Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005680.1 Hibiscus syriacus cultivar Beakdansim tig00013285_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: 1821426
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 5 of 6
Found at i:996615 original size:15 final size:16
Alignment explanation
Indices: 996595--996624 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
996585 TTAAAAACCA
996595 TTTTGAAAA-TATATT
1 TTTTGAAAATTATATT
996610 TTTTGAAAATTATAT
1 TTTTGAAAATTATAT
996625 AATATATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (16 bp):
TTTTGAAAATTATATT
Found at i:996631 original size:25 final size:25
Alignment explanation
Indices: 996567--996643 Score: 73
Period size: 25 Copynumber: 3.0 Consensus size: 25
996557 ATGAAAACAT
*
996567 TTATATAATATATAATTTTTAAAAA
1 TTATATAATATATAATTTTTGAAAA
** * * *
996592 CCATTTTGAAAATATATTTTTTGAAAA
1 TTA-TAT-AATATATAATTTTTGAAAA
*
996619 TTATATAATATATAGTTTTTGAAAA
1 TTATATAATATATAATTTTTGAAAA
996644 CGTTTTAAAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
27 17 0.44
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (25 bp):
TTATATAATATATAATTTTTGAAAA
Found at i:996698 original size:38 final size:35
Alignment explanation
Indices: 996615--996800 Score: 131
Period size: 38 Copynumber: 5.0 Consensus size: 35
996605 ATATTTTTTG
* *
996615 AAAA-TTATATAATATATAGTTTTTGAAAACGTTTT
1 AAAATTTATATAATATATA-ATTTTGAAAACGTTTA
* *
996650 AAAATATATATAATATATACTTTTGAAAACGTTATGA
1 AAAATTTATATAATATATAATTTTGAAAACGTT-T-A
* * *
996687 AAACATTTATATAATATATAATTTTTAAAAACCATTTTG
1 AAA-ATTTATATAATATATAA-TTTTGAAAA-C-GTTTA
* * * *
996726 AAAATATATATAATATATAGTTTTTTTTAAAAACATTTTA
1 AAAATTTATATAATATATA----ATTTTGAAAAC-GTTTA
* **
996766 AAAATTTATATATTATATGTTTTTGAAAACGTTTA
1 AAAATTTATATAATATATAATTTTGAAAACGTTTA
996801 TATATATATT
Statistics
Matches: 124, Mismatches: 16, Indels: 22
0.77 0.10 0.14
Matches are distributed among these distances:
35 21 0.17
36 24 0.19
37 3 0.02
38 30 0.24
39 11 0.09
40 24 0.19
41 11 0.09
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
AAAATTTATATAATATATAATTTTGAAAACGTTTA
Found at i:998094 original size:11 final size:11
Alignment explanation
Indices: 998078--998119 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
998068 AATATTTTTC
998078 TTATTTAATAT
1 TTATTTAATAT
*
998089 TTATTTATTAT
1 TTATTTAATAT
998100 TTATTTAAT-T
1 TTATTTAATAT
998110 TTAATTTAAT
1 TT-ATTTAAT
998120 TTCTTTGATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 3 0.11
11 25 0.89
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATTTAATAT
Found at i:998162 original size:3 final size:3
Alignment explanation
Indices: 998156--998184 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
998146 TATTTACTTT
998156 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
998185 TTGATTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:1001603 original size:20 final size:20
Alignment explanation
Indices: 1001567--1001604 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1001557 ATCCTATTTT
**
1001567 CTGATAATCTTTTATTCCCA
1 CTGATAATCTTACATTCCCA
1001587 CTGATAATCTTACATTCC
1 CTGATAATCTTACATTCC
1001605 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.42
Consensus pattern (20 bp):
CTGATAATCTTACATTCCCA
Found at i:1009558 original size:13 final size:13
Alignment explanation
Indices: 1009540--1009573 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
1009530 TATCGTATAT
1009540 TTTATATTTTTTC
1 TTTATATTTTTTC
1009553 TTTATATTTTTTC
1 TTTATATTTTTTC
*
1009566 TTGATATT
1 TTTATATT
1009574 CTCTTTCCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (13 bp):
TTTATATTTTTTC
Found at i:1016716 original size:43 final size:42
Alignment explanation
Indices: 1016668--1017187 Score: 359
Period size: 43 Copynumber: 12.3 Consensus size: 42
1016658 AAGGTTTTTA
* * *
1016668 ATTTTTAT-AATCTCAC-ATTTAACTTTATAATTGAGCCCCT
1 ATTTTTTTCAATCTCACTTTTTACCTTTATAATTGAGCCCCT
* * *
1016708 ATTTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGACTCT
1 A-TTTTTTTCAATCTCACTTTTTACCTTTATAATTGAGCCCCT
* *
1016751 ATATTTTTCAATCTCACTTTTTACCTTCATAA--G-GCCCCT
1 ATTTTTTTCAATCTCACTTTTTACCTTTATAATTGAGCCCCT
* * * *
1016790 AATATTTTCAATC-CCCTTTTCTAACCTTTATAATTGAGACCCTT
1 ATTTTTTTCAATCTCACTTTT-T-ACCTTTATAATTGAG-CCCCT
**
1016834 AATTTTTTTCAATCTCACTTTCCACCTTTATAATTGAGGCCCCT
1 -ATTTTTTTCAATCTCACTTTTTACCTTTATAATTGA-GCCCCT
* *
1016878 AATTTTTTTTAATCTCAC-TTTTACCTTTATAATTGATGCCCTT
1 -ATTTTTTTCAATCTCACTTTTTACCTTTATAATTGA-GCCCCT
** * * * * *
1016921 AACTTTCT-AATTTCACTTTTTACCTTTTTTAATTGAGGCTCTT
1 ATTTTTTTCAATCTCACTTTTTACC-TTTATAATTGA-GCCCCT
** * * * *
1016964 AACTTTTTCAATCTTATTTTTTACCTTTTGTAATTGAAGCTCCT
1 ATTTTTTTCAATCTCACTTTTTACC-TTTATAATTG-AGCCCCT
*
1017008 AATTTTTTTCAAT-TCCACTTTTTACCTATATAA--GA--CCCT
1 -ATTTTTTTCAATCT-CACTTTTTACCTTTATAATTGAGCCCCT
* * * *
1017047 AATTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCC-
1 ATTTTTTTCAATCTCACTTTTTACCTTTATAATTGAGCCCCT
* * * * * * *
1017088 ATAATTTTTCAATCCCATTTTTTACCTTTTGTAATCGAGACTCT
1 AT-TTTTTTCAATCTCACTTTTTACC-TTTATAATTGAGCCCCT
* * * *
1017132 -TAATTTTTCAATCTCACTTCTTACCTTTACAATTGATGTCCCT
1 AT-TTTTTTCAATCTCACTTTTTACCTTTATAATTGA-GCCCCT
1017175 AATTTTTTTCAAT
1 -ATTTTTTTCAAT
1017188 TCTATAAAAT
Statistics
Matches: 382, Mismatches: 69, Indels: 54
0.76 0.14 0.11
Matches are distributed among these distances:
38 33 0.09
39 19 0.05
40 13 0.03
41 15 0.04
42 79 0.21
43 103 0.27
44 82 0.21
45 33 0.09
46 5 0.01
ACGTcount: A:0.25, C:0.22, G:0.05, T:0.48
Consensus pattern (42 bp):
ATTTTTTTCAATCTCACTTTTTACCTTTATAATTGAGCCCCT
Found at i:1016971 original size:87 final size:87
Alignment explanation
Indices: 1016690--1017167 Score: 247
Period size: 85 Copynumber: 5.6 Consensus size: 87
1016680 TCACATTTAA
* *
1016690 CTTTATAATTGA-GCCCCT-ATTTTTTTTCAATCCCACTTTTTACCTTTATAATTGAGACTC-TA
1 CTTTATAATTGAGGCCCCTAATTTTTTTT-AATCTCAC-TTTTACCTTTATAATTGAGACCCTTA
**
1016752 TAT-TTT-TCAATCTCACTTTTTAC
64 -ATCTTTCTCAATCTCACTTTCCAC
* * * *
1016775 CTTCAT-A---AGGCCCCTAA-TATTTTCAATC-CCCTTTTCTAACCTTTATAATTGAGACCCTT
1 CTTTATAATTGAGGCCCCTAATTTTTTTTAATCTCAC-TTT-T-ACCTTTATAATTGAGACCCTT
* *
1016834 AATTTTTTTCAATCTCACTTTCCAC
63 AATCTTTCTCAATCTCACTTTCCAC
1016859 CTTTATAATTGAGGCCCCTAATTTTTTTTAATCTCACTTTTACCTTTATAATTGATG-CCCTTAA
1 CTTTATAATTGAGGCCCCTAATTTTTTTTAATCTCACTTTTACCTTTATAATTGA-GACCCTTAA
* **
1016923 -CTTTCT-AATTTCACTTTTTAC
65 TCTTTCTCAATCTCACTTTCCAC
* * * * * * * *
1016944 CTTTTTTAATTGAGGCTCTTAA-CTTTTTCAATCTTATTTTTTACCTTTTGTAATTGA-AGCTCC
1 C-TTTATAATTGAGGCCCCTAATTTTTTTTAATCTCA-CTTTTACC-TTTATAATTGAGA-C-CC
* * **
1017007 -TAATTTTTTTCAAT-TCCACTTTTTAC
61 TTAATCTTTCTCAATCT-CACTTTCCAC
* * * * *
1017033 CTATATAA--GA---CCCTAA-TTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCCATAA
1 CTTTATAATTGAGGCCCCTAATTTTTTTTAATCTCAC-TTTTACCTTTATAATTGAGACCCTTAA
* * **
1017092 T-TTT-TCAATCCCATTTTTTAC
65 TCTTTCTCAATCTCACTTTCCAC
* * * * * * *
1017113 CTTTTGTAATCGAGACTCTTAA--TTTTTCAATCTCACTTCTTACCTTTACAATTGA
1 C-TTTATAATTGAGGCCCCTAATTTTTTTTAATCTCACTT-TTACCTTTATAATTGA
1017168 TGTCCCTAAT
Statistics
Matches: 314, Mismatches: 45, Indels: 68
0.74 0.11 0.16
Matches are distributed among these distances:
80 21 0.07
81 16 0.05
82 45 0.14
83 31 0.10
84 23 0.07
85 57 0.18
86 34 0.11
87 35 0.11
88 24 0.08
89 26 0.08
90 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.05, T:0.47
Consensus pattern (87 bp):
CTTTATAATTGAGGCCCCTAATTTTTTTTAATCTCACTTTTACCTTTATAATTGAGACCCTTAAT
CTTTCTCAATCTCACTTTCCAC
Found at i:1017049 original size:169 final size:167
Alignment explanation
Indices: 1016711--1017189 Score: 408
Period size: 169 Copynumber: 2.8 Consensus size: 167
1016701 AGCCCCTATT
* * * * * *
1016711 TTTTTTCAATCCCACTTTTTACCTTTATAATTGAGACTC-TATATTTTTCAATCTCACTTTTTAC
1 TTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCCATA-ATTTCTCAATCCCACTTTTTAC
** * * * * * *
1016775 C-TTCATAA--G-G-CCCCTAATATTTTCAATC-CCCTTTTCTAACCTTTATAATTG-AGACCCT
65 CTTTTGTAATCGAGACTCTTAAT-TTTTCAATCTCAC--TTCTTACCTTTACAATTGAAGTCCC-
** *
1016833 TAATTTTTTTCAA-TCTCACTTTCCACCTTTATAATTGAGGCCCCTAA
126 TAATTTTTTTCAATTC-CACTTTTTACCTATATAA--GA---CCCTAA
* * * * **
1016880 TTTTTTTTAATCTCAC-TTTTACCTTTATAATTGATG-CCCTTAACTTTCT-AATTTCACTTTTT
1 -TTTTATCAATCTCACTTTTTACCTTTATAACTGA-GACCCATAA-TTTCTCAATCCCACTTTTT
* * * * * * **
1016942 ACCTTTTTTAATTGAGGCTCTTAACTTTTTCAATCTTATTTTTTACCTTTTGTAATTGAAG-CTC
63 ACCTTTTGTAATCGAGACTCTTAA-TTTTTCAATCTCACTTCTTACC-TTTACAATTGAAGTC-C
1017006 CTAATTTTTTTCAATTCCACTTTTTACCTATATAAGACCCTAA
125 CTAATTTTTTTCAATTCCACTTTTTACCTATATAAGACCCTAA
* *
1017049 TTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCCATAATTTTTCAATCCCATTTTTTACC
1 TTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCCATAATTTCTCAATCCCACTTTTTACC
*
1017114 TTTTGTAATCGAGACTCTTAATTTTTCAATCTCACTTCTTACCTTTACAATTGATGTCCCTAATT
66 TTTTGTAATCGAGACTCTTAATTTTTCAATCTCACTTCTTACCTTTACAATTGAAGTCCCTAATT
1017179 TTTTTCAATTC
131 TTTTTCAATTC
1017190 TATAAAATTC
Statistics
Matches: 256, Mismatches: 35, Indels: 39
0.78 0.11 0.12
Matches are distributed among these distances:
167 28 0.11
168 38 0.15
169 96 0.38
170 25 0.10
172 3 0.01
173 7 0.03
174 52 0.20
175 7 0.03
ACGTcount: A:0.24, C:0.23, G:0.05, T:0.48
Consensus pattern (167 bp):
TTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCCATAATTTCTCAATCCCACTTTTTACC
TTTTGTAATCGAGACTCTTAATTTTTCAATCTCACTTCTTACCTTTACAATTGAAGTCCCTAATT
TTTTTCAATTCCACTTTTTACCTATATAAGACCCTAA
Found at i:1017065 original size:38 final size:39
Alignment explanation
Indices: 1017012--1017114 Score: 113
Period size: 42 Copynumber: 2.6 Consensus size: 39
1017002 GCTCCTAATT
1017012 TTTTTCAAT-TCCACTTTTTACCTAT-A-TAAGACCCTAA
1 TTTTTCAATCT-CACTTTTTACCTATAACTAAGACCCTAA
*
1017049 TTTTATCAATCTCACTTTTTACCTTTATAACTGAGACCCATAA
1 TTTT-TCAATCTCACTTTTTACC--TATAACTAAGACCC-TAA
* *
1017092 TTTTTCAATCCCATTTTTTACCT
1 TTTTTCAATCTCACTTTTTACCT
1017115 TTTGTAATCG
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
37 4 0.07
38 16 0.29
39 1 0.02
40 4 0.07
41 1 0.02
42 23 0.41
43 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.46
Consensus pattern (39 bp):
TTTTTCAATCTCACTTTTTACCTATAACTAAGACCCTAA
Found at i:1019053 original size:16 final size:16
Alignment explanation
Indices: 1019019--1019077 Score: 84
Period size: 16 Copynumber: 3.8 Consensus size: 16
1019009 TTGTTTACTT
*
1019019 TTGAATGATT-AAGTG
1 TTGAATGATTCAAATG
1019034 TTGAATGATTCAAATG
1 TTGAATGATTCAAATG
1019050 TTGAATGATTCAAATG
1 TTGAATGATTCAAATG
* *
1019066 TCGATTGATTCA
1 TTGAATGATTCA
1019078 GGGGCTCTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
15 10 0.25
16 30 0.75
ACGTcount: A:0.34, C:0.07, G:0.20, T:0.39
Consensus pattern (16 bp):
TTGAATGATTCAAATG
Found at i:1027585 original size:16 final size:16
Alignment explanation
Indices: 1027560--1027590 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1027550 GTTTCTATTT
*
1027560 TTTTTTAGTTCAAGTC
1 TTTTTGAGTTCAAGTC
1027576 TTTTTGAGTTCAAGT
1 TTTTTGAGTTCAAGT
1027591 TTCAATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (16 bp):
TTTTTGAGTTCAAGTC
Found at i:1038334 original size:32 final size:31
Alignment explanation
Indices: 1038253--1038344 Score: 96
Period size: 32 Copynumber: 2.9 Consensus size: 31
1038243 GTCTCAAAAG
* *
1038253 TTACAAAATAGTCATTAAACTTCTCAAATTA
1 TTACAAAATAGTCATTAAACTTATCAAACTA
* * *
1038284 TTATAAAAATTA-TTATTAAATTTTATCAAACTA
1 TTA-CAAAA-TAGTCATTAAA-CTTATCAAACTA
*
1038317 TTACAAAATAGTCATTAAACTCATCAAA
1 TTACAAAATAGTCATTAAACTTATCAAA
1038345 ATATCATGCA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
31 12 0.25
32 22 0.46
33 14 0.29
ACGTcount: A:0.48, C:0.13, G:0.02, T:0.37
Consensus pattern (31 bp):
TTACAAAATAGTCATTAAACTTATCAAACTA
Found at i:1046912 original size:22 final size:22
Alignment explanation
Indices: 1046884--1046934 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
1046874 TAAGTACTTC
1046884 CAATCATTTGACAATGAACGTT
1 CAATCATTTGACAATGAACGTT
1046906 CAATCATTTGACAATGAACGTT
1 CAATCATTTGACAATGAACGTT
1046928 CAATCAT
1 CAATCAT
1046935 CCTTATAGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (22 bp):
CAATCATTTGACAATGAACGTT
Found at i:1047207 original size:2 final size:2
Alignment explanation
Indices: 1047190--1047238 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
1047180 ATTAATATTA
*
1047190 AT AT -T AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1047231 AT AT AT AT
1 AT AT AT AT
1047239 TTATTCATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 43 0.98
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1053126 original size:19 final size:19
Alignment explanation
Indices: 1053102--1053142 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1053092 AATAATAAGT
*
1053102 TTAATAGTATTTATTA-TAA
1 TTAATAATATTT-TTAGTAA
1053121 TTAATAATATTTTTAGTAA
1 TTAATAATATTTTTAGTAA
1053140 TTA
1 TTA
1053143 TTTTATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTAATAATATTTTTAGTAA
Found at i:1054705 original size:20 final size:20
Alignment explanation
Indices: 1054676--1054730 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1054666 ATTATTGTAT
*
1054676 TGTATAAATAGTACCGATAC
1 TGTATGAATAGTACCGATAC
1054696 TGTATGAATAGTACCGATAC
1 TGTATGAATAGTACCGATAC
* *
1054716 TGTGTGAACAGTACC
1 TGTATGAATAGTACC
1054731 ACTAGGGAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
TGTATGAATAGTACCGATAC
Found at i:1066110 original size:189 final size:189
Alignment explanation
Indices: 1065784--1066158 Score: 635
Period size: 189 Copynumber: 2.0 Consensus size: 189
1065774 GTAATTACAA
*
1065784 ATCTAATGTTGTTCTTCAATTTTTAATTATGATTAAACCCCATCAACCCTTACACAAGAAAGGTT
1 ATCTAATGTTGTTCTTCAATTTTTAATTATGATTAAACCCCATCAACCATTACACAAGAAAGGTT
* *
1065849 TCTCTTTTGGTTTCTTTTTCAGAGCTTCTCCCTTTTTATGCCAAAGTTGCACCTTAGAAAACCAG
66 TCTCCTTTGGTTTCTTTTTCAGAACTTCTCCCTTTTTATGCCAAAGTTGCACCTTAGAAAACCAG
* *
1065914 TCTCTAAACATGCAGCCATGACATATCTTCTCCTTCATAACTCACTTCCAGTGCAACAC
131 ACTCTAAACATGCAGCCATGAAATATCTTCTCCTTCATAACTCACTTCCAGTGCAACAC
*
1065973 ATCTAATGTTGTTCTTCAATTTTTAATTATGATTAAACCCCATTAACCATTACACAA-ACAAGGT
1 ATCTAATGTTGTTCTTCAATTTTTAATTATGATTAAACCCCATCAACCATTACACAAGA-AAGGT
* * *
1066037 TTCTCCTTTGGTTTCTTTTTCAGAACTTCTCCCTTTTTATGCCAAAGTTGCATCTTGGAAAATCA
65 TTCTCCTTTGGTTTCTTTTTCAGAACTTCTCCCTTTTTATGCCAAAGTTGCACCTTAGAAAACCA
* *
1066102 GACTCTAAATATGCAGCTATGAAATATCTTCTCCTTCATAACTCACTTCCAGTGCAA
130 GACTCTAAACATGCAGCCATGAAATATCTTCTCCTTCATAACTCACTTCCAGTGCAA
1066159 AAACTGAAGC
Statistics
Matches: 174, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
188 1 0.01
189 173 0.99
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.37
Consensus pattern (189 bp):
ATCTAATGTTGTTCTTCAATTTTTAATTATGATTAAACCCCATCAACCATTACACAAGAAAGGTT
TCTCCTTTGGTTTCTTTTTCAGAACTTCTCCCTTTTTATGCCAAAGTTGCACCTTAGAAAACCAG
ACTCTAAACATGCAGCCATGAAATATCTTCTCCTTCATAACTCACTTCCAGTGCAACAC
Found at i:1079932 original size:14 final size:14
Alignment explanation
Indices: 1079915--1079963 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
1079905 ATATAAATGA
1079915 ATAAACGAACGAAC
1 ATAAACGAACGAAC
1079929 ATAAACGAACG---
1 ATAAACGAACGAAC
*
1079940 -TAACCGAACGAAC
1 ATAAACGAACGAAC
*
1079953 ATAACCGAACG
1 ATAAACGAACG
1079964 TTCACGAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 9 0.30
14 21 0.70
ACGTcount: A:0.51, C:0.24, G:0.16, T:0.08
Consensus pattern (14 bp):
ATAAACGAACGAAC
Found at i:1079971 original size:24 final size:23
Alignment explanation
Indices: 1079918--1079988 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 23
1079908 TAAATGAATA
1079918 AACGAACGAACATAAACGAACGT
1 AACGAACGAACATAAACGAACGT
*
1079941 AACCGAACGAACATAACCGAACGTT
1 AA-CGAACGAACATAAACGAACG-T
* *
1079966 CACGAACGTAA-ATGAACGAACGT
1 AACGAACG-AACATAAACGAACGT
1079989 GACCTATGTT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 3 0.07
24 34 0.83
25 4 0.10
ACGTcount: A:0.46, C:0.24, G:0.18, T:0.11
Consensus pattern (23 bp):
AACGAACGAACATAAACGAACGT
Found at i:1085806 original size:11 final size:11
Alignment explanation
Indices: 1085782--1085812 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1085772 GTTGAGGGCA
1085782 AGGGAAAG-GG
1 AGGGAAAGTGG
1085792 AGGGAAAGTGG
1 AGGGAAAGTGG
1085803 AGGGAAAGTG
1 AGGGAAAGTG
1085813 AAGAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.40
11 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.55, T:0.06
Consensus pattern (11 bp):
AGGGAAAGTGG
Found at i:1086277 original size:29 final size:29
Alignment explanation
Indices: 1086221--1086277 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
1086211 AAATTTCATT
*
1086221 TTATCTCAACAAATAATTTTAATTAAATC
1 TTATCTCAACAAATAATTTTAATAAAATC
*
1086250 TTATTTCAACAAATAATTTTTAA-AAAAT
1 TTATCTCAACAAATAA-TTTTAATAAAAT
1086278 TCTATGACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 19 0.76
30 6 0.24
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (29 bp):
TTATCTCAACAAATAATTTTAATAAAATC
Found at i:1089208 original size:2 final size:2
Alignment explanation
Indices: 1089201--1089236 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1089191 ATTAATTATC
1089201 TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1089237 GATTGATTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1089224 original size:15 final size:15
Alignment explanation
Indices: 1089204--1089233 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1089194 AATTATCTAT
1089204 ATATATATATATATA
1 ATATATATATATATA
1089219 ATATATATATATATA
1 ATATATATATATATA
1089234 TATGATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATATATATATATATA
Found at i:1089224 original size:17 final size:17
Alignment explanation
Indices: 1089202--1089235 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1089192 TTAATTATCT
1089202 ATATATATATATATATA
1 ATATATATATATATATA
1089219 ATATATATATATATATA
1 ATATATATATATATATA
1089236 TGATTGATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATATATATA
Found at i:1092944 original size:128 final size:125
Alignment explanation
Indices: 1092708--1092963 Score: 451
Period size: 128 Copynumber: 2.0 Consensus size: 125
1092698 CTTTGCTTCG
1092708 GCTAAACCGATCGGATTTGTCGGTGAAGGCGGGAACGTCATATGGGGAAGGCTAAGGCCCGCCTT
1 GCTAAACCGATCGGATTTGTCGGTGAAGGCGGGAACGTCATATGGGGAAGGCTAA-G-CCGCCTT
1092773 GCTACTCGAGAGCTCGTTAGTTAATAAGCGAGAGGTTTTGAAGCCGGTTTAGCCGCCGCGTC
64 GCTACTCGAGAGCTCGTTAGTTAATAAGCGAGAGGTTTTGAAGCCGGTTTAGCCGCCGCGTC
1092835 GCTAAACCGATCGGATTTGTCGGTGAAGGCGGGAACGTCATATGGGGAAGGGCAGCTAA-CCGCC
1 GCTAAACCGATCGGATTTGTCGGTGAAGGCGGGAACGTCATATGGGGAA--G--GCTAAGCCGCC
1092899 TTGCTACTCGAGAGCTCGTTAGTTAATAAGCGAGAGGTTTTGAAGCCGGTTTAGCCGCCGCGTC
62 TTGCTACTCGAGAGCTCGTTAGTTAATAAGCGAGAGGTTTTGAAGCCGGTTTAGCCGCCGCGTC
1092963 G
1 G
1092964 TCCGGCCGAA
Statistics
Matches: 125, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
127 49 0.39
128 70 0.56
129 1 0.01
131 5 0.04
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.23
Consensus pattern (125 bp):
GCTAAACCGATCGGATTTGTCGGTGAAGGCGGGAACGTCATATGGGGAAGGCTAAGCCGCCTTGC
TACTCGAGAGCTCGTTAGTTAATAAGCGAGAGGTTTTGAAGCCGGTTTAGCCGCCGCGTC
Found at i:1094133 original size:2 final size:2
Alignment explanation
Indices: 1094126--1094198 Score: 114
Period size: 2 Copynumber: 36.5 Consensus size: 2
1094116 CTTGTACGTG
1094126 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
1094168 TA TA TA TCA TA -A TA TA TA TA TCA TA T- TA TA T
1 TA TA TA T-A TA TA TA TA TA TA T-A TA TA TA TA T
1094199 GTATCGATTA
Statistics
Matches: 67, Mismatches: 0, Indels: 8
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.03
2 61 0.91
3 4 0.06
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1101092 original size:60 final size:60
Alignment explanation
Indices: 1100983--1101095 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
1100973 TTGAGTGATT
** *
1100983 ATTTTATAAATTTTAATAGTTCGAAAACTCAACAAAGTAATGTCTTATAATCAAAGAATC
1 ATTTTATAAATTTTAATAGTTCGAAAACTCAACAAAGTAACATCCTATAATCAAAGAATC
* *
1101043 ATTTTATAATTTTTAATAG-TCGATAGACTCAACAAAGTAACATCCTATAATCA
1 ATTTTATAAATTTTAATAGTTCGA-AAACTCAACAAAGTAACATCCTATAATCA
1101096 GGAGACCACT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
59 4 0.09
60 43 0.91
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.35
Consensus pattern (60 bp):
ATTTTATAAATTTTAATAGTTCGAAAACTCAACAAAGTAACATCCTATAATCAAAGAATC
Found at i:1101449 original size:119 final size:120
Alignment explanation
Indices: 1101238--1101479 Score: 477
Period size: 119 Copynumber: 2.0 Consensus size: 120
1101228 ATAAACAGAA
1101238 AAAACAAGTGTATGGACACCAGGGTTGCATTTCTCTATATATACGCAACTTGTTGTATATAGATG
1 AAAACAAGTGTATGGACACCAGGGTTGCATTTCTCTATATATACGCAACTTGTTGTATATAGATG
1101303 GTGAATAGTTGTTCGTACCGGCATCCGGTTTGGGCCATACAA-GATGGAGAGGAC
66 GTGAATAGTTGTTCGTACCGGCATCCGGTTTGGGCCATACAAGGATGGAGAGGAC
1101357 AAAACAAGTGTATGGACACCAGGGTTGCATTTCTCTATATATACGCAACTTGTTGTATATAGATG
1 AAAACAAGTGTATGGACACCAGGGTTGCATTTCTCTATATATACGCAACTTGTTGTATATAGATG
1101422 GTGAATAGTTGTTCGTACCGGCATCCGGTTTGGGCCATACAAGGATGGAGAGGAC
66 GTGAATAGTTGTTCGTACCGGCATCCGGTTTGGGCCATACAAGGATGGAGAGGAC
1101477 AAA
1 AAA
1101480 GTCTCTTATT
Statistics
Matches: 122, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
119 107 0.88
120 15 0.12
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (120 bp):
AAAACAAGTGTATGGACACCAGGGTTGCATTTCTCTATATATACGCAACTTGTTGTATATAGATG
GTGAATAGTTGTTCGTACCGGCATCCGGTTTGGGCCATACAAGGATGGAGAGGAC
Found at i:1103874 original size:17 final size:17
Alignment explanation
Indices: 1103839--1103879 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1103829 TATTTTAACC
** *
1103839 AAAAATTTAAATGTTTA
1 AAAAATTTAAACATCTA
1103856 AAAAATTTAAACATCTA
1 AAAAATTTAAACATCTA
1103873 AAAAATT
1 AAAAATT
1103880 AAAAGTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (17 bp):
AAAAATTTAAACATCTA
Found at i:1106555 original size:87 final size:90
Alignment explanation
Indices: 1106393--1106570 Score: 326
Period size: 87 Copynumber: 2.0 Consensus size: 90
1106383 TGGGCCGTCT
1106393 GCTTCGCCTTCTCGGCCACGGAACCAGCGATCTCCTCGGTCTTCTCCATCACACCCTGTGCTCCC
1 GCTTCGCCTTCTCGGCCACGGAACCAGCGATCTCCTC-GTCTTCTCCATCACACCCTGTGCTCCC
1106458 TCCTTAGATTTCTCCTTCCATTCGTA
65 TCCTTAGATTTCTCCTTCCATTCGTA
1106484 GCTTCGCCTTCTCGGCCACGGAACCAGCGATCT-C-C-TCTTCTCCATCACACCCTGTGCTCCCT
1 GCTTCGCCTTCTCGGCCACGGAACCAGCGATCTCCTCGTCTTCTCCATCACACCCTGTGCTCCCT
1106546 CCTTAGATTTCTCCTTCCATTCGTA
66 CCTTAGATTTCTCCTTCCATTCGTA
1106571 CGCAGTTTGC
Statistics
Matches: 87, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
87 52 0.60
89 1 0.01
90 1 0.01
91 33 0.38
ACGTcount: A:0.13, C:0.41, G:0.15, T:0.31
Consensus pattern (90 bp):
GCTTCGCCTTCTCGGCCACGGAACCAGCGATCTCCTCGTCTTCTCCATCACACCCTGTGCTCCCT
CCTTAGATTTCTCCTTCCATTCGTA
Found at i:1107541 original size:16 final size:16
Alignment explanation
Indices: 1107520--1107555 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1107510 AATGATTAAG
1107520 TGTTGAATAATTCAAA
1 TGTTGAATAATTCAAA
* *
1107536 TGTTGAATGATTCAGA
1 TGTTGAATAATTCAAA
1107552 TGTT
1 TGTT
1107556 CTGTATGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (16 bp):
TGTTGAATAATTCAAA
Found at i:1112076 original size:34 final size:36
Alignment explanation
Indices: 1112038--1112108 Score: 128
Period size: 34 Copynumber: 2.0 Consensus size: 36
1112028 TTTTAAATTG
1112038 TTGAATATTGATTCCTTAGTAA-TTAACG-AAAGGT
1 TTGAATATTGATTCCTTAGTAATTTAACGAAAAGGT
1112072 TTGAATATTGATTCCTTAGTAATTTAACGAAAAGGT
1 TTGAATATTGATTCCTTAGTAATTTAACGAAAAGGT
1112108 T
1 T
1112109 CGAGCTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 22 0.63
35 6 0.17
36 7 0.20
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.39
Consensus pattern (36 bp):
TTGAATATTGATTCCTTAGTAATTTAACGAAAAGGT
Found at i:1128853 original size:20 final size:21
Alignment explanation
Indices: 1128828--1128886 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
1128818 GGCTGCTGGA
1128828 AACCGGTT-TAACCGGTTTTC
1 AACCGGTTCTAACCGGTTTTC
*
1128848 AACCGGTTCTGACCGG-TTTC
1 AACCGGTTCTAACCGGTTTTC
*
1128868 AACCGGTTCGAACCGGTTT
1 AACCGGTTCTAACCGGTTT
1128887 GACCGGTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 26 0.76
21 8 0.24
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (21 bp):
AACCGGTTCTAACCGGTTTTC
Found at i:1128864 original size:10 final size:10
Alignment explanation
Indices: 1128849--1128918 Score: 62
Period size: 10 Copynumber: 7.3 Consensus size: 10
1128839 CCGGTTTTCA
1128849 ACCGGTTCTG
1 ACCGGTTCTG
*
1128859 ACCGGTT-TCA
1 ACCGGTTCT-G
1128869 ACCGGTTC-G
1 ACCGGTTCTG
1128878 AACCGGTT-TG
1 -ACCGGTTCTG
1128888 ACCGG-TCTG
1 ACCGGTTCTG
1128897 AACCGGTT-TG
1 -ACCGGTTCTG
1128907 ACCGG-TCTG
1 ACCGGTTCTG
1128916 ACC
1 ACC
1128919 CGACCCGACC
Statistics
Matches: 50, Mismatches: 2, Indels: 17
0.72 0.03 0.25
Matches are distributed among these distances:
8 2 0.04
9 18 0.36
10 29 0.58
11 1 0.02
ACGTcount: A:0.16, C:0.30, G:0.29, T:0.26
Consensus pattern (10 bp):
ACCGGTTCTG
Found at i:1128893 original size:19 final size:20
Alignment explanation
Indices: 1128849--1128916 Score: 90
Period size: 19 Copynumber: 3.5 Consensus size: 20
1128839 CCGGTTTTCA
*
1128849 ACCGGTTCTG-ACCGGTTTCA
1 ACCGGTTCTGAACCGGTTT-G
1128869 ACCGGTTC-GAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
1128888 ACCGG-TCTGAACCGGTTTG
1 ACCGGTTCTGAACCGGTTTG
1128907 ACCGG-TCTGA
1 ACCGGTTCTGA
1128917 CCCGACCCGA
Statistics
Matches: 45, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
18 2 0.04
19 27 0.60
20 16 0.36
ACGTcount: A:0.16, C:0.28, G:0.29, T:0.26
Consensus pattern (20 bp):
ACCGGTTCTGAACCGGTTTG
Found at i:1128917 original size:9 final size:9
Alignment explanation
Indices: 1128879--1128918 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
1128869 ACCGGTTCGA
*
1128879 ACCGGTTTG
1 ACCGGTCTG
1128888 ACCGGTCTG
1 ACCGGTCTG
*
1128897 AACCGGTTTG
1 -ACCGGTCTG
1128907 ACCGGTCTG
1 ACCGGTCTG
1128916 ACC
1 ACC
1128919 CGACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:1128925 original size:5 final size:5
Alignment explanation
Indices: 1128915--1128972 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
1128905 TGACCGGTCT
* *
1128915 GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
1128964 GACCC GACC
1 GACCC GACC
1128973 GTTGACCGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 37 0.82
7 8 0.18
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.07
Consensus pattern (5 bp):
GACCC
Found at i:1128941 original size:22 final size:22
Alignment explanation
Indices: 1128915--1128979 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
1128905 TGACCGGTCT
1128915 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1128937 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1128959 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1128980 GTTGACCGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.49, G:0.23, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1128981 original size:7 final size:7
Alignment explanation
Indices: 1128969--1128999 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1128959 GACCCGACCC
1128969 GACCGTT
1 GACCGTT
1128976 GACCGTT
1 GACCGTT
1128983 GACCGTT
1 GACCGTT
1128990 GACCGTT
1 GACCGTT
1128997 GAC
1 GAC
1129000 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:1136162 original size:9 final size:9
Alignment explanation
Indices: 1136148--1136201 Score: 54
Period size: 9 Copynumber: 5.8 Consensus size: 9
1136138 GGCTGCTGGA
1136148 AACCGGTTT
1 AACCGGTTT
*
1136157 AACCGGTTCG
1 AACCGGTT-T
1136167 AACCGGTTT
1 AACCGGTTT
* *
1136176 GACCGGTCTG
1 AACCGGT-TT
1136186 AACCGGTTT
1 AACCGGTTT
*
1136195 GACCGGT
1 AACCGGT
1136202 CTGACCCAAC
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 21 0.58
10 15 0.42
ACGTcount: A:0.19, C:0.26, G:0.30, T:0.26
Consensus pattern (9 bp):
AACCGGTTT
Found at i:1136172 original size:19 final size:20
Alignment explanation
Indices: 1136148--1136205 Score: 86
Period size: 19 Copynumber: 3.0 Consensus size: 20
1136138 GGCTGCTGGA
*
1136148 AACCGGTTTAACCGGTTC-G
1 AACCGGTTTGACCGGTTCTG
1136167 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
1136186 AACCGGTTTGACCGG-TCTG
1 AACCGGTTTGACCGGTTCTG
1136205 A
1 A
1136206 CCCAACCCGA
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
18 2 0.05
19 35 0.95
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (20 bp):
AACCGGTTTGACCGGTTCTG
Found at i:1136206 original size:9 final size:9
Alignment explanation
Indices: 1136168--1136207 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
1136158 ACCGGTTCGA
*
1136168 ACCGGTTTG
1 ACCGGTCTG
1136177 ACCGGTCTG
1 ACCGGTCTG
*
1136186 AACCGGTTTG
1 -ACCGGTCTG
1136196 ACCGGTCTG
1 ACCGGTCTG
1136205 ACC
1 ACC
1136208 CAACCCGACC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.15, C:0.30, G:0.30, T:0.25
Consensus pattern (9 bp):
ACCGGTCTG
Found at i:1136229 original size:5 final size:5
Alignment explanation
Indices: 1136221--1136283 Score: 72
Period size: 5 Copynumber: 11.8 Consensus size: 5
1136211 CCCGACCGTT
* *
1136221 GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC GACCGTT GACCC
1 GACCC GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC
1136270 GACCC GACCC GACC
1 GACCC GACCC GACC
1136284 GTTGACCGTT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
5 42 0.84
7 8 0.16
ACGTcount: A:0.19, C:0.52, G:0.22, T:0.06
Consensus pattern (5 bp):
GACCC
Found at i:1136230 original size:22 final size:22
Alignment explanation
Indices: 1136204--1136290 Score: 165
Period size: 22 Copynumber: 4.0 Consensus size: 22
1136194 TGACCGGTCT
*
1136204 GACCCAACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1136226 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1136248 GACCCGACCCGACCGTTGACCC
1 GACCCGACCCGACCGTTGACCC
1136270 GACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCGTTGACC
1136291 GTTGACCGTT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 64 1.00
ACGTcount: A:0.20, C:0.49, G:0.22, T:0.09
Consensus pattern (22 bp):
GACCCGACCCGACCGTTGACCC
Found at i:1136292 original size:7 final size:7
Alignment explanation
Indices: 1136280--1136310 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
1136270 GACCCGACCC
1136280 GACCGTT
1 GACCGTT
1136287 GACCGTT
1 GACCGTT
1136294 GACCGTT
1 GACCGTT
1136301 GACCGTT
1 GACCGTT
1136308 GAC
1 GAC
1136311 TTTCTTTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:1147148 original size:21 final size:22
Alignment explanation
Indices: 1147122--1147177 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 22
1147112 TTGGGGTCTG
*
1147122 TGCATGTAGCA-CTCAGAGCCT
1 TGCATGCAGCAGCTCAGAGCCT
1147143 TGCATGCAGCACAGCTCAGAGCCT
1 TGCATGCAG--CAGCTCAGAGCCT
1147167 TGCATGCAGCA
1 TGCATGCAGCA
1147178 ATGGTGGCCA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
21 8 0.26
22 2 0.06
23 2 0.06
24 19 0.61
ACGTcount: A:0.25, C:0.30, G:0.25, T:0.20
Consensus pattern (22 bp):
TGCATGCAGCAGCTCAGAGCCT
Found at i:1163420 original size:22 final size:22
Alignment explanation
Indices: 1163395--1163437 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1163385 TTATTATTGG
1163395 TATATTATATA-CTACATGAAGT
1 TATATTATATATC-ACATGAAGT
1163417 TATATTATATATCACATGAAG
1 TATATTATATATCACATGAAG
1163438 CACACAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 19 0.95
23 1 0.05
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (22 bp):
TATATTATATATCACATGAAGT
Found at i:1170360 original size:23 final size:23
Alignment explanation
Indices: 1170330--1170384 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
1170320 TGAATCTTCC
1170330 CCTCCTTTTTGTGGTTTTGTCTG
1 CCTCCTTTTTGTGGTTTTGTCTG
1170353 CCTCCTTTTTGTGGTTTTGTCTG
1 CCTCCTTTTTGTGGTTTTGTCTG
*
1170376 CCACCTTTT
1 CCTCCTTTT
1170385 CACCTTTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.02, C:0.25, G:0.18, T:0.55
Consensus pattern (23 bp):
CCTCCTTTTTGTGGTTTTGTCTG
Found at i:1171178 original size:14 final size:14
Alignment explanation
Indices: 1171159--1171186 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1171149 AAGTGAAAGA
1171159 ATAGTTATATAATT
1 ATAGTTATATAATT
1171173 ATAGTTATATAATT
1 ATAGTTATATAATT
1171187 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:1184376 original size:3 final size:3
Alignment explanation
Indices: 1184368--1184401 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1184358 AGTATTTGCG
1184368 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
1 GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA GCA G
1184402 TGGCATCTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.35, T:0.00
Consensus pattern (3 bp):
GCA
Found at i:1201810 original size:69 final size:69
Alignment explanation
Indices: 1201688--1201867 Score: 243
Period size: 69 Copynumber: 2.6 Consensus size: 69
1201678 GAGTGGGAAT
*
1201688 TGGTGGCATTGTGGATGCTGTTCCAGGAAGAGGAGGTGGTGGCATTGTGGATGCTGTGCAAGGAG
1 TGGTGGCATTGTGGATGCTGTTCCA-G--GAGGAGGCGGTGGCATTGTGGATGCTGTGCAAGGAG
1201753 GAGGAGG
63 GAGGAGG
* * * * *
1201760 TGGTGGCATTGTGGATGCTGTGCCAGGAGGATGCGGTGGCATTGTTGATGCTGTTCCAGGAGGAG
1 TGGTGGCATTGTGGATGCTGTTCCAGGAGGAGGCGGTGGCATTGTGGATGCTGTGCAAGGAGGAG
*
1201825 GATG
66 GAGG
* * *
1201829 TTGTGGCATTGTTGATGCTGTTCCAGGAGGAGGTGGTGG
1 TGGTGGCATTGTGGATGCTGTTCCAGGAGGAGGCGGTGG
1201868 TGGTGGAACT
Statistics
Matches: 96, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
69 71 0.74
71 1 0.01
72 24 0.25
ACGTcount: A:0.17, C:0.11, G:0.45, T:0.27
Consensus pattern (69 bp):
TGGTGGCATTGTGGATGCTGTTCCAGGAGGAGGCGGTGGCATTGTGGATGCTGTGCAAGGAGGAG
GAGG
Found at i:1201859 original size:36 final size:36
Alignment explanation
Indices: 1201643--1201870 Score: 254
Period size: 36 Copynumber: 6.4 Consensus size: 36
1201633 TTGTTGCACC
* * *
1201643 AGGAGGA-GATGGTGGCATTATGGACGCTGTTCCTGG
1 AGGAGGATG-TGGTGGCATTGTGGATGCTGTTCCAGG
1201679 AGTG-GGAAT-TGGTGGCATTGTGGATGCTGTTCCAGG
1 AG-GAGG-ATGTGGTGGCATTGTGGATGCTGTTCCAGG
* * * *
1201715 AAGAGGAGGTGGTGGCATTGTGGATGCTGTGCAAGG
1 AGGAGGATGTGGTGGCATTGTGGATGCTGTTCCAGG
* *
1201751 AGGAGGAGGTGGTGGCATTGTGGATGCTGTGCC---
1 AGGAGGATGTGGTGGCATTGTGGATGCTGTTCCAGG
* *
1201784 AGGAGGATGCGGTGGCATTGTTGATGCTGTTCCAGG
1 AGGAGGATGTGGTGGCATTGTGGATGCTGTTCCAGG
* *
1201820 AGGAGGATGTTGTGGCATTGTTGATGCTGTTCCAGG
1 AGGAGGATGTGGTGGCATTGTGGATGCTGTTCCAGG
1201856 AGGAGG-TGGTGGTGG
1 AGGAGGAT-GTGGTGG
1201871 TGGAACTGGA
Statistics
Matches: 167, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
33 29 0.17
35 3 0.02
36 133 0.80
37 2 0.01
ACGTcount: A:0.18, C:0.11, G:0.45, T:0.27
Consensus pattern (36 bp):
AGGAGGATGTGGTGGCATTGTGGATGCTGTTCCAGG
Found at i:1202468 original size:24 final size:24
Alignment explanation
Indices: 1202441--1202513 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
1202431 TGGTGGTGCA
*
1202441 GCTGATGGTGGTCACAATGGTGAT
1 GCTGATGGTGGTCGCAATGGTGAT
*
1202465 GCTGTTGGTGGTCGCAATGGTGAT
1 GCTGATGGTGGTCGCAATGGTGAT
* * *
1202489 GCTGCTGGTGATCGCAACGGTGAT
1 GCTGATGGTGGTCGCAATGGTGAT
1202513 G
1 G
1202514 GAAATGGTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.16, C:0.15, G:0.40, T:0.29
Consensus pattern (24 bp):
GCTGATGGTGGTCGCAATGGTGAT
Found at i:1206118 original size:16 final size:16
Alignment explanation
Indices: 1206097--1206130 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1206087 TAACGAAGAA
*
1206097 TTAATTTATTATATAT
1 TTAATTTATGATATAT
1206113 TTAATTTATGATATAT
1 TTAATTTATGATATAT
1206129 TT
1 TT
1206131 GGAAAGTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
TTAATTTATGATATAT
Found at i:1208411 original size:18 final size:19
Alignment explanation
Indices: 1208376--1208412 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1208366 CACGGAATGT
1208376 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
1208396 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
1208413 GGATTACTGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:1213305 original size:16 final size:17
Alignment explanation
Indices: 1213273--1213305 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1213263 TATCCTTCTT
*
1213273 GTTCTTTTTATTGTTTC
1 GTTCTTTTTATTATTTC
1213290 GTTCTTTTT-TTATTTC
1 GTTCTTTTTATTATTTC
1213306 ACAACACGTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
GTTCTTTTTATTATTTC
Found at i:1213485 original size:19 final size:17
Alignment explanation
Indices: 1213445--1213495 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
1213435 CTCCGACTCG
*
1213445 AAATCTAAATAAAAAAT
1 AAATTTAAATAAAAAAT
1213462 AAATTTAAATCAAATAAAT
1 AAATTTAAAT-AAA-AAAT
* *
1213481 TAA-TTAAAGAAAAAA
1 AAATTTAAATAAAAAA
1213496 GACATTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
16 3 0.10
17 12 0.41
18 8 0.28
19 6 0.21
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (17 bp):
AAATTTAAATAAAAAAT
Found at i:1217843 original size:14 final size:14
Alignment explanation
Indices: 1217824--1217862 Score: 55
Period size: 12 Copynumber: 2.9 Consensus size: 14
1217814 CAATAACCAT
1217824 AAATCACGCCAAAC
1 AAATCACGCCAAAC
1217838 AAATCA--CCAAAC
1 AAATCACGCCAAAC
*
1217850 AAGTCACGCCAAA
1 AAATCACGCCAAA
1217863 AACTTTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.51, C:0.33, G:0.08, T:0.08
Consensus pattern (14 bp):
AAATCACGCCAAAC
Found at i:1219622 original size:17 final size:17
Alignment explanation
Indices: 1219600--1219642 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
1219590 CGATCGTCTA
1219600 TATTTTTATTATCTTTT
1 TATTTTTATTATCTTTT
* * *
1219617 TATTTTTTCTTGTTTTTT
1 TA-TTTTTATTATCTTTT
1219635 TATTTTTA
1 TATTTTTA
1219643 ATAAGTTGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
17 7 0.33
18 14 0.67
ACGTcount: A:0.14, C:0.05, G:0.02, T:0.79
Consensus pattern (17 bp):
TATTTTTATTATCTTTT
Found at i:1220119 original size:19 final size:19
Alignment explanation
Indices: 1220097--1220134 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
1220087 TTAATTTATG
*
1220097 ATTATGATTGTAA-ATATTT
1 ATTATAATT-TAAGATATTT
1220116 ATTATAATTTAAGATATTT
1 ATTATAATTTAAGATATTT
1220135 TCTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (19 bp):
ATTATAATTTAAGATATTT
Found at i:1220822 original size:7 final size:7
Alignment explanation
Indices: 1220810--1220912 Score: 206
Period size: 7 Copynumber: 14.7 Consensus size: 7
1220800 CATATGGTTT
1220810 TGGCTAA
1 TGGCTAA
1220817 TGGCTAA
1 TGGCTAA
1220824 TGGCTAA
1 TGGCTAA
1220831 TGGCTAA
1 TGGCTAA
1220838 TGGCTAA
1 TGGCTAA
1220845 TGGCTAA
1 TGGCTAA
1220852 TGGCTAA
1 TGGCTAA
1220859 TGGCTAA
1 TGGCTAA
1220866 TGGCTAA
1 TGGCTAA
1220873 TGGCTAA
1 TGGCTAA
1220880 TGGCTAA
1 TGGCTAA
1220887 TGGCTAA
1 TGGCTAA
1220894 TGGCTAA
1 TGGCTAA
1220901 TGGCTAA
1 TGGCTAA
1220908 TGGCT
1 TGGCT
1220913 TATGTTAACT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 96 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (7 bp):
TGGCTAA
Found at i:1227716 original size:19 final size:18
Alignment explanation
Indices: 1227675--1227716 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1227665 AGTATGACAG
**
1227675 AACATAAAACAAAGTTTA
1 AACATAAAACAAAGTAGA
1227693 AACATAAAACAAAGTAAGA
1 AACATAAAACAAAGT-AGA
1227712 AACAT
1 AACAT
1227717 TTAATCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.64, C:0.12, G:0.07, T:0.17
Consensus pattern (18 bp):
AACATAAAACAAAGTAGA
Found at i:1228087 original size:33 final size:34
Alignment explanation
Indices: 1228049--1228146 Score: 128
Period size: 33 Copynumber: 2.9 Consensus size: 34
1228039 TACTTTTATT
*
1228049 TAAAATTCAAATTTCATCCTTATCTTCAGCA-AA
1 TAAAATTCAAATTCCATCCTTATCTTCAGCACAA
* *
1228082 TAAAATTCAAATTCCAGCCTTAGCTTCAGCAGCTAA
1 TAAAATTCAAATTCCATCCTTATCTTCAGCA-C-AA
1228118 TAAAATTCAAATTCCAGT-CTTATCTTCAG
1 TAAAATTCAAATTCCA-TCCTTATCTTCAG
1228147 TAGCTATCCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
33 28 0.50
36 28 0.50
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (34 bp):
TAAAATTCAAATTCCATCCTTATCTTCAGCACAA
Found at i:1228127 original size:36 final size:36
Alignment explanation
Indices: 1228049--1228152 Score: 142
Period size: 36 Copynumber: 3.0 Consensus size: 36
1228039 TACTTTTATT
* *
1228049 TAAAATTCAAATTTCATCCTTATCTTCAGCA---AA
1 TAAAATTCAAATTCCAGCCTTATCTTCAGCAGCTAA
*
1228082 TAAAATTCAAATTCCAGCCTTAGCTTCAGCAGCTAA
1 TAAAATTCAAATTCCAGCCTTATCTTCAGCAGCTAA
* *
1228118 TAAAATTCAAATTCCAGTCTTATCTTCAGTAGCTA
1 TAAAATTCAAATTCCAGCCTTATCTTCAGCAGCTA
1228153 TCCACTCCTA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
33 28 0.45
36 34 0.55
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (36 bp):
TAAAATTCAAATTCCAGCCTTATCTTCAGCAGCTAA
Found at i:1229012 original size:2 final size:2
Alignment explanation
Indices: 1229005--1229037 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
1228995 TTTTCTCAAA
1229005 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1229038 TCCCCCTATG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1231517 original size:54 final size:54
Alignment explanation
Indices: 1231459--1231593 Score: 173
Period size: 54 Copynumber: 2.5 Consensus size: 54
1231449 CCCTGAGAGG
* *
1231459 ATCATTATTGGAAACCAAATTTCTAGAAGGGAATCAAACTT-GGCATCTAGTGAC
1 ATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAA-TTCGGCATCTAGTGAC
* * * *
1231513 ATCATTACTGGAAATCAATTTTCTAGAAGGGAGTCTAATTCGGCATCTAGTGGC
1 ATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAATTCGGCATCTAGTGAC
** *
1231567 GCCATTACTGGAAATCAACTTTCTAGA
1 ATCATTACTGGAAATCAAATTTCTAGA
1231594 TCAAAATCAA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 2 0.03
54 69 0.97
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (54 bp):
ATCATTACTGGAAATCAAATTTCTAGAAGGGAATCAAATTCGGCATCTAGTGAC
Found at i:1235368 original size:21 final size:21
Alignment explanation
Indices: 1235344--1235396 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
1235334 GCATTGCATT
1235344 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
1235365 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
1235386 TCGCGTTGCGA
1 TCGCGTTGCGA
1235397 CATTTCGCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.28
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:1235474 original size:41 final size:41
Alignment explanation
Indices: 1235424--1235630 Score: 150
Period size: 41 Copynumber: 5.2 Consensus size: 41
1235414 TTCGAGTTAA
* *
1235424 CGTTGCGATAGTCTACGGTTGTCGTTGCGATTTTTCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
*
1235465 CGTTGCGATAGTCTACAGTTGTTGTTGCGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
* * *
1235506 TGTTGCGA-A----A-A-TCG-CGTTGCGATTTTCC-ATTT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
* * * * **
1235538 CACGTTGCGAT--TTTTCAGTTCG-CGTTGCGATAGTCTACAGTTGT
1 --CGTTGCGATAGTCTACAGTT-GTCGTTGCGAT--TTTCCAAAT-T
* *
1235582 CGTTGCGATAGTCTACAGTTATCGTTGTGATTTTCCAAATT
1 CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
1235623 CGTTGCGA
1 CGTTGCGA
1235631 AAATTCGTTG
Statistics
Matches: 129, Mismatches: 21, Indels: 32
0.71 0.12 0.18
Matches are distributed among these distances:
32 3 0.02
33 13 0.10
34 9 0.07
35 1 0.01
36 1 0.01
38 1 0.01
39 1 0.01
40 11 0.09
41 54 0.42
42 17 0.13
43 2 0.02
44 16 0.12
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.40
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGTCGTTGCGATTTTCCAAATT
Found at i:1235545 original size:20 final size:20
Alignment explanation
Indices: 1235520--1235568 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1235510 GCGAAAATCG
*
1235520 CGTTGCGATTTTCCATTTCA
1 CGTTGCGATTTTCCAGTTCA
* *
1235540 CGTTGCGATTTTTCAGTTCG
1 CGTTGCGATTTTCCAGTTCA
1235560 CGTTGCGAT
1 CGTTGCGAT
1235569 AGTCTACAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCCAGTTCA
Found at i:1235585 original size:22 final size:22
Alignment explanation
Indices: 1235560--1235608 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
1235550 TTTCAGTTCG
*
1235560 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTAT
1235582 CGTTGCGATAGTCTACAGTTAT
1 CGTTGCGATAGTCTACAGTTAT
1235604 CGTTG
1 CGTTG
1235609 TGATTTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.18, C:0.18, G:0.27, T:0.37
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTAT
Found at i:1236370 original size:19 final size:20
Alignment explanation
Indices: 1236346--1236434 Score: 67
Period size: 19 Copynumber: 4.5 Consensus size: 20
1236336 TTTTTTAACT
*
1236346 ATCGCAACGAA-TTTAGAAA
1 ATCGCAACGAACTGTAGAAA
**
1236365 ATCGCAACGACAACTGTAGACT
1 ATCGCAACG--AACTGTAGAAA
* **
1236387 TTCGCAAC-AACTGTAGACT
1 ATCGCAACGAACTGTAGAAA
* *
1236406 ATCGCAACGAA-TTTGGAAA
1 ATCGCAACGAACTGTAGAAA
1236425 ATCGCAACGA
1 ATCGCAACGA
1236435 CATTGTAGAC
Statistics
Matches: 57, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
19 41 0.72
20 2 0.04
21 2 0.04
22 12 0.21
ACGTcount: A:0.39, C:0.22, G:0.18, T:0.20
Consensus pattern (20 bp):
ATCGCAACGAACTGTAGAAA
Found at i:1236391 original size:22 final size:22
Alignment explanation
Indices: 1236365--1236415 Score: 72
Period size: 19 Copynumber: 2.5 Consensus size: 22
1236355 AATTTAGAAA
1236365 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
*
1236387 TTCGC-A--ACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
1236406 ATCGCAACGA
1 ATCGCAACGA
1236416 ATTTGGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
19 17 0.71
20 1 0.04
21 1 0.04
22 5 0.21
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:1236813 original size:14 final size:15
Alignment explanation
Indices: 1236782--1236814 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
1236772 ATTAATTTTT
1236782 TTATATATTTAAATA
1 TTATATATTTAAATA
*
1236797 TTATATA-TTACATA
1 TTATATATTTAAATA
1236811 TTAT
1 TTAT
1236815 CTTTTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATATTTAAATA
Found at i:1256604 original size:2 final size:2
Alignment explanation
Indices: 1256597--1256649 Score: 88
Period size: 2 Copynumber: 26.0 Consensus size: 2
1256587 ATATGATGTG
*
1256597 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT CAC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT
1256640 AT AT AT AT AT
1 AT AT AT AT AT
1256650 TGTAATTTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 47 0.98
3 1 0.02
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1271950 original size:40 final size:40
Alignment explanation
Indices: 1271906--1271997 Score: 166
Period size: 40 Copynumber: 2.3 Consensus size: 40
1271896 GTTTCCAGAT
*
1271906 TCGCAACATGATTTTGACTATCGCAATGCGAATATGTAAA
1 TCGCAACGTGATTTTGACTATCGCAATGCGAATATGTAAA
*
1271946 TCGCAACGCGATTTTGACTATCGCAATGCGAATATGTAAA
1 TCGCAACGTGATTTTGACTATCGCAATGCGAATATGTAAA
1271986 TCGCAACGTGAT
1 TCGCAACGTGAT
1271998 AATACATAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (40 bp):
TCGCAACGTGATTTTGACTATCGCAATGCGAATATGTAAA
Found at i:1272010 original size:21 final size:21
Alignment explanation
Indices: 1271984--1272059 Score: 77
Period size: 21 Copynumber: 3.7 Consensus size: 21
1271974 CGAATATGTA
*
1271984 AATCGCAACGTGATAATACAT
1 AATCGCAACGCGATAATACAT
**
1272005 AATCGCAACGCGATTCTGAC-T
1 AATCGCAACGCGATAAT-ACAT
1272026 -ATCGCAACGCGATAATACA-
1 AATCGCAACGCGATAATACAT
*
1272045 ATATCGCAATGCGAT
1 A-ATCGCAACGCGAT
1272060 TTTCAAAGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 2 0.04
20 14 0.31
21 27 0.60
22 2 0.04
ACGTcount: A:0.37, C:0.24, G:0.17, T:0.22
Consensus pattern (21 bp):
AATCGCAACGCGATAATACAT
Found at i:1272031 original size:20 final size:20
Alignment explanation
Indices: 1271915--1272060 Score: 93
Period size: 20 Copynumber: 7.2 Consensus size: 20
1271905 TTCGCAACAT
* *
1271915 GATTTTGACTATCGCAATGC
1 GATTATGACTATCGCAACGC
* *
1271935 GAATATGTA-AATCGCAACGC
1 GATTATG-ACTATCGCAACGC
* *
1271955 GATTTTGACTATCGCAATGC
1 GATTATGACTATCGCAACGC
* * *
1271975 GAATATGTA-AATCGCAACGT
1 GATTATG-ACTATCGCAACGC
*
1271995 GATAAT-ACATAATCGCAACGC
1 GATTATGAC-T-ATCGCAACGC
*
1272016 GATTCTGACTATCGCAACGC
1 GATTATGACTATCGCAACGC
* *
1272036 GATAAT-ACAATATCGCAATGC
1 GATTATGAC--TATCGCAACGC
1272057 GATT
1 GATT
1272061 TTCAAAGCGC
Statistics
Matches: 94, Mismatches: 23, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
18 1 0.01
19 3 0.03
20 59 0.63
21 29 0.31
22 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (20 bp):
GATTATGACTATCGCAACGC
Found at i:1272231 original size:22 final size:22
Alignment explanation
Indices: 1272203--1272260 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 22
1272193 CTACGGCGAC
1272203 ATCCGTCCTCATCTCCGACGAA
1 ATCCGTCCTCATCTCCGACGAA
* *
1272225 ATTCGTCCCCATCTCCGACGAA
1 ATCCGTCCTCATCTCCGACGAA
1272247 ATCCGT-CT-ATCTCC
1 ATCCGTCCTCATCTCC
1272261 ATCTCTCAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
21 1 0.03
22 25 0.78
ACGTcount: A:0.21, C:0.41, G:0.12, T:0.26
Consensus pattern (22 bp):
ATCCGTCCTCATCTCCGACGAA
Found at i:1274448 original size:19 final size:19
Alignment explanation
Indices: 1274424--1274474 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
1274414 ATTGTTTAAG
*
1274424 GTGCATCGATGCACATGTA
1 GTGCATCGATGCACATGCA
1274443 GTGCATCGATGCACATGCA
1 GTGCATCGATGCACATGCA
1274462 GTGCATCGATGCA
1 GTGCATCGATGCA
1274475 TTAATTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (19 bp):
GTGCATCGATGCACATGCA
Found at i:1275249 original size:23 final size:23
Alignment explanation
Indices: 1275188--1275249 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 23
1275178 CATTATTATA
1275188 TGGCACTAAGGTGCAATTCTACG
1 TGGCACTAAGGTGCAATTCTACG
* **
1275211 CGG--CTCCGGTGCAATTCTACG
1 TGGCACTAAGGTGCAATTCTACG
* *
1275232 TGGCACTTAGGTGTAATT
1 TGGCACTAAGGTGCAATT
1275250 ATATGAGCTG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
21 18 0.60
23 12 0.40
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (23 bp):
TGGCACTAAGGTGCAATTCTACG
Found at i:1281961 original size:23 final size:23
Alignment explanation
Indices: 1281928--1281990 Score: 92
Period size: 23 Copynumber: 2.7 Consensus size: 23
1281918 ATTATTATAT
1281928 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
1281951 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
1281974 GGCACTTA-GGTGCAATT
1 GGCAC-TACGGTGCAATT
1281991 ATATGAGCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
23 35 0.97
24 1 0.03
ACGTcount: A:0.21, C:0.27, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Found at i:1283231 original size:24 final size:24
Alignment explanation
Indices: 1283197--1283250 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
1283187 CTGAAACATC
1283197 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* * **
1283221 ATCAAAGTCCGGGTATTGACTGAG
1 ATCAAAATCCGAGTATTGACCAAG
1283245 ATCAAA
1 ATCAAA
1283251 TTTCGAATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1284092 original size:41 final size:41
Alignment explanation
Indices: 1284046--1284176 Score: 135
Period size: 41 Copynumber: 3.2 Consensus size: 41
1284036 ACTAAAACCT
* * *
1284046 GTTGCGAATTTGAAATTCAGTGTTGTGACAGTCAGAATCGC
1 GTTGCGAATTTGAAATTCAGCGTTGCGATAGTCAGAATCGC
* *
1284087 GTTGCG-ATTATGTATTATC-GCGTTGCGATAGTCAGAATCGC
1 GTTGCGAATT-TGAAAT-TCAGCGTTGCGATAGTCAGAATCGC
* * *
1284128 GTTGC-AATTTAAATATTCA-CATTGCGATAGTCAAAATCGC
1 GTTGCGAATTTGAA-ATTCAGCGTTGCGATAGTCAGAATCGC
1284168 GTTGCGAAT
1 GTTGCGAAT
1284177 CTGGAAACTG
Statistics
Matches: 74, Mismatches: 10, Indels: 12
0.77 0.10 0.12
Matches are distributed among these distances:
40 31 0.42
41 41 0.55
42 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (41 bp):
GTTGCGAATTTGAAATTCAGCGTTGCGATAGTCAGAATCGC
Found at i:1284128 original size:20 final size:21
Alignment explanation
Indices: 1284075--1284132 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
1284065 GTGTTGTGAC
1284075 AGTCAGAATCGCGTTGCGATT
1 AGTCAGAATCGCGTTGCGATT
**
1284096 ATGT-ATTATCGCGTTGCGA-T
1 A-GTCAGAATCGCGTTGCGATT
1284116 AGTCAGAATCGCGTTGC
1 AGTCAGAATCGCGTTGC
1284133 AATTTAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 14 0.45
22 2 0.06
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (21 bp):
AGTCAGAATCGCGTTGCGATT
Found at i:1284174 original size:20 final size:20
Alignment explanation
Indices: 1284075--1284174 Score: 71
Period size: 20 Copynumber: 5.0 Consensus size: 20
1284065 GTGTTGTGAC
*
1284075 AGTCAGAATCGCGTTGCGATT
1 AGTCAAAATCGCGTTGCGA-T
**
1284096 ATGT-ATTATCGCGTTGCGAT
1 A-GTCAAAATCGCGTTGCGAT
*
1284116 AGTCAGAATCGCGTTGC-A-
1 AGTCAAAATCGCGTTGCGAT
* * * *
1284134 ATTTAAATATTCACATTGCGAT
1 AGTCAAA-A-TCGCGTTGCGAT
1284156 AGTCAAAATCGCGTTGCGA
1 AGTCAAAATCGCGTTGCGA
1284175 ATCTGGAAAC
Statistics
Matches: 60, Mismatches: 13, Indels: 13
0.70 0.15 0.15
Matches are distributed among these distances:
18 4 0.07
19 4 0.07
20 29 0.48
21 16 0.27
22 7 0.12
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (20 bp):
AGTCAAAATCGCGTTGCGAT
Found at i:1284224 original size:19 final size:19
Alignment explanation
Indices: 1284200--1284236 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1284190 TGCGATACTG
*
1284200 GAGATCACGTTGCGATTTA
1 GAGATCACATTGCGATTTA
*
1284219 GAGATCGCATTGCGATTT
1 GAGATCACATTGCGATTT
1284237 TGTTGGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.32
Consensus pattern (19 bp):
GAGATCACATTGCGATTTA
Found at i:1288887 original size:20 final size:22
Alignment explanation
Indices: 1288862--1288902 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
1288852 TTATATAGAG
*
1288862 AAATTAA-CTTTT-AATAAAAA
1 AAATTAATATTTTAAATAAAAA
1288882 AAATTAATATTTTAAATAAAA
1 AAATTAATATTTTAAATAAAA
1288903 TTTTACTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 7 0.39
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
AAATTAATATTTTAAATAAAAA
Found at i:1289072 original size:21 final size:21
Alignment explanation
Indices: 1289031--1289074 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1289021 ATTATTGTAG
*
1289031 TATATATTTGGTAATAGAACT
1 TATATATTTGGTAATACAACT
*
1289052 TATAT-TTTGGTAACTTCAACT
1 TATATATTTGGTAA-TACAACT
1289073 TA
1 TA
1289075 CCATTCTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (21 bp):
TATATATTTGGTAATACAACT
Found at i:1289500 original size:44 final size:44
Alignment explanation
Indices: 1289450--1289538 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
1289440 GGCAGGTTAT
1289450 TGAGGATGTATCTTCTTTGATTTCTCTCTCACATTCTATCAGAG
1 TGAGGATGTATCTTCTTTGATTTCTCTCTCACATTCTATCAGAG
1289494 TGAGGATGTATCTTCTTTGATTTCTCTCTCACATTCTATCAGAG
1 TGAGGATGTATCTTCTTTGATTTCTCTCTCACATTCTATCAGAG
1289538 T
1 T
1289539 CTTCAATGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.44
Consensus pattern (44 bp):
TGAGGATGTATCTTCTTTGATTTCTCTCTCACATTCTATCAGAG
Found at i:1296042 original size:31 final size:32
Alignment explanation
Indices: 1295976--1296043 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 32
1295966 AAAACGATTA
* *
1295976 TTAAAATTTATCAAATCATTACAGAATGATGT
1 TTAAAATTTATCAAATCATTACAAAATGATCT
* *
1296008 TTAAAA-TTATTAAA-CTATTACAAAATTATCT
1 TTAAAATTTATCAAATC-ATTACAAAATGATCT
1296039 TTAAA
1 TTAAA
1296044 CTATAAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 1 0.03
31 24 0.77
32 6 0.19
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (32 bp):
TTAAAATTTATCAAATCATTACAAAATGATCT
Found at i:1298199 original size:13 final size:13
Alignment explanation
Indices: 1298181--1298210 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1298171 CTAAAAGTTC
1298181 GTAGACTATTAGT
1 GTAGACTATTAGT
1298194 GTAGACTATTAGT
1 GTAGACTATTAGT
1298207 GTAG
1 GTAG
1298211 TTTAACCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (13 bp):
GTAGACTATTAGT
Found at i:1319287 original size:18 final size:18
Alignment explanation
Indices: 1319264--1319299 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1319254 CATTAATACA
*
1319264 AGAACCTGAAACAGAACC
1 AGAACCCGAAACAGAACC
*
1319282 AGAACCCGAAGCAGAACC
1 AGAACCCGAAACAGAACC
1319300 GGACCCAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.31, G:0.19, T:0.03
Consensus pattern (18 bp):
AGAACCCGAAACAGAACC
Found at i:1321411 original size:2 final size:2
Alignment explanation
Indices: 1321404--1321433 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
1321394 ATTGTCATCC
1321404 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1321434 CCACCATTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1323747 original size:78 final size:78
Alignment explanation
Indices: 1323652--1323810 Score: 318
Period size: 78 Copynumber: 2.0 Consensus size: 78
1323642 ATCAGTTCAC
1323652 TTAGTTTATCAATTTTTTATAATCGGATTACTCAATTATAACTTAAAAATCAATTGATTGAGTGA
1 TTAGTTTATCAATTTTTTATAATCGGATTACTCAATTATAACTTAAAAATCAATTGATTGAGTGA
1323717 TCGGTTTTAACTT
66 TCGGTTTTAACTT
1323730 TTAGTTTATCAATTTTTTATAATCGGATTACTCAATTATAACTTAAAAATCAATTGATTGAGTGA
1 TTAGTTTATCAATTTTTTATAATCGGATTACTCAATTATAACTTAAAAATCAATTGATTGAGTGA
1323795 TCGGTTTTAACTT
66 TCGGTTTTAACTT
1323808 TTA
1 TTA
1323811 AAATCCGATG
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 81 1.00
ACGTcount: A:0.33, C:0.10, G:0.11, T:0.45
Consensus pattern (78 bp):
TTAGTTTATCAATTTTTTATAATCGGATTACTCAATTATAACTTAAAAATCAATTGATTGAGTGA
TCGGTTTTAACTT
Found at i:1329369 original size:25 final size:25
Alignment explanation
Indices: 1329352--1329402 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 25
1329342 TTTTTATCCT
1329352 CTAAAATTTTATAAGTTTTCCTTGCC
1 CTAAAATTTTATAAGTTTT-CTTGCC
*
1329378 CTAAAATTTTATAAATTTATCTTGC
1 CTAAAATTTTATAAGTTT-TCTTGC
1329403 TCAACATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (25 bp):
CTAAAATTTTATAAGTTTTCTTGCC
Found at i:1331321 original size:15 final size:15
Alignment explanation
Indices: 1331301--1331352 Score: 95
Period size: 15 Copynumber: 3.5 Consensus size: 15
1331291 TGAGATATTA
1331301 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
1331316 CCCGCCCCGCATCCG
1 CCCGCCCCGCATCCG
*
1331331 CCCGCCCCACATCCG
1 CCCGCCCCGCATCCG
1331346 CCCGCCC
1 CCCGCCC
1331353 AGCTAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.08, C:0.69, G:0.17, T:0.06
Consensus pattern (15 bp):
CCCGCCCCGCATCCG
Found at i:1339133 original size:22 final size:22
Alignment explanation
Indices: 1339084--1339137 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1339074 AACTTTGAAA
*
1339084 AAGA-AAAAAATACTATAAGAG
1 AAGATAAAAAATACTATAAAAG
*
1339105 AAGATAAAATATACTATAAAAG
1 AAGATAAAAAATACTATAAAAG
* *
1339127 CATATAAAAAA
1 AAGATAAAAAA
1339138 CATCAACTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 4 0.15
22 23 0.85
ACGTcount: A:0.67, C:0.06, G:0.09, T:0.19
Consensus pattern (22 bp):
AAGATAAAAAATACTATAAAAG
Found at i:1340585 original size:50 final size:50
Alignment explanation
Indices: 1340526--1340625 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
1340516 AATTCAAAAA
*
1340526 AACGTGTTATAATAGCATATGAAAAATGTCAATCATCTTTATTAAAAGAT
1 AACGTGTTATAATAGCATATGAAAAAGGTCAATCATCTTTATTAAAAGAT
*
1340576 AACGTGTTATAATAGCATATGAAAAAGGTCAATCCTCTTTATTAAAAGAT
1 AACGTGTTATAATAGCATATGAAAAAGGTCAATCATCTTTATTAAAAGAT
1340626 TAGAAGACTT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (50 bp):
AACGTGTTATAATAGCATATGAAAAAGGTCAATCATCTTTATTAAAAGAT
Found at i:1358110 original size:99 final size:99
Alignment explanation
Indices: 1357939--1358129 Score: 312
Period size: 99 Copynumber: 1.9 Consensus size: 99
1357929 TGAACATTTT
* * *
1357939 CTTTTTATTGGTCTCATATTTTATTAGGTTTCTGCAAGGTGTTTATGTGCGGATATAGTTCATCT
1 CTTTTTACTGGTCTCATATTTCATTAGGTTTCTGCAAGGTGTTCATGTGCGGATATAGTTCATCT
1358004 CTTTTCCATCGATATTTTAACCTTTTTTACCATA
66 CTTTTCCATCGATATTTTAACCTTTTTTACCATA
* *
1358038 CTTTTTACTGGTTTCATATTTCATTAGGTTTCTGCAAGGTGTTCATGTGTGGA-AGTAGTTCATC
1 CTTTTTACTGGTCTCATATTTCATTAGGTTTCTGCAAGGTGTTCATGTGCGGATA-TAGTTCATC
*
1358102 TCTTTTCCATTGATATTTTAACCTTTTT
65 TCTTTTCCATCGATATTTTAACCTTTTT
1358130 GTCATATTGT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
98 1 0.01
99 84 0.99
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (99 bp):
CTTTTTACTGGTCTCATATTTCATTAGGTTTCTGCAAGGTGTTCATGTGCGGATATAGTTCATCT
CTTTTCCATCGATATTTTAACCTTTTTTACCATA
Found at i:1359325 original size:31 final size:31
Alignment explanation
Indices: 1359290--1359350 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
1359280 GATAAGGTAA
**
1359290 ATGACGACATCTTAATTAAATAAAAATGAAC
1 ATGACGACATCTTAACGAAATAAAAATGAAC
* * *
1359321 ATGACTATATTTTAACGAAATAAAAATGAA
1 ATGACGACATCTTAACGAAATAAAAATGAA
1359351 AGTGATTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (31 bp):
ATGACGACATCTTAACGAAATAAAAATGAAC
Found at i:1362312 original size:184 final size:184
Alignment explanation
Indices: 1361953--1362315 Score: 590
Period size: 184 Copynumber: 2.0 Consensus size: 184
1361943 ATGTTAAATA
* * * *
1361953 TATTATATATAACATATGGACTCGGTCCAAACCATTTAAAACTCAATTAATAATTTAAGATCTAA
1 TATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAA
*
1362018 TAATTTTTAAACCTAAATAAATATTAATTAATTAAAAAATTATATAAATTTTTTATTTTATAATT
66 TAACTTTTAAACCTAAATAAATATTAATTAATTAAAAAATTATATAAATTTTTTATTTTATAATT
1362083 ATATATTATTTAAATTAATTGTAAACTATTTTTTAATTAAAAAAATATTATATT
131 ATATATTATTTAAATTAATTGTAAACTATTTTTTAATTAAAAAAATATTATATT
*
1362137 TATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAA
1 TATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAA
*
1362202 TAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAAATTATA-AAA-TTTTTATTTTATAAT
66 TAACTTTTAAACCTAAATAAATATTAATTAATT-AAAAAATTATATAAATTTTTTATTTTATAAT
*
1362265 TATATATTATTTAAATTAATTAG-AAACTGTTTTTTTTAATT-AAAAAATATT
130 TATATATTATTTAAATTAATT-GTAAAC--TATTTTTTAATTAAAAAAATATT
1362316 TAATTCGGTT
Statistics
Matches: 167, Mismatches: 8, Indels: 8
0.91 0.04 0.04
Matches are distributed among these distances:
183 40 0.24
184 105 0.63
185 22 0.13
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (184 bp):
TATTATATATAACATATGGACTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAAGATCCAA
TAACTTTTAAACCTAAATAAATATTAATTAATTAAAAAATTATATAAATTTTTTATTTTATAATT
ATATATTATTTAAATTAATTGTAAACTATTTTTTAATTAAAAAAATATTATATT
Found at i:1373677 original size:22 final size:22
Alignment explanation
Indices: 1373652--1373695 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1373642 TGTATTTCAA
1373652 TTATTATAT-ATTAAAATCATTT
1 TTATT-TATCATTAAAATCATTT
* *
1373674 TTATTTTTCATTAAAATGATTT
1 TTATTTATCATTAAAATCATTT
1373696 AAATTATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (22 bp):
TTATTTATCATTAAAATCATTT
Found at i:1374813 original size:25 final size:24
Alignment explanation
Indices: 1374783--1374835 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
1374773 TTTCATTCGC
* *
1374783 TTTAAACTTTTATGAAATTATTTTT
1 TTTAAAATTTTAT-AAATTATTTGT
* *
1374808 TTTAAAATTTTGTAAGTTATTTGT
1 TTTAAAATTTTATAAATTATTTGT
1374832 TTTA
1 TTTA
1374836 GTATAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 13 0.54
25 11 0.46
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (24 bp):
TTTAAAATTTTATAAATTATTTGT
Found at i:1381820 original size:10 final size:10
Alignment explanation
Indices: 1381800--1381837 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1381790 ATTATTTTGA
1381800 AATAA-TAAT
1 AATAATTAAT
1381809 AATAATTAAT
1 AATAATTAAT
*
1381819 AATAATTGAAA
1 AATAATT-AAT
1381830 AATAATTA
1 AATAATTA
1381838 TAAATATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 5 0.19
10 12 0.46
11 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (10 bp):
AATAATTAAT
Found at i:1383812 original size:17 final size:18
Alignment explanation
Indices: 1383782--1383818 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
1383772 GGGAACAGAT
1383782 TGCAGATCCCAGACTTCA
1 TGCAGATCCCAGACTTCA
1383800 TGCAGAT-CCAGACTTCA
1 TGCAGATCCCAGACTTCA
1383817 TG
1 TG
1383819 GAAATTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (18 bp):
TGCAGATCCCAGACTTCA
Found at i:1394375 original size:73 final size:71
Alignment explanation
Indices: 1394232--1394376 Score: 170
Period size: 70 Copynumber: 2.0 Consensus size: 71
1394222 ATTATTAAAA
* * *
1394232 TGGGGCTCCACTAAATTACTATATTTTCGAGTTTTTTTAAATAAATAATGATGTTTAATTTTTTT
1 TGGGGCTCCACTAAATTACTATATTTTCGAGTTATTTAAAATAAAAAATGATGTTTAATTTTTTT
1394297 AATTAT
66 AATTAT
* * *
1394303 TGGGGCT-TACTAAATTATTATATTTTTGAG-TATTTAAAATAAAAAAAT-ATGTTTAAAAATAT
1 TGGGGCTCCACTAAATTACTATATTTTCGAGTTATTTAAAAT-AAAAAATGATGTTT---AAT-T
1394365 TTTTTAATTAT
61 TTTTTAATTAT
1394376 T
1 T
1394377 AAACTTAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
69 14 0.22
70 26 0.41
71 7 0.11
72 3 0.05
73 13 0.21
ACGTcount: A:0.36, C:0.06, G:0.10, T:0.48
Consensus pattern (71 bp):
TGGGGCTCCACTAAATTACTATATTTTCGAGTTATTTAAAATAAAAAATGATGTTTAATTTTTTT
AATTAT
Found at i:1406670 original size:18 final size:19
Alignment explanation
Indices: 1406642--1406707 Score: 77
Period size: 18 Copynumber: 3.6 Consensus size: 19
1406632 ACGTTCTACA
1406642 ATCGATTCATCCTCCTTCG
1 ATCGATTCATCCTCCTTCG
*
1406661 ATCG-TTCATCCTTCTTCTG
1 ATCGATTCATCCTCCTTC-G
1406680 -TCG-TTCA-CCTCCTTCG
1 ATCGATTCATCCTCCTTCG
*
1406696 GTCGATTCATCC
1 ATCGATTCATCC
1406708 ACCGTAGAGA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 1 0.02
17 10 0.24
18 23 0.56
19 7 0.17
ACGTcount: A:0.12, C:0.36, G:0.12, T:0.39
Consensus pattern (19 bp):
ATCGATTCATCCTCCTTCG
Found at i:1417532 original size:64 final size:63
Alignment explanation
Indices: 1417404--1417563 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 63
1417394 TTGTTTAAGG
* * * * * *
1417404 TGCATCGATGCACATGCAGTGCATCGATGCATGAATTTAAATAGAAACATCGAATATGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCAATTTAAATACAAACATCGAATAGGATTTA
*
1417467 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT--CAATTTAAATACAAACATCGAATAGGATTTA
*
1417531 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
1417564 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 30 0.35
64 39 0.46
65 16 0.19
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (63 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCAATTTAAATACAAACATCGAATAGGATTTA
Found at i:1418956 original size:21 final size:21
Alignment explanation
Indices: 1418930--1418970 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1418920 GTCGAGGGTT
1418930 TCATAGGTCAATCGGGACAAC
1 TCATAGGTCAATCGGGACAAC
**
1418951 TCATAGGTCCTTCGGGACAA
1 TCATAGGTCAATCGGGACAA
1418971 ATTCACAGGT
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:0.29, C:0.24, G:0.24, T:0.22
Consensus pattern (21 bp):
TCATAGGTCAATCGGGACAAC
Found at i:1418983 original size:22 final size:22
Alignment explanation
Indices: 1418941--1418995 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
1418931 CATAGGTCAA
* *
1418941 TCGGGAC-AACTCATAGGTCCT
1 TCGGGACAAATTCACAGGTCCT
1418962 TCGGGACAAATTCACAGGTCCT
1 TCGGGACAAATTCACAGGTCCT
1418984 TCGGGACAAATT
1 TCGGGACAAATT
1418996 TCATATGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (22 bp):
TCGGGACAAATTCACAGGTCCT
Found at i:1427386 original size:19 final size:19
Alignment explanation
Indices: 1427362--1427408 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1427352 TTTATTAAAG
*
1427362 TTTTATTTTTCTTTCATTT
1 TTTTATTTTTCTTTCATTA
1427381 TTTTATTTTTCTTTCATTA
1 TTTTATTTTTCTTTCATTA
*
1427400 TTTTCTTTT
1 TTTTATTTT
1427409 CACACCGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (19 bp):
TTTTATTTTTCTTTCATTA
Found at i:1428071 original size:21 final size:22
Alignment explanation
Indices: 1428032--1428072 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
1428022 TTCTATTTTA
*
1428032 TTTATTTAAATTGAGAATTATG
1 TTTATTTAAATTGACAATTATG
*
1428054 TTTATTT-ATTTGACAATTA
1 TTTATTTAAATTGACAATTA
1428073 CGACACTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (22 bp):
TTTATTTAAATTGACAATTATG
Found at i:1440502 original size:29 final size:29
Alignment explanation
Indices: 1440460--1440527 Score: 136
Period size: 29 Copynumber: 2.3 Consensus size: 29
1440450 ATGCATAATT
1440460 AATTTAGTTTTGATGTCATTGCTTACATC
1 AATTTAGTTTTGATGTCATTGCTTACATC
1440489 AATTTAGTTTTGATGTCATTGCTTACATC
1 AATTTAGTTTTGATGTCATTGCTTACATC
1440518 AATTTAGTTT
1 AATTTAGTTT
1440528 GGTGAAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (29 bp):
AATTTAGTTTTGATGTCATTGCTTACATC
Found at i:1445167 original size:29 final size:29
Alignment explanation
Indices: 1445133--1445192 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
1445123 CCTAAATTAA
1445133 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1445162 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
1445191 TT
1 TT
1445193 GGTGAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.23, C:0.13, G:0.13, T:0.50
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:1451869 original size:6 final size:6
Alignment explanation
Indices: 1451858--1451886 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
1451848 GTAATGATTG
1451858 ATTATA ATTATA ATTATA ATTATA ATTAT
1 ATTATA ATTATA ATTATA ATTATA ATTAT
1451887 TCATATACGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
ATTATA
Found at i:1454370 original size:2 final size:2
Alignment explanation
Indices: 1454363--1454389 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1454353 TTAACACAAG
1454363 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1454390 AGTTGACAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1455599 original size:20 final size:21
Alignment explanation
Indices: 1455571--1455659 Score: 76
Period size: 20 Copynumber: 4.4 Consensus size: 21
1455561 AATAACCAAC
1455571 AAATTCGCAACGCGA-ACTCT
1 AAATTCGCAACGCGAGACTCT
* * ** *
1455591 AATTTCGCAACAC-AGTTTCC
1 AAATTCGCAACGCGAGACTCT
**
1455611 AAATTCGCAACGCGATTCTCT
1 AAATTCGCAACGCGAGACTCT
* *
1455632 AAATTCGCAACGC-AAACTCC
1 AAATTCGCAACGCGAGACTCT
1455652 AAATTCGC
1 AAATTCGC
1455660 GACGTGATTT
Statistics
Matches: 54, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 1 0.02
20 36 0.67
21 17 0.31
ACGTcount: A:0.34, C:0.30, G:0.12, T:0.24
Consensus pattern (21 bp):
AAATTCGCAACGCGAGACTCT
Found at i:1455653 original size:41 final size:41
Alignment explanation
Indices: 1455570--1455668 Score: 119
Period size: 41 Copynumber: 2.4 Consensus size: 41
1455560 AAATAACCAA
* * ***
1455570 CAAATTCGCAACGCGA-ACTCTAATTTCGCAACACAGTTTC
1 CAAATTCGCAACGCGATTCTCTAAATTCGCAACACAAACTC
*
1455610 CAAATTCGCAACGCGATTCTCTAAATTCGCAACGCAAACTC
1 CAAATTCGCAACGCGATTCTCTAAATTCGCAACACAAACTC
* *
1455651 CAAATTCGCGACGTGATT
1 CAAATTCGCAACGCGATT
1455669 TCCGAATTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
40 16 0.32
41 34 0.68
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.24
Consensus pattern (41 bp):
CAAATTCGCAACGCGATTCTCTAAATTCGCAACACAAACTC
Done.