Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_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: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 78
Found at i:7086410 original size:117 final size:117
Alignment explanation
Indices: 7085920--7086389 Score: 651
Period size: 117 Copynumber: 4.0 Consensus size: 117
7085910 GATCACCATC
* * **
7085920 ATCTTTGTTCGATTCCATCACAGAATGAGGTAGATCAACATTTCCAGTTAAGAGTTCATAATGAG
1 ATCTTTGTTCGATTCCATCACAGAATGAGGTGGATCAACATTTCCAATGGAGAGTTCATAATGAG
* * *
7085985 AAGAACTCATCCAATAAGAGAGAAGAAATTCATAATGGGAAGAACTTGTTCA
66 AAGAACTCATCCGATAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
7086037 ATCTTTGTTCGATTCCATCACAGAATGAGGTGGATCAACATTTCCAGTGGAAAGTTCATAATGAG
1 ATCTTTGTTCGATTCCATCACAGAATGAGGTGGATCAACATTTCCAATGGAGAGTTCATAATGAG
* * * *
7086102 AAGAACTCATCCGATAAGATAAAAAAAGTTCATAACGAGAAGAACTTGTTCA
66 AAGAACTCATCCGATAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* * * * * * * *
7086154 ATCTTTGTTCAAATCCATCATAGAA-GAAGGTGGATTATCATTCCCAATTGAGAGTTCACAAT--
1 ATCTTTGTTCGATTCCATCACAGAATG-AGGTGGATCAACATTTCCAATGGAGAGTTCATAATGA
*
7086216 G-AGAACTCATCCGATAAGATAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
65 GAAGAACTCATCCGATAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
* *
7086268 ATCTTTGTTCGATTCCCTCACAGAATGAGGTGGATCATCATTTCCAATGGAGAGTTCATAATGAG
1 ATCTTTGTTCGATTCCATCACAGAATGAGGTGGATCAACATTTCCAATGGAGAGTTCATAATGAG
* * * *
7086333 AAGAATTCATCCTACAAGAGAGAAGAAGTTCATAATGAGAAAAACTTGTTCA
66 AAGAACTCATCCGATAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
7086385 ATCTT
1 ATCTT
7086390 GGTCTGATTT
Statistics
Matches: 311, Mismatches: 37, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
114 100 0.32
115 2 0.01
116 2 0.01
117 207 0.67
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (117 bp):
ATCTTTGTTCGATTCCATCACAGAATGAGGTGGATCAACATTTCCAATGGAGAGTTCATAATGAG
AAGAACTCATCCGATAAGAGAGAAGAAGTTCATAATGAGAAGAACTTGTTCA
Found at i:7088164 original size:24 final size:23
Alignment explanation
Indices: 7088110--7088165 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 23
7088100 ATATATATGT
7088110 TTATTTTATTATTATTTTTTACTA
1 TTATTTTATTATTATTTTTTAC-A
* *
7088134 TTTTTTTATTATTTGTTGTTTTA-A
1 TTATTTTATTA-TTATT-TTTTACA
7088158 TTATTTTA
1 TTATTTTA
7088166 ATTAAGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 18 0.67
25 4 0.15
26 5 0.19
ACGTcount: A:0.21, C:0.02, G:0.04, T:0.73
Consensus pattern (23 bp):
TTATTTTATTATTATTTTTTACA
Found at i:7088982 original size:3 final size:3
Alignment explanation
Indices: 7088976--7089022 Score: 51
Period size: 3 Copynumber: 16.0 Consensus size: 3
7088966 TTAATTAAAA
* * * *
7088976 TAT TAT TAT TAT TAT TAT TAT CAT TAT T-T TTT TAT TTT TAT TCT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7089023 AATACACTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.26, C:0.04, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:7093217 original size:24 final size:24
Alignment explanation
Indices: 7093190--7093243 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
7093180 ATCAAGACAA
* *
7093190 AATTTAGATCA-GATATCAGAACAT
1 AATTCAGATCATG-TATCAGAACAG
*
7093214 AATTCAGGTCATGTATCAGAACAG
1 AATTCAGATCATGTATCAGAACAG
7093238 AATTCA
1 AATTCA
7093244 AGTCGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (24 bp):
AATTCAGATCATGTATCAGAACAG
Found at i:7096382 original size:17 final size:17
Alignment explanation
Indices: 7096345--7096381 Score: 67
Period size: 16 Copynumber: 2.2 Consensus size: 17
7096335 AAACAAAGAG
7096345 AAAAGAAGCAAAGCAAA
1 AAAAGAAGCAAAGCAAA
7096362 AAAAG-AGCAAAGCAAA
1 AAAAGAAGCAAAGCAAA
7096378 AAAA
1 AAAA
7096382 AAAAGAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.73, C:0.11, G:0.16, T:0.00
Consensus pattern (17 bp):
AAAAGAAGCAAAGCAAA
Found at i:7096393 original size:16 final size:17
Alignment explanation
Indices: 7096345--7096403 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 17
7096335 AAACAAAGAG
*
7096345 AAAAGAAGCAAAGCAAAA
1 AAAAGAAACAAAG-AAAA
7096363 AAAGAGCAAAGCAAA-AAAA
1 AAA-AG-AAA-CAAAGAAAA
7096382 AAAAGAAACAAAGAGAAA
1 AAAAGAAACAAAGA-AAA
7096400 AAAA
1 AAAA
7096404 AAGTAAAAGA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
16 4 0.11
17 4 0.11
18 12 0.34
19 9 0.26
20 2 0.06
21 4 0.11
ACGTcount: A:0.76, C:0.08, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAGAAACAAAGAAAA
Found at i:7096393 original size:21 final size:19
Alignment explanation
Indices: 7096359--7096418 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
7096349 GAAGCAAAGC
*
7096359 AAAAAAAGAGCAAAGCAAAA
1 AAAAAAAGAACAAAG-AAAA
*
7096379 AAAAAAAGAAACAAAGAGAA
1 AAAAAAAG-AACAAAGAAAA
*
7096399 AAAAAAAGTA-AAAGAAAA
1 AAAAAAAGAACAAAGAAAA
7096417 AA
1 AA
7096419 TAAGACAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
18 9 0.26
19 1 0.03
20 19 0.54
21 6 0.17
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAACAAAGAAAA
Found at i:7097997 original size:131 final size:131
Alignment explanation
Indices: 7097758--7098077 Score: 390
Period size: 131 Copynumber: 2.4 Consensus size: 131
7097748 CTTGAAACAA
* * * * * *
7097758 ATCCCTAAAGATGGCCAGTTATCCTCATCGCATAGAAACCGTGTCATCCACCGGCCAAACCTCTT
1 ATCCCTAAAGATGG-CAGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAAACCTCCT
* * * * **
7097823 CATCACGTATGAGTTGTGTCACCCTTAGATAACCAGCTGTCCTCATCATGTAGGAACTGTGTTAT
65 CATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCTATCCTCATCACATAGGAACTGTGTTAT
*
7097888 -T
130 CC
* * * *
7097889 ATCCCTAAAGATGGTCTGTCATCCTCATCACGTAGGAACCGTTTCATCCACCGATCGAACCTCCT
1 ATCCCTAAAGATGG-CAGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAAACCTCCT
*
7097954 CATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCTATCCTCATCGCATAGGAACTGTGTTAT
65 CATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCTATCCTCATCACATAGGAACTGTGTTAT
7098019 CACC
130 --CC
* * * *
7098023 ATTCCTAAAAATGGCAAGTCGTCCTCATCACGTAGGAATCGTGTCATCCACCGAC
1 ATCCCTAAAGATGGC-AGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGAC
7098078 TAGATCTTCG
Statistics
Matches: 159, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
131 112 0.70
133 1 0.01
134 46 0.29
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (131 bp):
ATCCCTAAAGATGGCAGTCATCCTCATCACGTAGGAACCGTGTCATCCACCGACCAAACCTCCTC
ATCACGTAGGAGTCGTGTCACCCCTAGATAACCAGCTATCCTCATCACATAGGAACTGTGTTATC
C
Found at i:7098308 original size:3 final size:3
Alignment explanation
Indices: 7098300--7098344 Score: 72
Period size: 3 Copynumber: 15.0 Consensus size: 3
7098290 TTAATTAAAA
**
7098300 TAT TAT TAT TAT CCT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7098345 ACATTTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:7100701 original size:23 final size:23
Alignment explanation
Indices: 7100675--7100737 Score: 117
Period size: 23 Copynumber: 2.7 Consensus size: 23
7100665 ATTAAAGTCA
7100675 TAATTGTTTTTAAAAATAATATT
1 TAATTGTTTTTAAAAATAATATT
7100698 TAATTGTTTTTAAAAATAATATT
1 TAATTGTTTTTAAAAATAATATT
7100721 TAATTGTTTTTCAAAAA
1 TAATTGTTTTT-AAAAA
7100738 AAATGGTTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
23 34 0.87
24 5 0.13
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (23 bp):
TAATTGTTTTTAAAAATAATATT
Found at i:7102191 original size:12 final size:12
Alignment explanation
Indices: 7102174--7102205 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7102164 ATCAACATTT
7102174 TTTGCATCTACA
1 TTTGCATCTACA
7102186 TTTGCATCTACA
1 TTTGCATCTACA
7102198 TTTGCATC
1 TTTGCATC
7102206 ATTGCATTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.25, G:0.09, T:0.44
Consensus pattern (12 bp):
TTTGCATCTACA
Found at i:7103608 original size:14 final size:14
Alignment explanation
Indices: 7103585--7103625 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
7103575 AACAAAGAGC
*
7103585 AAAGAAAAAAAAGA
1 AAAGAGAAAAAAGA
7103599 AAAGAGAAAAAA-A
1 AAAGAGAAAAAAGA
*
7103612 TAA-AGAAAAAAGA
1 AAAGAGAAAAAAGA
7103625 A
1 A
7103626 GACAAGAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.35
13 4 0.17
14 11 0.48
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (14 bp):
AAAGAGAAAAAAGA
Found at i:7103611 original size:19 final size:20
Alignment explanation
Indices: 7103555--7103620 Score: 73
Period size: 19 Copynumber: 3.3 Consensus size: 20
7103545 CAAAACAAAT
*
7103555 AGAAAAGAAGCAAAGAAAAAA
1 AGAAAAG-AGCAAAAAAAAAA
*
7103576 A-CAAAGAGCAAAGAAAAAAA
1 AGAAAAGAGCAAA-AAAAAAA
*
7103596 AGAAAAGAG-AAAAAAATAA
1 AGAAAAGAGCAAAAAAAAAA
7103615 AGAAAA
1 AGAAAA
7103621 AAGAAGACAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
19 18 0.46
20 14 0.36
21 7 0.18
ACGTcount: A:0.77, C:0.05, G:0.17, T:0.02
Consensus pattern (20 bp):
AGAAAAGAGCAAAAAAAAAA
Found at i:7104946 original size:65 final size:66
Alignment explanation
Indices: 7104859--7105034 Score: 212
Period size: 65 Copynumber: 2.7 Consensus size: 66
7104849 ATTTTTAATC
* * * ** *
7104859 AAAACAAGTTTTGTTTCTCTTGATACAGTTTCTCTTGAAACATCATCTTTGAGATC-ATTTCCCT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCCTTGAG-TCTATTTCCCT
7104923 T-
65 TA
* * *
7104924 GAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCCTTGAGTCTGTTTCCCT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAAC-AAAATCCTTGAGTCTATTTCCCT
7104989 TA
65 TA
* * *
7104991 AAAACAAATTTTGTCTCTCTTGAGACAATTTTTCTTAAAACAAA
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
7105035 TCCCTAAAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
65 38 0.40
66 20 0.21
67 36 0.38
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (66 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCCTTGAGTCTATTTCCCTT
A
Found at i:7105032 original size:67 final size:66
Alignment explanation
Indices: 7104859--7105034 Score: 212
Period size: 67 Copynumber: 2.7 Consensus size: 66
7104849 ATTTTTAATC
* * * ** *
7104859 AAAACAAGTTTTGTTTCTCTTGATACAGTTTCTCTTGAAAC-ATCATCTTTGAGATCATTTCCCT
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCCTTGAGATCATTTCCCT
7104923 T
66 T
* * *
7104924 GAAACGAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCCTTGAG-TCTGTTTCCC
1 AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCCTTGAGATC-ATTTCCC
7104988 TT
65 TT
* * *
7104990 AAAAACAAATTTTGTCTCTCTTGAGACAATTTTTCTTAAAACAAA
1 -AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAA
7105035 TCCCTAAAGA
Statistics
Matches: 94, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 38 0.40
66 17 0.18
67 39 0.41
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.39
Consensus pattern (66 bp):
AAAACAAATTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAAATCCTTGAGATCATTTCCCT
T
Found at i:7105196 original size:83 final size:83
Alignment explanation
Indices: 7105053--7105228 Score: 244
Period size: 83 Copynumber: 2.1 Consensus size: 83
7105043 GATGGCCAAT
* * * * *
7105053 CATCCTCATCACCTAGTAACTGTGTCATCCACCGACCAAACCTCCTCATCATATAGGAGTTGTGT
1 CATCCTCATCACCTAGGAACCGTATCATCCACCGACCAAACCTCCTCATCACATAAGAGTTGTGT
* *
7105118 CACCCTTAGATAACCATC
66 CACCCCTAGATAACCAGC
* * * * *
7105136 CGTCCTCATCACGTAGGAACCGTATCATCCACCGACCAGACCTCCTCATCACGTAAGAGTTTTGT
1 CATCCTCATCACCTAGGAACCGTATCATCCACCGACCAAACCTCCTCATCACATAAGAGTTGTGT
7105201 CACCCCTAGATAACCAGC
66 CACCCCTAGATAACCAGC
7105219 CATCCTCATC
1 CATCCTCATC
7105229 GTATAGGAAT
Statistics
Matches: 80, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
83 80 1.00
ACGTcount: A:0.27, C:0.36, G:0.13, T:0.24
Consensus pattern (83 bp):
CATCCTCATCACCTAGGAACCGTATCATCCACCGACCAAACCTCCTCATCACATAAGAGTTGTGT
CACCCCTAGATAACCAGC
Found at i:7105543 original size:3 final size:3
Alignment explanation
Indices: 7105537--7105609 Score: 139
Period size: 3 Copynumber: 24.7 Consensus size: 3
7105527 TTTATTAAAA
7105537 ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7105584 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
7105610 ACACTTTACA
Statistics
Matches: 69, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 67 0.97
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7107801 original size:23 final size:23
Alignment explanation
Indices: 7107775--7107824 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
7107765 ATCAAGCACA
*
7107775 ATAACATATTAGATACCGCTTAT
1 ATAACATAATAGATACCGCTTAT
* * *
7107798 ATAATATAATAGGTAGCGCTTAT
1 ATAACATAATAGATACCGCTTAT
7107821 ATAA
1 ATAA
7107825 TAAAATAAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (23 bp):
ATAACATAATAGATACCGCTTAT
Found at i:7107821 original size:87 final size:87
Alignment explanation
Indices: 7107675--7107926 Score: 380
Period size: 87 Copynumber: 2.9 Consensus size: 87
7107665 AATCGAAAAT
* * *
7107675 ATTATCAAGTACAATAACATATTAGGTACCGCTTATATAATGTAATAGATAGCACTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
*
7107740 AAATAGGTTAATTACCGGAAAC
66 AAATAAGTTAATTACCGGAAAC
* *
7107762 ATTATCAAGCACAATAACATATTAGATACCGCTTATATAATATAATAGGTAGCGCTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
* *
7107827 AAATAAGTTAATTACTGGGAAC
66 AAATAAGTTAATTACCGGAAAC
* * * *
7107849 ATTATCAAACACAATAACATATTAGGTAGCACTTATATAACGTAATAGGTAGCGCTTATATAATA
1 ATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
*
7107914 AAAT-TGTTAATTA
66 AAATAAGTTAATTA
7107927 TTTAATTTAT
Statistics
Matches: 150, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
86 8 0.05
87 142 0.95
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (87 bp):
ATTATCAAGCACAATAACATATTAGGTACCGCTTATATAATGTAATAGGTAGCGCTTATATAATA
AAATAAGTTAATTACCGGAAAC
Found at i:7107888 original size:23 final size:23
Alignment explanation
Indices: 7107862--7107911 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
7107852 ATCAAACACA
*
7107862 ATAACATATTAGGTAGCACTTAT
1 ATAACATAATAGGTAGCACTTAT
* *
7107885 ATAACGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCACTTAT
7107908 ATAA
1 ATAA
7107912 TAAAATTGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (23 bp):
ATAACATAATAGGTAGCACTTAT
Found at i:7108361 original size:113 final size:113
Alignment explanation
Indices: 7108149--7108411 Score: 408
Period size: 113 Copynumber: 2.3 Consensus size: 113
7108139 TAGAGCCTAT
*
7108149 AAAGTATCGATAC--TTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGACA
1 AAAGTATCGATACTTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGAAA
*
7108212 AAACCAGATTCATTATGACAAAACCGGTAAAATTTACC-AGATAAGTTG
66 AAAACAGATTCATTATGACAAAACCGGTAAAATTTACCTA-ATAAGTTG
* *
7108260 AAAGTATCGATCCTTTTTATAAAAATATATCGATACTTTACAATATAACAGGTAAAAATATGAAA
1 AAAGTATCGATACTTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGAAA
* * *
7108325 AAAACAGTTTCATTAT-AGCAAAACCGGTAAATTTTACCTAATATGTTG
66 AAAACAGATTCATTATGA-CAAAACCGGTAAAATTTACCTAATAAGTTG
*
7108373 AAAGTATAGATACTTTTTATAAAAATGTATCGATACTTT
1 AAAGTATCGATACTTTTTATAAAAATGTATCGATACTTT
7108412 GTTAAAAGTT
Statistics
Matches: 138, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
111 12 0.09
112 1 0.01
113 124 0.90
114 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.32
Consensus pattern (113 bp):
AAAGTATCGATACTTTTTATAAAAATGTATCGATACTTTACAATATAACAGGTAAAAATATGAAA
AAAACAGATTCATTATGACAAAACCGGTAAAATTTACCTAATAAGTTG
Found at i:7108809 original size:23 final size:23
Alignment explanation
Indices: 7108783--7108833 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
7108773 AATAACATAT
* **
7108783 TAGGTACCGCTTATATAATGTAA
1 TAGGTACCACTTATATAATAAAA
*
7108806 TAGGTAGCACTTATATAATAAAA
1 TAGGTACCACTTATATAATAAAA
7108829 TAGGT
1 TAGGT
7108834 TAATTACTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (23 bp):
TAGGTACCACTTATATAATAAAA
Found at i:7108836 original size:87 final size:87
Alignment explanation
Indices: 7108729--7108926 Score: 324
Period size: 87 Copynumber: 2.3 Consensus size: 87
7108719 GAGATAGCGT
* * *
7108729 TTATATAATAAAATATGTTAATTACTAGAAACGTTATCAAGCACAATAACATATTAGGTACCGCT
1 TTATATAATAAAATAGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTAACGCT
*
7108794 TATATAATGTAATAGGTAGCAC
66 TATATAACGTAATAGGTAGCAC
* *
7108816 TTATATAATAAAATAGGTTAATTACTAGACACATTATCAAGCACAATGACATATTAGGTAACGCT
1 TTATATAATAAAATAGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTAACGCT
**
7108881 TATATAACGTAATAGGTAGCGT
66 TATATAACGTAATAGGTAGCAC
7108903 TTATATAATAAAATAGGTTAATTA
1 TTATATAATAAAATAGGTTAATTA
7108927 TTTAATTTGT
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
87 103 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (87 bp):
TTATATAATAAAATAGGTTAATTACTAGAAACATTATCAAGCACAATAACATATTAGGTAACGCT
TATATAACGTAATAGGTAGCAC
Found at i:7109386 original size:112 final size:113
Alignment explanation
Indices: 7109157--7109482 Score: 541
Period size: 112 Copynumber: 2.9 Consensus size: 113
7109147 GCCTATAATA
**
7109157 TATCGATACTTTACAATATAATTGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACC-G
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGG
*
7109221 TAAAATTTACCTGATATGTTGAAAGTATCAATCCTTTTTATAAAAATG
66 TAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTTATAAAAATG
* *
7109269 TATCGATACTTTACAATATAACAGGTAAAAGTATGACAAAACCAGTTTTATTATGACAAAACCGG
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGG
*
7109334 TAAAATTTACATGATATGTTGAACA-TATCGATCCTTTTTATAAAAATG
66 TAAAATTTACCTGATATGTTGAA-AGTATCGATCCTTTTTATAAAAATG
* *
7109382 -ATCGATATTTTACAATATAACAGTTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGG
1 TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGG
*
7109446 TAAAATTTACCTGATATGTTGAAAGTATCGATACTTT
66 TAAAATTTACCTGATATGTTGAAAGTATCGATCCTTT
7109483 ACAATATAAC
Statistics
Matches: 199, Mismatches: 12, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
111 1 0.01
112 152 0.76
113 45 0.23
114 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (113 bp):
TATCGATACTTTACAATATAACAGGTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGG
TAAAATTTACCTGATATGTTGAAAGTATCGATCCTTTTTATAAAAATG
Found at i:7109489 original size:90 final size:90
Alignment explanation
Indices: 7109382--7109572 Score: 330
Period size: 90 Copynumber: 2.1 Consensus size: 90
7109372 TATAAAAATG
* *
7109382 ATCGATATTTTACAATATAACA-GTTAAAAATATGACAAAACCAGTTTCATTATGACAAAACCGG
1 ATCGATACTTTACAATATAACAGGTT-AAAATATGACAAAACCAATTTCATTATGACAAAACCGG
7109446 TAAAATTTACCTGATATGTTGAAAGT
65 TAAAATTTACCTGATATGTTGAAAGT
*
7109472 ATCGATACTTTACAATATAACAGGTTAAAATATGACAAAACCAATTTCATTATGATAAAACCGGT
1 ATCGATACTTTACAATATAACAGGTTAAAATATGACAAAACCAATTTCATTATGACAAAACCGGT
7109537 AAAATTTACCTGATATGTTGAAAGT
66 AAAATTTACCTGATATGTTGAAAGT
*
7109562 ATAGATACTTT
1 ATCGATACTTT
7109573 TTATAAAAAT
Statistics
Matches: 96, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
90 93 0.97
91 3 0.03
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (90 bp):
ATCGATACTTTACAATATAACAGGTTAAAATATGACAAAACCAATTTCATTATGACAAAACCGGT
AAAATTTACCTGATATGTTGAAAGT
Found at i:7113768 original size:21 final size:20
Alignment explanation
Indices: 7113719--7113770 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
7113709 TTTTTTTGAG
*
7113719 TATCGATACTCTTAGTGGAGA
1 TATCGATACT-TCAGTGGAGA
* *
7113740 -ATCAATACTTCATTGGATGA
1 TATCGATACTTCAGTGGA-GA
7113760 TATCGATACTT
1 TATCGATACTT
7113771 GAGTTGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 6 0.24
20 10 0.40
21 9 0.36
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (20 bp):
TATCGATACTTCAGTGGAGA
Found at i:7114195 original size:29 final size:29
Alignment explanation
Indices: 7114144--7114200 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
7114134 GTGTTGGCCG
7114144 TAGGTCGCCATGCCATCCGGGCGACCTAA
1 TAGGTCGCCATGCCATCCGGGCGACCTAA
* * * *
7114173 TAGGTCTCCATGGCTTCCTGGCGACCTA
1 TAGGTCGCCATGCCATCCGGGCGACCTA
7114201 CGAGAAAGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (29 bp):
TAGGTCGCCATGCCATCCGGGCGACCTAA
Found at i:7114294 original size:10 final size:10
Alignment explanation
Indices: 7114246--7114299 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
7114236 CTAACACGCT
7114246 GGGCATCCGA
1 GGGCATCCGA
*
7114256 GGCCATCCGA
1 GGGCATCCGA
*
7114266 GCGAGCTATGCGA
1 G-G-GC-ATCCGA
*
7114279 GAGCATCCGA
1 GGGCATCCGA
7114289 GGGCATCCGA
1 GGGCATCCGA
7114299 G
1 G
7114300 CGAGGCCATC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 25 0.71
11 3 0.09
12 1 0.03
13 6 0.17
ACGTcount: A:0.22, C:0.30, G:0.37, T:0.11
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:7114309 original size:14 final size:14
Alignment explanation
Indices: 7114286--7114336 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
7114276 CGAGAGCATC
*
7114286 CGAGGGCATCCGAG
1 CGAGGCCATCCGAG
*
7114300 CGAGGCCATCCGAC
1 CGAGGCCATCCGAG
* *
7114314 CGAGGGCATCTGAG
1 CGAGGCCATCCGAG
7114328 CGAGGCCAT
1 CGAGGCCAT
7114337 GCACGTCCCA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.22, C:0.31, G:0.37, T:0.10
Consensus pattern (14 bp):
CGAGGCCATCCGAG
Found at i:7114404 original size:29 final size:29
Alignment explanation
Indices: 7114361--7114429 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 29
7114351 TCTCATGCAT
* * * * *
7114361 AGGTCGTCATAGCTTCCTGGTGACCTCTC
1 AGGTCGCCATGGCTTCCGGGCGACCTCCC
7114390 AGGTCGCCATGGCTTCCGGGCGACCTCCC
1 AGGTCGCCATGGCTTCCGGGCGACCTCCC
*
7114419 AGCTCGCCATG
1 AGGTCGCCATG
7114430 CACATCGAGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.13, C:0.36, G:0.28, T:0.23
Consensus pattern (29 bp):
AGGTCGCCATGGCTTCCGGGCGACCTCCC
Found at i:7114955 original size:7 final size:7
Alignment explanation
Indices: 7114943--7114972 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
7114933 AGTTTGTTAC
7114943 TTTAGGG
1 TTTAGGG
7114950 TTTAGGG
1 TTTAGGG
7114957 TTTAGGG
1 TTTAGGG
7114964 TTTAGGG
1 TTTAGGG
7114971 TT
1 TT
7114973 AAGTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.13, C:0.00, G:0.40, T:0.47
Consensus pattern (7 bp):
TTTAGGG
Found at i:7115049 original size:21 final size:21
Alignment explanation
Indices: 7115019--7115061 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
7115009 ATTTAGTTAG
7115019 TTAGTCTGTTAGTATAAATTA
1 TTAGTCTGTTAGTATAAATTA
* * *
7115040 TTAGTTTGTTAGTTTAAGTTA
1 TTAGTCTGTTAGTATAAATTA
7115061 T
1 T
7115062 ATTATATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.53
Consensus pattern (21 bp):
TTAGTCTGTTAGTATAAATTA
Found at i:7118697 original size:11 final size:11
Alignment explanation
Indices: 7118681--7119009 Score: 173
Period size: 11 Copynumber: 28.2 Consensus size: 11
7118671 TAATAATTTG
7118681 ATGATTTAATA
1 ATGATTTAATA
*
7118692 ATGATTTGATA
1 ATGATTTAATA
* * *
7118703 AT-AATGATTCA
1 ATGATTTAAT-A
7118714 ATGATTTAATA
1 ATGATTTAATA
7118725 ATGATTTGATAATA
1 ATGA-TT--TAATA
*
7118739 ATCATTATAATA
1 ATGATT-TAATA
7118751 ATGATTTAGTAATA
1 ATGA-TT--TAATA
*
7118765 ATCATTATAATA
1 ATGATT-TAATA
7118777 ATGATTTGTTAATA
1 ATGA--T-TTAATA
*
7118791 ATGATTTGATA
1 ATGATTTAATA
* *
7118802 ATAATGATAATA
1 ATGAT-TTAATA
*
7118814 ATGATATAATA
1 ATGATTTAATA
7118825 ATGATTTAATA
1 ATGATTTAATA
* *
7118836 AT-A-ATGATA
1 ATGATTTAATA
7118845 ATGA--TAATA
1 ATGATTTAATA
*
7118854 ATGATTTAGTA
1 ATGATTTAATA
7118865 ATGATTTAATA
1 ATGATTTAATA
7118876 ATGATTTGAATA
1 ATGATTT-AATA
* * * * * *
7118888 TTTAATGATTTG
1 ATGATTTA-ATA
*
7118900 ATGATTTAGTA
1 ATGATTTAATA
7118911 ATGATTTAATAATA
1 ATGA-TT--TAATA
*
7118925 ATCATTATAATA
1 ATGATT-TAATA
7118937 ATGATTTAGTAATA
1 ATGA-TT--TAATA
*
7118951 ATTATTATAATA
1 ATGATT-TAATA
7118963 ATGATTTAATA
1 ATGATTTAATA
* *
7118974 ATAATGCTAATA
1 ATGAT-TTAATA
*
7118986 ATGATTTAGTA
1 ATGATTTAATA
*
7118997 ATGATTTGATA
1 ATGATTTAATA
7119008 AT
1 AT
7119010 AATGATTTAT
Statistics
Matches: 245, Mismatches: 51, Indels: 44
0.72 0.15 0.13
Matches are distributed among these distances:
9 14 0.06
10 5 0.02
11 98 0.40
12 74 0.30
13 12 0.05
14 41 0.17
15 1 0.00
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (11 bp):
ATGATTTAATA
Found at i:7118725 original size:19 final size:18
Alignment explanation
Indices: 7118652--7118916 Score: 79
Period size: 14 Copynumber: 15.6 Consensus size: 18
7118642 CAATTAACTA
7118652 TAATAATGATTTTAAT-ATT
1 TAATAATGA--TTAATGATT
*
7118671 TAATAAT--TTGATGATT
1 TAATAATGATTAATGATT
7118687 TAATAATGATT--TGA--
1 TAATAATGATTAATGATT
7118701 TAATAATGATTCAATGATT
1 TAATAATGATT-AATGATT
*
7118720 TAATAATGATT--TGATAA
1 TAATAATGATTAATGAT-T
* *
7118737 TAATCATTATAATAATGATT
1 TAATAATGAT--TAATGATT
* *
7118757 TAGT-A--A-TAATCATT
1 TAATAATGATTAATGATT
7118771 ATAATAATGATT--TG--T
1 -TAATAATGATTAATGATT
7118786 TAATAATGATT--TGA--
1 TAATAATGATTAATGATT
*
7118800 TAATAATGATAATAATGATA
1 TAATAATGAT--TAATGATT
*
7118820 TAATAATGATT--T-A-A
1 TAATAATGATTAATGATT
7118834 TAATAATGA-TAATGA--
1 TAATAATGATTAATGATT
7118849 TAATAATGATTTAGTAATGATT
1 TAATAATGA--T--TAATGATT
7118871 TAATAATGATTTGAAT-ATT
1 TAATAATGA-TT-AATGATT
* *
7118890 TAATGAT--TTGATGATT
1 TAATAATGATTAATGATT
*
7118906 TAGTAATGATT
1 TAATAATGATT
7118917 TAATAATAAT
Statistics
Matches: 194, Mismatches: 13, Indels: 79
0.68 0.05 0.28
Matches are distributed among these distances:
13 1 0.01
14 51 0.26
15 21 0.11
16 31 0.16
17 13 0.07
18 9 0.05
19 31 0.16
20 22 0.11
21 6 0.03
22 9 0.05
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (18 bp):
TAATAATGATTAATGATT
Found at i:7118750 original size:26 final size:26
Alignment explanation
Indices: 7118713--7118979 Score: 223
Period size: 26 Copynumber: 10.2 Consensus size: 26
7118703 ATAATGATTC
7118713 AATGATT-TAATAATGATTTGATAAT
1 AATGATTATAATAATGATTTGATAAT
*
7118738 AATCATTATAATAATGATTT-AGTAAT
1 AATGATTATAATAATGATTTGA-TAAT
* *
7118764 AATCATTATAATAATGATTTGTTAAT
1 AATGATTATAATAATGATTTGATAAT
* *
7118790 AATGATT-TGATAAT-A-ATGATAAT
1 AATGATTATAATAATGATTTGATAAT
*
7118813 AATGA-TATAATAATGATTTAATAAT
1 AATGATTATAATAATGATTTGATAAT
*
7118838 AATGATAATGATAATAATGA-TT--TAGT
1 AATGAT--T-ATAATAATGATTTGATAAT
*
7118864 AATGATT-TAATAATGATTTGAATATTT
1 AATGATTATAATAATGATTTG-ATA-AT
*
7118891 AATGATTTGATGATTTAGTAATGATTTAATAAT
1 AATGA-TT-AT-A---A-TAATGATTTGATAAT
*
7118924 AATCATTATAATAATGATTT-AGTAAT
1 AATGATTATAATAATGATTTGA-TAAT
* *
7118950 AATTATTATAATAATGATTTAATAAT
1 AATGATTATAATAATGATTTGATAAT
7118976 AATG
1 AATG
7118980 CTAATAATGA
Statistics
Matches: 201, Mismatches: 16, Indels: 49
0.76 0.06 0.18
Matches are distributed among these distances:
22 10 0.05
23 19 0.09
24 3 0.01
25 25 0.12
26 96 0.48
27 8 0.04
28 5 0.02
29 10 0.05
30 2 0.01
31 3 0.01
32 2 0.01
33 5 0.02
34 4 0.02
35 9 0.04
ACGTcount: A:0.45, C:0.01, G:0.10, T:0.43
Consensus pattern (26 bp):
AATGATTATAATAATGATTTGATAAT
Found at i:7118811 original size:9 final size:9
Alignment explanation
Indices: 7118797--7118858 Score: 70
Period size: 9 Copynumber: 6.4 Consensus size: 9
7118787 AATAATGATT
7118797 TGATAATAA
1 TGATAATAA
7118806 TGATAATAA
1 TGATAATAA
7118815 TGATATAATAA
1 TG--ATAATAA
7118826 TGATTTAATAA
1 TGA--TAATAA
* *
7118837 TAATGATAA
1 TGATAATAA
7118846 TGATAATAA
1 TGATAATAA
7118855 TGAT
1 TGAT
7118859 TTAGTAATGA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
9 28 0.62
11 17 0.38
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (9 bp):
TGATAATAA
Found at i:7118917 original size:19 final size:18
Alignment explanation
Indices: 7118851--7118917 Score: 59
Period size: 16 Copynumber: 3.6 Consensus size: 18
7118841 GATAATGATA
7118851 ATAATGATTTAGTAATGATTT
1 ATAATGATTT-G--ATGATTT
7118872 AATAATGATTTGA--ATATT
1 -ATAATGATTTGATGAT-TT
7118890 -TAATGATTTGATGATTT
1 ATAATGATTTGATGATTT
7118907 AGTAATGATTT
1 A-TAATGATTT
7118918 AATAATAATC
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
16 11 0.28
17 4 0.10
18 4 0.10
19 10 0.25
21 1 0.03
22 10 0.25
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (18 bp):
ATAATGATTTGATGATTT
Found at i:7118920 original size:86 final size:84
Alignment explanation
Indices: 7118723--7119018 Score: 93
Period size: 86 Copynumber: 3.4 Consensus size: 84
7118713 AATGATTTAA
* * *
7118723 TAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAATAATGATTTGTTA
1 TAATGATTTAATAATAATGATTATAATAATGATTTAG--ATAATGATT-TAATAATGATTTG--A
* *
7118788 ATAATGATTTGATAATAATGA--TAA
61 ATAAT-A-ATGATAATAATGATTTAG
*
7118812 TAATGA--T-ATAATAATGATTTAATAATAATGATAATGATA-ATAATGATTTAGTAATGATTT-
1 TAATGATTTAATAATAATGA-TT-ATAATAATGAT--T--TAGATAATGATTTAATAATGATTTG
* *
7118872 AATAATGATTTGAATATTTAATGATTT-G
60 AATAAT-A-ATG-ATA-ATAATGATTTAG
* * * * * *
7118900 --ATGATTTAGTAATGAT--TTAATAATAATCATTATA-ATAATGATTTAGTAATAATTAT-TAT
1 TAATGATTTAATAATAATGATT-ATAATAATGATT-TAGATAATGATTTAATAATGATT-TGAAT
* * *
7118959 AATAATGATTTAATAATAATGCTAA
63 AATAATGA--TAATAATGAT-TTAG
* *
7118984 TAATGATTTAGTAATGAT--TTGATAATAATGATTTA
1 TAATGATTTAATAATAATGATT-ATAATAATGATTTA
7119019 TTATTAATAT
Statistics
Matches: 170, Mismatches: 17, Indels: 44
0.74 0.07 0.19
Matches are distributed among these distances:
81 1 0.01
82 8 0.05
83 26 0.15
84 7 0.04
85 14 0.08
86 58 0.34
87 9 0.05
88 23 0.14
89 21 0.12
90 1 0.01
92 2 0.01
ACGTcount: A:0.45, C:0.01, G:0.11, T:0.43
Consensus pattern (84 bp):
TAATGATTTAATAATAATGATTATAATAATGATTTAGATAATGATTTAATAATGATTTGAATAAT
AATGATAATAATGATTTAG
Found at i:7118986 original size:26 final size:25
Alignment explanation
Indices: 7118651--7119015 Score: 100
Period size: 26 Copynumber: 14.4 Consensus size: 25
7118641 TCAATTAACT
*
7118651 ATAATAATGAT-T-TTAAT-ATTTA
1 ATAATAATGATATAATAATGATTTA
* * *
7118673 ATAATTTGATGATTTAATAATGATTTG
1 ATAA--TAATGATATAATAATGATTTA
*
7118700 ATAATAATGAT-T--CAATGATTTA
1 ATAATAATGATATAATAATGATTTA
* * *
7118722 ATAATGAT-TTGATAATAATCA-TT-
1 ATAATAATGAT-ATAATAATGATTTA
*
7118745 ATAATAATGATTTAGTAATAATCA-TT-
1 ATAATAATGA--TA-TAATAATGATTTA
* *
7118771 ATAATAATGATTTGTTAATAATGATTTG
1 ATAATAATGA--T-ATAATAATGATTTA
*
7118799 ATAATAATG--ATAATAATGATATA
1 ATAATAATGATATAATAATGATTTA
* * * *
7118822 ATAATGAT-TTAATAATAATGATAATG
1 ATAATAATGAT-ATAATAATGAT-TTA
* *
7118848 ATAATAATGATTTAGTAATGATTTA
1 ATAATAATGATATAATAATGATTTA
* *
7118873 ATAATGATTTGA-ATATTTAATGATTTGA
1 ATAAT-A-ATGATATA-ATAATGATTT-A
* * *
7118901 TGATTTAGTAATGATTTAATAATAATCATT-
1 --A--TAATAATGATATAATAATGAT--TTA
* * * *
7118931 ATAATAATGATTTAGTAATAATTATT
1 ATAATAATGATATAATAATGATT-TA
* * *
7118957 ATAATAATGATTTAATAAT-A-ATG
1 ATAATAATGATATAATAATGATTTA
* * * *
7118980 CTAATAATGATTTAGTAATGATTTG
1 ATAATAATGATATAATAATGATTTA
7119005 ATAATAATGAT
1 ATAATAATGAT
7119016 TTATTATTAA
Statistics
Matches: 265, Mismatches: 42, Indels: 69
0.70 0.11 0.18
Matches are distributed among these distances:
21 1 0.00
22 19 0.07
23 44 0.17
24 11 0.04
25 43 0.16
26 95 0.36
27 23 0.09
28 11 0.04
30 10 0.04
31 3 0.01
32 5 0.02
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.44
Consensus pattern (25 bp):
ATAATAATGATATAATAATGATTTA
Found at i:7119011 original size:186 final size:183
Alignment explanation
Indices: 7118681--7119018 Score: 495
Period size: 186 Copynumber: 1.8 Consensus size: 183
7118671 TAATAATTTG
*
7118681 ATGATTTAATAATGATTTGATAATAATGATTCAATGATTTAATAATGATTTGATAATAATCATTA
1 ATGATTTAATAATGATTTGATAATAATGATTCAATGATTTAATAATGATTTAATAATAATCATTA
*
7118746 TAATAATGATTTAGTAATAATCATTATAATAATGATTTGTTAATAATGATTTGATAATAATGATA
66 TAATAATGATTTAGTAATAATCATTATAATAATGA-TTGTTAATAATGATATGATAATAATGATA
7118811 ATAATGATATAATAATGATTTAATAATAATGATAATGATAATAATGATTTAGTA
130 ATAATGATATAATAATGATTTAATAATAATGATAATGATAATAATGATTTAGTA
* ** *
7118865 ATGATTTAATAATGATTTGAATATTTAATGATTTGATGATTTAGTAATGATTTAATAATAATCAT
1 ATGATTTAATAATGATTTG-ATA-ATAATGATTCAATGATTTAATAATGATTTAATAATAATCAT
* *
7118930 TATAATAATGATTTAGTAATAATTATTATAATAATGA-T-TTAATAAT-A-ATGCTAATAATGAT
64 TATAATAATGATTTAGTAATAATCATTATAATAATGATTGTTAATAATGATATGATAATAATGA-
*
7118991 TTAGTAATGATTTGATAATAATGATTTA
128 -TAATAATGA--T-ATAATAATGATTTA
7119019 TTATTAATAT
Statistics
Matches: 138, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
181 11 0.08
182 1 0.01
183 16 0.12
184 20 0.14
185 4 0.03
186 86 0.62
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.43
Consensus pattern (183 bp):
ATGATTTAATAATGATTTGATAATAATGATTCAATGATTTAATAATGATTTAATAATAATCATTA
TAATAATGATTTAGTAATAATCATTATAATAATGATTGTTAATAATGATATGATAATAATGATAA
TAATGATATAATAATGATTTAATAATAATGATAATGATAATAATGATTTAGTA
Found at i:7119026 original size:14 final size:13
Alignment explanation
Indices: 7118687--7119019 Score: 193
Period size: 14 Copynumber: 25.1 Consensus size: 13
7118677 TTTGATGATT
7118687 TAATAATGATTTGA
1 TAATAATGATTT-A
7118701 TAATAATGATTCAATGA
1 TAATAATGATT---T-A
7118718 TTTAATAATGATTTGA
1 --TAATAATGATTT-A
*
7118734 TAATAATCA-TTA
1 TAATAATGATTTA
7118746 TAATAATGATTTA
1 TAATAATGATTTA
*
7118759 GTAATAATCA-TTA
1 -TAATAATGATTTA
*
7118772 TAATAATGATTTGT
1 TAATAATGATTT-A
7118786 TAATAATGATTTGA
1 TAATAATGATTT-A
7118800 TAATAATG----A
1 TAATAATGATTTA
7118809 TAATAATGA--TA
1 TAATAATGATTTA
7118820 TAATAATGATTTAA
1 TAATAATGATTT-A
*
7118834 TAATAATGATAATGA
1 TAATAATGAT--TTA
7118849 TAATAATGA-TT-
1 TAATAATGATTTA
*
7118860 TAGTAATGA-TT-
1 TAATAATGATTTA
7118871 TAATAATGATTTGAA
1 TAATAATGATTT--A
*
7118886 TATTTAATGATTTGA
1 TA-ATAATGATTT-A
7118901 TGATTTAGTAATGATTTAA
1 T-A---A-TAATGATTT-A
*
7118920 TAATAATCA-TTA
1 TAATAATGATTTA
7118932 TAATAATGATTTA
1 TAATAATGATTTA
*
7118945 GTAATAATTA-TTA
1 -TAATAATGATTTA
7118958 TAATAATGATTTAA
1 TAATAATGATTT-A
*
7118972 TAATAATG----C
1 TAATAATGATTTA
7118981 TAATAATGA-TT-
1 TAATAATGATTTA
*
7118992 TAGTAATGATTTGA
1 TAATAATGATTT-A
7119006 TAATAATGATTTA
1 TAATAATGATTTA
7119019 T
1 T
7119020 TATTAATATT
Statistics
Matches: 263, Mismatches: 21, Indels: 71
0.74 0.06 0.20
Matches are distributed among these distances:
9 17 0.06
11 36 0.14
12 39 0.15
13 23 0.09
14 92 0.35
15 15 0.06
16 14 0.05
17 3 0.01
18 2 0.01
19 22 0.08
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (13 bp):
TAATAATGATTTA
Found at i:7119047 original size:21 final size:21
Alignment explanation
Indices: 7119009--7119048 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7118999 GATTTGATAA
*
7119009 TAATGATTTATTATTAATATT
1 TAATGATTTATTACTAATATT
7119030 TAATGATTTGA-TACTAATA
1 TAATGATTT-ATTACTAATA
7119049 ATCATTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (21 bp):
TAATGATTTATTACTAATATT
Found at i:7119156 original size:244 final size:242
Alignment explanation
Indices: 7118875--7119362 Score: 859
Period size: 244 Copynumber: 2.0 Consensus size: 242
7118865 ATGATTTAAT
*
7118875 AATGATTTGAATATTTAATGATTTGATGATTTAGTAATGATTTAATAATAATCATTATAATAATG
1 AATGATTTGAAAATTTAATGATTTGATGATTTAGTAATGATTTAATAATAATCATTATAATAATG
* * *
7118940 ATTTAGTAATAATTATTATAATAATGATTTAATAATAATGCTAATAATGATTTAGTAATGATTTG
66 ATTTAATAATAATCATTATAATAATGATTTAATAATAATGATAATAATGATTTAGTAATGATTTG
*
7119005 ATAATAATGATTTATTATTAATATTTAATGATTTGATACTAATAATCATTATAAATATGTCGAAT
131 ATAATAATGATTTATTATTAACATTTAATGATTTGATACTAATAATCATTATAAATATGTCGAAT
*
7119070 TTGTTAAGGTTAAAAAAACTAGTCTAATTTCAGTATTTAATTTTGTAAC
196 TTGTTAAGGTT-AAAAAACTAGTCTAATTTCAATATTTAA-TTTGTAAC
* * * *
7119119 AATGATTTTAAAATTTTATGTTTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATG
1 AATGATTTGAAAATTTAATGATTTGATGATTTAGTAATGATTTAATAATAATCATTATAATAATG
7119184 ATTTAATAATAATCATTATAATAATGATTTAATAATAATGATAATAATGATTTAGTAATGATTTG
66 ATTTAATAATAATCATTATAATAATGATTTAATAATAATGATAATAATGATTTAGTAATGATTTG
7119249 ATAATAATGATTTATTATTAACATTTAATGATTTGATACTAATAATCATTATAAATATGTCGAAT
131 ATAATAATGATTTATTATTAACATTTAATGATTTGATACTAATAATCATTATAAATATGTCGAAT
*
7119314 TTGTTAAGGTTAAAAAACTAGTCTAATTTTAATATTTAATTTGTAAC
196 TTGTTAAGGTTAAAAAACTAGTCTAATTTCAATATTTAATTTGTAAC
7119361 AA
1 AA
7119363 ATAACAAACG
Statistics
Matches: 233, Mismatches: 11, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
242 10 0.04
243 26 0.11
244 197 0.85
ACGTcount: A:0.42, C:0.04, G:0.10, T:0.44
Consensus pattern (242 bp):
AATGATTTGAAAATTTAATGATTTGATGATTTAGTAATGATTTAATAATAATCATTATAATAATG
ATTTAATAATAATCATTATAATAATGATTTAATAATAATGATAATAATGATTTAGTAATGATTTG
ATAATAATGATTTATTATTAACATTTAATGATTTGATACTAATAATCATTATAAATATGTCGAAT
TTGTTAAGGTTAAAAAACTAGTCTAATTTCAATATTTAATTTGTAAC
Found at i:7119182 original size:26 final size:25
Alignment explanation
Indices: 7119153--7119263 Score: 131
Period size: 26 Copynumber: 4.4 Consensus size: 25
7119143 GATGATTTAG
7119153 TAATGATTTGATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
7119179 TAATGATTTAATAATAATCATTATAA
1 TAATGATTT-ATAATAATCATTATAA
* *
7119205 TAATGA-TT-TAATAATAATGATAA
1 TAATGATTTATAATAATCATTATAA
*
7119228 TAATGATTTAGTAATGAT--TTGATAA
1 TAATGATTTA-TAATAATCATT-ATAA
7119253 TAATGATTTAT
1 TAATGATTTAT
7119264 TATTAACATT
Statistics
Matches: 76, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
23 19 0.25
24 4 0.05
25 16 0.21
26 37 0.49
ACGTcount: A:0.46, C:0.02, G:0.09, T:0.43
Consensus pattern (25 bp):
TAATGATTTATAATAATCATTATAA
Found at i:7119190 original size:23 final size:23
Alignment explanation
Indices: 7119164--7119262 Score: 117
Period size: 23 Copynumber: 4.1 Consensus size: 23
7119154 AATGATTTGA
7119164 TAATAATCATTATAATAATGATTT
1 TAATAATCATTATAATAATGA-TT
7119188 AATAATAATCATTATAATAATGATT
1 --TAATAATCATTATAATAATGATT
* *
7119213 TAATAATAATGATAATAATGATT
1 TAATAATCATTATAATAATGATT
* *
7119236 TAGTAATGATTTGATAATAATGATT
1 TAATAATCA-TT-ATAATAATGATT
7119261 TA
1 TA
7119263 TTATTAACAT
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
23 28 0.42
24 1 0.02
25 16 0.24
26 21 0.32
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.42
Consensus pattern (23 bp):
TAATAATCATTATAATAATGATT
Found at i:7119246 original size:34 final size:35
Alignment explanation
Indices: 7119189--7119259 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 35
7119179 TAATGATTTA
7119189 ATAATAATCATTATAATAATGATTTAATAATAATG
1 ATAATAATCATTATAATAATGATTTAATAATAATG
* * *
7119224 ATAATAATGATT-TAGTAATGATTTGATAATAATG
1 ATAATAATCATTATAATAATGATTTAATAATAATG
7119258 AT
1 AT
7119260 TTATTATTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
34 22 0.67
35 11 0.33
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (35 bp):
ATAATAATCATTATAATAATGATTTAATAATAATG
Found at i:7120332 original size:23 final size:23
Alignment explanation
Indices: 7120304--7120347 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7120294 CAATTAAATT
*
7120304 AATAATAAAATTGATTTAAATCA
1 AATAATAAAATTAATTTAAATCA
* *
7120327 AATAATATAGTTAATTTAAAT
1 AATAATAAAATTAATTTAAAT
7120348 AATAAATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (23 bp):
AATAATAAAATTAATTTAAATCA
Found at i:7121592 original size:15 final size:16
Alignment explanation
Indices: 7121572--7121605 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
7121562 CAAAAAAATT
7121572 TAATATAAT-AACTTA
1 TAATATAATAAACTTA
7121587 TAATATAATAAACTTA
1 TAATATAATAAACTTA
7121603 TAA
1 TAA
7121606 AGTAACAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (16 bp):
TAATATAATAAACTTA
Found at i:7121692 original size:30 final size:30
Alignment explanation
Indices: 7121658--7121763 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
7121648 TTCCCTTAAA
*
7121658 CAACTAATAAACTATTCTTTAATATAACTT
1 CAACTAATAAACTATTTTTTAATATAACTT
7121688 CAACTAATAAACTATTTTTTAATATAACTT
1 CAACTAATAAACTATTTTTTAATATAACTT
* * *
7121718 AAACTAATAAACGATTTTTTAATTATAATTT
1 CAACTAATAAACTATTTTTTAA-TATAACTT
* *
7121749 ACTACTAAAAAACTA
1 -CAACTAATAAACTA
7121764 ATTAACTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
30 49 0.74
31 7 0.11
32 10 0.15
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.40
Consensus pattern (30 bp):
CAACTAATAAACTATTTTTTAATATAACTT
Found at i:7121877 original size:42 final size:38
Alignment explanation
Indices: 7121821--7121937 Score: 112
Period size: 42 Copynumber: 2.9 Consensus size: 38
7121811 CTTAACTATT
7121821 TAACTAAC--ACAAACTAATTACATATTTTTTTTATATA
1 TAACTAACAAACAAACTAATTA-ATATTTTTTTTATATA
* *
7121858 TAACTAACGACTAACAAACTAACTAATTATTTTTATTAATATA
1 TAACTAAC-A--AACAAACTAATTAA-TATTTTT-TTTATATA
* *
7121901 TAACTATCAAACATACTAATTAAATAATTTTTTTTAT
1 TAACTAACAAACAAACTAATT-AAT-ATTTTTTTTAT
7121938 TTCTATATGA
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
37 8 0.12
40 15 0.23
41 9 0.14
42 19 0.29
43 14 0.22
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (38 bp):
TAACTAACAAACAAACTAATTAATATTTTTTTTATATA
Found at i:7121973 original size:21 final size:21
Alignment explanation
Indices: 7121947--7121986 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7121937 TTTCTATATG
7121947 ATATAACTTAAACTAACAATA
1 ATATAACTTAAACTAACAATA
7121968 ATATAACTTAAACTAACAA
1 ATATAACTTAAACTAACAA
7121987 ACTAATTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
ATATAACTTAAACTAACAATA
Found at i:7122197 original size:48 final size:48
Alignment explanation
Indices: 7122101--7122204 Score: 124
Period size: 48 Copynumber: 2.2 Consensus size: 48
7122091 TAATAAACTA
* * *
7122101 TTTTTTATTATAATAAAACTTAAACTACTAATAAACTAATTAACTAAT
1 TTTTTTAATATAATAAAACTTAAACTACTAACAAACAAATTAACTAAT
*
7122149 TTTTTTAATATAATATAAA-TTCAACT-C-AACAAACAAATATAACTTAAT
1 TTTTTTAATATAATA-AAACTTAAACTACTAACAAACAAAT-TAAC-TAAT
7122197 TTTTTTAA
1 TTTTTTAA
7122205 CTAACTACAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
46 9 0.18
47 5 0.10
48 32 0.65
49 3 0.06
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (48 bp):
TTTTTTAATATAATAAAACTTAAACTACTAACAAACAAATTAACTAAT
Found at i:7122231 original size:382 final size:358
Alignment explanation
Indices: 7121711--7122437 Score: 928
Period size: 382 Copynumber: 2.0 Consensus size: 358
7121701 ATTTTTTAAT
7121711 ATAACTTAAACTAATAAACGATTTTTTAATTATAATTTACTACTAAAAAACTAATTAACTAAATT
1 ATAACTTAAACTAATAAACGATTTTTTAATTATAATTTACTACTAAAAAACTAATTAACTAAATT
* *
7121776 TTTATATAATATAAATTCAACAAATCATATGGAAACTTAACTATTTAACTAACACAAACTAATTA
66 TTTATATAATATAAATTCAACAAAACAAAT-GAAACTTAACTATTTAACTAACACAAACTAATTA
* *
7121841 CATATTTTTTTTATATATAACTAACGACTAACAAACTAACTAATT-A-T-TTTTATTAATATATA
130 CATA--TTTTTTATATAAAACTAACGACTAACAAACAAACTAATTAATTATTTTATTAATATATA
* * * *
7121903 ACTATCAAACATAC-TAATTAAATAATTTTTTTTATTTCTATATGATATAACTTAAACTAACAAT
193 ACTATCAAACAAACAAAATTAAATAA--TTTTTTATTTATATATGATAGAACTTAAACTAACAAT
*
7121967 AATATAACTTAAACTAACAAACTAATTAACTAATTTTTTATTTTACCCTAAACCCTAAACTAACA
256 AATATAACTTAAACTAACAAACTAATTAACTAA-----AATTTT----T-AACCCTAAACTAACA
*
7122032 AACTAATAATTTATAATAATAAACTAATTTAAATAATTATTCTTTTAC
311 AACTAATAATTTAAAATAATAAACTAATTTAAATAATTATTCTTTTAC
* *
7122080 ATAACTTAAACTAATAAACTATTTTTT-ATTATAATAAAACTTAAACTACTAATAAACTAATTAA
1 ATAACTTAAACTAATAAACGATTTTTTAATTATAAT-----TT--ACTACTAAAAAACTAATTAA
* * *
7122144 CTAATTTTTTTAATATAATATAAATTCAACTCAACAAACAAAT-ATAACTTAATTTTTTTAACTA
59 CTAA-ATTTTT-ATATAATATAAATTCAA--C-A-AAACAAATGA-AACTTAA-CTATTTAACTA
7122208 ACTACAAACTAATTA-ACTATTTTTTATATAAAACTAACGACTAACAAACAAACTAATTAATTAT
116 AC-ACAAACTAATTACA-TATTTTTTATATAAAACTAACGACTAACAAACAAACTAATTAATTAT
* * * *
7122272 TTTTTTAATATATAATTATTAAACAAACAAAATTAAATAATTTTTTATTTATGTATGATAGAACT
179 TTTATTAATATATAACTATCAAACAAACAAAATTAAATAATTTTTTATTTATATATGATAGAACT
* *
7122337 TAAACTAACAATAATATAACTTAAACTAACAAACTAATTAAGTAAAATTTTTTACCCTAAACTAA
244 TAAACTAACAATAATATAACTTAAACTAACAAACTAATTAACTAAAATTTTTAACCCTAAACTAA
7122402 CAAACTAATAATTTAAAATAATAAACTAATTTAAAT
309 CAAACTAATAATTTAAAATAATAAACTAATTTAAAT
7122438 TAAATAAAAA
Statistics
Matches: 316, Mismatches: 21, Indels: 39
0.84 0.06 0.10
Matches are distributed among these distances:
368 8 0.03
369 26 0.08
372 47 0.15
373 3 0.01
375 23 0.07
376 5 0.02
377 22 0.07
379 2 0.01
380 45 0.14
381 19 0.06
382 81 0.26
383 25 0.08
384 10 0.03
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.38
Consensus pattern (358 bp):
ATAACTTAAACTAATAAACGATTTTTTAATTATAATTTACTACTAAAAAACTAATTAACTAAATT
TTTATATAATATAAATTCAACAAAACAAATGAAACTTAACTATTTAACTAACACAAACTAATTAC
ATATTTTTTATATAAAACTAACGACTAACAAACAAACTAATTAATTATTTTATTAATATATAACT
ATCAAACAAACAAAATTAAATAATTTTTTATTTATATATGATAGAACTTAAACTAACAATAATAT
AACTTAAACTAACAAACTAATTAACTAAAATTTTTAACCCTAAACTAACAAACTAATAATTTAAA
ATAATAAACTAATTTAAATAATTATTCTTTTAC
Found at i:7122672 original size:22 final size:22
Alignment explanation
Indices: 7122647--7122742 Score: 79
Period size: 22 Copynumber: 4.2 Consensus size: 22
7122637 CTCGTTGATT
7122647 GCAGC-AATAATTGCTGCATGAA
1 GCAGCAAATAA-TGCTGCATGAA
*
7122669 GCAGCAAATAATGTTGCATGAA
1 GCAGCAAATAATGCTGCATGAA
*
7122691 GCAGCGAAAATTATGCTGCAAT-AA
1 GCAGC--AAATAATGCTGC-ATGAA
* * * *
7122715 TGCAGCGAATAAAGGTGCATGGA
1 -GCAGCAAATAATGCTGCATGAA
7122738 GCAGC
1 GCAGC
7122743 GGGGAGCAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
22 27 0.45
23 14 0.23
24 12 0.20
25 7 0.12
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.20
Consensus pattern (22 bp):
GCAGCAAATAATGCTGCATGAA
Found at i:7122836 original size:29 final size:29
Alignment explanation
Indices: 7122793--7122912 Score: 159
Period size: 29 Copynumber: 4.1 Consensus size: 29
7122783 TCTTGCGGGG
*
7122793 ACCATGTCGCCCAGCATGCATGGTGACCT
1 ACCATGTCGCCCAGCGTGCATGGTGACCT
** *
7122822 ACCATGTCGTTCAGCGTGCATGGCGACCT
1 ACCATGTCGCCCAGCGTGCATGGTGACCT
* * *
7122851 ACCACGTCGTCCAGCGTGCATGGAGACCT
1 ACCATGTCGCCCAGCGTGCATGGTGACCT
*
7122880 ACCATGTCGCCCAGCGTGCATTGTGACCCT
1 ACCATGTCGCCCAGCGTGCATGGTGA-CCT
7122910 ACC
1 ACC
7122913 CTTGCTCGGA
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
29 73 0.92
30 6 0.08
ACGTcount: A:0.19, C:0.35, G:0.25, T:0.21
Consensus pattern (29 bp):
ACCATGTCGCCCAGCGTGCATGGTGACCT
Found at i:7122955 original size:14 final size:14
Alignment explanation
Indices: 7122936--7122989 Score: 83
Period size: 14 Copynumber: 3.9 Consensus size: 14
7122926 CCTCACATAG
7122936 CTCGCTCGGATGGC
1 CTCGCTCGGATGGC
*
7122950 CTCGCTCGGATGCC
1 CTCGCTCGGATGGC
7122964 CTCAG-TCGGATGGC
1 CTC-GCTCGGATGGC
7122978 CTCGCTCGGATG
1 CTCGCTCGGATG
7122990 CCCTTGGATG
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
13 1 0.03
14 34 0.94
15 1 0.03
ACGTcount: A:0.09, C:0.35, G:0.33, T:0.22
Consensus pattern (14 bp):
CTCGCTCGGATGGC
Found at i:7123107 original size:29 final size:29
Alignment explanation
Indices: 7123066--7123147 Score: 128
Period size: 29 Copynumber: 2.8 Consensus size: 29
7123056 CTCTCATAGC
7123066 TCGTCGGGAAGCCATGGCGACCTAGTAGG
1 TCGTCGGGAAGCCATGGCGACCTAGTAGG
7123095 TCGTCGGGAAGCCATGGCGACCTAGTAGG
1 TCGTCGGGAAGCCATGGCGACCTAGTAGG
* * * *
7123124 TCGCCCGGATGGCATGGCGACCTA
1 TCGTCGGGAAGCCATGGCGACCTA
7123148 CGACCAACAC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.17
Consensus pattern (29 bp):
TCGTCGGGAAGCCATGGCGACCTAGTAGG
Found at i:7129318 original size:21 final size:22
Alignment explanation
Indices: 7129294--7129344 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
7129284 CACTGAAGTG
7129294 CCACATAA-TTGTCCCGAAGGA
1 CCACATAATTTGTCCCGAAGGA
*
7129315 CCACATAATTTTGTCTCGAAGGA
1 CCACATAA-TTTGTCCCGAAGGA
7129338 CCACATA
1 CCACATA
7129345 GAACCCTTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 8 0.30
23 19 0.70
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (22 bp):
CCACATAATTTGTCCCGAAGGA
Found at i:7136122 original size:23 final size:23
Alignment explanation
Indices: 7136096--7136229 Score: 162
Period size: 23 Copynumber: 5.8 Consensus size: 23
7136086 TGCCATATAA
* **
7136096 TTGTCCCGAAGAACCACATAGGT
1 TTGTCCCGAAGGACCACATAATT
*
7136119 TTGTCCTGAAGGACCACATAATT
1 TTGTCCCGAAGGACCACATAATT
* *
7136142 TTATCCCGAATGACCACAT-ATAT
1 TTGTCCCGAAGGACCACATAAT-T
* *
7136165 TTATCCCGAAGGACCACAAAATT
1 TTGTCCCGAAGGACCACATAATT
7136188 TTGTCCCGAAGGACCACATAATT
1 TTGTCCCGAAGGACCACATAATT
**
7136211 TTGTCCTAAAGGACCACAT
1 TTGTCCCGAAGGACCACAT
7136230 GGAACCCTTG
Statistics
Matches: 96, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
22 2 0.02
23 92 0.96
24 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACATAATT
Found at i:7136226 original size:69 final size:69
Alignment explanation
Indices: 7136089--7136229 Score: 183
Period size: 69 Copynumber: 2.0 Consensus size: 69
7136079 ACCGAAGTGC
* * * * * *
7136089 CATATAATTGTCCCGAAGAACCACATAGGTTTGTCCTGAAGGACCACATAATTTTATCCCGAATG
1 CATATAATTATCCCGAAGAACCACAAAAGTTTGTCCCGAAGGACCACATAATTTTATCCCAAAGG
7136154 ACCA
66 ACCA
* * * * *
7136158 CATATATTTATCCCGAAGGACCACAAAATTTTGTCCCGAAGGACCACATAATTTTGTCCTAAAGG
1 CATATAATTATCCCGAAGAACCACAAAAGTTTGTCCCGAAGGACCACATAATTTTATCCCAAAGG
7136223 ACCA
66 ACCA
7136227 CAT
1 CAT
7136230 GGAACCCTTG
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
69 61 1.00
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (69 bp):
CATATAATTATCCCGAAGAACCACAAAAGTTTGTCCCGAAGGACCACATAATTTTATCCCAAAGG
ACCA
Found at i:7138068 original size:21 final size:20
Alignment explanation
Indices: 7138043--7138084 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7138033 GGTTTGTTAC
*
7138043 TAGGTTGGAATGTTTGGGTAA
1 TAGGTTGGAAT-ATTGGGTAA
*
7138064 TAGGTTTGAATATTGGGTAA
1 TAGGTTGGAATATTGGGTAA
7138084 T
1 T
7138085 GAGTTTATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.33, T:0.40
Consensus pattern (20 bp):
TAGGTTGGAATATTGGGTAA
Found at i:7138119 original size:28 final size:28
Alignment explanation
Indices: 7138088--7138143 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
7138078 GGGTAATGAG
* *
7138088 TTTATATT-AAATAATAATGATAGTAATA
1 TTTAT-TTGAAATAATAATAATAATAATA
*
7138116 TTTATTTGTAATAATAATAATAATAATA
1 TTTATTTGAAATAATAATAATAATAATA
7138144 CTAATAATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (28 bp):
TTTATTTGAAATAATAATAATAATAATA
Found at i:7138659 original size:117 final size:117
Alignment explanation
Indices: 7138396--7138760 Score: 496
Period size: 117 Copynumber: 3.1 Consensus size: 117
7138386 TCCTTATGTA
* * ** * *
7138396 ATGGAATCGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAATTTTTTTCTTCCTCATTGGATGA
1 ATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCATTAT-AAACTTCTTCTCCCTCATTGGATGA
* * * * * *
7138461 GTTCTTCTCATTATGAACTCTCCTCTCCATTAGAAATATCGATCCACCTCCTTCTGTG
65 GTTCTTCTCATTATGAA-----CTCTCCACTGGAAATGTTGATCCACATCCTTCTATG
* *
7138519 ATGGAATCAAACCAAGGTTGAACAAGTTATTCTCATTATAAACTTCTTCTCCCTCATTGGATGAG
1 ATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATTGGATGAG
*
7138584 TTCTTCTCATTATGAACTCTCCACTGGAGATGTTGATCCACATCCTTCTATG
66 TTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACATCCTTCTATG
* * *
7138636 ATGGAATCGAATCAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTCATCGGATGAG
1 ATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATTGGATGAG
* *
7138701 TTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACTTCATTCTATG
66 TTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACATCCTTCTATG
7138753 ATGGAATC
1 ATGGAATC
7138761 AAACAAAGCG
Statistics
Matches: 219, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
117 146 0.67
122 38 0.17
123 35 0.16
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (117 bp):
ATGGAATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCATTGGATGAG
TTCTTCTCATTATGAACTCTCCACTGGAAATGTTGATCCACATCCTTCTATG
Found at i:7140253 original size:12 final size:12
Alignment explanation
Indices: 7140236--7140271 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
7140226 TCTTGAACCC
*
7140236 TCATTTTTATTT
1 TCATTTTTCTTT
7140248 TCATTTTTCTTT
1 TCATTTTTCTTT
7140260 T-ATTTTTCTTT
1 TCATTTTTCTTT
7140271 T
1 T
7140272 TTCTCTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (12 bp):
TCATTTTTCTTT
Found at i:7140264 original size:11 final size:10
Alignment explanation
Indices: 7140251--7140302 Score: 63
Period size: 10 Copynumber: 5.3 Consensus size: 10
7140241 TTTATTTTCA
7140251 TTTTTCTTTT
1 TTTTTCTTTT
7140261 ATTTTTC-TTT
1 -TTTTTCTTTT
*
7140271 TTTCTC-TTT
1 TTTTTCTTTT
*
7140280 TTTTTCTCTT
1 TTTTTCTTTT
7140290 TTTTTCTTTT
1 TTTTTCTTTT
7140300 TTT
1 TTT
7140303 CATCATCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
9 13 0.36
10 17 0.47
11 6 0.17
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:7140280 original size:20 final size:19
Alignment explanation
Indices: 7140251--7140302 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
7140241 TTTATTTTCA
7140251 TTTTTCTTTTATTTT-TCTT
1 TTTTTCTTTT-TTTTCTCTT
7140270 TTTTCTCTTTTTTTTCTCTT
1 TTTT-TCTTTTTTTTCTCTT
7140290 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
7140303 CATCATCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (19 bp):
TTTTTCTTTTTTTTCTCTT
Found at i:7140286 original size:18 final size:18
Alignment explanation
Indices: 7140240--7140302 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
7140230 GAACCCTCAT
*
7140240 TTTTATTTTCATTTTTCT-
1 TTTT-TTTTCTTTTTTCTC
7140258 TTTATTTTTCTTTTTTCTC
1 TTT-TTTTTCTTTTTTCTC
*
7140277 TTTTTTTTCTCTTTTTTTC
1 TTTTTTTTCT-TTTTTCTC
7140296 TTTTTTT
1 TTTTTTT
7140303 CATCATCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
18 22 0.55
19 18 0.45
ACGTcount: A:0.05, C:0.13, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTTTTCTTTTTTCTC
Found at i:7140303 original size:18 final size:18
Alignment explanation
Indices: 7140251--7140303 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
7140241 TTTATTTTCA
*
7140251 TTTTTCTTTTATTTTTCTT
1 TTTTTCTTTT-TTTCTCTT
7140270 TTTTCTCTTTTTTTTCTCTT
1 TTTT-TC-TTTTTTTCTCTT
7140290 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
7140304 ATCATCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
18 8 0.26
19 6 0.19
20 13 0.42
21 4 0.13
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTCTT
Found at i:7142349 original size:23 final size:23
Alignment explanation
Indices: 7142323--7142367 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
7142313 GTGCCATATA
7142323 TTTGTCCCGAA-AGACCACATAGT
1 TTTGTCCCGAAGA-ACCACATAGT
7142346 TTTGTCCCGAAGAACCACATAG
1 TTTGTCCCGAAGAACCACATAG
7142368 AACCCTCCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 20 0.95
24 1 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (23 bp):
TTTGTCCCGAAGAACCACATAGT
Found at i:7143067 original size:20 final size:21
Alignment explanation
Indices: 7143032--7143082 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
7143022 CTTACTCTTG
** *
7143032 GTATCGATACTCTCAT-TTCA
1 GTATCGATACAATCATAATCA
7143052 GTATCGATACAATCATCAATCA
1 GTATCGATACAATCAT-AATCA
7143074 GTATCGATA
1 GTATCGATA
7143083 TTGTTCCTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 14 0.54
22 12 0.46
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (21 bp):
GTATCGATACAATCATAATCA
Found at i:7158982 original size:19 final size:19
Alignment explanation
Indices: 7158958--7158996 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
7158948 TTAATTCTTT
*
7158958 TTTTTTATTTGAAAT-TTTA
1 TTTTTT-TTAGAAATATTTA
7158977 TTTTTTTTAGAAATATTTA
1 TTTTTTTTAGAAATATTTA
7158996 T
1 T
7158997 GTAAAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
TTTTTTTTAGAAATATTTA
Found at i:7158989 original size:18 final size:18
Alignment explanation
Indices: 7158955--7158996 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
7158945 TAATTAATTC
7158955 TTTT-TTTTTATTTGAAA
1 TTTTATTTTTATTTGAAA
7158972 TTTTATTTTT-TTTAGAAA
1 TTTTATTTTTATTT-GAAA
7158990 TATTTAT
1 T-TTTAT
7158997 GTAAAAAGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 7 0.32
18 10 0.45
19 5 0.23
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (18 bp):
TTTTATTTTTATTTGAAA
Found at i:7161566 original size:59 final size:58
Alignment explanation
Indices: 7161459--7161648 Score: 186
Period size: 59 Copynumber: 3.2 Consensus size: 58
7161449 TATAAATTAG
* * * * * * *
7161459 TCTCTAAATTTTTAAACATTCCAAACTCATCCTAAAACCATGACTCTCATTCTAAATAGA
1 TCTC-AAACTTTTGAACATTCTAAATTTATCCTCAAACTATGACTCTCATTCTAAATA-A
*
7161519 TCTCAAACTTTTGAATATT-TCAAATTTAT-CTCTAAACTATGACTCTCATTCTAAATAAA
1 TCTCAAACTTTTGAACATTCT-AAATTTATCCTC-AAACTATGACTCTCATTCTAAAT-AA
* * * *
7161578 TCTTAAACTTTTGAACATTCTAGATTTATCCTCAAACTATAAACTCTTATTCTAAATTAA
1 TCTCAAACTTTTGAACATTCTAAATTTATCCTCAAACTAT-GACTCTCATTCTAAA-TAA
*
7161638 TCTCAATCTTT
1 TCTCAAACTTT
7161649 AAAAAATTTT
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
58 2 0.02
59 72 0.67
60 33 0.31
61 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.39
Consensus pattern (58 bp):
TCTCAAACTTTTGAACATTCTAAATTTATCCTCAAACTATGACTCTCATTCTAAATAA
Found at i:7169944 original size:2 final size:2
Alignment explanation
Indices: 7169937--7170043 Score: 214
Period size: 2 Copynumber: 53.5 Consensus size: 2
7169927 CCGCCCCGAT
7169937 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7169979 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7170021 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
7170044 TTTTTAATTT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 105 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7170090 original size:35 final size:34
Alignment explanation
Indices: 7170050--7170144 Score: 136
Period size: 35 Copynumber: 2.7 Consensus size: 34
7170040 ATATTTTTTA
7170050 ATTTTATATTAATTATATATATAAAATATAATATT
1 ATTTTATATTAATTATATATATAAAATATAATA-T
* * * *
7170085 TTTTTATATTAATTATATATATAATATTTTATAT
1 ATTTTATATTAATTATATATATAAAATATAATAT
7170119 ATTTTATATTAATTATATAATATAAA
1 ATTTTATATTAATTATAT-ATATAAA
7170145 CCCTAAACCC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
34 18 0.34
35 35 0.66
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
ATTTTATATTAATTATATATATAAAATATAATAT
Found at i:7170142 original size:16 final size:16
Alignment explanation
Indices: 7169935--7170142 Score: 52
Period size: 20 Copynumber: 12.8 Consensus size: 16
7169925 CCCCGCCCCG
7169935 ATTATAT-ATATA-T-
1 ATTATATAATATATTA
7169948 ATATATATATATATATATA
1 AT-TATATA-ATATAT-TA
7169967 TATATATATATATATATATA
1 -AT-TATATA-ATATAT-TA
7169987 TATATATATATATATATATA
1 -AT-TATATA-ATATAT-TA
7170007 TATATATATATATATATATA
1 -AT-TATATA-ATATAT-TA
*
7170027 TATATATATATATATATTT
1 -AT-TATATA-ATATATTA
* **
7170046 TTTA-ATTTTATATTA
1 ATTATATAATATATTA
7170061 ATTATAT-ATATA--A
1 ATTATATAATATATTA
7170074 A--ATATAATAT-TT-
1 ATTATATAATATATTA
* *
7170086 -TTTTATATTA-ATT-
1 ATTATATAATATATTA
*
7170099 ATATATATAATAT-TTT
1 AT-TATATAATATATTA
**
7170115 A-TATATTTTATATTA
1 ATTATATAATATATTA
7170130 ATTATATAATATA
1 ATTATATAATATA
7170143 AACCCTAAAC
Statistics
Matches: 159, Mismatches: 16, Indels: 37
0.75 0.08 0.17
Matches are distributed among these distances:
11 4 0.03
12 4 0.03
13 12 0.08
14 14 0.09
15 25 0.16
16 19 0.12
17 2 0.01
18 2 0.01
19 1 0.01
20 76 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTATATAATATATTA
Found at i:7170168 original size:15 final size:14
Alignment explanation
Indices: 7170141--7170186 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
7170131 TTATATAATA
*
7170141 TAAACCCTAAACCC
1 TAAACCTTAAACCC
* *
7170155 TAAACATTTAAACCT
1 TAAAC-CTTAAACCC
7170170 TAAACCTTAAACCC
1 TAAACCTTAAACCC
7170184 TAA
1 TAA
7170187 CTTTTATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (14 bp):
TAAACCTTAAACCC
Found at i:7171218 original size:64 final size:63
Alignment explanation
Indices: 7171150--7171379 Score: 210
Period size: 64 Copynumber: 3.6 Consensus size: 63
7171140 TTGGAACACT
* *** *
7171150 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGA-AAAAAGCC
** * **
7171214 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAAAGCC
* * * * * * ** *
7171278 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCA
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAA-AAAAGCC
* *
7171342 TCGATGCATCGATGCATGGACTGATGCATCGGTGCATG
1 T-GATGCATCGATGCATGGAGTG-TGCATCGATGCATG
7171380 CCTTTGAATA
Statistics
Matches: 136, Mismatches: 25, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
63 4 0.03
64 70 0.51
65 62 0.46
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAAGCC
Found at i:7171302 original size:19 final size:19
Alignment explanation
Indices: 7171278--7171328 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
7171268 GAAAAAATTC
7171278 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
7171297 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
7171316 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
7171329 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:7171370 original size:65 final size:64
Alignment explanation
Indices: 7171172--7171379 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 64
7171162 GCACCAAGTG
* * * ** *
7171172 TGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCA-AAAAATTCAGATGCATCGATGCATGGAC-TG
7171236 -
64 A
* * *
7171236 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAAAATTCAGA-TGCATCGATGCATGGACTG
7171299 A
64 A
* **
7171300 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGGACT
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCA--GATGCATCGATGCATGGACT
7171364 GA
63 GA
7171366 TGCATCGGTGCATG
1 TGCATCGGTGCATG
7171380 CCTTTGAATA
Statistics
Matches: 124, Mismatches: 11, Indels: 17
0.82 0.07 0.11
Matches are distributed among these distances:
63 11 0.09
64 50 0.40
65 61 0.49
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCAGATGCATCGATGCATGGACTGA
Found at i:7177812 original size:22 final size:21
Alignment explanation
Indices: 7177770--7177809 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7177760 GAGTTTGTTT
*
7177770 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
7177791 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
7177810 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:7179804 original size:64 final size:64
Alignment explanation
Indices: 7179736--7179914 Score: 207
Period size: 64 Copynumber: 2.8 Consensus size: 64
7179726 TTGGAACACT
* *** *
7179736 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAGAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGA-AAAAAGCC
** * **
7179800 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAAAGCC
* * * *
7179864 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATG
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG
7179915 CTCAATTAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
64 50 0.52
65 46 0.48
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.28
Consensus pattern (64 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAAAGCC
Found at i:7179888 original size:19 final size:19
Alignment explanation
Indices: 7179864--7179915 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 19
7179854 GAAAAAATTC
7179864 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
7179883 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
7179902 A-A-TGCATTCGATGC
1 AGAGTGCA-TCGATGC
7179916 TCAATTAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 4 0.13
18 7 0.23
19 19 0.63
ACGTcount: A:0.25, C:0.17, G:0.35, T:0.23
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:7179890 original size:65 final size:64
Alignment explanation
Indices: 7179757--7179914 Score: 201
Period size: 65 Copynumber: 2.5 Consensus size: 64
7179747 TGCACCAAGT
* * ***
7179757 GTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAAAAGCCAGATGCATCGATGCATGGAGA
* **
7179821 GTGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAAATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAGAAAAAGCCAGA-TGCATCGATGCATGGAG
7179885 A
64 A
* *
7179886 GTGCATCGGTGCATGGAATGCATTCGATG
1 GTGCATCGATGCATGAAATGCATTCGATG
7179915 CTCAATTAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 35 0.43
65 46 0.57
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAAAAGCCAGATGCATCGATGCATGGAGA
Found at i:7191841 original size:144 final size:144
Alignment explanation
Indices: 7191581--7191869 Score: 506
Period size: 144 Copynumber: 2.0 Consensus size: 144
7191571 AGAGGAAATA
* *
7191581 GAGAATGATGATTGTAATACTGGAGTATCAGATGTCACAAGTATTGCCTGAAATTTGAGAATGTT
1 GAGAATGATGATTGTAATACTGGAGTACCAGATGTCACAAGTATTACCTGAAATTTGAGAATGTT
* * *
7191646 GTGCCAAAGAACAAAAATATCATGTGTTTGTCATTTATGTTTCTAGGCTTTAATTATGTCTTTTA
66 GTGCCAAAGAACAAAAACATCATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTATTTTA
7191711 TTATGGTGTTTTAT
131 TTATGGTGTTTTAT
*
7191725 GAGAATGATGATTGTAATACTGGAGTACCAGATGTCACAAGTATTACCTGAAATTTTAGAATGTT
1 GAGAATGATGATTGTAATACTGGAGTACCAGATGTCACAAGTATTACCTGAAATTTGAGAATGTT
* *
7191790 GTGCCAAAGAACAAAAACATTATGTTTTTGTCATTTATGTTTCTAGACTTTAATTATGTATTTTA
66 GTGCCAAAGAACAAAAACATCATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTATTTTA
7191855 TTATGGTGTTTTAT
131 TTATGGTGTTTTAT
7191869 G
1 G
7191870 TACTTTAAGA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
144 137 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (144 bp):
GAGAATGATGATTGTAATACTGGAGTACCAGATGTCACAAGTATTACCTGAAATTTGAGAATGTT
GTGCCAAAGAACAAAAACATCATGTGTTTGTCATTTATGTTTCTAGACTTTAATTATGTATTTTA
TTATGGTGTTTTAT
Found at i:7193121 original size:18 final size:18
Alignment explanation
Indices: 7193098--7193150 Score: 97
Period size: 18 Copynumber: 2.9 Consensus size: 18
7193088 ACTGAATATT
7193098 TGTCCCGGAGGACCACTA
1 TGTCCCGGAGGACCACTA
7193116 TGTCCCGGAGGACCACTA
1 TGTCCCGGAGGACCACTA
*
7193134 TGTCCCGAAGGACCACT
1 TGTCCCGGAGGACCACT
7193151 GATAATCCCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.17
Consensus pattern (18 bp):
TGTCCCGGAGGACCACTA
Found at i:7193406 original size:17 final size:17
Alignment explanation
Indices: 7193384--7193424 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
7193374 ATTGATGAAT
7193384 TATGCATGAAATCACTA
1 TATGCATGAAATCACTA
7193401 TATGCATGAAATCACTA
1 TATGCATGAAATCACTA
7193418 TATGCAT
1 TATGCAT
7193425 ATACATGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.32
Consensus pattern (17 bp):
TATGCATGAAATCACTA
Found at i:7199990 original size:18 final size:18
Alignment explanation
Indices: 7199967--7200019 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
7199957 ACTGAATATT
7199967 TGTCCCGGAA-GACCACTA
1 TGTCCC-GAAGGACCACTA
7199985 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
* *
7200003 TATCTCGAAGGACCACT
1 TGTCCCGAAGGACCACT
7200020 GATAATCCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
17 3 0.09
18 29 0.91
ACGTcount: A:0.28, C:0.32, G:0.21, T:0.19
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:7200776 original size:29 final size:29
Alignment explanation
Indices: 7200743--7200800 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
7200733 ACCCTTGATG
7200743 TATCGGTACCTGTTGAATATATACCGATA
1 TATCGGTACCTGTTGAATATATACCGATA
* *
7200772 TATCGGTACCTGTTGAATGTGTACCGATA
1 TATCGGTACCTGTTGAATATATACCGATA
7200801 CACCCTGCCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (29 bp):
TATCGGTACCTGTTGAATATATACCGATA
Found at i:7203028 original size:21 final size:23
Alignment explanation
Indices: 7202999--7203042 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
7202989 TGGCTAGCAT
*
7202999 ATGGAGTATCAGTACT-CCTTTA
1 ATGGAGTATCAATACTACCTTTA
7203021 ATGG-GTATCAATACTACCTTTA
1 ATGGAGTATCAATACTACCTTTA
7203043 TAATTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
ATGGAGTATCAATACTACCTTTA
Found at i:7217076 original size:110 final size:110
Alignment explanation
Indices: 7216879--7217132 Score: 382
Period size: 110 Copynumber: 2.3 Consensus size: 110
7216869 GCTCTTTGCA
* * ** * *
7216879 ACAGTCAGTCTCCCCTTTGCTGTGAAGTTGAGTTTGTGTTGTCTCGAGTATAATATCTTTCACTG
1 ACAGTCAGTCGCCCATTCCCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTATAATATCATTCACTG
* *
7216944 TGAAATTGAAATTGACTTTGAATGAAACTGAAAAGTTGTTTGTTG
66 TGAAATTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTG
* *
7216989 ATAGTCAGTCGCCCATTCCCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTCTAATATCATTCACTG
1 ACAGTCAGTCGCCCATTCCCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTATAATATCATTCACTG
*
7217054 TGAAGTTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTG
66 TGAAATTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTG
* **
7217099 ACAGTCAGTCGCCCCTTCGTTGTGAAGTTGAGCT
1 ACAGTCAGTCGCCCATTCCCTGTGAAGTTGAGCT
7217133 ACCACCATCG
Statistics
Matches: 129, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 129 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (110 bp):
ACAGTCAGTCGCCCATTCCCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTATAATATCATTCACTG
TGAAATTGAAATTGACTCTGAATAAAACTGAAAAGTTGTTTGTTG
Found at i:7222098 original size:15 final size:15
Alignment explanation
Indices: 7222048--7222104 Score: 60
Period size: 15 Copynumber: 3.7 Consensus size: 15
7222038 GGTAAAGTTT
*
7222048 TAATATTATAAAATA
1 TAATATTATATAATA
*
7222063 TAATATTATTTAATA
1 TAATATTATATAATA
* *
7222078 TAAATATTATATAGTG
1 T-AATATTATATAATA
*
7222094 TAATATCATAT
1 TAATATTATAT
7222105 GTACTACACA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 23 0.66
16 12 0.34
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.46
Consensus pattern (15 bp):
TAATATTATATAATA
Found at i:7224487 original size:29 final size:29
Alignment explanation
Indices: 7224441--7224529 Score: 108
Period size: 29 Copynumber: 3.1 Consensus size: 29
7224431 TTGAGCAAGG
* *
7224441 GTAGGTCGCCATACACGCTGGGCGACATT
1 GTAGGTCGCCATGCACGCAGGGCGACATT
* *
7224470 GTAGGTCGCCATGTACGCCA-GGCGACATG
1 GTAGGTCGCCATGCACG-CAGGGCGACATT
* *
7224499 GTAGGTCACCATGCACGCAGGGCGACCTT
1 GTAGGTCGCCATGCACGCAGGGCGACATT
7224528 GT
1 GT
7224530 CCTGCGCCCT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
28 2 0.04
29 47 0.94
30 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.19
Consensus pattern (29 bp):
GTAGGTCGCCATGCACGCAGGGCGACATT
Found at i:7224934 original size:17 final size:17
Alignment explanation
Indices: 7224912--7224947 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
7224902 TTATTAGTTT
7224912 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
7224929 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
7224946 GT
1 GT
7224948 AAAACATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGGGTTAGG
Found at i:7225152 original size:30 final size:29
Alignment explanation
Indices: 7225101--7225188 Score: 113
Period size: 30 Copynumber: 2.9 Consensus size: 29
7225091 TAGTAGTAGA
* * *
7225101 TTATAATTAAAAAATCATTTATTAGTTTAAT
1 TTAT-ATTAAAGAAT-ATTTATTAGTTGAAG
7225132 TTATATTAAAGAATAGTTTATTAGTTGAAG
1 TTATATTAAAGAATA-TTTATTAGTTGAAG
7225162 TTATATTAAAGAATAATTTATTAGTTG
1 TTATATTAAAGAAT-ATTTATTAGTTG
7225189 TTTAAGGGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
29 1 0.02
30 46 0.88
31 5 0.10
ACGTcount: A:0.42, C:0.01, G:0.10, T:0.47
Consensus pattern (29 bp):
TTATATTAAAGAATATTTATTAGTTGAAG
Found at i:7225270 original size:15 final size:16
Alignment explanation
Indices: 7225242--7225275 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
7225232 GTTTGTTACT
7225242 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
7225258 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
7225273 TTA
1 TTA
7225276 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:7227581 original size:59 final size:56
Alignment explanation
Indices: 7227488--7227608 Score: 170
Period size: 59 Copynumber: 2.1 Consensus size: 56
7227478 TATTATAATT
* *
7227488 TCATTACTAATAATCATTAATAAATCATTTGTATCAAATAATTAAATATTAATAATAAA
1 TCATTACTAATAATAATTAATAAATCATTAGTATCAAATAATTAAATATT--TAA-AAA
* * *
7227547 TCATTATTAATAATAATTAGTAAATCATTAGTATCAAATCATTAAATATTTAAAAA
1 TCATTACTAATAATAATTAATAAATCATTAGTATCAAATAATTAAATATTTAAAAA
7227603 TCATTA
1 TCATTA
7227609 ATAAATTAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
56 9 0.16
57 3 0.05
59 45 0.79
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (56 bp):
TCATTACTAATAATAATTAATAAATCATTAGTATCAAATAATTAAATATTTAAAAA
Found at i:7227714 original size:14 final size:14
Alignment explanation
Indices: 7227693--7227957 Score: 159
Period size: 14 Copynumber: 20.3 Consensus size: 14
7227683 ATTAGTAATA
7227693 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7227707 AGTATTAAATCATT
1 ATTATTAAATCATT
7227721 ATTA-TAAA--A-T
1 ATTATTAAATCATT
*
7227731 ATTACTAAATC---
1 ATTATTAAATCATT
7227742 ATTATTAAATCATT
1 ATTATTAAATCATT
* *
7227756 ACTATTAAATTATT
1 ATTATTAAATCATT
**
7227770 ATTA-T-AATGGTT
1 ATTATTAAATCATT
7227782 ATTATTAAATC---
1 ATTATTAAATCATT
7227793 ATTATT--ATCATT
1 ATTATTAAATCATT
7227805 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7227819 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
7227831 ATTATCAAATC---
1 ATTATTAAATCATT
*
7227842 ATTACTAAATCATT
1 ATTATTAAATCATT
*
7227856 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
7227868 ATTATCAAATCATT
1 ATTATTAAATCATT
7227882 ATTAAATCATCAAATCATT
1 ATT--AT--T-AAATCATT
*
7227901 AAATT-TTAAA--ATC
1 --ATTATTAAATCATT
7227914 ATTATTAAATCATT
1 ATTATTAAATCATT
*
7227928 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
7227940 ATTACTAAATCATT
1 ATTATTAAATCATT
7227954 ATTA
1 ATTA
7227958 AGTCATAATA
Statistics
Matches: 197, Mismatches: 22, Indels: 64
0.70 0.08 0.23
Matches are distributed among these distances:
9 3 0.02
10 5 0.03
11 33 0.17
12 50 0.25
13 12 0.06
14 76 0.39
15 3 0.02
16 3 0.02
18 1 0.01
19 8 0.04
21 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.46
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:7227723 original size:11 final size:11
Alignment explanation
Indices: 7227693--7228023 Score: 145
Period size: 11 Copynumber: 27.2 Consensus size: 11
7227683 ATTAGTAATA
7227693 ATTATTAAATC
1 ATTATTAAATC
7227704 ATTAGTATTAAATC
1 A-T--TATTAAATC
7227718 ATTATTATAAAAT-
1 ATTA-T-T-AAATC
*
7227731 ATTACTAAATC
1 ATTATTAAATC
7227742 ATTATTAAATC
1 ATTATTAAATC
*
7227753 ATTACTATTAAATT
1 A-T--TATTAAATC
*
7227767 ATTATTATAATGGTT
1 ATTATTA-AA---TC
7227782 ATTATTAAATC
1 ATTATTAAATC
* *
7227793 ATTATTATCATT
1 ATTATTA-AATC
7227805 ATTATTAAATC
1 ATTATTAAATC
*
7227816 ATTATTATAATG
1 ATTATTA-AATC
7227828 ATTATTATCAAATC
1 ATTA-T-T-AAATC
*
7227842 ATTACTAAATC
1 ATTATTAAATC
*
7227853 ATTATTATAATG
1 ATTATTA-AATC
7227865 ATTATTATCAAATC
1 ATTA-T-T-AAATC
7227879 ATTATTAAATC
1 ATTATTAAATC
7227890 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
*
7227905 -TT-TAAAATC
1 ATTATTAAATC
7227914 ATTATTAAATC
1 ATTATTAAATC
*
7227925 ATTATTATAATG
1 ATTATTA-AATC
7227937 ATTATTACTAAATC
1 ATTA-T--TAAATC
*
7227951 ATTATTAAGTC
1 ATTATTAAATC
*
7227962 ATAATATTAAAATT
1 AT--TATT-AAATC
*
7227976 ATTACTAAATC
1 ATTATTAAATC
7227987 ATCAAATCATTAAAT-
1 AT----T-ATTAAATC
7228002 ATTA--AAATC
1 ATTATTAAATC
7228011 ATTATTAAATC
1 ATTATTAAATC
7228022 AT
1 AT
7228024 CAAATCATTA
Statistics
Matches: 250, Mismatches: 24, Indels: 92
0.68 0.07 0.25
Matches are distributed among these distances:
8 9 0.04
9 4 0.02
10 8 0.03
11 89 0.36
12 40 0.16
13 16 0.06
14 54 0.22
15 17 0.07
16 13 0.05
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.44
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:7227746 original size:49 final size:50
Alignment explanation
Indices: 7227693--7227891 Score: 230
Period size: 49 Copynumber: 4.0 Consensus size: 50
7227683 ATTAGTAATA
* *
7227693 ATTATTAAATCATTAGTATTAAATCATTATTATAA-AATATTACTAAATC
1 ATTATTAAATCATTATTATTAAATCATTATTATAAGAATATTATTAAATC
* * **
7227742 ATTATTAAATCATTACTATTAAATTATTATTATAATGGTTATTATTAAATC
1 ATTATTAAATCATTATTATTAAATCATTATTATAA-GAATATTATTAAATC
* *
7227793 ATTATT--ATCATTATTATTAAATCATTATTATAATGATTATTATCAAATC
1 ATTATTAAATCATTATTATTAAATCATTATTATAA-GAATATTATTAAATC
* * *
7227842 ATTACTAAATCATTATTA-T-AATGATTATTATCA-AATCATTATTAAATC
1 ATTATTAAATCATTATTATTAAATCATTATTATAAGAAT-ATTATTAAATC
7227890 AT
1 AT
7227892 CAAATCATTA
Statistics
Matches: 131, Mismatches: 14, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
47 2 0.02
48 12 0.09
49 89 0.68
50 1 0.01
51 27 0.21
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (50 bp):
ATTATTAAATCATTATTATTAAATCATTATTATAAGAATATTATTAAATC
Found at i:7227790 original size:26 final size:25
Alignment explanation
Indices: 7227680--7227988 Score: 190
Period size: 25 Copynumber: 12.6 Consensus size: 25
7227670 TTATTTCATA
* *
7227680 ATTATTAGT-AATAATTATTA-AAT
1 ATTATTATTAAATCATTATTATAAT
*
7227703 CATTAGTATTAAATCATTATTATAA-
1 -ATTATTATTAAATCATTATTATAAT
* *
7227728 AATATTACTAAATCATTATTA-AAT
1 ATTATTATTAAATCATTATTATAAT
* *
7227752 CATTACTATTAAATTATTATTATAAT
1 -ATTATTATTAAATCATTATTATAAT
* *
7227778 GGTTATTATTAAATCATTATTAT--C
1 -ATTATTATTAAATCATTATTATAAT
7227802 ATTATTATTAAATCATTATTATAAT
1 ATTATTATTAAATCATTATTATAAT
* *
7227827 GATTATTATCAAATCATTACTA-AAT
1 -ATTATTATTAAATCATTATTATAAT
*
7227852 CATTATTA-T-AATGATTATTATCAA-
1 -ATTATTATTAAATCATTATTAT-AAT
* * *
7227876 ATCATTATTAAATCATCAAATCATTAA-
1 ATTATTATTAAATCAT--TATTA-TAAT
7227903 ATT-TTA--AAATCATTATTA-AAT
1 ATTATTATTAAATCATTATTATAAT
*
7227924 CATTATTA-T-AATGATTATTACTAA-
1 -ATTATTATTAAATCATTATTA-TAAT
* *
7227948 ATCATTATTAAGTCATAATATTA-AA-
1 ATTATTATTAAATCAT--TATTATAAT
*
7227973 ATTATTACTAAATCAT
1 ATTATTATTAAATCAT
7227989 CAAATCATTA
Statistics
Matches: 223, Mismatches: 37, Indels: 49
0.72 0.12 0.16
Matches are distributed among these distances:
20 2 0.01
22 6 0.03
23 57 0.26
24 34 0.15
25 65 0.29
26 46 0.21
27 12 0.05
28 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (25 bp):
ATTATTATTAAATCATTATTATAAT
Found at i:7227796 original size:23 final size:23
Alignment explanation
Indices: 7227696--7227860 Score: 98
Period size: 26 Copynumber: 6.7 Consensus size: 23
7227686 AGTAATAATT
* *
7227696 ATTA-AATCATTAGTATTAAATC
1 ATTATAATGATTATTATTAAATC
* * * *
7227718 ATTATTATAAAATATTACTAAATC
1 ATTATAAT-GATTATTATTAAATC
* * *
7227742 ATTATTAAATCATTACTATTAAATTATT
1 ATTA-T-AATGATTATTATT-AA--ATC
*
7227770 ATTATAATGGTTATTATTAAATC
1 ATTATAATGATTATTATTAAATC
* *
7227793 ATTATTATCATTATTATTAAATC
1 ATTATAATGATTATTATTAAATC
*
7227816 ATTATTATAATGATTATTATCAAATC
1 ---ATTATAATGATTATTATTAAATC
*
7227842 ATTACTAAATCATTATTAT
1 ATTA-T-AATGATTATTAT
7227861 AATGATTATT
Statistics
Matches: 109, Mismatches: 22, Indels: 21
0.72 0.14 0.14
Matches are distributed among these distances:
22 4 0.04
23 28 0.26
24 16 0.15
25 20 0.18
26 34 0.31
27 1 0.01
28 6 0.06
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTATAATGATTATTATTAAATC
Found at i:7227821 original size:37 final size:37
Alignment explanation
Indices: 7227693--7227891 Score: 160
Period size: 37 Copynumber: 5.4 Consensus size: 37
7227683 ATTAGTAATA
* * *
7227693 ATTATTAAATCATTAGTATTAAATCATTATTATAAAAT
1 ATTATTAAATCATTATTATTAAATCATTATTAT-CATT
* * *
7227731 ATTACTAAATC---ATTATTAAATCATTACTATTAAATT
1 ATTATTAAATCATTATTATTAAATCATTATTA-T-CATT
**
7227767 ATTATTATAATGGTTATTATTAAATCATTATTATCATT
1 ATTATTA-AATCATTATTATTAAATCATTATTATCATT
* *
7227805 ATTATTAAATCATTATTA-T-AATGATTATTATCAAATC
1 ATTATTAAATCATTATTATTAAATCATTATTATC--ATT
* * *
7227842 ATTACTAAATCATTATTA-T-AATGATTATTATCAAATC
1 ATTATTAAATCATTATTATTAAATCATTATTATC--ATT
7227879 ATTATTAAATCAT
1 ATTATTAAATCAT
7227892 CAAATCATTA
Statistics
Matches: 140, Mismatches: 14, Indels: 15
0.83 0.08 0.09
Matches are distributed among these distances:
35 28 0.20
36 12 0.09
37 62 0.44
38 20 0.14
39 1 0.01
40 17 0.12
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (37 bp):
ATTATTAAATCATTATTATTAAATCATTATTATCATT
Found at i:7227895 original size:19 final size:19
Alignment explanation
Indices: 7227871--7227926 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
7227861 AATGATTATT
7227871 ATCAAATCATTATTAAATC
1 ATCAAATCATTATTAAATC
*
7227890 ATCAAATC---ATTAAATT
1 ATCAAATCATTATTAAATC
* *
7227906 TTAAAATCATTATTAAATC
1 ATCAAATCATTATTAAATC
7227925 AT
1 AT
7227927 TATTATAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
16 13 0.45
19 16 0.55
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (19 bp):
ATCAAATCATTATTAAATC
Found at i:7227932 original size:132 final size:129
Alignment explanation
Indices: 7227782--7228064 Score: 347
Period size: 132 Copynumber: 2.1 Consensus size: 129
7227772 TATAATGGTT
* *
7227782 ATTATTAAATCATTATTATCATTATTATTAAATCATTATT-A-TAATGATTATTATCAAATCATT
1 ATTATTAAATCATTATTATCATTATTACTAAATCATTATTAAGTAAT-AATATTA--AAATCATT
* * * * *
7227845 ACTAAATCATTATTAT-AATGATTATTATCAAATCATTATTAAATCATCAAATCATTAAATTTTA
63 ACTAAATCATCA-AATCAATAAATATTA--AAATCATTATTAAATCATCAAATCATTAAATATTA
*
7227909 AAATC
125 AAAGC
* * *
7227914 ATTATTAAATCATTATTATAATGATTATTACTAAATCATTATTAAGTCATAATATTAAAATTATT
1 ATTATTAAATCATTA-T-T-ATCATTATTACTAAATCATTATTAAGTAATAATATTAAAATCATT
*
7227979 ACTAAATCATCAAATCATTAAATATTAAAATCATTATTAAATCATCAAATCATTAAATATTAAAA
63 ACTAAATCATCAAATCAATAAATATTAAAATCATTATTAAATCATCAAATCATTAAATATTAAAA
7228044 GC
128 GC
*
7228046 ATTATTAAATCATTTTTAT
1 ATTATTAAATCATTATTAT
7228065 GGTTAATTGA
Statistics
Matches: 132, Mismatches: 13, Indels: 15
0.82 0.08 0.09
Matches are distributed among these distances:
129 2 0.02
130 1 0.01
131 1 0.01
132 67 0.51
133 3 0.02
134 27 0.20
135 21 0.16
136 7 0.05
137 3 0.02
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (129 bp):
ATTATTAAATCATTATTATCATTATTACTAAATCATTATTAAGTAATAATATTAAAATCATTACT
AAATCATCAAATCAATAAATATTAAAATCATTATTAAATCATCAAATCATTAAATATTAAAAGC
Found at i:7227985 original size:97 final size:96
Alignment explanation
Indices: 7227799--7228023 Score: 289
Period size: 97 Copynumber: 2.3 Consensus size: 96
7227789 AATCATTATT
* *
7227799 ATCATT-ATTATT-AAATCATTATTATAATGATTATTATCAAATCATTACTAAATCATTATTATA
1 ATCATTAAATATTAAAATCATTATTA-AATCATTATTATCAAATCATTACTAAATCATTATTATA
* *
7227862 ATGATTATTATCAAATCATTATTAAATCATCAA
65 ATGAATATTA-CAAATCATTACTAAATCATCAA
* *
7227895 ATCATTAAATTTTAAAATCATTATTAAATCATTATTAT-AATGATTATTACTAAATCATTATTAA
1 ATCATTAAATATTAAAATCATTATTAAATCATTATTATCAA--ATCATTACTAAATCATTATT-A
* *
7227959 GTCAT-AATATTA-AAATTATTACTAAATCATCAA
63 -TAATGAATATTACAAATCATTACTAAATCATCAA
7227992 ATCATTAAATATTAAAATCATTATTAAATCAT
1 ATCATTAAATATTAAAATCATTATTAAATCAT
7228024 CAAATCATTA
Statistics
Matches: 114, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
96 8 0.07
97 65 0.57
98 31 0.27
99 7 0.06
100 3 0.03
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (96 bp):
ATCATTAAATATTAAAATCATTATTAAATCATTATTATCAAATCATTACTAAATCATTATTATAA
TGAATATTACAAATCATTACTAAATCATCAA
Found at i:7228009 original size:8 final size:9
Alignment explanation
Indices: 7227967--7228059 Score: 54
Period size: 8 Copynumber: 10.3 Consensus size: 9
7227957 AAGTCATAAT
*
7227967 ATTAAAATT
1 ATTAAAATC
7227976 ATTACTAAATC
1 ATTA--AAATC
*
7227987 A-TCAAATC
1 ATTAAAATC
7227995 ATT-AAAT-
1 ATTAAAATC
7228002 ATTAAAATC
1 ATTAAAATC
7228011 ATTATTAAATC
1 ATTA--AAATC
*
7228022 A-TCAAATC
1 ATTAAAATC
7228030 ATT-AAAT-
1 ATTAAAATC
*
7228037 ATTAAAAGC
1 ATTAAAATC
7228046 ATTATTAAATC
1 ATTA--AAATC
7228057 ATT
1 ATT
7228060 TTTATGGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 22
0.71 0.05 0.23
Matches are distributed among these distances:
7 6 0.09
8 27 0.40
9 14 0.21
10 2 0.03
11 18 0.27
ACGTcount: A:0.51, C:0.11, G:0.01, T:0.38
Consensus pattern (9 bp):
ATTAAAATC
Found at i:7228017 original size:19 final size:19
Alignment explanation
Indices: 7227995--7228055 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
7227985 TCATCAAATC
7227995 ATTAAATATTAAAATCATT
1 ATTAAATATTAAAATCATT
*
7228014 ATTAAATCA-TCAAATC---
1 ATTAAAT-ATTAAAATCATT
*
7228030 ATTAAATATTAAAAGCATT
1 ATTAAATATTAAAATCATT
7228049 ATTAAAT
1 ATTAAAT
7228056 CATTTTTATG
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
15 1 0.03
16 12 0.35
19 20 0.59
20 1 0.03
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.38
Consensus pattern (19 bp):
ATTAAATATTAAAATCATT
Found at i:7228020 original size:35 final size:35
Alignment explanation
Indices: 7227964--7228058 Score: 163
Period size: 35 Copynumber: 2.7 Consensus size: 35
7227954 ATTAAGTCAT
* *
7227964 AATATTAAAATTATTACTAAATCATCAAATCATTA
1 AATATTAAAATCATTATTAAATCATCAAATCATTA
7227999 AATATTAAAATCATTATTAAATCATCAAATCATTA
1 AATATTAAAATCATTATTAAATCATCAAATCATTA
*
7228034 AATATTAAAAGCATTATTAAATCAT
1 AATATTAAAATCATTATTAAATCAT
7228059 TTTTATGGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 57 1.00
ACGTcount: A:0.52, C:0.11, G:0.01, T:0.37
Consensus pattern (35 bp):
AATATTAAAATCATTATTAAATCATCAAATCATTA
Found at i:7228040 original size:97 final size:98
Alignment explanation
Indices: 7227837--7228058 Score: 258
Period size: 97 Copynumber: 2.3 Consensus size: 98
7227827 GATTATTATC
* * *
7227837 AAATCATTACTAAATCATTATT-ATAATGATTATTATCAAATCATTATTAAATCATCAAATCATT
1 AAAT-ATTACTAAATCATTATTAATCATGAATATTA-CAAATCATTACTAAATCATCAAATCATT
* * *
7227901 AAATTTTAAAATCATTATTAAATCATTATTATAAT
64 AAATATTAAAATCATTATTAAATCATCATAATAAT
* * *
7227936 GATTATTACTAAATCATTATTAAGTCAT-AATATTA-AAATTATTACTAAATCATCAAATCATTA
1 AAATATTACTAAATCATTATTAA-TCATGAATATTACAAATCATTACTAAATCATCAAATCATTA
*
7227999 AATATTAAAATCATTATTAAATCATCA-AATCATT
65 AATATTAAAATCATTATTAAATCATCATAAT-AAT
*
7228033 AAATATTA--AAAGCATTATTAAATCAT
1 AAATATTACTAAATCATTATT-AATCAT
7228059 TTTTATGGTT
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
95 14 0.13
96 4 0.04
97 59 0.56
98 17 0.16
99 9 0.08
100 3 0.03
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (98 bp):
AAATATTACTAAATCATTATTAATCATGAATATTACAAATCATTACTAAATCATCAAATCATTAA
ATATTAAAATCATTATTAAATCATCATAATAAT
Found at i:7228287 original size:14 final size:14
Alignment explanation
Indices: 7228268--7228294 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7228258 TACTAATAAT
7228268 TATTAAATCATTAC
1 TATTAAATCATTAC
7228282 TATTAAATCATTA
1 TATTAAATCATTA
7228295 AATATTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
TATTAAATCATTAC
Found at i:7228339 original size:49 final size:49
Alignment explanation
Indices: 7228266--7228586 Score: 431
Period size: 49 Copynumber: 6.6 Consensus size: 49
7228256 AATACTAATA
**
7228266 ATTATTA--AATCATTACTATTAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
**
7228313 ATTATTACTAATTGTTACTACCAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
*
7228362 ATTATTACTAATCATT-CTACCAAATAATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
*
7228410 ATTATTACTAATCATTACTACTAAATCATTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
* *
7228459 ATTATTACTAATCATTACTATCAAATCTTTAAATATTAATAATAATTTC
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
* * * *
7228508 ATTATTACTAATCATTACTA-AATAATTATTATAATTTTAA-ATATAAATTC
1 ATTATTACTAATCATTACTACCA-AATCATTA-AATATTAATA-ATAATTTC
* * *
7228558 ATTATTA--AATCATGATTAGCAAATCATTA
1 ATTATTACTAATCATTACTACCAAATCATTA
7228587 CTAAATCAAA
Statistics
Matches: 246, Mismatches: 21, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
47 7 0.03
48 64 0.26
49 154 0.63
50 21 0.09
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (49 bp):
ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTC
Found at i:7228395 original size:97 final size:98
Alignment explanation
Indices: 7228266--7228586 Score: 431
Period size: 97 Copynumber: 3.3 Consensus size: 98
7228256 AATACTAATA
** **
7228266 ATTATTA--AATCATTACTATTAAATCATTAAATATTAATAATAATTTCATTATTACTAATTGTT
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATT
7228329 ACTACCAAATCATTAAATATTAATAATAATTTC
66 ACTACCAAATCATTAAATATTAATAATAATTTC
*
7228362 ATTATTACTAATCATT-CTACCAAATAATTAAATATTAATAATAATTTCATTATTACTAATCATT
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATT
*
7228426 ACTACTAAATCATTAAATATTAATAATAATTTC
66 ACTACCAAATCATTAAATATTAATAATAATTTC
* *
7228459 ATTATTACTAATCATTACTATCAAATCTTTAAATATTAATAATAATTTCATTATTACTAATCATT
1 ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATT
* * * *
7228524 ACTA-AATAATTATTATAATTTTAA-ATATAAATTC
66 ACTACCA-AATCATTA-AATATTAATA-ATAATTTC
* * *
7228558 ATTATTA--AATCATGATTAGCAAATCATTA
1 ATTATTACTAATCATTACTACCAAATCATTA
7228587 CTAAATCAAA
Statistics
Matches: 202, Mismatches: 17, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
96 7 0.03
97 110 0.54
98 64 0.32
99 21 0.10
ACGTcount: A:0.45, C:0.11, G:0.01, T:0.43
Consensus pattern (98 bp):
ATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATT
ACTACCAAATCATTAAATATTAATAATAATTTC
Found at i:7228426 original size:13 final size:14
Alignment explanation
Indices: 7228408--7228440 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7228398 AATAATAATT
*
7228408 TCATTATTACT-AA
1 TCATTACTACTAAA
7228421 TCATTACTACTAAA
1 TCATTACTACTAAA
7228435 TCATTA
1 TCATTA
7228441 AATATTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.42
Consensus pattern (14 bp):
TCATTACTACTAAA
Found at i:7228436 original size:146 final size:142
Alignment explanation
Indices: 7228266--7228570 Score: 450
Period size: 146 Copynumber: 2.1 Consensus size: 142
7228256 AATACTAATA
* **
7228266 ATTATTAAATCATTACTATTAAATCATTAAATATTAATAATAATTTCATTATTACTAATTGTTAC
1 ATTATTAAATCATTACTACTAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
7228331 TACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTCTACCAAATAATTAAATA
66 TACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCA-T-TACCAAATAATTAAATA
7228396 TTAATAATAATTTC
129 TTAATAATAATTTC
7228410 ATTATTACTAATCATTACTACTAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATT
1 ATTATTA--AATCATTACTACTAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATT
* * *
7228475 ACTATCAAATCTTTAAATATTAATAATAATTTCATTATTACTAATCATTACTAAATAATTATTAT
64 ACTACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACCAAAT-A--ATTA-
* *
7228540 AATTTTAA-ATATAAATTC
125 AATATTAATA-ATAATTTC
7228558 ATTATTAAATCAT
1 ATTATTAAATCAT
7228571 GATTAGCAAA
Statistics
Matches: 146, Mismatches: 8, Indels: 12
0.88 0.05 0.07
Matches are distributed among these distances:
144 14 0.10
145 2 0.01
146 104 0.71
147 5 0.03
148 21 0.14
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.44
Consensus pattern (142 bp):
ATTATTAAATCATTACTACTAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTAC
TACCAAATCATTAAATATTAATAATAATTTCATTATTACTAATCATTACCAAATAATTAAATATT
AATAATAATTTC
Found at i:7231644 original size:17 final size:17
Alignment explanation
Indices: 7231589--7231648 Score: 57
Period size: 17 Copynumber: 3.3 Consensus size: 17
7231579 ATAATATAAA
*
7231589 TTAAACAAAATATTTTT
1 TTAAACACAATATTTTT
* *
7231606 TTAAAACAACACTAAATATTT
1 TT-AAAC-ACA--ATATTTTT
7231627 TTAAACACAATATTTTT
1 TTAAACACAATATTTTT
7231644 TTAAA
1 TTAAA
7231649 TTGGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
17 13 0.38
18 4 0.12
19 5 0.15
20 4 0.12
21 8 0.24
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAACACAATATTTTT
Found at i:7231724 original size:82 final size:84
Alignment explanation
Indices: 7231613--7231775 Score: 276
Period size: 83 Copynumber: 2.0 Consensus size: 84
7231603 TTTTTAAAAC
**
7231613 AACACTAAATATTTTTAAACACAATA-TTTTTTTAAATTGGAATAAAGTAAACAAATTAATTTTA
1 AACACTAAATATTTTTAAACACAATATTTTTTTTAAACGGGAATAAAGTAAACAAATTAATTTTA
7231677 TATAATCTAATATAAAATA
66 TATAATCTAATATAAAATA
*
7231696 AACACTAAATATTTTT-AACACAATATTTTTTTTAAACGGGAATAAATTAAACAAATTAATTTTA
1 AACACTAAATATTTTTAAACACAATATTTTTTTTAAACGGGAATAAAGTAAACAAATTAATTTTA
*
7231760 TATACTCTAATATAAA
66 TATAATCTAATATAAA
7231776 CTAACTAACT
Statistics
Matches: 75, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
82 9 0.12
83 66 0.88
ACGTcount: A:0.49, C:0.09, G:0.04, T:0.39
Consensus pattern (84 bp):
AACACTAAATATTTTTAAACACAATATTTTTTTTAAACGGGAATAAAGTAAACAAATTAATTTTA
TATAATCTAATATAAAATA
Found at i:7232285 original size:21 final size:21
Alignment explanation
Indices: 7232261--7232301 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7232251 TTAATATAAT
7232261 ATAACTTAAACTAACAAACTG
1 ATAACTTAAACTAACAAACTG
* *
7232282 ATAATTTATACTAACAAACT
1 ATAACTTAAACTAACAAACT
7232302 AATTAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.51, C:0.17, G:0.02, T:0.29
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTG
Found at i:7232291 original size:28 final size:28
Alignment explanation
Indices: 7232227--7232291 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
7232217 TTATATAATC
*
7232227 TAATATATAACTTAAACTAACAAATTAA
1 TAATATATAACTTAAACTAACAAACTAA
*
7232255 T-ATAATATAACTTAAACTAACAAACTGA
1 TAAT-ATATAACTTAAACTAACAAACTAA
*
7232283 TAATTTATA
1 TAATATATA
7232292 CTAACAAACT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 2 0.06
28 28 0.88
29 2 0.06
ACGTcount: A:0.54, C:0.11, G:0.02, T:0.34
Consensus pattern (28 bp):
TAATATATAACTTAAACTAACAAACTAA
Found at i:7236867 original size:18 final size:17
Alignment explanation
Indices: 7236828--7236870 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7236818 ATTATATGGA
7236828 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
7236844 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
7236862 TATTATTAT
1 TATTATTAT
7236871 ACGTATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Done.