Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005853.1 Hibiscus syriacus cultivar Beakdansim tig00013738_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: 876857
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 5
Found at i:715368 original size:10 final size:10
Alignment explanation
Indices: 715355--715385 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
715345 AAAAACAAAA
715355 TTTCCGATTT
1 TTTCCGATTT
*
715365 TTTCCTATTT
1 TTTCCGATTT
715375 TTTCCGATTT
1 TTTCCGATTT
715385 T
1 T
715386 CAGCCGGTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.10, C:0.19, G:0.06, T:0.65
Consensus pattern (10 bp):
TTTCCGATTT
Found at i:717681 original size:3 final size:3
Alignment explanation
Indices: 717675--717714 Score: 62
Period size: 3 Copynumber: 13.0 Consensus size: 3
717665 TAATATTTTT
*
717675 TAA TAA TAA TAA TAA TAA TAAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA
717715 AATCAAATGG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 31 0.91
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:717698 original size:19 final size:19
Alignment explanation
Indices: 717676--717715 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
717666 AATATTTTTT
717676 AATAATAATAATAATAATA
1 AATAATAATAATAATAATA
*
717695 AATAATATTAATAATAATA
1 AATAATAATAATAATAATA
717714 AA
1 AA
717716 ATCAAATGGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATAATAATAATAATAATA
Found at i:718348 original size:112 final size:112
Alignment explanation
Indices: 718162--718497 Score: 505
Period size: 112 Copynumber: 3.0 Consensus size: 112
718152 TGATAGAGTT
718162 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCT
1 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCT
*
718227 CATTATGAACTTTCTCTGGAAAAGTTGATCCATTGAGTGATGAATTC
66 CATTATGAACTTTCTCTGGAAATGTTGATCCATTGAGTGATGAATTC
* * *
718274 AAGCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCT
1 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCT
* ** *
718339 CATTATGAACTTTATCTGGAAATGTTGATCCATCAAGTGATGAATCC
66 CATTATGAACTTTCTCTGGAAATGTTGATCCATTGAGTGATGAATTC
* * *
718386 GAGCAAAAGGATGAACAAGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTC
1 AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTC
* * * *
718451 TCATTATGAAATCTAC-CTGG-TATGTTGATCCATTGAGTGATGGATTC
65 TCATTATGAACT-TTCTCTGGAAATGTTGATCCATTGAGTGATGAATTC
718498 GAATCTTTGC
Statistics
Matches: 200, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
112 167 0.83
113 32 0.16
114 1 0.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (112 bp):
AAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCT
CATTATGAACTTTCTCTGGAAATGTTGATCCATTGAGTGATGAATTC
Found at i:718870 original size:22 final size:22
Alignment explanation
Indices: 718845--718892 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
718835 AAAACTTTCT
*
718845 TCTTTGAAAATAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
718867 TCTTTGAAAAGAGAATCTATCA
1 TCTTTGAAAAGAGAATCTATCA
718889 TCTT
1 TCTT
718893 CGAAGAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (22 bp):
TCTTTGAAAAGAGAATCTATCA
Found at i:719979 original size:40 final size:39
Alignment explanation
Indices: 719925--720000 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 39
719915 TCTCTTTTTA
*
719925 TTTTATTTTATTTTTTCATTTTCATTTTTTTTCTTTAAT
1 TTTTATTTTATTTTTTCATTTTCATTTTTGTTCTTTAAT
*
719964 TTTTTTTTTATTTTTTTCATTTTCATTTTTGTTCTTT
1 TTTTATTTTA-TTTTTTCATTTTCATTTTTGTTCTTT
720001 TCTTTCTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 9 0.26
40 25 0.74
ACGTcount: A:0.12, C:0.08, G:0.01, T:0.79
Consensus pattern (39 bp):
TTTTATTTTATTTTTTCATTTTCATTTTTGTTCTTTAAT
Found at i:719993 original size:15 final size:14
Alignment explanation
Indices: 719935--720015 Score: 64
Period size: 15 Copynumber: 5.7 Consensus size: 14
719925 TTTTATTTTA
719935 TTTTTTCATTTTCAT
1 TTTTTTC-TTTTCAT
*
719950 TTTTTT-TCTTT-AA
1 TTTTTTCT-TTTCAT
719963 TTTTTT-TTTT-AT
1 TTTTTTCTTTTCAT
719975 TTTTTTCATTTTCAT
1 TTTTTTC-TTTTCAT
719990 TTTTGTTCTTTTC-T
1 TTTT-TTCTTTTCAT
720004 TTCTTCTTCTTT
1 TT-TT-TTCTTT
720016 AAGCATAATA
Statistics
Matches: 57, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
12 10 0.18
13 9 0.16
14 10 0.18
15 25 0.44
16 3 0.05
ACGTcount: A:0.09, C:0.12, G:0.01, T:0.78
Consensus pattern (14 bp):
TTTTTTCTTTTCAT
Found at i:729104 original size:27 final size:27
Alignment explanation
Indices: 729058--729137 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
729048 TTAATATTTT
*
729058 AAAATAA-A-ATAAAAACATTAAT-AAA
1 AAAATAATATATATAAACATT-ATGAAA
*
729083 AAAATAATATATATAAATATTATGAAA
1 AAAATAATATATATAAACATTATGAAA
* *
729110 AAAATAAGTATATATAAAAATTTTGAAA
1 AAAATAA-TATATATAAACATTATGAAA
729138 GGAAAGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 7 0.15
26 3 0.06
27 19 0.40
28 18 0.38
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (27 bp):
AAAATAATATATATAAACATTATGAAA
Found at i:729112 original size:28 final size:28
Alignment explanation
Indices: 729080--729137 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
729070 AAACATTAAT
*
729080 AAAAAAATAA-TATATATAAATATTATG
1 AAAAAAATAAGTATATATAAAAATTATG
*
729107 AAAAAAATAAGTATATATAAAAATTTTG
1 AAAAAAATAAGTATATATAAAAATTATG
729135 AAA
1 AAA
729138 GGAAAGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (28 bp):
AAAAAAATAAGTATATATAAAAATTATG
Found at i:731377 original size:3 final size:3
Alignment explanation
Indices: 731371--731417 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
731361 TATTTTTTAT
731371 TAA TAA TAA TAA TAA TAA T-A TAA TATA TAA TAA T-A TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
731415 TAA
1 TAA
731418 AAGCAAATGG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:735024 original size:17 final size:17
Alignment explanation
Indices: 734970--735098 Score: 87
Period size: 17 Copynumber: 7.5 Consensus size: 17
734960 TATTTCACCT
* *
734970 TTATCGGATATTTACAA
1 TTATCAGATATTTACAG
* * **
734987 TTATAAGATGGTTTTTAG
1 TTATCAGAT-ATTTACAG
* *
735005 TTATCATATATTTATAG
1 TTATCAGATATTTACAG
*
735022 TTATTAGATATTTACAG
1 TTATCAGATATTTACAG
* * * *
735039 ATATAAAATAATTACAG
1 TTATCAGATATTTACAG
735056 TTATCAGATATTTACAG
1 TTATCAGATATTTACAG
* * *
735073 ATATAAGATGTTTTACAG
1 TTATCAGAT-ATTTACAG
*
735091 TTTTCAGA
1 TTATCAGA
735099 CACATATTAA
Statistics
Matches: 83, Mismatches: 27, Indels: 3
0.73 0.24 0.03
Matches are distributed among these distances:
17 60 0.72
18 23 0.28
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.43
Consensus pattern (17 bp):
TTATCAGATATTTACAG
Found at i:738708 original size:34 final size:34
Alignment explanation
Indices: 738641--738724 Score: 107
Period size: 34 Copynumber: 2.5 Consensus size: 34
738631 GAGTGTGCGC
* * * *
738641 AATAAGCACTCCATGTGCTATCATCAGAAACAGA
1 AATATGCACTCCAGGTGCAATCACCAGAAACAGA
738675 AATATGCACTCCAGGTGCAATCACCA-AATACAGA
1 AATATGCACTCCAGGTGCAATCACCAGAA-ACAGA
*
738709 AATATGCATTCCAGGT
1 AATATGCACTCCAGGT
738725 ATAATCATCA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 2 0.05
34 42 0.95
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.21
Consensus pattern (34 bp):
AATATGCACTCCAGGTGCAATCACCAGAAACAGA
Found at i:738731 original size:34 final size:34
Alignment explanation
Indices: 738670--738737 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
738660 ATCATCAGAA
*
738670 ACAGAAATATGCACTCCAGGTGCAATCACCAAAT
1 ACAGAAATATGCACTCCAGGTACAATCACCAAAT
* * *
738704 ACAGAAATATGCATTCCAGGTATAATCATCAAAT
1 ACAGAAATATGCACTCCAGGTACAATCACCAAAT
738738 GCACACGAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.22, G:0.13, T:0.22
Consensus pattern (34 bp):
ACAGAAATATGCACTCCAGGTACAATCACCAAAT
Found at i:743006 original size:14 final size:14
Alignment explanation
Indices: 742968--743020 Score: 56
Period size: 13 Copynumber: 3.8 Consensus size: 14
742958 CAGTTCCACA
**
742968 TCTTCTTCTTCATT
1 TCTTCTTCTTTTTT
742982 T-TTCTTCTTTTTT
1 TCTTCTTCTTTTTT
742995 TCTTCTT-TTTTTCT
1 TCTTCTTCTTTTT-T
743009 TCTTCTTTCTTT
1 TCTTC-TTCTTT
743021 CTCATCACTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 16 0.48
14 12 0.36
15 2 0.06
16 3 0.09
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTTCTTCTTTTTT
Found at i:743022 original size:11 final size:11
Alignment explanation
Indices: 742970--743012 Score: 68
Period size: 11 Copynumber: 3.7 Consensus size: 11
742960 GTTCCACATC
742970 TTCTTCTTCATTT
1 TTCTTCTT--TTT
742983 TTCTTCTTTTT
1 TTCTTCTTTTT
742994 TTCTTCTTTTT
1 TTCTTCTTTTT
743005 TTCTTCTT
1 TTCTTCTT
743013 CTTTCTTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
11 22 0.73
13 8 0.27
ACGTcount: A:0.02, C:0.21, G:0.00, T:0.77
Consensus pattern (11 bp):
TTCTTCTTTTT
Found at i:743022 original size:14 final size:13
Alignment explanation
Indices: 742968--743019 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 13
742958 CAGTTCCACA
742968 TCTTCTTCTTCATT
1 TCTTCTTCTTC-TT
742982 T-TTCTTCTT-TT
1 TCTTCTTCTTCTT
742993 T-TTCTTCTT-TT
1 TCTTCTTCTTCTT
743004 T-TTCTTCTTCTT
1 TCTTCTTCTTCTT
743016 TCTT
1 TCTT
743020 TCTCATCACT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
11 22 0.61
12 3 0.08
13 10 0.28
14 1 0.03
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (13 bp):
TCTTCTTCTTCTT
Found at i:755138 original size:41 final size:42
Alignment explanation
Indices: 755063--755200 Score: 174
Period size: 41 Copynumber: 3.3 Consensus size: 42
755053 TTATGGGTTT
755063 TCAATTATAAAGGTAGAAAGTGAGATTGAAAAAACTTAGGGGCC
1 TCAATTATAAA-GTAGAAAGT-AGATTGAAAAAACTTAGGGGCC
*
755107 TCAATTA-AAAGCTAGAAAGT-GATTGAAAAAACTTAAGGGCC
1 TCAATTATAAAG-TAGAAAGTAGATTGAAAAAACTTAGGGGCC
* * *
755148 TCCATTATAAAGTAAAAAGTTAGATT-AAAAAAATTAGGGGCC
1 TCAATTATAAAGTAGAAAG-TAGATTGAAAAAACTTAGGGGCC
*
755190 TCAAATATAAA
1 TCAATTATAAA
755201 ATATAAAAGG
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
41 32 0.39
42 29 0.35
43 15 0.18
44 7 0.08
ACGTcount: A:0.47, C:0.10, G:0.19, T:0.24
Consensus pattern (42 bp):
TCAATTATAAAGTAGAAAGTAGATTGAAAAAACTTAGGGGCC
Found at i:755209 original size:43 final size:43
Alignment explanation
Indices: 755079--755214 Score: 138
Period size: 42 Copynumber: 3.2 Consensus size: 43
755069 ATAAAGGTAG
* **
755079 AAAGTGAGATTGAAAAAACTTAGGGGCCTCAAT-TAAAAGCTA
1 AAAGTTAGATTGAAAAAACTTAGGGGCCTCAATATAAAATATA
* * *
755121 GAAAG-T-GATTGAAAAAACTTAAGGGCCTCCATTATAAAGTA-A
1 -AAAGTTAGATTGAAAAAACTTAGGGGCCT-CAATATAAAATATA
*
755163 AAAGTTAGATT-AAAAAAATTAGGGGCCTCAAATATAAAATATA
1 AAAGTTAGATTGAAAAAACTTAGGGGCCTC-AATATAAAATATA
*
755206 AAAGGTAGA
1 AAAGTTAGA
755215 AAGTGAAATT
Statistics
Matches: 76, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
41 26 0.34
42 29 0.38
43 21 0.28
ACGTcount: A:0.49, C:0.10, G:0.19, T:0.23
Consensus pattern (43 bp):
AAAGTTAGATTGAAAAAACTTAGGGGCCTCAATATAAAATATA
Found at i:755324 original size:39 final size:41
Alignment explanation
Indices: 755242--755333 Score: 118
Period size: 39 Copynumber: 2.3 Consensus size: 41
755232 ATTAAGTGGC
* **
755242 TCAATTATAAAGTTAAAAGGTAGAATTAAAAAATAGAGACT
1 TCAATTATAAAGGTAAAAAATAGAATTAAAAAATAGAGACT
*
755283 TCAATTATAAAGGTAAAAAAT-G-ATTGAAAAATTA-AGACT
1 TCAATTATAAAGGTAAAAAATAGAATT-AAAAAATAGAGACT
755322 TCAATTATAAAG
1 TCAATTATAAAG
755334 ATAAGAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
39 20 0.43
40 8 0.17
41 18 0.39
ACGTcount: A:0.53, C:0.05, G:0.13, T:0.28
Consensus pattern (41 bp):
TCAATTATAAAGGTAAAAAATAGAATTAAAAAATAGAGACT
Found at i:755994 original size:20 final size:20
Alignment explanation
Indices: 755969--756103 Score: 153
Period size: 20 Copynumber: 6.7 Consensus size: 20
755959 TTTTCCTAAT
755969 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** ** *
755989 TCGCAACACGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* ** *
756010 TCGCAACGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
756031 TCGCAATACGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
756051 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
756071 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
756091 TCGCAATGCGAAT
1 TCGCAATGCGAAT
756104 CTGACTATCG
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 66 0.66
21 34 0.34
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:756012 original size:21 final size:21
Alignment explanation
Indices: 755986--756041 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
755976 GCGAATACGT
755986 AAATCGCAACACGAATTTGGA
1 AAATCGCAACACGAATTTGGA
*
756007 AAATCGCAACGCGAATTTGGA
1 AAATCGCAACACGAATTTGGA
*
756028 AAATCGCAATACGA
1 AAATCGCAACACGA
756042 TTACGTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.18
Consensus pattern (21 bp):
AAATCGCAACACGAATTTGGA
Found at i:756114 original size:40 final size:39
Alignment explanation
Indices: 756007--756121 Score: 133
Period size: 40 Copynumber: 2.8 Consensus size: 39
755997 CGAATTTGGA
* * * *
756007 AAATCGCAACGCGAATTTGGAAAATCGCAATACGATTACGT
1 AAATCGCAATGCGAATCT-G-AAATCGCAATGCGAATACGT
756048 AAATCGCAATGCGAATAC-GTAAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAAT-CTG-AAATCGCAATGCGAATACGT
*
756088 AAATCGCAATGCGAATCTGACTATCGCAATGCGA
1 AAATCGCAATGCGAATCTGA-AATCGCAATGCGA
756122 TTTACATAGC
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
39 2 0.03
40 48 0.74
41 15 0.23
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (39 bp):
AAATCGCAATGCGAATCTGAAATCGCAATGCGAATACGT
Found at i:756324 original size:22 final size:22
Alignment explanation
Indices: 756299--756364 Score: 114
Period size: 22 Copynumber: 3.0 Consensus size: 22
756289 GGCGACATCC
756299 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
*
756321 GTCCCCATCTCCGACGATATCA
1 GTCCCCATCTCCGACGAAATCA
*
756343 GTCTCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
756365 TTCACGGTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.26, C:0.39, G:0.14, T:0.21
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:756736 original size:33 final size:33
Alignment explanation
Indices: 756688--756801 Score: 113
Period size: 40 Copynumber: 3.2 Consensus size: 33
756678 ACTATCGCAA
756688 TGCGATTC-TGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTTG-CGTTGCGATTTTCATTTCGCGT
*
756721 TGCGATTCTTGCGTTGCGATTTTCAAATTCGCGT
1 TGCGATTCTTGCGTTGCGATTTTC-ATTTCGCGT
* *
756755 TGCGATAGTCATTTTCGTGTTGCGATTTTCATTTTCGTGT
1 TGCGAT--TC---TT-GCGTTGCGATTTTCA-TTTCGCGT
756795 TGCGATT
1 TGCGATT
756802 TAAAGTTTCA
Statistics
Matches: 68, Mismatches: 4, Indels: 13
0.80 0.05 0.15
Matches are distributed among these distances:
33 21 0.31
34 16 0.24
36 2 0.03
38 1 0.01
39 3 0.04
40 25 0.37
ACGTcount: A:0.12, C:0.18, G:0.24, T:0.46
Consensus pattern (33 bp):
TGCGATTCTTGCGTTGCGATTTTCATTTCGCGT
Found at i:756756 original size:20 final size:20
Alignment explanation
Indices: 756699--756802 Score: 96
Period size: 20 Copynumber: 5.5 Consensus size: 20
756689 GCGATTCTGT
756699 CGTTGCGATTTTC-ATTTCG
1 CGTTGCGATTTTCAATTTCG
756718 CGTTGCGA--TTC---TT-G
1 CGTTGCGATTTTCAATTTCG
*
756732 CGTTGCGATTTTCAAATTCG
1 CGTTGCGATTTTCAATTTCG
** *
756752 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATTTTCAATTTCG
* *
756772 TGTTGCGATTTTCATTTTCG
1 CGTTGCGATTTTCAATTTCG
*
756792 TGTTGCGATTT
1 CGTTGCGATTT
756803 AAAGTTTCAG
Statistics
Matches: 72, Mismatches: 7, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
14 9 0.12
15 2 0.03
16 3 0.04
17 3 0.04
19 10 0.14
20 45 0.62
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCAATTTCG
Found at i:756757 original size:34 final size:33
Alignment explanation
Indices: 756688--756760 Score: 112
Period size: 33 Copynumber: 2.2 Consensus size: 33
756678 ACTATCGCAA
*
756688 TGCGATTCTGTCGTTGCGATTTTCATTTCGCGT
1 TGCGATTCTGTCGTTGCGATTTTCAATTCGCGT
756721 TGCGATTCT-TGCGTTGCGATTTTCAAATTCGCGT
1 TGCGATTCTGT-CGTTGCGATTTTC-AATTCGCGT
756755 TGCGAT
1 TGCGAT
756761 AGTCATTTTC
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
32 1 0.03
33 22 0.59
34 14 0.38
ACGTcount: A:0.12, C:0.21, G:0.25, T:0.42
Consensus pattern (33 bp):
TGCGATTCTGTCGTTGCGATTTTCAATTCGCGT
Found at i:756810 original size:20 final size:20
Alignment explanation
Indices: 756767--756810 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
756757 CGATAGTCAT
** *
756767 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
756787 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
756807 TTTC
1 TTTC
756811 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:757085 original size:81 final size:80
Alignment explanation
Indices: 756956--757116 Score: 313
Period size: 81 Copynumber: 2.0 Consensus size: 80
756946 TGTTATATCT
756956 CACAGTGTAGTTTTTGGTATATCTAAATTGGTAGGTTTATTGTTTTTTCAGAACTTTTATTCGGC
1 CACAGTGTAGTTTTTGGTATATCTAAATTGGTAGGTTTATTGTTTTTTCAGAACTTTTATTC-GC
757021 TCAATTGACCTTAAGA
65 TCAATTGACCTTAAGA
757037 CACAGTGTAGTTTTTGGTATATCTAAATTGGTAGGTTTATTGTTTTTTCAGAACTTTTATTCGCT
1 CACAGTGTAGTTTTTGGTATATCTAAATTGGTAGGTTTATTGTTTTTTCAGAACTTTTATTCGCT
757102 CAATTGACCTTAAGA
66 CAATTGACCTTAAGA
757117 AATAAAGTAA
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
80 18 0.22
81 62 0.77
ACGTcount: A:0.25, C:0.12, G:0.18, T:0.45
Consensus pattern (80 bp):
CACAGTGTAGTTTTTGGTATATCTAAATTGGTAGGTTTATTGTTTTTTCAGAACTTTTATTCGCT
CAATTGACCTTAAGA
Found at i:758809 original size:33 final size:33
Alignment explanation
Indices: 758749--758829 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
758739 ATAGTTTACT
** * * *
758749 ATCGCAATGCGAAAATGACTATTGCAACAAGAGA
1 ATCGCAATGCG-AAATGAAAATCGCAACAACAAA
*
758783 ATCTCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACAACAAA
*
758816 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
758830 ATGACTATCG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
33 29 0.74
34 10 0.26
ACGTcount: A:0.47, C:0.21, G:0.17, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACAACAAA
Found at i:758841 original size:20 final size:20
Alignment explanation
Indices: 758816--758864 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
758806 CAACAACAAA
758816 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
758836 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
758856 ATCGCAACG
1 ATCGCAACG
758865 AAAGAATCGT
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:0.35, C:0.24, G:0.20, T:0.20
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:759001 original size:20 final size:20
Alignment explanation
Indices: 758909--759012 Score: 154
Period size: 20 Copynumber: 5.2 Consensus size: 20
758899 GATTCTCTCG
**
758909 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
**
758929 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
758949 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
758969 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
*
758989 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
759009 TTGC
1 TTGC
759013 AATTTTAAGT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:761158 original size:20 final size:20
Alignment explanation
Indices: 761121--761174 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
761111 GCAACGAGAG
761121 AATCGCAATGCG-AAATGAA
1 AATCGCAATGCGAAAATGAA
761140 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCGAAAATGAA
*
761160 AATCGCAACGCGAAA
1 AATCGCAATGCGAAA
761175 CTAAATTCGC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 12 0.36
20 21 0.64
ACGTcount: A:0.48, C:0.19, G:0.20, T:0.13
Consensus pattern (20 bp):
AATCGCAATGCGAAAATGAA
Found at i:761241 original size:33 final size:34
Alignment explanation
Indices: 761184--761259 Score: 127
Period size: 33 Copynumber: 2.3 Consensus size: 34
761174 ACTAAATTCG
761184 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
* *
761218 CGTTGTGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
761251 CGTTGCGAT
1 CGTTGCGAT
761260 AGTCATTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
33 26 0.67
34 13 0.33
ACGTcount: A:0.13, C:0.22, G:0.20, T:0.45
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
Found at i:761266 original size:33 final size:33
Alignment explanation
Indices: 761184--761268 Score: 125
Period size: 33 Copynumber: 2.5 Consensus size: 33
761174 ACTAAATTCG
761184 CGTTGCGATTTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
* *
761218 CGTTGTGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
**
761251 CGTTGCGATAGTCATTTC
1 CGTTGCGATTTTCATTTC
761269 CACGTTGCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 33 0.72
34 13 0.28
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.45
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:761276 original size:20 final size:20
Alignment explanation
Indices: 761251--761359 Score: 166
Period size: 20 Copynumber: 5.5 Consensus size: 20
761241 GCGATTCTCT
*
761251 CGTTGCGATAGTCATTTCCA
1 CGTTGCGATAGTCATTTCCG
*
761271 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
*
761291 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
761311 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
761331 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
761351 CGTTGCGAT
1 CGTTGCGAT
761360 TTCCGCATTG
Statistics
Matches: 83, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
20 81 0.98
21 2 0.02
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:763562 original size:3 final size:3
Alignment explanation
Indices: 763554--763579 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
763544 CTTTGGGGAT
763554 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
763580 TAGGGTTATA
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:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:763781 original size:23 final size:23
Alignment explanation
Indices: 763755--763799 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
763745 TTGAAAAATC
763755 ATCAAAATCCGAGTATTGACCAT
1 ATCAAAATCCGAGTATTGACCAT
* *
763778 ATCAAAGTCCGGGTATTGACCA
1 ATCAAAATCCGAGTATTGACCA
763800 AGATCAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (23 bp):
ATCAAAATCCGAGTATTGACCAT
Found at i:764672 original size:20 final size:20
Alignment explanation
Indices: 764647--764693 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
764637 AAATTCAGTA
*
764647 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
764667 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
764687 TTGCGAT
1 TTGCGAT
764694 TTACGTATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:764703 original size:20 final size:20
Alignment explanation
Indices: 764680--764772 Score: 132
Period size: 20 Copynumber: 4.7 Consensus size: 20
764670 CGATAGTCAG
*
764680 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
764700 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* * **
764720 AATCGCATTGCGATTTCCAA
1 ATTCGCATTGCGATTTACGT
*
764740 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
764760 ATTCGCATTGCGA
1 ATTCGCATTGCGA
764773 ATTAGGAAAA
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.37
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:764793 original size:21 final size:21
Alignment explanation
Indices: 764769--764814 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
764759 TATTCGCATT
764769 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* *
764790 GCGAATTTGGAAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
764811 GCGA
1 GCGA
764815 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:770958 original size:2 final size:2
Alignment explanation
Indices: 770951--770991 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
770941 CTTTTTAGAT
770951 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
770992 ATGTTTGCGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:772536 original size:21 final size:21
Alignment explanation
Indices: 772494--772536 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
772484 TTTCTGGGCT
* *
772494 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
772515 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
772536 A
1 A
772537 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:773108 original size:2 final size:2
Alignment explanation
Indices: 773101--773134 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
773091 CATGTTACAG
773101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
773135 GAGTTATGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:773305 original size:30 final size:30
Alignment explanation
Indices: 773271--773553 Score: 512
Period size: 30 Copynumber: 9.4 Consensus size: 30
773261 GGTTCTTCGG
* *
773271 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
773301 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
773331 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
773361 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
**
773391 GACCTCTGGATAGTTTTCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
773421 GACCTCTGGATAGTTACTGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
773451 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
773481 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
*
773511 GACCTCTGGATAGTTATCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
773541 GACCTCTGGATAG
1 GACCTCTGGATAG
773554 GTCCTTCGGA
Statistics
Matches: 244, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 244 1.00
ACGTcount: A:0.23, C:0.19, G:0.24, T:0.34
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:776929 original size:21 final size:21
Alignment explanation
Indices: 776887--776929 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
776877 TTTCTGGGCT
* *
776887 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
776908 AGGGGAATCGATCCCCCCTCA
1 AGGGGAATCGATACCCACTCA
776929 A
1 A
776930 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:776982 original size:20 final size:20
Alignment explanation
Indices: 776957--776994 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
776947 TAATGCTAGA
*
776957 GGGGAATCGATACCCCCAGG
1 GGGGAACCGATACCCCCAGG
*
776977 GGGGAACCGATTCCCCCA
1 GGGGAACCGATACCCCCA
776995 TAAAAAAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.34, G:0.32, T:0.11
Consensus pattern (20 bp):
GGGGAACCGATACCCCCAGG
Found at i:777622 original size:31 final size:30
Alignment explanation
Indices: 777584--777662 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 30
777574 GTCTTTCGAG
*
777584 ACATATGGACAGTGTACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
* ** *
777615 ACATATGGATAGTTTACCTAGGTTCTTCGGG
1 ACATATGGACAG-TTACCTAGGTTCTAAGGA
*
777646 ACCTATGGACAGTTACC
1 ACATATGGACAGTTACC
777663 GAGGATCTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
30 5 0.12
31 34 0.85
32 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:777679 original size:30 final size:30
Alignment explanation
Indices: 777645--777807 Score: 308
Period size: 30 Copynumber: 5.4 Consensus size: 30
777635 GGTTCTTCGG
* *
777645 GACCTATGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
777675 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
777705 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
777735 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
777765 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
777795 GACCTCTGGATAG
1 GACCTCTGGATAG
777808 GTCCTTCGGA
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 131 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:781765 original size:141 final size:142
Alignment explanation
Indices: 781496--781807 Score: 448
Period size: 141 Copynumber: 2.2 Consensus size: 142
781486 TCTCCTAGGT
* * * * *
781496 AAATAATGCACTATGGCATAAACTTTTCAGTGCCCAATTAATTATCTTCATCAACTTTTCAGTGA
1 AAATAATGCACCATGGCAGAAACTTTTCAGTGCACAATTAATTATCTTCAACAACTTTTCAATGA
* *
781561 TTTATCAACTCATTTCAGAAAACTTTTCAGTGCTGATATATCACTTCATATCACAAAAAGTGCAT
66 TATATCAACTCATTTCAGAAAACTTTTCAGTACTGATATATCACTTCATATCACAAAAAGTGCAT
*
781626 TTCTCAAAGGCA
131 TTCTCAAAGGAA
* *
781638 AAATAATGCACCATGGCAGAAACTTTTTAGTG-ACAATTAATTCTCTTCAACAACTTTTCAATGA
1 AAATAATGCACCATGGCAGAAACTTTTCAGTGCACAATTAATTATCTTCAACAACTTTTCAATGA
* * *
781702 TATATCAACTCATTTTAGCAAACTTTT-AGTACTGATATATCACTTCATATCAGAAAAACGTGCA
66 TATATCAACTCATTTCAGAAAACTTTTCAGTACTGATATATCACTTCATATCACAAAAA-GTGCA
* *
781766 TTTCTTATAGGAA
130 TTTCTCAAAGGAA
* *
781779 AAATAATGCACCATGGTAGGAACTTTTCA
1 AAATAATGCACCATGGCAGAAACTTTTCA
781808 ATTCACAAAC
Statistics
Matches: 151, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
140 29 0.19
141 93 0.62
142 29 0.19
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (142 bp):
AAATAATGCACCATGGCAGAAACTTTTCAGTGCACAATTAATTATCTTCAACAACTTTTCAATGA
TATATCAACTCATTTCAGAAAACTTTTCAGTACTGATATATCACTTCATATCACAAAAAGTGCAT
TTCTCAAAGGAA
Found at i:784475 original size:41 final size:41
Alignment explanation
Indices: 784397--784475 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
784387 TAGTATTCTT
**
784397 TATACATATATTATATTAAAAAGGATATTTATGCATTTTCA
1 TATACATATATTATATTAAAAAGGATATTTAAACATTTTCA
* * *
784438 TATATATATATATATATTAAAATGTAT-TTTAAACATTT
1 TATACATATAT-TATATTAAAAAGGATATTTAAACATTT
784476 ATAAAGTCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 19 0.59
42 13 0.41
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.47
Consensus pattern (41 bp):
TATACATATATTATATTAAAAAGGATATTTAAACATTTTCA
Found at i:786417 original size:21 final size:22
Alignment explanation
Indices: 786318--786425 Score: 103
Period size: 23 Copynumber: 4.9 Consensus size: 22
786308 GGTTTTACGC
* *
786318 GGTCCTTCGGGACA-TATATAT
1 GGTCCTTCGGGACATTCTATGT
786339 GGTCCTTCGGGACAATTCTATGT
1 GGTCCTTCGGGAC-ATTCTATGT
* * *
786362 GGTCATTCGAGACATTTCTACGT
1 GGTCCTTCGGGACA-TTCTATGT
* *
786385 AGTCTTTCGGGACA-TCTATGT
1 GGTCCTTCGGGACATTCTATGT
* *
786406 GGTCCTTTGGGATATTCTAT
1 GGTCCTTCGGGACATTCTAT
786426 ATGGCACTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
21 29 0.41
22 7 0.10
23 34 0.49
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (22 bp):
GGTCCTTCGGGACATTCTATGT
Found at i:791621 original size:12 final size:12
Alignment explanation
Indices: 791606--791636 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
791596 GGTATTTAAA
*
791606 CGGGTATTGGGT
1 CGGGTATTGGGC
791618 CGGGTATTGGGC
1 CGGGTATTGGGC
791630 CGGGTAT
1 CGGGTAT
791637 ATATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.13, G:0.48, T:0.29
Consensus pattern (12 bp):
CGGGTATTGGGC
Found at i:791694 original size:24 final size:25
Alignment explanation
Indices: 791634--791694 Score: 69
Period size: 24 Copynumber: 2.6 Consensus size: 25
791624 TTGGGCCGGG
791634 TATATA-TATA-TATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
*
791657 TATATATT-TTTTATTTAAATTAAA
1 TATATATTATATTATTTAAATTAAA
791681 T-T-TATTAATATTAT
1 TATATATT-ATATTAT
791695 ATATATATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.12
23 8 0.25
24 20 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TATATATTATATTATTTAAATTAAA
Found at i:791754 original size:13 final size:13
Alignment explanation
Indices: 791732--791764 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
791722 TTATCGGGTT
791732 GGGT-ATCGGGGC
1 GGGTAATCGGGGC
791744 GGGTAATCGGGGC
1 GGGTAATCGGGGC
791757 GGGTAATC
1 GGGTAATC
791765 AGGTAATCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.15, C:0.15, G:0.52, T:0.18
Consensus pattern (13 bp):
GGGTAATCGGGGC
Found at i:793995 original size:30 final size:30
Alignment explanation
Indices: 793959--794036 Score: 129
Period size: 30 Copynumber: 2.6 Consensus size: 30
793949 CGACTAAGCA
793959 CCAAATAGTACAAGGACTTGGCCACCAATG
1 CCAAATAGTACAAGGACTTGGCCACCAATG
*
793989 CCAAATAGTACAAGGACTTGGCCACCCATG
1 CCAAATAGTACAAGGACTTGGCCACCAATG
**
794019 TTAAATAGTACAAGGACT
1 CCAAATAGTACAAGGACT
794037 AAGGCCATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (30 bp):
CCAAATAGTACAAGGACTTGGCCACCAATG
Found at i:794790 original size:231 final size:231
Alignment explanation
Indices: 794369--794815 Score: 519
Period size: 231 Copynumber: 1.9 Consensus size: 231
794359 ATTGGTGACA
** *
794369 ACTAGATCTCCTCAACGCGAAGGAGCAATGTCATCATCAGATTTAATATCAAGCAAATCACCTAG
1 ACTAGATCTCCTCAAAACGAAGGAGCAATGTCATCATCAGATTTAATATCAAGCAAATCACCCAG
** * * *
794434 AAGCAACCAGATCTCCTCACCGTAAAGGAGCAGTGTTGTTTCCAGAATCAAATTATTTTCAAACA
66 AAGCAACCAGATCTCCTCACCACAAAGGAGCAGTGTCGTTTCCAGAATCAAAGTATCTTCAAACA
* * * *
794499 ATCAGACTTCCTCAACGTGAAGGAAGAGTGTTGTTTCCATATGCACAATTATCCAAATACAACTA
131 ATCAGACTTCCTCAACGTGAAGGAACAATGTTGTTTCCAGATGCACAAGTATCCAAATACAACTA
**
794564 GACGTCCTCAACGTGAAGGAATAATGTCTTCCACTG
196 GACGTCCTCAACACGAAGGAATAATGTCTTCCACTG
* *
794600 ACTAGATCTCCTCAAAACGAAGGATCAATGTCATCATCAGATTTGACAT-TGAA-CAAATCACCC
1 ACTAGATCTCCTCAAAACGAAGGAGCAATGTCATCATCAGATTT-A-ATATCAAGCAAATCACCC
* * * * ** *
794663 A-AAGCAACCATATCTCCTTATCACATAGGAGTTGTGTCGTTTCTA-AAGTCAAAAGTATCTTCA
64 AGAAGCAACCAGATCTCCTCACCACAAAGGAGCAGTGTCGTTTCCAGAA-TC-AAAGTATCTTCA
* * * * * *
794726 AGCAATCAGGCTTCCTCAACGTGAAGGAACAATTTTGTCTT-CAGATGCA-TAGTCTCGTAAATA
127 AACAATCAGACTTCCTCAACGTGAAGGAACAATGTTGT-TTCCAGATGCACAAGTATC-CAAATA
**
794789 CAACTAGTTGTCCTCAACACGAAGGAA
190 CAACTAGACGTCCTCAACACGAAGGAA
794816 CAACATCATT
Statistics
Matches: 179, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
229 2 0.01
230 40 0.22
231 129 0.72
232 6 0.03
233 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (231 bp):
ACTAGATCTCCTCAAAACGAAGGAGCAATGTCATCATCAGATTTAATATCAAGCAAATCACCCAG
AAGCAACCAGATCTCCTCACCACAAAGGAGCAGTGTCGTTTCCAGAATCAAAGTATCTTCAAACA
ATCAGACTTCCTCAACGTGAAGGAACAATGTTGTTTCCAGATGCACAAGTATCCAAATACAACTA
GACGTCCTCAACACGAAGGAATAATGTCTTCCACTG
Found at i:795454 original size:23 final size:20
Alignment explanation
Indices: 795391--795455 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
795381 AAGTTTTGTC
* * *
795391 ATTTTTATTTT-TTTTAATT
1 ATTTTAATTTTATATTAAAT
**
795410 ATTTTAATTTTATATTTTAT
1 ATTTTAATTTTATATTAAAT
795430 ATTTTAATTATTAAATATTAAAT
1 ATTTTAATT-TT--ATATTAAAT
795453 ATT
1 ATT
795456 AATATTTAAG
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
19 10 0.29
20 13 0.37
21 2 0.06
23 10 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTAATTTTATATTAAAT
Found at i:795460 original size:29 final size:29
Alignment explanation
Indices: 795402--795462 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
795392 TTTTTATTTT
* * * *
795402 TTTTAATTATTTTAATTTTATATTTTATA
1 TTTTAATTATTTAAATATTAAATTTAATA
795431 TTTTAATTA-TTAAATATTAAATATTAATA
1 TTTTAATTATTTAAATATTAAAT-TTAATA
795460 TTT
1 TTT
795463 AAGTTCTCTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 10 0.37
29 17 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (29 bp):
TTTTAATTATTTAAATATTAAATTTAATA
Found at i:795895 original size:22 final size:20
Alignment explanation
Indices: 795869--795926 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
795859 GAAATAGTGG
795869 GAAAAGAAGAGAAGAAAAAGAA
1 GAAAA-AAGAGAAGAAAAA-AA
*
795891 GAAAAAAAGAGAACAAAAAAA
1 G-AAAAAAGAGAAGAAAAAAA
* *
795912 GGAAATAGAGAAGAA
1 GAAAAAAGAGAAGAA
795927 TTAGAGCTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
20 11 0.35
21 3 0.10
22 13 0.42
23 4 0.13
ACGTcount: A:0.72, C:0.02, G:0.24, T:0.02
Consensus pattern (20 bp):
GAAAAAAGAGAAGAAAAAAA
Found at i:801788 original size:40 final size:40
Alignment explanation
Indices: 801715--801790 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
801705 GACGTGGTGT
*
801715 CACGCAGGGTAAGGCGCGGTGCATGGGTAGCGCCTTATAA
1 CACGCAGGGTAAGGCGCGGTGCATGGCTAGCGCCTTATAA
*
801755 CACGTAGGGTAAGGCGCGGTGCATAGGCT-GCGCCTT
1 CACGCAGGGTAAGGCGCGGTGCAT-GGCTAGCGCCTT
801791 TCTGCCAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 30 0.91
41 3 0.09
ACGTcount: A:0.20, C:0.24, G:0.38, T:0.18
Consensus pattern (40 bp):
CACGCAGGGTAAGGCGCGGTGCATGGCTAGCGCCTTATAA
Found at i:801944 original size:10 final size:10
Alignment explanation
Indices: 801925--801956 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
801915 TTCACCACAC
801925 CAAATTCTCT
1 CAAATTCTCT
*
801935 CAAATCCTCT
1 CAAATTCTCT
801945 CAAATTCTCT
1 CAAATTCTCT
801955 CA
1 CA
801957 CTGCTCGTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:802003 original size:17 final size:18
Alignment explanation
Indices: 801983--802016 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
801973 TATATAAGGT
801983 ATATTTTATTA-TATTTA
1 ATATTTTATTAGTATTTA
*
802000 ATATTTTGTTAGTATTT
1 ATATTTTATTAGTATTT
802017 TATTTAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTTATTAGTATTTA
Found at i:802015 original size:28 final size:28
Alignment explanation
Indices: 801984--802067 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 28
801974 ATATAAGGTA
801984 TATTTTATT-A-TATTTAATATTTTGTTAG
1 TATTTTATTAATTATTTAA-ATTTT-TTAG
802012 TATTTTATTTAATTATTTAAATTTTTTAG
1 TATTTTA-TTAATTATTTAAATTTTTTAG
* *
802041 TATTTTATTTAATTATTTTATTTTTTT
1 TATTTTA-TTAATTATTTAAATTTTTT
802068 TGCAATTATA
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.14
29 31 0.61
30 6 0.12
31 7 0.14
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (28 bp):
TATTTTATTAATTATTTAAATTTTTTAG
Found at i:802045 original size:29 final size:29
Alignment explanation
Indices: 801994--802067 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
801984 TATTTTATTA
801994 TATTTAATATTTTGTTAGTATTTTATTTAAT
1 TATTTAA-ATTTT-TTAGTATTTTATTTAAT
802025 TATTTAAATTTTTTAGTATTTTATTTAAT
1 TATTTAAATTTTTTAGTATTTTATTTAAT
* *
802054 TATTTTATTTTTTT
1 TATTTAAATTTTTT
802068 TGCAATTATA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
29 29 0.71
30 5 0.12
31 7 0.17
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (29 bp):
TATTTAAATTTTTTAGTATTTTATTTAAT
Found at i:802059 original size:13 final size:13
Alignment explanation
Indices: 802012--802063 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
802002 ATTTTGTTAG
802012 TATTTTATTTAAT
1 TATTTTATTTAAT
* * *
802025 TATTTAAATTTTTTAG
1 TATTT---TATTTAAT
802041 TATTTTATTTAAT
1 TATTTTATTTAAT
802054 TATTTTATTT
1 TATTTTATTT
802064 TTTTTGCAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 20 0.67
16 10 0.33
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (13 bp):
TATTTTATTTAAT
Found at i:802067 original size:21 final size:22
Alignment explanation
Indices: 802012--802067 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
802002 ATTTTGTTAG
**
802012 TATTTTATTTAATTATTTAAAT
1 TATTTTATTTTTTTATTTAAAT
* *
802034 T-TTTTAGTATTTTATTT-AAT
1 TATTTTATTTTTTTATTTAAAT
802054 TATTTTATTTTTTT
1 TATTTTATTTTTTT
802068 TGCAATTATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 4 0.15
21 22 0.81
22 1 0.04
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTATTTTTTTATTTAAAT
Found at i:808054 original size:29 final size:30
Alignment explanation
Indices: 808000--808086 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 30
807990 AAAATATAAG
* *
808000 AGGATTGTTGGGTGATATTTACGGGTTGAA
1 AGGATTATTGTGTGATATTTACGGGTTGAA
* * *
808030 AGGTTTATTGTGTGAT-TTTTCGGGTTGAG
1 AGGATTATTGTGTGATATTTACGGGTTGAA
* *
808059 AGGATTATTGTG-AATGTTTACGGGTTGA
1 AGGATTATTGTGTGATATTTACGGGTTGA
808087 GAGCGTATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
28 2 0.04
29 33 0.69
30 13 0.27
ACGTcount: A:0.21, C:0.03, G:0.34, T:0.41
Consensus pattern (30 bp):
AGGATTATTGTGTGATATTTACGGGTTGAA
Found at i:808493 original size:3 final size:3
Alignment explanation
Indices: 808485--808514 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
808475 TTGTAGTATC
808485 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
808515 ACTACTTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:809664 original size:32 final size:32
Alignment explanation
Indices: 809607--809790 Score: 282
Period size: 32 Copynumber: 5.8 Consensus size: 32
809597 TGTCCTTTGA
*
809607 GACATATGGACAGATTTTACCTATGTCTTTCGG
1 GACATATGGACAG-TATTACCTATGTCTTTCGG
809640 GACATATGGACAGTATTACCTATGTCTTTCGG
1 GACATATGGACAGTATTACCTATGTCTTTCGG
* * *
809672 GATATATGGACATTATTACCTATGTCTTTCGA
1 GACATATGGACAGTATTACCTATGTCTTTCGG
*
809704 GACATATGGACAGTAGTACCTATGTCTTTCGG
1 GACATATGGACAGTATTACCTATGTCTTTCGG
*
809736 GACATATGGACAGAATTACCTATGTCTTTCGG
1 GACATATGGACAGTATTACCTATGTCTTTCGG
*
809768 GATATATGGACAG--TTACCTATGT
1 GACATATGGACAGTATTACCTATGT
809791 TCCTAGGAAC
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
30 10 0.07
32 117 0.84
33 13 0.09
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (32 bp):
GACATATGGACAGTATTACCTATGTCTTTCGG
Found at i:809761 original size:96 final size:97
Alignment explanation
Indices: 809596--809779 Score: 318
Period size: 96 Copynumber: 1.9 Consensus size: 97
809586 ATGGTTATCG
** *
809596 ATGTCCTTTGAGACATATGGACAGATTTTACCTATGTCTTTCGGGACATATGGACAGTATTACCT
1 ATGTCCTTTGAGACATATGGACAGATAGTACCTATGTCTTTCGGGACATATGGACAGAATTACCT
809661 ATGTCTTTCGGGATATATGGACATTATTACCT
66 ATGTCTTTCGGGATATATGGACATTATTACCT
809693 ATGT-CTTTCGAGACATATGGACAG-TAGTACCTATGTCTTTCGGGACATATGGACAGAATTACC
1 ATGTCCTTT-GAGACATATGGACAGATAGTACCTATGTCTTTCGGGACATATGGACAGAATTACC
809756 TATGTCTTTCGGGATATATGGACA
65 TATGTCTTTCGGGATATATGGACA
809780 GTTACCTATG
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
96 64 0.77
97 19 0.23
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (97 bp):
ATGTCCTTTGAGACATATGGACAGATAGTACCTATGTCTTTCGGGACATATGGACAGAATTACCT
ATGTCTTTCGGGATATATGGACATTATTACCT
Found at i:822695 original size:16 final size:17
Alignment explanation
Indices: 822654--822702 Score: 73
Period size: 16 Copynumber: 2.9 Consensus size: 17
822644 ATATTTCTAA
*
822654 AAGAATTAGAATCTGTG
1 AAGAATTGGAATCTGTG
822671 AAGGAATTGGAATCTGT-
1 AA-GAATTGGAATCTGTG
822688 AAGAATTGGAATCTG
1 AAGAATTGGAATCTG
822703 AATATGAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 13 0.43
17 4 0.13
18 13 0.43
ACGTcount: A:0.39, C:0.06, G:0.27, T:0.29
Consensus pattern (17 bp):
AAGAATTGGAATCTGTG
Found at i:826420 original size:23 final size:23
Alignment explanation
Indices: 826392--826446 Score: 110
Period size: 23 Copynumber: 2.4 Consensus size: 23
826382 TAACCCATTG
826392 ACTTTGACTAGAGTTGATAGTTA
1 ACTTTGACTAGAGTTGATAGTTA
826415 ACTTTGACTAGAGTTGATAGTTA
1 ACTTTGACTAGAGTTGATAGTTA
826438 ACTTTGACT
1 ACTTTGACT
826447 TTGATCAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (23 bp):
ACTTTGACTAGAGTTGATAGTTA
Found at i:827139 original size:69 final size:69
Alignment explanation
Indices: 827062--827203 Score: 275
Period size: 69 Copynumber: 2.1 Consensus size: 69
827052 ATTGCCTGTC
827062 TTATGATCTTTGGTTACTGTTTTACTAAATTGATTATATGTCTGAACTCTGATTTACTGCTACCA
1 TTATGATCTTTGGTTACTGTTTTACTAAATTGATTATATGTCTGAACTCTGATTTACTGCTACCA
827127 CTAG
66 CTAG
*
827131 TTATGATCTTTGGTTACTGTTTTACTAAATTGATTATCTGTCTGAACTCTGATTTACTGCTACCA
1 TTATGATCTTTGGTTACTGTTTTACTAAATTGATTATATGTCTGAACTCTGATTTACTGCTACCA
827196 CTAG
66 CTAG
827200 TTAT
1 TTAT
827204 TGTCTGAAAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 72 1.00
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (69 bp):
TTATGATCTTTGGTTACTGTTTTACTAAATTGATTATATGTCTGAACTCTGATTTACTGCTACCA
CTAG
Found at i:830120 original size:44 final size:44
Alignment explanation
Indices: 829989--830175 Score: 160
Period size: 44 Copynumber: 4.2 Consensus size: 44
829979 AGTTTAGATA
* * * * *
829989 TTTTGTGGCGTTTGTAACAAAAAAACGCCGCTACATACCAGACA
1 TTTTGCGGCGTTTGTATCATAAAAACGCCGCTATATACCAGACC
* * * * *
830033 TTTGGCGGCATTTGTATCCTTAAAACACCGCTATATACCAGACC
1 TTTTGCGGCGTTTGTATCATAAAAACGCCGCTATATACCAGACC
*
830077 TTTTGCGGCGTTTGTAT-ATGAAAAACGCCTCTATATACCAGACC
1 TTTTGCGGCGTTTGTATCAT-AAAAACGCCGCTATATACCAGACC
** * * * * * * *
830121 TGCTGTGGCGTTTGTATCCAAAAAAACACCGTTAAATATCTAGACT
1 TTTTGCGGCGTTTGTAT-CATAAAAACGCCGCTATATA-CCAGACC
830167 TTTTGCGGC
1 TTTTGCGGC
830176 ATTTTTGGAA
Statistics
Matches: 110, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
43 1 0.01
44 84 0.76
45 13 0.12
46 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
TTTTGCGGCGTTTGTATCATAAAAACGCCGCTATATACCAGACC
Found at i:831438 original size:31 final size:31
Alignment explanation
Indices: 831393--831481 Score: 124
Period size: 31 Copynumber: 2.9 Consensus size: 31
831383 CTCAGGCCTC
* * *
831393 AGTGATCACATCTTAATTAAACAAAATCAAA
1 AGTGATCAAATCTTAATTAAATAAAAACAAA
* * *
831424 AGTGGTCAAATCTTAGTTAAATAAAAACGAA
1 AGTGATCAAATCTTAATTAAATAAAAACAAA
831455 AGTGATCAAATCTTAATTAAATAAAAA
1 AGTGATCAAATCTTAATTAAATAAAAA
831482 TGAAAATAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 50 1.00
ACGTcount: A:0.52, C:0.11, G:0.10, T:0.27
Consensus pattern (31 bp):
AGTGATCAAATCTTAATTAAATAAAAACAAA
Found at i:831496 original size:31 final size:31
Alignment explanation
Indices: 831430--831496 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
831420 CAAAAGTGGT
* * * *
831430 CAAATCTTAGTTAAATAAAAACGAAAGTGAT
1 CAAATCTTAATTAAATAAAAACGAAAATAAC
*
831461 CAAATCTTAATTAAATAAAAATGAAAATAAC
1 CAAATCTTAATTAAATAAAAACGAAAATAAC
831492 CAAAT
1 CAAAT
831497 ATTATGCTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.57, C:0.10, G:0.07, T:0.25
Consensus pattern (31 bp):
CAAATCTTAATTAAATAAAAACGAAAATAAC
Found at i:831710 original size:5 final size:5
Alignment explanation
Indices: 831700--833069 Score: 2550
Period size: 5 Copynumber: 277.8 Consensus size: 5
831690 GTGTCATTTT
831700 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
831750 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
831800 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
831850 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
831900 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
831950 TT-TG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
831999 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832049 TTATG -T-TG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832097 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832147 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832197 TTA-- TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832245 TTATG TTATG TTATG TTATG TTATG -T-TG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832293 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832343 TTATG TTATG TTATG TTATG TTATG TTATG TTATG -TATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832392 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG -T-TATG TTATG TTATG
832444 TTATG TTATG TTATG TTATG TT-TG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832493 TTATG TTATG TTATG TTATG TTATG TTATG TTATG -TATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832542 TTATG -TATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832591 -TATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832640 TTATG TTATG TTATG TTATG -T-TG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832688 -T-TG TTATG TTATG TTATG TT-TG -TATG TTATG TTATG TTATG -T-TG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832732 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832782 TTATG TTATG TT-TG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832831 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TT-TG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
*
832880 TTATG TATGTG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG T-TATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832931 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
832981 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTATG
833031 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTAT
1 TTATG TTATG TTATG TTATG TTATG TTATG TTATG TTAT
833070 AATTCATATG
Statistics
Matches: 1338, Mismatches: 2, Indels: 50
0.96 0.00 0.04
Matches are distributed among these distances:
3 14 0.01
4 46 0.03
5 1268 0.95
6 6 0.00
7 4 0.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
TTATG
Found at i:838039 original size:14 final size:14
Alignment explanation
Indices: 838020--838058 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
838010 TTAAAAAAAA
838020 TATTATTATTTTAT
1 TATTATTATTTTAT
838034 TATTATTA-TTTAT
1 TATTATTATTTTAT
*
838047 TTTTATT-TTTTA
1 TATTATTATTTTA
838059 GGCCCTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTATTTTAT
Found at i:839356 original size:20 final size:20
Alignment explanation
Indices: 839331--839368 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
839321 TTTTCTCTTT
839331 TGTTTTCCCTTTAAATATTG
1 TGTTTTCCCTTTAAATATTG
839351 TGTTTTCCCTTTAAATAT
1 TGTTTTCCCTTTAAATAT
839369 GTTTGTGTAA
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:0.21, C:0.16, G:0.08, T:0.55
Consensus pattern (20 bp):
TGTTTTCCCTTTAAATATTG
Found at i:839482 original size:13 final size:13
Alignment explanation
Indices: 839460--839567 Score: 66
Period size: 13 Copynumber: 8.2 Consensus size: 13
839450 CTCCTTTTTA
839460 TTTA-TTTATTAT
1 TTTATTTTATTAT
839472 TTTATTTTATT-T
1 TTTATTTTATTAT
839484 TATTATTTT-TTA-
1 T-TTATTTTATTAT
* *
839496 CTAACTTTTATTTAT
1 TTTA-TTTTA-TTAT
*
839511 CTTTTTTTTATTTAT
1 -TTTATTTTA-TTAT
*
839526 CTT-TTTTATCTAT
1 TTTATTTTAT-TAT
839539 TTTATTTTATTAT
1 TTTATTTTATTAT
*
839552 TATATTATTATT-T
1 TTTATT-TTATTAT
839565 TTT
1 TTT
839568 CTCTTTTTTT
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
11 2 0.03
12 13 0.17
13 34 0.45
14 16 0.21
15 10 0.13
16 1 0.01
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTTATTAT
Found at i:839574 original size:70 final size:73
Alignment explanation
Indices: 839441--839595 Score: 187
Period size: 73 Copynumber: 2.2 Consensus size: 73
839431 TTCAACATCA
* * *
839441 TTCAT-TTTACTCCTTTTTATTTATTTATTATTTTATTTTATTTTATTATTTTTTACTAACTTTT
1 TTCATATTTA-TCTTTTTTATCTATTTATTATTTTATTTTATATTATTATTTTTTACT-ACTTTT
839505 ATTTATCTTTT
64 -TTTATCTTTT
*
839516 TT-TTATTTATCTTTTTTATCTA-TT-TTATTTTATTATTATATTATTATTTTTT-CT-CTTTTT
1 TTCATATTTATCTTTTTTATCTATTTATTATTTTATT-TTATATTATTATTTTTTACTACTTTTT
*
839576 TTCTCTTTT
65 TTATCTTTT
839585 TTCATATTTAT
1 TTCATATTTAT
839596 TAATTTATTT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
69 11 0.15
70 12 0.17
72 12 0.17
73 18 0.25
74 12 0.17
75 6 0.08
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (73 bp):
TTCATATTTATCTTTTTTATCTATTTATTATTTTATTTTATATTATTATTTTTTACTACTTTTTT
TATCTTTT
Found at i:839587 original size:9 final size:10
Alignment explanation
Indices: 839562--839586 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
839552 TATATTATTA
839562 TTTTTTCTCT
1 TTTTTTCTCT
839572 TTTTTTCTCT
1 TTTTTTCTCT
839582 TTTTT
1 TTTTT
839587 CATATTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTTCTCT
Found at i:843410 original size:95 final size:95
Alignment explanation
Indices: 843225--843400 Score: 273
Period size: 95 Copynumber: 1.9 Consensus size: 95
843215 TTATATATAT
* ** *
843225 ACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACGCCCCGGTTTTATGGATAATATT
1 ACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACACCCCGACTTTATGGATAAGATT
*
843290 CAGCTAGCCTAATAAAGGTAATTATACTAC
66 CAGCTAACCTAATAAAGGTAATTATACTAC
*
843320 ACAATAAAGCTTGAGTTGTCCCTCTA-AGGCAATTGGTTAAACACCCCGACTTTATGGATAAGAT
1 ACAATAAAGCTTGAGTTGTCCCTCTAGA-GAAATTGGTTAAACACCCCGACTTTATGGATAAGAT
*
843384 TCAGCTAACCTGATAAA
65 TCAGCTAACCTAATAAA
843401 TGTGTTTATA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 1 0.01
95 72 0.99
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (95 bp):
ACAATAAAGCTTGAGTTGTCCCTCTAGAGAAATTGGTTAAACACCCCGACTTTATGGATAAGATT
CAGCTAACCTAATAAAGGTAATTATACTAC
Found at i:844584 original size:110 final size:110
Alignment explanation
Indices: 844383--844692 Score: 470
Period size: 110 Copynumber: 2.9 Consensus size: 110
844373 GATGGTGGTT
*
844383 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
*
844448 AATTTCAACTTCACAGTGAAGGATATTGGACTCAAGACAACACAA
66 AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAA
* * *
844493 GCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAACTTTTTAGTTTCATTTAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
* *
844558 AAGTTT-AACTTCACAGCGAAGTATATTGGACTCGAGACAACACAA
66 AA-TTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAA
* * *
844603 GCTCAACTTCACAACGAAGGGGCGACTGATTGTCAACAAACAACTTTCCAG--T--TTCAGAGTC
1 GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
844664 AATTTCAACTTCAC-GACGAAGGATATTGG
66 AATTTCAACTTCACAG-CGAAGGATATTGG
844693 CCTCGAAACA
Statistics
Matches: 183, Mismatches: 14, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
105 4 0.02
106 30 0.16
108 1 0.01
110 145 0.79
111 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACACAA
Found at i:844844 original size:116 final size:115
Alignment explanation
Indices: 844713--845249 Score: 738
Period size: 116 Copynumber: 4.6 Consensus size: 115
844703 GCACAAATAT
*
844713 TTGGACTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGAGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAG-GGCCAT
* *
844778 CCACGGTTTCAACTTCACGACGAAGGGAATCGTGCTCACCAGCAACATTTA
65 CCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCA
*
844829 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAATGGGCCTT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGCCAT
* * * *
844894 CCACGGTTTCAACTTCACGACGAAGGGAAT-ATTACTAATCAACAACATTCA
65 CCACGGTTTCAACTTCACGACGAAGGGAATCA-TGCTCACCAGCAACATTCA
* * *
844945 TTGGATTTCAACTTCATGACGAAGGATATCCAATTCAAGGCTCAATTTCACAATGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGCCAT
*
845010 CCACGGTTTCAACTTCA-TAGCGAAGGGAATCATGCTCACCAGCAACATTCA
65 CCACGGTTTCAACTTCACGA-CGAAGGGAATCATGCTCACCAGCAACATTCA
* * *
845061 TTGGATTTCAACTTCATGATGAAGGATATCCAATTTAAGGCTCAACTTCACAACGAATGGGCCAT
1 TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGCCAT
* * * *
845126 CCACGGTTTCAACTTCACAACGAAGGGAATCATGCCCACAAG-AAGCAATGCAA
65 CCACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACCAGCAA-C-ATTC-A
* * *
845179 CCCTTGGATTTCAACTTCACGATGAAGGATATCCAATTTAAGGCTCAACTTCACGACGAAGGGGC
1 ---TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAA-GGGC
845244 CATCCA
62 CATCCA
845250 AATTTCAATT
Statistics
Matches: 380, Mismatches: 30, Indels: 17
0.89 0.07 0.04
Matches are distributed among these distances:
115 3 0.01
116 305 0.80
117 6 0.02
118 1 0.00
121 65 0.17
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (115 bp):
TTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGCCATC
CACGGTTTCAACTTCACGACGAAGGGAATCATGCTCACCAGCAACATTCA
Found at i:845453 original size:84 final size:82
Alignment explanation
Indices: 845281--845600 Score: 367
Period size: 81 Copynumber: 3.9 Consensus size: 82
845271 GATATCGTGT
* * * * *
845281 TCATTTGCAACATAGCTCAAGGTAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTA
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGTC--C-AAAGACCTTCGAGTTCGACTC
* * **
845346 CGCTCAGCTCCAAGGCA-TT
63 CACTCAGCTCAAAGGCACCA
* * * *
845365 TCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTCAGTAAAGACCTTCGAGTTCGACTCC
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGTC--CAAAGACCTTCGAGTTCGACTCC
* *
845430 ACTCAACACAAAGGCACCA
64 ACTCAGCTCAAAGGCACCA
* * *
845449 TCATTTGCGACATAACTCAAGGAAAGAAGGGCTATCTG-CCAAAGACCTTTGAGTTCGACTCCAC
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGTCCAAAGACCTTCGAGTTCGACTCCAC
*
845513 TCAGCTCAAAGACACCA
66 TCAGCTCAAAGGCACCA
* * * *
845530 TCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCT-TCCAAAGACCTTCGAGTTCGATTCCAT
1 TCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGTCCAAAGACCTTCGAGTTCGACTCCAC
845594 TCAGCTC
66 TCAGCTC
845601 GAGGGCGTAT
Statistics
Matches: 201, Mismatches: 33, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
81 100 0.50
83 34 0.17
84 67 0.33
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (82 bp):
TCATTTGCAACATAACTCAAGGCAAGAAGGGCTATCTGTCCAAAGACCTTCGAGTTCGACTCCAC
TCAGCTCAAAGGCACCA
Found at i:847263 original size:20 final size:20
Alignment explanation
Indices: 847238--847275 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
847228 TTTTCCCTTT
847238 TGTTTTCCCATTAAATATTG
1 TGTTTTCCCATTAAATATTG
*
847258 TGTTTTCCCTTTAAATAT
1 TGTTTTCCCATTAAATAT
847276 GTTTGTGTAA
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:0.16, G:0.08, T:0.53
Consensus pattern (20 bp):
TGTTTTCCCATTAAATATTG
Found at i:847443 original size:17 final size:16
Alignment explanation
Indices: 847368--847453 Score: 65
Period size: 17 Copynumber: 5.4 Consensus size: 16
847358 GTCCTTTTTA
847368 TTTA-TTTATTAATTAT
1 TTTATTTTATT-ATTAT
847384 TTTATTTTATTATT-T
1 TTTATTTTATTATTAT
* *
847399 TTTA-CTAACTT-TTA-
1 TTTATTTTA-TTATTAT
*
847413 TTTATCTTTTTTATCTAT
1 TTTAT-TTTATTAT-TAT
847431 TTTATTTTATTATTAT
1 TTTATTTTATTATTAT
847447 TATTATT
1 T-TTATT
847454 AATATTTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
14 8 0.15
15 9 0.16
16 13 0.24
17 20 0.36
18 5 0.09
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTATTTTATTATTAT
Found at i:848471 original size:60 final size:59
Alignment explanation
Indices: 848318--848479 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 59
848308 AAATCATCAT
* * * * *
848318 CGCTACTTTAGCTAGTCTCTTTATTATTGAAAGGTATAAAATGATCATTCGATTATAGGA
1 CGCTACTTTA-TTAGTCTCTTAATTATTGAAAGTTATAAAATAATCATTCAATTATAGGA
* * * * * *
848378 CGTTATTTTATTTAATATCTTAACTGTTGAAAGTTATAAAATAATC-TCTCAATTATAGGA
1 CGCTACTTTA-TTAGTCTCTTAATTATTGAAAGTTATAAAATAATCAT-TCAATTATAGGA
* * *
848438 CGCTACTTTATTGAGTCTCCTAATTATTAAAAGTTACAAAAT
1 CGCTACTTTATT-AGTCTCTTAATTATTGAAAGTTATAAAAT
848480 GACCATCTAA
Statistics
Matches: 79, Mismatches: 21, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
59 3 0.04
60 76 0.96
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (59 bp):
CGCTACTTTATTAGTCTCTTAATTATTGAAAGTTATAAAATAATCATTCAATTATAGGA
Found at i:848841 original size:15 final size:15
Alignment explanation
Indices: 848797--848846 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
848787 ATGTAAAATG
848797 TATATGTATAT-AATA
1 TATAT-TATATCAATA
*
848812 TATA-CATA-C-ATA
1 TATATTATATCAATA
848824 TATATTATATCAATA
1 TATATTATATCAATA
848839 TATATTAT
1 TATATTAT
848847 GTCATATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 7 0.24
13 6 0.21
14 1 0.03
15 15 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (15 bp):
TATATTATATCAATA
Found at i:848843 original size:19 final size:19
Alignment explanation
Indices: 848798--848843 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
848788 TGTAAAATGT
*
848798 ATATGTATATAATATATAC
1 ATATATATATAATATATAC
* *
848817 ATACATATATATTATAT-C
1 ATATATATATAATATATAC
848835 A-ATATATAT
1 ATATATATAT
848844 TATGTCATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 7 0.30
18 2 0.09
19 14 0.61
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATATATATAATATATAC
Found at i:850288 original size:2 final size:2
Alignment explanation
Indices: 850277--850310 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
850267 TATCTTGCAT
850277 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
850311 GTTATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:850352 original size:26 final size:26
Alignment explanation
Indices: 850317--850444 Score: 84
Period size: 28 Copynumber: 4.7 Consensus size: 26
850307 ATATGTTATT
*
850317 TTTATCTTCTTTATTTTATATATTTA
1 TTTATTTTCTTTATTTTATATATTTA
850343 TTTATTTTCTCTTTTATTTT-TA-ATTT-
1 TTTA-TTT-TC-TTTATTTTATATATTTA
* *
850369 TTAATTTTCTTTATTTTACTTTATTTA
1 TTTATTTTCTTTATTTTA-TATATTTA
* * *
850396 TCTTATTTACTTT-TTTGCTTTATTTTTA
1 T-TTATTTTCTTTATTT--TATATATTTA
*
850424 TTTTTATCTTCTTTATTTTAT
1 --TTTATTTTCTTTATTTTAT
850445 TTTCTTTATT
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
23 8 0.10
24 2 0.03
25 4 0.05
26 11 0.14
27 10 0.13
28 21 0.27
29 18 0.23
30 4 0.05
ACGTcount: A:0.18, C:0.09, G:0.01, T:0.73
Consensus pattern (26 bp):
TTTATTTTCTTTATTTTATATATTTA
Found at i:850395 original size:14 final size:13
Alignment explanation
Indices: 850316--850464 Score: 63
Period size: 14 Copynumber: 10.9 Consensus size: 13
850306 TATATGTTAT
*
850316 TTTTATCTTCTTTA
1 TTTTAT-TTATTTA
*
850330 TTTTATATATTTA
1 TTTTATTTATTTA
* *
850343 -TTTATTT-TCTC
1 TTTTATTTATTTA
*
850354 TTTTATTT-TTAA
1 TTTTATTTATTTA
*
850366 TTTTTAATTTTCTTTA
1 -TTTT-A-TTTATTTA
850382 TTTTACTTTATTTA
1 TTTTA-TTTATTTA
*
850396 TCTTATTTACTTT-
1 TTTTATTTA-TTTA
**
850409 TTTGCTTTATTTTTA
1 TTTTATTTA--TTTA
*
850424 TTTTTATCTTCTTTA
1 -TTTTAT-TTATTTA
*
850439 TTTTATTTTCTTTA
1 TTTTA-TTTATTTA
*
850453 TTTTATTCATTT
1 TTTTATTTATTT
850465 TCACTTTTTT
Statistics
Matches: 103, Mismatches: 21, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
11 2 0.02
12 14 0.14
13 24 0.23
14 42 0.41
15 12 0.12
16 7 0.07
17 2 0.02
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (13 bp):
TTTTATTTATTTA
Found at i:850421 original size:52 final size:51
Alignment explanation
Indices: 850312--850428 Score: 132
Period size: 52 Copynumber: 2.3 Consensus size: 51
850302 TATATATATG
* * *
850312 TTATTTTT-ATCTTCTTTATTTTATATATTTATTTATTTTCTCTTTTATTT
1 TTATTTTTAATTTTCTTTATTTTATATATTTATTTATTTACTCTTTTATCT
*
850362 TTAATTTTTAATTTTCTTTATTTTACTTTATTTATCTTATTTACT-TTTT-TGCT
1 TT-ATTTTTAATTTTCTTTATTTTA-TATATTTAT-TTATTTACTCTTTTAT-CT
*
850415 TTATTTTTATTTTT
1 TTATTTTTAATTTT
850429 ATCTTCTTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
50 2 0.04
51 6 0.11
52 26 0.46
53 15 0.26
54 8 0.14
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.74
Consensus pattern (51 bp):
TTATTTTTAATTTTCTTTATTTTATATATTTATTTATTTACTCTTTTATCT
Found at i:850440 original size:57 final size:54
Alignment explanation
Indices: 850312--850472 Score: 170
Period size: 57 Copynumber: 2.9 Consensus size: 54
850302 TATATATATG
850312 TTATTTTTATCTTCTTTATTTTA--TA--TATTTATTTATTTTCTCTTTTATTT
1 TTATTTTTATCTTCTTTATTTTATTTATTTATTTATTTATTTTCTCTTTTATTT
* *
850362 TTAATTTTTAATTTTCTTTATTTTACTTTATTTATCTTATTTACTTTTTTGC-TTTATTT
1 TT-ATTTTT-ATCTTCTTTATTTTA-TTTATTTAT-TTATTTA-TTTTCT-CTTTTATTT
* * *
850421 TTATTTTTATCTTCTTTATTTTATTTTCTTTATTTTATTCATTTTCACTTTT
1 TTATTTTTATCTTCTTTATTTTA-TTTATTTA-TTTATTTATTTTCTCTTTT
850473 TTAACGTCCT
Statistics
Matches: 91, Mismatches: 8, Indels: 18
0.78 0.07 0.15
Matches are distributed among these distances:
50 2 0.02
51 6 0.07
52 14 0.15
55 3 0.03
56 7 0.08
57 30 0.33
58 14 0.15
59 14 0.15
60 1 0.01
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (54 bp):
TTATTTTTATCTTCTTTATTTTATTTATTTATTTATTTATTTTCTCTTTTATTT
Found at i:850445 original size:26 final size:26
Alignment explanation
Indices: 850312--850447 Score: 93
Period size: 26 Copynumber: 5.0 Consensus size: 26
850302 TATATATATG
850312 TTATTTTTATCTTCTTTATTTTATATAT
1 TTATTTTTATCTTCTTTATTTTAT-T-T
* *
850340 TTA--TTTAT-TT-TCTCTTTTATTT
1 TTATTTTTATCTTCTTTATTTTATTT
*
850362 TTAATTTTTAATTTTCTTTATTTTACTTTAT
1 TT-ATTTTT-ATCTTCTTTATTTTA--TT-T
* **
850393 TTATCTTATT-TACTTTTTTGCTTTATTT
1 TTAT-TT-TTAT-CTTCTTTATTTTATTT
850421 TTATTTTTATCTTCTTTATTTTATTT
1 TTATTTTTATCTTCTTTATTTTATTT
850447 T
1 T
850448 CTTTATTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 28
0.68 0.09 0.23
Matches are distributed among these distances:
22 3 0.04
23 2 0.02
24 8 0.10
25 5 0.06
26 23 0.27
27 5 0.06
28 15 0.18
29 2 0.02
30 5 0.06
31 14 0.17
32 2 0.02
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.74
Consensus pattern (26 bp):
TTATTTTTATCTTCTTTATTTTATTT
Found at i:852511 original size:21 final size:21
Alignment explanation
Indices: 852467--852511 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
852457 GATTTCTGGG
* *
852467 CAAGGGGAATCGATACCCATT
1 CAAGGGGAACCGATACCCACT
*
852488 CAAGGGGAACCGATACCCCCT
1 CAAGGGGAACCGATACCCACT
852509 CAA
1 CAA
852512 ACGAACCAAA
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:0.33, C:0.31, G:0.22, T:0.13
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCACT
Found at i:852584 original size:23 final size:22
Alignment explanation
Indices: 852536--852584 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
852526 ACAGAATGTC
852536 AAGG-GGGAACCGATACCCCCA
1 AAGGAGGGAACCGATACCCCCA
* *
852557 CAGGAGGGAACCGATTCCCCCGA
1 AAGGAGGGAACCGATACCCCC-A
852580 AAGGA
1 AAGGA
852585 AAATTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 3 0.13
22 15 0.65
23 5 0.22
ACGTcount: A:0.33, C:0.31, G:0.31, T:0.06
Consensus pattern (22 bp):
AAGGAGGGAACCGATACCCCCA
Found at i:856911 original size:16 final size:17
Alignment explanation
Indices: 856875--856911 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
856865 TTCTAAAGGT
*
856875 CTAAAATAACTAATGAA
1 CTAAAATAACTAATAAA
856892 -TAAAATAA-TAATAAA
1 CTAAAATAACTAATAAA
856907 CTAAA
1 CTAAA
856912 CATATCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (17 bp):
CTAAAATAACTAATAAA
Found at i:864012 original size:23 final size:23
Alignment explanation
Indices: 863986--864031 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
863976 CACCACAGTT
*
863986 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
864009 CGTAGAATTGCACCGTAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
864032 TATAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:864248 original size:149 final size:149
Alignment explanation
Indices: 864009--864313 Score: 565
Period size: 149 Copynumber: 2.0 Consensus size: 149
863999 CGAAGTGCCA
*
864009 CGTAGAATTGCACCGTAGTGCCATATAATAATATCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGACCACATATTATTCCTTAAGAAT
*
864074 CATATACATATACTAGGGATCAAGTATATGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 AATATACATATACTAGGGATCAAGTATATGTCTTACAAGACTTCACACATGTTCCACAGAATATA
864139 TATATATCCCGAAGGACCG
131 TATATATCCCGAAGGACCG
*
864158 CGTAGAATTGCACCGTAGTACCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGACCACATATTATTCCTTAAGAAT
*
864223 AATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 AATATACATATACTAGGGATCAAGTATATGTCTTACAAGACTTCACACATGTTCCACAGAATATA
*
864288 TATATATCCCGAATGACCG
131 TATATATCCCGAAGGACCG
864307 CGTAGAA
1 CGTAGAA
864314 CCCTCGACTC
Statistics
Matches: 151, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.28
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTACCATATAATAATATCCATAAGGACCACATATTATTCCTTAAGAAT
AATATACATATACTAGGGATCAAGTATATGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATATCCCGAAGGACCG
Found at i:868288 original size:23 final size:24
Alignment explanation
Indices: 868236--868289 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
868226 ACATTATTAT
868236 ATGGCACTACGGTGCAATTCTACG
1 ATGGCACTACGGTGCAATTCTACG
* *
868260 AT-GCACTACGGTGTACTTCTACG
1 ATGGCACTACGGTGCAATTCTACG
868283 -TGGCACT
1 ATGGCACT
868290 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 1 0.04
23 24 0.89
24 2 0.07
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (24 bp):
ATGGCACTACGGTGCAATTCTACG
Found at i:868356 original size:16 final size:17
Alignment explanation
Indices: 868335--868368 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
868325 GTGCACAACC
868335 TCCATAG-ACTCACATA
1 TCCATAGTACTCACATA
*
868351 TCCATAGTTCTCACATA
1 TCCATAGTACTCACATA
868368 T
1 T
868369 GTACATGGGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.32, C:0.29, G:0.06, T:0.32
Consensus pattern (17 bp):
TCCATAGTACTCACATA
Found at i:872298 original size:39 final size:39
Alignment explanation
Indices: 872209--872299 Score: 96
Period size: 39 Copynumber: 2.3 Consensus size: 39
872199 GGTATTCTCA
* *
872209 ATTTACCTAAAGA-CACCATGCAGTCGTGGAATCTTCTTT
1 ATTTACCTGAAGATC-CCATGCAGTCGTGGAATCTTCTAT
* **
872248 GTTTACCTGAAGATCCCATGCAGTCGTGGTGTCTTC-AT
1 ATTTACCTGAAGATCCCATGCAGTCGTGGAATCTTCTAT
*
872286 ATTTAGCTTGAAGA
1 ATTTA-CCTGAAGA
872300 CACGTGGAGC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
38 5 0.12
39 37 0.86
40 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (39 bp):
ATTTACCTGAAGATCCCATGCAGTCGTGGAATCTTCTAT
Found at i:872695 original size:14 final size:15
Alignment explanation
Indices: 872678--872712 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
872668 AAATATTAAA
872678 ATTATTTATCT-AAT
1 ATTATTTATCTGAAT
*
872692 ATTATTTATGTGAAT
1 ATTATTTATCTGAAT
872707 ATTATT
1 ATTATT
872713 ATTAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (15 bp):
ATTATTTATCTGAAT
Found at i:872721 original size:14 final size:14
Alignment explanation
Indices: 872704--872778 Score: 63
Period size: 13 Copynumber: 5.7 Consensus size: 14
872694 TATTTATGTG
872704 AATATTATTATTAA
1 AATATTATTATTAA
*
872718 AATATTA-TATTTA
1 AATATTATTATTAA
*
872731 CA-ATT-TTATTAA
1 AATATTATTATTAA
*
872743 TATATT-TTATTAA
1 AATATTATTATTAA
*
872756 AATAAATATTA-TAA
1 AAT-ATTATTATTAA
872770 AATA-TATTA
1 AATATTATTA
872779 AATATTTACT
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
12 14 0.27
13 19 0.37
14 15 0.29
15 3 0.06
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:872819 original size:35 final size:36
Alignment explanation
Indices: 872736--872819 Score: 95
Period size: 35 Copynumber: 2.4 Consensus size: 36
872726 ATTTACAATT
*
872736 TTATTAATATATTTTATTAAAATAAATATTATAAAATA
1 TTATTAATATA-TTTACTAAAATAAATA-TATAAAATA
*
872774 -TATTAA-ATATTTACTAAAATAAA-A-ATAATATA
1 TTATTAATATATTTACTAAAATAAATATATAAAATA
872806 TTATTAATTATATT
1 TTATTAA-TATATT
872820 ATTACTTATT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
32 7 0.17
33 6 0.15
34 1 0.02
35 18 0.44
36 3 0.07
37 6 0.15
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (36 bp):
TTATTAATATATTTACTAAAATAAATATATAAAATA
Found at i:872833 original size:41 final size:41
Alignment explanation
Indices: 872754--872841 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
872744 ATATTTTATT
*
872754 AAAATAAATATTATAAAATATATTAAATATTTACTAAAATA
1 AAAATAAATATTATAAAATATATTAAATACTTACTAAAATA
* * * *
872795 AAAATAATATATTATTAATTATATT-ATTACTTATTAAAATA
1 AAAATAA-ATATTATAAAATATATTAAATACTTACTAAAATA
*
872836 ATAATA
1 AAAATA
872842 GTATTAAACT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
41 25 0.62
42 15 0.38
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (41 bp):
AAAATAAATATTATAAAATATATTAAATACTTACTAAAATA
Found at i:874301 original size:3 final size:3
Alignment explanation
Indices: 874293--874341 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
874283 TCTTTTTTAA
** * *
874293 TAT TAT TAT TAT TAT CGT TA- TAT TAT TAT TAT TAC TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
874340 TA
1 TA
874342 ATTTACAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Done.