Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008181.1 Hibiscus syriacus cultivar Beakdansim tig00110781_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: 428138
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.32
File 1 of 2
Found at i:1062 original size:23 final size:22
Alignment explanation
Indices: 1003--1069 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
993 TATGGACATC
*
1003 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1025 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
1047 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
1070 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:2050 original size:17 final size:18
Alignment explanation
Indices: 2021--2055 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
2011 CTACAAAATG
2021 TAATATGTAAATTAATAA
1 TAATATGTAAATTAATAA
2039 TAATAT-TAAATTAATAA
1 TAATATGTAAATTAATAA
2056 AATGTAGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (18 bp):
TAATATGTAAATTAATAA
Found at i:11281 original size:24 final size:24
Alignment explanation
Indices: 11223--11281 Score: 91
Period size: 24 Copynumber: 2.5 Consensus size: 24
11213 TCTCAGCTCT
*
11223 AAGGATGTTGATGAAAAGGTTGAG
1 AAGGATGTTGATGAAAAGGTTAAG
**
11247 AAGGACATTGATGAAAAGGTTAAG
1 AAGGATGTTGATGAAAAGGTTAAG
11271 AAGGATGTTGA
1 AAGGATGTTGA
11282 GGCTGATGCA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.41, C:0.02, G:0.34, T:0.24
Consensus pattern (24 bp):
AAGGATGTTGATGAAAAGGTTAAG
Found at i:14620 original size:24 final size:24
Alignment explanation
Indices: 14575--14620 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
14565 CAAATAGTCA
* * **
14575 TTTTGTTATGTATTTTTTTTTTCT
1 TTTTGTGAAGTATTTTAATTTTCT
14599 TTTTGTGAAGTATTTTAATTTT
1 TTTTGTGAAGTATTTTAATTTT
14621 TGGTCAAAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.15, C:0.02, G:0.11, T:0.72
Consensus pattern (24 bp):
TTTTGTGAAGTATTTTAATTTTCT
Found at i:23655 original size:39 final size:39
Alignment explanation
Indices: 23612--23698 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
23602 CTCATCCTAT
* *
23612 GCACAAAGTATAGGAGACTGCAGTAAGGACTTACCCTGA
1 GCACAAAGCAGAGGAGACTGCAGTAAGGACTTACCCTGA
* * **
23651 GCACAAAGCCGAGGAGCCTGCAGTAAGGACTTATTCTGA
1 GCACAAAGCAGAGGAGACTGCAGTAAGGACTTACCCTGA
23690 GCACAAAGC
1 GCACAAAGC
23699 CGATGAGCTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.16
Consensus pattern (39 bp):
GCACAAAGCAGAGGAGACTGCAGTAAGGACTTACCCTGA
Found at i:23699 original size:39 final size:39
Alignment explanation
Indices: 23623--23706 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
23613 CACAAAGTAT
*
23623 AGGAGACTGCAGTAAGGACTTACCCTGAGCACAAAGCCG
1 AGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGCCG
**
23662 AGGAGCCTGCAGTAAGGACTTATTCTGAGCACAAAGCCG
1 AGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGCCG
*
23701 ATGAGC
1 AGGAGC
23707 TTACGGAAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.29, T:0.15
Consensus pattern (39 bp):
AGGAGCCTGCAGTAAGGACTTACCCTGAGCACAAAGCCG
Found at i:25489 original size:58 final size:58
Alignment explanation
Indices: 25358--25518 Score: 186
Period size: 58 Copynumber: 2.7 Consensus size: 58
25348 ATGAATTCAA
** *
25358 GGATGAAATTAGAATATTCAAAAGTTTGGAGA-CTAAATTAGAAA-GAGGGTCATAGTTTAG
1 GGATGAAATTAGAATATTCAAAAGTTTAAAGATC-AATTTA-AAACGA--GTCATAGTTTAG
*
25418 GGATGAAATTAGAATGTTCAAAA-TTTCAAAGATCAATTTAAAACGAGTCATAGTTT-G
1 GGATGAAATTAGAATATTCAAAAGTTT-AAAGATCAATTTAAAACGAGTCATAGTTTAG
* *
25475 AGTATGAAATTAGAATATTCAAAAGTTTAAGGATCAATTTAAAA
1 -GGATGAAATTAGAATATTCAAAAGTTTAAAGATCAATTTAAAA
25519 TGAGGGTTAT
Statistics
Matches: 89, Mismatches: 7, Indels: 12
0.82 0.06 0.11
Matches are distributed among these distances:
57 1 0.01
58 46 0.52
59 9 0.10
60 32 0.36
61 1 0.01
ACGTcount: A:0.44, C:0.06, G:0.19, T:0.30
Consensus pattern (58 bp):
GGATGAAATTAGAATATTCAAAAGTTTAAAGATCAATTTAAAACGAGTCATAGTTTAG
Found at i:26526 original size:115 final size:116
Alignment explanation
Indices: 26255--26596 Score: 449
Period size: 115 Copynumber: 2.9 Consensus size: 116
26245 TATTTACAAA
*
26255 TTTAAGAAAGACACGCCAACAATATGATATCTTTCTAGTCTCCACCCAA---TTATTTACGTGTT
1 TTTAAGAAAGACACG-CAACAATATGATATCTTTCTAGTCTCCACCCAATTGTTATTTACGT-AT
* *
26317 TTTTCTTAAAATCATCATACAATCTAATAATTTTTTCAAAATTACATGACGAT
64 TTTTCTTAAAATCATCATACAATCTAATAATTTTTTCAAAATTATAGGACGAT
* * * *
26370 TTTAAAAAAGACACGTTAATAATATGATATCTTTCTAGTCTCCACCCAATTGTTATTTTCGTATT
1 TTTAAGAAAGACACG-CAACAATATGATATCTTTCTAGTCTCCACCCAATTGTTATTTACGTATT
*
26435 TTTCTTAAAATCATCAAACAATCTAATAATTTTTTCAAAATTATAGGACGAT
65 TTTCTTAAAATCATCATACAATCTAATAATTTTTTCAAAATTATAGGACGAT
* * * * * *
26487 TTTAAGAAAGACACG-AACAACATCATATCTTTATAGTCTCCACTCAATTGTTGTTTACGTGTTT
1 TTTAAGAAAGACACGCAACAATATGATATCTTTCTAGTCTCCACCCAATTGTTATTTACGTATTT
* * * *
26551 TTCTTAAAGTCATCCTATAATCTAATCATTTTTTCCAAACATTATA
66 TTCTTAAAATCATCATACAATCTAATAATTTTTT-CAAA-ATTATA
26597 AATATCATAT
Statistics
Matches: 199, Mismatches: 23, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
115 115 0.58
116 4 0.02
117 71 0.36
118 9 0.05
ACGTcount: A:0.35, C:0.18, G:0.08, T:0.39
Consensus pattern (116 bp):
TTTAAGAAAGACACGCAACAATATGATATCTTTCTAGTCTCCACCCAATTGTTATTTACGTATTT
TTCTTAAAATCATCATACAATCTAATAATTTTTTCAAAATTATAGGACGAT
Found at i:33659 original size:2 final size:2
Alignment explanation
Indices: 33652--33685 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
33642 AAAATTATCA
33652 AT AT AT AT AT AT -T AT AT AT AT AT AT -T AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33686 TATGTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 28 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:33669 original size:9 final size:9
Alignment explanation
Indices: 33652--33688 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
33642 AAAATTATCA
33652 ATATATA-T
1 ATATATATT
33660 ATAT-TATAT
1 ATATATAT-T
33669 ATATATATT
1 ATATATATT
33678 ATATATATT
1 ATATATATT
33687 AT
1 AT
33689 GTTGAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 2 0.08
8 4 0.15
9 17 0.65
10 3 0.12
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (9 bp):
ATATATATT
Found at i:33670 original size:13 final size:13
Alignment explanation
Indices: 33652--33685 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
33642 AAAATTATCA
33652 ATATATATATATT
1 ATATATATATATT
33665 ATATATATATATT
1 ATATATATATATT
33678 ATATATAT
1 ATATATAT
33686 TATGTTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATATATATATATT
Found at i:56831 original size:31 final size:30
Alignment explanation
Indices: 56796--56854 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
56786 ATTAAATTAA
* *
56796 ATAAATTTAATTATTATTTTATAACTATTCG
1 ATAAAATTAATTATCATTTTATAA-TATTCG
56827 ATAAAATTAATTATCATTTTATAATATT
1 ATAAAATTAATTATCATTTTATAATATT
56855 GTTTTGTAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 4 0.15
31 22 0.85
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (30 bp):
ATAAAATTAATTATCATTTTATAATATTCG
Found at i:57684 original size:20 final size:19
Alignment explanation
Indices: 57661--57706 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
57651 CGATATACCA
57661 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
57681 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
57701 GGTAAA
1 GGTAAA
57707 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:60051 original size:32 final size:33
Alignment explanation
Indices: 59990--60054 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
59980 AAATAGATGG
* *
59990 AGTGGTGAATGAAGTAGAGGTGTCGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTCAAGGGGTGA
* *
60023 AGTGGTGAAAGAAGTTG-GGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTCAAGGGGTGA
60055 TATTAAGATG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
32 13 0.46
33 15 0.54
ACGTcount: A:0.28, C:0.02, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTCAAGGGGTGA
Found at i:63363 original size:22 final size:22
Alignment explanation
Indices: 63288--63351 Score: 128
Period size: 22 Copynumber: 2.9 Consensus size: 22
63278 TCCTTATGGA
63288 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
63310 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
63332 CAATTCTACGGGCACTTCGG
1 CAATTCTACGGGCACTTCGG
63352 GGCATTTATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.19, C:0.28, G:0.27, T:0.27
Consensus pattern (22 bp):
CAATTCTACGGGCACTTCGGTG
Found at i:66486 original size:21 final size:21
Alignment explanation
Indices: 66460--66504 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
66450 GATTTCTGGG
* *
66460 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
66481 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
66502 CAA
1 CAA
66505 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:68271 original size:22 final size:22
Alignment explanation
Indices: 68196--68263 Score: 136
Period size: 22 Copynumber: 3.1 Consensus size: 22
68186 TCCTTATGGA
68196 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
68218 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
68240 CAATTCTACGGGCACTTCGGTG
1 CAATTCTACGGGCACTTCGGTG
68262 CA
1 CA
68264 TTTATACGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.19, C:0.28, G:0.26, T:0.26
Consensus pattern (22 bp):
CAATTCTACGGGCACTTCGGTG
Found at i:69874 original size:19 final size:19
Alignment explanation
Indices: 69850--69898 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
69840 AATGTAGGGT
69850 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
69869 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
69888 TATTTTTGTAT
1 TAATTTTGTAT
69899 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:70873 original size:196 final size:199
Alignment explanation
Indices: 70462--71359 Score: 1576
Period size: 196 Copynumber: 4.6 Consensus size: 199
70452 TAAAAAAGTG
* * *
70462 TCGATCCCAAAAGTATAATGTATTATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
1 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTT
*
70527 ATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
66 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
70592 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
131 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
70657 ATCA
196 ATCA
*
70661 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTT
1 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTT
70726 ATGAGAGAATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATA-TTGTTTTCCAG
66 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
70788 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
131 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
70853 ATCA
196 ATCA
* **
70857 TCAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAA-T-TACTTATTTT
1 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTT
70920 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TT-TTTTCCAG
66 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
70983 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
131 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
71048 ATCA
196 ATCA
**
71052 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTT
1 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTT
71117 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
66 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
71182 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAA--GT-GATCCCAAA
131 AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
71244 ATCA
196 ATCA
*
71248 TCGAACCCAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAA-TATATTGGTTTT
1 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTT
*
71311 ATGAGAG-ATATGTCTAAAAAATGTGTCGACACT-A-ATA-TTTGTGTCGATA
66 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
71360 CTAATTTAAA
Statistics
Matches: 681, Mismatches: 12, Indels: 21
0.95 0.02 0.03
Matches are distributed among these distances:
190 12 0.02
191 3 0.00
192 1 0.00
193 25 0.04
194 57 0.08
195 163 0.24
196 181 0.27
197 81 0.12
198 3 0.00
199 155 0.23
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAG
AATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAA
ATCA
Found at i:71104 original size:391 final size:396
Alignment explanation
Indices: 70017--71359 Score: 2258
Period size: 391 Copynumber: 3.4 Consensus size: 396
70007 CAATATGGCC
70017 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAACAAAGTGTCGATCCCAAAATCATCGAAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAA-AAAGTGTCGATCCCAAAATCATCGAAC
70082 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
70147 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAACGA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA--TTTTTTTCCAGAATGA
**
70212 ATGGCCAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCA
193 ATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCA
70277 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTT
257 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTT
70342 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTTCCAG
322 ATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTG-TTTTCCAG
**
70407 AATGAATGGCC
386 AATGAATGGAA
70418 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCG-----------AT----C
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAAC
*
70468 CCAAAAGTATAATGTATTATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGA
*
70533 GAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATGAA
130 GAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTT-TTTTCCAGAATGAA
70598 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
194 TGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATC
*
70663 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTAT
259 GAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTAT
70728 GAGAGAATATGTCTAAATAATGTGTCGACACT-A-ATAGTTTGTGTCGATATTGTTTTCCAGAAT
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCAGAAT
70791 GAATGGAA
389 GAATGGAA
*
70799 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCAAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
***
70864 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAA-T-TACTTATTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
70927 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
70991 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
**
71056 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACTTATTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGA
71121 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTGTTTTCCAGAATG
326 GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTGTTTTCCAGAATG
71186 AATGGAA
390 AATGGAA
71193 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAA--GT-GATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
**
71255 CAAAAGTATAA-GTAATATGTAATTTTTCAATCTAACCGGTACAA-TATATTGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
71318 -ATATGTCTAAAAAATGTGTCGACACT-A-ATA-TTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
71360 CTAATTTAAA
Statistics
Matches: 900, Mismatches: 21, Indels: 56
0.92 0.02 0.06
Matches are distributed among these distances:
380 11 0.01
381 52 0.06
382 19 0.02
383 1 0.00
384 124 0.14
385 51 0.06
386 111 0.12
387 12 0.01
388 3 0.00
389 1 0.00
390 61 0.07
391 219 0.24
392 5 0.01
393 75 0.08
394 63 0.07
395 46 0.05
401 44 0.05
402 2 0.00
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (396 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTGTTTTCCAGAATGA
ATGGAA
Found at i:72839 original size:12 final size:12
Alignment explanation
Indices: 72822--72874 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
72812 GGTCGCAGAA
*
72822 GATGAAGCTGAC
1 GATGAAGATGAC
*
72834 GATGAAGATAAC
1 GATGAAGATGAC
*
72846 GATGATGATGAC
1 GATGAAGATGAC
* *
72858 GATGATGATGAT
1 GATGAAGATGAC
72870 GATGA
1 GATGA
72875 TGAAGATGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 36 1.00
ACGTcount: A:0.38, C:0.08, G:0.32, T:0.23
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:72854 original size:3 final size:3
Alignment explanation
Indices: 72846--72887 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
72836 TGAAGATAAC
* *
72846 GAT GAT GAT GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
72888 CCAAACAAGT
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:0.02, G:0.33, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:74788 original size:183 final size:183
Alignment explanation
Indices: 74306--75102 Score: 1488
Period size: 183 Copynumber: 4.4 Consensus size: 183
74296 CTTTCAACAT
** * * *
74306 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
74371 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
74436 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
74489 ATTATAATGTAATAGATAA-TTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
*
74553 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTATTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
74618 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
74671 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
74736 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
74801 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
74854 ATTATAATGTAATAGATAATTTTATAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
74919 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
* *
74984 AATGTGTCGATACGATTTAAAAAAGTATCGACATTTACACATCGGAACCCAGA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
* *
75037 TTTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATAAACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
75102 G
66 G
75103 ATAATATTGT
Statistics
Matches: 601, Mismatches: 12, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
182 180 0.30
183 421 0.70
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:76471 original size:24 final size:24
Alignment explanation
Indices: 76439--76496 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
76429 TTATCATTAA
76439 ATTAGGTATGTACAATAACTACAT
1 ATTAGGTATGTACAATAACTACAT
****
76463 ATTAGGTATGTTTGTTAACTACAT
1 ATTAGGTATGTACAATAACTACAT
76487 ATTTAGGTAT
1 A-TTAGGTAT
76497 ACATCTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 21 0.72
25 8 0.28
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.41
Consensus pattern (24 bp):
ATTAGGTATGTACAATAACTACAT
Found at i:76813 original size:23 final size:23
Alignment explanation
Indices: 76782--76845 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
76772 ATAGGTAAAC
*
76782 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
76805 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
76828 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
76846 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:76852 original size:23 final size:23
Alignment explanation
Indices: 76782--76854 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
76772 ATAGGTAAAC
* **
76782 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
76805 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
76828 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
76851 ATAT
1 ATAT
76855 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:77071 original size:25 final size:25
Alignment explanation
Indices: 77037--77087 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
77027 ACAACAAATC
*
77037 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
77062 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
77087 A
1 A
77088 TTTGGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:77494 original size:18 final size:18
Alignment explanation
Indices: 77473--77509 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
77463 GTAATTGGAG
77473 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
77491 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
77509 T
1 T
77510 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:77517 original size:24 final size:24
Alignment explanation
Indices: 77465--77511 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
77455 TTTCATATGT
* *
77465 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
77489 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
77512 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:77810 original size:39 final size:39
Alignment explanation
Indices: 77767--77853 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
77757 TCCGATGCTC
*
77767 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
77806 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
77845 ATCAAAATC
1 ATCAAAATC
77854 TACAACTTGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.48, C:0.21, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:78287 original size:23 final size:23
Alignment explanation
Indices: 78256--78328 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
78246 ATAGGTAAAC
*
78256 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
78279 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
78302 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
78325 ATAT
1 ATAT
78329 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:79978 original size:3 final size:3
Alignment explanation
Indices: 79970--80022 Score: 70
Period size: 3 Copynumber: 17.7 Consensus size: 3
79960 ACATGTATAT
* * * *
79970 AAC AAC AAC AAC GAC GAC GAC GAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
80018 AAC AA
1 AAC AA
80023 TAATAATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.60, C:0.32, G:0.08, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:80027 original size:3 final size:3
Alignment explanation
Indices: 80021--80055 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
80011 CAACAACAAC
80021 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
80056 AGGCTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:82554 original size:20 final size:20
Alignment explanation
Indices: 82529--82566 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
82519 AACAAAACTA
*
82529 TTCGCAACGCGAATTTCGTT
1 TTCGCAACACGAATTTCGTT
82549 TTCGCAACACGAATTTCG
1 TTCGCAACACGAATTTCG
82567 CAAATCAAAT
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:0.26, G:0.18, T:0.32
Consensus pattern (20 bp):
TTCGCAACACGAATTTCGTT
Found at i:83577 original size:17 final size:18
Alignment explanation
Indices: 83555--83597 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
83545 TCAAAAGAGG
*
83555 TTTTATATTTA-ATTTTA
1 TTTTATATTTATATTTGA
83572 TTTTATA-TTATATTTGA
1 TTTTATATTTATATTTGA
83589 TTTTA-ATTT
1 TTTTATATTT
83598 TAATATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATATTTATATTTGA
Found at i:83608 original size:12 final size:12
Alignment explanation
Indices: 83562--83724 Score: 70
Period size: 12 Copynumber: 13.3 Consensus size: 12
83552 AGGTTTTATA
*
83562 TTTAAT-TTTAT
1 TTTAATATTAAT
83573 TTT-ATATT-AT
1 TTTAATATTAAT
* *
83583 ATTTGATTTTAAT
1 -TTTAATATTAAT
83596 TTTAATATTAAT
1 TTTAATATTAAT
* *
83608 TTT--TTTTAAAA
1 TTTAATATT-AAT
* **
83619 TTAAATATTGTTT
1 TTTAATATT-AAT
83632 TTTAATATTATAT
1 TTTAATATTA-AT
*
83645 TATAGATATTAAT
1 TTTA-ATATTAAT
83658 TTTAATATTAATTT
1 TTTAATATTAA--T
*
83672 TTTAA-A-TAAA
1 TTTAATATTAAT
* *
83682 TTAAATATTATT
1 TTTAATATTAAT
83694 TTTAATATTATAT
1 TTTAATATTA-AT
*
83707 TATACATATTTAAT
1 TTTA-ATA-TTAAT
83721 TTTA
1 TTTA
83725 TATCATATAA
Statistics
Matches: 112, Mismatches: 24, Indels: 29
0.68 0.15 0.18
Matches are distributed among these distances:
10 11 0.10
11 13 0.12
12 38 0.34
13 27 0.24
14 20 0.18
15 3 0.03
ACGTcount: A:0.38, C:0.01, G:0.02, T:0.60
Consensus pattern (12 bp):
TTTAATATTAAT
Found at i:83653 original size:14 final size:12
Alignment explanation
Indices: 83634--83721 Score: 54
Period size: 14 Copynumber: 6.9 Consensus size: 12
83624 TATTGTTTTT
83634 TAATATTATATTA
1 TAATATTA-ATTA
*
83647 TAGATATTAATTT
1 TA-ATATTAATTA
*
83660 TAATATTAATTTTT
1 TAATATTAA--TTA
*
83674 TAA-ATAAATTA
1 TAATATTAATTA
* *
83685 -AATATTATTTT
1 TAATATTAATTA
83696 TAATATTATATTA
1 TAATATTA-ATTA
83709 TACATATTTAATT
1 TA-ATA-TTAATT
83722 TTATATCATA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
10 2 0.03
11 7 0.12
12 14 0.24
13 15 0.25
14 18 0.31
15 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (12 bp):
TAATATTAATTA
Found at i:83662 original size:62 final size:62
Alignment explanation
Indices: 83572--83724 Score: 215
Period size: 62 Copynumber: 2.5 Consensus size: 62
83562 TTTAATTTTA
* ** *
83572 TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTTTA-AAATTAAATATTGTT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATT-AT
83631 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAT
*
83693 TTTTAATATTATATTATACATATTTAATTTTA
1 TTTTAATATTATATTATAGATA-TTAATTTTA
83725 TATCATATAA
Statistics
Matches: 84, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
59 4 0.05
60 10 0.12
61 1 0.01
62 48 0.57
63 21 0.25
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.59
Consensus pattern (62 bp):
TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAT
Found at i:83676 original size:20 final size:20
Alignment explanation
Indices: 83589--83676 Score: 63
Period size: 20 Copynumber: 4.3 Consensus size: 20
83579 TTATATTTGA
83589 TTTTAATTTTAATATTAATTTT
1 TTTTAATTTTAATATTAA--TT
* * *
83611 TTTTAAAATTAAATATT-GTT
1 TTTT-AATTTTAATATTAATT
* **
83631 TTTTAATATT-ATATTATAGA
1 TTTTAATTTTAATATTA-ATT
*
83651 TATTAATTTTAATATTAATT
1 TTTTAATTTTAATATTAATT
83671 TTTTAA
1 TTTTAA
83677 ATAAATTAAA
Statistics
Matches: 48, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
18 5 0.10
19 3 0.06
20 20 0.42
21 6 0.12
22 4 0.08
23 10 0.21
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTTAATTTTAATATTAATT
Found at i:83779 original size:20 final size:19
Alignment explanation
Indices: 83719--83780 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
83709 TACATATTTA
*
83719 ATTTTATATCA-TATAAATT
1 ATTTTATAT-ATTATTAATT
*
83738 ATTTTATATATTATTAA-A
1 ATTTTATATATTATTAATT
83756 ATTTTATAT-TTATTTTAATT
1 ATTTTATATATTA--TTAATT
83776 ATTTT
1 ATTTT
83781 GATTTAAGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 3 0.08
18 10 0.28
19 18 0.50
20 5 0.14
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
ATTTTATATATTATTAATT
Found at i:92233 original size:13 final size:14
Alignment explanation
Indices: 92215--92244 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
92205 AGGATCTTTT
92215 TATTATTATAT-TA
1 TATTATTATATATA
92228 TATTATTATATATA
1 TATTATTATATATA
92242 TAT
1 TAT
92245 CAATACCGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.69
14 5 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTATATATA
Found at i:94529 original size:267 final size:265
Alignment explanation
Indices: 94061--94549 Score: 942
Period size: 267 Copynumber: 1.8 Consensus size: 265
94051 GAGCAAGCCA
94061 CAGAGTTATACCGGTAATAGCAATGCAGGTGGAAAATTTTGGGGAAAACAATGATTAAGATGAAG
1 CAGAGTTATACCGGTAATAGCAATGCAGGTGGAAAATTTTGGGGAAAACAATGATTAAGATGAAG
*
94126 ATAGCTTGTCGTAATTCGATACAAAATTGATCATTCAAATGTACCGAGGAAAGGTGTACCCAAAG
66 ATAGCTTGTCGTAATTCGATACAAAATTGATCATTCAAATGTACCGAGGAAAGGTGTAACCAAAG
94191 TAGACAAGATTATTACAGAACAGTCAAGAACCCTATTTAAAACAAGTGATGTTGACCAGTATTAA
131 TAGACAAGATTATTACAGAACAGTCAAGAACCCTATTTAAAACAAGTGATGTTGACCAGTATTAA
94256 ATGTCTGATTTTGATGAATATACTATTAAAAACAAGTGATGAAGATAGCTTGTCGTAATTCGAAA
196 ATGTCTGATTTTGATGAATATACTATTAAAAACAAGTGATGAAGATAGCTTGTCGTAATTCGAAA
94321 CAAGC
261 CAAGC
94326 CAGAGTTATACCGGTAATAGCAATGCAGGTGGAAAATTTTGGGGAGAAAACAATGATTAAGATGA
1 CAGAGTTATACCGGTAATAGCAATGCAGGTGGAAAATTTT-GGG-GAAAACAATGATTAAGATGA
94391 AGATAGCTTGTCGTAATTCGATACAAAATTGATCATTCAAATGTACCGAGGAAAGGTGTAACCAA
64 AGATAGCTTGTCGTAATTCGATACAAAATTGATCATTCAAATGTACCGAGGAAAGGTGTAACCAA
94456 AGTAGACAAGATTATTACAGAACAGTCAAGAACCCTATTTAAAACAAGTGATGTTGACCAGTATT
129 AGTAGACAAGATTATTACAGAACAGTCAAGAACCCTATTTAAAACAAGTGATGTTGACCAGTATT
*
94521 AAATGTCTGATTTTGATGAATATCCTATT
194 AAATGTCTGATTTTGATGAATATACTATT
94550 TCACAAACTC
Statistics
Matches: 220, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
265 40 0.18
266 3 0.01
267 177 0.80
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.27
Consensus pattern (265 bp):
CAGAGTTATACCGGTAATAGCAATGCAGGTGGAAAATTTTGGGGAAAACAATGATTAAGATGAAG
ATAGCTTGTCGTAATTCGATACAAAATTGATCATTCAAATGTACCGAGGAAAGGTGTAACCAAAG
TAGACAAGATTATTACAGAACAGTCAAGAACCCTATTTAAAACAAGTGATGTTGACCAGTATTAA
ATGTCTGATTTTGATGAATATACTATTAAAAACAAGTGATGAAGATAGCTTGTCGTAATTCGAAA
CAAGC
Found at i:95756 original size:37 final size:34
Alignment explanation
Indices: 95657--95765 Score: 145
Period size: 31 Copynumber: 3.2 Consensus size: 34
95647 AATAGGAAAA
95657 TAAATAAATATTATTT-TATATATATTTACATGAC
1 TAAATAAATATTATTTATATATATA-TTACATGAC
*
95691 AAAATAAATATTA--TATATATAT-TTACATGAC
1 TAAATAAATATTATTTATATATATATTACATGAC
95722 TAAATAAATATTATTTATATACATATATATACATGAC
1 TAAATAAATATTATTTATAT--ATATAT-TACATGAC
95759 TAAATAA
1 TAAATAA
95766 TAATAATAGT
Statistics
Matches: 66, Mismatches: 2, Indels: 11
0.84 0.03 0.14
Matches are distributed among these distances:
31 21 0.32
32 1 0.02
33 12 0.18
34 12 0.18
35 4 0.06
36 1 0.02
37 15 0.23
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.41
Consensus pattern (34 bp):
TAAATAAATATTATTTATATATATATTACATGAC
Found at i:95852 original size:26 final size:26
Alignment explanation
Indices: 95817--95905 Score: 76
Period size: 26 Copynumber: 3.3 Consensus size: 26
95807 TATAAAAGTA
*
95817 AAATATAATTAAACAATGTTTAAAAT
1 AAATAAAATTAAACAATGTTTAAAAT
*
95843 AAATAAAATTAAAACTATAGTATTAAAAT
1 AAATAAAATT-AAACAAT-GT-TTAAAAT
*
95872 GAATAAAA-TAATA-AA-GCTTGTAAAAT
1 AAATAAAATTAA-ACAATG-TT-TAAAAT
95898 AAATAAAA
1 AAATAAAA
95906 ATATTAAACT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
25 2 0.04
26 23 0.44
27 9 0.17
28 4 0.08
29 14 0.27
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (26 bp):
AAATAAAATTAAACAATGTTTAAAAT
Found at i:97295 original size:3 final size:3
Alignment explanation
Indices: 97289--97331 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
97279 TATTATTTAG
*
97289 TAA TAA TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
97332 CAAATGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:100877 original size:13 final size:13
Alignment explanation
Indices: 100861--100894 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
100851 AGGAAGCAAA
100861 ACTAACAGTCATC
1 ACTAACAGTCATC
100874 ACTAACAGTCATC
1 ACTAACAGTCATC
100887 ACTGAACA
1 ACT-AACA
100895 TATATAAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (13 bp):
ACTAACAGTCATC
Found at i:103810 original size:21 final size:21
Alignment explanation
Indices: 103784--103839 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
103774 TCTGGGCAAG
103784 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
103805 GTGTATCGATGCACATTCAAT
1 GTGTATCGATGCACATTCAAT
103826 GTGTATCGATGCAC
1 GTGTATCGATGCAC
103840 TCTTTAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (21 bp):
GTGTATCGATGCACATTCAAT
Found at i:103962 original size:24 final size:20
Alignment explanation
Indices: 103935--103992 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
103925 GCATTGGTAG
103935 TGCATTGATGCACATGTTAAAGAA
1 TGCATTGATGCAC-TG-T--AGAA
*
103959 TGCATCGATGCACTGTAGAA
1 TGCATTGATGCACTGTAGAA
*
103979 TGTATTGATGCACT
1 TGCATTGATGCACT
103993 TCAAGGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (20 bp):
TGCATTGATGCACTGTAGAA
Found at i:104774 original size:2 final size:2
Alignment explanation
Indices: 104767--104796 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
104757 AATGTATGCG
104767 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
104797 GTTTTGTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:104843 original size:19 final size:20
Alignment explanation
Indices: 104819--104874 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
104809 GAATTATATA
104819 ATATGATATATGTATGTGTT
1 ATATGATATATGTATGTGTT
*
104839 A-ATGAT-TATTGTATATGTT
1 ATATGATATA-TGTATGTGTT
*
104858 ATAAGATATATGATATG
1 ATATGATATATG-TATG
104875 AACATAATAG
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.07
19 15 0.52
20 7 0.24
21 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
ATATGATATATGTATGTGTT
Found at i:108138 original size:24 final size:20
Alignment explanation
Indices: 108111--108168 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
108101 GCATGGGTAG
108111 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TG-T--AGAA
*
108135 TGCATCGATGAACTGTAGAA
1 TGCATCGATGCACTGTAGAA
*
108155 TGTATCGATGCACT
1 TGCATCGATGCACT
108169 TCAAAGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.52
22 1 0.03
23 2 0.06
24 12 0.39
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:108501 original size:18 final size:18
Alignment explanation
Indices: 108480--108527 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
108470 GTTGTGGTTA
108480 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
*
108498 AAATAAAAAATAATAATT
1 AAATAAAAAATAAGAATT
108516 AAATAAACAAAT
1 AAATAAA-AAAT
108528 TAAAAGATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 24 0.86
19 4 0.14
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:109165 original size:64 final size:67
Alignment explanation
Indices: 109142--109276 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 67
109132 CTAAAATACC
* * *
109142 TAAAAAAT-AATATAATATTTTAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATAC
1 TAAAAAATAAAAATAATATCTTAAAACCTAATTAAAATACTTAAAACCTATTTAAACTAAAATAC
109205 AAAGA
66 --A-A
* * * *
109210 TAAAATATAAAAATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATAC
1 TAAAAAATAAAAATAATATCTTAAAACCTAATTAAAATACTTAAAACCTATTTAAACTAAAATAC
109275 AA
66 AA
109277 AGATAAAATA
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
67 1 0.02
68 8 0.14
69 26 0.45
70 23 0.40
ACGTcount: A:0.59, C:0.11, G:0.01, T:0.30
Consensus pattern (67 bp):
TAAAAAATAAAAATAATATCTTAAAACCTAATTAAAATACTTAAAACCTATTTAAACTAAAATAC
AA
Found at i:109275 original size:70 final size:69
Alignment explanation
Indices: 109098--109289 Score: 243
Period size: 70 Copynumber: 2.8 Consensus size: 69
109088 TAAAACATCT
* * * * *
109098 TAAACCCTAATTAAAACACTTAAAA-CTATTTAAACTAAAATAC----CTAAAAAAT-AATATAA
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAAATAA
**
109157 TATTT
65 TATCC
*
109162 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAAATAAT
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAAATAAT
109227 ATCC
66 ATCC
*
109231 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAATATAA
109290 TGTTTAAAAT
Statistics
Matches: 112, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
63 5 0.04
64 35 0.31
68 7 0.06
69 27 0.24
70 38 0.34
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (69 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAAAAATAAT
ATCC
Found at i:110941 original size:16 final size:16
Alignment explanation
Indices: 110920--110950 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
110910 ACCAAATCTG
110920 TTTTTTTT-TGCACTA
1 TTTTTTTTCTGCACTA
110935 TTTTTTTTCTGCACTA
1 TTTTTTTTCTGCACTA
110951 CATTGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.13, C:0.16, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTTTTTCTGCACTA
Found at i:116559 original size:17 final size:17
Alignment explanation
Indices: 116532--116573 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
116522 GTTGTGATTA
116532 AAATAAAAAATAAGAATT
1 AAAT-AAAAATAAGAATT
*
116550 AAATAAAAATAATAATT
1 AAATAAAAATAAGAATT
116567 AAATAAA
1 AAATAAA
116574 CAAATTAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAATAAAAATAAGAATT
Found at i:117276 original size:20 final size:19
Alignment explanation
Indices: 117230--117284 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 19
117220 ATATAATATT
* *
117230 CTAAATCCTAATTAAAATA
1 CTAAAACCTATTTAAAATA
117249 CTAAAACCTATTTAAAATA
1 CTAAAACCTATTTAAAATA
117268 CTAAAAACCTATTTAAA
1 CT-AAAACCTATTTAAA
117285 CTAAAATACA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (19 bp):
CTAAAACCTATTTAAAATA
Found at i:118297 original size:2 final size:2
Alignment explanation
Indices: 118290--118315 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
118280 AATGTATGTG
118290 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
118316 GTTTTGTGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118374 original size:32 final size:34
Alignment explanation
Indices: 118286--118379 Score: 83
Period size: 32 Copynumber: 2.9 Consensus size: 34
118276 ATACAATGTA
* *
118286 TGTGATAT-ATATATATATATATAT-ATATATGTTT
1 TGTGATATGA-AT-TATATGTATATGATATATGTTG
118320 TGTGATATGAATTATATG-ATATGATATATG-TG
1 TGTGATATGAATTATATGTATATGATATATGTTG
* *
118352 TGTGTTAATG-ATTAT-TGTATATGTTATA
1 TGTGAT-ATGAATTATATGTATATGATATA
118380 AGATATATAA
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
31 2 0.04
32 24 0.46
33 15 0.29
34 10 0.19
35 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (34 bp):
TGTGATATGAATTATATGTATATGATATATGTTG
Found at i:119059 original size:21 final size:21
Alignment explanation
Indices: 119034--119074 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
119024 ATATAAATTG
*
119034 TGTATCGATGCATTGCTACAA
1 TGTATCGATGCACTGCTACAA
119055 TGTATCGATGCACTGCTACA
1 TGTATCGATGCACTGCTACA
119075 GTAACTTCAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.32
Consensus pattern (21 bp):
TGTATCGATGCACTGCTACAA
Found at i:121300 original size:27 final size:27
Alignment explanation
Indices: 121257--121308 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
121247 AGAATTTAAA
* *
121257 TTTTTTTAAATATAATAATATTTTTAT
1 TTTTTTTAAATAAAATAAAATTTTTAT
121284 TTTTTTTAAGA-AAAATAAAATTTTT
1 TTTTTTTAA-ATAAAATAAAATTTTT
121309 CAAAATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTTTAAATAAAATAAAATTTTTAT
Found at i:125129 original size:31 final size:31
Alignment explanation
Indices: 125083--125142 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
125073 TGTAACGGCC
* *
125083 GGTTACGTCGGGGACCTTATT-CTAAATGGTT
1 GGTTACGTCAGGGACCATATTGC-AAATGGTT
*
125114 GGTTACGTCATGGACCATATTGCAAATGG
1 GGTTACGTCAGGGACCATATTGCAAATGG
125143 ACTAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (31 bp):
GGTTACGTCAGGGACCATATTGCAAATGGTT
Found at i:125817 original size:23 final size:23
Alignment explanation
Indices: 125778--125821 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
125768 ATTATTTAAA
125778 TTATTGGTAATATTTTTAATTTT
1 TTATTGGTAATATTTTTAATTTT
*
125801 TTATTAGGTTATA-TTTTAATT
1 TTATT-GGTAATATTTTTAATT
125822 CATATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.27, C:0.00, G:0.09, T:0.64
Consensus pattern (23 bp):
TTATTGGTAATATTTTTAATTTT
Found at i:129183 original size:3 final size:3
Alignment explanation
Indices: 129175--129214 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
129165 CTCCTCACTC
*
129175 TCA TCA TCA TCA TCA TCA CCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
129215 AAGGAGAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:136127 original size:58 final size:59
Alignment explanation
Indices: 136037--136159 Score: 230
Period size: 58 Copynumber: 2.1 Consensus size: 59
136027 ACAGCCATAA
136037 AAAAGTTATAGTTATTTGCTGTAGGACATTAAGGGAATAATTGTCTAATTTCTCACGG-
1 AAAAGTTATAGTTATTTGCTGTAGGACATTAAGGGAATAATTGTCTAATTTCTCACGGC
*
136095 AAAAGTTATAGTTATTTGCTGTAGGACATTAAGGGAATAATTGTCTAATTTCTCATGGC
1 AAAAGTTATAGTTATTTGCTGTAGGACATTAAGGGAATAATTGTCTAATTTCTCACGGC
136154 AAAAGT
1 AAAAGT
136160 AGCAGAACAA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
58 57 0.90
59 6 0.10
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.36
Consensus pattern (59 bp):
AAAAGTTATAGTTATTTGCTGTAGGACATTAAGGGAATAATTGTCTAATTTCTCACGGC
Found at i:138151 original size:23 final size:23
Alignment explanation
Indices: 138102--138170 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
138092 GTGTTATATT
* * * *
138102 ATATTTTAAAAATATTAAATAAT
1 ATATTTTAAATATATTTATTAAA
138125 ATATTTTAAATATATTTATTAAA
1 ATATTTTAAATATATTTATTAAA
*
138148 ATATTATTAGAT-TATTATATTAA
1 ATATT-TTAAATATATT-TATTAA
138171 TATTAAATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
23 28 0.72
24 11 0.28
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
ATATTTTAAATATATTTATTAAA
Found at i:138208 original size:19 final size:19
Alignment explanation
Indices: 138140--138220 Score: 64
Period size: 19 Copynumber: 4.3 Consensus size: 19
138130 TTAAATATAT
138140 TTATTAA-AATATTATTAGA
1 TTATTAATAATATTATTA-A
138159 TTATTATATTAATATTA--AA
1 TTATTA-A-TAATATTATTAA
* *
138178 TATATAAATAATATTATTCA
1 T-TATTAATAATATTATTAA
*
138198 TTATTAATAAT-TTAATAA
1 TTATTAATAATATTATTAA
138216 -TATTA
1 TTATTA
138221 TTTATATGAA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
17 5 0.10
18 13 0.25
19 18 0.35
20 8 0.16
22 7 0.14
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (19 bp):
TTATTAATAATATTATTAA
Found at i:138241 original size:54 final size:55
Alignment explanation
Indices: 138160--138276 Score: 143
Period size: 54 Copynumber: 2.1 Consensus size: 55
138150 ATTATTAGAT
* *
138160 TATTATATTAATATTAAATATATAAATAATAT-TATTCATTATTAATAATTTAATA-A
1 TATTAT-TTAATATGAAATATATAAATAATATAAATT--TTATTAATAATTTAATATA
*
138216 TATTATTT-ATATGAAAT-TAGTAAATAATATAAATTTTATTAATAATTTATTATA
1 TATTATTTAATATGAAATATA-TAAATAATATAAATTTTATTAATAATTTAATATA
138270 TATTATT
1 TATTATT
138277 AAAATAAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
53 18 0.33
54 26 0.47
55 5 0.09
56 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (55 bp):
TATTATTTAATATGAAATATATAAATAATATAAATTTTATTAATAATTTAATATA
Found at i:140821 original size:5 final size:5
Alignment explanation
Indices: 140811--140836 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
140801 ACCCAAAGCT
140811 AAGAA AAGAA AAGAA AAGAA AAGAA A
1 AAGAA AAGAA AAGAA AAGAA AAGAA A
140837 GCTTATTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:143430 original size:21 final size:21
Alignment explanation
Indices: 143404--143447 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
143394 TACCCGAACT
*
143404 TCTCGGCTTTAAA-ACATCCTC
1 TCTCGGCTATAAATA-ATCCTC
143425 TCTCGGCTATAAATAATCCTC
1 TCTCGGCTATAAATAATCCTC
143446 TC
1 TC
143448 CCCGTAAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 20 0.95
22 1 0.05
ACGTcount: A:0.25, C:0.32, G:0.09, T:0.34
Consensus pattern (21 bp):
TCTCGGCTATAAATAATCCTC
Found at i:145443 original size:35 final size:34
Alignment explanation
Indices: 145358--145444 Score: 90
Period size: 35 Copynumber: 2.5 Consensus size: 34
145348 AATATAATTT
*
145358 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
*
145392 TAAATGATAA-ACAAATTACAATAATTGATATTAAATGG
1 TAAAT-ACAACA-AAATTACAATAA--G-TATTAAATGG
145430 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
145445 ACCAAAATAC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
34 6 0.13
35 22 0.49
36 2 0.04
37 4 0.09
38 11 0.24
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.29
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:145494 original size:35 final size:34
Alignment explanation
Indices: 145435--145512 Score: 86
Period size: 35 Copynumber: 2.2 Consensus size: 34
145425 AATGGTAATA
* * * *
145435 AACAAAATTAACCAAAATACATTAACAA-AAAGTCC
1 AACAAATTTAACAAAAAAAAATTAA-AATAAA-TCC
145470 AACAAATTTAACAAAAAAAAATTAAAATAAATCC
1 AACAAATTTAACAAAAAAAAATTAAAATAAATCC
145504 AATCAAATT
1 AA-CAAATT
145513 AATGAAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 7 0.19
35 30 0.81
ACGTcount: A:0.63, C:0.15, G:0.01, T:0.21
Consensus pattern (34 bp):
AACAAATTTAACAAAAAAAAATTAAAATAAATCC
Found at i:147823 original size:17 final size:19
Alignment explanation
Indices: 147803--147844 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
147793 ATTAATTAAA
147803 TAAAATA-TTAAA-AAATT
1 TAAAATACTTAAATAAATT
147820 T-AAATACTTAAATAAATT
1 TAAAATACTTAAATAAATT
*
147838 AAAAATA
1 TAAAATA
147845 AAATATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 5 0.24
19 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
TAAAATACTTAAATAAATT
Found at i:147832 original size:24 final size:23
Alignment explanation
Indices: 147805--147865 Score: 56
Period size: 24 Copynumber: 2.6 Consensus size: 23
147795 TAATTAAATA
*
147805 AAATATTAAAAAATTTAAATACTT
1 AAATATTAAAAAATTAAAATA-TT
147829 AAATAAATT-AAAAA-TAAAATATT
1 AAAT--ATTAAAAAATTAAAATATT
147852 AAATA-TAATAAAAT
1 AAATATTAA-AAAAT
147866 ATACCTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
20 1 0.03
21 2 0.06
22 4 0.13
23 6 0.19
24 10 0.32
25 5 0.16
26 3 0.10
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATATTAAAAAATTAAAATATT
Found at i:160881 original size:48 final size:48
Alignment explanation
Indices: 160801--160898 Score: 133
Period size: 48 Copynumber: 2.0 Consensus size: 48
160791 CAATATTAGA
* * * *
160801 GTCACTACGAGCAGGACTATGGGGTTGACTGTGGGGCTGAGTAGTTGG
1 GTCACTACGAGCAGGACTATAGGGCTGACTGTGGGGATGAGCAGTTGG
* * *
160849 GTCACTATGAGCAGGACTATAGGGCTGGCTGTGTGGATGAGCAGTTGG
1 GTCACTACGAGCAGGACTATAGGGCTGACTGTGGGGATGAGCAGTTGG
160897 GT
1 GT
160899 TAATACTGGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.19, C:0.14, G:0.41, T:0.26
Consensus pattern (48 bp):
GTCACTACGAGCAGGACTATAGGGCTGACTGTGGGGATGAGCAGTTGG
Found at i:174502 original size:39 final size:39
Alignment explanation
Indices: 174458--174535 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
174448 TCCGACATTC
174458 ACTTGTGTTTTGAATACATTCGTAGGTTCCGAATGTAGT
1 ACTTGTGTTTTGAATACATTCGTAGGTTCCGAATGTAGT
174497 ACTTGTGTTTTGAATACATTCGTAGGTTCCGAATGTAGT
1 ACTTGTGTTTTGAATACATTCGTAGGTTCCGAATGTAGT
174536 GGGATGTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.41
Consensus pattern (39 bp):
ACTTGTGTTTTGAATACATTCGTAGGTTCCGAATGTAGT
Found at i:180643 original size:2 final size:2
Alignment explanation
Indices: 180636--180662 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
180626 AGGTTATTGT
180636 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
180663 TACAATATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:184641 original size:90 final size:89
Alignment explanation
Indices: 184520--184696 Score: 282
Period size: 90 Copynumber: 2.0 Consensus size: 89
184510 TAATCCCGAA
* * * * * *
184520 TATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCTTGATATGAT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAACAATAAAAACCCT-ATATGAC
184585 TAGGGTAACTTGGATATAAAAGGAT
65 TAGGGTAACTTGGATATAAAAGGAT
184610 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAACAATAAAAACCCTATATGACT
1 TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAACAATAAAAACCCTATATGACT
*
184675 AGGGTAACTTGGCTATAAAAGG
66 AGGGTAACTTGGATATAAAAGG
184697 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 28 0.35
90 52 0.65
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (89 bp):
TATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAACAATAAAAACCCTATATGACT
AGGGTAACTTGGATATAAAAGGAT
Found at i:186527 original size:23 final size:23
Alignment explanation
Indices: 186501--186549 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
186491 TTCTTCGGCT
*
186501 TCCTCGTTTTCAATTCGCCGCCA
1 TCCTCGTCTTCAATTCGCCGCCA
186524 TCCTCGTCTTCAATTCGCCGCCA
1 TCCTCGTCTTCAATTCGCCGCCA
186547 TCC
1 TCC
186550 ATTGTGGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.12, C:0.43, G:0.12, T:0.33
Consensus pattern (23 bp):
TCCTCGTCTTCAATTCGCCGCCA
Found at i:188906 original size:2 final size:2
Alignment explanation
Indices: 188901--188931 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
188891 ACATATCCTA
188901 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
188932 AATAACCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:192419 original size:24 final size:24
Alignment explanation
Indices: 192356--192425 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
192346 TTAAACGGAG
* *
192356 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATCC
* * *
192380 AGAAT-AGATATTAGAACAGAATCC
1 A-TATCAGAAATCAGAACAGAATCC
192404 ATATCAGAAATCAGAACAGAAT
1 ATATCAGAAATCAGAACAGAAT
192426 TCAGGTCATG
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
23 2 0.06
24 32 0.89
25 2 0.06
ACGTcount: A:0.53, C:0.14, G:0.13, T:0.20
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATCC
Found at i:192423 original size:12 final size:12
Alignment explanation
Indices: 192360--192429 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
192350 ACGGAGATAT
*
192360 CAGAAATCAAAA
1 CAGAAATCAGAA
*
192372 CAGAATTCAGAA
1 CAGAAATCAGAA
* * *
192384 TAGATATTAGAA
1 CAGAAATCAGAA
* *
192396 CAG-AATCCATAT
1 CAGAAAT-CAGAA
192408 CAGAAATCAGAA
1 CAGAAATCAGAA
*
192420 CAGAATTCAG
1 CAGAAATCAG
192430 GTCATGTATC
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
11 2 0.05
12 37 0.88
13 3 0.07
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (12 bp):
CAGAAATCAGAA
Found at i:192464 original size:24 final size:24
Alignment explanation
Indices: 192392--192466 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
192382 AATAGATATT
* *
192392 AGAACAGAATCCATA-TCAGAAATC
1 AGAACAGAATTCA-AGTCATAAATC
* **
192416 AGAACAGAATTCAGGTCATGTATC
1 AGAACAGAATTCAAGTCATAAATC
192440 AGAACAGAATTCAAGTCGA-AAATC
1 AGAACAGAATTCAAGTC-ATAAATC
192464 AGA
1 AGA
192467 TAAAATAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
24 40 0.98
25 1 0.02
ACGTcount: A:0.47, C:0.17, G:0.17, T:0.19
Consensus pattern (24 bp):
AGAACAGAATTCAAGTCATAAATC
Found at i:195075 original size:45 final size:45
Alignment explanation
Indices: 195026--195118 Score: 177
Period size: 45 Copynumber: 2.1 Consensus size: 45
195016 ACTCAATAAA
*
195026 ATGTGAGGACTATTATGTTCACTATATACTTGTTTGTTTGCTTAT
1 ATGTGAGGACTATTATGTTCACTATATACTTGTTTGTTTGCTGAT
195071 ATGTGAGGACTATTATGTTCACTATATACTTGTTTGTTTGCTGAT
1 ATGTGAGGACTATTATGTTCACTATATACTTGTTTGTTTGCTGAT
195116 ATG
1 ATG
195119 CGAAGAATCA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.23, C:0.11, G:0.19, T:0.47
Consensus pattern (45 bp):
ATGTGAGGACTATTATGTTCACTATATACTTGTTTGTTTGCTGAT
Found at i:195943 original size:32 final size:33
Alignment explanation
Indices: 195907--195994 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 33
195897 AAGGGAGTTT
*
195907 CTTAGGG-CTATAGAGCCTACCTAAAAGAATAC
1 CTTAGGGCCTATAGAGCCTACCCAAAAGAATAC
** *
195939 CTTAGGGCCTA-AGAGCCTACCCAATGGAGTAC
1 CTTAGGGCCTATAGAGCCTACCCAAAAGAATAC
*
195971 CTTGGGGCCT-TAGAGCCTACCCAA
1 CTTAGGGCCTATAGAGCCTACCCAA
195995 GGAAATGAAG
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
32 46 0.94
33 3 0.06
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (33 bp):
CTTAGGGCCTATAGAGCCTACCCAAAAGAATAC
Found at i:197061 original size:28 final size:26
Alignment explanation
Indices: 197027--197085 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
197017 AATACAATGA
* *
197027 TATTTTGATTATTTTAGGGTTTTAGGG
1 TATTTTGATCATTTTA-GCTTTTAGGG
*
197054 TTATTTTGGTCATTTTAGCTTTTAGGG
1 -TATTTTGATCATTTTAGCTTTTAGGG
197081 TATTT
1 TATTT
197086 CAGTTATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 5 0.18
27 9 0.32
28 14 0.50
ACGTcount: A:0.17, C:0.03, G:0.22, T:0.58
Consensus pattern (26 bp):
TATTTTGATCATTTTAGCTTTTAGGG
Found at i:204017 original size:29 final size:29
Alignment explanation
Indices: 203984--204042 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
203974 GTCATGAAAC
*
203984 ATTTC-AGAATTCGAGTTTTACTAACTTTA
1 ATTTCTAGAATTCGAG-CTTACTAACTTTA
* *
204013 ATTTCTTGAATTCGAGCTTACTACCTTTA
1 ATTTCTAGAATTCGAGCTTACTAACTTTA
204042 A
1 A
204043 ACCTTAGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.44
Consensus pattern (29 bp):
ATTTCTAGAATTCGAGCTTACTAACTTTA
Found at i:208097 original size:29 final size:29
Alignment explanation
Indices: 208055--208135 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
208045 GCAAAAACTC
*
208055 AACTGAGAAGAAGTTTCCATGTTTTCTTG
1 AACTGATAAGAAGTTTCCATGTTTTCTTG
208084 AACTGATAAGAAGTTTCCATGTTTTCTTG
1 AACTGATAAGAAGTTTCCATGTTTTCTTG
*
208113 AACTGATAAGAAGTTTCCCTGTT
1 AACTGATAAGAAGTTTCCATGTT
208136 CTTTTTTTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (29 bp):
AACTGATAAGAAGTTTCCATGTTTTCTTG
Found at i:209589 original size:18 final size:18
Alignment explanation
Indices: 209563--209617 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 18
209553 ACGTAGAATT
* * *
209563 TGTCTCGAATGACTACTA
1 TGTCCCGAAGGACCACTA
209581 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
*
209599 TGTCCTGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
209617 T
1 T
209618 ATCCTGAAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:209622 original size:18 final size:18
Alignment explanation
Indices: 209577--209626 Score: 82
Period size: 18 Copynumber: 2.8 Consensus size: 18
209567 TCGAATGACT
*
209577 ACTATGTCCCGAAGGACC
1 ACTATGTCCTGAAGGACC
209595 ACTATGTCCTGAAGGACC
1 ACTATGTCCTGAAGGACC
*
209613 ACTATATCCTGAAG
1 ACTATGTCCTGAAG
209627 AATTTAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (18 bp):
ACTATGTCCTGAAGGACC
Found at i:209707 original size:21 final size:21
Alignment explanation
Indices: 209681--209720 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
209671 CCGAAGTACC
*
209681 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
209702 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
209721 CCACGTAGAA
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:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:210125 original size:16 final size:16
Alignment explanation
Indices: 210087--210130 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 16
210077 CAATTCTTGA
*
210087 CATTCATATAGACATG
1 CATTCACATAGACATG
* * *
210103 TAATCACATATACATG
1 CATTCACATAGACATG
210119 CATTCACATAGA
1 CATTCACATAGA
210131 TCACATATGG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (16 bp):
CATTCACATAGACATG
Found at i:210519 original size:20 final size:20
Alignment explanation
Indices: 210494--210532 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
210484 TGTTTTGAAG
210494 TATCGGTACCACCCTAACAA
1 TATCGGTACCACCCTAACAA
210514 TATCGGTACCACCCTAACA
1 TATCGGTACCACCCTAACA
210533 GTACCGATAC
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:0.33, C:0.36, G:0.10, T:0.21
Consensus pattern (20 bp):
TATCGGTACCACCCTAACAA
Found at i:210547 original size:20 final size:20
Alignment explanation
Indices: 210500--210548 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
210490 GAAGTATCGG
* *
210500 TACCACCCTAACAATATCGG
1 TACCACCCTAACAATACCGA
*
210520 TACCACCCTAACAGTACCGA
1 TACCACCCTAACAATACCGA
*
210540 TACTACCCT
1 TACCACCCT
210549 TCAAGGGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.39, G:0.08, T:0.20
Consensus pattern (20 bp):
TACCACCCTAACAATACCGA
Found at i:210645 original size:20 final size:20
Alignment explanation
Indices: 210608--210659 Score: 52
Period size: 20 Copynumber: 2.6 Consensus size: 20
210598 ATGTTTCAAG
* *
210608 GGTATCGATACCATCCTTAA
1 GGTACCGATACCACCCTTAA
*
210628 GGTACCGATACTACCCTTACA
1 GGTACCGATACCACCCTTA-A
*
210649 -GTATCGATACC
1 GGTACCGATACC
210660 TCTTCAACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (20 bp):
GGTACCGATACCACCCTTAA
Found at i:213736 original size:18 final size:18
Alignment explanation
Indices: 213713--213765 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
213703 ACGTAGAATT
*
213713 TGTCCCGAAGGACCACTA
1 TGTCCCGAATGACCACTA
*
213731 TGTCCCGAATGACCACAA
1 TGTCCCGAATGACCACTA
*
213749 TATCCCGAATGACCACT
1 TGTCCCGAATGACCACT
213766 CCTTAAGAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (18 bp):
TGTCCCGAATGACCACTA
Found at i:213845 original size:21 final size:21
Alignment explanation
Indices: 213819--213858 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
213809 CTGAAGTACC
*
213819 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
213840 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
213859 CCACGTAGAA
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:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:214759 original size:21 final size:21
Alignment explanation
Indices: 214703--214759 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
214693 TTAAGGTACT
214703 GATACTACCCTTAC-AGTATC
1 GATACTACCCTTACAAGTATC
214723 -A-A-TACCTCTTCAACAAGTATC
1 GATACTACC-CTT--ACAAGTATC
214744 GATACTACCCTTACAA
1 GATACTACCCTTACAA
214760 AATACTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
17 4 0.13
18 4 0.13
19 1 0.03
20 2 0.07
21 10 0.33
22 1 0.03
23 4 0.13
24 4 0.13
ACGTcount: A:0.35, C:0.30, G:0.07, T:0.28
Consensus pattern (21 bp):
GATACTACCCTTACAAGTATC
Found at i:220521 original size:43 final size:43
Alignment explanation
Indices: 220474--220726 Score: 274
Period size: 43 Copynumber: 5.9 Consensus size: 43
220464 TTTTTTCACA
* *
220474 AAAAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAG
* *
220517 AAAAACGCCGCAATAGGTGTTGATATTTAGCAGCGTTTTTCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAG
* * * * *
220560 ACAAACGTCGCAATAAGTGTTGATATTTAGTGGCGTTTGGCAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAG
* * * * *
220603 ACAAACACCGCAATAGGTGTTGATATTAAGCGACGTTTGTCAT
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAG
* * * * *
220646 AAAAATGCCGCAATAGGTGTTAATATTTAGCAGCGTTTTTTAG
1 AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAG
* * ** *
220689 ACAAACGCCGTAATAAAT-TATGATGTTTAGCGGCGTTT
1 AAAAACGCCGCAATAGGTGT-TGATATTTAGCGGCGTTT
220727 TTGCTAAAAC
Statistics
Matches: 172, Mismatches: 37, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
42 1 0.01
43 171 0.99
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (43 bp):
AAAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCAG
Found at i:220718 original size:129 final size:129
Alignment explanation
Indices: 220476--220726 Score: 378
Period size: 129 Copynumber: 1.9 Consensus size: 129
220466 TTTTCACAAA
* * * *
220476 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTGTCATAAAAACGCCGCAATAGGTGTTGAT
1 AAACACCGCAATAGGTATTGATATTAAGCGACGTTTGTCATAAAAACGCCGCAATAGGTGTTAAT
* * *
220541 ATTTAGCAGCGTTTTTCAGACAAACGTCGCAATAAGTGTTGATATTTAGTGGCGTTTGGCAGAC
66 ATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAAATGTTGATATTTAGCGGCGTTTGGCAGAC
* *
220605 AAACACCGCAATAGGTGTTGATATTAAGCGACGTTTGTCATAAAAATGCCGCAATAGGTGTTAAT
1 AAACACCGCAATAGGTATTGATATTAAGCGACGTTTGTCATAAAAACGCCGCAATAGGTGTTAAT
* * *
220670 ATTTAGCAGCGTTTTTTAGACAAACGCCGTAATAAAT-TATGATGTTTAGCGGCGTTT
66 ATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAAATGT-TGATATTTAGCGGCGTTT
220727 TTGCTAAAAC
Statistics
Matches: 109, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
128 1 0.01
129 108 0.99
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (129 bp):
AAACACCGCAATAGGTATTGATATTAAGCGACGTTTGTCATAAAAACGCCGCAATAGGTGTTAAT
ATTTAGCAGCGTTTTTCAGACAAACGCCGCAATAAATGTTGATATTTAGCGGCGTTTGGCAGAC
Found at i:221167 original size:21 final size:21
Alignment explanation
Indices: 221140--221197 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
221130 GCTGATATGT
221140 TGCTTCTCTCTGTGCTGCCGC
1 TGCTTCTCTCTGTGCTGCCGC
* *
221161 TGTTTCTCTCTGTGCTGTCGC
1 TGCTTCTCTCTGTGCTGCCGC
* *
221182 TGCTTCTTTCTCTGCT
1 TGCTTCTCTCTGTGCT
221198 TTCACTGCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.00, C:0.33, G:0.21, T:0.47
Consensus pattern (21 bp):
TGCTTCTCTCTGTGCTGCCGC
Found at i:221235 original size:18 final size:18
Alignment explanation
Indices: 221202--221238 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
221192 TCTGCTTTCA
*
221202 CTGCTGCTCTGGCTGCTT
1 CTGCTGCTCTCGCTGCTT
*
221220 CTGCTGCTCTCTCTGCTT
1 CTGCTGCTCTCGCTGCTT
221238 C
1 C
221239 CCTTGCTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.38, G:0.22, T:0.41
Consensus pattern (18 bp):
CTGCTGCTCTCGCTGCTT
Found at i:224293 original size:17 final size:17
Alignment explanation
Indices: 224271--224303 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
224261 GAAAATAATA
224271 GAAAAAA-AGTGAAAAAC
1 GAAAAAATAGT-AAAAAC
224288 GAAAAAATAGTAAAAA
1 GAAAAAATAGTAAAAA
224304 AACATAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAAAAATAGTAAAAAC
Found at i:224303 original size:18 final size:17
Alignment explanation
Indices: 224271--224304 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
224261 GAAAATAATA
*
224271 GAAAAAAAGTGAAAAAC
1 GAAAAAAAGTAAAAAAC
224288 GAAAAAATAGTAAAAAA
1 GAAAAAA-AGTAAAAAA
224305 ACATAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.74, C:0.03, G:0.15, T:0.09
Consensus pattern (17 bp):
GAAAAAAAGTAAAAAAC
Found at i:225142 original size:20 final size:20
Alignment explanation
Indices: 225117--225155 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
225107 TTTTCAAGAA
*
225117 TTATCTTTATGAATTATCTC
1 TTATCTTTAGGAATTATCTC
225137 TTATCTTTAGGAATTATCT
1 TTATCTTTAGGAATTATCT
225156 TTTCATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (20 bp):
TTATCTTTAGGAATTATCTC
Found at i:229708 original size:9 final size:9
Alignment explanation
Indices: 229694--229718 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
229684 CTCAATTTAA
229694 TGGAGTACG
1 TGGAGTACG
229703 TGGAGTACG
1 TGGAGTACG
229712 TGGAGTA
1 TGGAGTA
229719 GGTGATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.08, G:0.44, T:0.24
Consensus pattern (9 bp):
TGGAGTACG
Found at i:232372 original size:20 final size:20
Alignment explanation
Indices: 232347--232397 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
232337 TATTATTTCA
232347 AATTAATTAAATCTATATTT
1 AATTAATTAAATCTATATTT
232367 AATTAATTAAATCTATATTT
1 AATTAATTAAATCTATATTT
232387 AATTAATTAAA
1 AATTAATTAAA
232398 ATTTAATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTAATTAAATCTATATTT
Found at i:232525 original size:20 final size:21
Alignment explanation
Indices: 232457--232526 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 21
232447 TATTATTTCA
*
232457 AATTAATTAAATC-TATATTT
1 AATTAATTAAAACATATATTT
* * *
232477 AATTAATTAAAATTAAATATTCG
1 AATTAATTAAAA-CATATATT-T
232500 AGATT-ATTAAAACATATATTT
1 A-ATTAATTAAAACATATATTT
232521 AATTAA
1 AATTAA
232527 CTCTAGATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
20 14 0.37
21 2 0.05
22 11 0.29
23 8 0.21
24 3 0.08
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (21 bp):
AATTAATTAAAACATATATTT
Found at i:237737 original size:34 final size:35
Alignment explanation
Indices: 237677--237743 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
237667 TTCTTGAGAG
* *
237677 TTGTTTTCTCCTTTTTATTAACAGAGAA-TTGTCA
1 TTGTTTTCTCCTTGTTATGAACAGAGAAGTTGTCA
*
237711 TTGTTTTCTCCTTGTTA-GATCGAGAGAAGTTGT
1 TTGTTTTCTCCTTGTTATGAAC-AGAGAAGTTGT
237744 AGTTCCTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 2 0.07
34 22 0.79
35 4 0.14
ACGTcount: A:0.21, C:0.13, G:0.18, T:0.48
Consensus pattern (35 bp):
TTGTTTTCTCCTTGTTATGAACAGAGAAGTTGTCA
Found at i:241369 original size:23 final size:23
Alignment explanation
Indices: 241343--241411 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
241333 CACCACAACT
*
241343 CGTATAAATGCACCGGAGTGCCA
1 CGTAGAAATGCACCGGAGTGCCA
* *
241366 CGTAGAATTGCACC-GATGTGCCG
1 CGTAGAAATGCACCGGA-GTGCCA
*
241389 CGTAGAAATGCACCGTAGTGCCA
1 CGTAGAAATGCACCGGAGTGCCA
241412 TATAAGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
22 2 0.05
23 35 0.92
24 1 0.03
ACGTcount: A:0.28, C:0.26, G:0.28, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGGAGTGCCA
Found at i:242174 original size:2 final size:2
Alignment explanation
Indices: 242167--242194 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
242157 ACTTATAAAC
242167 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
242195 TACTTAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:242980 original size:24 final size:20
Alignment explanation
Indices: 242923--243000 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
242913 TTCCCTTTGA
*
242923 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
242943 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
242966 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
242987 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
243001 TAACTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:246494 original size:23 final size:23
Alignment explanation
Indices: 246468--246528 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
246458 CTCGTATAAA
*
246468 TGCACCGGAGTGCCACGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
246491 TGCACCGAAGTGCCGCGTAGAAT
1 TGCACCGAAGTGCCACGTAGAAT
*
246514 TGCACCGTAGTGCCA
1 TGCACCGAAGTGCCA
246529 TATAAGATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.18
Consensus pattern (23 bp):
TGCACCGAAGTGCCACGTAGAAT
Found at i:251555 original size:23 final size:23
Alignment explanation
Indices: 251529--251595 Score: 80
Period size: 23 Copynumber: 2.9 Consensus size: 23
251519 CACCACAGCT
* *
251529 CGTATAAATGCACCGGAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
251552 CGTAGAATTGCACCGAAGTGTCG
1 CGTAGAAATGCACCGAAGTGCCA
*
251575 CGTAGAAATGCACCGTAGTGC
1 CGTAGAAATGCACCGAAGTGC
251596 ATATAAGATG
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:252360 original size:2 final size:2
Alignment explanation
Indices: 252353--252394 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
252343 ACTTATAAAC
252353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
252395 TACTTAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:253180 original size:24 final size:21
Alignment explanation
Indices: 253122--253200 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 21
253112 TTTCCTTTTG
*
253122 ATGTGCATCGATGCATTCTAC
1 ATGTGCATCGATGCATCCTAC
*
253143 A-GTGTATCGATGCATCCCTTAAC
1 ATGTGCATCGATGCAT-CC-T-AC
253166 ATGTGCATCGATGCACTCCT--
1 ATGTGCATCGATGCA-TCCTAC
*
253186 -TATGCATCGATGCAT
1 ATGTGCATCGATGCAT
253201 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
18 1 0.02
19 13 0.27
20 13 0.27
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (21 bp):
ATGTGCATCGATGCATCCTAC
Found at i:255879 original size:20 final size:20
Alignment explanation
Indices: 255818--255879 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
255808 GTCCTCGAAA
*
255818 AAAGTCAACGGTTAACAGTC
1 AAAGTCAACGGTTAATAGTC
** *
255838 AAAGTCAACAATTAATAATC
1 AAAGTCAACGGTTAATAGTC
* *
255858 AAAGTCAACGGTCAATGGTC
1 AAAGTCAACGGTTAATAGTC
255878 AA
1 AA
255880 CAGGTCGGGT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (20 bp):
AAAGTCAACGGTTAATAGTC
Found at i:255890 original size:20 final size:20
Alignment explanation
Indices: 255867--255919 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
255857 CAAAGTCAAC
*
255867 GGTCAATGGTCAACAGGTCG
1 GGTCAACGGTCAACAGGTCG
*
255887 GGTCAACGTTCAACAGGTC-
1 GGTCAACGGTCAACAGGTCG
*
255906 AGTCAACGAGTCAA
1 GGTCAACG-GTCAA
255920 AATGATTCAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (20 bp):
GGTCAACGGTCAACAGGTCG
Found at i:266830 original size:17 final size:16
Alignment explanation
Indices: 266808--266841 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
266798 TAAAAACAGT
266808 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
266825 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
266841 A
1 A
266842 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:267360 original size:24 final size:24
Alignment explanation
Indices: 267316--267365 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
267306 ATAAAGAACC
*
267316 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
267340 AAAATAAAGTTTAAACA-ACCATTA
1 AAAATAAA-CTTAAACATACCATTA
267364 AA
1 AA
267366 TCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Done.