACGACACTGTAGACT
1 ATCGCAACGACACTGTAGACT
634835 ATCGCAACG
1 ATCGCAACG
634844 CGAAATGGAA
Statistics
Matches: 37, Mismatches: 8, Indels: 10
0.67 0.15 0.18
Matches are distributed among these distances:
19 3 0.08
20 11 0.30
21 20 0.54
22 3 0.08
ACGTcount: A:0.37, C:0.28, G:0.21, T:0.14
Consensus pattern (21 bp):
ATCGCAACGACACTGTAGACT
Found at i:634883 original size:21 final size:21
Alignment explanation
Indices: 634857--634928 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
634847 AATGGAAAAC
634857 CGCAACGCGATTTTCAACTAT
1 CGCAACGCGATTTTCAACTAT
** * ** *
634878 CGCAACGCGA-AATGAAAAAC
1 CGCAACGCGATTTTCAACTAT
*
634898 CGCAACGTGATTTTCAACTAT
1 CGCAACGCGATTTTCAACTAT
634919 CGCAACGCGA
1 CGCAACGCGA
634929 AATGAAACGC
Statistics
Matches: 36, Mismatches: 14, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 13 0.36
21 23 0.64
ACGTcount: A:0.35, C:0.28, G:0.18, T:0.19
Consensus pattern (21 bp):
CGCAACGCGATTTTCAACTAT
Found at i:637909 original size:129 final size:129
Alignment explanation
Indices: 637753--638033 Score: 352
Period size: 129 Copynumber: 2.2 Consensus size: 129
637743 TATTTCACAA
* ** * * * *
637753 AAAACGCCGCAATAGGTATTGATATTTAGTGGCGTTTGT-GTGACAAACGCCGCAATAAGTGTTG
1 AAAACGCCGCAATAGGTGTTGATATTTAACGGCGTTTGTCAT-AAAAACACCGCAATAAGTGTTA
* *
637817 ATATTTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGT-TGATATTTAGCAGCGTTTTTCAG
65 ATATTTAGCAGCGTTTGTCAGAAAAACGCCGCAATAGGT-TATGATATTTAGCAGCGTTTTTC-G
637881 AT
128 AT
* * *
637883 -AAACGCTGCAATAGGTGTTGATATTTAACGGCGTTTGTCATAAAAACATCGCAATAGGTGTTAA
1 AAAACGCCGCAATAGGTGTTGATATTTAACGGCGTTTGTCATAAAAACACCGCAATAAGTGTTAA
* * * * *
637947 TATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAGGTTATGATGTTTAGCGGCGTTTTTCGCT
66 TATTTAGCAGCGTTTGTCAGAAAAACGCCGCAATAGGTTATGATATTTAGCAGCGTTTTTCGAT
*
638011 AAAACGCCGCAGTAGGTGTTGAT
1 AAAACGCCGCAATAGGTGTTGAT
638034 GTCTTGCGAC
Statistics
Matches: 129, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
128 3 0.02
129 125 0.97
130 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.31
Consensus pattern (129 bp):
AAAACGCCGCAATAGGTGTTGATATTTAACGGCGTTTGTCATAAAAACACCGCAATAAGTGTTAA
TATTTAGCAGCGTTTGTCAGAAAAACGCCGCAATAGGTTATGATATTTAGCAGCGTTTTTCGAT
Found at i:638035 original size:43 final size:44
Alignment explanation
Indices: 637752--638033 Score: 303
Period size: 43 Copynumber: 6.5 Consensus size: 44
637742 TTATTTCACA
* * *
637752 AAAAACGCCGCAATAGGTATTGATATTTAGTGGCGTTTGT-G-T
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGAT
* * *
637794 GACAAACGCCGCAATAAGTGTTGATATTTAGCGGCGTTTGTC-AT
1 -AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGAT
*
637838 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTC-GAT
* * *
637883 --AAACGCTGCAATAGGTGTTGATATTTAACGGCGTTTGTC-AT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGAT
** * * *
637924 AAAAACATCGCAATAGGTGTTAATATTTAGCAGCGTTTTTC-AG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGAT
* * *
637967 ACAAACGCCGCAATAGGT-TATGATGTTTAGCGGCGTTTTTCGCT
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTTTTCGAT
*
638011 -AAAACGCCGCAGTAGGTGTTGAT
1 AAAAACGCCGCAATAGGTGTTGAT
638034 GTCTTGCGAC
Statistics
Matches: 200, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
43 193 0.96
44 2 0.01
45 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (44 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTCGAT
Found at i:638049 original size:43 final size:42
Alignment explanation
Indices: 637959--638077 Score: 109
Period size: 43 Copynumber: 2.8 Consensus size: 42
637949 TTTAGCAGCG
* * *
637959 TTTTTCAG-ACAAACGCCGCAATAGGTTATGATGTTTAGCGGCG
1 TTTTTC-GCACAAACGCCGCAGTAGGTT-TGATGTTTAGCGACA
638002 TTTTTCGCTA-AAACGCCGCAGTAGGTGTTGATGTCTT-GCGACA
1 TTTTTCGC-ACAAACGCCGCAGTAGGT-TTGATGT-TTAGCGACA
** *
638045 TTTTTTTCACAAACGCCGTAGTAGGTATTGATG
1 TTTTTCGCACAAACGCCGCAGTAGGT-TTGATG
638078 ATTTGCGGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 2 0.03
43 58 0.91
44 4 0.06
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (42 bp):
TTTTTCGCACAAACGCCGCAGTAGGTTTGATGTTTAGCGACA
Found at i:638049 original size:86 final size:86
Alignment explanation
Indices: 637752--638033 Score: 379
Period size: 86 Copynumber: 3.3 Consensus size: 86
637742 TTATTTCACA
* ** * ** *
637752 AAAAACGCCGCAATAGGTATTGATATTTAGTGGCGTTTGTGTGACAAACGCCGCAATAAGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAGGTGTTG
637817 ATATTTAGCGGCGTTTGTCAT
66 ATATTTAGCGGCGTTTGTCAT
* *
637838 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGATAAACGCTGCAATAGGTGTTG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAGGTGTTG
*
637903 ATATTTAACGGCGTTTGTCAT
66 ATATTTAGCGGCGTTTGTCAT
** *
637924 AAAAACATCGCAATAGGTGTTAATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAGGT-TAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAGGTGT-T
* * *
637988 GATGTTTAGCGGCGTTTTTCGCT
65 GATATTTAGCGGCGTTTGTC-AT
*
638011 -AAAACGCCGCAGTAGGTGTTGAT
1 AAAAACGCCGCAATAGGTGTTGAT
638034 GTCTTGCGAC
Statistics
Matches: 171, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
85 1 0.01
86 169 0.99
87 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (86 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAGGTGTTG
ATATTTAGCGGCGTTTGTCAT
Found at i:641345 original size:42 final size:42
Alignment explanation
Indices: 641285--641623 Score: 424
Period size: 42 Copynumber: 8.2 Consensus size: 42
641275 GTAAAATTGT
*
641285 GGCGTTTGTAAT-ACAAACGCCACTAAAGTACGAGTC-ATTAGC
1 GGCGTTTGTATTCA-AAACGCCACTAAAGTACGAGTCTA-TAGC
*
641327 AGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
* *
641369 GGCGTTTGCATTCAAAATGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
* * *
641411 GGCGTTTGTA-TAAAAATGCCACTAAAATACGAGTC-ATTAGC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTA-TAGC
* *
641452 AGCGTTTGTATTCAAAACGCCACTAAAGTATGAGTCTATAGC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
*
641494 GGCGTTTGTA--CAAAAACGCCACTAAAGTACTAGTCTATAGC
1 GGCGTTTGTATTC-AAAACGCCACTAAAGTACGAGTCTATAGC
* * * * *
641535 GGCGTTTATA-TAAAAACGCTACTAAAGTACGAGTCTTTAGA
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
* * *
641576 GGCGTTTGCATTCAAAACGCCACTAAAGTA-GAGTTTATAGT
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
641617 GGCGTTT
1 GGCGTTT
641624 TGGATACAAA
Statistics
Matches: 260, Mismatches: 29, Indels: 17
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.01
41 120 0.46
42 135 0.52
43 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (42 bp):
GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
Found at i:641442 original size:41 final size:41
Alignment explanation
Indices: 641285--641662 Score: 410
Period size: 42 Copynumber: 9.2 Consensus size: 41
641275 GTAAAATTGT
*
641285 GGCGTTTGTAATACAAACGCCACTAAAGTACGAGTC-ATTAGC
1 GGCGTTTGT-ATAAAAACGCCACTAAAGTACGAGTCTA-TAGC
* *
641327 AGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATAGC
* * *
641369 GGCGTTTGCATTCAAAATGCCACTAAAGTACGAGTCTATAGC
1 GGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATAGC
* *
641411 GGCGTTTGTATAAAAATGCCACTAAAATACGAGTC-ATTAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTA-TAGC
* * *
641452 AGCGTTTGTATTCAAAACGCCACTAAAGTATGAGTCTATAGC
1 GGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATAGC
* *
641494 GGCGTTTGTACAAAAACGCCACTAAAGTACTAGTCTATAGC
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGC
* * * *
641535 GGCGTTTATATAAAAACGCTACTAAAGTACGAGTCTTTAGA
1 GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGC
* * * *
641576 GGCGTTTGCATTCAAAACGCCACTAAAGTA-GAGTTTATAGT
1 GGCGTTTGTA-TAAAAACGCCACTAAAGTACGAGTCTATAGC
* * *
641617 GGCGTTTTGGATACAAATGCCAC-AAATGT-C-A-TCTATAGC
1 GGCG-TTTGTATAAAAACGCCACTAAA-GTACGAGTCTATAGC
641656 GGCGTTT
1 GGCGTTT
641663 CTAGATACAA
Statistics
Matches: 289, Mismatches: 38, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
38 3 0.01
39 10 0.03
40 5 0.02
41 130 0.45
42 139 0.48
43 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (41 bp):
GGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATAGC
Found at i:641465 original size:83 final size:84
Alignment explanation
Indices: 641285--641623 Score: 422
Period size: 83 Copynumber: 4.1 Consensus size: 84
641275 GTAAAATTGT
* * *
641285 GGCGTTTGTAAT-ACAAACGCCACTAAAGTACGAGTC-ATTAGCAGCGTTTGTATTCAAAACGCC
1 GGCGTTTGTATTCA-AAACGCCACTAAAGTACGAGTCTA-TAGCGGCGTTTGTATTAAAAACGCC
641348 ACTAAAGTACGAGTCTATAGC
64 ACTAAAGTACGAGTCTATAGC
* * *
641369 GGCGTTTGCATTCAAAATGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTA-TAAAAATGCCAC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCAC
*
641433 TAAAATACGAGTC-ATTAGC
66 TAAAGTACGAGTCTA-TAGC
* * *
641452 AGCGTTTGTATTCAAAACGCCACTAAAGTATGAGTCTATAGCGGCGTTTGTA-CAAAAACGCCAC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCAC
*
641516 TAAAGTACTAGTCTATAGC
66 TAAAGTACGAGTCTATAGC
* * * * * * *
641535 GGCGTTTATA-TAAAAACGCTACTAAAGTACGAGTCTTTAGAGGCGTTTGCATTCAAAACGCCAC
1 GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCAC
* *
641599 TAAAGTA-GAGTTTATAGT
66 TAAAGTACGAGTCTATAGC
641617 GGCGTTT
1 GGCGTTT
641624 TGGATACAAA
Statistics
Matches: 222, Mismatches: 28, Indels: 12
0.85 0.11 0.05
Matches are distributed among these distances:
82 51 0.23
83 124 0.56
84 45 0.20
85 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (84 bp):
GGCGTTTGTATTCAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTATTAAAAACGCCAC
TAAAGTACGAGTCTATAGC
Found at i:642230 original size:41 final size:42
Alignment explanation
Indices: 642162--642389 Score: 210
Period size: 41 Copynumber: 5.5 Consensus size: 42
642152 GACTATATAT
* * *
642162 TTAACA-TTTTGCGGCGTTTATACAAAAAAACGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGT-TAAAAAAACGCCACTATTGA
* *
642204 TT-ACATTATTGTGGCGTTTGTTAAAAAAACGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTTAAAAAAACGCCACTATTGA
* **
642245 TTAAAACTATTGCGGCGTTT-TTGTAAAAACGCCACTATTGA
1 TTAACACTATTGCGGCGTTTGTTAAAAAAACGCCACTATTGA
642286 TTAACACTATTGCGGCGTTTGTCT---AAAACGCCACTA-TGCA
1 TTAACACTATTGCGGCGTTTGT-TAAAAAAACGCCACTATTG-A
*
642326 TTATA-ACTATTGCGGCG-TT-TTAAGAATAAATGCCACTATATG-
1 TTA-ACACTATTGCGGCGTTTGTTAA-AA-AAACGCCACTAT-TGA
*
642368 TGTAA-TCTATTGCGGCGTTTGT
1 T-TAACACTATTGCGGCGTTTGT
642390 GGTATAAATG
Statistics
Matches: 158, Mismatches: 12, Indels: 30
0.79 0.06 0.15
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
39 4 0.03
40 28 0.18
41 64 0.41
42 52 0.33
43 5 0.03
44 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (42 bp):
TTAACACTATTGCGGCGTTTGTTAAAAAAACGCCACTATTGA
Found at i:642335 original size:40 final size:40
Alignment explanation
Indices: 642187--642487 Score: 220
Period size: 41 Copynumber: 7.3 Consensus size: 40
642177 GTTTATACAA
* * *
642187 AAAAACGCCACTATTGATTACATTATTGTGGCGTTTGT-T
1 AAAAACGCCACTATTGATTAAACTATTGCGGCGTTTGTCT
* *
642226 AAAAAAACGCCACTATTGATTAAAACTATTGCGGCGTTTTTGT
1 --AAAAACGCCACTATTGATT-AAACTATTGCGGCGTTTGTCT
642269 AAAAACGCCACTATTGATTAACACTATTGCGGCGTTTGTCT
1 AAAAACGCCACTATTGATTAA-ACTATTGCGGCGTTTGTCT
**
642310 -AAAACGCCACTA-TGCATTATAACTATTGCGGCGTTT-TAAG
1 AAAAACGCCACTATTG-ATTA-AACTATTGCGGCGTTTGT-CT
* * *
642350 AATAAATGCCACTATATG-TGTAATCTATTGCGGCGTTTGTGGT
1 AA-AAACGCCACTAT-TGAT-TAAACTATTGCGGCGTTTGT-CT
* * * * *** * *
642393 ATAAATGCCGCTAATTTACCGATCTATTGCGGCGTTTTGGCT
1 AAAAACGCCACT-ATTGATTAAACTATTGCGGCG-TTTGTCT
* *
642435 -AAAACGCCACTATATG-TTAATCTATTGCGGCGTTTGTGGT
1 AAAAACGCCACTAT-TGATTAAACTATTGCGGCGTTTGT-CT
*
642475 ATAAACGCCACTA
1 AAAAACGCCACTA
642488 ATTTACCACT
Statistics
Matches: 211, Mismatches: 31, Indels: 36
0.76 0.11 0.13
Matches are distributed among these distances:
39 7 0.03
40 49 0.23
41 77 0.36
42 65 0.31
43 11 0.05
44 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (40 bp):
AAAAACGCCACTATTGATTAAACTATTGCGGCGTTTGTCT
Found at i:642397 original size:42 final size:40
Alignment explanation
Indices: 642230--642554 Score: 240
Period size: 42 Copynumber: 7.9 Consensus size: 40
642220 TTTGTTAAAA
* * *
642230 AAACGCCACTAT-TGATTAAAACTATTGCGGCGTTTTTGTAA
1 AAACGCCACTATATG-TT-AATCTATTGCGGCGTTTTGGTAT
* *
642271 AAACGCCACTAT-TGATTAACACTATTGCGGCG-TTT-GTCT
1 AAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTTGGTAT
* *
642310 AAAACGCCACTATGCAT-TATAA-CTATTGCGGCGTTTTAAGAAT
1 -AAACGCCACTAT--ATGT-TAATCTATTGCGGCGTTTT-GGTAT
*
642353 AAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTAT
1 AAACGCCACTATATGT-TAATCTATTGCGGCGTTT-TGGTAT
* *
642395 AAATGCCGCTA-AT-TTACCGATCTATTGCGGCGTTTTGGCTA-
1 AAACGCCACTATATGTTA---ATCTATTGCGGCGTTTTGG-TAT
642436 AAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTAT
1 AAACGCCACTATATGTTAATCTATTGCGGCGTTT-TGGTAT
* * *
642477 AAACGCCACTA-AT-TTACCACTCTATTGCGGAGTTTATTGTAA
1 AAACGCCACTATATGTTA--A-TCTATTGCGGCGTTT-TGGTAT
* * *
642519 AAACGCCGCTATATGTCAACTCTATTGCAGCGTTTT
1 AAACGCCACTATATGTTAA-TCTATTGCGGCGTTTT
642555 TACAACAAAC
Statistics
Matches: 240, Mismatches: 19, Indels: 50
0.78 0.06 0.16
Matches are distributed among these distances:
39 7 0.03
40 51 0.21
41 67 0.28
42 104 0.43
43 9 0.04
44 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.34
Consensus pattern (40 bp):
AAACGCCACTATATGTTAATCTATTGCGGCGTTTTGGTAT
Found at i:642456 original size:82 final size:83
Alignment explanation
Indices: 642251--642553 Score: 281
Period size: 82 Copynumber: 3.7 Consensus size: 83
642241 TTGATTAAAA
* * * *
642251 CTATTGCGGCGTTT-TTGTAAAAACGCCACTAT-TGATTAACACTATTGCGGCGTTTGT-CTA-A
1 CTATTGCGGAGTTTATGGTAAAAACGCCACTATATG-TTAA-TCTATTGCGGCGTTTGTGGTATA
642312 AACGCCACTATGCATTATA--A--
64 AACGCCACTA---ATT-TACCACT
* * *
642332 CTATTGCGGCGTTT-TAAG-AATAAATGCCACTATATGTGTAATCTATTGCGGCGTTTGTGGTAT
1 CTATTGCGGAGTTTAT-GGTAA-AAACGCCACTATATGT-TAATCTATTGCGGCGTTTGTGGTAT
* *
642395 AAATGCCGCTAATTTACCGA-T
63 AAACGCCACTAATTTACC-ACT
*
642416 CTATTGCGGCGTTT-TGGCT-AAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAA
1 CTATTGCGGAGTTTATGG-TAAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAA
642479 ACGCCACTAATTTACCACT
65 ACGCCACTAATTTACCACT
* * * *
642498 CTATTGCGGAGTTTATTGTAAAAACGCCGCTATATGTCAACTCTATTGCAGCGTTT
1 CTATTGCGGAGTTTATGGTAAAAACGCCACTATATGTTAA-TCTATTGCGGCGTTT
642554 TTACAACAAA
Statistics
Matches: 191, Mismatches: 15, Indels: 29
0.81 0.06 0.12
Matches are distributed among these distances:
80 2 0.01
81 21 0.11
82 85 0.45
83 44 0.23
84 39 0.20
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (83 bp):
CTATTGCGGAGTTTATGGTAAAAACGCCACTATATGTTAATCTATTGCGGCGTTTGTGGTATAAA
CGCCACTAATTTACCACT
Found at i:642554 original size:124 final size:123
Alignment explanation
Indices: 642188--642554 Score: 314
Period size: 124 Copynumber: 3.0 Consensus size: 123
642178 TTTATACAAA
* * * *
642188 AAAACGCCACTATTGATTA-CATTATTGTGGCGTTTGTTAA-AA-AAACGCCACTAT-TGAT-TA
1 AAAACGCCACTA-TCATTATAACTATTGCGGCG-TT-TTAAGAATAAACGCCACTATATG-TGT-
* * * *
642248 AAACTATTGCGGCGTTTTTGTAAAAACGCCACTAT-TGATTAACACTATTGCGGCG-TTTGTCT
61 AATCTATTGCGGCGTTTTTGTAAAAACGCCGCTATATG-TTAACTCTATTGCGGCGTTTTGGCT
*
642310 AAAACGCCACTATGCATTATAACTATTGCGGCGTTTTAAGAATAAATGCCACTATATGTGTAATC
1 AAAACGCCACTAT-CATTATAACTATTGCGGCGTTTTAAGAATAAACGCCACTATATGTGTAATC
* * * *
642375 TATTGCGGCGTTTGTGGTATAAATGCCGCTA-AT-TTACCGATCTATTGCGGCGTTTTGGCT
65 TATTGCGGCGTTT-TTGTAAAAACGCCGCTATATGTTAAC--TCTATTGCGGCGTTTTGGCT
* *
642435 AAAACGCCACTAT-ATGT-TAATCTATTGCGGCGTTTGT-GGTATAAACGCCACTA-AT-T-TAC
1 AAAACGCCACTATCAT-TATAA-CTATTGCGGCGTTT-TAAGAATAAACGCCACTATATGTGTA-
* * *
642494 CACTCTATTGCGGAGTTTATTGTAAAAACGCCGCTATATGTCAACTCTATTGCAGCGTTTT
62 -A-TCTATTGCGGCGTTT-TTGTAAAAACGCCGCTATATGTTAACTCTATTGCGGCGTTTT
642555 TACAACAAAC
Statistics
Matches: 202, Mismatches: 24, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
121 7 0.03
122 25 0.12
123 46 0.23
124 99 0.49
125 22 0.11
126 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (123 bp):
AAAACGCCACTATCATTATAACTATTGCGGCGTTTTAAGAATAAACGCCACTATATGTGTAATCT
ATTGCGGCGTTTTTGTAAAAACGCCGCTATATGTTAACTCTATTGCGGCGTTTTGGCT
Found at i:646535 original size:74 final size:74
Alignment explanation
Indices: 646431--646826 Score: 260
Period size: 74 Copynumber: 5.6 Consensus size: 74
646421 CGTCTCATAT
* * *
646431 ATATATATATATATTATAG-TTTAAAAATATTTTTAAAACCTATATATAATATATAGTTTTGAAA
1 ATATATATAT-TA-TATAGTTTTTAAAATATTTTGAAAA--TAAATATAATATATAGTTTT-AAA
646495 ACATGTTTGAAAAC
61 ACATGTTTGAAAAC
* * * *
646509 AT-T-T-TATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATACAGTTTTTAAATATT
1 ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTAAAACATG
*
646571 TTTGAAAAT
66 TTTGAAAAC
* * *
646580 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTT-TAA-ATA
1 ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTAAAACATG
* *
646643 TAT--ATA-
66 TTTGAAAAC
* * * *
646649 TTATATAGT-TTTTAAAGTATTTTGAAA-A---T--AAATATAATAT-ATA-AT--TTTTAAAAC
1 ATATATA-TATTATATAGT-TTTTAAAATATTTTGAAAATA-AATATAATATATAGTTTTAAAAC
*
646703 AT-TTTTAAAA-
63 ATGTTTGAAAAC
* * *
646713 A-ATATATATTATATAGTTTTT-AAACATTTTGAAAAT--ATAT-ATA-GT--TTTTAAAAAATA
1 ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTAAAACAT-
*
646770 TTTTGAAGAAC
65 GTTTGAA-AAC
*
646781 ATATATATATTATATAGTTTTTAAAAAATATTTTTAAAA-AAATATA
1 ATATATATATTATATAGTTTTT--AAAATATTTTGAAAATAAATATA
646827 TTTTGGGCCC
Statistics
Matches: 259, Mismatches: 30, Indels: 62
0.74 0.09 0.18
Matches are distributed among these distances:
61 7 0.03
62 10 0.04
63 16 0.06
64 28 0.11
65 6 0.02
66 6 0.02
67 6 0.02
68 1 0.00
69 34 0.13
70 9 0.03
71 15 0.06
72 35 0.14
73 12 0.05
74 67 0.26
75 3 0.01
76 1 0.00
77 1 0.00
78 2 0.01
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (74 bp):
ATATATATATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATATAGTTTTAAAACATG
TTTGAAAAC
Found at i:646561 original size:36 final size:36
Alignment explanation
Indices: 646435--646826 Score: 276
Period size: 36 Copynumber: 11.1 Consensus size: 36
646425 TCATATATAT
* * *
646435 ATATATATATTATAG-TTTAAAAATATTTTTAAAACCTAT
1 ATATA-ATA-TATAGTTTTTAAAATATTTTGAAAA--TAA
* * *
646474 ATATAATATATAGTTTTGAAAACATGTTTGAAAA-CA
1 ATATAATATATAGTTTTTAAAATAT-TTTGAAAATAA
* * *
646510 TTTTATTATATAGTTTTTAAAATATTTTGAAAATAA
1 ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
*
646546 ATATAATATACAGTTTTT-AAATATTTTTGAAAATATA
1 ATATAATATATAGTTTTTAAAATA-TTTTGAAAATA-A
* *
646583 TATATATTATATAGTTTTTAAAGTATTTTGAAAATAA
1 -ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
646620 ATATAATATATAGTTTTT-AAATA---T----AT--
1 ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
*
646646 ATAT--TATATAGTTTTTAAAGTATTTTGAAAATAA
1 ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
* * *
646680 ATATAATATATAATTTTTAAAACATTTTTAAAA-AA
1 ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
* *
646715 TATATATTATATAGTTTTT-AAACATTTTG-----AA
1 -ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
*
646746 A-AT-ATATATAGTTTTTAAAAAATATTTTGAAGAACATAT
1 ATATAATATATAGTTTTT--AAAATATTTTG-A-AA-ATAA
* *
646785 ATATATTATATAGTTTTTAAAAAATATTTTTAAAA-AA
1 ATATAATATATAGTTTTT--AAAATATTTTGAAAATAA
646822 ATATA
1 ATATA
646827 TTTTGGGCCC
Statistics
Matches: 286, Mismatches: 34, Indels: 68
0.74 0.09 0.18
Matches are distributed among these distances:
24 12 0.04
25 4 0.01
26 4 0.01
28 15 0.05
29 2 0.01
30 1 0.00
31 11 0.04
32 3 0.01
34 4 0.01
35 28 0.10
36 102 0.36
37 13 0.05
38 40 0.14
39 20 0.07
40 3 0.01
41 24 0.08
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATAATATATAGTTTTTAAAATATTTTGAAAATAA
Found at i:646641 original size:24 final size:24
Alignment explanation
Indices: 646614--646664 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
646604 AGTATTTTGA
646614 AAATAAATATAATATATAGTTTTT
1 AAATAAATATAATATATAGTTTTT
* *
646638 AAATATATATATTATATAGTTTTT
1 AAATAAATATAATATATAGTTTTT
646662 AAA
1 AAA
646665 GTATTTTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
AAATAAATATAATATATAGTTTTT
Found at i:646666 original size:60 final size:60
Alignment explanation
Indices: 646580--646700 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
646570 TTTTGAAAAT
*
646580 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTAA
1 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATTTTTAA
646640 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATTTTTAA
1 ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATTTTTAA
646700 A
1 A
646701 ACATTTTTAA
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:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (60 bp):
ATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATTTTTAA
Found at i:646684 original size:134 final size:131
Alignment explanation
Indices: 646513--646755 Score: 389
Period size: 134 Copynumber: 1.8 Consensus size: 131
646503 GAAAACATTT
* *
646513 TATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATACAGTTTTT-AAATATTTTTGAA
1 TATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATACAATTTTTAAAACATTTTT-AA
*
646577 AATATATATATATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAGTTTTTAAAT
65 AA-A-ATATATATTATATAGTTTTTAAA-CATTTTGAAAATAAATATAATATATAGTTTTTAAAT
646642 ATATA
127 ATATA
* *
646647 TATTATATAGTTTTTAAAGTATTTTGAAAATAAATATAATATATAATTTTTAAAACATTTTTAAA
1 TATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATACAATTTTTAAAACATTTTTAAA
*
646712 AAATATATATTATATAGTTTTTAAACATTTTGAAAATATATATA
66 AAATATATATTATATAGTTTTTAAACATTTTGAAAATAAATATA
646756 GTTTTTAAAA
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
131 17 0.17
132 23 0.23
133 1 0.01
134 52 0.51
135 9 0.09
ACGTcount: A:0.46, C:0.01, G:0.05, T:0.47
Consensus pattern (131 bp):
TATTATATAGTTTTTAAAATATTTTGAAAATAAATATAATATACAATTTTTAAAACATTTTTAAA
AAATATATATTATATAGTTTTTAAACATTTTGAAAATAAATATAATATATAGTTTTTAAATATAT
A
Found at i:646826 original size:41 final size:41
Alignment explanation
Indices: 646750--646827 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
646740 TTTGAAAATA
* *
646750 TATATAGTTTTTAAAAAATATTTTGAAGAACATATATATAT
1 TATATAGTTTTTAAAAAATATTTTGAAAAAAATATATATAT
*
646791 TATATAGTTTTTAAAAAATATTTTTAAAAAAATATAT
1 TATATAGTTTTTAAAAAATATTTTGAAAAAAATATAT
646828 TTTGGGCCCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (41 bp):
TATATAGTTTTTAAAAAATATTTTGAAAAAAATATATATAT
Found at i:648753 original size:35 final size:35
Alignment explanation
Indices: 648707--648855 Score: 174
Period size: 35 Copynumber: 4.3 Consensus size: 35
648697 AAAATAACCC
* * *
648707 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* *
648742 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
* *
648777 TCAA-TTAAATCTTAAACCCCAAATTCTAAAATAAT
1 TCAATTTAATTC-TAAACCCCAAATTCCAAAATAAT
* * * *
648812 TCAATTAAATTTTAAACCCCAAATTCTAAAATACT
1 TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
*
648847 TTAATTTAA
1 TCAATTTAA
648856 GGTTTAGAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
34 5 0.05
35 90 0.91
36 4 0.04
ACGTcount: A:0.44, C:0.21, G:0.01, T:0.35
Consensus pattern (35 bp):
TCAATTTAATTCTAAACCCCAAATTCCAAAATAAT
Found at i:648917 original size:35 final size:35
Alignment explanation
Indices: 648849--648923 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 35
648839 AAAATACTTT
* * * *
648849 AATTTAAGGTTTAGAATGTAATTGAATTATTTTGG
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
* *
648884 AATTTAGGGTTTAGAATGAAATTAAAGTGTTTTGA
1 AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
648919 AATTT
1 AATTT
648924 TGAACATGAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (35 bp):
AATTTAAGGTTTAGAATGAAATTAAAGTATTTTGA
Found at i:650870 original size:21 final size:20
Alignment explanation
Indices: 650844--650910 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
650834 ACTATCACAA
650844 TGCGATTTTCCAATTTCGCAT
1 TGCGATTTTCCAA-TTCGCAT
* ** *
650865 TGCGATTTACGTATTCGCGT
1 TGCGATTTTCCAATTCGCAT
* *
650885 TGCGATTTTCATAATTCGCAA
1 TGCGATTTTC-CAATTCGCAT
650906 TGCGA
1 TGCGA
650911 ATTAGGAAAA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (20 bp):
TGCGATTTTCCAATTCGCAT
Found at i:650926 original size:22 final size:21
Alignment explanation
Indices: 650900--650954 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
650890 TTTTCATAAT
*
650900 TCGCAATGCGAATTAGGAAAAA
1 TCGCAATGCGAATTACG-AAAA
* *
650922 TCGCAATGTGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
650942 TCGCAATGCGAAT
1 TCGCAATGCGAAT
650955 CTTACTATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 14 0.50
21 3 0.11
22 11 0.39
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:651529 original size:19 final size:19
Alignment explanation
Indices: 651491--651557 Score: 80
Period size: 19 Copynumber: 3.5 Consensus size: 19
651481 TTCGAGAATG
*
651491 AAAATCGCAACGTGGAAATA
1 AAAATCGCAACG-CGAAATA
**
651511 ACTATCGCAACGCGAAATA
1 AAAATCGCAACGCGAAATA
**
651530 AAAATCGCAACGCGAAACC
1 AAAATCGCAACGCGAAATA
651549 AAAATCGCA
1 AAAATCGCA
651558 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 30 0.75
20 10 0.25
ACGTcount: A:0.48, C:0.24, G:0.16, T:0.12
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATA
Found at i:651575 original size:19 final size:19
Alignment explanation
Indices: 651553--651717 Score: 152
Period size: 19 Copynumber: 9.1 Consensus size: 19
651543 GAAACCAAAA
*
651553 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
651572 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
651586 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
651605 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* **
651624 TCGCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
651643 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
651657 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
651676 TCAGCGTTGCGATTCTCATT
1 TC-GCGTTGCGATTTTCATT
*
651696 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
651716 TC
1 TC
651718 AACCAAAAGA
Statistics
Matches: 119, Mismatches: 15, Indels: 24
0.75 0.09 0.15
Matches are distributed among these distances:
14 20 0.17
16 5 0.04
17 5 0.04
19 58 0.49
20 29 0.24
21 2 0.02
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:651600 original size:33 final size:33
Alignment explanation
Indices: 651558--651692 Score: 171
Period size: 33 Copynumber: 3.9 Consensus size: 33
651548 CAAAATCGCA
**
651558 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
** *
651591 TTGCGATTTTCATTTCGCGTTGCGATTTTCATTTCG
1 TTGCGATAGTCATTTCGCGTTGCGA--TTC-TCTCG
651627 CATTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
1 --TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
651662 TTGCGATAGTCATTTCAGCGTTGCGATTCTC
1 TTGCGATAGTCATTTC-GCGTTGCGATTCTC
651693 ATTATCTCGT
Statistics
Matches: 92, Mismatches: 4, Indels: 11
0.86 0.04 0.10
Matches are distributed among these distances:
33 41 0.45
34 14 0.15
35 7 0.08
36 7 0.08
38 23 0.25
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (33 bp):
TTGCGATAGTCATTTCGCGTTGCGATTCTCTCG
Found at i:651675 original size:71 final size:72
Alignment explanation
Indices: 651553--651695 Score: 234
Period size: 71 Copynumber: 2.0 Consensus size: 72
651543 GAAACCAAAA
** **
651553 TCGCATTGCGATTTTCATTTCGCGTTGCGATTCTCTCGTTGCGATTTTCATTTC-GCGTTGCGAT
1 TCGCATTGCGATAGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCAGCGTTGCGAT
*
651617 TTTCATT
66 TCTCATT
651624 TCGCATTGCGATAGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCAGCGTTGCGAT
1 TCGCATTGCGATAGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCAGCGTTGCGAT
651689 TCTCATT
66 TCTCATT
651696 ATCTCGTTGC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 50 0.76
72 16 0.24
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.43
Consensus pattern (72 bp):
TCGCATTGCGATAGTCATTTCGCGTTGCGATTCTCTCGTTGCGATAGTCATTTCAGCGTTGCGAT
TCTCATT
Found at i:653875 original size:21 final size:21
Alignment explanation
Indices: 653851--653917 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
653841 TCATTCCTCG
653851 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
653872 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
653893 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
653914 AGAG
1 AGAG
653918 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:655293 original size:14 final size:14
Alignment explanation
Indices: 655274--655309 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
655264 ATTGTTTAAT
655274 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
655288 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
655302 TGATTTGT
1 TGATTTGT
655310 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:655466 original size:33 final size:33
Alignment explanation
Indices: 655424--655489 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
655414 CTATCGTAAT
655424 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
1 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
*
655457 GCGAAATGAAAATCGCAACGAGGGAATCGCAAC
1 GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
655490 CTCATTGCGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.21, G:0.26, T:0.09
Consensus pattern (33 bp):
GCGAAATGAAAATCGCAACGAGAGAATCGCAAC
Found at i:655472 original size:19 final size:19
Alignment explanation
Indices: 655424--655476 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 19
655414 CTATCGTAAT
655424 GCGAAATGAAAATCGCAA-
1 GCGAAATGAAAATCGCAAC
*
655442 -CG--A-GAGAATCGCAAC
1 GCGAAATGAAAATCGCAAC
655457 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
655476 G
1 G
655477 AGGGAATCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 10 0.36
15 1 0.04
16 2 0.07
17 2 0.07
18 1 0.04
19 12 0.43
ACGTcount: A:0.45, C:0.21, G:0.25, T:0.09
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAC
Found at i:655516 original size:19 final size:19
Alignment explanation
Indices: 655492--655585 Score: 64
Period size: 19 Copynumber: 5.5 Consensus size: 19
655482 ATCGCAACCT
655492 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
655511 CATTGCGA-----AATTCG
1 CATTGCGATTTTCATTTCG
* * *
655525 CGTTGCAATTTTTATTTCG
1 CATTGCGATTTTCATTTCG
*
655544 CATTGCGA--TTC-TCTCG
1 CATTGCGATTTTCATTTCG
*
655560 --TTGCAATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
655577 CATTGCGAT
1 CATTGCGAT
655586 AGTAATTTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 20
0.64 0.13 0.24
Matches are distributed among these distances:
14 16 0.30
16 7 0.13
17 6 0.11
19 25 0.46
ACGTcount: A:0.18, C:0.21, G:0.17, T:0.44
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:655542 original size:33 final size:34
Alignment explanation
Indices: 655494--655584 Score: 132
Period size: 33 Copynumber: 2.7 Consensus size: 34
655484 CGCAACCTCA
*
655494 TTGCGATTTTCATTTCGCATTGCGAAAT-TCGCG
1 TTGCAATTTTCATTTCGCATTGCGAAATCTCGCG
* * *
655527 TTGCAATTTTTATTTCGCATTGCG-ATTCTCTCG
1 TTGCAATTTTCATTTCGCATTGCGAAATCTCGCG
655560 TTGCAATTTTCATTTCGCATTGCGA
1 TTGCAATTTTCATTTCGCATTGCGA
655585 TAGTAATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
32 2 0.04
33 49 0.96
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (34 bp):
TTGCAATTTTCATTTCGCATTGCGAAATCTCGCG
Found at i:658105 original size:24 final size:24
Alignment explanation
Indices: 658071--658124 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
658061 CTGAAACATC
*
658071 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
658095 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
658119 ATCAAA
1 ATCAAA
658125 TTTCGAATAC
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:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:659022 original size:20 final size:20
Alignment explanation
Indices: 658933--659024 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
658923 TGCGAATTTG
* *
658933 GAAAATCGCAATGCGATACT
1 GAAAATCGCAACGAGATACT
** *
658953 GACTATCGCAACGAGATAAT
1 GAAAATCGCAACGAGATACT
* *
658973 ACAAAATCGCAACGAGATTCT
1 -GAAAATCGCAACGAGATACT
*** *
658994 GACTTTCGCAACGAGATTCT
1 GAAAATCGCAACGAGATACT
659014 GAAAATCGCAA
1 GAAAATCGCAA
659025 TCATCTTCAA
Statistics
Matches: 54, Mismatches: 17, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
20 39 0.72
21 15 0.28
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.21
Consensus pattern (20 bp):
GAAAATCGCAACGAGATACT
Found at i:659331 original size:20 final size:20
Alignment explanation
Indices: 659238--659333 Score: 97
Period size: 20 Copynumber: 4.8 Consensus size: 20
659228 CAACGGGGAA
*
659238 ATCGCAACACGAAAATGGCT
1 ATCGCAACTCGAAAATGGCT
659258 ATCGCAA-TGCGAAAATGGCT
1 ATCGCAACT-CGAAAATGGCT
* ***
659278 ATCGCAATTCG-AAATGAAAA
1 ATCGCAACTCGAAAATG-GCT
*
659298 ATCGCAACGCGAAAATGGCT
1 ATCGCAACTCGAAAATGGCT
*
659318 ATCGCAACTAGAAAAT
1 ATCGCAACTCGAAAAT
659334 CGCAATGCGA
Statistics
Matches: 61, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 5 0.08
20 50 0.82
21 6 0.10
ACGTcount: A:0.42, C:0.21, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACTCGAAAATGGCT
Found at i:659337 original size:34 final size:38
Alignment explanation
Indices: 659258--659345 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 38
659248 GAAAATGGCT
659258 ATCGCAATGCGAAAATGGCTATCGCAATTCGAAATGAAAA
1 ATCGCAATGCGAAAATGGCTATCGCAA-TC-AAATGAAAA
* *
659298 ATCGCAACGCGAAAATGGCTATCGCAA-C-TA-G-AAA
1 ATCGCAATGCGAAAATGGCTATCGCAATCAAATGAAAA
659332 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
659346 TAAAAATCGC
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
34 16 0.36
35 1 0.02
36 1 0.02
38 1 0.02
40 26 0.58
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (38 bp):
ATCGCAATGCGAAAATGGCTATCGCAATCAAATGAAAA
Found at i:659393 original size:19 final size:19
Alignment explanation
Indices: 659352--659419 Score: 83
Period size: 19 Copynumber: 3.8 Consensus size: 19
659342 GAAATAAAAA
659352 TCGCATTGCAATTTTC---
1 TCGCATTGCAATTTTCATT
659368 TCG--TTGCAATTTTCATT
1 TCGCATTGCAATTTTCATT
*
659385 TCGCATTGCGATTTTCATT
1 TCGCATTGCAATTTTCATT
*
659404 TCGCATTGCGATTTTC
1 TCGCATTGCAATTTTC
659420 TCGTTGCAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
14 11 0.24
16 3 0.07
17 3 0.07
19 29 0.63
ACGTcount: A:0.16, C:0.22, G:0.15, T:0.47
Consensus pattern (19 bp):
TCGCATTGCAATTTTCATT
Found at i:661522 original size:19 final size:18
Alignment explanation
Indices: 661458--661597 Score: 89
Period size: 20 Copynumber: 7.9 Consensus size: 18
661448 ACGAAACTTA
*
661458 AAATCGCAACGCGAAAATG
1 AAATCGCAATGCG-AAATG
* *
661477 ACTATCGCAACGCGGAAATGG
1 A-AATCGCAATGC-GAAAT-G
**
661498 CTATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
661516 CAAATCGCAA--CGAAA--
1 -AAATCGCAATGCGAAATG
661531 AAATCGCAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
661549 AAAATCGCAA--CGACA--
1 -AAATCGCAATGCGAAATG
**
661564 AAATCTTAATGCGAAATG
1 AAATCGCAATGCGAAATG
*
661582 AAATCGCAACGCGAAA
1 AAATCGCAATGCGAAA
661598 CACAAATCGC
Statistics
Matches: 96, Mismatches: 12, Indels: 27
0.71 0.09 0.20
Matches are distributed among these distances:
14 16 0.17
16 9 0.09
17 9 0.09
18 14 0.15
19 22 0.23
20 24 0.25
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.20, T:0.14
Consensus pattern (18 bp):
AAATCGCAATGCGAAATG
Found at i:661536 original size:14 final size:14
Alignment explanation
Indices: 661517--661568 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
661507 TGCGAAATGC
661517 AAATCGCAACGAAA
1 AAATCGCAACGAAA
661531 AAATCGCAATGCGAAATGA
1 AAATCGCAA--CG-AA--A
*
661550 AAATCGCAACGACA
1 AAATCGCAACGAAA
661564 AAATC
1 AAATC
661569 TTAATGCGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
14 15 0.47
16 3 0.09
17 4 0.12
19 10 0.31
ACGTcount: A:0.52, C:0.21, G:0.15, T:0.12
Consensus pattern (14 bp):
AAATCGCAACGAAA
Found at i:661542 original size:33 final size:32
Alignment explanation
Indices: 661500--661592 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
661490 GGAAATGGCT
661500 ATCGCAATGCGAAATGCAAATCGCAACGAAAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGAAAAA
*
661533 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATG-AAATCGCAACGAAAAA
**
661566 ATCTTAATGCGAAATGAAATCGCAACG
1 ATCGCAATGCGAAATGAAATCGCAACG
661593 CGAAACACAA
Statistics
Matches: 56, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
32 11 0.20
33 45 0.80
ACGTcount: A:0.46, C:0.20, G:0.18, T:0.15
Consensus pattern (32 bp):
ATCGCAATGCGAAATGAAATCGCAACGAAAAA
Found at i:661626 original size:19 final size:17
Alignment explanation
Indices: 661604--661667 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 17
661594 GAAACACAAA
661604 TCGCATTGCGACTTTCATT
1 TCGCATTGCGA-TTT-ATT
*
661623 TCGCATTGCGATTT-TG
1 TCGCATTGCGATTTATT
661639 TCG--TTGCGATTTTTATT
1 TCGCATTGCGA--TTTATT
661656 TCGCATTGCGAT
1 TCGCATTGCGAT
661668 AGCCATTTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 12
0.73 0.04 0.23
Matches are distributed among these distances:
14 6 0.16
16 7 0.18
17 5 0.13
18 3 0.08
19 17 0.45
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.45
Consensus pattern (17 bp):
TCGCATTGCGATTTATT
Found at i:661675 original size:19 final size:20
Alignment explanation
Indices: 661653--661695 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
661643 TGCGATTTTT
661653 ATTT-CGCATTGCGATAGCC
1 ATTTCCGCATTGCGATAGCC
* *
661672 ATTTCCGCGTTGCGATAGTC
1 ATTTCCGCATTGCGATAGCC
661692 ATTT
1 ATTT
661696 TCATGTTGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 4 0.19
20 17 0.81
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (20 bp):
ATTTCCGCATTGCGATAGCC
Found at i:661716 original size:20 final size:20
Alignment explanation
Indices: 661661--661726 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
661651 TTATTTCGCA
* * **
661661 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGTCATTTTCATG
661681 TTGCGATAGTCATTTTCATG
1 TTGCGATAGTCATTTTCATG
*
661701 TTGCGATAGTCATTTTAATG
1 TTGCGATAGTCATTTTCATG
661721 TTGCGA
1 TTGCGA
661727 AAGTAAACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCATG
Found at i:662234 original size:18 final size:18
Alignment explanation
Indices: 662208--662252 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
662198 GTCGATCAGA
*
662208 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
662226 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
662244 TGATGGCTC
1 TGATGGCTC
662253 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:663620 original size:20 final size:20
Alignment explanation
Indices: 663572--663630 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
663562 AATAGTTTTT
** *
663572 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
663592 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
663612 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
663631 AGAGAATCGC
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:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:663920 original size:22 final size:22
Alignment explanation
Indices: 663893--663936 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
663883 GATGGAGATA
663893 GACGGATTTCACCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
**
663915 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCACCGGAGATGGG
663937 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCACCGGAGATGGG
Found at i:664231 original size:20 final size:20
Alignment explanation
Indices: 664104--664238 Score: 103
Period size: 20 Copynumber: 6.7 Consensus size: 20
664094 CGCTTTGAAA
*
664104 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * * *
664125 ATCGCGTTACGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
664145 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
664165 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
664186 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
664206 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
664226 ATCGCAATGCGAT
1 ATCGCATTGCGAT
664239 TTACTTATTC
Statistics
Matches: 93, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
19 5 0.05
20 64 0.69
21 22 0.24
22 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:664237 original size:61 final size:61
Alignment explanation
Indices: 664104--664240 Score: 175
Period size: 61 Copynumber: 2.2 Consensus size: 61
664094 CGCTTTGAAA
* * * *
664104 ATCGCATTGCGATTATGTATTATCGCGTTACGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTACGAAAGTAAGAATCGCATTGCGAAAGTCAGT
* * * * * *
664165 ATCTCGTTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTACGAAAGTAAGAATCGCATTGCGAAAGTCAGT
*
664226 ATCGCAATGCGATTT
1 ATCGCATTGCGATTT
664241 ACTTATTCGC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTACGAAAGTAAGAATCGCATTGCGAAAGTCAGT
Found at i:664328 original size:21 final size:21
Alignment explanation
Indices: 664288--664328 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
664278 ACTGTAGTCC
** *
664288 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACT
664309 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATGCAAC
664329 GTGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGAAATGCAACT
Found at i:666000 original size:31 final size:31
Alignment explanation
Indices: 665960--666051 Score: 102
Period size: 31 Copynumber: 3.1 Consensus size: 31
665950 TTTTAACTGA
*
665960 TTGAT-AAGTTTAATAATCAATTTTAATAAT
1 TTGATAAAGTTTAATGATCAATTTTAATAAT
* *
665990 TTGATAAAGTTTAATGATCATTTTATAATTAT
1 TTGATAAAGTTTAATGATCAATTT-TAATAAT
* *
666022 TTGA-AAATTTTAATGA-CTATTTT-ATAAT
1 TTGATAAAGTTTAATGATCAATTTTAATAAT
666050 TT
1 TT
666052 CTAAAATTTT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
28 6 0.11
29 1 0.02
30 9 0.17
31 27 0.51
32 10 0.19
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (31 bp):
TTGATAAAGTTTAATGATCAATTTTAATAAT
Found at i:666034 original size:62 final size:59
Alignment explanation
Indices: 665928--666051 Score: 133
Period size: 62 Copynumber: 2.1 Consensus size: 59
665918 AGTGGTACAT
* * *
665928 TTTGATAAATTTAAGGATTATTTTTTAACTGATTGATAAGTTTAATAATCAATTTTAATAA
1 TTTGATAAATTTAAGGATCATTTTATAACTGATTGAAAAGTTTAATAA-CAATTTT-ATAA
* * * * *
665989 TTTGATAAAGTTTAATGATCATTTTATAA-TTATTTGAAAATTTTAATGACTATTTTATAA
1 TTTGATAAA-TTTAAGGATCATTTTATAACTGA-TTGAAAAGTTTAATAACAATTTTATAA
666049 TTT
1 TTT
666052 CTAAAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
60 7 0.13
61 17 0.32
62 29 0.55
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (59 bp):
TTTGATAAATTTAAGGATCATTTTATAACTGATTGAAAAGTTTAATAACAATTTTATAA
Found at i:666067 original size:29 final size:32
Alignment explanation
Indices: 665999--666067 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 32
665989 TTTGATAAAG
*
665999 TTTAATGA-TCATTTTATAATTATTTGAAAAT
1 TTTAATGACTCATTTTATAATTATCTGAAAAT
666030 TTTAATGACT-ATTTTATAATT-TCT-AAAAT
1 TTTAATGACTCATTTTATAATTATCTGAAAAT
666059 TTTAATGAC
1 TTTAATGAC
666068 CAAAATATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 14 0.39
30 2 0.06
31 19 0.53
32 1 0.03
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.51
Consensus pattern (32 bp):
TTTAATGACTCATTTTATAATTATCTGAAAAT
Found at i:673778 original size:20 final size:19
Alignment explanation
Indices: 673722--673778 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
673712 TAAAAACTAT
*
673722 ATATTAAAAACTATCAATAA
1 ATATTAAAAACTAT-AAGAA
*
673742 ATATTAAAATA-TTTAAGAGA
1 ATATTAAAA-ACTATAAGA-A
*
673762 TTATTAAAAACTATAAG
1 ATATTAAAAACTATAAG
673779 CGTATTCAAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
19 4 0.13
20 25 0.83
21 1 0.03
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.33
Consensus pattern (19 bp):
ATATTAAAAACTATAAGAA
Found at i:673853 original size:2 final size:2
Alignment explanation
Indices: 673846--673908 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
673836 TATTCTTTAA
673846 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
673888 AT AT AT -T AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
673909 TGTTACAATG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:684685 original size:24 final size:24
Alignment explanation
Indices: 684654--684707 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
684644 CTTTTGTCAG
684654 ATTTATTTGCATAAATTAGTTTAA
1 ATTTATTTGCATAAATTAGTTTAA
684678 ATTTATTTGCATAAATTAGTTTAA
1 ATTTATTTGCATAAATTAGTTTAA
684702 ATTTAT
1 ATTTAT
684708 CCTCTGTAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (24 bp):
ATTTATTTGCATAAATTAGTTTAA
Found at i:691564 original size:2 final size:2
Alignment explanation
Indices: 691557--691593 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
691547 ATTTTAAAAC
691557 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
691594 CCCCCATCCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:691790 original size:24 final size:24
Alignment explanation
Indices: 691758--691845 Score: 106
Period size: 24 Copynumber: 3.7 Consensus size: 24
691748 GATATCAGAA
* *
691758 ATCAAAACAAAATTCAGATAAGAT
1 ATCAGAACAGAATTCAGATAAGAT
* * *
691782 ATCAGAACAGAATCCAGATCAGAA
1 ATCAGAACAGAATTCAGATAAGAT
*
691806 ATCAGAACAGAATTCAGGTAATG-T
1 ATCAGAACAGAATTCAGATAA-GAT
691830 ATCAGAACAGAATTCA
1 ATCAGAACAGAATTCA
691846 AGTCGGAAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.19
Consensus pattern (24 bp):
ATCAGAACAGAATTCAGATAAGAT
Found at i:691820 original size:48 final size:47
Alignment explanation
Indices: 691751--691859 Score: 139
Period size: 48 Copynumber: 2.3 Consensus size: 47
691741 AAACAGAGAT
*
691751 ATCAGAAATCAAAACAAAATTCAGATAA-GATATCAGAACAGAATCCA
1 ATCAGAAATCAGAACAAAATTCAGATAATG-TATCAGAACAGAATCCA
* * *
691798 GATCAGAAATCAGAACAGAATTCAGGTAATGTATCAGAACAGAATTCA
1 -ATCAGAAATCAGAACAAAATTCAGATAATGTATCAGAACAGAATCCA
*
691846 AGTCGGAAATCAGA
1 A-TCAGAAATCAGA
691860 TAAAATATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
47 1 0.02
48 52 0.96
49 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.17, T:0.18
Consensus pattern (47 bp):
ATCAGAAATCAGAACAAAATTCAGATAATGTATCAGAACAGAATCCA
Found at i:691822 original size:12 final size:12
Alignment explanation
Indices: 691753--691822 Score: 54
Period size: 12 Copynumber: 5.8 Consensus size: 12
691743 ACAGAGATAT
* *
691753 CAGAAATCAAAA
1 CAGAATTCAGAA
*
691765 CAAAATTCAGATA
1 CAGAATTCAGA-A
691778 -AG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
691789 CAGAATCCAGAT
1 CAGAATTCAGAA
*
691801 CAGAAATCAGAA
1 CAGAATTCAGAA
691813 CAGAATTCAG
1 CAGAATTCAG
691823 GTAATGTATC
Statistics
Matches: 44, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
11 3 0.07
12 38 0.86
13 3 0.07
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.16
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:691857 original size:24 final size:24
Alignment explanation
Indices: 691752--691859 Score: 87
Period size: 24 Copynumber: 4.5 Consensus size: 24
691742 AACAGAGATA
* *
691752 TCAGAAATCAAAACAAAATTC-AG
1 TCAGAAATCAGAACAGAATTCAAG
* * *
691775 ATAAGATATCAGAACAGAA-TCCAG
1 -TCAGAAATCAGAACAGAATTCAAG
*
691799 ATCAGAAATCAGAACAGAATTCAGG
1 -TCAGAAATCAGAACAGAATTCAAG
* *
691824 TAATG-TATCAGAACAGAATTCAAG
1 TCA-GAAATCAGAACAGAATTCAAG
*
691848 TCGGAAATCAGA
1 TCAGAAATCAGA
691860 TAAAATATTT
Statistics
Matches: 66, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
23 3 0.05
24 59 0.89
25 4 0.06
ACGTcount: A:0.49, C:0.16, G:0.17, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAGAACAGAATTCAAG
Found at i:698781 original size:36 final size:36
Alignment explanation
Indices: 698740--698815 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
698730 ATTTTCGGGA
*
698740 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
698776 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
698812 TTTT
1 TTTT
698816 TTGCTATAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:700150 original size:135 final size:135
Alignment explanation
Indices: 699904--700591 Score: 697
Period size: 135 Copynumber: 5.0 Consensus size: 135
699894 CAGTTAAAAT
* * *
699904 ATTCATCATCAGATGGATTTGTGATCAACTCTAACTACATTTAGC-TGTTAGCGCACATGTAGTG
1 ATTCATCATCAGATGGATTTGAGATCGACTCTAACTACATTTAGCTTG-TA---CACGTGTAGTG
* ** * * * *
699968 TGGAATGCAGTGCAATCCTCACTAATAGCGTAGTTGACGGTTGAAAGATTCATCATCCGATGGAT
62 TGGACTGCAGTGCAATTTTCATTAATAGCATAGTTGACAGTTCAAAGATTCATCATCCGATGGAT
700033 TTAAGATCG
127 TTAAGATCG
* ** *
700042 ATTCATCATAAGATGGATACGAGATCGACTCTAACTTCATTTAGCTTGTACACGTGTAGTGTGGA
1 ATTCATCATCAGATGGATTTGAGATCGACTCTAACTACATTTAGCTTGTACACGTGTAGTGTGGA
* *
700107 CTGCAAG-GCAATTTTCATTAATAGCATAGTTGACAGTTCAAAGATCCATCATCTGATGGATTTA
66 CTGC-AGTGCAATTTTCATTAATAGCATAGTTGACAGTTCAAAGATTCATCATCCGATGGATTTA
* *
700171 CGACCG
130 AGATCG
** * * * *
700177 ATTCATCATCAGATATATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTATAATG
1 ATTCATCATCAGATGGATTTGAGATCGACTCTAACTACATTTAGC--TT-GT-ACACGTGTAGTG
* * * * ** * *
700242 TGGAATTCAGTGCAATATTCATTAATAGAATAGTTGATGGTTGAAAGATTCATCATCTGATGGAT
62 TGGACTGCAGTGCAATTTTCATTAATAGCATAGTTGACAGTTCAAAGATTCATCATCCGATGGAT
700307 TTAAGATCG
127 TTAAGATCG
* * * *
700316 ATTCATCATCAAATGGATTTGAGATCGACACTAACTACATTTAGCTTGCACACATGTAGTGTGGA
1 ATTCATCATCAGATGGATTTGAGATCGACTCTAACTACATTTAGCTTGTACACGTGTAGTGTGGA
* * *
700381 CTGCAAG-GCAATTTCCATTAATAGCATAGCTT-AAAGTTCAAAGAGTCATCATCCGATGGATTT
66 CTGC-AGTGCAATTTTCATTAATAGCATAG-TTGACAGTTCAAAGATTCATCATCCGATGGATTT
700444 -AGATCG
129 AAGATCG
** * * *
700450 ATTCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTGTAATG
1 ATTCATCATCAGATGGATTTGAGATCGACTCTAACTACATTTAGC--TT-GT-ACACGTGTAGTG
* * * * * **
700515 TGGACTTCAGTGCAAAATTT-ATTAATAGCGTAGTTGA-TGGTCAAAAGATTCATCATCAAATGG
62 TGGACTGCAGTGC-AATTTTCATTAATAGCATAGTTGACAGTTC-AAAGATTCATCATCCGATGG
* *
700578 ATTTATGATTG
125 ATTTAAGATCG
700589 ATT
1 ATT
700592 ATAGTTGTTT
Statistics
Matches: 454, Mismatches: 78, Indels: 35
0.80 0.14 0.06
Matches are distributed among these distances:
134 46 0.10
135 167 0.37
136 9 0.02
137 12 0.03
138 97 0.21
139 123 0.27
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (135 bp):
ATTCATCATCAGATGGATTTGAGATCGACTCTAACTACATTTAGCTTGTACACGTGTAGTGTGGA
CTGCAGTGCAATTTTCATTAATAGCATAGTTGACAGTTCAAAGATTCATCATCCGATGGATTTAA
GATCG
Found at i:700331 original size:27 final size:27
Alignment explanation
Indices: 700288--700343 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
700278 ATGGTTGAAA
**
700288 GATTCATCATCTGATGGATTTAAGATC
1 GATTCATCATCAAATGGATTTAAGATC
*
700315 GATTCATCATCAAATGGATTTGAGATC
1 GATTCATCATCAAATGGATTTAAGATC
700342 GA
1 GA
700344 CACTAACTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (27 bp):
GATTCATCATCAAATGGATTTAAGATC
Found at i:700469 original size:26 final size:27
Alignment explanation
Indices: 700426--700477 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
700416 GTTCAAAGAG
* **
700426 TCATCATCCGATGGATTT-AGATCGAT
1 TCATCATCAGATAAATTTGAGATCGAT
700452 TCATCATCAGATAAATTTGAGATCGA
1 TCATCATCAGATAAATTTGAGATCGA
700478 CTCTAACTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (27 bp):
TCATCATCAGATAAATTTGAGATCGAT
Found at i:700580 original size:273 final size:274
Alignment explanation
Indices: 699904--700591 Score: 981
Period size: 274 Copynumber: 2.5 Consensus size: 274
699894 CAGTTAAAAT
** * * * * * *
699904 ATTCATCATCAGATGGATTTGTGATCAACTCTAACTACATTTAGCTGTTAGCG-CACATGTAGTG
1 ATTCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTGTAATG
* ** * * *
699968 TGGAATGCAGTGCAATCCTCACTAATAGCGTAGTTGACGGTTGAAAGATTCATCATCCGATGGAT
66 TGGAATTCAGTGCAATATTCATTAATAGCGTAGTTGATGGTTGAAAGATTCATCATCAGATGGAT
* * * *
700033 TTAAGATCGATTCATCATAAGATGGATACGAGATCGACTCTAACTTCATTTAGCTTGTACACGTG
131 TTAAGATCGATTCATCATAAGATGGATACGAGATCGACACTAACTACATTTAGCTTGCACACATG
* * *
700098 TAGTGTGGACTGCAAGGCAATTTTCATTAATAGCATAGTTGACAGTTCAAAGATCCATCATCTGA
196 TAGTGTGGACTGCAAGGCAATTTCCATTAATAGCATAGTTGAAAGTTCAAAGATCCATCATCCGA
700163 TGGATTTACGACCG
261 TGGATTTACGACCG
* *
700177 ATTCATCATCAGATATATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTATAATG
1 ATTCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTGTAATG
** *
700242 TGGAATTCAGTGCAATATTCATTAATAGAATAGTTGATGGTTGAAAGATTCATCATCTGATGGAT
66 TGGAATTCAGTGCAATATTCATTAATAGCGTAGTTGATGGTTGAAAGATTCATCATCAGATGGAT
**
700307 TTAAGATCGATTCATCATCAA-ATGGATTTGAGATCGACACTAACTACATTTAGCTTGCACACAT
131 TTAAGATCGATTCATCAT-AAGATGGATACGAGATCGACACTAACTACATTTAGCTTGCACACAT
700371 GTAGTGTGGACTGCAAGGCAATTTCCATTAATAGCATAGCTT-AAAGTTCAAAGAGT-CATCATC
195 GTAGTGTGGACTGCAAGGCAATTTCCATTAATAGCATAG-TTGAAAGTTCAAAGA-TCCATCATC
*
700434 CGATGGATTTA-GATCG
258 CGATGGATTTACGACCG
700450 ATTCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTGTAATG
1 ATTCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTGTAATG
* * * ** *
700515 TGGACTTCAGTGCAAAATTTATTAATAGCGTAGTTGATGGTCAAAAGATTCATCATCAAATGGAT
66 TGGAATTCAGTGCAATATTCATTAATAGCGTAGTTGATGGTTGAAAGATTCATCATCAGATGGAT
* *
700580 TTATGATTGATT
131 TTAAGATCGATT
700592 ATAGTTGTTT
Statistics
Matches: 371, Mismatches: 40, Indels: 8
0.89 0.10 0.02
Matches are distributed among these distances:
273 180 0.49
274 186 0.50
275 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (274 bp):
ATTCATCATCAGATAAATTTGAGATCGACTCTAACTACATTTATCTGTTAGTGCCACGTGTAATG
TGGAATTCAGTGCAATATTCATTAATAGCGTAGTTGATGGTTGAAAGATTCATCATCAGATGGAT
TTAAGATCGATTCATCATAAGATGGATACGAGATCGACACTAACTACATTTAGCTTGCACACATG
TAGTGTGGACTGCAAGGCAATTTCCATTAATAGCATAGTTGAAAGTTCAAAGATCCATCATCCGA
TGGATTTACGACCG
Found at i:712711 original size:5 final size:5
Alignment explanation
Indices: 712691--712786 Score: 54
Period size: 5 Copynumber: 18.4 Consensus size: 5
712681 AAAAGACAAT
* * * * *
712691 AATAA TAATGA AATAA AATAA TACAA AATAA GATAG AATAA TAATAA ACA-AA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA A-ATAA
*
712743 GAATAA AATAA AATAA ATAGTAA AA-AA CAA-AT AATAA AATAA AA
1 -AATAA AATAA AATAA A-A-TAA AATAA -AATAA AATAA AATAA AA
712787 ATATGAAAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
4 4 0.06
5 47 0.67
6 15 0.21
7 4 0.06
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:712745 original size:17 final size:16
Alignment explanation
Indices: 712725--712785 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
712715 AAAATAAGAT
712725 AGAATAATAATAAACAA
1 AGAATAA-AATAAACAA
*
712742 AGAATAAAATAAA-AT
1 AGAATAAAATAAACAA
712757 A-AATAGTAAA-AAACAA
1 AGAATA--AAATAAACAA
*
712773 ATAATAAAATAAA
1 AGAATAAAATAAA
712786 AATATGAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
14 4 0.11
15 8 0.22
16 14 0.38
17 11 0.30
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (16 bp):
AGAATAAAATAAACAA
Found at i:712786 original size:17 final size:17
Alignment explanation
Indices: 712727--712786 Score: 56
Period size: 17 Copynumber: 3.7 Consensus size: 17
712717 AATAAGATAG
*
712727 AATAATAAT-AAACAAAG
1 AATAA-AATAAAACAAAT
*
712744 AATAAAATAAAATAAAT
1 AATAAAATAAAACAAAT
*
712761 AGT--AA-AAAACAAAT
1 AATAAAATAAAACAAAT
712775 AATAAAATAAAA
1 AATAAAATAAAA
712787 ATATGAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
16 5 0.15
17 17 0.50
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.18
Consensus pattern (17 bp):
AATAAAATAAAACAAAT
Found at i:712795 original size:28 final size:31
Alignment explanation
Indices: 712715--712786 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
712705 AAAATAATAC
* * *
712715 AAAATAAGATAGAATAATAATAAACAAAGAAT
1 AAAATAAAATA-AATAGTAAAAAACAAAGAAT
*
712747 AAAATAAAATAAATAGTAAAAAACAAATAAT
1 AAAATAAAATAAATAGTAAAAAACAAAGAAT
712778 AAAATAAAA
1 AAAATAAAA
712787 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 26 0.72
32 10 0.28
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.18
Consensus pattern (31 bp):
AAAATAAAATAAATAGTAAAAAACAAAGAAT
Found at i:714647 original size:106 final size:106
Alignment explanation
Indices: 714344--714802 Score: 605
Period size: 106 Copynumber: 4.3 Consensus size: 106
714334 TCCTCCGTCA
* * * * *
714344 TGAAGTTGAAATTGGCTATGGAACTGGGAAATTATTTGTTGACAATCAGTCACCCCTTCGCTGTG
1 TGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCGCTGTG
* * * * *
714409 AAGTTGAGCTTGTGTTGTCTCGATTCTAAAATCCTTCGCTG
66 AAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCATTCGCTG
* ** * *** *
714450 TGAAGTTGAAATTGACTCTGAATGAAACTAAAGAAGTTATTTGTTGTCAGTTAGCCGCCCCTTCG
1 TGAAGTTGAAATTGGCTC----TGAAACT-GGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCG
* *
714515 CTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCCAATATCCTTCGCTG
61 CTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCATTCGCTG
*
714561 TGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCGTTGTG
1 TGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCGCTGTG
*
714626 AAGTTGAGCTTGTGTTCTCTTGAGTCCAATATCATTCGCTG
66 AAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCATTCGCTG
* * **
714667 TGAAGTTGAAATTGGCTCTAAAATTGGGAAG-TATTTGTTGACAACCAGTCGCCCCTTCATTGTG
1 TGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCGCTGTG
714731 AAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCATTCGCTG
66 AAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCATTCGCTG
* * *
714772 TAAAGTTAAAATTAGCTCTGAAACTGGGAAG
1 TGAAGTTGAAATTGGCTCTGAAACTGGGAAG
714803 CCCCTTCGTC
Statistics
Matches: 311, Mismatches: 37, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
105 98 0.32
106 115 0.37
107 7 0.02
110 6 0.02
111 85 0.27
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
TGAAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCGCTGTG
AAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCATTCGCTG
Found at i:714795 original size:211 final size:215
Alignment explanation
Indices: 714346--714802 Score: 616
Period size: 217 Copynumber: 2.1 Consensus size: 215
714336 CTCCGTCATG
* * * *
714346 AAGTTGAAATTGGCTATGGAACTGGGAAATTATTTGTTGACAATCAGTCACCCCTTCGCTGTGAA
1 AAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCACCCCTTCGCTGTGAA
* * * *
714411 GTTGAGCTTGTGTTGTCTCGATTCTAAAATCCTTCGCTGTGAAGTTGAAATTGACTCTGAATGAA
66 GTTGAGCTTGTGTTCTCTCGAGTCCAAAATCATTCGCTGTGAAGTTGAAATTGACTCT-AA-GAA
* *** *
714476 ACTAAAGAAGTTATTTGTTGTCAGTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTT
129 ACTAAAGAAGTTATTTGTTGACAACCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTT
* *
714541 GAGTCCAATATCCTTCGCTGTG
194 GAGTCCAATATCATTCGCTGTA
* *
714563 AAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCGCCCCTTCGTTGTGAA
1 AAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCACCCCTTCGCTGTGAA
* * *
714628 GTTGAGCTTGTGTTCTCTTGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCT-A-AAA-
66 GTTGAGCTTGTGTTCTCTCGAGTCCAAAATCATTCGCTGTGAAGTTGAAATTGACTCTAAGAAAC
*** * * *
714690 TTGGGAAG-TATTTGTTGACAACCAGTCGCCCCTTCATTGTGAAGTTGAGCTTGTGTTGTCTTGA
131 TAAAGAAGTTATTTGTTGACAACCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTTGA
714754 GTCCAATATCATTCGCTGTA
196 GTCCAATATCATTCGCTGTA
* *
714774 AAGTTAAAATTAGCTCTGAAACTGGGAAG
1 AAGTTGAAATTGGCTCTGAAACTGGGAAG
714803 CCCCTTCGTC
Statistics
Matches: 212, Mismatches: 28, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
211 93 0.44
212 5 0.02
213 3 0.01
215 1 0.00
217 110 0.52
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.34
Consensus pattern (215 bp):
AAGTTGAAATTGGCTCTGAAACTGGGAAGTTATTTGTTGACAACCAGTCACCCCTTCGCTGTGAA
GTTGAGCTTGTGTTCTCTCGAGTCCAAAATCATTCGCTGTGAAGTTGAAATTGACTCTAAGAAAC
TAAAGAAGTTATTTGTTGACAACCAGCCGCCCCTTCACTGTGAAGTTGAGCTTGTGCTGTCTTGA
GTCCAATATCATTCGCTGTA
Found at i:718946 original size:30 final size:30
Alignment explanation
Indices: 718883--718982 Score: 139
Period size: 30 Copynumber: 3.3 Consensus size: 30
718873 GAAGGACCTA
* * * *
718883 TCCAGAGGTCACAAAGA-CCCCGATAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
718912 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
718942 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
718973 TCCATAGGTC
1 TCCAGAGGTC
718983 CCGATGAACC
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.25
30 34 0.53
31 14 0.22
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:719028 original size:31 final size:31
Alignment explanation
Indices: 718964--719032 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
718954 AAAGATCCTC
* *
718964 GGTAAACTGTCCATAGGTCCCGATGAACCTA
1 GGTAAACTGTCCATAGGTCCCGAAGAACATA
* *
718995 GGTAAACTGTCCATATGTCTCGAA-AGACATA
1 GGTAAACTGTCCATAGGTCCCGAAGA-ACATA
719026 GGTAAAC
1 GGTAAAC
719033 CCTCGACTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (31 bp):
GGTAAACTGTCCATAGGTCCCGAAGAACATA
Found at i:719693 original size:2 final size:2
Alignment explanation
Indices: 719686--719712 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
719676 ATACAATTCC
719686 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
719713 CTGACTCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:723660 original size:30 final size:30
Alignment explanation
Indices: 723601--723703 Score: 145
Period size: 30 Copynumber: 3.4 Consensus size: 30
723591 CCCGAAGGAC
* *
723601 CTATCCAGAGGTCACAAAGA-CCCCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
723630 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
*
723660 CTGTCCAGAGGTCATAAAGATCCTCGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
* *
723691 CTGTCCATAGGTC
1 CTATCCAGAGGTC
723704 CCGAAGAACC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
29 19 0.28
30 35 0.51
31 14 0.21
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:723696 original size:31 final size:30
Alignment explanation
Indices: 723604--723728 Score: 144
Period size: 30 Copynumber: 4.1 Consensus size: 30
723594 GAAGGACCTA
* *
723604 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCACAAAGATCCTCGGTAACTG
*
723633 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCACAAAGATCCTCGGTAACTG
*
723663 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCACAAAGATCCTCGGT-AACTG
* * * * *
723694 TCCATAGGTCCCGAAGAACCTAGGTAAACTG
1 TCCAGAGGTCACAAAGATCCTCGGT-AACTG
723725 TCCA
1 TCCA
723729 TATGTCTCGA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
29 16 0.19
30 35 0.41
31 34 0.40
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (30 bp):
TCCAGAGGTCACAAAGATCCTCGGTAACTG
Found at i:723729 original size:31 final size:31
Alignment explanation
Indices: 723658--723753 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
723648 GATCCTCGGT
* ** * *
723658 AACTGTCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
*
723689 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* * *
723720 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCACGAAGA-ACCTAGGTA
723751 AAC
1 AAC
723754 CCTCGACTCT
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
30 1 0.02
31 54 0.98
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCACGAAGAACCTAGGTA
Found at i:725013 original size:21 final size:21
Alignment explanation
Indices: 724983--725027 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
724973 ATTCTGTCGT
*
724983 TTGAAGGGGTA-TCGGTTCCCC
1 TTGAAGGGGTACT-GATTCCCC
*
725004 TTGAATGGGTACTGATTCCCC
1 TTGAAGGGGTACTGATTCCCC
725025 TTG
1 TTG
725028 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACTGATTCCCC
Found at i:734235 original size:12 final size:12
Alignment explanation
Indices: 734220--734244 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
734210 ATATATATAT
734220 AATAATAATAAA
1 AATAATAATAAA
734232 AATAATAATAAA
1 AATAATAATAAA
734244 A
1 A
734245 CGTAATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:734296 original size:17 final size:17
Alignment explanation
Indices: 734276--734310 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
734266 GTAGGAACCG
734276 AAAATAACAAA-AAAATA
1 AAAATAA-AAATAAAATA
734293 AAAATAAAAATAAAATA
1 AAAATAAAAATAAAATA
734310 A
1 A
734311 CTAGATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.18
17 14 0.82
ACGTcount: A:0.83, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAATAAAAATAAAATA
Found at i:734550 original size:17 final size:15
Alignment explanation
Indices: 734530--734588 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 15
734520 AATAAGATAT
734530 AATAATAATAAACAAA
1 AATAA-AATAAACAAA
*
734546 GAATAAAATAAA-ATA
1 -AATAAAATAAACAAA
734561 AATAGTAAA-AAACAAA
1 AATA--AAATAAACAAA
734577 TAATAAAATAAA
1 -AATAAAATAAA
734589 AATATGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 11
0.73 0.04 0.23
Matches are distributed among these distances:
14 4 0.11
15 8 0.23
16 14 0.40
17 9 0.26
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (15 bp):
AATAAAATAAACAAA
Found at i:734589 original size:17 final size:17
Alignment explanation
Indices: 734528--734589 Score: 60
Period size: 17 Copynumber: 3.8 Consensus size: 17
734518 AAAATAAGAT
734528 ATAATAATAAT-AAACAA
1 ATAATAA-AATAAAACAA
* *
734545 AGAATAAAATAAAATAA
1 ATAATAAAATAAAACAA
*
734562 ATAGT--AA-AAAACAA
1 ATAATAAAATAAAACAA
734576 ATAATAAAATAAAA
1 ATAATAAAATAAAA
734590 ATATGAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
16 5 0.14
17 18 0.51
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.19
Consensus pattern (17 bp):
ATAATAAAATAAAACAA
Found at i:734598 original size:28 final size:31
Alignment explanation
Indices: 734518--734589 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
734508 AAAATAATAC
* * *
734518 AAAATAAGATATAATAATAATAAACAAAGAAT
1 AAAATAAAATA-AATAGTAAAAAACAAAGAAT
*
734550 AAAATAAAATAAATAGTAAAAAACAAATAAT
1 AAAATAAAATAAATAGTAAAAAACAAAGAAT
734581 AAAATAAAA
1 AAAATAAAA
734590 ATATGAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 26 0.72
32 10 0.28
ACGTcount: A:0.74, C:0.03, G:0.04, T:0.19
Consensus pattern (31 bp):
AAAATAAAATAAATAGTAAAAAACAAAGAAT
Found at i:737594 original size:114 final size:117
Alignment explanation
Indices: 737432--737657 Score: 341
Period size: 114 Copynumber: 1.9 Consensus size: 117
737422 GACCGCGCAG
* * * *
737432 GGCCCCCAAAAAATAGGGCCCTAAAAAAGTATATATATATAGTAGCGTTTTTCCAATAAACGCTA
1 GGCCCCCAAAAAATA--GCCCAAAAAAAG-ATATATATATAGTAGCGTTTTCCCAATAAACACCA
* *
737497 CTATAGATGGACCTATTGTGACGTTTTTTCTAAA-AACGCCACTATTATTATGCA
63 CTATAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATTATTATGCA
*
737551 GGCCCCCAAAAAATA-CCCAAAAAAAG-TATATATATAGTGGCGTTTTCCCAATAAACACCACTA
1 GGCCCCCAAAAAATAGCCCAAAAAAAGATATATATATAGTAGCGTTTTCCCAATAAACACCACTA
737614 TAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATT
66 TAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATT
737658 GTTTCCCCGA
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
114 62 0.63
115 12 0.12
116 10 0.10
119 15 0.15
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (117 bp):
GGCCCCCAAAAAATAGCCCAAAAAAAGATATATATATAGTAGCGTTTTCCCAATAAACACCACTA
TAGATGGACCTATTGCGACGTTTTTTCAAAACAACGCCACTATTATTATGCA
Found at i:738611 original size:59 final size:59
Alignment explanation
Indices: 738519--738633 Score: 194
Period size: 59 Copynumber: 1.9 Consensus size: 59
738509 ATTATCTTGC
* * *
738519 TCAATGAGCTTTGTCAATAATCAATCATTTTTATTTCATCTTTGATGTATCGGAATGTA
1 TCAATGAGCTTTGTCAAGAATAAATCATTTTTATTTCATCTTTGATGTACCGGAATGTA
*
738578 TCAATGGGCTTTGTCAAGAATAAATCATTTTTATTTCATCTTTGATGTACCGGAAT
1 TCAATGAGCTTTGTCAAGAATAAATCATTTTTATTTCATCTTTGATGTACCGGAAT
738634 ACATATAACT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 52 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (59 bp):
TCAATGAGCTTTGTCAAGAATAAATCATTTTTATTTCATCTTTGATGTACCGGAATGTA
Found at i:738848 original size:31 final size:31
Alignment explanation
Indices: 738799--738875 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
738789 TTTTAAAACA
** *
738799 TGCAATACAGTCCTCCAACATTTAGTCCGTT
1 TGCAATATGGTCCCCCAACATTTAGTCCGTT
*
738830 TGCAATATGGTCCCCCAACATTTAGTCCTTT
1 TGCAATATGGTCCCCCAACATTTAGTCCGTT
738861 TGCAATATGGTCCCC
1 TGCAATATGGTCCCC
738876 AACGTAACTG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.23, C:0.30, G:0.14, T:0.32
Consensus pattern (31 bp):
TGCAATATGGTCCCCCAACATTTAGTCCGTT
Found at i:745189 original size:15 final size:15
Alignment explanation
Indices: 745169--745198 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
745159 TATCACAATC
745169 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
745184 GCGCAGGATTCCGGG
1 GCGCAGGATTCCGGG
745199 AGCACCGTGG
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:0.47, T:0.13
Consensus pattern (15 bp):
GCGCAGGATTCCGGG
Found at i:759507 original size:32 final size:32
Alignment explanation
Indices: 759471--759535 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
759461 TTGCATGGAC
759471 TACAGAATCCACAGTTAAATATCCTAGAAGTG
1 TACAGAATCCACAGTTAAATATCCTAGAAGTG
*
759503 TACAGAATCCACTGTTAAATATCCTAGAAGTG
1 TACAGAATCCACAGTTAAATATCCTAGAAGTG
759535 T
1 T
759536 TGGGGAGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (32 bp):
TACAGAATCCACAGTTAAATATCCTAGAAGTG
Found at i:764623 original size:46 final size:46
Alignment explanation
Indices: 764556--764653 Score: 196
Period size: 46 Copynumber: 2.1 Consensus size: 46
764546 ACCACAATCC
764556 AAGTAAATGTTTGTTAGTCAAAACCCTGAATATGTGTATTTTTCTT
1 AAGTAAATGTTTGTTAGTCAAAACCCTGAATATGTGTATTTTTCTT
764602 AAGTAAATGTTTGTTAGTCAAAACCCTGAATATGTGTATTTTTCTT
1 AAGTAAATGTTTGTTAGTCAAAACCCTGAATATGTGTATTTTTCTT
764648 AAGTAA
1 AAGTAA
764654 GATTAGAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 52 1.00
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (46 bp):
AAGTAAATGTTTGTTAGTCAAAACCCTGAATATGTGTATTTTTCTT
Found at i:766670 original size:12 final size:12
Alignment explanation
Indices: 766653--766678 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
766643 AAACTCATCA
766653 TTTAAATTAATT
1 TTTAAATTAATT
766665 TTTAAATTAATT
1 TTTAAATTAATT
766677 TT
1 TT
766679 CTTTACTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTAAATTAATT
Found at i:769482 original size:2 final size:2
Alignment explanation
Indices: 769475--769536 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
769465 TCATAATCTA
769475 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
769517 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
769537 GAACTAGTAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:773487 original size:14 final size:14
Alignment explanation
Indices: 773470--773508 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
773460 ATATTTTGGG
773470 TTTCGAGTTTCAAT
1 TTTCGAGTTTCAAT
773484 TTTCGAGTTTCAAT
1 TTTCGAGTTTCAAT
773498 TTTCGAGTTTC
1 TTTCGAGTTTC
773509 TGGTTTTAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (14 bp):
TTTCGAGTTTCAAT
Found at i:773493 original size:21 final size:21
Alignment explanation
Indices: 773455--773494 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
773445 CAAATTCTAT
*
773455 GTTTCATATTTTGGGTTTCGA
1 GTTTCATATTTTGAGTTTCGA
773476 GTTTCA-ATTTTCGAGTTTC
1 GTTTCATATTTT-GAGTTTC
773495 AATTTTCGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (21 bp):
GTTTCATATTTTGAGTTTCGA
Found at i:773626 original size:21 final size:22
Alignment explanation
Indices: 773602--773647 Score: 76
Period size: 21 Copynumber: 2.1 Consensus size: 22
773592 AAATTTTATA
*
773602 TTTTGGGTTTTGGGTTT-CAAT
1 TTTTGGGTTTTCGGTTTCCAAT
773623 TTTTGGGTTTTCGGTTTCCAAT
1 TTTTGGGTTTTCGGTTTCCAAT
773645 TTT
1 TTT
773648 AAATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.09, C:0.09, G:0.24, T:0.59
Consensus pattern (22 bp):
TTTTGGGTTTTCGGTTTCCAAT
Found at i:773675 original size:35 final size:35
Alignment explanation
Indices: 773629--773724 Score: 86
Period size: 35 Copynumber: 2.7 Consensus size: 35
773619 CAATTTTTGG
* * *
773629 GTTTTCGGTTTCCAATTTTAAATTTTATATTTCGA
1 GTTTTGGGTTTCCAATTTCAAATTTTAGATTTCGA
*** *
773664 GTTTTGGGTTTCGGGTTTCAAATTTTAGGTTTCGA
1 GTTTTGGGTTTCCAATTTCAAATTTTAGATTTCGA
***
773699 -TTTTCGGGTTTCTTGTTTCAAATTTT
1 GTTTT-GGGTTTCCAATTTCAAATTTT
773725 GGGTTTCAGG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 4 0.08
35 47 0.92
ACGTcount: A:0.17, C:0.10, G:0.19, T:0.54
Consensus pattern (35 bp):
GTTTTGGGTTTCCAATTTCAAATTTTAGATTTCGA
Found at i:773695 original size:56 final size:56
Alignment explanation
Indices: 773587--773696 Score: 130
Period size: 56 Copynumber: 2.0 Consensus size: 56
773577 AGGGTTTTGT
* * * **** *
773587 ATTTTAAATTTTATATTTTGGGTTTTGGGTTTCAATTTTTGGGTTTTCGGTTTCCA
1 ATTTTAAATTTTATATTTCGAGTTTTGGGTTTCAAGTTTCAAATTTTAGGTTTCCA
**
773643 ATTTTAAATTTTATATTTCGAGTTTTGGGTTTCGGGTTTCAAATTTTAGGTTTC
1 ATTTTAAATTTTATATTTCGAGTTTTGGGTTTCAAGTTTCAAATTTTAGGTTTC
773697 GATTTTCGGG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
56 44 1.00
ACGTcount: A:0.18, C:0.07, G:0.19, T:0.55
Consensus pattern (56 bp):
ATTTTAAATTTTATATTTCGAGTTTTGGGTTTCAAGTTTCAAATTTTAGGTTTCCA
Found at i:773730 original size:35 final size:35
Alignment explanation
Indices: 773648--773731 Score: 107
Period size: 35 Copynumber: 2.4 Consensus size: 35
773638 TTCCAATTTT
**
773648 AAATTTTATATTTCGAGTTTTGGGTTTCGGGTTTC
1 AAATTTTAGGTTTCGAGTTTTGGGTTTCGGGTTTC
**
773683 AAATTTTAGGTTTCGA-TTTTCGGGTTTCTTGTTTC
1 AAATTTTAGGTTTCGAGTTTT-GGGTTTCGGGTTTC
*
773718 AAATTTTGGGTTTC
1 AAATTTTAGGTTTC
773732 AGGTTTATTG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 4 0.09
35 39 0.91
ACGTcount: A:0.17, C:0.10, G:0.21, T:0.52
Consensus pattern (35 bp):
AAATTTTAGGTTTCGAGTTTTGGGTTTCGGGTTTC
Found at i:773731 original size:28 final size:28
Alignment explanation
Indices: 773700--773766 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
773690 AGGTTTCGAT
* *
773700 TTTCGGGTTTCTTGTTTCAAATTTTGGG
1 TTTCGGGTTTCTTGGTTCAAATTTTAGG
* *
773728 TTTCAGGTTTATTGGTTCAAATTTTAGG
1 TTTCGGGTTTCTTGGTTCAAATTTTAGG
773756 TTTCGGGTTTC
1 TTTCGGGTTTC
773767 GATTTTTAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.13, C:0.10, G:0.24, T:0.52
Consensus pattern (28 bp):
TTTCGGGTTTCTTGGTTCAAATTTTAGG
Found at i:773737 original size:21 final size:21
Alignment explanation
Indices: 773690--773737 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
773680 TTCAAATTTT
*
773690 AGGTTTCGATTTTCGGGTTTC
1 AGGTTTCAATTTTCGGGTTTC
**
773711 TTGTTTCAAATTTT-GGGTTTC
1 AGGTTTC-AATTTTCGGGTTTC
773732 AGGTTT
1 AGGTTT
773738 ATTGGTTCAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.12, C:0.10, G:0.25, T:0.52
Consensus pattern (21 bp):
AGGTTTCAATTTTCGGGTTTC
Found at i:773825 original size:21 final size:21
Alignment explanation
Indices: 773803--773854 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
773793 TCGGGTCAAG
773803 TTTAGGGTTTTGAGTTTTTAGT
1 TTTA-GGTTTTGAGTTTTTAGT
* **
773825 TTTAGGTTTTGGGTTTCAAGT
1 TTTAGGTTTTGAGTTTTTAGT
*
773846 TTCAGGTTT
1 TTTAGGTTT
773855 CAAATTTCGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.13, C:0.04, G:0.27, T:0.56
Consensus pattern (21 bp):
TTTAGGTTTTGAGTTTTTAGT
Found at i:773847 original size:14 final size:14
Alignment explanation
Indices: 773830--773868 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
773820 TTAGTTTTAG
*
773830 GTTTTGGGTTTCAA
1 GTTTCGGGTTTCAA
*
773844 GTTTCAGGTTTCAA
1 GTTTCGGGTTTCAA
*
773858 ATTTCGGGTTT
1 GTTTCGGGTTT
773869 TCGATTTTCG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.26, T:0.49
Consensus pattern (14 bp):
GTTTCGGGTTTCAA
Found at i:773924 original size:21 final size:20
Alignment explanation
Indices: 773874--773925 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
773864 GGTTTTCGAT
773874 TTTCGGTTTTCGGTTTCACG
1 TTTCGGTTTTCGGTTTCACG
** **
773894 TTTTTTGTTTTCGGTTTCGGG
1 -TTTCGGTTTTCGGTTTCACG
773915 TTTCGGGTTTT
1 TTTC-GGTTTT
773926 GAATTTTGGG
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.02, C:0.13, G:0.27, T:0.58
Consensus pattern (20 bp):
TTTCGGTTTTCGGTTTCACG
Done.