Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007817.1 Hibiscus syriacus cultivar Beakdansim tig00110152_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: 465523
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 3
Found at i:326 original size:19 final size:20
Alignment explanation
Indices: 285--335 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
275 GAAACCCCTT
*
285 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
305 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
324 TGAAGATACATG
1 TGAAAATACATG
336 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.43, C:0.06, G:0.16, T:0.35
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:4489 original size:19 final size:19
Alignment explanation
Indices: 4465--4514 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
4455 GAAACCCCTT
*
4465 TGAAAATACATGATTTTGA
1 TGAAAATACATGATTTTAA
4484 TGAAAATACATGATTTTAA
1 TGAAAATACATGATTTTAA
*
4503 TGAAGATACATG
1 TGAAAATACATG
4515 CTCTTGGCCG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.16, T:0.34
Consensus pattern (19 bp):
TGAAAATACATGATTTTAA
Found at i:9582 original size:26 final size:26
Alignment explanation
Indices: 9430--9569 Score: 174
Period size: 26 Copynumber: 5.4 Consensus size: 26
9420 TCATTTTTAC
*
9430 TCGCACTCGAAAGTGTTATTTATCAT
1 TCGCACTCGAAAGTGCTATTTATCAT
* *
9456 TCGCACTCGAAAGTTCTATTTATCAA
1 TCGCACTCGAAAGTGCTATTTATCAT
* * * *
9482 TCACACTTGAAAGTGCTATTTTTCAC
1 TCGCACTCGAAAGTGCTATTTATCAT
*
9508 TCGCACTCGAAAGTGCCATTTATCACT
1 TCGCACTCGAAAGTGCTATTTATCA-T
* *
9535 T-GCACTCTAAAGTGCGATTTATCAT
1 TCGCACTCGAAAGTGCTATTTATCAT
9560 TCGCACTCGA
1 TCGCACTCGA
9570 TATTGCTTTT
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
25 2 0.02
26 93 0.97
27 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (26 bp):
TCGCACTCGAAAGTGCTATTTATCAT
Found at i:11358 original size:18 final size:19
Alignment explanation
Indices: 11326--11363 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
11316 CCATCATTAA
*
11326 TTCATGAAACCCTAACATT
1 TTCATGAAACCCTAAAATT
*
11345 TTCAT-AAACTCTAAAATT
1 TTCATGAAACCCTAAAATT
11363 T
1 T
11364 GGGAAACTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.39, C:0.21, G:0.03, T:0.37
Consensus pattern (19 bp):
TTCATGAAACCCTAAAATT
Found at i:13135 original size:19 final size:20
Alignment explanation
Indices: 13111--13153 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13101 TATTGTTACC
*
13111 AAGGG-TGGTA-TCGATACTG
1 AAGGGTTGGTACT-GATACTA
13130 AAGGGTTGGTACTGATACTA
1 AAGGGTTGGTACTGATACTA
13150 AAGG
1 AAGG
13154 ACTTAGTATC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 15 0.71
21 1 0.05
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (20 bp):
AAGGGTTGGTACTGATACTA
Found at i:15597 original size:3 final size:3
Alignment explanation
Indices: 15589--15617 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
15579 TTTTGTTTCT
15589 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
15618 TATGGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:18799 original size:100 final size:100
Alignment explanation
Indices: 18600--18784 Score: 273
Period size: 100 Copynumber: 1.8 Consensus size: 100
18590 TCACGTGATG
* * * * * *
18600 ACTCTACTTGACTAGCTCGGGGGTGGATGGTATTCTTCCTTTCACTTAGAGTGTGGGATGGTAGT
1 ACTCTACCTGACTAACTCGGGGGTGAAAGGTATGCTTCCTTTCACTTAGAGTATGGGATGGTAGT
* *
18665 GTGATGAGCTGACGCCTTTTAAAGTATAATAAAAA
66 GTGATGAGATGACACCTTTTAAAGTATAATAAAAA
18700 ACTCTACCTGACTAACTCGGGGGTGAAAGGTATGC-TCTCTTTCACTTAGAGTATGGGATGGTAG
1 ACTCTACCTGACTAACTCGGGGGTGAAAGGTATGCTTC-CTTTCACTTAGAGTATGGGATGGTAG
18764 TGTGATGAGATGACTACCTTT
65 TGTGATGAGATGAC-ACCTTT
18785 GAAGTGTTAA
Statistics
Matches: 75, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
99 2 0.03
100 68 0.91
101 5 0.07
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (100 bp):
ACTCTACCTGACTAACTCGGGGGTGAAAGGTATGCTTCCTTTCACTTAGAGTATGGGATGGTAGT
GTGATGAGATGACACCTTTTAAAGTATAATAAAAA
Found at i:21349 original size:14 final size:14
Alignment explanation
Indices: 21330--21365 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
21320 AGTTTATATC
21330 ATATTATTATTAGT
1 ATATTATTATTAGT
*
21344 ATATTATTATTATT
1 ATATTATTATTAGT
*
21358 ATTTTATT
1 ATATTATT
21366 TCATTTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (14 bp):
ATATTATTATTAGT
Found at i:22353 original size:19 final size:16
Alignment explanation
Indices: 22329--22385 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 16
22319 TTTTCCCTTT
22329 TTCATTATATATATATATA
1 TTCATTAT-TAT-TAT-TA
22348 TTCATTATTATTATTA
1 TTCATTATTATTATTA
*
22364 TT-ATTATT-TAATTA
1 TTCATTATTATTATTA
22378 TT-ATTATT
1 TTCATTATT
22386 TTTTCCTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
14 13 0.35
15 6 0.16
16 4 0.11
17 3 0.08
18 3 0.08
19 8 0.22
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
TTCATTATTATTATTA
Found at i:22359 original size:3 final size:3
Alignment explanation
Indices: 22332--22385 Score: 56
Period size: 3 Copynumber: 17.0 Consensus size: 3
22322 TCCCTTTTTC
*
22332 ATT ATAT ATAT ATAT ATT CATT ATT ATT ATT ATT ATT ATT -TA ATT ATT
1 ATT AT-T AT-T AT-T ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22380 ATT ATT
1 ATT ATT
22386 TTTTCCTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 1 0.02
3 31 0.67
4 14 0.30
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:22420 original size:2 final size:2
Alignment explanation
Indices: 22408--22450 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
22398 TTTATTTCGT
* *
22408 TA TA CA TA TA TA TA TA TA CA 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
22450 T
1 T
22451 TGATTTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:22472 original size:21 final size:21
Alignment explanation
Indices: 22448--22489 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
22438 TATATATATA
22448 TATTGATT-TATTTAATATTTT
1 TATT-ATTATATTTAATATTTT
* *
22469 TATTATTATTTTTATTATTTT
1 TATTATTATATTTAATATTTT
22490 CCATTTTTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (21 bp):
TATTATTATATTTAATATTTT
Found at i:22480 original size:12 final size:12
Alignment explanation
Indices: 22463--22487 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22453 ATTTATTTAA
22463 TATTTTTATTAT
1 TATTTTTATTAT
22475 TATTTTTATTAT
1 TATTTTTATTAT
22487 T
1 T
22488 TTCCATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TATTTTTATTAT
Found at i:22598 original size:13 final size:13
Alignment explanation
Indices: 22580--22608 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
22570 TTAGTTAGCA
22580 TTTATTTATTTAT
1 TTTATTTATTTAT
22593 TTTATTTATTTAT
1 TTTATTTATTTAT
22606 TTT
1 TTT
22609 CCCTAACATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:23027 original size:6 final size:6
Alignment explanation
Indices: 23016--23076 Score: 115
Period size: 6 Copynumber: 10.3 Consensus size: 6
23006 GCGAAAATAG
23016 TAAATT TAAATT TAAATT TAAATT T-AATT TAAATT TAAATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
23063 TAAATT TAAATT TA
1 TAAATT TAAATT TA
23077 TTCGATTCCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.09
6 49 0.91
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (6 bp):
TAAATT
Found at i:23048 original size:23 final size:24
Alignment explanation
Indices: 23016--23076 Score: 115
Period size: 23 Copynumber: 2.6 Consensus size: 24
23006 GCGAAAATAG
23016 TAAATTTAAATTTAAATTTAAATT
1 TAAATTTAAATTTAAATTTAAATT
23040 T-AATTTAAATTTAAATTTAAATT
1 TAAATTTAAATTTAAATTTAAATT
23063 TAAATTTAAATTTA
1 TAAATTTAAATTTA
23077 TTCGATTCCA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
23 23 0.64
24 13 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TAAATTTAAATTTAAATTTAAATT
Found at i:26534 original size:95 final size:97
Alignment explanation
Indices: 26423--26623 Score: 307
Period size: 95 Copynumber: 2.1 Consensus size: 97
26413 AGATTATAAT
* * * *
26423 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGTAATTGGTTAAACACCCTGGCTTTA
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGACTTTA
* *
26488 TGGAT-AAGATTCAACTAGCCTGATAAATGTG
66 TGGATAAAGATTCAACTAACCTGATAAAGGTG
* *
26519 ATTATA-ATATACAATAAAGCTTGAGATGTCCCTCTAAGGCAATTGGTTAAACGCCCCGACTTTA
1 ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGACTTTA
26583 TGGATAAAGATTCAACTAACCTGATAAAGGTG
66 TGGATAAAGATTCAACTAACCTGATAAAGGTG
*
26615 TTTATATAT
1 ATTATATAT
26624 TAAGTTGTCC
Statistics
Matches: 94, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 57 0.61
96 35 0.37
97 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (97 bp):
ATTATATATATACAATAAAGCTTGAGATGTCCCTCTAAAGCAATTGGTTAAACACCCCGACTTTA
TGGATAAAGATTCAACTAACCTGATAAAGGTG
Found at i:27931 original size:81 final size:81
Alignment explanation
Indices: 27782--28356 Score: 633
Period size: 81 Copynumber: 7.0 Consensus size: 81
27772 TTTGTCAGCC
* *
27782 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
27847 AAGGGCTATC-GTCCA
66 AAGGGTTATCTGTCCA
* * * * * * * *
27862 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTAACATAACTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
27927 GAAGGGTTATCTGCCAACCA
65 GAAGGGTTATCTG---TCCA
* * * * * * *
27947 AAGGCCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTACAGTATAACTCAAG--G-C
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
28009 TAGGGTTATCTGTCAACAA
66 AAGGGTTATCTGTC--C-A
* * * *
28028 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTATCATAACATAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
28093 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCTG---TCCA
* * *
28112 AAGTCCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
28177 AAGGGTTATCTG-CCA
66 AAGGGTTATCTGTCCA
* * * * * * * * *
28192 AAGACCCTT-GAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAGA-CCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
28256 AGAAGGGTTATCTGTCACCA
64 AGAAGGGTTATCTGT--CCA
*
28276 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
28341 AAGGGTTATCTG-CCA
66 AAGGGTTATCTGTCCA
28356 A
1 A
28357 CCGAAGACTT
Statistics
Matches: 408, Mismatches: 67, Indels: 40
0.79 0.13 0.08
Matches are distributed among these distances:
78 1 0.00
80 52 0.13
81 148 0.36
82 2 0.00
83 46 0.11
84 131 0.32
85 27 0.07
87 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (81 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGTCCA
Found at i:27970 original size:165 final size:165
Alignment explanation
Indices: 27782--28350 Score: 799
Period size: 165 Copynumber: 3.5 Consensus size: 165
27772 TTTGTCAGCC
*
27782 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
*
27847 AAGGGCTATCGTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTAA
66 AAGGGTTATCGTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTAA
27912 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
131 CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
* * * * * * * *
27947 AAGGCCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTACAGTATAACTCAAG--G-C
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * * * * *
28009 TAGGGTTATCTGTCAACAAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCATATCATTT
66 AAGGGTTATC-GTC--C-AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTT
* *
28073 GTATCATAACATAAGTCGAGAAGGGTTATCTGCCAACCA
127 GTAACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
* *
28112 AAGTCCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * **
28177 AAGGGTTATC-TGCCAAAGACCCTTGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
66 AAGGGTTATCGT-CCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTA
* * * *
28241 ACATAACTCAAGGCTAGAAGGGTTATCTGTC-ACCA
130 ACATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
28276 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
28341 AAGGGTTATC
66 AAGGGTTATC
28351 TGCCAACCGA
Statistics
Matches: 350, Mismatches: 45, Indels: 19
0.85 0.11 0.05
Matches are distributed among these distances:
162 8 0.02
163 4 0.01
164 102 0.29
165 198 0.57
166 27 0.08
167 2 0.01
168 9 0.03
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (165 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGTTATCGTCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTGTAA
CATAACTTAAGTCGAGAAGGGTTATCTGCCAACCA
Found at i:28140 original size:84 final size:84
Alignment explanation
Indices: 27782--28389 Score: 645
Period size: 84 Copynumber: 7.4 Consensus size: 84
27772 TTTGTCAGCC
* * *
27782 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* *
27847 AAGGGCTATC-G---TCCA
66 AAGGGTTATCTGCCAACCA
* * * * * * *
27862 AAGACCCTCGAGTTCGATTACA-CTCAGCTTCGAGGGCATATCATTTGTAACATAACTTAAGTCG
1 AAGACCTTCGAGTTCGACTA-AGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
27926 AGAAGGGTTATCTGCCAACCA
64 AGAAGGGTTATCTGCCAACCA
* * * * * * * *
27947 AAGGCCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATTTACAGTATAACTCAAG--G-C
1 AAGACCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * *
28009 TAGGGTTATCTGTCAACAA
66 AAGGGTTATCTGCCAACCA
* * * * *
28028 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGTATCATAACATAAGTCGAG
1 AAGACCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
28093 AAGGGTTATCTGCCAACCA
66 AAGGGTTATCTGCCAACCA
* *
28112 AAGTCCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
28177 AAGGGTTATCTG----CCA
66 AAGGGTTATCTGCCAACCA
* * * * * * *
28192 AAGACCCTT-GAGTTCGATTACA-CTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAGGC
1 AAGA-CCTTCGAGTTCGACTA-AGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
28255 TAGAAGGGTTATCTGTC-ACCA
63 GAGAAGGGTTATCTGCCAACCA
* *
28276 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
28341 AAGGGTTATCTGCCAACCG
66 AAGGGTTATCTGCCAACCA
* * *
28360 AAGACTTTCAAGTTCGATTACA-CTCAGCTC
1 AAGACCTTCGAGTTCGACTA-AGCTCAGCTC
28390 AGAGGCAAAC
Statistics
Matches: 435, Mismatches: 73, Indels: 36
0.80 0.13 0.07
Matches are distributed among these distances:
80 46 0.11
81 153 0.35
82 2 0.00
83 47 0.11
84 162 0.37
85 25 0.06
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (84 bp):
AAGACCTTCGAGTTCGACTAAGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCAACCA
Found at i:28846 original size:4 final size:4
Alignment explanation
Indices: 28837--30124 Score: 2191
Period size: 4 Copynumber: 330.8 Consensus size: 4
28827 CATATTTTTT
28837 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
28885 ATAC ATAC ATAC ATAC ATAC ATAC ATAC --AC ATACC AGAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA-C ATAC ATAC ATAC
*
28932 AGAC ATAC ATAC --AC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
28978 ATAC ATAC -TAC ATAC ATAC --AC ATAC ATAC ATAC ATAC A-AC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29022 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* * * * * * * *
29070 ATAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ACAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29118 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29166 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29214 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA- ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29261 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATA- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29307 ATAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29353 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
29400 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AACAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC -ATAC ATAC ATAC ATAC ATAC
29449 -TAC ATAC AT-- ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29494 ATAC ATAC ATAC ATAC ATAC ATAC ATAC A-AC ATAC AT-- ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
29539 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AAAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29587 ATAC ATAC ATAC ATAC ATAC --AC ATAC ATAC AT-- ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29631 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29679 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29727 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29775 ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29822 ATAC --AC ATAC ATAC ATAC ATAC AT-C ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29867 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29914 ATAC ATAC -TAC ATAC ATAC -TAC ATAC ATAC ATAC --AC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
29958 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30005 ATAC ATAC ATAC ATAC ATAC ATAC -TAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30052 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
30100 ATAC ATAC ATAC AT-- ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATA
30125 TATATATATC
Statistics
Matches: 1235, Mismatches: 10, Indels: 78
0.93 0.01 0.06
Matches are distributed among these distances:
2 22 0.02
3 45 0.04
4 1162 0.94
5 6 0.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAC
Found at i:29079 original size:2 final size:2
Alignment explanation
Indices: 29072--29106 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
29062 ATACATACAT
29072 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
29107 TACATACATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30249 original size:36 final size:33
Alignment explanation
Indices: 30181--30455 Score: 209
Period size: 37 Copynumber: 7.8 Consensus size: 33
30171 TGGCAAACGA
*
30181 TTTTTGAAAATGTATATAACATATAGTTTTTTAAAAT
1 TTTTTGAAAA--TATATAATATATAG--TTTTAAAAT
*
30218 GGCTTTTGAAAACTATATAATATATAGTTTTAAAAT
1 --TTTTTGAAAA-TATATAATATATAGTTTTAAAAT
* *
30254 CATTTTGAAAAAATATATAATATATAATTTTAAAAAT
1 -TTTTTG--AAAATATATAATATATAGTTTT-AAAAT
*
30291 ATTTTTGAAAAATTATATAATATATAATTTTAAAAACAT
1 -TTTTTG-AAAA-TATATAATATATAGTTTT--AAA-AT
* *
30330 TTTTTGAAAATTTAT-ATA-ATAATTTTAAACCA-
1 TTTTTGAAAATATATAATATATAGTTTTAAA--AT
*
30362 TTTTTGAAAACTATATAATATATAGTTTT-GAAT
1 TTTTTGAAAA-TATATAATATATAGTTTTAAAAT
** *
30395 TTTTTTTAAA-ATATAATATATAGTTTAAAAAT
1 TTTTTGAAAATATATAATATATAGTTTTAAAAT
*
30427 ATTTTTGAAATATATATATTATATAGTTT
1 -TTTTTGAAA-ATATATAATATATAGTTT
30456 ATATCATATT
Statistics
Matches: 202, Mismatches: 19, Indels: 34
0.79 0.07 0.13
Matches are distributed among these distances:
31 16 0.08
32 17 0.08
33 21 0.10
34 13 0.06
35 30 0.15
36 35 0.17
37 36 0.18
38 23 0.11
39 11 0.05
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.47
Consensus pattern (33 bp):
TTTTTGAAAATATATAATATATAGTTTTAAAAT
Found at i:30346 original size:31 final size:30
Alignment explanation
Indices: 30311--30382 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 30
30301 AATTATATAA
*
30311 TATATAAT-TTTAAAAACATTTTTTGAAAATT
1 TATATAATATTTAAAAACA-TTTTTGAAAA-C
* *
30342 TATATAATAATTTTAAACCATTTTTGAAAAC
1 TATATAAT-ATTTAAAAACATTTTTGAAAAC
30373 TATATAATAT
1 TATATAATAT
30383 ATAGTTTTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
30 2 0.06
31 16 0.44
32 10 0.28
33 8 0.22
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (30 bp):
TATATAATATTTAAAAACATTTTTGAAAAC
Found at i:30474 original size:21 final size:23
Alignment explanation
Indices: 30438--30480 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
30428 TTTTTGAAAT
*
30438 ATATATATTATATAGTTTATATC
1 ATATATATTATATAGTATATATC
30461 ATAT-TATTAT-TAGTATATAT
1 ATATATATTATATAGTATATAT
30481 TATTTTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 9 0.47
22 6 0.32
23 4 0.21
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (23 bp):
ATATATATTATATAGTATATATC
Found at i:30482 original size:16 final size:16
Alignment explanation
Indices: 30437--30484 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 16
30427 ATTTTTGAAA
30437 TATATATATTATATAGTT
1 TATATATATTAT-TAG-T
30455 TATATCATATTATTA-T
1 TATAT-ATATTATTAGT
30471 TAGTATATATTATT
1 TA-TATATATTATT
30485 TTTTTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 11 0.39
17 3 0.11
18 7 0.25
19 7 0.25
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (16 bp):
TATATATATTATTAGT
Found at i:30484 original size:19 final size:21
Alignment explanation
Indices: 30436--30484 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
30426 TATTTTTGAA
*
30436 ATATATA-TATTATATAGTTT
1 ATATATATTATTATATAGTAT
30456 ATATCATATTATTAT-TAGTAT
1 ATAT-ATATTATTATATAGTAT
30477 ATAT-TATT
1 ATATATATT
30485 TTTTTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 4 0.15
20 4 0.15
21 12 0.46
22 6 0.23
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (21 bp):
ATATATATTATTATATAGTAT
Found at i:31479 original size:2 final size:2
Alignment explanation
Indices: 31474--31502 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
31464 CTTTTTTCAT
31474 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
31503 TCATTATTAT
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:31622 original size:15 final size:16
Alignment explanation
Indices: 31604--31641 Score: 69
Period size: 15 Copynumber: 2.4 Consensus size: 16
31594 ATTTATTTAA
31604 TATTTTTATTATTTT-
1 TATTTTTATTATTTTC
31619 TATTTTTATTATTTTC
1 TATTTTTATTATTTTC
31635 TATTTTT
1 TATTTTT
31642 CCTTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 15 0.68
16 7 0.32
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (16 bp):
TATTTTTATTATTTTC
Found at i:32440 original size:3 final size:3
Alignment explanation
Indices: 32434--32459 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32424 AAAACAGCAA
32434 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
32460 AGAACAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37251 original size:18 final size:18
Alignment explanation
Indices: 37228--37271 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
37218 TCAGTAGCTG
37228 AGTAGAAACTAGTGATAT
1 AGTAGAAACTAGTGATAT
37246 AGTAGAAACTAGTGATAT
1 AGTAGAAACTAGTGATAT
*
37264 AGCAGAAA
1 AGTAGAAA
37272 ATGTCACAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.48, C:0.07, G:0.23, T:0.23
Consensus pattern (18 bp):
AGTAGAAACTAGTGATAT
Found at i:40376 original size:28 final size:28
Alignment explanation
Indices: 40336--40393 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
40326 ATTAGAAAGC
40336 TCCAATGACTCAAAATGTTTCATATACT
1 TCCAATGACTCAAAATGTTTCATATACT
40364 TCCAATGACTCAAAATGTTTCATATACT
1 TCCAATGACTCAAAATGTTTCATATACT
40392 TC
1 TC
40394 TCTTCAACCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.36
Consensus pattern (28 bp):
TCCAATGACTCAAAATGTTTCATATACT
Found at i:46651 original size:13 final size:13
Alignment explanation
Indices: 46633--46679 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
46623 TTTCTGAACA
*
46633 TTTCATATTTTAT
1 TTTCATATTTCAT
* *
46646 TTTCATCTTTCAC
1 TTTCATATTTCAT
*
46659 TTTCGTA-TTCAT
1 TTTCATATTTCAT
46671 TTTCATATT
1 TTTCATATT
46680 CTTTTCTTTC
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
12 10 0.38
13 16 0.62
ACGTcount: A:0.19, C:0.17, G:0.02, T:0.62
Consensus pattern (13 bp):
TTTCATATTTCAT
Found at i:49940 original size:29 final size:30
Alignment explanation
Indices: 49886--49949 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 30
49876 ACTTTTGTTC
*
49886 CTAAACTTTTCCAAACTTTATATTTTGGCCA
1 CTAAACTTTT-CAAAATTTATATTTTGGCCA
*
49917 CTAAACTTTT-AAAATTTATATTTTGGTCA
1 CTAAACTTTTCAAAATTTATATTTTGGCCA
49946 CTAA
1 CTAA
49950 TCAAAATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 21 0.68
31 10 0.32
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (30 bp):
CTAAACTTTTCAAAATTTATATTTTGGCCA
Found at i:50155 original size:18 final size:18
Alignment explanation
Indices: 50113--50155 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
50103 AGTCTCTTTC
*
50113 AAAATTTAAATTTTTTAT
1 AAAATTTAAATTTTTTAA
*
50131 TAAATTT-AATTTTTTAA
1 AAAATTTAAATTTTTTAA
50148 AAATATTT
1 AAA-ATTT
50156 TTAATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AAAATTTAAATTTTTTAA
Found at i:50305 original size:17 final size:17
Alignment explanation
Indices: 50277--50319 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
50267 AATTCAAATC
* *
50277 ATTTTAAGTTTAGATT-
1 ATTTTAAATTTAAATTA
50293 ATGTTTAAATTTAAATTA
1 AT-TTTAAATTTAAATTA
50311 ATTTTAAAT
1 ATTTTAAAT
50320 AAAATTAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (17 bp):
ATTTTAAATTTAAATTA
Found at i:51720 original size:148 final size:148
Alignment explanation
Indices: 51549--51843 Score: 484
Period size: 148 Copynumber: 2.0 Consensus size: 148
51539 AAAAACTATT
* * *
51549 TAAATTAGAATAAAATAATATTATAGTATTATAAACATTTATAATTAAATTTAAACAGAAACTCA
1 TAAATTAGAATAAAATAATATTATAATATGATAAACATTTATAATTAAATTTAAACAAAAACTCA
51614 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCG-AAAATTTTTCGAGTAA
66 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAATTTTT-GAGTAA
*
51678 ACTATTTTATAAACTGAAC
130 ACTACTTTATAAACTGAAC
* *
51697 TAAATTAGAATCAAATAATATTATAATATGATAAATATTTATAATTAAATTTAAACAAAAACTCA
1 TAAATTAGAATAAAATAATATTATAATATGATAAACATTTATAATTAAATTTAAACAAAAACTCA
* * *
51762 ACAATTCAATTTAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAATTTTTGAGTCAA
66 AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAATTTTTGAGTAAA
*
51827 CTACTTTATAAATTGAA
131 CTACTTTATAAACTGAA
51844 TCGAGTATTT
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
148 127 0.93
149 9 0.07
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (148 bp):
TAAATTAGAATAAAATAATATTATAATATGATAAACATTTATAATTAAATTTAAACAAAAACTCA
AAAATTCAATTCAATTCGACTTGATTTAAATTTTATAAACTCAAATCGAAAAATTTTTGAGTAAA
CTACTTTATAAACTGAAC
Found at i:52092 original size:35 final size:35
Alignment explanation
Indices: 52014--52093 Score: 108
Period size: 35 Copynumber: 2.3 Consensus size: 35
52004 GGAGTTGGGC
* * *
52014 ATGTAATTAAAGTATTTTGGAATTTGAGGTTTAGA
1 ATGTAATTGAAGTATTTTGAAATTTGAGGTTTAAA
*
52049 ATGTAATTGAAGTATTTT-AAATTTTGGGGTTTAAA
1 ATGTAATTGAAGTATTTTGAAA-TTTGAGGTTTAAA
52084 ATGTAATTGA
1 ATGTAATTGA
52094 TGATTGTGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 2 0.05
35 38 0.95
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (35 bp):
ATGTAATTGAAGTATTTTGAAATTTGAGGTTTAAA
Found at i:52518 original size:18 final size:18
Alignment explanation
Indices: 52491--52525 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52481 AAGAACAAGG
*
52491 GAAAGGGGGGAAAGAACC
1 GAAAGAGGGGAAAGAACC
52509 GAAAGAGGGGAAAGAAC
1 GAAAGAGGGGAAAGAAC
52526 GAGGCCGATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.09, G:0.43, T:0.00
Consensus pattern (18 bp):
GAAAGAGGGGAAAGAACC
Found at i:55736 original size:6 final size:6
Alignment explanation
Indices: 55725--55785 Score: 50
Period size: 6 Copynumber: 9.5 Consensus size: 6
55715 TATAGAAAAA
* * *
55725 ATAAAT ATAAAT ATAAAT ATTAAAA ATAAAA ATTAAATT ACTAAAT ATATAT
1 ATAAAT ATAAAT ATAAAT A-TAAAT ATAAAT A-TAAA-T A-TAAAT ATAAAT
*
55777 ATATAT ATA
1 ATAAAT ATA
55786 TACTTAACTA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
6 32 0.67
7 11 0.23
8 5 0.10
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (6 bp):
ATAAAT
Found at i:55753 original size:13 final size:13
Alignment explanation
Indices: 55721--55761 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
55711 AAAATATAGA
55721 AAAAATAAATA-T
1 AAAAATAAATATT
*
55733 AAATATAAATATT
1 AAAAATAAATATT
*
55746 AAAAATAAAAATT
1 AAAAATAAATATT
55759 AAA
1 AAA
55762 TTACTAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAAAATAAATATT
Found at i:57857 original size:20 final size:20
Alignment explanation
Indices: 57829--57876 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
57819 TTTTTTAATT
57829 TATTTTTAAT-ATATTTTTA
1 TATTTTTAATCATATTTTTA
* *
57848 TATGTTTTAATCATTTTTTTT
1 TAT-TTTTAATCATATTTTTA
57869 TATTTTTA
1 TATTTTTA
57877 CATTTTCTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 3 0.12
20 12 0.48
21 10 0.40
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (20 bp):
TATTTTTAATCATATTTTTA
Found at i:59032 original size:18 final size:18
Alignment explanation
Indices: 59009--59075 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
58999 TACAAAAGTG
*
59009 GTATCGATACTTATGAGA
1 GTATCGATACTCATGAGA
* *
59027 GTATCGATACCCAGGGTAGA
1 GTATCGATACTCA-TG-AGA
*
59047 GTATCGATACTCATGGGA
1 GTATCGATACTCATGAGA
59065 GTATCGATACT
1 GTATCGATACT
59076 GAGGTAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
18 24 0.59
19 2 0.05
20 15 0.37
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.28
Consensus pattern (18 bp):
GTATCGATACTCATGAGA
Found at i:59049 original size:20 final size:19
Alignment explanation
Indices: 59023--59074 Score: 70
Period size: 20 Copynumber: 2.7 Consensus size: 19
59013 CGATACTTAT
59023 GAGAGTATCGATACCCAGG
1 GAGAGTATCGATACCCAGG
* *
59042 GTAGAGTATCGATACTCATG
1 G-AGAGTATCGATACCCAGG
59062 G-GAGTATCGATAC
1 GAGAGTATCGATAC
59075 TGAGGTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
20 17 0.57
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (19 bp):
GAGAGTATCGATACCCAGG
Found at i:61419 original size:20 final size:20
Alignment explanation
Indices: 61396--61436 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
61386 AGGTGGGTAC
61396 CGATACCAAAGGATTAGTAT
1 CGATACCAAAGGATTAGTAT
* *
61416 CGATACTAAAGGGTTAGTAT
1 CGATACCAAAGGATTAGTAT
61436 C
1 C
61437 AGTACCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (20 bp):
CGATACCAAAGGATTAGTAT
Found at i:63061 original size:23 final size:23
Alignment explanation
Indices: 62992--63086 Score: 84
Period size: 23 Copynumber: 4.1 Consensus size: 23
62982 GCACCAAAGT
* * *
62992 ACCACGTAGAAATTTCCCAAAGG
1 ACCACATAGAAATGTCCCGAAGG
* * * *
63015 ATCACATAGATATG-CGCTGGAGG
1 ACCACATAGAAATGTC-CCGAAGG
63038 ACCACATAGAAATGTCCCGAAGG
1 ACCACATAGAAATGTCCCGAAGG
* * *
63061 ACCACGTAGAATTGTCCCGAAAG
1 ACCACATAGAAATGTCCCGAAGG
63084 ACC
1 ACC
63087 GCGTAGAACC
Statistics
Matches: 56, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
22 1 0.02
23 54 0.96
24 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (23 bp):
ACCACATAGAAATGTCCCGAAGG
Found at i:63091 original size:23 final size:23
Alignment explanation
Indices: 63037--63094 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
63027 TGCGCTGGAG
* *
63037 GACCACATAGAAATGTCCCGAAG
1 GACCACGTAGAAATGTCCCGAAA
*
63060 GACCACGTAGAATTGTCCCGAAA
1 GACCACGTAGAAATGTCCCGAAA
*
63083 GACCGCGTAGAA
1 GACCACGTAGAA
63095 CCATTGACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.36, C:0.26, G:0.24, T:0.14
Consensus pattern (23 bp):
GACCACGTAGAAATGTCCCGAAA
Found at i:63219 original size:16 final size:16
Alignment explanation
Indices: 63186--63251 Score: 62
Period size: 16 Copynumber: 3.9 Consensus size: 16
63176 TAGCTTATAT
*
63186 CACATAGA-CATATAAA
1 CACATAGATCATGT-AA
63202 CACATAGATCATGTAA
1 CACATAGATCATGTAA
* *
63218 CACGTAGGATGAAATGTAA
1 CACATA-GAT--CATGTAA
63237 CACATAGATCATGTA
1 CACATAGATCATGTA
63252 GAACAGTGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 20 0.49
17 7 0.17
18 3 0.07
19 11 0.27
ACGTcount: A:0.45, C:0.17, G:0.15, T:0.23
Consensus pattern (16 bp):
CACATAGATCATGTAA
Found at i:64617 original size:18 final size:18
Alignment explanation
Indices: 64594--64628 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
64584 TAATAAATTT
*
64594 AAAATATGAAAATACTTG
1 AAAATATCAAAATACTTG
*
64612 AAAATATCCAAATACTT
1 AAAATATCAAAATACTT
64629 AGTTATTAGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.11, G:0.06, T:0.29
Consensus pattern (18 bp):
AAAATATCAAAATACTTG
Found at i:65940 original size:14 final size:14
Alignment explanation
Indices: 65921--65951 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
65911 AATAATGATA
65921 ATATTATAGATAAT
1 ATATTATAGATAAT
*
65935 ATATTATATATAAT
1 ATATTATAGATAAT
65949 ATA
1 ATA
65952 AAGGTCACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
ATATTATAGATAAT
Found at i:66279 original size:34 final size:34
Alignment explanation
Indices: 66165--66326 Score: 220
Period size: 35 Copynumber: 4.7 Consensus size: 34
66155 AAATGATTTG
* *
66165 CTTCACTACTCTTCCGTGAAGGTTGGATTGAATTA
1 CTTCACTACTCTTCCGTGAAGGTCGAATT-AATTA
*
66200 CTTCACTACTCTTCCGTGAAGGTTGAATTGAATTA
1 CTTCACTACTCTTCCGTGAAGGTCGAATT-AATTA
* * *
66235 ATTCACTACTCTTTCATGAAGGTCGAATT-ATTGA
1 CTTCACTACTCTTCCGTGAAGGTCGAATTAATT-A
66269 CTTCACTACTCTTCCGTGAAGGTCGAATT-ATTGA
1 CTTCACTACTCTTCCGTGAAGGTCGAATTAATT-A
66303 CTTCACTACTCTTCCGTGAAGGTC
1 CTTCACTACTCTTCCGTGAAGGTC
66327 ATATTCGAGG
Statistics
Matches: 118, Mismatches: 8, Indels: 3
0.91 0.06 0.02
Matches are distributed among these distances:
33 3 0.03
34 56 0.47
35 59 0.50
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.36
Consensus pattern (34 bp):
CTTCACTACTCTTCCGTGAAGGTCGAATTAATTA
Found at i:66286 original size:69 final size:68
Alignment explanation
Indices: 66166--66326 Score: 218
Period size: 69 Copynumber: 2.3 Consensus size: 68
66156 AATGATTTGC
* * *
66166 TTCACTACTCTTCCGTGAAGGTTGGATTGAATTACTTCACTACTCTTCCGTGAAGGTTGAATTGA
1 TTCACTACTCTTCCGTGAAGGTCGAATT-AATTACTTCACTACTCTTCCGTGAAGGTCGAATT--
66231 ATT-AA
63 ATTGAA
* *
66236 TTCACTACTCTTTCATGAAGGTCGAATT-ATTGACTTCACTACTCTTCCGTGAAGGTCGAATTAT
1 TTCACTACTCTTCCGTGAAGGTCGAATTAATT-ACTTCACTACTCTTCCGTGAAGGTCGAATTAT
*
66300 TGAC
65 TGAA
66304 TTCACTACTCTTCCGTGAAGGTC
1 TTCACTACTCTTCCGTGAAGGTC
66327 ATATTCGAGG
Statistics
Matches: 81, Mismatches: 8, Indels: 6
0.85 0.08 0.06
Matches are distributed among these distances:
67 3 0.04
68 25 0.31
69 29 0.36
70 24 0.30
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (68 bp):
TTCACTACTCTTCCGTGAAGGTCGAATTAATTACTTCACTACTCTTCCGTGAAGGTCGAATTATT
GAA
Found at i:66472 original size:20 final size:20
Alignment explanation
Indices: 66418--66499 Score: 101
Period size: 20 Copynumber: 4.1 Consensus size: 20
66408 AGACTGATAG
* *
66418 ATGACCTGAAGGATTTAAAA
1 ATGACCTGAAGGTTTTACAA
*
66438 ATTACCTGAAGGTTTTACAA
1 ATGACCTGAAGGTTTTACAA
*
66458 ATGACCTGAATGTTTTACAA
1 ATGACCTGAAGGTTTTACAA
* * *
66478 ATAACCCGGAGGTTTTACAA
1 ATGACCTGAAGGTTTTACAA
66498 AT
1 AT
66500 TTGTTGATTG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (20 bp):
ATGACCTGAAGGTTTTACAA
Found at i:67495 original size:20 final size:20
Alignment explanation
Indices: 67470--67507 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
67460 CCGTTGCAGC
67470 CAGGGTGCATGGATGCACAG
1 CAGGGTGCATGGATGCACAG
67490 CAGGGTGCATGGATGCAC
1 CAGGGTGCATGGATGCAC
67508 TAATTGCATT
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:0.24, C:0.21, G:0.39, T:0.16
Consensus pattern (20 bp):
CAGGGTGCATGGATGCACAG
Found at i:67551 original size:19 final size:20
Alignment explanation
Indices: 67536--67580 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
67526 AGTGCATGTT
67536 TGCACT-CAGGGTGCATGGA
1 TGCACTACAGGGTGCATGGA
*
67555 TGCACTACAGGGTGCATTGA
1 TGCACTACAGGGTGCATGGA
67575 TGCACT
1 TGCACT
67581 TTGACACCCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.24
Consensus pattern (20 bp):
TGCACTACAGGGTGCATGGA
Found at i:67826 original size:21 final size:21
Alignment explanation
Indices: 67802--67841 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
67792 ATGTTTAATG
67802 AAAAAGATACCAATTGTTAAC
1 AAAAAGATACCAATTGTTAAC
* *
67823 AAAATGATATCAATTGTTA
1 AAAAAGATACCAATTGTTA
67842 CCAATTGTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.50, C:0.10, G:0.10, T:0.30
Consensus pattern (21 bp):
AAAAAGATACCAATTGTTAAC
Found at i:70931 original size:20 final size:20
Alignment explanation
Indices: 70906--70943 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
70896 CCGTTGCAGC
*
70906 CAGGGTGCATGGATGCACAG
1 CAGGGTGCATCGATGCACAG
70926 CAGGGTGCATCGATGCAC
1 CAGGGTGCATCGATGCAC
70944 TAGTTGCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.37, T:0.16
Consensus pattern (20 bp):
CAGGGTGCATCGATGCACAG
Found at i:70987 original size:19 final size:19
Alignment explanation
Indices: 70963--71015 Score: 90
Period size: 19 Copynumber: 2.8 Consensus size: 19
70953 TCGAAATAGA
70963 GTGCATGGATGCACT-CAGG
1 GTGCATGGATGCACTGCA-G
70982 GTGCATGGATGCACTGCAG
1 GTGCATGGATGCACTGCAG
71001 GTGCATGGATGCACT
1 GTGCATGGATGCACT
71016 TTGAAACCCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 31 0.94
20 2 0.06
ACGTcount: A:0.21, C:0.21, G:0.36, T:0.23
Consensus pattern (19 bp):
GTGCATGGATGCACTGCAG
Found at i:77272 original size:48 final size:47
Alignment explanation
Indices: 77174--77270 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 47
77164 CATAATATAT
* ** * * *
77174 ATATATCCTAACCTTATGCTTTCTAGTTCCATGTTTTGTTTACAAAAA
1 ATATAACCTAACCGCATGATTTCTAGTTCCATGATTTATTTA-AAAAA
77222 ATATAACCTAACCGCATGATTTCTAGTTCACATGCATTTATTTAAAAAA
1 ATATAACCTAACCGCATGATTTCTAGTTC-CATG-ATTTATTTAAAAAA
77271 TAAATCAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
48 25 0.61
49 9 0.22
50 7 0.17
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (47 bp):
ATATAACCTAACCGCATGATTTCTAGTTCCATGATTTATTTAAAAAA
Found at i:81752 original size:45 final size:44
Alignment explanation
Indices: 81685--81787 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
81675 TAGCATTCCA
* * *
81685 TCATGCTTATAATATACCATTATACCATTACCATTATGTCCTCATT
1 TCATGCTT-TTATATACCATTATA-CATTACCATTATGGCATCATT
* * * *
81731 TCATGCTTTTATATACTATTATACATTTCCTTTATGGCATCCTT
1 TCATGCTTTTATATACCATTATACATTACCATTATGGCATCATT
81775 TCATGACTTTTAT
1 TCATG-CTTTTAT
81788 GTTCTGTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
44 21 0.43
45 20 0.41
46 8 0.16
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (44 bp):
TCATGCTTTTATATACCATTATACATTACCATTATGGCATCATT
Found at i:81852 original size:2 final size:2
Alignment explanation
Indices: 81845--81876 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
81835 ATTGTTGTAC
81845 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
81877 CATCCTTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82056 original size:3 final size:3
Alignment explanation
Indices: 82048--82086 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
82038 TCATTTCGGT
* *
82048 TTA TTA TTA TTA TTA TTA ATA TTA GTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
82087 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:83741 original size:112 final size:109
Alignment explanation
Indices: 83518--83742 Score: 249
Period size: 112 Copynumber: 2.0 Consensus size: 109
83508 TATTTATTTA
* * * * *
83518 TTTTTAATATCGAAGAAAAAGCTGTCTTAAGGCACCTAGAAGCTCTTTTCTGATATTTTTTAAAT
1 TTTTTAATATCAAAGAAAAAGCTGTCTTAAAGCACCTAGAAGCACTTTTATGATATTTTATAAAT
* * *
83583 AAATATCTTATTATATTAAAATAAAATGTTTTTGATATTTATTTAT
66 AAATATCTTATTATATTAAAATAAAATATTTTT-ATA-TAAATTAT
83629 TTTTTAATATCAAAGAAAAGAGCTGTCTTAAAGCACCTAGAAGCACTTTTATGATATTTCTAAAT
1 TTTTTAATATCAAAGAAAA-AGCTGTCTTAAAGCACCTAGAAGCACTTTTATGATATTT-T--AT
* * * *
83694 AAGTAAATATCTTATT-TATGTATATTAATATATTTTCT-TA-AAATTAT
62 AAATAAATATCTTATTATAT-TAAAATAAAATATTTT-TATATAAATTAT
83741 TT
1 TT
83743 GAAATAATAG
Statistics
Matches: 96, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
111 18 0.19
112 43 0.45
113 1 0.01
114 5 0.05
115 28 0.29
116 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (109 bp):
TTTTTAATATCAAAGAAAAAGCTGTCTTAAAGCACCTAGAAGCACTTTTATGATATTTTATAAAT
AAATATCTTATTATATTAAAATAAAATATTTTTATATAAATTAT
Found at i:84255 original size:28 final size:28
Alignment explanation
Indices: 84212--84266 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
84202 TAAATCTTTC
*
84212 TTTTCAAATTTTTATATATAC-TTATTA
1 TTTTCAAATATTTATATATACATTATTA
*
84239 TTTTCATAATATTTATATGTACATTATT
1 TTTTCA-AATATTTATATATACATTATT
84267 TTATTAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 6 0.25
28 13 0.54
29 5 0.21
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (28 bp):
TTTTCAAATATTTATATATACATTATTA
Found at i:86606 original size:21 final size:20
Alignment explanation
Indices: 86564--86607 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
86554 TTTTCATACA
86564 TGCATTTTCATTTTGCATCTT
1 TGCATTTTCATTTTGCA-CTT
86585 TGCATTTTTCATGTTTGC-CTT
1 TGCA-TTTTCAT-TTTGCACTT
86606 TG
1 TG
86608 AATTGCACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.43
22 7 0.33
23 5 0.24
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (20 bp):
TGCATTTTCATTTTGCACTT
Found at i:90949 original size:114 final size:114
Alignment explanation
Indices: 90749--90970 Score: 390
Period size: 114 Copynumber: 1.9 Consensus size: 114
90739 CACGTTCTCG
* *
90749 TAGTATAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTACCTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTACCTGATCTGATTC
*
90814 GGTAGGAACCACAGAACCAATCATTGGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCACAGAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
* * *
90863 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTACCTGATCTGATTC
90928 GGTAGGAACCACAGAACCAATCATTGGAATTGAAAGATGAATT
66 GGTAGGAACCACAGAACCAATCATTGGAATTGAAAGATGAATT
90971 GCATGATCGT
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
114 102 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAACATCTTCTGGAAGTGTTCTTTGAGTTACCTGATCTGATTC
GGTAGGAACCACAGAACCAATCATTGGAATTGAAAGATGAATTTGCTCA
Found at i:94024 original size:165 final size:166
Alignment explanation
Indices: 93751--94074 Score: 510
Period size: 165 Copynumber: 2.0 Consensus size: 166
93741 AGAATGAGCA
* * *
93751 TTATCTTGTGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAACATAATGAGAAAACGA
1 TTATCTTGAGATTGGAGCATGTTACCCAATCAACAGGTTATTT-AAAAACATAATGAGAAAACGA
* * * * *
93816 TTTCCATAGTTTCTCAATTTTATCTTTTCTAAAATGAAATTGTTGAAAAGTAATAAAACGATTTT
65 TTTCCAAAGTTTATCAATTTAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTC
93881 CTTAG-TTTTTTACTTAGTAAACTATTTCCAACAACC
130 CTTAGTTTTTTTACTTAGTAAACTATTTCCAACAACC
*
93917 TTATCTTGAGATTGGAGCATGTTACCCAATCAACAGGTTATCTT-GAAACATAATGAGAAAACGA
1 TTATCTTGAGATTGGAGCATGTTACCCAATCAACAGGTTAT-TTAAAAACATAATGAGAAAACGA
*
93981 TTTCCAAAGTTTATC-ATTTAATCTTTTTTAAAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
65 TTTCCAAAGTTTATCAATTTAATCTTTTCT-AAAATGAAATTGTTGAAAAGTAAGAAAACGATTT
94045 CCTTAGTTTTTTTACTTAGTAAACTATTTC
129 CCTTAGTTTTTTTACTTAGTAAACTATTTC
94075 ACACATCTGT
Statistics
Matches: 145, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
164 12 0.08
165 70 0.48
166 61 0.42
167 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.38
Consensus pattern (166 bp):
TTATCTTGAGATTGGAGCATGTTACCCAATCAACAGGTTATTTAAAAACATAATGAGAAAACGAT
TTCCAAAGTTTATCAATTTAATCTTTTCTAAAATGAAATTGTTGAAAAGTAAGAAAACGATTTCC
TTAGTTTTTTTACTTAGTAAACTATTTCCAACAACC
Found at i:94165 original size:76 final size:76
Alignment explanation
Indices: 94078--94780 Score: 1055
Period size: 76 Copynumber: 9.4 Consensus size: 76
94068 CTATTTCACA
*
94078 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
94143 ACCCTCAGGGT
66 ACCCTCAGGGT
*
94154 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGTAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
94219 ACCCTCAGGGT
66 ACCCTCAGGGT
* *
94230 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGTAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
94295 ACCCTCAGGGT
66 ACCCTCAGGGT
* * * *
94306 CATCTGTAAGTCATACAGTGCATGATGTTTCCAAAAAGCCTTTGGTAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
94371 AGCCTCAGGGT
66 ACCCTCAGGGT
* * * *
94382 CATCTGTAAGTTCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGTAGCTTTTTGATGTTTTTAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
94447 ACCCTCAGGGT
66 ACCCTCAGGGT
*
94458 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTTGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
94523 ACCCTCAGGGT
66 ACCCTCAGGGT
* * *
94534 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TCTT-AA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
94596 AACCTCTGGGT
66 ACCCTCAGGGT
* * * *
94607 CATCTGTAAGACCTACAGTGCATAATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGA--TCTT-AA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
94669 AGCCTCAGGGT
66 ACCCTCAGGGT
* * * *
94680 CATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAAGCCTTCAGGAGCTTTTTGA--TCTT-A
1 CATCTGTAAGTCCTACAGTGCATGATG-TTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
94742 AAGCCTCAGGGT
65 AACCCTCAGGGT
* *
94754 CATCTGTAAGACCTACAGTGCAAGATG
1 CATCTGTAAGTCCTACAGTGCATGATG
94781 ATAAGACTTC
Statistics
Matches: 596, Mismatches: 30, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
73 107 0.18
74 72 0.12
76 417 0.70
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
ACCCTCAGGGT
Found at i:94963 original size:3 final size:3
Alignment explanation
Indices: 94955--94996 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
94945 TCATTTTGTT
* *
94955 TTA TTA TTA TTA TTA TTA ATA TTA GTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94997 AATAAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:96486 original size:21 final size:21
Alignment explanation
Indices: 96453--96492 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
96443 ATATAATATT
** *
96453 TATTTATTTATTTTATTTTCC
1 TATTTATGAATTTAATTTTCC
96474 TATTTATGAATTTAATTTT
1 TATTTATGAATTTAATTTT
96493 TATAAATTAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.68
Consensus pattern (21 bp):
TATTTATGAATTTAATTTTCC
Found at i:97289 original size:81 final size:81
Alignment explanation
Indices: 97130--97281 Score: 196
Period size: 81 Copynumber: 1.9 Consensus size: 81
97120 AGTTACGACA
* * * * * * *
97130 CTTTTACTCTACGATACTTATCCGTTCATCTATATGGCATAATTGACACCTTTCTGTCAATTTCC
1 CTTTTACTCAACGATACTTAACCATTCATCTATATGGCAAAATTAACACCTTTCTGTCAATTGCA
**
97195 CAGTTAAACCATTATT
66 CAACTAAACCATTATT
* * *
97211 CTTTTACTCAACGGTACTTAACCATTCATCTATTTGGGAAAATTAACACCTTTCTGTCAATTGCA
1 CTTTTACTCAACGATACTTAACCATTCATCTATATGGCAAAATTAACACCTTTCTGTCAATTGCA
97276 CAACTA
66 CAACTA
97282 GGCCATTACA
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 59 1.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.38
Consensus pattern (81 bp):
CTTTTACTCAACGATACTTAACCATTCATCTATATGGCAAAATTAACACCTTTCTGTCAATTGCA
CAACTAAACCATTATT
Found at i:98431 original size:92 final size:92
Alignment explanation
Indices: 98275--98452 Score: 211
Period size: 92 Copynumber: 1.9 Consensus size: 92
98265 CCCCTTTCAT
* * *
98275 GTATCGATACCAAAATTAGCTTCGATGTAACTTGGTATTGATACCCTCACAATAGTATCGATACC
1 GTATCGATACCAAAATTAGATTCGATGTAACTTAGTATTGATACCCTCACAATAGTATCAATACC
*
98340 -CCTATGCTAT-GGTACCGATACCCCCAG
66 ACAT-TGCT-TGGGTACCGATACCCCCAG
* * * * *
98367 GTATCGATACCAAAATTAGATTCGATGTTTAC-TAGTATCT-ATACTCTTACCATGGTATCAATA
1 GTATCGATACCAAAATTAGATTCGATG-TAACTTAGTAT-TGATACCCTCACAATAGTATCAATA
98430 CCACATTGCTTGGGTACCGATAC
64 CCACATTGCTTGGGTACCGATAC
98453 TGATTGAATC
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
91 1 0.01
92 66 0.90
93 6 0.08
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (92 bp):
GTATCGATACCAAAATTAGATTCGATGTAACTTAGTATTGATACCCTCACAATAGTATCAATACC
ACATTGCTTGGGTACCGATACCCCCAG
Found at i:104951 original size:23 final size:23
Alignment explanation
Indices: 104921--104974 Score: 108
Period size: 23 Copynumber: 2.3 Consensus size: 23
104911 TACTATTGAC
104921 AGTTGTAATAGTAAAGGTGATAG
1 AGTTGTAATAGTAAAGGTGATAG
104944 AGTTGTAATAGTAAAGGTGATAG
1 AGTTGTAATAGTAAAGGTGATAG
104967 AGTTGTAA
1 AGTTGTAA
104975 GATTTGGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31
Consensus pattern (23 bp):
AGTTGTAATAGTAAAGGTGATAG
Found at i:108074 original size:2 final size:2
Alignment explanation
Indices: 108067--108099 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
108057 TTCACTGTTG
108067 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
108100 CATCCCTTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108260 original size:81 final size:81
Alignment explanation
Indices: 108183--108381 Score: 310
Period size: 81 Copynumber: 2.5 Consensus size: 81
108173 GTTTAACCCC
* * *
108183 TCATCTATCTGGCATAATTGACATCTTTCTGCCAATTGCCCAGTTAAACCATTATTCTTTTACTC
1 TCATCTATCTGGCATAATCGACACCTTTCTGTCAATTGCCCAGTTAAACCATTATTCTTTTACTC
*
108248 AAC-GAAACTTAACTGT
66 AACAG-AACTTAACCGT
*
108264 TCATCTATCTGGCATAATCGACACCTTTCTGTCAATTGTCCAGTTAAACCATTATTCTTTTACTC
1 TCATCTATCTGGCATAATCGACACCTTTCTGTCAATTGCCCAGTTAAACCATTATTCTTTTACTC
*
108329 AACAGTACTTAACCGT
66 AACAGAACTTAACCGT
* *
108345 TCATCTATCTGGAATAATCGACACCTTTTTGTCAATT
1 TCATCTATCTGGCATAATCGACACCTTTCTGTCAATT
108382 ACACAACTAG
Statistics
Matches: 109, Mismatches: 8, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
81 108 0.99
82 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (81 bp):
TCATCTATCTGGCATAATCGACACCTTTCTGTCAATTGCCCAGTTAAACCATTATTCTTTTACTC
AACAGAACTTAACCGT
Found at i:108398 original size:81 final size:80
Alignment explanation
Indices: 108153--108383 Score: 293
Period size: 81 Copynumber: 2.9 Consensus size: 80
108143 TAAAATTCCT
* * ** ** * * *
108153 TTATTCTCTTACTCAATAGTGTTTAACCCCTCATCTATCTGGCATAATTGACATCTTTCTGCCAA
1 TTATTCTTTTACTCAACAGTACTTAACCGTTCATCTATCTGGCATAATCGACACCTTTCTGTCAA
*
108218 TTGCCCAGTTAAACCA
66 TT-ACCAGTTAAACCA
* *
108234 TTATTCTTTTACTCAAC-GAAACTTAACTGTTCATCTATCTGGCATAATCGACACCTTTCTGTCA
1 TTATTCTTTTACTCAACAG-TACTTAACCGTTCATCTATCTGGCATAATCGACACCTTTCTGTCA
*
108298 ATTGTCCAGTTAAACCA
65 ATT-ACCAGTTAAACCA
* *
108315 TTATTCTTTTACTCAACAGTACTTAACCGTTCATCTATCTGGAATAATCGACACCTTTTTGTCAA
1 TTATTCTTTTACTCAACAGTACTTAACCGTTCATCTATCTGGCATAATCGACACCTTTCTGTCAA
108380 TTAC
66 TTAC
108384 ACAACTAGGC
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.02
81 128 0.98
82 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (80 bp):
TTATTCTTTTACTCAACAGTACTTAACCGTTCATCTATCTGGCATAATCGACACCTTTCTGTCAA
TTACCAGTTAAACCA
Found at i:108925 original size:79 final size:79
Alignment explanation
Indices: 108839--109201 Score: 537
Period size: 79 Copynumber: 4.6 Consensus size: 79
108829 TTTCAACTTT
* * ***
108839 GGCATCCTTTCATGCCAATGATGCACCCATATGCATTATTCAGATATGCCGATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATA
*
108904 TATATATCAGCTAA
66 TACATATCAGCTAA
* * *
108918 GGTATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTATGCTGATAATTTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATA
*
108983 TACATATCAGGTAA
66 TACATATCAGCTAA
* * * * * *
108997 GCCATCATTCCATTCCACTAATGCACCCATATGTATTATTCTTTTATGCCAATAATGTACCCATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATA
109062 TACATATCAGCTAA
66 TACATATCAGCTAA
* * *
109076 GGCATCCTTTCATGCCACTAATTCACCCATATGCATTATTCTTTTATGCCGATAATATACCTATA
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATA
109141 TACATATCAGCTAA
66 TACATATCAGCTAA
* *
109155 GACATCATTTCATGCCACTAATGCACCCATATGCATTATTCTTTTAT
1 GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTAT
109202 TCATTAGTTT
Statistics
Matches: 252, Mismatches: 32, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 252 1.00
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (79 bp):
GGCATCCTTTCATGCCACTAATGCACCCATATGCATTATTCTTTTATGCCGATAATGTACCCATA
TACATATCAGCTAA
Found at i:109633 original size:22 final size:21
Alignment explanation
Indices: 109584--109640 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 21
109574 ATGACCCTCT
*
109584 GGTATCGATACCCCTACTTAT
1 GGTATCGATACCCCTACTTAG
109605 GGTATCGATACTACCCTA-TTAG
1 GGTATCGATAC--CCCTACTTAG
109627 GGTATCGATACCCC
1 GGTATCGATACCCC
109641 CTTCATGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.33
22 14 0.42
23 5 0.15
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCCCTACTTAG
Found at i:112346 original size:20 final size:20
Alignment explanation
Indices: 112321--112369 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
112311 AAATTTGAAT
112321 GTGCATCGATGCATTAAGGG
1 GTGCATCGATGCATTAAGGG
*
112341 GTGCATTGATGCATTAAGGG
1 GTGCATCGATGCATTAAGGG
112361 GTGCATCGA
1 GTGCATCGA
112370 ACCTAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.35, T:0.27
Consensus pattern (20 bp):
GTGCATCGATGCATTAAGGG
Found at i:113359 original size:16 final size:16
Alignment explanation
Indices: 113313--113361 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
113303 AGCTGATTTC
*
113313 ATTACATTTCA-TCTT
1 ATTACATTTCATTATT
*
113328 ATT--ATGTCATTATT
1 ATTACATTTCATTATT
*
113342 ATTACATTTCATTGTT
1 ATTACATTTCATTATT
113358 ATTA
1 ATTA
113362 TAATTATGCC
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
13 5 0.19
14 6 0.22
15 3 0.11
16 13 0.48
ACGTcount: A:0.29, C:0.12, G:0.04, T:0.55
Consensus pattern (16 bp):
ATTACATTTCATTATT
Found at i:117142 original size:23 final size:23
Alignment explanation
Indices: 117106--117193 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 23
117096 AGTGCCATGC
* *
117106 AGAAATATCCCGAAGAACCACAT
1 AGAAATGTCCCGAAGGACCACAT
* **
117129 AGATATGTGTCGAAGGACCACAT
1 AGAAATGTCCCGAAGGACCACAT
*
117152 AGAAATGTCCCGAAGGACCACGT
1 AGAAATGTCCCGAAGGACCACAT
* * *
117175 AGAAGTTTCCCGAAAGACC
1 AGAAATGTCCCGAAGGACC
117194 GCGTAGAACC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 53 1.00
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
AGAAATGTCCCGAAGGACCACAT
Found at i:121976 original size:12 final size:12
Alignment explanation
Indices: 121958--122004 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
121948 AGTTTGTAAA
121958 TAATTTTTTAAT
1 TAATTTTTTAAT
*
121970 AAATTTTTTAATT
1 TAATTTTTTAA-T
121983 TAA-TTTTTAAT
1 TAATTTTTTAAT
121994 TAATTTTTTAA
1 TAATTTTTTAA
122005 ATTTAATTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 4 0.13
12 24 0.77
13 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TAATTTTTTAAT
Found at i:121988 original size:25 final size:26
Alignment explanation
Indices: 121958--122013 Score: 89
Period size: 24 Copynumber: 2.2 Consensus size: 26
121948 AGTTTGTAAA
121958 TAATTTTTTAATAAATTTTTT-AATT
1 TAATTTTTTAATAAATTTTTTAAATT
*
121983 TAA-TTTTTAATTAATTTTTTAAATT
1 TAATTTTTTAATAAATTTTTTAAATT
122008 TAATTT
1 TAATTT
122014 GATGAAACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 16 0.57
25 10 0.36
26 2 0.07
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
TAATTTTTTAATAAATTTTTTAAATT
Found at i:124629 original size:22 final size:22
Alignment explanation
Indices: 124602--124643 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
124592 AAACCGTTCA
*
124602 GGGGGGAGTCGGTACCCTCTTG
1 GGGGGGAATCGGTACCCTCTTG
*
124624 GGGGGGAATCGGTTCCCTCT
1 GGGGGGAATCGGTACCCTCT
124644 GAGCAATCTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.10, C:0.24, G:0.43, T:0.24
Consensus pattern (22 bp):
GGGGGGAATCGGTACCCTCTTG
Found at i:126778 original size:2 final size:2
Alignment explanation
Indices: 126771--126822 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
126761 TTTGAGAAAC
126771 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
126813 TA TA TA TA TA
1 TA TA TA TA TA
126823 GTTTTCATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:127286 original size:21 final size:21
Alignment explanation
Indices: 127260--127299 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
127250 CAGAACCCCA
*
127260 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
127281 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
127300 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:142938 original size:12 final size:12
Alignment explanation
Indices: 142923--142959 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
142913 ATATATTTAA
*
142923 TTATATTCTTTT
1 TTATATTATTTT
142935 TTAT-TTATTTT
1 TTATATTATTTT
142946 TTATATTATTTT
1 TTATATTATTTT
142958 TT
1 TT
142960 CTTTTTTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.43
12 13 0.57
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (12 bp):
TTATATTATTTT
Found at i:142963 original size:30 final size:30
Alignment explanation
Indices: 142928--142985 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
142918 TTTAATTATA
* *
142928 TTCTTTTTTATTTATTTTTTA-TATTATTTT
1 TTCTTTTTT-CTTATTTATTATTATTATTTT
142958 TTCTTTTTTCTTATTTATTATTATTATT
1 TTCTTTTTTCTTATTTATTATTATTATT
142986 ATTGTTAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (30 bp):
TTCTTTTTTCTTATTTATTATTATTATTTT
Found at i:143036 original size:24 final size:24
Alignment explanation
Indices: 142912--143037 Score: 66
Period size: 24 Copynumber: 5.2 Consensus size: 24
142902 TATATATATA
* *
142912 TATATATTTAATTATATTCT-TTTT
1 TATATATTTTATTTTATT-TATTTT
* *
142936 TATTTATTTT-TTATA-TTATTTT
1 TATATATTTTATTTTATTTATTTT
* * *
142958 T-TCT-TTTT-TCTTATTTATTAT
1 TATATATTTTATTTTATTTATTTT
* *
142979 TATTATTATTGTTAGTGTTTTATTTATGTA
1 TA-TA-TATT-TTA---TTTTATTTATTTT
143009 TATATATTTTATTTTATTTATTTT
1 TATATATTTTATTTTATTTATTTT
143033 TATAT
1 TATAT
143038 TATAATATAT
Statistics
Matches: 78, Mismatches: 13, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
20 7 0.09
21 10 0.13
22 6 0.08
23 6 0.08
24 25 0.32
25 2 0.03
26 2 0.03
27 3 0.04
28 4 0.05
29 2 0.03
30 11 0.14
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (24 bp):
TATATATTTTATTTTATTTATTTT
Found at i:143146 original size:20 final size:22
Alignment explanation
Indices: 143121--143172 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 22
143111 TATATATATA
143121 TATTCTATATTCTAT-TT-TTT
1 TATTCTATATTCTATGTTCTTT
* *
143141 TATTCTTTTTTCTATGTTCTTT
1 TATTCTATATTCTATGTTCTTT
143163 TA-TCT-TATTC
1 TATTCTATATTC
143173 CATTCTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 17 0.63
21 5 0.19
22 5 0.19
ACGTcount: A:0.15, C:0.13, G:0.02, T:0.69
Consensus pattern (22 bp):
TATTCTATATTCTATGTTCTTT
Found at i:146616 original size:12 final size:13
Alignment explanation
Indices: 146599--146627 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
146589 CATCTCATAC
146599 TTTTCAT-TTTAT
1 TTTTCATGTTTAT
146611 TTTTCATGTTTAT
1 TTTTCATGTTTAT
146624 TTTT
1 TTTT
146628 ATATTTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (13 bp):
TTTTCATGTTTAT
Found at i:153419 original size:13 final size:12
Alignment explanation
Indices: 153401--153459 Score: 59
Period size: 13 Copynumber: 4.8 Consensus size: 12
153391 CCTAAATTGG
153401 AAAAAAGAAGAGA
1 AAAAAAGAA-AGA
153414 AAAAAAGAACA-A
1 AAAAAAGAA-AGA
*
153426 AGAAAAGAAAG-
1 AAAAAAGAAAGA
*
153437 AAAAAAGAAAAA
1 AAAAAAGAAAGA
153449 AGAAAAAGAAA
1 A-AAAAAGAAA
153460 TAAGATGGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
11 10 0.26
12 10 0.26
13 19 0.49
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAGA
Found at i:153429 original size:7 final size:7
Alignment explanation
Indices: 153400--153464 Score: 62
Period size: 7 Copynumber: 9.3 Consensus size: 7
153390 CCCTAAATTG
153400 GAAAAAA
1 GAAAAAA
* *
153407 GAAGAGA
1 GAAAAAA
153414 -AAAAAA
1 GAAAAAA
*
153420 GAACAAA
1 GAAAAAA
153427 GAAAAGAAA
1 G-AAA-AAA
153436 GAAAAAA
1 GAAAAAA
153443 GAAAAAA
1 GAAAAAA
153450 G-AAAAA
1 GAAAAAA
*
153456 GAAATAA
1 GAAAAAA
153463 GA
1 GA
153465 TGGGTTCAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
6 10 0.21
7 28 0.60
8 5 0.11
9 4 0.09
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:153429 original size:70 final size:69
Alignment explanation
Indices: 153296--153431 Score: 168
Period size: 70 Copynumber: 1.9 Consensus size: 69
153286 AGTAATTCGC
** * *
153296 TTAGGATGAAAACCCGAAAGGGCGTTCTAAGTCGAAGAAGAAAAGAAAAAGAAAAGAACAAGAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATCG-AGAAGAAAAGAAAAAAAAAAGAACAAGAAA
153361 AACGA
65 AACGA
* *
153366 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTG-GAA-AAAAGAAGAGAAAAAAAGAACAAAGA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAGAAGAAAAGAA-A-AAAAAAAGAAC-AAGA
153429 AAA
63 AAA
153432 GAAAGAAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
67 7 0.12
68 4 0.07
69 10 0.18
70 36 0.63
ACGTcount: A:0.54, C:0.12, G:0.24, T:0.10
Consensus pattern (69 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAATCGAGAAGAAAAGAAAAAAAAAAGAACAAGAAAA
ACGA
Found at i:153458 original size:20 final size:20
Alignment explanation
Indices: 153400--153464 Score: 60
Period size: 20 Copynumber: 3.1 Consensus size: 20
153390 CCCTAAATTG
*
153400 GAAAAAAG-AAGAGAAAAAAA
1 GAAAAAAGAAAAAG-AAAAAA
*
153420 GAACAAAGAAAAGAAAGAAAAAA
1 GAA-AAA-AGAA-AAAGAAAAAA
*
153443 GAAAAAAGAAAAAGAAATAA
1 GAAAAAAGAAAAAGAAAAAA
153463 GA
1 GA
153465 TGGGTTCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 14 0.38
21 6 0.16
22 4 0.11
23 10 0.27
24 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.18, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAAAAAGAAAAAA
Found at i:156156 original size:3 final size:3
Alignment explanation
Indices: 156148--156225 Score: 51
Period size: 3 Copynumber: 27.7 Consensus size: 3
156138 ATTTAATCCC
* * * *
156148 TTA TTA TTA -TA TATA TT- TAA TTA -TA TTT TTA TTT TTA TTT TTA
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
156191 -TA TTA TT- TT- TTG TTA TTA TTA TTA TTA TTG TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
156226 TTGTGTTAGT
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
2 11 0.19
3 44 0.76
4 3 0.05
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:156245 original size:2 final size:2
Alignment explanation
Indices: 156238--156270 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
156228 GTGTTAGTTG
156238 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
156271 CTTTTATCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:157942 original size:18 final size:18
Alignment explanation
Indices: 157904--157947 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
157894 TAGGTTGTTG
157904 AATGAACT-AGTGTAATC
1 AATGAACTAAGTGTAATC
* *
157921 AATGAACTAAGTTTATTC
1 AATGAACTAAGTGTAATC
157939 AATGAACTA
1 AATGAACTA
157948 GATGCATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
AATGAACTAAGTGTAATC
Found at i:163854 original size:22 final size:21
Alignment explanation
Indices: 163829--163872 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
163819 TCAGATAGCT
* *
163829 TCAAACTTATGGTTGAATGATA
1 TCAAACTGAT-GTTGAATAATA
*
163851 TCAAAGTGATGTTGAATAATA
1 TCAAACTGATGTTGAATAATA
163872 T
1 T
163873 TCATTGCTCG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (21 bp):
TCAAACTGATGTTGAATAATA
Found at i:172447 original size:24 final size:24
Alignment explanation
Indices: 172415--172461 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
172405 ACTATGAATA
172415 CAAAAAGCCTGTGCATGTTAAATG
1 CAAAAAGCCTGTGCATGTTAAATG
172439 CAAAAAGCCTGTGCATGTTAAAT
1 CAAAAAGCCTGTGCATGTTAAAT
172462 ACAATTGCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (24 bp):
CAAAAAGCCTGTGCATGTTAAATG
Found at i:176077 original size:20 final size:20
Alignment explanation
Indices: 176036--176077 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
176026 TCTTGAATGT
* *
176036 GTATCGATACCCCTCGTTGG
1 GTATCGATACCCCTAGTCGG
176056 GTATCGATACCCCTAGTCGG
1 GTATCGATACCCCTAGTCGG
176076 GT
1 GT
176078 TTAGGCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCTAGTCGG
Found at i:176534 original size:15 final size:15
Alignment explanation
Indices: 176501--176541 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
176491 ATACATTATA
176501 ATTTTTCAAAA-ATT
1 ATTTTTCAAAATATT
176515 ATTTTTCAAAATAGTT
1 ATTTTTCAAAATA-TT
*
176531 -TTTTTGAAAAT
1 ATTTTTCAAAAT
176542 TGCCCATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 11 0.46
15 11 0.46
16 2 0.08
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.51
Consensus pattern (15 bp):
ATTTTTCAAAATATT
Found at i:182468 original size:41 final size:39
Alignment explanation
Indices: 182394--182474 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 39
182384 ATGAGTATTT
*
182394 TGTAAGGGTAGTATCGATACTGTTGAAGAGGTATCGATAC
1 TGTAAGGGTAGTATCGATACTG-TAAAGAGGTATCGATAC
*
182434 TGTAAGGGGTAGTATCGATATCTG-AAAGATGGTATCTATAC
1 TGTAA-GGGTAGTATCGATA-CTGTAAAGA-GGTATCGATAC
182475 CTTGAAACAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
40 9 0.25
41 24 0.67
42 3 0.08
ACGTcount: A:0.31, C:0.10, G:0.28, T:0.31
Consensus pattern (39 bp):
TGTAAGGGTAGTATCGATACTGTAAAGAGGTATCGATAC
Found at i:183214 original size:23 final size:23
Alignment explanation
Indices: 183180--183254 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
183170 CCAGGAAAAA
*
183180 TATGTGGTACTTCGGTGCAACCC
1 TATGTGGCACTTCGGTGCAACCC
183203 TATGTGGCACTTCGGTGCAACCC
1 TATGTGGCACTTCGGTGCAACCC
* * ** *
183226 TATATGACACTTTAGTGCAA-AC
1 TATGTGGCACTTCGGTGCAACCC
183248 TATGTGG
1 TATGTGG
183255 TCATTAGGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 6 0.14
23 38 0.86
ACGTcount: A:0.23, C:0.23, G:0.24, T:0.31
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAACCC
Found at i:187530 original size:13 final size:13
Alignment explanation
Indices: 187512--187540 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
187502 CACTTTATCT
187512 AAAGTACAAAAGG
1 AAAGTACAAAAGG
187525 AAAGTACAAAAGG
1 AAAGTACAAAAGG
187538 AAA
1 AAA
187541 TATCCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (13 bp):
AAAGTACAAAAGG
Found at i:190682 original size:45 final size:45
Alignment explanation
Indices: 190587--190946 Score: 411
Period size: 45 Copynumber: 8.0 Consensus size: 45
190577 ATTCATACGT
* * **
190587 ATAATGCA-CCATTATGCATTTTCATTTATGACATTATTTCATGCCA
1 ATAATGCACCCA-TATGCA-TTTCAATTATGGCATCCTTTCATGCCA
* * * * **
190633 ATAATTCACCCATATGCATTTCAATTGTGGAATCCTTTCAGGCTG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA
* **
190678 ATAATGCACCCATATGCATTTCAATTGTGGCATCCTTTCA-GTCTG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATG-CCA
* * * *
190723 ATAATGCACCCATATGCATTTCAATTGTGGCATCATTTC-TAACCG
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCAT-GCCA
* * *
190768 ATAATGCACCCATATGCATTACAATTAAGGTATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA
*
190813 ATAAGGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA
* *
190858 ATAATGCACCCATATGCATTTCAATTATGGAATCATTTCATGCCA
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA
* * * * *
190903 ATAATGCACCCATATACATTTCAAATATGACACCCTTTAATGCC
1 ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCC
190947 TTTTATACAA
Statistics
Matches: 273, Mismatches: 36, Indels: 11
0.85 0.11 0.03
Matches are distributed among these distances:
44 1 0.00
45 255 0.93
46 14 0.05
47 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAATTATGGCATCCTTTCATGCCA
Found at i:191341 original size:46 final size:46
Alignment explanation
Indices: 191289--191394 Score: 142
Period size: 46 Copynumber: 2.3 Consensus size: 46
191279 ATGCACAGCC
* * *
191289 ATGCATCGATGCACT-CACGATTTTATTGAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCCACGATTGT-TTAAAACATCAAATGCATTTT
* *
191335 ATGCATCGATGCACTCCAGGATTGTTTAAAACATCAAATGTATTTT
1 ATGCATCGATGCACTCCACGATTGTTTAAAACATCAAATGCATTTT
*
191381 ATGCATTGATGCAC
1 ATGCATCGATGCAC
191395 CCTTAGTGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 46 0.87
47 7 0.13
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (46 bp):
ATGCATCGATGCACTCCACGATTGTTTAAAACATCAAATGCATTTT
Found at i:197237 original size:23 final size:23
Alignment explanation
Indices: 197206--197249 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
197196 CGATACACCA
197206 TGAAGGTGCACCGATGCACTCCT
1 TGAAGGTGCACCGATGCACTCCT
* *
197229 TGAATGTGCATCGATGCACTC
1 TGAAGGTGCACCGATGCACTC
197250 AGCAGTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.23, C:0.27, G:0.25, T:0.25
Consensus pattern (23 bp):
TGAAGGTGCACCGATGCACTCCT
Found at i:199967 original size:64 final size:65
Alignment explanation
Indices: 199897--200049 Score: 229
Period size: 65 Copynumber: 2.4 Consensus size: 65
199887 CCCCATTTCG
* * * *
199897 AATGCATTTTATGCACCGATGCACAG-CCATGCATCGATGCAC-TCAGGATTTTATTGAAACATC
1 AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTTCAGGATTGT-TTAAAAAATC
199960 A
65 A
*
199961 AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTTCAGGCTTGTTTAAAAAATCA
1 AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTTCAGGATTGTTTAAAAAATCA
*
200026 AATGTATTTTATGCATCGATGCAC
1 AATGCATTTTATGCATCGATGCAC
200050 CCTTAGTGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
64 25 0.31
65 48 0.59
66 8 0.10
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (65 bp):
AATGCATTTTATGCATCGATGCACAGACCATGCATCGATGCACTTCAGGATTGTTTAAAAAATCA
Found at i:200990 original size:68 final size:68
Alignment explanation
Indices: 200889--201347 Score: 738
Period size: 68 Copynumber: 6.8 Consensus size: 68
200879 AGGTATTAAA
* * * * *
200889 CCTTTCATCTAACTGCCATAATTGACACCTTTCTGTCAAATGTACAGCTAGGCCTCAAAGGCACG
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
200954 TAG
66 TAG
* * *
200957 ACTTTCATCTAACTGGCATAATTGGCACATTTCTGTCAAATGCACAGTTAAGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
201022 TAG
66 TAG
* * * *
201025 CCTTTCATCTAACTGGTATAATTGACACCTTTCTGTCAAATGCACAATTATGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
201090 TAG
66 TAG
201093 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
201158 TAG
66 TAG
* * * * *
201161 CTTTTTATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTGAAAAGAACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
201226 TAG
66 TAG
201229 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
201294 TAG
66 TAG
* * *
201297 CCTTTCATCTAACTGGCATAATTGACACCTTTTTATCAAATGCACAGTTAG
1 CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAG
201348 CCTATTAAAC
Statistics
Matches: 360, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 360 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (68 bp):
CCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAGTTAGGCCTCAAAGGCACT
TAG
Found at i:202046 original size:19 final size:21
Alignment explanation
Indices: 201994--202047 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 21
201984 ATCGATTACC
201994 ATGGTATCGATACTACTATACT
1 ATGGTATCGATACTAC-ATACT
202016 ATGGTA-CTGATACT-C-TACT
1 ATGGTATC-GATACTACATACT
202035 ATGGTATCGATAC
1 ATGGTATCGATAC
202048 CATTTTTGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
19 15 0.50
20 1 0.03
21 2 0.07
22 12 0.40
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.35
Consensus pattern (21 bp):
ATGGTATCGATACTACATACT
Found at i:208217 original size:26 final size:26
Alignment explanation
Indices: 208185--208238 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
208175 ACTAAGTGTG
* *
208185 TATGGTGGGCATGAGCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
208211 TATGGTGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
208237 TA
1 TA
208239 GCACTTCGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.31, T:0.37
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:213019 original size:41 final size:40
Alignment explanation
Indices: 212975--213298 Score: 181
Period size: 41 Copynumber: 7.9 Consensus size: 40
212965 TTATGATTTG
* *
212975 AATTCAATCAAATTCGATCATGGCAACATGCAATAATTCAG
1 AATTCAATC-AATTCAATCATGGCAACATGCAATAATTCAC
* *
213016 AATTCCAATCAATTCAATAATGG-AAGCGTGCAATAATTCAC
1 AATT-CAATCAATTCAATCATGGCAA-CATGCAATAATTCAC
* * **
213057 AATTCGATTCAATTCAATCAT-GTAAGCATGTTATAATTCACC
1 AATTC-AATCAATTCAATCATGGCAA-CATGCAATAATTCA-C
* * * * * *
213099 ATTTGATTCAATTCAATCACGACATCATGCAATAATTCAC
1 AATTCAATCAATTCAATCATGGCAACATGCAATAATTCAC
* * * * *
213139 AATTCAACTTAATTCGATCATGGCATCATGCATTAA-TCTAT
1 AATTCAA-TCAATTCAATCATGGCAACATGCAATAATTC-AC
* * * *
213180 AATTCAATTCAATTCAGTCATGGAAACATG-AATTTATTAAC
1 AATTCAA-TCAATTCAATCATGGCAACATGCAA-TAATTCAC
** * * ** *
213221 AAACCAATTGAATT-AGATCATGGTAACATATATTAATTCAC
1 AATTCAA-TCAATTCA-ATCATGGCAACATGCAATAATTCAC
* * * *
213262 AATCCAATTCAATTTAAATCAAGGCAACAAGCAATAA
1 AATTCAA-TCAA-TTCAATCATGGCAACATGCAATAA
213299 CTAATTTACC
Statistics
Matches: 216, Mismatches: 53, Indels: 27
0.73 0.18 0.09
Matches are distributed among these distances:
40 13 0.06
41 174 0.81
42 28 0.13
43 1 0.00
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (40 bp):
AATTCAATCAATTCAATCATGGCAACATGCAATAATTCAC
Found at i:221537 original size:32 final size:31
Alignment explanation
Indices: 221501--221604 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 31
221491 TAACTACTAC
221501 GCATTATCTAAATGCAACTCTGAT-ACTCA-TGT
1 GCATTATCTAAATGCAAC-CTGATCA-T-ATTGT
* * *
221533 GCATTATCTGAATGTAAACCTGGTCATATTGT
1 GCATTATCTAAATG-CAACCTGATCATATTGT
* ** *
221565 GCATTATCTAAATGCACCCTGGCCATATTAT
1 GCATTATCTAAATGCAACCTGATCATATTGT
221596 GCATTATCT
1 GCATTATCT
221605 GAATATACCC
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
31 23 0.38
32 34 0.56
33 4 0.07
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (31 bp):
GCATTATCTAAATGCAACCTGATCATATTGT
Found at i:221615 original size:31 final size:31
Alignment explanation
Indices: 221532--221616 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
221522 GATACTCATG
* * *
221532 TGCATTATCTGAATGTAAACCTGGTCATATTG
1 TGCATTATCTGAATGT-ACCCTGGCCATATTA
* *
221564 TGCATTATCTAAATGCACCCTGGCCATATTA
1 TGCATTATCTGAATGTACCCTGGCCATATTA
*
221595 TGCATTATCTGAATATACCCTG
1 TGCATTATCTGAATGTACCCTG
221617 ACTAGTATAT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
31 31 0.69
32 14 0.31
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (31 bp):
TGCATTATCTGAATGTACCCTGGCCATATTA
Found at i:222447 original size:45 final size:45
Alignment explanation
Indices: 222376--222501 Score: 157
Period size: 45 Copynumber: 2.8 Consensus size: 45
222366 ATCCAATATT
* *
222376 TTACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACC-ATATAC
1 TTACCATTTATT--CCATAAGCTCGTAAGCTTATTTTACCAACACAC
222422 TTACCATTTATTCTCATAAGCTCGTAAGCTTATTTTACCAACACAC
1 TTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAACACAC
** * *
222468 TTGTCA-TTATTCCGTAAGCTTGTAAGCTTATTTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
222502 CATGCTTACA
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
44 21 0.29
45 31 0.43
46 20 0.28
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACACAC
Found at i:222655 original size:40 final size:40
Alignment explanation
Indices: 222611--222812 Score: 323
Period size: 40 Copynumber: 5.0 Consensus size: 40
222601 ACCGTAGTGC
222611 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
222651 TACACATAAGATCGTGCCCACCATATACACCGAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
222691 TACACATAAGGTCGTGCCAACCATATACACCGAAGTGCAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
222731 TACATATAAGGTCGTGCCCACCATATACACCAAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
222771 TACACATAAGGTCTTGCCCACCATATACAGCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
222811 TA
1 TA
222813 TAAACCTGCA
Statistics
Matches: 146, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:229810 original size:45 final size:45
Alignment explanation
Indices: 229739--229864 Score: 166
Period size: 45 Copynumber: 2.8 Consensus size: 45
229729 ATCCAATATT
*
229739 TTACCATTTATTAACCATAAGCTCGTAAGCTTATTTTACC-ATATAC
1 TTACCATTTATT--CCATAAGCTCGTAAGCTTATTTTACCAACATAC
*
229785 TTACCATTTATTCCCATAAACTCGTAAGCTTATTTTACCAACATAC
1 TTACCATTTATT-CCATAAGCTCGTAAGCTTATTTTACCAACATAC
** *
229831 TTGTCA-TTATTCCGTAAGCTCGTAAGCTTATTTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
229865 CATGCTTACA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 21 0.29
45 30 0.42
46 21 0.29
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAACATAC
Found at i:230018 original size:40 final size:40
Alignment explanation
Indices: 229974--230215 Score: 412
Period size: 40 Copynumber: 6.0 Consensus size: 40
229964 ACCGTAGTGC
*
229974 TACACATAAGGTCGTGCCCACCATATACACCGATGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
230014 TACACATAAGGTTGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
230054 TACACATAAGGTCGTGCCCACCATATACATCGAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
230094 TACACATAAGGTCGTGCCAACCATATACACCAAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
230134 TACACATAAGGTCGTGCCCACCATATACACCAAAGTATAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
230174 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
230214 TA
1 TA
230216 TAAACCTGCA
Statistics
Matches: 189, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 189 1.00
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:234753 original size:30 final size:31
Alignment explanation
Indices: 234708--234778 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 31
234698 TCTGCAAGAC
* * *
234708 TTAGAAAA-TTTGGGGACC-ATTCTATAATT
1 TTAGAAAAGTTAGGGGACCAAATCAATAATT
*
234737 TTTGAAAAGTTAGGGGACCAAATCAATAATT
1 TTAGAAAAGTTAGGGGACCAAATCAATAATT
234768 TTAGAAAAGTT
1 TTAGAAAAGTT
234779 GTGTATTGTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 7 0.20
30 9 0.26
31 19 0.54
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.34
Consensus pattern (31 bp):
TTAGAAAAGTTAGGGGACCAAATCAATAATT
Done.