Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009013.1 Hibiscus syriacus cultivar Beakdansim tig00112401_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: 323053
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:5977 original size:45 final size:45
Alignment explanation
Indices: 5928--6018 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
5918 TATAGTAATG
5928 TAACACCCTAATTTAGGGGCTAAATTTTAAGAAATTATAAAGTAT
1 TAACACCCTAATTTAGGGGCTAAATTTTAAGAAATTATAAAGTAT
5973 TAACACCCTAATTTAGGGGCTAAATTTTAAGAAATTATAAAGTAT
1 TAACACCCTAATTTAGGGGCTAAATTTTAAGAAATTATAAAGTAT
6018 T
1 T
6019 GGATTTAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (45 bp):
TAACACCCTAATTTAGGGGCTAAATTTTAAGAAATTATAAAGTAT
Found at i:13521 original size:12 final size:12
Alignment explanation
Indices: 13504--13531 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13494 AACCGTAATA
13504 AATTAAATTTAT
1 AATTAAATTTAT
13516 AATTAAATTTAT
1 AATTAAATTTAT
13528 AATT
1 AATT
13532 TAATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
AATTAAATTTAT
Found at i:13860 original size:51 final size:51
Alignment explanation
Indices: 13761--13873 Score: 147
Period size: 51 Copynumber: 2.2 Consensus size: 51
13751 AAATATATGC
* * *
13761 TAAGTGCTACACTTTTTTATTTTATTCACTTACACCGGTGAGATTATGTGT
1 TAAGTGCTACACTTGTTTATTTTATTCACTTACACCGATGAGAGTATGTGT
**
13812 TAAGTGCTACACTTGTTTATTTTATTCACTTACATTGATGTA-AGTATGTGT
1 TAAGTGCTACACTTGTTTATTTTATTCACTTACACCGATG-AGAGTATGTGT
* *
13863 TATGTGATACA
1 TAAGTGCTACA
13874 TTTTTTTTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
51 53 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (51 bp):
TAAGTGCTACACTTGTTTATTTTATTCACTTACACCGATGAGAGTATGTGT
Found at i:17387 original size:18 final size:18
Alignment explanation
Indices: 17364--17415 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
17354 ACTGAAAATT
*
17364 TGTCCCGAAGGGCCACTA
1 TGTCCCGAAGGACCACTA
17382 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
17400 TGTCCTGAAGGACCAC
1 TGTCCCGAAGGACCAC
17416 ATAGAACCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:17797 original size:28 final size:28
Alignment explanation
Indices: 17764--17828 Score: 123
Period size: 28 Copynumber: 2.4 Consensus size: 28
17754 CATTATGTCA
17764 ATATCATATAACTTATATAAACATATAT
1 ATATCATATAACTTATATAAACATATAT
17792 ATATCATATAACTTATATAAACATATAT
1 ATATCATATAACTTATATAAACATATAT
17820 ATAT-ATATA
1 ATATCATATA
17829 TATCACTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 5 0.14
28 32 0.86
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (28 bp):
ATATCATATAACTTATATAAACATATAT
Found at i:20973 original size:4 final size:4
Alignment explanation
Indices: 20966--20992 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
20956 AAATAAATAA
20966 ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
20993 TATCATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:23177 original size:64 final size:63
Alignment explanation
Indices: 23109--23288 Score: 172
Period size: 65 Copynumber: 2.8 Consensus size: 63
23099 TTGGACCCTT
*
23109 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATAAAATGCATTTGATGTTTCA-AAATAGCT-T
1 AGTGCATCGATGCACT-AGAGTGCATCGATGCATAAAATGCATTTGATGTTTCATAAA-A-CTCT
23172 G
63 G
* * *
23173 AGTGCATCGATGCATGGCT-G-GTGCATCGATGCATCAAATGTATTTAATGTTTTCATAAAACTC
1 AGTGCATCGATGCA---CTAGAGTGCATCGATGCATAAAATGCATTTGATG-TTTCATAAAACTC
23236 TG
62 TG
* * * *
23238 ATTGCATCGATGCA-TAGTATGTCCATCGGTGCATGAAATGCATTTGATGTT
1 AGTGCATCGATGCACTAG-A-GTGCATCGATGCATAAAATGCATTTGATGTT
23289 CGATTTATTC
Statistics
Matches: 96, Mismatches: 10, Indels: 20
0.76 0.08 0.16
Matches are distributed among these distances:
61 1 0.01
62 1 0.01
64 43 0.45
65 46 0.48
66 3 0.03
67 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (63 bp):
AGTGCATCGATGCACTAGAGTGCATCGATGCATAAAATGCATTTGATGTTTCATAAAACTCTG
Found at i:23265 original size:65 final size:65
Alignment explanation
Indices: 23132--23288 Score: 178
Period size: 65 Copynumber: 2.4 Consensus size: 65
23122 ACTAAGAGTG
* *
23132 CATCGATGCATAAAATGCATTTGATG-TTTCAAAATAGCTTGAGTGCATCGATGCATGGCTGGTG
1 CATCGATGCATAAAATGCATTTGATGTTTTCAAAATAGCTTGAGTGCATCGATGCATAGCTGGTC
* * * * *
23196 CATCGATGCATCAAATGTATTTAATGTTTTCATAAA-A-CTCTGATTGCATCGATGCATAG-TAT
1 CATCGATGCATAAAATGCATTTGATGTTTTCA-AAATAGCT-TGAGTGCATCGATGCATAGCT-G
23258 GTC
63 GTC
* *
23261 CATCGGTGCATGAAATGCATTTGATGTT
1 CATCGATGCATAAAATGCATTTGATGTT
23289 CGATTTATTC
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
64 26 0.33
65 49 0.63
66 3 0.04
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (65 bp):
CATCGATGCATAAAATGCATTTGATGTTTTCAAAATAGCTTGAGTGCATCGATGCATAGCTGGTC
Found at i:23780 original size:2 final size:2
Alignment explanation
Indices: 23773--23820 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
23763 GCCAATTGAT
23773 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
23815 TA TA TA
1 TA TA TA
23821 GCTTAAGCTG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30032 original size:65 final size:65
Alignment explanation
Indices: 29899--30058 Score: 202
Period size: 65 Copynumber: 2.5 Consensus size: 65
29889 TTCACTAGGA
* *
29899 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCAATGCATAGCTG
* *
29963 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAA-A-CTCTGAGTGCATCAATGCATAG-
1 GTGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATAGC-CTGAGTGCATCAATGCATAGC
*
30025 TAT
64 T-G
* *
30028 GTGCATCGGTGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATAAAATGCATTCGATGTT
30059 CGATTTATTC
Statistics
Matches: 84, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
64 29 0.35
65 52 0.62
66 3 0.04
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.31
Consensus pattern (65 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATAGCCTGAGTGCATCAATGCATAGCTG
Found at i:30103 original size:65 final size:62
Alignment explanation
Indices: 29899--30100 Score: 185
Period size: 65 Copynumber: 3.1 Consensus size: 62
29889 TTCACTAGGA
* * *
29899 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC--ATTAACCTGAGTGCATCGATGCATGGTTG
* * * * *
29963 GTGCATCGATGCATCAAATGCATTTGATGTTTTCATAAAACTCTGAGTGCATCAATGCATAGTAT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAT-TAAC-CTGAGTGCATCGATGCATGGT-T
30028 -
62 G
* * *
30028 GTGCATCGGTGCATGAAATGCATTCGATG-TTCGATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC-A-TTA-ACC-TGAGTGCATCGATGCATGG-T
30091 TG
61 TG
30093 GTGCATCG
1 GTGCATCG
30101 GTGTATCACT
Statistics
Matches: 113, Mismatches: 15, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
63 4 0.04
64 47 0.42
65 61 0.54
66 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (62 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCATTAACCTGAGTGCATCGATGCATGGTTG
Found at i:30974 original size:33 final size:32
Alignment explanation
Indices: 30937--31000 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
30927 AAGCATGAAC
*
30937 CGAATTTTAACCCGATCAAAAAGCAACCCGAAT
1 CGAA-TTTAACCCGACCAAAAAGCAACCCGAAT
** *
30970 CGAATTTAACGTGACCCAAAAGCAACCCGAA
1 CGAATTTAACCCGACCAAAAAGCAACCCGAA
31001 CAGATTGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.42, C:0.28, G:0.14, T:0.16
Consensus pattern (32 bp):
CGAATTTAACCCGACCAAAAAGCAACCCGAAT
Found at i:31097 original size:18 final size:19
Alignment explanation
Indices: 31058--31113 Score: 55
Period size: 18 Copynumber: 3.1 Consensus size: 19
31048 TAATAAATTA
*
31058 ATTTA-AATAAAATTGATA-
1 ATTTATAATAAAA-TAATAG
* *
31076 ATTTATTA-AAAATATTAG
1 ATTTATAATAAAATAATAG
31094 ATTTATAATAAAATAATAG
1 ATTTATAATAAAATAATAG
31113 A
1 A
31114 AAGTTTAAGA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.10
18 16 0.53
19 11 0.37
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (19 bp):
ATTTATAATAAAATAATAG
Found at i:31958 original size:15 final size:15
Alignment explanation
Indices: 31938--31969 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31928 ATTTAATCTA
*
31938 GACCCGAAATTACCC
1 GACCCGAAATGACCC
31953 GACCCGAAATGACCC
1 GACCCGAAATGACCC
31968 GA
1 GA
31970 TTAAACCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.38, G:0.19, T:0.09
Consensus pattern (15 bp):
GACCCGAAATGACCC
Found at i:36363 original size:12 final size:12
Alignment explanation
Indices: 36330--36364 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
36320 ATGGCTAAAT
*
36330 ACACACACAAAC
1 ACACACACATAC
36342 ACACACACATAC
1 ACACACACATAC
36354 ACACACACATA
1 ACACACACATA
36365 TTATAGATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.54, C:0.40, G:0.00, T:0.06
Consensus pattern (12 bp):
ACACACACATAC
Found at i:43223 original size:2 final size:2
Alignment explanation
Indices: 43218--43242 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43208 TGTGTGTGTG
43218 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 T
43243 TACACATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:58642 original size:20 final size:20
Alignment explanation
Indices: 58617--58654 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
58607 TTTTGGTGCA
*
58617 GAGGGAATCGATACCCCCAT
1 GAGGGAACCGATACCCCCAT
*
58637 GAGGGAACCGATTCCCCC
1 GAGGGAACCGATACCCCC
58655 TTTGAAGGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.26, T:0.13
Consensus pattern (20 bp):
GAGGGAACCGATACCCCCAT
Found at i:60037 original size:12 final size:12
Alignment explanation
Indices: 60020--60045 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
60010 TGAGCTTGAA
60020 CAGCCCGAGGAG
1 CAGCCCGAGGAG
60032 CAGCCCGAGGAG
1 CAGCCCGAGGAG
60044 CA
1 CA
60046 AGCACAACAA
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:0.27, C:0.35, G:0.38, T:0.00
Consensus pattern (12 bp):
CAGCCCGAGGAG
Found at i:62296 original size:103 final size:104
Alignment explanation
Indices: 62160--62355 Score: 241
Period size: 103 Copynumber: 1.9 Consensus size: 104
62150 CAGATGGCCA
* * * ** ** * *
62160 GTATTGATACTAAGGTGTTTTTGGAAACATCGAAGTTGATTTTGGTACCGATACTCATAAGAGTA
1 GTATAGATACCAAGGTATTTTTAAAAACATCGAAGTAAAATTTGGTACCGATACTCAGAAGAGTA
*
62225 TCGATATCC-AGGGTAAAGTATCGATACTCCCCATAGGG
66 TCGATACCCAAGGGTAAAGTATCGATACTCCCCATAGGG
* * **
62263 GTATAGATACCAAGGTATTTTTAAAAACATCGAAGTAAAATTTGGTATCGATACTCGGGTGAGTA
1 GTATAGATACCAAGGTATTTTTAAAAACATCGAAGTAAAATTTGGTACCGATACTCAGAAGAGTA
**
62328 TCGATACCCAAGGGTCCAGTATCGATAC
66 TCGATACCCAAGGGTAAAGTATCGATAC
62356 CCATGGAGAT
Statistics
Matches: 76, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
103 60 0.79
104 16 0.21
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (104 bp):
GTATAGATACCAAGGTATTTTTAAAAACATCGAAGTAAAATTTGGTACCGATACTCAGAAGAGTA
TCGATACCCAAGGGTAAAGTATCGATACTCCCCATAGGG
Found at i:69084 original size:2 final size:2
Alignment explanation
Indices: 69077--69105 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
69067 TTTAGTTTAT
69077 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 T
69106 TAAGCTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:69448 original size:28 final size:28
Alignment explanation
Indices: 69411--69465 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
69401 TTAGTTAAAG
* * *
69411 AAATATATTTTATTTTTATTTTAACTTA
1 AAATATATTTAATTCTTATCTTAACTTA
*
69439 AAATGTATTTAATTCTTATCTTAACTT
1 AAATATATTTAATTCTTATCTTAACTT
69466 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (28 bp):
AAATATATTTAATTCTTATCTTAACTTA
Found at i:69543 original size:16 final size:16
Alignment explanation
Indices: 69524--69575 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
69514 ATATATATTT
69524 TAAAATAAAAATATAA
1 TAAAATAAAAATATAA
* *
69540 TAAAATATAATTATAAA
1 TAAAATAAAAATAT-AA
* *
69557 TTGAAATAAAAATAAAA
1 -TAAAATAAAAATATAA
69574 TA
1 TA
69576 TATTTTTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
16 13 0.48
17 4 0.15
18 10 0.37
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
TAAAATAAAAATATAA
Found at i:69606 original size:31 final size:31
Alignment explanation
Indices: 69486--69617 Score: 130
Period size: 30 Copynumber: 4.4 Consensus size: 31
69476 ATATGTTTGA
* *
69486 ATATTTTTT-CAATTAAGATAAGAATAAAAT
1 ATATTTTTTATAATTAAAATAAGAATAAAAT
* * * *
69516 ATATATTTTAAAATAAAAAT-ATAATAAAAT
1 ATATTTTTTATAATTAAAATAAGAATAAAAT
* * * *
69546 ATA-ATTATA-AATTGAAATAAAAATAAAAT
1 ATATTTTTTATAATTAAAATAAGAATAAAAT
*
69575 ATATTTTTTATAATTAAAATAAGAATCAAAT
1 ATATTTTTTATAATTAAAATAAGAATAAAAT
69606 ATA-TTTTTATAA
1 ATATTTTTTATAA
69618 AATATATTTT
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 7 0.08
29 17 0.20
30 33 0.39
31 27 0.32
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (31 bp):
ATATTTTTTATAATTAAAATAAGAATAAAAT
Found at i:69620 original size:46 final size:45
Alignment explanation
Indices: 69568--69658 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 45
69558 TGAAATAAAA
69568 ATAAAATATATTTTTTATAA-TTAAAATAAGAATCAA-ATATATTTTT
1 ATAAAATATA-TTTTTA-AAGTTAAAATAAGAAT-AATATATATTTTT
*
69614 ATAAAATATATTTTTAAAGGTTAAGATAAGAATAATATATATTTT
1 ATAAAATATATTTTTAAA-GTTAAAATAAGAATAATATATATTTT
69659 ATTTTTATCT
Statistics
Matches: 41, Mismatches: 1, Indels: 6
0.85 0.02 0.12
Matches are distributed among these distances:
44 2 0.05
45 8 0.20
46 31 0.76
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.44
Consensus pattern (45 bp):
ATAAAATATATTTTTAAAGTTAAAATAAGAATAATATATATTTTT
Found at i:69773 original size:27 final size:27
Alignment explanation
Indices: 69679--69775 Score: 110
Period size: 27 Copynumber: 3.6 Consensus size: 27
69669 TAATTTAAAA
69679 AATAAAATATATTTTTAATT--GATAAG
1 AATAAAATATA-TTTTAATTAAGATAAG
* * *
69705 AATATAATATATATATAAATTAAAATAAG
1 AATA-AA-ATATATTTTAATTAAGATAAG
69734 AATAAAATATATTTTAATTGAAGATAAG
1 AATAAAATATATTTTAATT-AAGATAAG
69762 AA-AAAATATATTTT
1 AATAAAATATATTTT
69776 TAAATTTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
26 4 0.07
27 31 0.52
28 16 0.27
29 9 0.15
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (27 bp):
AATAAAATATATTTTAATTAAGATAAG
Found at i:69789 original size:29 final size:29
Alignment explanation
Indices: 69614--69781 Score: 114
Period size: 29 Copynumber: 5.7 Consensus size: 29
69604 ATATATTTTT
*
69614 ATAAAATATATTTTTAAAGGTTAAGATAAGA
1 ATAAAATATATTTTTAAA--TTAAAATAAGA
** ** *
69645 ATAATATATATTTTATTTTTATCTTAATTTAAAAA
1 ATAA-A-ATA---TATTTTTAAATTAAAAT-AAGA
*
69680 ATAAAATATATTTTT-AATT--GATAAGA
1 ATAAAATATATTTTTAAATTAAAATAAGA
* * *
69706 ATATAATATATATATAAATTAAAATAAGA
1 ATAAAATATATTTTTAAATTAAAATAAGA
*
69735 ATAAAATATA-TTTT-AATTGAAGATAAGA
1 ATAAAATATATTTTTAAATT-AAAATAAGA
69763 A-AAAATATATTTTTAAATT
1 ATAAAATATATTTTTAAATT
69782 TCAAATAATA
Statistics
Matches: 107, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
26 15 0.14
27 17 0.16
28 15 0.14
29 21 0.20
30 7 0.07
31 4 0.04
32 1 0.01
33 6 0.06
34 6 0.06
35 7 0.07
36 8 0.07
ACGTcount: A:0.52, C:0.01, G:0.06, T:0.42
Consensus pattern (29 bp):
ATAAAATATATTTTTAAATTAAAATAAGA
Found at i:69853 original size:195 final size:184
Alignment explanation
Indices: 69485--69981 Score: 430
Period size: 195 Copynumber: 2.5 Consensus size: 184
69475 TATATGTTTG
* * *
69485 AATAT-TTTTTCAATTAAGATAAGAATAAAATATATATTTTAAAATAAAAATATAATAAAATATA
1 AATATATTTTT-AATT-AGATAAGAATATAATATATA-TATAAATTAAAAA-A-AATAAAATAT-
* *
69549 ATTATAAATTGAAATAAAAATAAAATATATTTTTTATAATTAAAATAAGAATCAAATATATTTTT
60 ATT-TTAATTGAAATAAAAA-AAAATATA-TTTTTA-AATTAAAATAAGAATCAAATATATATTT
* ** * * *
69614 ATAAAATATATTTTTAAAGGTTAAGATAAGAATAATATATATTTTATTTTTATCTTAATTTAAAA
121 ATAAAATATAATTTTAAAAATTAAGATAAGAATAATATATA--TT-TTTTAAT-TCAA-AT-AAA
69679 AATAA
180 AATAA
69684 AATATATTTTTAATT-GATAAGAATATAATATATATATAAATTAAAATAAGAATAAAATATATTT
1 AATATATTTTTAATTAGATAAGAATATAATATATATATAAATTAAAA-AA-AATAAAATATATTT
* * * *
69748 TAATTGAAGATAAGAAAAAATATATTTTTAAATTTCAAATAATATAAT-AGGATATATATTTATA
64 TAATTGAA-ATAAAAAAAAATATATTTTTAAA-TTAAAAT-A-AGAATCA-AATATATATTTATA
*
69812 AAATA-AATTTTAAAAATTCA-ATACACGAATAATATATATTTTTTAATTCAAATAAAAATAA
124 AAATATAATTTTAAAAATTAAGATA-A-GAATAATATATATTTTTTAATTCAAATAAAAATAA
* * * *
69873 AAGATA-TTCTAATTGAAGATAAGAATAATATATACATATATACATATATTAAAACAAAATATAA
1 AATATATTTTTAATT--AGATAAGAAT-ATA-AT--ATATAT--ATAAATTAAAA-AAAATAAAA
*
69937 TATATTTTAATTGAACATAAAATAAAAATATTTTTTTAAAATTAA
57 TATATTTTAATTGAA-ATAAAA-AAAAATATATTTTT-AAATTAA
69982 GATATATAAA
Statistics
Matches: 252, Mismatches: 26, Indels: 42
0.79 0.08 0.13
Matches are distributed among these distances:
188 7 0.03
189 13 0.05
190 1 0.00
191 12 0.05
192 11 0.04
193 19 0.08
194 30 0.12
195 48 0.19
196 47 0.19
197 47 0.19
198 3 0.01
199 9 0.04
200 5 0.02
ACGTcount: A:0.54, C:0.03, G:0.04, T:0.39
Consensus pattern (184 bp):
AATATATTTTTAATTAGATAAGAATATAATATATATATAAATTAAAAAAAATAAAATATATTTTA
ATTGAAATAAAAAAAAATATATTTTTAAATTAAAATAAGAATCAAATATATATTTATAAAATATA
ATTTTAAAAATTAAGATAAGAATAATATATATTTTTTAATTCAAATAAAAATAA
Found at i:70108 original size:30 final size:30
Alignment explanation
Indices: 70064--70140 Score: 109
Period size: 30 Copynumber: 2.6 Consensus size: 30
70054 AAATGATATA
* * * *
70064 CTTGAAATAATGGTTTTGTGTTATGGTAGG
1 CTTGACATAGTGGTTTGGTGTTATAGTAGG
*
70094 CTTGACTTAGTGGTTTGGTGTTATAGTAGG
1 CTTGACATAGTGGTTTGGTGTTATAGTAGG
70124 CTTGACATAGTGGTTTG
1 CTTGACATAGTGGTTTG
70141 ATGCTTACTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.19, C:0.06, G:0.31, T:0.43
Consensus pattern (30 bp):
CTTGACATAGTGGTTTGGTGTTATAGTAGG
Found at i:78380 original size:15 final size:17
Alignment explanation
Indices: 78357--78390 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
78347 ATAAAACATA
78357 TTTAGTTTATTA-TTAT
1 TTTAGTTTATTATTTAT
78373 TTTA-TTTATTATTTAT
1 TTTAGTTTATTATTTAT
78389 TT
1 TT
78391 AGGACTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTAGTTTATTATTTAT
Found at i:78391 original size:15 final size:15
Alignment explanation
Indices: 78355--78392 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
78345 GAATAAAACA
78355 TATTTAGTTTATTAT
1 TATTTAGTTTATTAT
78370 TATTTTA-TTTATTATT
1 TA-TTTAGTTTATTA-T
78386 TATTTAG
1 TATTTAG
78393 GACTTTTAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (15 bp):
TATTTAGTTTATTAT
Found at i:79388 original size:24 final size:24
Alignment explanation
Indices: 79356--79417 Score: 117
Period size: 23 Copynumber: 2.6 Consensus size: 24
79346 ATTGAATCTC
79356 ATTATTAAATTTTATTTGTTAATA
1 ATTATTAAATTTTATTTGTTAATA
79380 ATTATTAAA-TTTATTTGTTAATA
1 ATTATTAAATTTTATTTGTTAATA
79403 ATTATTAAATTTTAT
1 ATTATTAAATTTTAT
79418 AGCTACAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 23 0.62
24 14 0.38
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (24 bp):
ATTATTAAATTTTATTTGTTAATA
Found at i:82336 original size:19 final size:19
Alignment explanation
Indices: 82312--82351 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
82302 GGTTTCTGGA
82312 GTTCTGAGGTACACCTATG
1 GTTCTGAGGTACACCTATG
82331 GTTCTGAGGTACACCTATG
1 GTTCTGAGGTACACCTATG
82350 GT
1 GT
82352 CAAGCTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (19 bp):
GTTCTGAGGTACACCTATG
Found at i:85068 original size:21 final size:21
Alignment explanation
Indices: 85034--85089 Score: 67
Period size: 22 Copynumber: 2.6 Consensus size: 21
85024 TGGATTGAAG
*
85034 AAGAAAGATAAAAAAGAAAAAA
1 AAGAAA-ATAAAAATGAAAAAA
*
85056 AGAGAAAATAAAAATGAAATAA
1 A-AGAAAATAAAAATGAAAAAA
*
85078 AATAAAATAAAA
1 AAGAAAATAAAA
85090 TGGGGTCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 10 0.33
22 15 0.50
23 5 0.17
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (21 bp):
AAGAAAATAAAAATGAAAAAA
Found at i:101340 original size:20 final size:20
Alignment explanation
Indices: 101315--101356 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
101305 ATTATGCTTG
101315 AAGAAAAA-AATAAAAATAAT
1 AAGAAAAAGAA-AAAAATAAT
*
101335 AAGAAAAAGAAAAATATAAT
1 AAGAAAAAGAAAAAAATAAT
101355 AA
1 AA
101357 AAAGAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (20 bp):
AAGAAAAAGAAAAAAATAAT
Found at i:101347 original size:18 final size:17
Alignment explanation
Indices: 101320--101363 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
101310 GCTTGAAGAA
*
101320 AAAAATAAAAATAATAAG
1 AAAAAGAAAAAT-ATAAG
*
101338 AAAAAGAAAAATATAAT
1 AAAAAGAAAAATATAAG
101355 AAAAAGAAA
1 AAAAAGAAA
101364 TTTGAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 13 0.54
18 11 0.46
ACGTcount: A:0.80, C:0.00, G:0.07, T:0.14
Consensus pattern (17 bp):
AAAAAGAAAAATATAAG
Found at i:102397 original size:20 final size:20
Alignment explanation
Indices: 102335--102398 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
102325 TTCTAGGAGA
102335 GTTCATAATGAGAAGAAC-T
1 GTTCATAATGAGAAGAACAT
** * * * *
102354 CATC-TGATGAGGGAGAAGAA
1 GTTCATAATGA-GAAGAACAT
102374 GTTCATAATGAGAAGAACAT
1 GTTCATAATGAGAAGAACAT
102394 GTTCA
1 GTTCA
102399 ACCTTAGCTC
Statistics
Matches: 30, Mismatches: 12, Indels: 5
0.64 0.26 0.11
Matches are distributed among these distances:
18 5 0.17
19 7 0.23
20 13 0.43
21 5 0.17
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACAT
Found at i:102881 original size:41 final size:42
Alignment explanation
Indices: 102803--102901 Score: 128
Period size: 41 Copynumber: 2.3 Consensus size: 42
102793 TTAATCGGTC
* *
102803 CTTCACAGAAGGAGTTGGATCACTAACAACCTTTCACTTGATT
1 CTTCACAG-AGGAGTTGGATCACTAACAACCTATCACTTGACT
* * *
102846 CTTCACAGAGTAGTTGGATCAGTAA-AACCTATCACTTGGCT
1 CTTCACAGAGGAGTTGGATCACTAACAACCTATCACTTGACT
102887 CTTCACAGAAGGAGT
1 CTTCACAG-AGGAGT
102902 CGAATCAACG
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
41 21 0.43
42 20 0.41
43 8 0.16
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
CTTCACAGAGGAGTTGGATCACTAACAACCTATCACTTGACT
Found at i:102968 original size:43 final size:43
Alignment explanation
Indices: 102886--102980 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 43
102876 ATCACTTGGC
* * * *
102886 TCTTCACAGAAGGAGTCGAATCAACGTCAATCTGATGCTTATT
1 TCTTCACAGAAGGAGTCGAAACAACATCAATATGATGCTTAAT
* *
102929 TCTTCACAGATGGAGTCGAAACAACATCATTAT-ATTGCTTAAT
1 TCTTCACAGAAGGAGTCGAAACAACATCAATATGA-TGCTTAAT
102972 TCTATCACA
1 TCT-TCACA
102981 AAATGAGGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 1 0.02
43 38 0.86
44 5 0.11
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.32
Consensus pattern (43 bp):
TCTTCACAGAAGGAGTCGAAACAACATCAATATGATGCTTAAT
Found at i:103119 original size:43 final size:44
Alignment explanation
Indices: 103053--103149 Score: 128
Period size: 43 Copynumber: 2.2 Consensus size: 44
103043 TTGTCATGTT
103053 ACTTGA-TCTTTCACAAAAGGAGTTGGATCAGT-AACAACCTTTC
1 ACTTGATTCTTTCACAAAAGGAGTTGGATCAGTGAA-AACCTTTC
* * *
103096 ACTTGATTCTTT-ACAGAATGAGTTGGATCAGTGAAAATCTTTC
1 ACTTGATTCTTTCACAAAAGGAGTTGGATCAGTGAAAACCTTTC
*
103139 ACTTGGTTCTT
1 ACTTGATTCTT
103150 AATAAAGAAG
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
43 41 0.85
44 7 0.15
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (44 bp):
ACTTGATTCTTTCACAAAAGGAGTTGGATCAGTGAAAACCTTTC
Found at i:103275 original size:259 final size:257
Alignment explanation
Indices: 102706--103476 Score: 958
Period size: 259 Copynumber: 3.0 Consensus size: 257
102696 GTTCAACCTT
* * *
102706 TTGCTTGATTCTATCACAGAAATAGTAGATCATCATCGACATTTTGTTTGATTCTTTACATAATG
1 TTGCTTGATTCTATCACAGAAAGAGTAGATCAGCATCGACATTTTGTTTGATTCTTTACATAAGG
* * * *
102771 AGTTGGATCAACATTTGTCATGTTAATCGGTCCTTCACAGAAGGAGTTGGATCACTAACAACCTT
66 AGTTGGATCAACATTTGTCATGTTACTCGATCATTCACAGAAGGAGTTGGATCAGTAACAACCTT
* * * * * *
102836 TCACTTGATTCTTCACAGAGT-AGTTGGATCAGT-AAAACCTATCACTTGGCTCTTCACAGAAGG
131 TCACTTGATTCTTAACAGAATGAGTTGGATCAGTGAAAATCTTTCACTTGGTTCTTAACA-AA-G
** * **
102899 AGTCGAATCAACGTCAATCTGATGCTTATTTCTTCACAGATGGAGTCGAAACAACATCATTATA
194 AGTCGAATCAGTGTCAATCTGATGCTTATTTCATCACAGATGGAGTCGAAACAACATCACCATA
* * * * * * *
102963 TTGCTTAATTCTATCACA-AAATGAGGTAGATCAGTATTGATATTTTGTTTGATTCATCACAGAA
1 TTGCTTGATTCTATCACAGAAA-GA-GTAGATCAGCATCGACATTTTGTTTGATTCTTTACATAA
* * *
103027 GGAGTTGGATCAACATTTGTCATGTTACTTGATCTTTCACAAAAGGAGTTGGATCAGTAACAACC
64 GGAGTTGGATCAACATTTGTCATGTTACTCGATCATTCACAGAAGGAGTTGGATCAGTAACAACC
* *
103092 TTTCACTTGATTCTTTACAGAATGAGTTGGATCAGTGAAAATCTTTCACTTGGTTCTTAATAAAG
129 TTTCACTTGATTCTTAACAGAATGAGTTGGATCAGTGAAAATCTTTCACTTGGTTCTTAACAAAG
* * * * **
103157 AAGTCGAATCAGTGTCAATCTGATGTTTGTTTCATCACAGAAT-GATTTGAAACAGTATCACCAT
194 -AGTCGAATCAGTGTCAATCTGATGCTTATTTCATCACAG-ATGGAGTCGAAACAACATCACCAT
103221 A
257 A
*
103222 TTGCTTGATTCTATCACAGAAAGAGATATATCAGCATCGACATTTTGTTTGATTCTTTACATAAG
1 TTGCTTGATTCTATCACAGAAAGAG-TAGATCAGCATCGACATTTTGTTTGATTCTTTACATAAG
* *
103287 GAGTTGGATCAACATTTGTCATGTTACTCGATCATTCATAGAAGGAGTTAGATCAGTAACAACCT
65 GAGTTGGATCAACATTTGTCATGTTACTCGATCATTCACAGAAGGAGTTGGATCAGTAACAACCT
* * * * *
103352 TTCACTCGATTCTTAAGAGAATGAGTTGGATCAGTGAAAATATTTCGCTTGGTTCTTCACAGAAA
130 TTCACTTGATTCTTAACAGAATGAGTTGGATCAGTGAAAATCTTTCACTTGGTTCTT-A-ACAAA
* * * * * * *
103417 GAGTTGAATCAGCT-TCAATCTGGTGCTCATTTCTTCACAGAAGGAGTCAAAACATCATCA
193 GAGTCGAATCAG-TGTCAATCTGATGCTTATTTCATCACAGATGGAGTCGAAACAACATCA
103477 TCATTTTTCT
Statistics
Matches: 437, Mismatches: 65, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
256 3 0.01
257 18 0.04
258 113 0.26
259 228 0.52
260 69 0.16
261 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (257 bp):
TTGCTTGATTCTATCACAGAAAGAGTAGATCAGCATCGACATTTTGTTTGATTCTTTACATAAGG
AGTTGGATCAACATTTGTCATGTTACTCGATCATTCACAGAAGGAGTTGGATCAGTAACAACCTT
TCACTTGATTCTTAACAGAATGAGTTGGATCAGTGAAAATCTTTCACTTGGTTCTTAACAAAGAG
TCGAATCAGTGTCAATCTGATGCTTATTTCATCACAGATGGAGTCGAAACAACATCACCATA
Found at i:109685 original size:19 final size:19
Alignment explanation
Indices: 109661--109698 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
109651 GGATTCATTT
109661 TCCGTAAGTCATTTTCCAA
1 TCCGTAAGTCATTTTCCAA
109680 TCCGTAAGTCATTTTCCAA
1 TCCGTAAGTCATTTTCCAA
109699 ACTTTTCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.11, T:0.37
Consensus pattern (19 bp):
TCCGTAAGTCATTTTCCAA
Found at i:109840 original size:31 final size:30
Alignment explanation
Indices: 109795--109875 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 30
109785 AAATATTATT
109795 TATT-TATTTATTAATATTTATAATAAAAAAA
1 TATTATATTTATTAATA-TTAT-ATAAAAAAA
*
109826 TATTATATTT-TTAATATTATATAAAATAA
1 TATTATATTTATTAATATTATATAAAAAAA
*
109855 TCAATTATATTATAATAATAT
1 T--ATTATATT-TATTAATAT
109876 AAGATATTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
29 9 0.21
30 4 0.09
31 18 0.42
32 6 0.14
33 6 0.14
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
TATTATATTTATTAATATTATATAAAAAAA
Found at i:109871 original size:30 final size:28
Alignment explanation
Indices: 109798--109876 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 28
109788 TATTATTTAT
109798 TTAT-TTATTAATATTTATAATAAAAAAATA
1 TTATATTA-TAATA-TTAT-ATAAAAAAATA
* *
109828 TTATATTTTTAATATTATATAAAATAATCAA
1 TTATA-TTATAATATTATATAAAAAAAT--A
*
109859 TTATATTATAATAATATA
1 TTATATTATAATATTATA
109877 AGATATTATA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
29 9 0.22
30 19 0.46
31 11 0.27
32 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (28 bp):
TTATATTATAATATTATATAAAAAAATA
Found at i:109920 original size:54 final size:52
Alignment explanation
Indices: 109807--109922 Score: 123
Period size: 54 Copynumber: 2.2 Consensus size: 52
109797 TTTATTTATT
*
109807 AATAT-TTATAATAAAAAAATATTATATTTTTAATATTATATAAAATAATCA
1 AATATATTATAATAAAAAAATATTATATTTTTAATATTATATAAAATAATAA
* * *
109858 ATTATATTATAATAATATAAGATATTATATTTTT-ATTTTA-ATAATATATAATAA
1 AATATATTATAATAA-A-AAAATATTATATTTTTAATATTATATAA-A-ATAATAA
109912 AA-ATTATTATA
1 AATA-TATTATA
109923 TATTTAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
51 4 0.07
52 13 0.24
53 8 0.15
54 29 0.54
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.47
Consensus pattern (52 bp):
AATATATTATAATAAAAAAATATTATATTTTTAATATTATATAAAATAATAA
Found at i:109929 original size:31 final size:31
Alignment explanation
Indices: 109784--109973 Score: 96
Period size: 29 Copynumber: 6.1 Consensus size: 31
109774 CATTTTCATC
* *
109784 AAAATATTATTTATTTATTTATTAATATTTATAAT
1 AAAA-ATTA-TTATATATTTAATAATA--TATAAT
* * *
109819 AAAAAAATATTATATTTTTAATATTATATAA-
1 -AAAAATTATTATATATTTAATAATATATAAT
* * *
109850 AATAATCAATTATAT-TATAATAATATA-AGAT
1 AAAAAT-TATTATATATTTAATAATATATA-AT
* *
109881 ATTATATT-TT-TAT-TTTAATAATATATAAT
1 A-AAAATTATTATATATTTAATAATATATAAT
109910 AAAAATTATTATATATTTAATAATGA-ATAAT
1 AAAAATTATTATATATTTAATAAT-ATATAAT
*
109941 ----ATTATTTATATATTTAAATAATATTTTAAT
1 AAAAATTA-TTATATATTT-AATAATA-TATAAT
109971 AAA
1 AAA
109974 GATATTTAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 35
0.69 0.10 0.20
Matches are distributed among these distances:
27 4 0.03
28 15 0.12
29 26 0.22
30 25 0.21
31 22 0.18
32 8 0.07
34 13 0.11
35 3 0.03
36 4 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
AAAAATTATTATATATTTAATAATATATAAT
Found at i:109942 original size:19 final size:19
Alignment explanation
Indices: 109920--109972 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
109910 AAAAATTATT
*
109920 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
109939 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
109961 ATAT-TTTAATAA
1 ATATATTTAATAA
109973 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Found at i:109993 original size:23 final size:23
Alignment explanation
Indices: 109967--110011 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
109957 AATAATATTT
109967 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
109990 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
110012 ATATAGCACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:114900 original size:26 final size:26
Alignment explanation
Indices: 114831--114930 Score: 148
Period size: 26 Copynumber: 3.8 Consensus size: 26
114821 AAATCGGCAT
*
114831 TCCTCTAAATTC-TTTTTTTATCAAA
1 TCCTCTCAATTCATTTTTTTATCAAA
*
114856 TCCTATCAATTCAATTTTTTTTATCAAA
1 TCCTCTCAATTC-A-TTTTTTTATCAAA
*
114884 TTCTCTCAATTCATTTTTTTATCAAA
1 TCCTCTCAATTCATTTTTTTATCAAA
114910 TCCTCTCAATTCATTTTTTTA
1 TCCTCTCAATTCATTTTTTTA
114931 ACTTTTTATC
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
25 10 0.15
26 33 0.49
27 1 0.01
28 23 0.34
ACGTcount: A:0.27, C:0.20, G:0.00, T:0.53
Consensus pattern (26 bp):
TCCTCTCAATTCATTTTTTTATCAAA
Found at i:118523 original size:20 final size:20
Alignment explanation
Indices: 118498--118568 Score: 117
Period size: 20 Copynumber: 3.5 Consensus size: 20
118488 TAATGAACCA
*
118498 AACGGCTCTAATCAACCACC
1 AACGGCTCCAATCAACCACC
118518 AACGGCTCCAATCAACCACC
1 AACGGCTCCAATCAACCACC
118538 AACGGCTCCAATCAA-CATCC
1 AACGGCTCCAATCAACCA-CC
118558 AACGGCTCCAA
1 AACGGCTCCAA
118569 ACAGCTAGAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
19 2 0.04
20 47 0.96
ACGTcount: A:0.35, C:0.41, G:0.11, T:0.13
Consensus pattern (20 bp):
AACGGCTCCAATCAACCACC
Found at i:125829 original size:75 final size:76
Alignment explanation
Indices: 125762--125925 Score: 242
Period size: 76 Copynumber: 2.2 Consensus size: 76
125752 AAAAAATGAT
* *
125762 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
125826 AAAATATAAAA
66 AAAATATAAAA
*
125837 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
1 ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
* * *
125901 ATAATGTTTAAA
66 AAAAT-ATAAAA
*
125913 ATATTATCCTAAA
1 ATAATATCCTAAA
125926 TTTAAGTTTA
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAAACCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAGAT
AAAATATAAAA
Found at i:127784 original size:8 final size:8
Alignment explanation
Indices: 127771--127821 Score: 57
Period size: 8 Copynumber: 5.8 Consensus size: 8
127761 TAAAATTCGC
127771 TAAAAAAA
1 TAAAAAAA
127779 TAAAAAAAAA
1 T--AAAAAAA
127789 TAAAACGAAAA
1 T-AAA--AAAA
127800 TAAAAAAA
1 TAAAAAAA
127808 TAAAAAAA
1 TAAAAAAA
127816 TAAAAA
1 TAAAAA
127822 CAAAAATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
8 19 0.49
9 4 0.10
10 11 0.28
11 5 0.13
ACGTcount: A:0.84, C:0.02, G:0.02, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:127804 original size:28 final size:28
Alignment explanation
Indices: 127773--127829 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
127763 AAATTCGCTA
*
127773 AAAAAATAAAAAAAAAT-AAAACGAAAAT
1 AAAAAA-AAAAAAAAATAAAAACAAAAAT
*
127801 AAAAAAATAAAAAAATAAAAACAAAAAT
1 AAAAAAAAAAAAAAATAAAAACAAAAAT
127829 A
1 A
127830 TAACGAAATG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 9 0.35
28 17 0.65
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.11
Consensus pattern (28 bp):
AAAAAAAAAAAAAAATAAAAACAAAAAT
Found at i:127804 original size:29 final size:28
Alignment explanation
Indices: 127771--127829 Score: 91
Period size: 29 Copynumber: 2.1 Consensus size: 28
127761 TAAAATTCGC
*
127771 TAAAAAAATAAAAAAAAATAAAACGAAAA
1 TAAAAAAATAAAAAAAAA-AAAACAAAAA
*
127800 TAAAAAAATAAAAAAATAAAAACAAAAA
1 TAAAAAAATAAAAAAAAAAAAACAAAAA
127828 TA
1 TA
127830 TAACGAAATG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.83, C:0.03, G:0.02, T:0.12
Consensus pattern (28 bp):
TAAAAAAATAAAAAAAAAAAAACAAAAA
Found at i:127820 original size:21 final size:22
Alignment explanation
Indices: 127775--127829 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
127765 ATTCGCTAAA
*
127775 AAAATAAAAAAA-AATAAAACG
1 AAAATAAAAAAATAATAAAAAG
*
127796 AAAATAAAAAAATAA-AAAAAT
1 AAAATAAAAAAATAATAAAAAG
*
127817 AAAA-ACAAAAATA
1 AAAATAAAAAAATA
127830 TAACGAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.27
21 20 0.67
22 2 0.07
ACGTcount: A:0.84, C:0.04, G:0.02, T:0.11
Consensus pattern (22 bp):
AAAATAAAAAAATAATAAAAAG
Found at i:127821 original size:22 final size:22
Alignment explanation
Indices: 127774--127832 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
127764 AATTCGCTAA
*
127774 AAAAATAAAAAAA-AATAAAAC
1 AAAAATAAAAAAATAAAAAAAC
* *
127795 GAAAATAAAAAAATAAAAAAAT
1 AAAAATAAAAAAATAAAAAAAC
* *
127817 AAAAACAAAAATATAA
1 AAAAATAAAAAAATAA
127833 CGAAATGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.83, C:0.03, G:0.02, T:0.12
Consensus pattern (22 bp):
AAAAATAAAAAAATAAAAAAAC
Found at i:127832 original size:14 final size:14
Alignment explanation
Indices: 127790--127832 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
127780 AAAAAAAAAT
* *
127790 AAAACGAAAATAAA
1 AAAACAAAAATATA
* *
127804 AAAATAAAAAAATA
1 AAAACAAAAATATA
127818 AAAACAAAAATATA
1 AAAACAAAAATATA
127832 A
1 A
127833 CGAAATGGGT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.81, C:0.05, G:0.02, T:0.12
Consensus pattern (14 bp):
AAAACAAAAATATA
Found at i:131750 original size:15 final size:15
Alignment explanation
Indices: 131730--131763 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
131720 TTCCTCTTGT
131730 TCTTCCTGATGTGCG
1 TCTTCCTGATGTGCG
131745 TCTTCCTGATGTGCG
1 TCTTCCTGATGTGCG
131760 TCTT
1 TCTT
131764 TTTCTGCTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.24, T:0.44
Consensus pattern (15 bp):
TCTTCCTGATGTGCG
Found at i:134273 original size:75 final size:76
Alignment explanation
Indices: 134181--134350 Score: 245
Period size: 76 Copynumber: 2.2 Consensus size: 76
134171 ATACCTAAAA
*
134181 AAAATATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATA
1 AAAA-ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATA
134245 AAGATAAAAT-AT
65 AA-ATAAAATGAT
* *
134257 AAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
1 AAAAATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
* *
134322 AATATAATGTT
66 AATAAAATGAT
* *
134333 TAAAATATTATCCTAAAT
1 AAAAATAATATCCTAAAT
134351 TTAAGTTTAA
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
75 32 0.38
76 52 0.62
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
AAAAATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAA
AATAAAATGAT
Found at i:135255 original size:19 final size:20
Alignment explanation
Indices: 135233--135278 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
135223 TTAAAATAAT
135233 AATATTAATTATT-TATTAA
1 AATATTAATTATTATATTAA
* *
135252 AATAAT-ATTGTTATATTAA
1 AATATTAATTATTATATTAA
135271 AATTATTA
1 AA-TATTA
135279 TTAAATAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 5 0.24
19 13 0.62
20 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AATATTAATTATTATATTAA
Found at i:135380 original size:24 final size:25
Alignment explanation
Indices: 135333--135387 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
135323 ATAATGTTAG
* ***
135333 AATACTATATTAATATTTTTTAAA-
1 AATATTATATTAATATTAAATAAAT
135357 AATATTATATTAATATTAAATAAAT
1 AATATTATATTAATATTAAATAAAT
135382 AATATT
1 AATATT
135388 TTTATATAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
24 20 0.77
25 6 0.23
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
AATATTATATTAATATTAAATAAAT
Found at i:143204 original size:653 final size:651
Alignment explanation
Indices: 141491--145189 Score: 6313
Period size: 651 Copynumber: 5.7 Consensus size: 651
141481 CGATCCGATA
* * * * *
141491 TGGAGTATCATATTAGGGCCACAGGAGCGACCCATCATAAAAATAGCGGAAAATTTAAAACTTTT
1 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
* * * *
141556 TAAAAAAACATGTAAACTTATAAAATCATGTATCAACATAAAAAATAAAACAGATTTTTAGACTT
66 TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
*
141621 GTTCATAAAA-AAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACAGCG
131 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
* *
141685 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAA-TTGTTTTAACATGAAAAGGTGAG
196 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
*
141749 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGAAG
261 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
*
141814 ATACAGATAAATATTTATATATCCTTATTGTTT-TCGAACATTAACAGACTTTTATGCTGAACAG
326 ATACAGATAAATATTTATATATCCTTATTGTTTCT-GAACATTTACAGACTTTTATGCTGAACAG
*
141878 AGATCATACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTCGGAT
390 AGATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTCGGAT
* * *
141943 GACTGAGTTTAGGAGATCAGAACAGGTTATCTAGTGTCTTCCCATAAAACCAGTAAAAAGATACA
455 GACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACA
* *
142008 GATCTTTTAAAAC--ATATATATATATATACCCACATCCGTT-ACGTACAAAATGTGTAAG-TCC
520 GATCTTTTAAAACATATATATATATATATACCCCCATCC-TTCACGTACAAAATGTGTAGGTTCC
* *
142069 CCAGAACAATACAACCCCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAGGT
584 CCAGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAGGT
142134 ATC
649 ATC
142137 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
1 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
142202 TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAAATAAAACAGATTTTCAGACT
66 TAACAGAACATGTAAACTTATAAAATCATGTATCAATAT-AAAAAATAAAACAGATTTTCAGACT
*
142267 TGTTCATAAAATAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACC
130 TGTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACC
* *
142332 GGAAGAATTCCCTTACTGAAGTCGAT-GATGCACTGGTACAA-TTTTTTTAACATGAAAAGGTGA
195 GGAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGA
* *
142395 GTAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAAATAATGCTGATGAACGTGCA
260 GTAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCA
* * *
142460 TATACAGATAAATATTTATATATCCTTATTGTTTCCGAACATTTAAAGACTTTTATGCTGAACAG
325 GATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAG
* *
142525 AGATCCTACTTATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTTA-ATGAAATATTTCGGA
390 AGATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGA-GAAATATTTCGGA
* *
142589 TGACTGAGTTCAGGAGATTAGAATAGGTTATCTAGTGTCTTCCCATAAAACCAGTAAAAAGATAC
454 TGACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATAC
* *
142654 AGATATTTTAAAACATATATATATATATATATACCCCCATCCATCACGTACAAAATGTGTAGGTT
519 AGATCTTTTAAAAC--ATATATATATATATATACCCCCATCCTTCACGTACAAAATGTGTAGGTT
* * * * *
142719 CCCCAAAACCATACAACACCTTCACGTCCAGTAAGCCCCTTAGCACACAGTCGAGGAACCTCAAG
582 CCCCAGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAG
142784 GTATC
647 GTATC
* *
142789 TGGAGTGTCACATTAGGGCCACCGGAGCGATCCACCGTAAAAATAGCGAAAAATTTAAAACTTTT
1 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
* *
142854 TAACAGAACCTGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACATATTTTCAGACTT
66 TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
* *
142919 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTTTGCAACAACATCG
131 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
142984 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
196 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
* *
143049 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAATGTGCAT
261 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
143114 ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAGA
326 ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAGA
*
143179 GATCTTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTCGGATG
391 GATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTCGGATG
*
143244 ACTGAGTTCAAGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACAG
456 ACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACAG
* * *
143309 ATCTTTTAAAACATATATATATATATATACCCCAATCGTTCACGTACAAAATATGTAGGTTCCCC
521 ATCTTTTAAAACATATATATATATATATACCCCCATCCTTCACGTACAAAATGTGTAGGTTCCCC
* * *
143374 AGAACCATACAACACCGTCACATCCAGTAAGGCCCTGAGCACACGGCCGAGGAACCTCTAGGTAT
586 AGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAGGTAT
143439 C
651 C
* *
143440 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATATCGGAAACTTTAAAACTTTT
1 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
* *
143505 TAACAGAACATGTAAACTTATAGAATCATGTATCAATATAAAAAATAAAACGGATTTTCAGACTT
66 TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
143570 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
131 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
* * *
143635 GAAGAACTCACTTACTGAAGTCGATAGATGCATTGGTACAATTTTTTTTTACCTGAAAAGGTGAG
196 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
*
143700 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAAAACTACCAGATGATGCTGATGAACGTGCAG
261 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
* *
143765 ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACATACTTTTATGTTGAACAGA
326 ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAGA
* * * *
143830 GATCCTACTTATATTTCAGGTGGTAACGAACAATGAGCTTTCAATTCAGAGAAATATTTCGGATA
391 GATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTCGGATG
143895 ACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACAG
456 ACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACAG
*
143960 ATCTTTTAAAACATATATATATATATATACCCCTATCCTTCACGTACAAAATGTGTAGGTTCCCC
521 ATCTTTTAAAACATATATATATATATATACCCCCATCCTTCACGTACAAAATGTGTAGGTTCCCC
* * * *
144025 AGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAACTGAGGAACTTCCAGGTAT
586 AGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAGGTAT
144090 C
651 C
144091 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
1 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
*
144156 TAACATAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
66 TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
*
144221 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCA
131 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
* *
144286 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTGTTTTTAACCTGAAAAAGTGAG
196 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
* *
144351 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACATAACTACCAGATGATGCCGATGAACGTGCAG
261 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
* *
144416 ATACAGATAAATATTTATATATCCTTATTGTTTCCGAACATTTACATACTTTTATGCTGAACAGA
326 ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAGA
* * *
144481 GATCCTACTGATATTTTAGGTGGTAACGGACAATGAGCTTTCAATTCAAAGAAATAATTT-GGAT
391 GATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAAT-ATTTCGGAT
* *
144545 GACTGAGTTTAGGAGATCAGAATATGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACA
455 GACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACA
* *
144610 TATCTTTTAAAACATATATATATATATATACCCCTATCCTTCACGTACAAAATGTGTAGGTTCCC
520 GATCTTTTAAAACATATATATATATATATACCCCCATCCTTCACGTACAAAATGTGTAGGTTCCC
* *
144675 CAGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAACCGAGGAACCTCCAGGTA
585 CAGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAGGTA
144740 TC
650 TC
* *
144742 TGGAGTGTCACATTAGGGCCACCGGAGTGACCCACCGTAAAAATAGCGAAAAATTTAAAACTTTT
1 TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
*
144807 TAATAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
66 TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
*
144872 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCA
131 GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
*
144937 GAAGAACTCCCTTTCTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
196 GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
145002 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
261 TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
* * *
145067 ATACAAATAAATATTTATATATCCTTATTGTTTCTGAACATTTAAATACTTTTATGCTGAACAGA
326 ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAGA
* * *
145132 GATCCTACTTATATTTCAGGTGGTAACGAACAATGAGCTTTCAATTCAGGAGAAATAT
391 GATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCA-GAGAAATAT
145190 ATATACCCAT
Statistics
Matches: 2895, Mismatches: 143, Indels: 25
0.95 0.05 0.01
Matches are distributed among these distances:
646 97 0.03
647 327 0.11
648 77 0.03
650 1 0.00
651 1922 0.66
652 190 0.07
653 280 0.10
654 1 0.00
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (651 bp):
TGGAGTGTCACATTAGGGCCACCGGAGCGACCCACCGTAAAAATAGCGGAAAATTTAAAACTTTT
TAACAGAACATGTAAACTTATAAAATCATGTATCAATATAAAAAATAAAACAGATTTTCAGACTT
GTTCATAAAACAAAATTCAATTACATGCCCCCTAATCACATGTACCATACTCTGCAACAACACCG
GAAGAACTCCCTTACTGAAGTCGATAGATGCACTGGTACAATTTTTTTTAACCTGAAAAGGTGAG
TAATAGAGTGAGCTTTGGAAAGCTCAGTAATACAGAACTACCAGATGATGCTGATGAACGTGCAG
ATACAGATAAATATTTATATATCCTTATTGTTTCTGAACATTTACAGACTTTTATGCTGAACAGA
GATCCTACTGATATTTCAGGTGGTAACGGACAATGAGCTTTCAGTTCAGAGAAATATTTCGGATG
ACTGAGTTCAGGAGATCAGAATAGGTTATCTAGTGTGTTCCCATAAAACCAGTAAAAAGATACAG
ATCTTTTAAAACATATATATATATATATACCCCCATCCTTCACGTACAAAATGTGTAGGTTCCCC
AGAACCATACAACACCGTCACGTCCAGTAAGGCCCTGAGCACACAGCCGAGGAACCTCAAGGTAT
C
Found at i:145239 original size:23 final size:23
Alignment explanation
Indices: 145209--145256 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
145199 TCCGTCACGT
145209 ACAAAATGTGTAGGTTCCCCAGA
1 ACAAAATGTGTAGGTTCCCCAGA
145232 ACAAAATGTGTAGGTTCCCCAGA
1 ACAAAATGTGTAGGTTCCCCAGA
145255 AC
1 AC
145257 CATATAACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (23 bp):
ACAAAATGTGTAGGTTCCCCAGA
Found at i:145440 original size:24 final size:24
Alignment explanation
Indices: 145430--145544 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
145420 CATAATTCAC
* * *
145430 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
145454 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
* *
145478 GTCAAGTATCAGATCATAATCTAT
1 GTCAAGTATCAGATCAGAATCCAT
145502 GTC-AGATATCAGATCAGAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
145526 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
145545 ATCAAATCGA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 77 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.19, G:0.16, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:145561 original size:48 final size:48
Alignment explanation
Indices: 145406--145561 Score: 129
Period size: 48 Copynumber: 3.2 Consensus size: 48
145396 AAACGGATAT
* * * * * * * *
145406 ATCAAAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAG
1 ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCTAA
* * * *
145454 GTCA-AGTATCAGATCAGAATCCAAGTCAAGTATCAGATCATAATCTAT
1 ATCAGA-AATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCTAA
* * *
145502 GTCAGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGAAATC-AA
1 ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCA-AAATCTAA
145550 ATC-GAAAATCAG
1 ATCAG-AAATCAG
145562 GTAAAATATT
Statistics
Matches: 89, Mismatches: 15, Indels: 8
0.79 0.13 0.07
Matches are distributed among these distances:
47 2 0.02
48 82 0.92
49 5 0.06
ACGTcount: A:0.44, C:0.19, G:0.13, T:0.24
Consensus pattern (48 bp):
ATCAGAAATCAGATCAGAATCCAAGTCAAGTATCAGATCAAAATCTAA
Found at i:145561 original size:72 final size:71
Alignment explanation
Indices: 145410--145561 Score: 175
Period size: 72 Copynumber: 2.1 Consensus size: 71
145400 GGATATATCA
* *
145410 AAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
1 AAAATCAGATCATAATTCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATC
*
145475 CAAGTC
66 CAAATC
* * * *
145481 AAGTATCAGATCATAA-TCTATGTC-AGATATCAGATCAGAATCCATGTCAAGTATCAGATCAGA
1 AA-AATCAGATCATAATTC-ACGTCAAG-TATCAGATCAAAATCCAGGTCAAGTATCAGATCAG-
145544 AAT-CAAATC
62 AATCCAAATC
145553 GAAAATCAG
1 -AAAATCAG
145562 GTAAAATATT
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
71 6 0.09
72 57 0.84
73 5 0.07
ACGTcount: A:0.43, C:0.19, G:0.13, T:0.24
Consensus pattern (71 bp):
AAAATCAGATCATAATTCACGTCAAGTATCAGATCAAAATCCAGGTCAAGTATCAGATCAGAATC
CAAATC
Found at i:148976 original size:24 final size:28
Alignment explanation
Indices: 148930--148979 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 28
148920 TATATTAATT
148930 ATATATTATTATATAATTAAAACAAAAA
1 ATATATTATTATATAATTAAAACAAAAA
148958 ATAT-TTATTA-AT-ATT-AAACAAA
1 ATATATTATTATATAATTAAAACAAA
148980 TAAAATCTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 2 0.09
27 6 0.27
28 4 0.18
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (28 bp):
ATATATTATTATATAATTAAAACAAAAA
Found at i:148998 original size:17 final size:17
Alignment explanation
Indices: 148976--149012 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
148966 TAATATTAAA
148976 CAAATAAAATCTTCGCT
1 CAAATAAAATCTTCGCT
148993 CAAATAAAATCTTCGCT
1 CAAATAAAATCTTCGCT
149010 CAA
1 CAA
149013 TGCCAATGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.43, C:0.24, G:0.05, T:0.27
Consensus pattern (17 bp):
CAAATAAAATCTTCGCT
Found at i:152682 original size:25 final size:25
Alignment explanation
Indices: 152644--152698 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
152634 TATTCAAGTA
* *
152644 ATATCTATGTCGTTCAGGTACTGAC
1 ATATCCATGCCGTTCAGGTACTGAC
152669 ATATCCATGCCGTTCAGGTACTGAC
1 ATATCCATGCCGTTCAGGTACTGAC
152694 ATATC
1 ATATC
152699 ATTAAGGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (25 bp):
ATATCCATGCCGTTCAGGTACTGAC
Found at i:156610 original size:19 final size:19
Alignment explanation
Indices: 156563--156599 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
156553 GTCATTTTCG
156563 ATATCGATACTACATATTC
1 ATATCGATACTACATATTC
156582 ATATCGATACTACATATT
1 ATATCGATACTACATATT
156600 AGTATCAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (19 bp):
ATATCGATACTACATATTC
Found at i:159024 original size:25 final size:25
Alignment explanation
Indices: 158990--159045 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
158980 AAAAGGGACC
158990 AAGATTCAAGTAGAGAACAACAAGA
1 AAGATTCAAGTAGAGAACAACAAGA
159015 AAGATTCAAGTAGAGAACAACAAGA
1 AAGATTCAAGTAGAGAACAACAAGA
159040 AAGATT
1 AAGATT
159046 ATTGTAAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.55, C:0.11, G:0.20, T:0.14
Consensus pattern (25 bp):
AAGATTCAAGTAGAGAACAACAAGA
Found at i:159477 original size:23 final size:23
Alignment explanation
Indices: 159450--159494 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
159440 TCCAGTTTTA
*
159450 TTTTATTTTATTAGTATTATTAC
1 TTTTATTATATTAGTATTATTAC
*
159473 TTTTATTATATTATTATTATTA
1 TTTTATTATATTAGTATTATTA
159495 TTAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTATTATATTAGTATTATTAC
Found at i:159481 original size:3 final size:3
Alignment explanation
Indices: 159447--159516 Score: 58
Period size: 3 Copynumber: 24.0 Consensus size: 3
159437 TTTTCCAGTT
*
159447 TTA TT- TTA TT- TTA TTA GTA TTA TTA CTT- TTA TTA -TA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
* **
159489 TTA TTA TTA ATA AAA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA T-TA TTA TTA TTA
159517 CAGCCCATTT
Statistics
Matches: 55, Mismatches: 6, Indels: 12
0.75 0.08 0.16
Matches are distributed among these distances:
2 8 0.15
3 43 0.78
4 4 0.07
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:161259 original size:19 final size:19
Alignment explanation
Indices: 161216--161265 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
161206 GTGTCATAAT
161216 TTTAAAATTATAATATTTA
1 TTTAAAATTATAATATTTA
**
161235 AATAAAATTAT-ATAATTTA
1 TTTAAAATTATAAT-ATTTA
*
161254 TTTAAAAATATA
1 TTTAAAATTATA
161266 GTCGATTTCT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.08
19 22 0.92
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTAAAATTATAATATTTA
Found at i:165439 original size:25 final size:24
Alignment explanation
Indices: 165383--165439 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
165373 TCCAGGTAAG
*
165383 CATACTTCATAAACCAGTAAATTT
1 CATATTTCATAAACCAGTAAATTT
*
165407 CATGATTTCATAAATCATGTACAA-TT
1 CAT-ATTTCATAAACCA-GTA-AATTT
165433 CATATTT
1 CATATTT
165440 TTCGATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 3 0.11
25 15 0.54
26 8 0.29
27 2 0.07
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.39
Consensus pattern (24 bp):
CATATTTCATAAACCAGTAAATTT
Found at i:166607 original size:28 final size:27
Alignment explanation
Indices: 166553--166607 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
166543 CTGAGCTTGG
*
166553 TGATATTCTTGAGTCATTTCCATTCCAA
1 TGATATTCTT-AGTCATTTACATTCCAA
166581 TGATATTCTT-GTCATTTTACATATCCA
1 TGATATTCTTAGTCA-TTTACAT-TCCA
166608 GTGTATTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 4 0.17
27 6 0.25
28 14 0.58
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.45
Consensus pattern (27 bp):
TGATATTCTTAGTCATTTACATTCCAA
Found at i:170028 original size:31 final size:31
Alignment explanation
Indices: 169993--170060 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
169983 TACTGACCTA
169993 ATCTTAAATAAATAAAAACAAAAGTGACCAT
1 ATCTTAAATAAATAAAAACAAAAGTGACCAT
* * **
170024 ATCTTAATTAAATAAAAACGAAAGTGATTAT
1 ATCTTAAATAAATAAAAACAAAAGTGACCAT
170055 ATCTTA
1 ATCTTA
170061 TATATTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.29
Consensus pattern (31 bp):
ATCTTAAATAAATAAAAACAAAAGTGACCAT
Found at i:170185 original size:12 final size:12
Alignment explanation
Indices: 170168--170204 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
170158 ATAATATACA
*
170168 TTTTTTCATAAT
1 TTTTTTAATAAT
170180 TTTTTTAATAAT
1 TTTTTTAATAAT
170192 TTTTTTAATAAT
1 TTTTTTAATAAT
170204 T
1 T
170205 GATAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTAATAAT
Found at i:177565 original size:24 final size:24
Alignment explanation
Indices: 177529--177634 Score: 86
Period size: 24 Copynumber: 4.4 Consensus size: 24
177519 CAGAGATATT
* *
177529 AGAAATCAAAACAGAATTCAGATA
1 AGAAATCAGAACAGAATCCAGATA
* *
177553 AGATATCAGAACAGAATCCAGATC
1 AGAAATCAGAACAGAATCCAGATA
* * * *
177577 AGAAATCAAAATAGAATCCAGGTC
1 AGAAATCAGAACAGAATCCAGATA
** * * * *
177601 AGGTATCCGAACATAATTCAAATA
1 AGAAATCAGAACAGAATCCAGATA
177625 AGAAATCAGA
1 AGAAATCAGA
177635 TAAAACATTC
Statistics
Matches: 61, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (24 bp):
AGAAATCAGAACAGAATCCAGATA
Found at i:177613 original size:48 final size:48
Alignment explanation
Indices: 177529--177632 Score: 118
Period size: 48 Copynumber: 2.2 Consensus size: 48
177519 CAGAGATATT
* * *
177529 AGAAATCAAAACAGAATTCAGATAAGATATCAGAACAGAATCCAGATC
1 AGAAATCAAAACAGAATCCAGATAAGATATCAGAACAGAATCCAAATA
* * * * * * *
177577 AGAAATCAAAATAGAATCCAGGTCAGGTATCCGAACATAATTCAAATA
1 AGAAATCAAAACAGAATCCAGATAAGATATCAGAACAGAATCCAAATA
177625 AGAAATCA
1 AGAAATCA
177633 GATAAAACAT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.18
Consensus pattern (48 bp):
AGAAATCAAAACAGAATCCAGATAAGATATCAGAACAGAATCCAAATA
Found at i:187636 original size:73 final size:73
Alignment explanation
Indices: 187547--187751 Score: 217
Period size: 74 Copynumber: 2.8 Consensus size: 73
187537 TTTCGACTGT
* * *
187547 TAAA-TGAC-TAGAGGTATCGGTACCTCCA-G-GGGATATCGGTACCC-ATAGGGCATTCTATTT
1 TAAATTGACATAGGGGTATCGGTACC-CCATGAGGG-TATCGGTACCCTAT-GGGCAATCGATTT
*
187607 TTCTCGGAG-T
63 TTCTCGGAGCC
* *
187617 TAAAACTTG-CATAGGGGTATCGGTACCCTATGATGGGTATCGGTACCCTATGGGCAATCGGTTT
1 T-AAA-TTGACATAGGGGTATCGGTACCCCATGA-GGGTATCGGTACCCTATGGGCAATCGATTT
187681 TTCTCGGAGCC
63 TTCTCGGAGCC
*
187692 TAAATTGACATAGGGGTATCGGTACACCCTATGAGGGGTATCGGTACCCTCTGGGCAATC
1 TAAATTGACATAGGGGTATCGGTAC-CCC-ATGA-GGGTATCGGTACCCTATGGGCAATC
187752 TGGTTGTCTC
Statistics
Matches: 114, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
70 1 0.01
71 3 0.03
72 3 0.03
73 21 0.18
74 50 0.44
75 8 0.07
76 28 0.25
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.28
Consensus pattern (73 bp):
TAAATTGACATAGGGGTATCGGTACCCCATGAGGGTATCGGTACCCTATGGGCAATCGATTTTTC
TCGGAGCC
Found at i:187656 original size:20 final size:20
Alignment explanation
Indices: 187631--187668 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
187621 ACTTGCATAG
187631 GGGTATCGGTACCCTATGAT
1 GGGTATCGGTACCCTATGAT
187651 GGGTATCGGTACCCTATG
1 GGGTATCGGTACCCTATG
187669 GGCAATCGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (20 bp):
GGGTATCGGTACCCTATGAT
Found at i:187678 original size:18 final size:19
Alignment explanation
Indices: 187635--187678 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
187625 GCATAGGGGT
**
187635 ATCGGTACCCTATGATGGGT
1 ATCGGTACCCTATGA-GGCA
187655 ATCGGTACCCTATG-GGCA
1 ATCGGTACCCTATGAGGCA
187673 ATCGGT
1 ATCGGT
187679 TTTTCTCGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
20 14 0.64
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (19 bp):
ATCGGTACCCTATGAGGCA
Found at i:187747 original size:76 final size:75
Alignment explanation
Indices: 187574--187756 Score: 232
Period size: 74 Copynumber: 2.4 Consensus size: 75
187564 CGGTACCTCC
* * *
187574 AGGGGATATCGGTACCC-ATAGGGCATTCT-ATTTTTCTCGGAGTTAAAACTTGCATAGGGGTAT
1 AGGGG-TATCGGTACCCTAT-GGGCAATCTGGTTTTTCTCGGAGCTAAAACTTGCATAGGGGTAT
187637 CGGTACCCTATG
64 CGGTACCCTATG
*
187649 ATGGGTATCGGTACCCTATGGGCAATC-GGTTTTTCTCGGAGCCT-AAA-TTGACATAGGGGTAT
1 AGGGGTATCGGTACCCTATGGGCAATCTGGTTTTTCTCGGAG-CTAAAACTTG-CATAGGGGTAT
187711 CGGTACACCCTATG
64 CGGT--ACCCTATG
*
187725 AGGGGTATCGGTACCCTCTGGGCAATCTGGTT
1 AGGGGTATCGGTACCCTATGGGCAATCTGGTT
187757 GTCTCGAAGC
Statistics
Matches: 95, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
73 3 0.03
74 48 0.51
75 7 0.07
76 33 0.35
77 4 0.04
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (75 bp):
AGGGGTATCGGTACCCTATGGGCAATCTGGTTTTTCTCGGAGCTAAAACTTGCATAGGGGTATCG
GTACCCTATG
Found at i:187762 original size:76 final size:74
Alignment explanation
Indices: 187626--187767 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 74
187616 TTAAAACTTG
* * *
187626 CATAGGGGTATCGGTACCCTATGATGGGTATCGGTACCCTATGGGCAATCGGTTTTTCTCGGAGC
1 CATAGGGGTATCGGTACCCTATGAGGGGTATCGGTACCCTATGGGCAATCGGTTTGTCTCGAAGC
187691 CTAAATTGA
66 CTAAATTGA
*
187700 CATAGGGGTATCGGTACACCCTATGAGGGGTATCGGTACCCTCTGGGCAATCTGG-TTGTCTCGA
1 CATAGGGGTATCGGT--ACCCTATGAGGGGTATCGGTACCCTATGGGCAATC-GGTTTGTCTCGA
187764 AGCC
63 AGCC
187768 CTTTTATAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
74 15 0.25
76 44 0.72
77 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (74 bp):
CATAGGGGTATCGGTACCCTATGAGGGGTATCGGTACCCTATGGGCAATCGGTTTGTCTCGAAGC
CTAAATTGA
Found at i:189289 original size:135 final size:136
Alignment explanation
Indices: 189110--189359 Score: 353
Period size: 135 Copynumber: 1.8 Consensus size: 136
189100 AAAAAGATTA
* * * * * * *
189110 TCGGGTTTCGAATTTGACGAAACGGACTTCGGATTTGGATTCAGGACGTCCAAAAACATAAAATA
1 TCGGGTTTCGAATTTGACAAAACAGACTTCGGAATCGGACTCAGGACATCAAAAAACATAAAATA
* *
189175 TGACTTTTCGAAAATTTTGACTTTTTAGTCGAAGTCGAA-GTCAACGGGTTTGATTGACAATTTT
66 TGACTTTTCGAAAATTTTGACGTTTTAGTCAAAGTC-AACGTCAACGGGTTTGATTGACAATTTT
189239 GAGGCTT
130 GAGGCTT
189246 TCGGG-TTCGAATTTGGA-AAAACAGACTTCGGAATCGGACTCAGGACATCAAAAAACATAAAAT
1 TCGGGTTTCGAATTT-GACAAAACAGACTTCGGAATCGGACTCAGGACATCAAAAAACATAAAAT
* *
189309 ATTACTTTTCGAAAATTTTGACGTTTTGGTCAAAGTCAACGGTCAACGGGT
65 ATGACTTTTCGAAAATTTTGACGTTTTAGTCAAAGTCAAC-GTCAACGGGT
189360 CGGATCGGGT
Statistics
Matches: 100, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
134 2 0.02
135 81 0.81
136 17 0.17
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (136 bp):
TCGGGTTTCGAATTTGACAAAACAGACTTCGGAATCGGACTCAGGACATCAAAAAACATAAAATA
TGACTTTTCGAAAATTTTGACGTTTTAGTCAAAGTCAACGTCAACGGGTTTGATTGACAATTTTG
AGGCTT
Found at i:191792 original size:19 final size:19
Alignment explanation
Indices: 191747--191793 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
191737 TTATTTTATT
*
191747 TGAAAATAACAAAAAATAG
1 TGAAAATGACAAAAAATAG
191766 TGAAAATGACAAAAAATAG
1 TGAAAATGACAAAAAATAG
191785 TGAAAATGA
1 TGAAAATGA
191794 TCATCCTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.64, C:0.04, G:0.15, T:0.17
Consensus pattern (19 bp):
TGAAAATGACAAAAAATAG
Found at i:193887 original size:56 final size:58
Alignment explanation
Indices: 193827--193940 Score: 153
Period size: 56 Copynumber: 2.0 Consensus size: 58
193817 TTTTTGGGGC
* * *
193827 TATGTCGAGGAGCGATCCAACTTAATC-TCGGAAAGGTTGGGTTTT-AAA-AAATGTAT
1 TATGTCG-GGAACGATCCAAATTAATCTTCGAAAAGGTTGGGTTTTAAAATAAATGTAT
* *
193883 TATGTCGGGAATGATCCAAATTAATCTTTGAAAAGGTTGGGTTTTAAAATAAATGTAT
1 TATGTCGGGAACGATCCAAATTAATCTTCGAAAAGGTTGGGTTTTAAAATAAATGTAT
193941 AAATAAAAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 16 0.32
56 23 0.46
57 3 0.06
58 8 0.16
ACGTcount: A:0.34, C:0.10, G:0.23, T:0.33
Consensus pattern (58 bp):
TATGTCGGGAACGATCCAAATTAATCTTCGAAAAGGTTGGGTTTTAAAATAAATGTAT
Found at i:194707 original size:16 final size:16
Alignment explanation
Indices: 194657--194708 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
194647 TATTAGGTGT
194657 TAAAATTACAAAT-AA-
1 TAAAATTA-AAATAAAC
194672 TAAAA-T-AAATAACAC
1 TAAAATTAAAATAA-AC
194687 T-AAATTAAAATAAAC
1 TAAAATTAAAATAAAC
194702 TAAAATT
1 TAAAATT
194709 GTGTGGCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
12 4 0.13
13 1 0.03
14 5 0.16
15 10 0.32
16 11 0.35
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (16 bp):
TAAAATTAAAATAAAC
Found at i:195837 original size:13 final size:13
Alignment explanation
Indices: 195819--195843 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
195809 TGGGCTTGGA
195819 TGCTTGTTGGGTT
1 TGCTTGTTGGGTT
195832 TGCTTGTTGGGT
1 TGCTTGTTGGGT
195844 CGGATGACTC
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:0.00, C:0.08, G:0.40, T:0.52
Consensus pattern (13 bp):
TGCTTGTTGGGTT
Found at i:195924 original size:20 final size:21
Alignment explanation
Indices: 195899--195955 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
195889 GCCTGTAATA
*
195899 AATAATAATATTATTATTA-T
1 AATAATAATATTAATATTATT
*
195919 AATAATGATATTAATATTATT
1 AATAATAATATTAATATTATT
*
195940 AATAAATAATAATAAT
1 AAT-AATAATATTAAT
195956 TATAAATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 17 0.55
21 4 0.13
22 10 0.32
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (21 bp):
AATAATAATATTAATATTATT
Found at i:195957 original size:20 final size:20
Alignment explanation
Indices: 195894--195965 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
195884 ATTTGGCCTG
195894 TAATAAATAATAAT-ATTAT
1 TAATAAATAATAATAATTAT
*
195913 TATTATAATAATGATATTAATATTAT
1 TAATA-AATAAT-A-A-T-A-ATTAT
195939 TAATAAATAATAATAATTAT
1 TAATAAATAATAATAATTAT
*
195959 AAATAAA
1 TAATAAA
195966 AAAGGGTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
19 4 0.09
20 17 0.40
21 2 0.05
22 2 0.05
23 2 0.05
24 1 0.02
25 6 0.14
26 9 0.21
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (20 bp):
TAATAAATAATAATAATTAT
Found at i:197469 original size:2 final size:2
Alignment explanation
Indices: 197464--197492 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
197454 ATATTATTCA
197464 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 A
197493 GATGCCTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:208179 original size:20 final size:20
Alignment explanation
Indices: 208154--208192 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
208144 CATCATGCTC
208154 GAAGGTCTTATAGATAGCCT
1 GAAGGTCTTATAGATAGCCT
208174 GAAGGTCTTATAGATAGCC
1 GAAGGTCTTATAGATAGCC
208193 CAAAGGACTT
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:0.31, C:0.15, G:0.26, T:0.28
Consensus pattern (20 bp):
GAAGGTCTTATAGATAGCCT
Found at i:208198 original size:20 final size:20
Alignment explanation
Indices: 208155--208204 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
208145 ATCATGCTCG
**
208155 AAGGTCTTATAGATAGCCTG
1 AAGGTCTTATAGATAGCCCA
208175 AAGGTCTTATAGATAGCCCA
1 AAGGTCTTATAGATAGCCCA
*
208195 AAGGACTTAT
1 AAGGTCTTAT
208205 CATCTTGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (20 bp):
AAGGTCTTATAGATAGCCCA
Found at i:208677 original size:258 final size:256
Alignment explanation
Indices: 208170--208820 Score: 827
Period size: 258 Copynumber: 2.5 Consensus size: 256
208160 CTTATAGATA
* * * *
208170 GCCTGAAGGTCTTATAGATAGCCCAAAGGACTTATCATCTTGCTTGAAAGACTGAAAGACTGAAA
1 GCCTGAAGGTCTTGTACATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACT----GA--G--A
* * ** * * * * *
208235 GATGACCCGAATAATTTAATCATCATGCTTGAAAGACTTATTGATAGCCCGAATGACTTACTAAT
58 GATAACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAAT
* * * *
208300 TTTGGAAATAGTTTACTTGGTAAGAAACTTTGGAAATTGCTTTCATACTTTTCAACAATTTCATT
123 TTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTT-AAAAATTTCATT
* *
208365 TTATGAAAACACTAAATGATAAACTTTGAAAATCACTTTCTCATTTTCAAATTATCACATGAAAG
187 TTATGAAAATACTAAATGA-AAACTTTGAAAATCGCTTTCTCATTTTCAAATTATCACATGAAAG
208430 CATCTT
251 CATCTT
* *
208436 GCCTGAAGGTCTTGTACATGGCCCGAAGGACTTACCATCTTGCTT-AGAAGGCTGAGAGATAACC
1 GCCTGAAGGTCTTGTACATGGCCCGAAGGACTTATCATCTTGCTTGA-AAGACTGAGAGATAACC
* * * *
208500 CAAAGGATTTAATAATCATGCTCGAATGATTTACTGATGGCCCGAAGGATTTACCAATTTTGGAA
65 CAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAA
* * *
208565 ATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTTAAAATTACATTTTGTGAAA
130 ATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTAAAAATTTCATTTTATGAAA
* *
208630 ATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAATTATCACATGAAAACATCTT
195 ATACTAAATGA-AAACTTTGAAAATCGCTTTCTCA-TTTTCAAATTATCACATGAAAGCATCTT
** * * * *
208694 GCCCAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTGACAGATAACCC
1 GCCTGAAGGTCTTGTACATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTGAGAGATAACCC
* * *
208759 GAAGGATTTAATCATCATGCTCGAAATACTTACTGATGGCCCGAAGGACTTAACAATTTTGG
66 AAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGG
208821 GCTTGTTGAC
Statistics
Matches: 336, Mismatches: 46, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
257 48 0.14
258 238 0.71
259 1 0.00
260 1 0.00
262 2 0.01
265 1 0.00
266 45 0.13
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (256 bp):
GCCTGAAGGTCTTGTACATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTGAGAGATAACCC
AAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTTGGAAA
TAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTAAAAATTTCATTTTATGAAAA
TACTAAATGAAAACTTTGAAAATCGCTTTCTCATTTTCAAATTATCACATGAAAGCATCTT
Found at i:208780 original size:42 final size:42
Alignment explanation
Indices: 208715--208811 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
208705 TTATAGATGG
*
208715 CCCGAAGGACTT-ATCATCTTGCTCGAAAGACTGACAGATAA
1 CCCGAAGGACTTAATCATCATGCTCGAAAGACTGACAGATAA
* * * * **
208756 CCCGAAGGATTTAATCATCATGCTCGAAATACTTACTGATGG
1 CCCGAAGGACTTAATCATCATGCTCGAAAGACTGACAGATAA
208798 CCCGAAGGACTTAA
1 CCCGAAGGACTTAA
208812 CAATTTTGGG
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
41 11 0.23
42 36 0.77
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (42 bp):
CCCGAAGGACTTAATCATCATGCTCGAAAGACTGACAGATAA
Found at i:208920 original size:16 final size:16
Alignment explanation
Indices: 208882--208917 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
208872 TGTAATAAAA
208882 AATAATAATTATTAAT
1 AATAATAATTATTAAT
208898 AATAATAATTA-TAAT
1 AATAATAATTATTAAT
208913 AATAA
1 AATAA
208918 ATATTAACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AATAATAATTATTAAT
Found at i:209601 original size:258 final size:258
Alignment explanation
Indices: 209060--211113 Score: 1449
Period size: 258 Copynumber: 7.7 Consensus size: 258
209050 TCAAATGAGT
* * * * *
209060 CTGACAGATGACCCAAAGGATTTAATCATCATACTCGAAAGACTTACTTATGGCCTGGAGAACTT
1 CTGACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* *
209125 ACCAATTTTGGAAATATTTTACTAGGTAAAAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAAT
66 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC-AAAAT
*
209190 TTCTTTTTTCTGAAAAATACTAAATGA-AAACTTTGAAAATCACTTTCTCATTTTCAAATTATCA
130 TTC-ATTTTCTG-AAAATACTAAATGATAAACTTTGAAAATCACTTTCTCATTTTCAAATTATCA
* * * * * *
209254 CATGAAATCATCTTGCTCGAAGGACTTATAGATAGCCCGAAGGACTTATCATCTTTCT-TGAAAG
193 CATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAG
209318 A
258 A
* * * *
209319 CTCACATATGACCCGAAA-GATTTAATCATCATGCTCGAAAGACTTACTGATGGCCTGAATGACT
1 CTGACAGATGACCC-AAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
* * *
209383 TACCAATTTTGGAAATAGTTTACTTGGTAAGAAACTTTGGAAATTGCTTTCATACTTTTCAACAA
65 TACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA-AA
**
209448 TTTCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATCGTTTTCTCATTTTCAAATTATCAC
129 TTTCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATCACTTTCTCATTTTCAAATTATCAC
* *
209513 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGATGGACTTACCATCTTGCTCGGAAAG-
194 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAGA
* * * * * * *
209577 TTGAGAGATAACCCAAAGGATTTAATAATCATGCTCGAAAGATTTACTGATGACCCGAAGGATTT
1 CTGACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
*
209642 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAATT
66 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATT
* * * *
209707 TCATTTTGTAAAAATACTAAATGAGAAACTTTGAAAATCGA-TTTCTCATTTTTTAAATTATCAC
131 TCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATC-ACTTTCTCA-TTTTCAAATTATCAC
* * *
209771 ATGAAAACATCTTGCCCAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCT-TGAAAGA
194 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAGA
* *
209835 CTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCAAAGGACTT
1 CTGACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* *** * *** * * * * * * *
209900 AACAATTTTGGGCTTA-TTGAC-CCCT-TGTAA-TTAGGCCCAA---CTTGGGCTT-GTTGT---
66 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGG--AAATCGCTT--TCTTACTTTTCAA
** * ** * * * * * * * *** **
209954 AATGGGCATGTAATAAAAAATAATAATTATTAATAATAATTATTATAAT-AATAAAT-ATTAACA
127 AAT-TTCATTTTCT-GAAAATACTAA--A-TGATAA-ACTT-TGAAAATCACTTTCTCATTTTCA
* * * *** * * * * * *
210017 AAATAT-ACGGGTGAAA-AAGAGTG-CCTAATGCTACCCTTCT---TTGCCC--ATG-CTTGTGC
185 AATTATCAC--ATGAAAGCATCTTGCCCGAA-GGT---CTTATAGATGGCCCGAAGGACTTAT-C
* ** * *
210073 TAACAAGAATAGGGAAAAGA
243 -ATCTTG-CT-CGG-AAAGA
* * * * * ** * ** * *
210093 -TAAAAAAAAGACAACATTTTTTTCTGG-TTTTATCCTGATGTTGACTC-AAATGAGTCTGACAG
1 CT-GACAGATGAC-CCA-------AAGGATTTAAT-C--ATCATG-CTCGAAA-GA--CTTACTG
* * * ** ** * *
210155 ATGACCCAAAGGATTTAATTATCATACT-CAAA-AGAATTACTTATGGCCTGAAGAACTTACCAA
50 ATGGCCCGAAGGACTT-ACCA--ATTTTGGAAATAG-TTTAC-TA-GG--T-AAGAA---A-C--
** ** * * *
210218 TTTTGGAAAT-ATTTTACTAGGTAAAAAACTTTGGAAATCGCTTTTACTTTTC-AAAAATTTCAT
100 -TTTGGAAATCGCTTT-CT---T-----ACTTTTCAAA---ATTTCA-TTTTCTGAAAA--T-A-
**
210281 TTTTCTGAAAAT-ACTAAA-TGAAAACTTTGAAAATCACTTTCTCATTTTCAAATTATCACATGA
147 ----CT--AAATGA-TAAACT--TT-----GAAAATCACTTTCTCATTTTCAAATTATCACATGA
* ** * * *
210344 AAGCATCTTGCTCGAAGGTCTTATAGATATCCCGAAGGACTTATCATATTTCT-TGAAAGA
198 AAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAGA
* *
210404 CTGACAGATGA-CCAGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAATGACT
1 CTGACAGATGACCCA-AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
* * *
210468 TACCAATTTTGGAAATAGTTTACTTGGTAAGAAACTTTGGAAATTGCTTTCATACTTTTCAACAA
65 TACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA-AA
*
210533 TTTCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATTACTTTCTCA-TTTCAAATTATCAC
129 TTTCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATCACTTTCTCATTTTCAAATTATCAC
* *
210597 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTACCATCTTGCTCGG-AAGG
194 ATGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAGA
* * * * * * *
210661 CTGAGAGATAACCCAAAGGATTTAATAATCATGCTCGAAAGATTTACTGATGACCCAAAGGATTT
1 CTGACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
*
210726 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCTCTTTCTTACTTTTCAAAATT
66 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATT
* * * *
210791 TCATTTTGTGAAAATACTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTAAATTATCACA
131 TCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATCACTTTCTCA-TTTTCAAATTATCACA
* * * ** * * *
210856 TGAAAGCATCTTGCACAAAAGAATTATAGATGACCTGAAGGACTTATCATCATGCTC-GAAAGA
195 TGAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAGA
* * *
210919 CTGACAGATGACCCGAAGGATTTAATCATCATGCTTGAAAGACTTACTAATGGCCCGAAGGACTT
1 CTGACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
* * *
210984 ACCAATTTTGGAAATAGTTTACTAGGTTAGAAACTTTGGAAATCACTTTTTTACTTTTCAAAATT
66 ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAA-T
* *
211049 TTCATTTTCTGAAAATTACTAAATG-TGAAACTTTGAAAATCGCTTTCTTATTTTTCAAATTATC
130 TTCATTTTCTGAAAA-TACTAAATGAT-AAACTTTGAAAATCACTTTCTCA-TTTTCAAATTATC
211113 A
192 A
211114 TAAAGACAAC
Statistics
Matches: 1390, Mismatches: 271, Indels: 267
0.72 0.14 0.14
Matches are distributed among these distances:
251 3 0.00
252 9 0.01
253 16 0.01
254 16 0.01
255 26 0.02
256 62 0.04
257 258 0.19
258 556 0.40
259 135 0.10
260 48 0.03
264 8 0.01
265 7 0.01
266 5 0.00
268 7 0.01
269 5 0.00
271 20 0.01
272 4 0.00
273 5 0.00
274 14 0.01
276 7 0.01
277 1 0.00
279 1 0.00
281 3 0.00
284 11 0.01
285 3 0.00
287 3 0.00
288 3 0.00
289 6 0.00
291 6 0.00
292 1 0.00
294 2 0.00
295 4 0.00
296 7 0.01
297 6 0.00
298 17 0.01
300 6 0.00
301 12 0.01
302 1 0.00
303 6 0.00
304 6 0.00
306 1 0.00
307 2 0.00
308 4 0.00
309 4 0.00
311 16 0.01
312 6 0.00
313 8 0.01
314 20 0.01
315 6 0.00
316 3 0.00
317 4 0.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (258 bp):
CTGACAGATGACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
ACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAATT
TCATTTTCTGAAAATACTAAATGATAAACTTTGAAAATCACTTTCTCATTTTCAAATTATCACAT
GAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGGAAAGA
Found at i:209876 original size:42 final size:42
Alignment explanation
Indices: 209799--209901 Score: 136
Period size: 42 Copynumber: 2.5 Consensus size: 42
209789 AAGGTCTTAT
* *
209799 AGATGGCCCGAAGGACTT-ATCATCTTGCTTGAAAGACTGAC
1 AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGAC
* * *
209840 AGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTAC
1 AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGAC
* *
209882 TGATGGCCCAAAGGACTTAA
1 AGATGGCCCGAAGGACTTAA
209902 CAATTTTGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.23
Consensus pattern (42 bp):
AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTGAC
Found at i:209988 original size:13 final size:13
Alignment explanation
Indices: 209972--210005 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
209962 TGTAATAAAA
209972 AATAATAATTATT
1 AATAATAATTATT
209985 AATAATAATTATT
1 AATAATAATTATT
209998 -ATAATAAT
1 AATAATAAT
210006 AAATATTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATAATTATT
Found at i:210959 original size:42 final size:42
Alignment explanation
Indices: 210882--210984 Score: 138
Period size: 42 Copynumber: 2.5 Consensus size: 42
210872 AAAAGAATTA
*
210882 TAGATGACCTGAAGGACTTATCATCATGCTCGAAAGACTGAC
1 TAGATGACCCGAAGGACTTATCATCATGCTCGAAAGACTGAC
* * *
210924 -AGATGACCCGAAGGATTTAATCATCATGCTTGAAAGACTTAC
1 TAGATGACCCGAAGGACTT-ATCATCATGCTCGAAAGACTGAC
*
210966 TA-ATGGCCCGAAGGACTTA
1 TAGATGACCCGAAGGACTTA
210985 CCAATTTTGG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
41 17 0.32
42 35 0.66
43 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.24
Consensus pattern (42 bp):
TAGATGACCCGAAGGACTTATCATCATGCTCGAAAGACTGAC
Found at i:215368 original size:20 final size:20
Alignment explanation
Indices: 215319--215371 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
215309 GGTGTCAAAG
* *
215319 TGTATCCATACACCCTGCAG
1 TGTATCCATGCACCCTGCAA
* *
215339 TGCATCCATGCACTCTGCAA
1 TGTATCCATGCACCCTGCAA
215359 TGTATCCATGCAC
1 TGTATCCATGCAC
215372 AGTGTATCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.25, C:0.34, G:0.15, T:0.26
Consensus pattern (20 bp):
TGTATCCATGCACCCTGCAA
Found at i:215475 original size:15 final size:16
Alignment explanation
Indices: 215436--215484 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 16
215426 CAATGCGATT
215436 AGTGTACCGATGCACCCCG
1 AGTGTACCGATGCA---CG
215455 AGTGTACCGATGCAC-
1 AGTGTACCGATGCACG
*
215470 AGTGTATCGATGCAC
1 AGTGTACCGATGCAC
215485 CCTGGCTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 14 0.48
16 1 0.03
19 14 0.48
ACGTcount: A:0.24, C:0.29, G:0.27, T:0.20
Consensus pattern (16 bp):
AGTGTACCGATGCACG
Found at i:218604 original size:21 final size:18
Alignment explanation
Indices: 218561--218617 Score: 71
Period size: 18 Copynumber: 3.1 Consensus size: 18
218551 CAACAATTGG
218561 TAACAATTGATATCTTTT
1 TAACAATTGATATCTTTT
218579 TAACAATTGATATCATTTTGT
1 TAACAATTGATATC--TTT-T
*
218600 TAACAATTGGTAT-TTTT
1 TAACAATTGATATCTTTT
218617 T
1 T
218618 TCATTAAACA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
17 2 0.06
18 17 0.49
20 3 0.09
21 13 0.37
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.51
Consensus pattern (18 bp):
TAACAATTGATATCTTTT
Found at i:218618 original size:21 final size:21
Alignment explanation
Indices: 218561--218608 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 21
218551 CAACAATTGG
218561 TAACAATTGATATC--TTT-T
1 TAACAATTGATATCATTTTGT
218579 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
218600 TAACAATTG
1 TAACAATTG
218609 GTATTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 14 0.52
20 3 0.11
21 10 0.37
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.46
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:218892 original size:20 final size:20
Alignment explanation
Indices: 218841--218894 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
218831 AGGGTGTCGA
*
218841 AGTGTATCCATACACCCTGC
1 AGTGTATCCATGCACCCTGC
* *
218861 AGTGCATCCATGCACTCTGC
1 AGTGTATCCATGCACCCTGC
218881 AGTGTATCCATGCA
1 AGTGTATCCATGCA
218895 TAGTATATTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (20 bp):
AGTGTATCCATGCACCCTGC
Found at i:219000 original size:15 final size:15
Alignment explanation
Indices: 218980--219015 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
218970 TGCAATCCCG
218980 AGTGTACCGATGCAC
1 AGTGTACCGATGCAC
*
218995 AGTGTATCGATGCAC
1 AGTGTACCGATGCAC
*
219010 ACTGTA
1 AGTGTA
219016 GTGTATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (15 bp):
AGTGTACCGATGCAC
Found at i:219430 original size:34 final size:33
Alignment explanation
Indices: 219391--219461 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 33
219381 TTTTGTAAAG
*
219391 GGGAAAGGTTCTAGCTAAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTAAGCCCGTG-AAAAACTA
* * *
219425 GGGAAAGGTTCTAGTTTATCCCGTGAAAAACTA
1 GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
219458 GGGA
1 GGGA
219462 GTTGTAAAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
33 11 0.33
34 22 0.67
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (33 bp):
GGGAAAGGTTCTAGCTAAGCCCGTGAAAAACTA
Found at i:230360 original size:67 final size:67
Alignment explanation
Indices: 230250--230413 Score: 204
Period size: 67 Copynumber: 2.4 Consensus size: 67
230240 GAGTAGATTG
* * * * * *
230250 TTTGTCTCCCTTGAGACAGTTTCTCTTCAAACATTAACATTTGATATTGTTTCTCTCGAAATAAA
1 TTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACATTTGAGATTATTTCTCTCGAAACAAA
230315 GT
66 GT
* * * *
230317 TTTGTTTCGCTTGAGACAGTTTCTCTTGAAATATAAACCTTTGAGATTATTTCTCTCGAAGCAAA
1 TTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACATTTGAGATTATTTCTCTCGAAACAAA
230382 GT
66 GT
* *
230384 TTCT-TCTCGCTTGAGACATTTTCCCTTGAA
1 TT-TGTCTCGCTTGAGACAGTTTCTCTTGAA
230414 GCCCAAATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
67 82 0.99
68 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (67 bp):
TTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAACATTTGAGATTATTTCTCTCGAAACAAA
GT
Found at i:230544 original size:14 final size:14
Alignment explanation
Indices: 230527--230553 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
230517 CGCAAATTTC
230527 GAAACAAAATTTTT
1 GAAACAAAATTTTT
230541 GAAACAAAATTTT
1 GAAACAAAATTTT
230554 ATCTCACCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (14 bp):
GAAACAAAATTTTT
Found at i:230553 original size:13 final size:13
Alignment explanation
Indices: 230520--230553 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
230510 CTTGAAACGC
*
230520 AAATTTCGAAACA
1 AAATTTTGAAACA
230533 AAATTTTTGAAACA
1 AAA-TTTTGAAACA
230547 AAATTTT
1 AAATTTT
230554 ATCTCACCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.35
Consensus pattern (13 bp):
AAATTTTGAAACA
Found at i:231213 original size:137 final size:137
Alignment explanation
Indices: 230959--231216 Score: 329
Period size: 137 Copynumber: 1.9 Consensus size: 137
230949 CGACTAGATG
* * * * *
230959 TCCTCAACATGAAGGAACAATTTCATCCACCGATCAGATCCCCTTAACGCAAAGGAGCAGTATCA
1 TCCTCAACACGAAGGAACAATGTCATCCACCGACCAGAACCCCTCAACGCAAAGGAGCAGTATCA
* * * * *
231024 TCCTCAAACAATCAGACTTTCTCAACAAGAAGGGATCGTGTTGCCTTCAAATTATCTAGATACGG
66 TCCTCAAACAATCAGACTTCCTCAACAAGAAAGAATCATGTTACCTTCAAATTATCTAGATACGG
231089 CTAGACA
131 CTAGACA
* * * * *
231096 TCCTCAACACGAAGGAACGATGTCATCCACCGACCA-AACCTCCTCAATGCAAGGGTGCAGTGTC
1 TCCTCAACACGAAGGAACAATGTCATCCACCGACCAGAACC-CCTCAACGCAAAGGAGCAGTATC
* * * *
231160 ATCCTCAGACAATCAGACTTCCTCAACACGAAAGAATCATGTTATCTTTAAATTATC
65 ATCCTCAAACAATCAGACTTCCTCAACAAGAAAGAATCATGTTACCTTCAAATTATC
231217 CTGATTGTAT
Statistics
Matches: 101, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
136 3 0.03
137 98 0.97
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.23
Consensus pattern (137 bp):
TCCTCAACACGAAGGAACAATGTCATCCACCGACCAGAACCCCTCAACGCAAAGGAGCAGTATCA
TCCTCAAACAATCAGACTTCCTCAACAAGAAAGAATCATGTTACCTTCAAATTATCTAGATACGG
CTAGACA
Found at i:231428 original size:3 final size:3
Alignment explanation
Indices: 231420--231444 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
231410 TGAGTTATTT
231420 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
231445 TATTATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:231449 original size:3 final size:3
Alignment explanation
Indices: 231443--231518 Score: 125
Period size: 3 Copynumber: 25.0 Consensus size: 3
231433 CATCATCATC
*
231443 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
231491 CTT ATT ATT ATT ATT ATT ATT CATT ATT
1 ATT ATT ATT ATT ATT ATT ATT -ATT ATT
231519 TTCATGTTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
3 65 0.96
4 3 0.04
ACGTcount: A:0.32, C:0.03, G:0.01, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:233323 original size:39 final size:38
Alignment explanation
Indices: 233280--233371 Score: 105
Period size: 39 Copynumber: 2.4 Consensus size: 38
233270 ATAAATCAAA
233280 TATTTTATT-TATTAAAATGATATTAATATTTTCTTATTT
1 TATTTTATTCTATTAAAATGATATT-ATATTTT-TTATTT
*** * *
233319 TATTTTATTCTATTTTTATGTTATTTTATTTTTTATTT
1 TATTTTATTCTATTAAAATGATATTATATTTTTTATTT
233357 TATTTTTATTCTATT
1 TA-TTTTATTCTATT
233372 TTAATTTAAG
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.17
39 27 0.59
40 11 0.24
ACGTcount: A:0.25, C:0.03, G:0.02, T:0.70
Consensus pattern (38 bp):
TATTTTATTCTATTAAAATGATATTATATTTTTTATTT
Found at i:233335 original size:16 final size:17
Alignment explanation
Indices: 233316--233360 Score: 65
Period size: 16 Copynumber: 2.7 Consensus size: 17
233306 TATTTTCTTA
233316 TTTTATTTTATTCTA-T
1 TTTTATTTTATTCTATT
* *
233332 TTTTATGTTATTTTATT
1 TTTTATTTTATTCTATT
233349 TTTTATTTTATT
1 TTTTATTTTATT
233361 TTTATTCTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 13 0.52
17 12 0.48
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTATTTTATTCTATT
Found at i:233337 original size:11 final size:10
Alignment explanation
Indices: 233317--233379 Score: 53
Period size: 11 Copynumber: 6.4 Consensus size: 10
233307 ATTTTCTTAT
233317 TTTA-TTTTA
1 TTTATTTTTA
233326 TTCTATTTTTA
1 TT-TATTTTTA
233337 TGTTA-TTTTA
1 T-TTATTTTTA
*
233347 TTT-TTTAT-
1 TTTATTTTTA
233355 TTTATTTTTA
1 TTTATTTTTA
*
233365 TTCTATTTTAA
1 TT-TATTTTTA
233376 TTTA
1 TTTA
233380 AGTATTGACA
Statistics
Matches: 44, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.07
9 11 0.25
10 12 0.27
11 17 0.39
12 1 0.02
ACGTcount: A:0.21, C:0.03, G:0.02, T:0.75
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:233373 original size:16 final size:15
Alignment explanation
Indices: 233316--233374 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
233306 TATTTTCTTA
*
233316 TTTTATTTTATTCTAT
1 TTTTA-TTTATTTTAT
233332 TTTTATGTTATTTTA-
1 TTTTAT-TTATTTTAT
233347 -TTT-TTTATTTTAT
1 TTTTATTTATTTTAT
233360 TTTTATTCTATTTTA
1 TTTTATT-TATTTTA
233375 ATTTAAGTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
12 8 0.22
13 1 0.03
14 6 0.16
15 3 0.08
16 19 0.51
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTTATTTATTTTAT
Found at i:233378 original size:6 final size:5
Alignment explanation
Indices: 233313--233379 Score: 62
Period size: 5 Copynumber: 12.6 Consensus size: 5
233303 TAATATTTTC
* *
233313 TTATT TTATT TTATT CTATTT TTATG TTATT TTATTTT TTATT TTATTT
1 TTATT TTATT TTATT TTA-TT TTATT TTATT TTA--TT TTATT TTA-TT
* *
233362 TTATT CTATT TTAAT TTA
1 TTATT TTATT TTATT TTA
233380 AGTATTGACA
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 37 0.73
6 9 0.18
7 5 0.10
ACGTcount: A:0.21, C:0.03, G:0.01, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:233883 original size:10 final size:10
Alignment explanation
Indices: 233868--233897 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
233858 TGGTGACTCC
233868 AATTCAAAAT
1 AATTCAAAAT
*
233878 AATTCAAATT
1 AATTCAAAAT
233888 AATTCAAAAT
1 AATTCAAAAT
233898 CCCAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.10, G:0.00, T:0.33
Consensus pattern (10 bp):
AATTCAAAAT
Done.