Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000073.1 Hibiscus syriacus cultivar Beakdansim tig00000132_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: 1402814
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
File 6 of 7
Found at i:975655 original size:21 final size:21
Alignment explanation
Indices: 975588--975666 Score: 73
Period size: 21 Copynumber: 4.0 Consensus size: 21
975578 TGTCTAAGGT
975588 ATATTTTA-TT-ATATT-TTTA
1 ATATTTTATTTAAT-TTATTTA
975607 ATATTTTGTATTTAATTTATTT-
1 ATA-TTT-TATTTAATTTATTTA
975629 A-A--TTATTTAATTTATTTA
1 ATATTTTATTTAATTTATTTA
*
975647 ATATTTTATTTAATTAATTT
1 ATATTTTATTTAATTTATTT
975667 TTTTACAGAT
Statistics
Matches: 50, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
17 14 0.28
18 2 0.04
19 4 0.08
20 3 0.06
21 17 0.34
22 5 0.10
23 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (21 bp):
ATATTTTATTTAATTTATTTA
Found at i:975670 original size:17 final size:17
Alignment explanation
Indices: 975615--975671 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
975605 TAATATTTTG
*
975615 TATTTAATTTATTTAAT
1 TATTTTATTTATTTAAT
*
975632 TATTTAATTTATTTAA-
1 TATTTTATTTATTTAAT
*
975648 TATTTTATTTAATTAAT
1 TATTTTATTTATTTAAT
*
975665 TTTTTTA
1 TATTTTA
975672 CAGATATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
16 14 0.39
17 22 0.61
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTTATTTATTTAAT
Found at i:977761 original size:12 final size:12
Alignment explanation
Indices: 977728--977777 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
977718 AGCTGCTCAG
977728 GATGACGACGAC
1 GATGACGACGAC
*
977740 G--GA-AACGAC
1 GATGACGACGAC
* *
977749 GACGACGATGAC
1 GATGACGACGAC
977761 GATGACGACGAC
1 GATGACGACGAC
977773 GATGA
1 GATGA
977778 TGACAGCGAG
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
9 6 0.20
10 2 0.07
11 2 0.07
12 20 0.67
ACGTcount: A:0.36, C:0.22, G:0.34, T:0.08
Consensus pattern (12 bp):
GATGACGACGAC
Found at i:977762 original size:15 final size:15
Alignment explanation
Indices: 977728--977781 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
977718 AGCTGCTCAG
977728 GATGACGACGACGGAAAC
1 GATGACGACGAC-G--AC
* *
977746 GACGACGACGATGAC
1 GATGACGACGACGAC
*
977761 GATGACGACGACGAT
1 GATGACGACGACGAC
977776 GATGAC
1 GATGAC
977782 AGCGAGGAGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 20 0.65
17 1 0.03
18 10 0.32
ACGTcount: A:0.35, C:0.22, G:0.33, T:0.09
Consensus pattern (15 bp):
GATGACGACGACGAC
Found at i:978061 original size:34 final size:33
Alignment explanation
Indices: 977995--978061 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 33
977985 TATTAATATG
*
977995 GTTAGATTTATTTTAATTTATTTTTTTGAATTT
1 GTTAGATTTATTTTAATTTATTTTCTTGAATTT
978028 GTTAGACTTT-TTGTTAATTTATTTTGCTT-AATTT
1 GTTAGA-TTTATT-TTAATTTATTTT-CTTGAATTT
978062 TGTTTATTAC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
33 8 0.27
34 20 0.67
35 2 0.07
ACGTcount: A:0.22, C:0.03, G:0.10, T:0.64
Consensus pattern (33 bp):
GTTAGATTTATTTTAATTTATTTTCTTGAATTT
Found at i:981364 original size:16 final size:16
Alignment explanation
Indices: 981339--981369 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
981329 TATTTTTTCA
*
981339 AATAATTATAATAAAC
1 AATAAGTATAATAAAC
981355 AATAAGTATAATAAA
1 AATAAGTATAATAAA
981370 AAAAATTATC
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:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (16 bp):
AATAAGTATAATAAAC
Found at i:988368 original size:48 final size:48
Alignment explanation
Indices: 988308--988405 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
988298 ATAATATGGT
*
988308 AATATTATTTGTTTTACATAATGTGTTTTACTCTATTTTACTCAACAA
1 AATAATATTTGTTTTACATAATGTGTTTTACTCTATTTTACTCAACAA
* * *
988356 AATAATATTTGTTTTGCATAATGTGTTTTACTCTATTTTATTCAATAA
1 AATAATATTTGTTTTACATAATGTGTTTTACTCTATTTTACTCAACAA
988404 AA
1 AA
988406 GCACGTTTTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.33, C:0.10, G:0.07, T:0.50
Consensus pattern (48 bp):
AATAATATTTGTTTTACATAATGTGTTTTACTCTATTTTACTCAACAA
Found at i:988961 original size:13 final size:13
Alignment explanation
Indices: 988943--988967 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
988933 TTCTTATGTT
988943 TTATTTAATATTC
1 TTATTTAATATTC
988956 TTATTTAATATT
1 TTATTTAATATT
988968 TAGTTTTAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTAATATTC
Found at i:998961 original size:5 final size:5
Alignment explanation
Indices: 998951--998982 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
998941 ACTGTACCTT
998951 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CT
1 CTCTC CTCTC CTCTC CTCTC CTCTC CTCTC CT
998983 TTCACAAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (5 bp):
CTCTC
Found at i:999603 original size:2 final size:2
Alignment explanation
Indices: 999598--999629 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
999588 AAAATATTAA
999598 AT 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 AT A
999630 CATAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1002334 original size:227 final size:228
Alignment explanation
Indices: 1001758--1002474 Score: 1357
Period size: 227 Copynumber: 3.1 Consensus size: 228
1001748 GTTATATTGT
* * *
1001758 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
1001822 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
*
1001887 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1001952 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
*
1001985 AAAGTATATATCATTTTTATAAAAGTGTACATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1002050 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
1002115 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
1002180 AAAAATTGAAACATAAATTACATAACTTT-AAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
1002212 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1002277 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
1002342 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
1002407 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
1002441 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1002475 GTATAAAAGT
Statistics
Matches: 480, Mismatches: 7, Indels: 4
0.98 0.01 0.01
Matches are distributed among these distances:
227 238 0.50
228 205 0.43
229 37 0.08
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1002546 original size:20 final size:19
Alignment explanation
Indices: 1002523--1002569 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
1002513 CGATATACCA
1002523 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1002543 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1002563 GGTAAAA
1 GGTAAAA
1002570 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1002727 original size:20 final size:19
Alignment explanation
Indices: 1002704--1002750 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
1002694 CGATATAACA
1002704 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
1002724 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
1002744 GGTAAAA
1 GGTAAAA
1002751 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1002752 original size:17 final size:19
Alignment explanation
Indices: 1002713--1002755 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1002703 AGGTAAAAAT
1002713 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1002733 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1002750 ATGATA
1 ATGATA
1002756 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1006293 original size:19 final size:19
Alignment explanation
Indices: 1006269--1006317 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1006259 AATGTAGGGT
1006269 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1006288 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1006307 TATTTTTGTAT
1 TAATTTTGTAT
1006318 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1006775 original size:199 final size:200
Alignment explanation
Indices: 1006436--1008202 Score: 3263
Period size: 199 Copynumber: 8.9 Consensus size: 200
1006426 CAATATGGCC
* * *
1006436 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1006500 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1006565 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1006629 TGGAA
196 TGGAA
1006634 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1006699 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1006764 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1006829 TGGAA
196 TGGAA
*
1006834 AACAGGGTGCACCCATAAAATGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1006899 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1006964 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1007029 TGGAA
196 TGGAA
1007034 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1007098 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1007163 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1007227 TGGAA
196 TGGAA
1007232 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1007295 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-G-ACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1007358 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTTGTTCCAGAATGA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTTGTTCCAGAATGA
1007423 ATGGAA
195 ATGGAA
*
1007429 AAAAGGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAA
1 AACA-GGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAA
1007494 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAG
65 ACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAG
*
1007559 AGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTTTGTCGATATTTTTGTTCCAGAATGA
130 AGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGA
1007624 ATGGAA
195 ATGGAA
* * * *
1007630 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAATCATCG-AAT
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
1007694 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1007759 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1007824 TGGAA
196 TGGAA
* * *
1007829 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
1007893 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1007958 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
1008023 TGGAA
196 TGGAA
* *
1008028 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
*
1008092 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1008157 GAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
1008203 CTAATTTAAA
Statistics
Matches: 1539, Mismatches: 19, Indels: 22
0.97 0.01 0.01
Matches are distributed among these distances:
195 70 0.05
196 5 0.00
197 93 0.06
198 152 0.10
199 740 0.48
200 383 0.25
201 27 0.02
202 69 0.04
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (200 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAA
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAA
TGGAA
Found at i:1007570 original size:596 final size:597
Alignment explanation
Indices: 1006436--1008202 Score: 3280
Period size: 596 Copynumber: 3.0 Consensus size: 597
1006426 CAATATGGCC
*
1006436 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
1006501 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
1006566 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTGTTCCAGAATGAATG
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTGTTCCAGAATGAATG
1006631 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAAACATCGA
1006696 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
260 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
1006761 AGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAAT
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAAT
*
1006826 GAATGGAAAACAGGGTGCACCCATAAAATGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
390 GAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAAC
1006891 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTT
455 ATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTT
1006956 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCC
520 TTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCC
1007021 AGAATGAATGGAA
585 AGAATGAATGGAA
* *
1007034 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAAACATCGAAAA
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AAA
1007098 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
65 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGA
1007163 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTGTTCCAGAATGAAT
130 GAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTGTTCCAGAATGAAT
1007228 GGAAAACAGGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAAACATCGA
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAAACATCGA
1007292 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACC-G-ACAAGTTTACCGGTTTTATG
260 AAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATG
1007355 AGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTTGTTCCAGAA
325 AGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTTGTTCCAGAA
*
1007420 TGAATGGAAAAAAGGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
389 TGAATGGAAAACA-GGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
1007485 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
453 ACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGG
*
1007550 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTTTGTCGATATTTTTGTT
518 TTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTT
1007615 CCAGAATGAATGGAA
583 CCAGAATGAATGGAA
* *
1007630 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAATCATCGAATC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
*
1007695 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCAGTACAAGTTTACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
1007760 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATA-TTTTGTTCCAGAATGAAT
* *
1007825 GGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAAACATCG
*
1007890 -AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
259 AAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTAT
1007954 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
324 GAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAA
*
1008019 TGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAT
389 TGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAA
* *
1008084 CATCG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
454 CATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGT
1008148 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACGT--TTTAGTTTGTGTCGATA
519 TTTATGAGAGAATATGTCTAAATAATGTGTCGACAC-TAATTTAGTTTGTGTCGATA
1008203 CTAATTTAAA
Statistics
Matches: 1140, Mismatches: 19, Indels: 22
0.97 0.02 0.02
Matches are distributed among these distances:
594 70 0.06
595 27 0.02
596 430 0.38
597 190 0.17
598 297 0.26
599 56 0.05
600 70 0.06
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (597 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAAAC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTGTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAAACATCGAA
AACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTTTATGA
GAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCAGAATG
AATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACA
TCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTTTACCGGTTT
TATGAGAGAATATGTCTAAATAATGTGTCGACACTAATTTAGTTTGTGTCGATATTTTTGTTCCA
GAATGAATGGAA
Found at i:1009686 original size:18 final size:18
Alignment explanation
Indices: 1009665--1009743 Score: 74
Period size: 18 Copynumber: 4.6 Consensus size: 18
1009655 AGCGGTCGCA
*
1009665 GAAGATAAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
1009683 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
1009701 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
1009719 GAAGATG-A--TGACGAT
1 GAAGATGAAGCTGACGAT
*
1009734 GATGATGAAG
1 GAAGATGAAG
1009744 ATGATGATCC
Statistics
Matches: 47, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
15 12 0.26
16 1 0.02
17 1 0.02
18 33 0.70
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:1009700 original size:3 final size:3
Alignment explanation
Indices: 1009680--1009751 Score: 54
Period size: 3 Copynumber: 24.0 Consensus size: 3
1009670 TAAAGCTGAC
* * * * * ** *
1009680 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
1009728 GAC GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
1009752 CCAAACAAGT
Statistics
Matches: 50, Mismatches: 19, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.36, C:0.07, G:0.35, T:0.22
Consensus pattern (3 bp):
GAT
Found at i:1009719 original size:36 final size:39
Alignment explanation
Indices: 1009665--1009747 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
1009655 AGCGGTCGCA
*
1009665 GAAGATAAAGCTGACGATG-A-A-GATGACGATGATGAT
1 GAAGATGAAGCTGACGATGAAGATGATGACGATGATGAT
* *
1009701 GACGATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GAAGATGAAGCTGACGATGAAGATGATGACGATGATGAT
1009740 GAAGATGA
1 GAAGATGA
1009748 TGATCCAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
36 16 0.40
37 1 0.03
38 1 0.03
39 22 0.55
ACGTcount: A:0.39, C:0.08, G:0.34, T:0.19
Consensus pattern (39 bp):
GAAGATGAAGCTGACGATGAAGATGATGACGATGATGAT
Found at i:1009728 original size:21 final size:21
Alignment explanation
Indices: 1009680--1009750 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
1009670 TAAAGCTGAC
*
1009680 GATGAAGATGACGATGATGATGAC
1 GATGAAGATGACGATGA--A-GAT
* *
1009704 GATGAAGCTGGCGATGAAGAT
1 GATGAAGATGACGATGAAGAT
* *
1009725 GATGACGATGATGATGAAGAT
1 GATGAAGATGACGATGAAGAT
1009746 GATGA
1 GATGA
1009751 TCCAAACAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
21 24 0.60
22 1 0.03
24 15 0.38
ACGTcount: A:0.37, C:0.07, G:0.35, T:0.21
Consensus pattern (21 bp):
GATGAAGATGACGATGAAGAT
Found at i:1009751 original size:12 final size:12
Alignment explanation
Indices: 1009676--1009747 Score: 78
Period size: 12 Copynumber: 6.2 Consensus size: 12
1009666 AAGATAAAGC
1009676 TGACGATGAAGA
1 TGACGATGAAGA
*
1009688 TGACGATGATGA
1 TGACGATGAAGA
*
1009700 TGACGATGAAGC
1 TGACGATGAAGA
*
1009712 TGGCGATGAAGA
1 TGACGATGAAGA
*
1009724 T---GATGACGA
1 TGACGATGAAGA
*
1009733 TGATGATGAAGA
1 TGACGATGAAGA
1009745 TGA
1 TGA
1009748 TGATCCAAAC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
9 8 0.16
12 42 0.84
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
TGACGATGAAGA
Found at i:1011522 original size:182 final size:182
Alignment explanation
Indices: 1011248--1011739 Score: 833
Period size: 183 Copynumber: 2.7 Consensus size: 182
1011238 GCAATGCTAT
*
1011248 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
1011313 GTGTCGGTACTTTATGTCTAGATTGGAA-AAAAATGTGTCGATACATTGTTAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
*
1011377 TTTACACATCGGAACCCATAATTATAATGTAATAGATAAATTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
*
1011430 CGGTATAAATATACCAGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* * *
1011495 GTCTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
* * *
1011560 TTTACACATCGGAGCCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
* *
1011613 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1011678 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
1011740 GTAATTTTAA
Statistics
Matches: 290, Mismatches: 17, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
182 88 0.30
183 198 0.68
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGGAACCCAGAATTATAATGTAATAGATAAATTTGTAATATAAC
Found at i:1014213 original size:25 final size:25
Alignment explanation
Indices: 1014185--1014249 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
1014175 TTATCATTAA
1014185 ATTTAGGTATGTACAATAAATACAT
1 ATTTAGGTATGTACAATAAATACAT
**** *
1014210 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAAATACAT
*
1014235 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
1014250 TATTTTGAGT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAAATACAT
Found at i:1014626 original size:23 final size:23
Alignment explanation
Indices: 1014595--1014667 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1014585 ATAGGTAAAC
*
1014595 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1014618 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1014641 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1014664 ATAT
1 ATAT
1014668 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1015116 original size:18 final size:18
Alignment explanation
Indices: 1015095--1015131 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1015085 GTAATTGGAG
1015095 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1015113 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1015131 T
1 T
1015132 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1015139 original size:24 final size:24
Alignment explanation
Indices: 1015087--1015133 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1015077 TTTCATATGT
* *
1015087 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1015111 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1015134 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1015432 original size:39 final size:39
Alignment explanation
Indices: 1015389--1015475 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
1015379 TCCGATGCTC
*
1015389 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
1015428 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1015467 ATCAAAATC
1 ATCAAAATC
1015476 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1015925 original size:23 final size:23
Alignment explanation
Indices: 1015894--1015966 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1015884 ATAGGTAAAC
*
1015894 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1015917 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1015940 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1015963 ATAT
1 ATAT
1015967 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1016356 original size:23 final size:23
Alignment explanation
Indices: 1016325--1016388 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
1016315 ATAGGTAAAA
*
1016325 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCACTT
* **
1016348 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCACTT
1016371 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1016389 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:1016395 original size:23 final size:23
Alignment explanation
Indices: 1016325--1016397 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1016315 ATAGGTAAAA
* **
1016325 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGTGCTT
*
1016348 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
1016371 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1016394 ATAT
1 ATAT
1016398 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1016493 original size:431 final size:430
Alignment explanation
Indices: 1015691--1016747 Score: 1947
Period size: 431 Copynumber: 2.5 Consensus size: 430
1015681 GTTAATGTTG
* * * *
1015691 TTAAATT-TAAATTATAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAA-AATCAAATAATTTTTTGTGCAA
*
1015755 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAAAATTGAAACAT
65 ATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACAT
* *
1015819 AAATTACATAACTTTTAAAAAAAATATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
130 AAATTACATAAC-TTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATA
* *
1015884 ATAGGTAAACATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGT
194 ATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGT
1015949 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
259 AATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
*
1016014 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
324 GTGGAAAACATTAATTTAAGGTCATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
1016079 ACGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
389 ACGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
*
1016121 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1016186 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAATTGAAACAT
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAATTGAAACAT
1016251 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
130 AAATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAA
1016316 TAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTA
195 TAGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTA
1016381 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
260 ATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
*
1016446 TGGAAAACATTAATTTAAGGTCATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
325 TGGAAAACATTAATTTAAGGTCATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGA
1016511 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
390 CGTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
1016552 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
1 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
*
1016617 TAAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
66 TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
*
1016682 AATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAAT
131 AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
1016747 A
196 A
1016748 TAATGTAATA
Statistics
Matches: 609, Mismatches: 15, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
430 158 0.26
431 423 0.69
432 28 0.05
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.39
Consensus pattern (430 bp):
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAAAATCAAATAATTTTTTGTGCAAA
TGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATA
AATTACATAACTTTAAAAGAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTCAATATAAT
AGGTAAAAATATGATGTAATAGGTAGCACTTATATAATGTAATAGGTATCGTTTATATAATGTAA
TAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGT
GGAAAACATTAATTTAAGGTCATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGAC
GTCTAATGATTTATTTTTTACGTTACGATATATATTATTA
Found at i:1016602 original size:30 final size:29
Alignment explanation
Indices: 1016543--1016609 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
1016533 GTTACGATAT
* *
1016543 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
1016573 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
1016603 ATTTTTT
1 ATATTTT
1016610 GTGCAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:1017774 original size:37 final size:37
Alignment explanation
Indices: 1017674--1017776 Score: 100
Period size: 36 Copynumber: 2.8 Consensus size: 37
1017664 GTTAAAAATT
** * ** *
1017674 AAGAATTGGGCTCTTGTTAGTCACATAAATATTTTTC
1 AAGAATTGGGCTCAGGTTAGCCACATAAATATGATTA
* * * *
1017711 AA-AATTGAGCTCAGCTTATCCTCATAAATATGATTA
1 AAGAATTGGGCTCAGGTTAGCCACATAAATATGATTA
*
1017747 AAGAATTGGGCTCAGGTCAGCCACATAAAT
1 AAGAATTGGGCTCAGGTTAGCCACATAAAT
1017777 CAGTAAAATT
Statistics
Matches: 50, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 26 0.52
37 24 0.48
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.32
Consensus pattern (37 bp):
AAGAATTGGGCTCAGGTTAGCCACATAAATATGATTA
Found at i:1024153 original size:21 final size:21
Alignment explanation
Indices: 1024128--1024167 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1024118 AAGGTTTTAT
1024128 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1024149 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1024168 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1028522 original size:13 final size:13
Alignment explanation
Indices: 1028504--1028537 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
1028494 ATATATTAAT
1028504 TTTTCAAACATAG
1 TTTTCAAACATAG
1028517 TTTTCAAACATAG
1 TTTTCAAACATAG
1028530 TTTTCAAA
1 TTTTCAAA
1028538 ATATGCCCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:1041209 original size:3 final size:3
Alignment explanation
Indices: 1041203--1041272 Score: 83
Period size: 3 Copynumber: 24.0 Consensus size: 3
1041193 AATAATTATT
*
1041203 TAA TAA TAA T-A TAA T-A TAA TAA T-A TATA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
**
1041246 TAA TAA TTT TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1041273 CAAAAATGAA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
2 6 0.11
3 48 0.84
4 3 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:1041242 original size:18 final size:18
Alignment explanation
Indices: 1041192--1041271 Score: 105
Period size: 18 Copynumber: 4.6 Consensus size: 18
1041182 TCTGGGCTTG
*
1041192 TAATAATTAT-TTAATAA
1 TAATAATAATATTAATAA
1041209 TAAT-ATAATA-TAATAA
1 TAATAATAATATTAATAA
1041225 T-ATATATAATATTAATAA
1 TAATA-ATAATATTAATAA
*
1041243 TAATAATAATTTTAATAA
1 TAATAATAATATTAATAA
1041261 TAATAATAATA
1 TAATAATAATA
1041272 ACAAAAATGA
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
15 2 0.04
16 11 0.20
17 10 0.18
18 29 0.53
19 3 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATAATAATATTAATAA
Found at i:1041463 original size:45 final size:45
Alignment explanation
Indices: 1041399--1041500 Score: 170
Period size: 45 Copynumber: 2.3 Consensus size: 45
1041389 GATGGAAATG
*
1041399 TTGAAAACATCATGCACTGAAAGG-CTTACAGATGACCCGAAGGTT
1 TTGAAAACATCATGCACTG-AAGGACTTACAGATGACCCGAAGGCT
*
1041444 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCT
1 TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCT
1041489 TTGAAAACATCA
1 TTGAAAACATCA
1041501 AAAAGCTCCC
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
44 4 0.07
45 50 0.93
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (45 bp):
TTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGCT
Found at i:1041531 original size:76 final size:76
Alignment explanation
Indices: 1041434--1042161 Score: 1289
Period size: 76 Copynumber: 9.6 Consensus size: 76
1041424 TTACAGATGA
* *
1041434 CCCGAAGG--TTTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1041497 ATCAAAAAGCT
66 ATCAAAAAGCT
1041508 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
* *
1041573 ATAAAAAAACT
66 ATCAAAAAGCT
1041584 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1041649 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1041660 CCCGAAGGCTTTTTGGAAACATCATTCACTGTAGGACTTACAGATGACCCCAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1041725 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1041736 CCCAAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATAACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1041801 ATCAAAAAGCT
66 ATCAAAAAGCT
1041812 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1041877 ATCAAAAAGCT
66 ATCAAAAAGCT
* *
1041888 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGATCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1041953 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1041964 CCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTATAGATAACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042029 ATCAAAAAGCT
66 ATCAAAAAGCT
*
1042040 CCCGAAGGTTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
1042105 ATCAAAAAGCT
66 ATCAAAAAGCT
* * *
1042116 CCCAAAGGCTTTTTGGAAACATCAAGCACTGTAGAACTTACAGATG
1 CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATG
1042162 TGGGAAATAG
Statistics
Matches: 625, Mismatches: 27, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
74 8 0.01
76 617 0.99
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (76 bp):
CCCGAAGGCTTTTTGGAAACATCATGCACTGTAGGACTTACAGATGACCCTAAGGCTTTGAAAAC
ATCAAAAAGCT
Found at i:1042863 original size:22 final size:22
Alignment explanation
Indices: 1042838--1042914 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
1042828 AATAAAGCTT
1042838 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1042860 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1042882 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1042904 TCATCTTTGAA
1 TCATCTTTGAA
1042915 GAGTGTAGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1043321 original size:40 final size:41
Alignment explanation
Indices: 1043277--1043371 Score: 93
Period size: 50 Copynumber: 2.1 Consensus size: 41
1043267 TCAGAATAAC
1043277 TGGTTC-GTAAAACATTTGACAACACATTCATCATTTCCTG
1 TGGTTCAGTAAAACATTTGACAACACATTCATCATTTCCTG
*
1043317 TGGTTTCTACTCAGATGTAAAACATTTGACAACACATTTATCATTTCCTG
1 TGG----T--TC--A-GTAAAACATTTGACAACACATTCATCATTTCCTG
1043367 TGGTT
1 TGGTT
1043372 TCTGCTAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 16
0.72 0.02 0.26
Matches are distributed among these distances:
40 3 0.07
44 2 0.05
46 3 0.07
50 36 0.82
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (41 bp):
TGGTTCAGTAAAACATTTGACAACACATTCATCATTTCCTG
Found at i:1045651 original size:114 final size:114
Alignment explanation
Indices: 1045451--1045664 Score: 383
Period size: 114 Copynumber: 1.9 Consensus size: 114
1045441 GATCATGTAG
* * *
1045451 TTCATCTTTCAATTCCAATGATTGGTTTTGGGGTTCTTACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1045516 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAGCAAA
* *
1045565 TTCATCTTTTAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1045630 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTT
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTT
1045665 CTAATACGAG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
114 95 1.00
ACGTcount: A:0.29, C:0.20, G:0.16, T:0.35
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTTTACTATGAGCAAA
Found at i:1047718 original size:14 final size:14
Alignment explanation
Indices: 1047695--1047727 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1047685 TGGTTCAATT
1047695 TTTTTCTTTTTT-C
1 TTTTTCTTTTTTCC
1047708 TTTTTCATTTTTTCC
1 TTTTTC-TTTTTTCC
1047723 TTTTT
1 TTTTT
1047728 TTTCAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 6 0.33
15 6 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTTTTTCC
Found at i:1055054 original size:3 final size:3
Alignment explanation
Indices: 1055048--1055121 Score: 91
Period size: 3 Copynumber: 25.3 Consensus size: 3
1055038 AATAATTATT
*
1055048 TAA TAA TAA T-A TAA T-A TAA TAA T-A TATA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA
**
1055091 TAA TAA TTT TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1055122 GAAAATGAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 6 0.10
3 52 0.85
4 3 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:1055067 original size:24 final size:26
Alignment explanation
Indices: 1055037--1055121 Score: 111
Period size: 27 Copynumber: 3.3 Consensus size: 26
1055027 TCTGGGCTTG
*
1055037 TAATAATTATTTAATAATAAT-ATAA
1 TAATAATAATTTAATAATAATAATAA
* *
1055062 T-ATAATAATATATATAATATTAATAA
1 TAATAATAATTTA-ATAATAATAATAA
1055088 TAATAATAATTTTAATAATAATAATAA
1 TAATAATAA-TTTAATAATAATAATAA
1055115 TAATAAT
1 TAATAAT
1055122 GAAAATGAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
24 9 0.18
25 8 0.16
26 5 0.10
27 26 0.51
28 3 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
TAATAATAATTTAATAATAATAATAA
Found at i:1065838 original size:7 final size:7
Alignment explanation
Indices: 1065826--1065850 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1065816 AGATATAATA
1065826 TGCACTT
1 TGCACTT
1065833 TGCACTT
1 TGCACTT
1065840 TGCACTT
1 TGCACTT
1065847 TGCA
1 TGCA
1065851 TTGTTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.28, G:0.16, T:0.40
Consensus pattern (7 bp):
TGCACTT
Found at i:1067626 original size:25 final size:25
Alignment explanation
Indices: 1067597--1067649 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
1067587 TTAATGGTTA
1067597 ATCCTATGGAATGTGACTTAAAAAG
1 ATCCTATGGAATGTGACTTAAAAAG
*
1067622 ATCCTATGGAATGTGATTTAAAAAG
1 ATCCTATGGAATGTGACTTAAAAAG
1067647 ATC
1 ATC
1067650 ATATTTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (25 bp):
ATCCTATGGAATGTGACTTAAAAAG
Found at i:1070516 original size:23 final size:25
Alignment explanation
Indices: 1070489--1070552 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 25
1070479 TTATAGAGCT
1070489 GAAGAAAGAAGCAGA-AG-CAAAGA
1 GAAGAAAGAAGCAGAGAGACAAAGA
*
1070512 GAAGAAAGAAACAGAGAGATCAAAGA
1 GAAGAAAGAAGCAGAGAGA-CAAAGA
1070538 GAAGAAGATGAAGCA
1 GAAGAA-A-GAAGCA
1070553 AGTTTGAAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 14 0.41
24 2 0.06
26 12 0.35
27 1 0.03
28 5 0.15
ACGTcount: A:0.59, C:0.08, G:0.30, T:0.03
Consensus pattern (25 bp):
GAAGAAAGAAGCAGAGAGACAAAGA
Found at i:1071109 original size:2 final size:2
Alignment explanation
Indices: 1071102--1071134 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1071092 ACTGTTTGTT
1071102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1071135 GTCCAGTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1076420 original size:17 final size:17
Alignment explanation
Indices: 1076385--1076490 Score: 104
Period size: 18 Copynumber: 6.1 Consensus size: 17
1076375 TTAATCTAAG
*
1076385 TCTGATAATTGTAAAACA
1 TCTGATAACTGT-AAACA
* *
1076403 TTTGTTAACTGTAAACA
1 TCTGATAACTGTAAACA
*
1076420 TCTGATAACTGAAAATCA
1 TCTGATAACTGTAAA-CA
* *
1076438 TCTGATAACTATAAATA
1 TCTGATAACTGTAAACA
*
1076455 TCTGATAACTGAAAATCA
1 TCTGATAACTGTAAA-CA
* *
1076473 TATGATAATTGTAAACA
1 TCTGATAACTGTAAACA
1076490 T
1 T
1076491 TTAGAATTCA
Statistics
Matches: 71, Mismatches: 15, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
17 34 0.48
18 37 0.52
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (17 bp):
TCTGATAACTGTAAACA
Found at i:1076424 original size:35 final size:35
Alignment explanation
Indices: 1076385--1076490 Score: 133
Period size: 35 Copynumber: 3.0 Consensus size: 35
1076375 TTAATCTAAG
* * *
1076385 TCTGATAATTGTAAAA-CATTTGTTAACTGTAAACA
1 TCTGATAACTG-AAAATCATATGATAACTGTAAACA
* * *
1076420 TCTGATAACTGAAAATCATCTGATAACTATAAATA
1 TCTGATAACTGAAAATCATATGATAACTGTAAACA
*
1076455 TCTGATAACTGAAAATCATATGATAATTGTAAACA
1 TCTGATAACTGAAAATCATATGATAACTGTAAACA
1076490 T
1 T
1076491 TTAGAATTCA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
34 4 0.07
35 57 0.93
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.34
Consensus pattern (35 bp):
TCTGATAACTGAAAATCATATGATAACTGTAAACA
Found at i:1078477 original size:17 final size:17
Alignment explanation
Indices: 1078455--1078493 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
1078445 TGAATCAAAT
1078455 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
1078472 TAATTAGATATTATTTA
1 TAATTAGATATTATTTA
1078489 -AATTA
1 TAATTA
1078494 ATTGTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (17 bp):
TAATTAGATATTATTTA
Found at i:1079104 original size:23 final size:23
Alignment explanation
Indices: 1079077--1079152 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
1079067 AAACCCTAAC
1079077 CTTCACTCTCAACATATAAGCAT
1 CTTCACTCTCAACATATAAGCAT
*
1079100 CTTCAGTCTCAACATATAAGCAT
1 CTTCACTCTCAACATATAAGCAT
*
1079123 CTTCAGTCTCAACATATAAGCAT
1 CTTCACTCTCAACATATAAGCAT
1079146 CTTCACT
1 CTTCACT
1079153 ATGAAATATT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.33, C:0.29, G:0.07, T:0.32
Consensus pattern (23 bp):
CTTCACTCTCAACATATAAGCAT
Found at i:1080390 original size:21 final size:21
Alignment explanation
Indices: 1080340--1080390 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
1080330 TTTTATTTTT
1080340 AAAAATA-T-TATTTATAAAA
1 AAAAATATTATATTTATAAAA
* *
1080359 AATATTATTATATTTATAAAA
1 AAAAATATTATATTTATAAAA
*
1080380 AAAAATCTTAT
1 AAAAATATTAT
1080391 TTCTTTTAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 5 0.20
20 1 0.04
21 19 0.76
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAATATTATATTTATAAAA
Found at i:1080805 original size:23 final size:23
Alignment explanation
Indices: 1080757--1080824 Score: 61
Period size: 23 Copynumber: 3.0 Consensus size: 23
1080747 TTTTGGGGTT
* * *
1080757 ATTTTGAAATTTATGT-GTTTTC
1 ATTTTTAAATTTATATAATTTTC
1080779 A-TTTTAAATATATATATAATTTT-
1 ATTTTTAAAT-T-TATATAATTTTC
1080802 ATTTTTTAAATTTATATAATTTT
1 A-TTTTTAAATTTATATAATTTT
1080825 TTAAAAAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
21 7 0.18
22 2 0.05
23 16 0.42
24 5 0.13
25 8 0.21
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (23 bp):
ATTTTTAAATTTATATAATTTTC
Found at i:1082754 original size:18 final size:18
Alignment explanation
Indices: 1082701--1082746 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
1082691 GAGGGATTAT
*
1082701 CAGTGGTCTTTCGGGACA
1 CAGTGGTCCTTCGGGACA
1082719 CAGTGGTCCTTCGGGACA
1 CAGTGGTCCTTCGGGACA
1082737 CAGTGGTCCT
1 CAGTGGTCCT
1082747 ACGAGACAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.15, C:0.26, G:0.33, T:0.26
Consensus pattern (18 bp):
CAGTGGTCCTTCGGGACA
Found at i:1083445 original size:86 final size:86
Alignment explanation
Indices: 1083300--1083473 Score: 348
Period size: 86 Copynumber: 2.0 Consensus size: 86
1083290 CAAGCTTCAG
1083300 ATCCGTAAAGCAGCATATCTCCATGCAAAGTTCAGATCATAAATATTTTGTAAAGTATGTCTTGT
1 ATCCGTAAAGCAGCATATCTCCATGCAAAGTTCAGATCATAAATATTTTGTAAAGTATGTCTTGT
1083365 CATATAATTTAGTATGTTGGC
66 CATATAATTTAGTATGTTGGC
1083386 ATCCGTAAAGCAGCATATCTCCATGCAAAGTTCAGATCATAAATATTTTGTAAAGTATGTCTTGT
1 ATCCGTAAAGCAGCATATCTCCATGCAAAGTTCAGATCATAAATATTTTGTAAAGTATGTCTTGT
1083451 CATATAATTTAGTATGTTGGC
66 CATATAATTTAGTATGTTGGC
1083472 AT
1 AT
1083474 GTAACTAAGT
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 88 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (86 bp):
ATCCGTAAAGCAGCATATCTCCATGCAAAGTTCAGATCATAAATATTTTGTAAAGTATGTCTTGT
CATATAATTTAGTATGTTGGC
Found at i:1085137 original size:30 final size:30
Alignment explanation
Indices: 1085102--1085158 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1085092 AGAACCGGAA
1085102 GAACCGGCTGAAAATCAGG-AAAACCGGGGT
1 GAACCGGCTGAAAA-CAGGCAAAACCGGGGT
*
1085132 GAACCGGCTGAAAACCGGCAAAACCGG
1 GAACCGGCTGAAAACAGGCAAAACCGG
1085159 TTTGAATCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.37, C:0.25, G:0.32, T:0.07
Consensus pattern (30 bp):
GAACCGGCTGAAAACAGGCAAAACCGGGGT
Found at i:1086282 original size:23 final size:23
Alignment explanation
Indices: 1086251--1086297 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
1086241 AACCCAAAAA
1086251 CTAGATTTTCCGGTTCAAATTTT
1 CTAGATTTTCCGGTTCAAATTTT
* *
1086274 CTAGCTTTTCCGGTTCACATTTT
1 CTAGATTTTCCGGTTCAAATTTT
1086297 C
1 C
1086298 GTTTAGAAGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.13, T:0.47
Consensus pattern (23 bp):
CTAGATTTTCCGGTTCAAATTTT
Found at i:1087938 original size:22 final size:22
Alignment explanation
Indices: 1087913--1088771 Score: 723
Period size: 22 Copynumber: 39.5 Consensus size: 22
1087903 ATAATAAATT
*
1087913 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
1087935 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
** *
1087957 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATCCATA
* *
1087979 TTTTAAGATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
1088001 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
1088023 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1088045 TTTTAAAATAAATCTATCCATA
1 TTTTAAAATAAATCAATCCATA
1088067 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
1088089 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
* *
1088111 TTTAAAAATAAATCCATCCATA
1 TTTTAAAATAAATCAATCCATA
**
1088133 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
* * *
1088155 TTTAAAAATAAATTAATTCATA
1 TTTTAAAATAAATCAATCCATA
* *** *
1088177 TTTTAAAATAATTTTTTTTCATA
1 TTTTAAAATAA-ATCAATCCATA
1088200 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1088222 TTTTAAAAT---TC-AT--AT-
1 TTTTAAAATAAATCAATCCATA
* *
1088237 TTTAAAATAAATCAATTC-AT--AT-
1 TTT--TA-AAAT-AAATCAATCCATA
* ** *
1088259 TTTAAAATA-AATAT-TTTCATAT-
1 TTTTAAA-ATAA-ATCAATC-CATA
* * *
1088281 TTTAAAATAAATCAATCCAT--AT-
1 TTT--TA-AAATAAATCAATCCATA
* * *
1088303 TTTAAAATA-AAATT-TTCCATA
1 TTTTAAA-ATAAATCAATCCATA
*
1088324 ATTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1088346 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* *
1088368 TTTTAAAATAAATCTATCTATA
1 TTTTAAAATAAATCAATCCATA
*
1088390 TTTTAATATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
1088412 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
1088434 TTTAAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
* **
1088456 TTTTAAAAT---T--TTTTATA
1 TTTTAAAATAAATCAATCCATA
1088473 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
**
1088495 TTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAAT-AAATCAATCCATA
*
1088517 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
1088539 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*
1088561 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATCCATA
*** **
1088583 TTTTAAAATAAATTTTTTTTATA
1 TTTTAAAATAAA-TCAATCCATA
* *
1088606 TTTTAAAATAAATCGATTCATA
1 TTTTAAAATAAATCAATCCATA
*** *
1088628 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
1088650 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*** *
1088672 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*** *
1088694 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATCCATA
*
1088716 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
1088738 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
1088760 TTTTAAAATAAA
1 TTTTAAAATAAA
1088772 ATTTTAAAAT
Statistics
Matches: 701, Mismatches: 95, Indels: 82
0.80 0.11 0.09
Matches are distributed among these distances:
15 3 0.00
16 2 0.00
17 14 0.02
18 9 0.01
19 12 0.02
20 10 0.01
21 29 0.04
22 556 0.79
23 57 0.08
24 5 0.01
25 4 0.01
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.43
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1087980 original size:44 final size:44
Alignment explanation
Indices: 1087913--1088771 Score: 877
Period size: 44 Copynumber: 19.8 Consensus size: 44
1087903 ATAATAAATT
*
1087913 TTTTAAAATAAATC-AATCAATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCTATTC-ATATTTTAAAATAAATCAATCCATA
* * *
1087957 TTTTAAAATAAAAT-TTTTCATATTTTAAGATAAATCAATCTATA
1 TTTTAAAAT-AAATCTATTCATATTTTAAAATAAATCAATCCATA
*
1088001 TTTTAAAATAAATC-AATCTATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCTATTC-ATATTTTAAAATAAATCAATCCATA
*
1088045 TTTTAAAATAAATCTATCCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* *
1088089 TTTTAAAATAAAAT-T-TTCCATATTTAAAAATAAATCCATCCATA
1 TTTTAAAAT-AAATCTATT-CATATTTTAAAATAAATCAATCCATA
* * *
1088133 TTTTAAAATAAAAT-T-TTCCATATTTAAAAATAAATTAATTCATA
1 TTTTAAAAT-AAATCTATT-CATATTTTAAAATAAATCAATCCATA
* * *
1088177 TTTTAAAATAATTTTTTTTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAA-ATCTATTCATATTTTAAAATAAATCAATCCATA
*
1088222 -TTT----TAAA---ATTCATATTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* *
1088258 TTTTAAAATAAATATTTTCATATTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
*
1088302 TTTTAAAATAAAAT-T-TTCCATAATTTAAAATAAATCAATCCATA
1 TTTTAAAAT-AAATCTATT-CATATTTTAAAATAAATCAATCCATA
* * * *
1088346 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCTATCTATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* * * **
1088390 TTTTAATATAAATCAATCCATATTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAAT-AAATCAATCCATA
* * * * **
1088434 TTTAAAAATAAATCAATCCATATTTTAAAAT---T--TTTTATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* * **
1088473 TTTTAAAATAAATCAATCCATATTTTAAAATAAAAT-TTTCCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAAT-AAATCAATCCATA
* *
1088517 TTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* *** **
1088561 TTTTAAAATAAATCAATTCATATTTTAAAATAAATTTTTTTTATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAA-TCAATCCATA
* *** *
1088606 TTTTAAAATAAATCGATTCATATTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* * *** *
1088650 TTTTAAAATAAATCAATCCATATTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
* * *
1088694 TTTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
*
1088738 TTTTAAAATAAATC-AATCTATATTTTAAAATAAA
1 TTTTAAAATAAATCTATTC-ATATTTTAAAATAAA
1088772 ATTTTAAAAT
Statistics
Matches: 719, Mismatches: 65, Indels: 62
0.85 0.08 0.07
Matches are distributed among these distances:
36 27 0.04
37 3 0.00
39 35 0.05
40 4 0.01
41 4 0.01
43 22 0.03
44 538 0.75
45 84 0.12
46 2 0.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.43
Consensus pattern (44 bp):
TTTTAAAATAAATCTATTCATATTTTAAAATAAATCAATCCATA
Found at i:1087983 original size:66 final size:64
Alignment explanation
Indices: 1087913--1088771 Score: 856
Period size: 66 Copynumber: 13.2 Consensus size: 64
1087903 ATAATAAATT
* **
1087913 TTTTAAAATAAATCAATCAATATTTTAAAATAAATCAATCCATATTTTAAAATAAAATTTTTCAT
1 TTTTAAAATAAATCTATC-ATATTTTAAAATAAATCAATCCATATTTTAAAAT-AAATAATTCAT
1087978 A
64 A
* * * *
1087979 TTTTAAGATAAATCAATCTATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCTATC-ATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATTCAT
1088044 A
64 A
*
1088045 TTTTAAAATAAATCTATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAA-ATTTTCCA
1 TTTTAAAATAAATCTAT-CATATTTTAAAATAAATCAATCCATATTTTAAAATAAATA-ATT-CA
1088109 TA
63 TA
* * ** *
1088111 TTTAAAAATAAATCCATCCATATTTTAAAATAAAAT-TTTCCATATTTAAAAATAAATTAATTCA
1 TTTTAAAATAAATCTAT-CATATTTTAAAAT-AAATCAATCCATATTTTAAAATAAA-TAATTCA
1088175 TA
63 TA
* * *
1088177 TTTTAAAATAATTTTTTTTCATATTTTAAAATAAATCAATCCATA-TTT----T-AA-AATTCAT
1 TTTTAAAATAA--ATCTATCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTCAT
1088235 A
64 A
* * * *
1088236 TTTTAAAATAAATCAATTCATATTTTAAAATAAAT-ATTTTCATATTTTAAAATAAATCAATCCA
1 TTTTAAAATAAATCTA-TCATATTTTAAAATAAATCA-ATCCATATTTTAAAATAAAT-AATTCA
1088300 TA
63 TA
* * *
1088302 TTTTAAAATAAAAT-TTTCCATAATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCA
1 TTTTAAAAT-AAATCTAT-CATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATTCA
1088366 TA
63 TA
* *
1088368 TTTTAAAATAAATCTATCTATATTTTAATATAAATCAATCCATATTTTAAAATAAA-ATTTTCCA
1 TTTTAAAATAAATCTATC-ATATTTTAAAATAAATCAATCCATATTTTAAAATAAATA-ATT-CA
1088432 TA
63 TA
* * * ** *
1088434 TTTAAAAATAAATCAATCCATATTTTAAAAT---T--TTTTATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCTAT-CATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATTCAT
1088494 A
64 A
* *
1088495 TTTTAAAATAAAAT-TTTCCATATTTTAAAATAAATCAATTCATATTTTAAAATAAATCAATTCA
1 TTTTAAAAT-AAATCTAT-CATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATTCA
1088559 TA
63 TA
* *** ** *
1088561 TTTTAAAATAAATCAATTCATATTTTAAAATAAATTTTTTTTATATTTTAAAATAAATCGATTCA
1 TTTTAAAATAAATCTA-TCATATTTTAAAATAAA-TCAATCCATATTTTAAAATAAAT-AATTCA
1088626 TA
63 TA
* * **
1088628 TTTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATTTTTTCAT
1 TTTTAAAATAAA-TCTATCATATTTTAAAATAAATCAATCCATATTTTAAAATAAA-TAATTCAT
1088693 A
64 A
* * *
1088694 TTTTAAAATAAATTTTTTCATATTTTAAAATAAATCAATCTATATTTTAAAATAAATCAA-TCTA
1 TTTTAAAATAAA-TCTATCATATTTTAAAATAAATCAATCCATATTTTAAAATAAAT-AATTC-A
1088758 TA
63 TA
1088760 TTTTAAAATAAA
1 TTTTAAAATAAA
1088772 ATTTTAAAAT
Statistics
Matches: 674, Mismatches: 76, Indels: 86
0.81 0.09 0.10
Matches are distributed among these distances:
57 2 0.00
58 23 0.03
59 22 0.03
61 45 0.07
62 6 0.01
63 3 0.00
64 5 0.01
65 19 0.03
66 455 0.68
67 90 0.13
68 4 0.01
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.43
Consensus pattern (64 bp):
TTTTAAAATAAATCTATCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATAATTCATA
Found at i:1088237 original size:14 final size:14
Alignment explanation
Indices: 1088218--1088244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1088208 TAAATCAATC
1088218 CATATTTTAAAATT
1 CATATTTTAAAATT
1088232 CATATTTTAAAAT
1 CATATTTTAAAAT
1088245 AAATCAATTC
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:0.07, G:0.00, T:0.48
Consensus pattern (14 bp):
CATATTTTAAAATT
Found at i:1096639 original size:14 final size:14
Alignment explanation
Indices: 1096620--1096661 Score: 66
Period size: 14 Copynumber: 3.0 Consensus size: 14
1096610 CATAGCTTGC
1096620 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
* *
1096634 TCGGATGCCCTTGG
1 TCGGATGGCCTCGG
1096648 TCGGATGGCCTCGG
1 TCGGATGGCCTCGG
1096662 ATGTTCTCGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.07, C:0.29, G:0.40, T:0.24
Consensus pattern (14 bp):
TCGGATGGCCTCGG
Found at i:1105830 original size:28 final size:28
Alignment explanation
Indices: 1105790--1105845 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
1105780 ATAATGTGTA
* *
1105790 ATATTTGAAATTTTAATTTCATATGATT
1 ATATATGAAATTTTAATTTAATATGATT
*
1105818 ATATATGAAATTTTAATTTAATTTGATT
1 ATATATGAAATTTTAATTTAATATGATT
1105846 TAATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.54
Consensus pattern (28 bp):
ATATATGAAATTTTAATTTAATATGATT
Found at i:1106181 original size:2 final size:2
Alignment explanation
Indices: 1106174--1106206 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1106164 TAATAATGCA
1106174 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1106207 AAGTCATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1110360 original size:2 final size:2
Alignment explanation
Indices: 1110353--1110384 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1110343 CTTATCCCCA
1110353 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1110385 CATACAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1112744 original size:14 final size:14
Alignment explanation
Indices: 1112725--1112752 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1112715 TAACAGACTT
1112725 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
1112739 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
1112753 TGGTATCAGG
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:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:1114571 original size:51 final size:51
Alignment explanation
Indices: 1114512--1114612 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
1114502 TCAGGGGGAG
* *
1114512 AGTTACAAGGAATTTCAGCCTGTTCAAACCGATATTTCTTTACAGCCTATT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
1114563 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
1 AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTAT
1114613 CATTTCCTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
AGTTACAAGGAATTTCAACCTGTTCAAACCGATATTTCTTTACAACCTATT
Found at i:1116855 original size:14 final size:14
Alignment explanation
Indices: 1116836--1116864 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1116826 TAACAGACTT
1116836 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
1116850 GTCTGTTTTCTACA
1 GTCTGTTTTCTACA
1116864 G
1 G
1116865 AAGTGCCCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.48
Consensus pattern (14 bp):
GTCTGTTTTCTACA
Found at i:1126661 original size:2 final size:2
Alignment explanation
Indices: 1126654--1126696 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1126644 TCTCGCCACA
1126654 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1126696 T
1 T
1126697 TTGTTTCGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1129756 original size:28 final size:28
Alignment explanation
Indices: 1129716--1129771 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
1129706 GGATCTTCCT
*
1129716 GCTATTGTTAAGCAACAAACAAATAATG
1 GCTATTCTTAAGCAACAAACAAATAATG
1129744 GCTATTCTTAAGCAACAAACAAATAATG
1 GCTATTCTTAAGCAACAAACAAATAATG
1129772 TCTCTGATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (28 bp):
GCTATTCTTAAGCAACAAACAAATAATG
Found at i:1135130 original size:33 final size:33
Alignment explanation
Indices: 1135090--1135152 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
1135080 TGTTCAAAGT
*
1135090 TTGGCCACCAATCAAGATGAAATTTCCAACAAG
1 TTGGCCACCAACCAAGATGAAATTTCCAACAAG
*
1135123 TTGGCCACCAACCAAGATGAAATTTTCAAC
1 TTGGCCACCAACCAAGATGAAATTTCCAAC
1135153 TTGTCAACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.22
Consensus pattern (33 bp):
TTGGCCACCAACCAAGATGAAATTTCCAACAAG
Found at i:1137239 original size:15 final size:15
Alignment explanation
Indices: 1137219--1137250 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1137209 CGGGATTCCA
1137219 TGCACGGCCCGTCTC
1 TGCACGGCCCGTCTC
1137234 TGCACGGCCCGTCTC
1 TGCACGGCCCGTCTC
1137249 TG
1 TG
1137251 TCTAGCTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.44, G:0.28, T:0.22
Consensus pattern (15 bp):
TGCACGGCCCGTCTC
Found at i:1138169 original size:16 final size:18
Alignment explanation
Indices: 1138142--1138174 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
1138132 AATAAGTATG
1138142 TTTGTATAACAC-TTTTT
1 TTTGTATAACACGTTTTT
1138159 TTTGT-TAACACGTTTT
1 TTTGTATAACACGTTTT
1138175 CCATTCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (18 bp):
TTTGTATAACACGTTTTT
Found at i:1138174 original size:17 final size:17
Alignment explanation
Indices: 1138142--1138174 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1138132 AATAAGTATG
1138142 TTTGTATAACACTTTTT
1 TTTGTATAACACTTTTT
*
1138159 TTTGT-TAACACGTTTT
1 TTTGTATAACACTTTTT
1138175 CCATTCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
TTTGTATAACACTTTTT
Found at i:1152219 original size:23 final size:21
Alignment explanation
Indices: 1152181--1152222 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
1152171 ATAATTATTT
1152181 AAAAAATTAAATAAAAATATC
1 AAAAAATTAAATAAAAATATC
*
1152202 AAAAATATTTAATGAAAAATA
1 AAAAA-ATTAAAT-AAAAATA
1152223 ATTTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATC
Found at i:1153288 original size:15 final size:16
Alignment explanation
Indices: 1153270--1153303 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1153260 TATGAACATC
1153270 AAATAAAATAACAA-A
1 AAATAAAATAACAATA
*
1153285 AAATAGAATAACAATA
1 AAATAAAATAACAATA
1153301 AAA
1 AAA
1153304 ATAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAATAACAATA
Found at i:1155001 original size:19 final size:20
Alignment explanation
Indices: 1154969--1155011 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1154959 ACAAAATGTA
* *
1154969 AATACATATTAAATAATAAT
1 AATACATATAAAATAACAAT
*
1154989 AATA-ATATAAAATGACAAT
1 AATACATATAAAATAACAAT
1155008 AATA
1 AATA
1155012 GTAATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (20 bp):
AATACATATAAAATAACAAT
Found at i:1156508 original size:23 final size:22
Alignment explanation
Indices: 1156469--1156522 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
1156459 TGAACCCTCC
*
1156469 TTTATTTAT-TTTTTCTTCTTT
1 TTTATTTTTCTTTTTCTTCTTT
1156490 TTTCATTTTTCTTTTTCTTCTTT
1 TTT-ATTTTTCTTTTTCTTCTTT
1156513 TTTATTTTTC
1 TTTATTTTTC
1156523 CATCATATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 3 0.10
22 12 0.40
23 15 0.50
ACGTcount: A:0.07, C:0.13, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTATTTTTCTTTTTCTTCTTT
Found at i:1156514 original size:16 final size:16
Alignment explanation
Indices: 1156477--1156522 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1156467 CCTTTATTTA
*
1156477 TTTTTTCTTCTTTTTTC
1 TTTTTTCTT-TTTCTTC
*
1156494 ATTTTTCTTTTTCTTC
1 TTTTTTCTTTTTCTTC
*
1156510 TTTTTTATTTTTC
1 TTTTTTCTTTTTC
1156523 CATCATATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 17 0.68
17 8 0.32
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTTCTTTTTCTTC
Found at i:1156540 original size:35 final size:31
Alignment explanation
Indices: 1156492--1156554 Score: 81
Period size: 34 Copynumber: 1.9 Consensus size: 31
1156482 TCTTCTTTTT
*
1156492 TCATTTTTCTTTTTCTTCTTTTTTATTTTTCCA
1 TCATTTTTCTTTTTC-CCTTTTTT-TTTTTCCA
1156525 TCATATTTTCATTTTTCCCTTTTTTTTTTT
1 TCAT-TTTTC-TTTTTCCCTTTTTTTTTTT
1156555 AAGTGTAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 9 0.33
34 12 0.44
35 6 0.22
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.73
Consensus pattern (31 bp):
TCATTTTTCTTTTTCCCTTTTTTTTTTTCCA
Found at i:1168198 original size:15 final size:16
Alignment explanation
Indices: 1168180--1168213 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1168170 TATGAACATC
1168180 AAATAAAATAACAA-A
1 AAATAAAATAACAATA
*
1168195 AAATAGAATAACAATA
1 AAATAAAATAACAATA
1168211 AAA
1 AAA
1168214 ATAATTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.76, C:0.06, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAATAACAATA
Found at i:1169914 original size:19 final size:20
Alignment explanation
Indices: 1169882--1169924 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1169872 ACAAAATGTA
* *
1169882 AATACATATTAAATAATAAT
1 AATACATATAAAATAACAAT
*
1169902 AATA-ATATAAAATGACAAT
1 AATACATATAAAATAACAAT
1169921 AATA
1 AATA
1169925 GTAATAAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (20 bp):
AATACATATAAAATAACAAT
Found at i:1177602 original size:15 final size:15
Alignment explanation
Indices: 1177582--1177614 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1177572 TATTTAGCTA
*
1177582 GGCGGGCGGATGCGG
1 GGCGGGCAGATGCGG
1177597 GGCGGGCAGATGCGG
1 GGCGGGCAGATGCGG
1177612 GGC
1 GGC
1177615 AGGTAAGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.09, C:0.21, G:0.64, T:0.06
Consensus pattern (15 bp):
GGCGGGCAGATGCGG
Found at i:1180967 original size:22 final size:22
Alignment explanation
Indices: 1180942--1180983 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
1180932 ATCGTTACCA
* *
1180942 CAAGATCAATATTGATACTATT
1 CAAGAACAATATCGATACTATT
1180964 CAAGAACAATATCGATACTA
1 CAAGAACAATATCGATACTA
1180984 CTTACCTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.29
Consensus pattern (22 bp):
CAAGAACAATATCGATACTATT
Found at i:1184691 original size:31 final size:30
Alignment explanation
Indices: 1184656--1184724 Score: 93
Period size: 31 Copynumber: 2.3 Consensus size: 30
1184646 TCGGGGATCA
*
1184656 TATTGCAAATAGACTAAATGTTGGGGGACTG
1 TATTGCAAACAGACTAAATGTT-GGGGACTG
* * *
1184687 TATTGTAAACGGACTAAATGTTGGGGATTG
1 TATTGCAAACAGACTAAATGTTGGGGACTG
1184717 TATTGCAA
1 TATTGCAA
1184725 GTTTTAAAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 14 0.42
31 19 0.58
ACGTcount: A:0.32, C:0.09, G:0.28, T:0.32
Consensus pattern (30 bp):
TATTGCAAACAGACTAAATGTTGGGGACTG
Found at i:1185020 original size:26 final size:28
Alignment explanation
Indices: 1184959--1185022 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
1184949 ATTAATTAAA
1184959 TAGAAAAATAATCATCAAACAATATTTT
1 TAGAAAAATAATCATCAAACAATATTTT
*
1184987 TAGAAAAATAATTCA-CAATCAAT-TTTT
1 TAGAAAAATAA-TCATCAAACAATATTTT
1185014 TAGAAAAAT
1 TAGAAAAAT
1185023 GACTCTCAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 13 0.38
28 18 0.53
29 3 0.09
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (28 bp):
TAGAAAAATAATCATCAAACAATATTTT
Found at i:1197219 original size:6 final size:6
Alignment explanation
Indices: 1197208--1197250 Score: 86
Period size: 6 Copynumber: 7.2 Consensus size: 6
1197198 TCGTTAACCC
1197208 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT C
1 CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT CCTTCT C
1197251 ATCCTCCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (6 bp):
CCTTCT
Found at i:1198795 original size:31 final size:31
Alignment explanation
Indices: 1198760--1198818 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1198750 TATAATTTGA
1198760 ATACTTATTTAGGTATTAAACCTTAAAAGTT
1 ATACTTATTTAGGTATTAAACCTTAAAAGTT
* *
1198791 ATACTTATTTATGTATTAAGCCTTAAAA
1 ATACTTATTTAGGTATTAAACCTTAAAA
1198819 AATGTAAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.42
Consensus pattern (31 bp):
ATACTTATTTAGGTATTAAACCTTAAAAGTT
Found at i:1203304 original size:22 final size:22
Alignment explanation
Indices: 1203260--1203305 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
1203250 AAAAATTATT
*
1203260 TTTTATTAAATATTTTTAGTAA
1 TTTTATTAAATATTTTTAATAA
*
1203282 TTTTATTTAAT-TTTTTAAATAA
1 TTTTATTAAATATTTTT-AATAA
1203304 TT
1 TT
1203306 ATGACATAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTATTAAATATTTTTAATAA
Found at i:1204832 original size:20 final size:20
Alignment explanation
Indices: 1204809--1204882 Score: 76
Period size: 20 Copynumber: 3.5 Consensus size: 20
1204799 CACGGAATGT
1204809 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
** **
1204829 AAGATTACCAAGGAATAAGAATGT
1 AAGATTACC-A-G--TGGGAATAA
1204853 AAGATTACCAGTGGGAATAA
1 AAGATTACCAGTGGGAATAA
1204873 AAGATTACCA
1 AAGATTACCA
1204883 AGGAATAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
20 24 0.57
21 1 0.02
22 2 0.05
23 1 0.02
24 14 0.33
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.20
Consensus pattern (20 bp):
AAGATTACCAGTGGGAATAA
Found at i:1204845 original size:18 final size:18
Alignment explanation
Indices: 1204822--1204889 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
1204812 ATTACCAGTG
1204822 GGAATAAAAGATTACCAA
1 GGAATAAAAGATTACCAA
*
1204840 GGAATAAGAATGTAAGATTACCAGTG
1 GGAAT---AA---AAGATTACCA--A
1204866 GGAATAAAAGATTACCAA
1 GGAATAAAAGATTACCAA
1204884 GGAATA
1 GGAATA
1204890 GGATTACTGG
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
18 11 0.28
20 10 0.25
21 2 0.05
23 2 0.05
24 10 0.25
26 5 0.12
ACGTcount: A:0.50, C:0.09, G:0.22, T:0.19
Consensus pattern (18 bp):
GGAATAAAAGATTACCAA
Found at i:1204866 original size:44 final size:44
Alignment explanation
Indices: 1204803--1204889 Score: 174
Period size: 44 Copynumber: 2.0 Consensus size: 44
1204793 TTGGTTCACG
1204803 GAATGTAAGATTACCAGTGGGAATAAAAGATTACCAAGGAATAA
1 GAATGTAAGATTACCAGTGGGAATAAAAGATTACCAAGGAATAA
1204847 GAATGTAAGATTACCAGTGGGAATAAAAGATTACCAAGGAATA
1 GAATGTAAGATTACCAGTGGGAATAAAAGATTACCAAGGAATA
1204890 GGATTACTGG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.47, C:0.09, G:0.23, T:0.21
Consensus pattern (44 bp):
GAATGTAAGATTACCAGTGGGAATAAAAGATTACCAAGGAATAA
Found at i:1211568 original size:2 final size:2
Alignment explanation
Indices: 1211561--1211585 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1211551 TTTTAATCGA
1211561 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 A
1211586 CACATCTACG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1215079 original size:2 final size:2
Alignment explanation
Indices: 1215074--1215129 Score: 85
Period size: 2 Copynumber: 28.0 Consensus size: 2
1215064 CCCCCCTTGT
* *
1215074 TC TC TC TC TC TC TC TC TC TC TC TC TC TC GC TC TC GC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
*
1215116 TC GC TC TC TC TC TC
1 TC TC TC TC TC TC TC
1215130 GCTTATGTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.05, T:0.45
Consensus pattern (2 bp):
TC
Found at i:1219175 original size:4 final size:4
Alignment explanation
Indices: 1219158--1219198 Score: 64
Period size: 4 Copynumber: 9.8 Consensus size: 4
1219148 TATTTTTAAT
1219158 TTTA TTTA TCTTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA --TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1219199 TATTCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 31 0.89
6 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1223177 original size:110 final size:110
Alignment explanation
Indices: 1222858--1225890 Score: 2796
Period size: 110 Copynumber: 26.5 Consensus size: 110
1222848 TGATGGTGGT
* * *
1222858 AGCTCAACTTCACAGCGAAGGGGCTATTGACTGTCAACAAACAACTTTTTAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
1222923 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACA-AA
* * * * * * *
1222969 A-CTCAACTTCACAACGAATGAGCGACTAACTATCAATAAACAACTTTCCAG-TTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
1223032 CAATTTCAACTTCACAGCGAAGAATATTAGACTCGAGACAACAAA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * *
1223077 AGCTCAACTTCACAGCGAAGGGGCGACTAATTGTCAACAAAAAACTTTTTAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
1223142 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * *
1223187 AGTTCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
1223252 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACA-AA
* * *
1223298 A-CTCAACTTCACAGCGAAGGGGTGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * *
1223362 CAATTTCAACTTCACAACGAATGATATTAGACTCGAGATAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * * * *
1223407 AGGTCAACTTCACAACGAAGGGGCGACTGATTGTCAACAAATAACTTTCCAGATTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * * * *
1223472 CAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1223517 AGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
1223582 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* ** * * **
1223627 AGCTCAACTTCACAGCGAA--TGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAG
1 AGCTCAACTTCACAGCGAAGGGGCGACT-GACT---GTCAACA-AA---CAACTT---TTC--AG
*** * * * ** *** * * *
1223690 GGGCGACT-GGCTGTCAATAAACAACTTTCTAGTTTC-AGAGTCAATTTTA-ACTTC-ACGGCGA
53 TTTC-ATTCAG-AGTCAAT-TTCAAC-TTC-A-CAACGA-AG--GATATTAGAC-TCGA-GAC-A
* *
1223751 AGGATATT
106 A-CA-A-A
** * *
1223759 AGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAAATTT
1 AG-CTC-A-ACTTCAC--------------AGCGAAGGGGCGACTGACTGTCAACAAACAACTTT
*
1223824 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
49 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1223886 AGCTCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
1223951 CAATTTCAACTTCACAATGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1223996 AGCTCAACTTCACAGCGAAGGGGTGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * *
1224061 CAATTTCAACTTCACAACGAATGATATTAGACTCGAGATAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * *
1224106 AGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTCCAGATTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * * * *
1224171 CAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1224216 AGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
1224281 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* ** * * **
1224326 AGCTCAACTTCACAGCGAA--TGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAG
1 AGCTCAACTTCACAGCGAAGGGGCGACT-GACT---GTCAACA-AA---CAACTT---TTC--AG
*** * * * ** *** * * *
1224389 GGGCGACT-GGCTGTCAATAAACAACTTTCTAGTTTC-AGAGTCAATTTTA-ACTTC-ACGGCGA
53 TTTC-ATTCAG-AGTCAAT-TTCAAC-TTC-A-CAACGA-AG--GATATTAGAC-TCGA-GAC-A
* *
1224450 AGGATATT
106 A-CA-A-A
** * * *
1224458 AGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTATCAACAAAAAACTTT
1 AG-CTC-A-ACTTCAC--------------AGCGAAGGGGCGACTGACTGTCAACAAACAACTTT
* *
1224523 TTAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
49 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * * *
1224585 AGTTCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTTAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
1224650 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1224695 AGCTCAACTTCACAGCGAAGGGGTGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * *
1224760 CAATTTCAACTTCACAACGAATGATATTAGACTCGAGATAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * *
1224805 AGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACAACTTTCCAGATTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * * * *
1224870 CAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1224915 AGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
1224980 CAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * ** * * **
1225025 AGCTCAACTTCACAGTGAA--TGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAG
1 AGCTCAACTTCACAGCGAAGGGGCGACT-GACT---GTCAACA-AA---CAACTT---TTC--AG
*** * * * ** *** * * *
1225088 GGGCGACT-GGCTGTCAATAAACAACTTTCTAGTTTC-AGAGTCAATTTTA-ACTTC-ACGGCGA
53 TTTC-ATTCAG-AGTCAAT-TTCAAC-TTC-A-CAACGA-AG--GATATTAGAC-TCGA-GAC-A
* *
1225149 AGGATATT
106 A-CA-A-A
** * *
1225157 AGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAAATTT
1 AG-CTC-A-ACTTCAC--------------AGCGAAGGGGCGACTGACTGTCAACAAACAACTTT
*
1225222 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
49 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * *
1225284 AGCTCAACTTCACAGTGAAAGGGCGACTAACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
1225349 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * * *
1225394 AGTTCAACTTCACAGCGAAGAGGCGACTGATTGTCAACAAACAACTTTTCAGTTTCTTTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
1225459 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1225504 AGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAATAAACAACTTTCCAGTTTCATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
*
1225569 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* *
1225614 AGCTCAACTTCACAGCGAAGGAGCGACTGACTGTCAACAAACAACTTTTCAGTTTTATTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* *
1225679 CAATTTTAACTTCACAACGAATGATATTAGACTCGAGACAACAAA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
* * *
1225724 AGCTCAACTTCACAGCGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCGTTCAGAGT
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
* * *
1225789 CAATTTCAACTTCACAGCGAATGATATTAGACTCGAGACAACATA
66 CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
** * * *
1225834 AGCTCAACTTCACAGCGAAGGGGCGGTTGGCTGTCAATAAACAACTTTCCAGTTTCA
1 AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCA
1225891 GAGTCAATTT
Statistics
Matches: 2418, Mismatches: 347, Indels: 315
0.79 0.11 0.10
Matches are distributed among these distances:
108 12 0.00
109 105 0.04
110 1877 0.78
111 3 0.00
112 18 0.01
113 6 0.00
116 18 0.01
119 3 0.00
121 12 0.00
122 24 0.01
123 12 0.00
124 26 0.01
125 9 0.00
126 17 0.01
127 15 0.01
128 27 0.01
129 9 0.00
130 9 0.00
131 27 0.01
132 15 0.01
133 18 0.01
134 9 0.00
135 24 0.01
136 12 0.00
137 24 0.01
138 12 0.00
140 2 0.00
143 15 0.01
146 6 0.00
147 17 0.01
149 17 0.01
150 9 0.00
151 9 0.00
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (110 bp):
AGCTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGT
CAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACAAA
Found at i:1223651 original size:43 final size:43
Alignment explanation
Indices: 1223587--1223690 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
1223577 AGAGTCAATT
1223587 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
1 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
*
1223630 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGC
1 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
*
1223673 TCAACTTCACAACGAAGG
1 TCAACTTCACAGCGAAGG
1223691 GGCGACTGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (43 bp):
TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
Found at i:1223677 original size:153 final size:149
Alignment explanation
Indices: 1223479--1223796 Score: 510
Period size: 153 Copynumber: 2.1 Consensus size: 149
1223469 AGTCAATTTT
* *
1223479 AACTTCACAGCGAAGGATATTAGACTTGAGAGAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1 AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1223544 TGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
66 TGAATGTCAACAAACAACTTTCCAG--T--TTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
*
1223609 TAGACTCGAGACAACATAAGCTC
127 TAGACTCGAGACAACACAAGCTC
*
1223632 AACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1 AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
** * * * *
1223697 TGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTAGA
66 TGAATGTCAACAAACAACTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGA
1223762 CTCGAGACAACACAAGCTC
131 CTCGAGACAACACAAGCTC
1223781 AACTTCACAGCGAAGG
1 AACTTCACAGCGAAGG
1223797 GGCGACTAAC
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
149 70 0.45
151 1 0.01
153 83 0.54
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (149 bp):
AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
TGAATGTCAACAAACAACTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGA
CTCGAGACAACACAAGCTC
Found at i:1224350 original size:43 final size:43
Alignment explanation
Indices: 1224286--1224389 Score: 190
Period size: 43 Copynumber: 2.4 Consensus size: 43
1224276 AGAGTCAATT
1224286 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
1 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
*
1224329 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGC
1 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
*
1224372 TCAACTTCACAACGAAGG
1 TCAACTTCACAGCGAAGG
1224390 GGCGACTGGC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.19
Consensus pattern (43 bp):
TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
Found at i:1224362 original size:699 final size:699
Alignment explanation
Indices: 1222928--1225742 Score: 5022
Period size: 699 Copynumber: 4.0 Consensus size: 699
1222918 AGAGTCAATT
* * * * * *
1222928 TCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAACTCAACTTCACAACGAATGAGCG
1 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
** * * * * *
1222993 ACTAACTATCAATAAACAACTTTCCAGTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGAATA
66 ACTGGCTGTCAATAAACAACTTTCTAG-T--TTCAGAGTCAATTTTAACTTCACGGCGAAGGATA
* *
1223058 TTAGACTCGAGACAACAAAAGCTCAACTTCACAGCGAAGGGGCGACTAATTGTCAACAAAAAACT
128 TTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAAAAACT
*
1223123 TTTTAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAA
193 TTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAA
*
1223188 GTTCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTC
258 GCTCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTC
*
1223253 AATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAACTCAACTTCACAGCGAAGG
323 AATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGG
1223318 GGTGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAA
388 GGTGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAA
*
1223383 TGATATTAGACTCGAGATAACACAAGGTCAACTTCACAACGAAGGGGCGACTGATTGTCAACAAA
453 TGATATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAA
*
1223448 TAACTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAA
518 CAACTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAA
1223513 CATAAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCA
583 CATAAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCA
1223578 GAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
648 GAGTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
1223630 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
1 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
1223695 ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
66 ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
1223760 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAAA-TTT
131 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAA-AAACTTT
1223824 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGC
195 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGC
1223889 TCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTCAA
260 TCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTCAA
*
1223954 TTTCAACTTCACAATGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
325 TTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
1224019 TGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATG
390 TGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATG
1224084 ATATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACA
455 ATATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACA
1224149 ACTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACA
520 ACTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACA
1224214 TAAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGA
585 TAAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGA
1224279 GTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
650 GTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
1224329 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
1 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
1224394 ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
66 ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
*
1224459 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTATCAACAAAAAACTTTT
131 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAAAAACTTTT
* *
1224524 TAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGTT
196 CAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCT
*
1224589 CAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTTAGAGTCAAT
261 CAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTCAAT
1224654 TTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGT
326 TTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGT
1224719 GACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATGA
391 GACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATGA
1224784 TATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACAA
456 TATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACAA
1224849 CTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACAT
521 CTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACAT
1224914 AAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAG
586 AAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAG
1224979 TCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
651 TCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
*
1225028 TCAACTTCACAGTGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
1 TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
1225093 ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
66 ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
1225158 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAACAAA-TTT
131 GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAA-AAACTTT
1225222 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGC
195 TCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGC
* * * * * * *
1225287 TCAACTTCACAGTGAAAGGGCGACTAACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAA
260 TCAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTCAA
* *
1225352 TTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGTTCAACTTCACAGCGAAGAGG
325 TTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
* * * * * *
1225417 CGACTGATTGTCAACAAACAACTTTTCAGTTTCTTTCAGAGTCAATTTCAACTTCACAACGAAGG
390 TGACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATG
* * * * *
1225482 ATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGATTGACTGTCAATAAACA
455 ATATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACA
* * * * *
1225547 ACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACA
520 ACTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACA
* * * * * *
1225612 CAAGCTCAACTTCACAGCGAAGGAGCGACTGACTGTCAACAAACAACTTTTCAGTTTTATTCAGA
585 TAAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGA
* * * *
1225677 GTCAATTTTAACTTCACAACGAATGATATTAGACTCGAGACAACAAAAGC
650 GTCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
1225727 TCAACTTCACAGCGAA
1 TCAACTTCACAGCGAA
1225743 GGGGCGACTG
Statistics
Matches: 2043, Mismatches: 67, Indels: 9
0.96 0.03 0.00
Matches are distributed among these distances:
698 3 0.00
699 1951 0.95
700 6 0.00
701 1 0.00
702 82 0.04
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (699 bp):
TCAACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCG
ACTGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTA
GACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTAACTGTCAACAAAAAACTTTT
CAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCT
CAACTACACAGCGAAGGGGCGACTGACTGTCAACAAACAATTTTTCAGTTTCTTTCAGAGTCAAT
TTCAACTTCACAACGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGT
GACTGACTGTCCATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAACGAATGA
TATTAGACTCGAGATAACACAAGGTCAACTTCACAGCGAAGGGGCGACTGATTGTCAACAAACAA
CTTTCCAGATTCATTCAGAGTCAATTTTAACTTCACAGCGAAGGATATTAGACTTGAGAGAACAT
AAGCTCAACTTCACAACGAAGGGGCGACTGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAG
TCAATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
Found at i:1224376 original size:153 final size:149
Alignment explanation
Indices: 1224178--1224495 Score: 510
Period size: 153 Copynumber: 2.1 Consensus size: 149
1224168 AGTCAATTTT
* *
1224178 AACTTCACAGCGAAGGATATTAGACTTGAGAGAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1 AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1224243 TGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
66 TGAATGTCAACAAACAACTTTCCAG--T--TTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
*
1224308 TAGACTCGAGACAACATAAGCTC
127 TAGACTCGAGACAACACAAGCTC
*
1224331 AACTTCACAGCGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1 AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
** * * * *
1224396 TGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTAGA
66 TGAATGTCAACAAACAACTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGA
1224461 CTCGAGACAACACAAGCTC
131 CTCGAGACAACACAAGCTC
1224480 AACTTCACAGCGAAGG
1 AACTTCACAGCGAAGG
1224496 GGCGACTAAC
Statistics
Matches: 154, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
149 70 0.45
151 1 0.01
153 83 0.54
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (149 bp):
AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
TGAATGTCAACAAACAACTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGA
CTCGAGACAACACAAGCTC
Found at i:1225049 original size:43 final size:43
Alignment explanation
Indices: 1224985--1225088 Score: 181
Period size: 43 Copynumber: 2.4 Consensus size: 43
1224975 AGAGTCAATT
1224985 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
1 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
* *
1225028 TCAACTTCACAGTGAATGATATTAGACTCGAGACAACATAAGC
1 TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
*
1225071 TCAACTTCACAACGAAGG
1 TCAACTTCACAGCGAAGG
1225089 GGCGACTGGC
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.20
Consensus pattern (43 bp):
TCAACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGC
Found at i:1225079 original size:153 final size:149
Alignment explanation
Indices: 1224877--1225194 Score: 501
Period size: 153 Copynumber: 2.1 Consensus size: 149
1224867 AGTCAATTTT
* *
1224877 AACTTCACAGCGAAGGATATTAGACTTGAGAGAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1 AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1224942 TGAATGTCAACAAACAACTTTCCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
66 TGAATGTCAACAAACAACTTTCCAG--T--TTCAGAGTCAATTTCAACTTCACAGCGAAGGATAT
*
1225007 TAGACTCGAGACAACATAAGCTC
127 TAGACTCGAGACAACACAAGCTC
* *
1225030 AACTTCACAGTGAATGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
1 AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
** * * * *
1225095 TGGCTGTCAATAAACAACTTTCTAGTTTCAGAGTCAATTTTAACTTCACGGCGAAGGATATTAGA
66 TGAATGTCAACAAACAACTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGA
1225160 CTCGAGACAACACAAGCTC
131 CTCGAGACAACACAAGCTC
1225179 AACTTCACAGCGAAGG
1 AACTTCACAGCGAAGG
1225195 GGCGACTAAC
Statistics
Matches: 152, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
149 69 0.45
151 1 0.01
153 82 0.54
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (149 bp):
AACTTCACAGCGAAGGATATTAGACTCGAGACAACATAAGCTCAACTTCACAACGAAGGGGCGAC
TGAATGTCAACAAACAACTTTCCAGTTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAGA
CTCGAGACAACACAAGCTC
Found at i:1226304 original size:84 final size:82
Alignment explanation
Indices: 1226050--1226316 Score: 286
Period size: 84 Copynumber: 3.2 Consensus size: 82
1226040 CGTGCCCACC
1226050 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* *
1226115 GGAGGGCTATCTG--CT
66 GAAGGGTTATCTGCACT
* ** * * * * * * * * * *
1226130 AAAGACCCTAAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
* *
1226195 AGAATGGTTATCTGTCACCA
65 AGAAGGGTTATCTG-CA-CT
*
1226215 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCACTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1226280 GAAGGGTTATCTGCCAACT
66 GAAGGGTTATCTG-C-ACT
* * *
1226299 GAAGACTTTTGAGTTCGA
1 AAAGACCTTCGAGTTCGA
1226317 TTCCATTCAG
Statistics
Matches: 144, Mismatches: 37, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
80 24 0.17
81 38 0.26
84 56 0.39
85 26 0.18
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (82 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGTTATCTGCACT
Found at i:1226688 original size:12 final size:13
Alignment explanation
Indices: 1226631--1226690 Score: 61
Period size: 12 Copynumber: 4.6 Consensus size: 13
1226621 TTTTAAAAAA
1226631 TATTATTTATTTATT
1 TATTATTTA-TTA-T
* *
1226646 TATTAATCATTAT
1 TATTATTTATTAT
1226659 TATTA-TTATTAT
1 TATTATTTATTAT
1226671 TATTATTTATT-T
1 TATTATTTATTAT
*
1226683 TTTTATTT
1 TATTATTT
1226691 TTGTAAACAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 19 0.47
13 11 0.28
14 3 0.08
15 7 0.17
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTATTTATTAT
Found at i:1230884 original size:17 final size:17
Alignment explanation
Indices: 1230848--1230886 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
1230838 GAGAGAAAAC
* *
1230848 TATTTTTTTGATATTTT
1 TATTTTTTTGAAATTCT
*
1230865 TATTTTTTTTAAATTCT
1 TATTTTTTTGAAATTCT
1230882 TATTT
1 TATTT
1230887 AATTATAAAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (17 bp):
TATTTTTTTGAAATTCT
Found at i:1238973 original size:32 final size:32
Alignment explanation
Indices: 1238936--1238998 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
1238926 TGTTGTAACA
1238936 GAAAATATTAAAAAATTAACATTTTAAATTAT
1 GAAAATATTAAAAAATTAACATTTTAAATTAT
* ** *
1238968 GAAAATGTTAAAAGGTTAACATTTTATATTA
1 GAAAATATTAAAAAATTAACATTTTAAATTA
1238999 CGTATAACCG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (32 bp):
GAAAATATTAAAAAATTAACATTTTAAATTAT
Found at i:1246081 original size:123 final size:123
Alignment explanation
Indices: 1245842--1246090 Score: 311
Period size: 123 Copynumber: 2.0 Consensus size: 123
1245832 GGATATGTTT
* *
1245842 AATTGGATATATGGAAAGGCATCTTGTAGTTAGAGAATGTTATCCTTGTGACAATTTAAGGGATA
1 AATTGGATATATGGAAAGGCATCTTGAAGTTAGAGAATGTTATCCCTGTGACAATTTAAGGGATA
* ** *
1245907 AGCACTTTATGCATAAAATCGGATCTCTATAAAATTTTTAGTGATTCTTTTGCGGACC
66 AGCACTTTACGCATAAAATCGGATCTCTATAAAACATTAAGTGATTCTTTTGCGGACC
* * * * *
1245965 AATTGGGTATATGGAAAGTCATCTTGAAGTTATAGAATGTTATCCCTGTGACAATTTAAGGGGTG
1 AATTGGATATATGGAAAGGCATCTTGAAGTTAGAGAATGTTATCCCTGTGACAATTTAAGGGATA
** * * *
1246030 ATTACATCTTACGCATAAAATTGGATCTTTATAAAACCATTAAG-GATTTTTGTTGCGGACC
66 AGCAC-T-TTACGCATAAAATCGGATCTCTATAAAA-CATTAAGTGATTCTT-TTGCGGACC
1246091 TTATGTTGGA
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
123 61 0.58
124 1 0.01
125 31 0.29
126 13 0.12
ACGTcount: A:0.32, C:0.12, G:0.20, T:0.35
Consensus pattern (123 bp):
AATTGGATATATGGAAAGGCATCTTGAAGTTAGAGAATGTTATCCCTGTGACAATTTAAGGGATA
AGCACTTTACGCATAAAATCGGATCTCTATAAAACATTAAGTGATTCTTTTGCGGACC
Found at i:1247790 original size:146 final size:146
Alignment explanation
Indices: 1247526--1247799 Score: 521
Period size: 146 Copynumber: 1.9 Consensus size: 146
1247516 GAACAAACTC
* *
1247526 TACAGCTGTTGTAGGTTTTTTGTTTGCAAGGAAGTTCTTGTACATGGGATTGGTATATCCCATGA
1 TACAGCTGTTGTAGGCTTTTTGTTTGCAAGGAAGCTCTTGTACATGGGATTGGTATATCCCATGA
1247591 TAGTTTGACTGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTTTTA
66 TAGTTTGACTGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTTTTA
1247656 TACAATTTTTTTAGTG
131 TACAATTTTTTTAGTG
*
1247672 TACAGCTGTTGTATGCTTTTTGTTTGCAAGGAAGCTCTTGTACATGGGATTGGTATATCCCATGA
1 TACAGCTGTTGTAGGCTTTTTGTTTGCAAGGAAGCTCTTGTACATGGGATTGGTATATCCCATGA
1247737 TAGTTTGACTGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTTT
66 TAGTTTGACTGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTTT
1247800 GAGAAGCTTG
Statistics
Matches: 125, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
146 125 1.00
ACGTcount: A:0.25, C:0.11, G:0.27, T:0.37
Consensus pattern (146 bp):
TACAGCTGTTGTAGGCTTTTTGTTTGCAAGGAAGCTCTTGTACATGGGATTGGTATATCCCATGA
TAGTTTGACTGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTTTTA
TACAATTTTTTTAGTG
Found at i:1247818 original size:53 final size:53
Alignment explanation
Indices: 1247746--1247852 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
1247736 ATAGTTTGAC
1247746 TGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTT
1 TGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTT
1247799 TGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTT
1 TGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTT
1247852 T
1 T
1247853 TATACAATTT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.30, C:0.07, G:0.34, T:0.29
Consensus pattern (53 bp):
TGAGAAGCTTGGCAATGTGAAGGGGGAGGTCTGATAAGAAACTTGTGATATTT
Found at i:1255335 original size:17 final size:18
Alignment explanation
Indices: 1255305--1255338 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
1255295 ACCCAGAAAA
1255305 AGTCAACGACTGGTCAAC
1 AGTCAACGACTGGTCAAC
1255323 AGTCAAC-ACTGGTCAA
1 AGTCAACGACTGGTCAA
1255339 ATAGGTCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.35, C:0.26, G:0.21, T:0.18
Consensus pattern (18 bp):
AGTCAACGACTGGTCAAC
Found at i:1262939 original size:60 final size:60
Alignment explanation
Indices: 1262812--1262948 Score: 145
Period size: 60 Copynumber: 2.3 Consensus size: 60
1262802 ATAGTCGGAT
* * * * * *
1262812 GATCATTTTTTAACTTTTGATAGTCAGAGGACTCAACAATGCAACACTCTATAGTCGAAG
1 GATCATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAGCAACACCCTATAATCGAAG
* * *
1262872 AACCATTTTGTAACTTTTAATAATC-GAGAGACTCAACAAAGCATCACCCTATAATC-AAGG
1 GATCATTTTGTAACTTTTAATAATCAGAG-GACTCAACAAAGCAACACCCTATAATCGAA-G
1262932 GATCA-TTTGTATACTTT
1 GATCATTTTGTA-ACTTT
1262949 ACCCTTAAAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
59 11 0.17
60 52 0.83
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (60 bp):
GATCATTTTGTAACTTTTAATAATCAGAGGACTCAACAAAGCAACACCCTATAATCGAAG
Found at i:1277650 original size:12 final size:12
Alignment explanation
Indices: 1277633--1277659 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1277623 TTAAGGTTAC
1277633 GCAAGCAACAAA
1 GCAAGCAACAAA
1277645 GCAAGCAACAAA
1 GCAAGCAACAAA
1277657 GCA
1 GCA
1277660 GGTCAAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.26, G:0.19, T:0.00
Consensus pattern (12 bp):
GCAAGCAACAAA
Found at i:1278468 original size:43 final size:44
Alignment explanation
Indices: 1278401--1278681 Score: 315
Period size: 43 Copynumber: 6.5 Consensus size: 44
1278391 TATAACAAAG
*
1278401 CGCCGTTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGA-AAA
1 CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
* * *
1278444 CACTGCTATTGACTGTGTATTTAGCGGCGTTTATCTTTGA-AAA
1 CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
* * * *
1278487 TGCCGCT-TTGACTGTGTATTTAGCAGCGTTTGTATTT-TTAAA
1 CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
* ** *** *
1278529 CGTCGCTATTGACTGTGTATTTAGCGATGTTT-TCAAAGACAAA
1 CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
* *
1278572 CGCCGCTATTGACTGTGTACTTAGTGGCGTTTGTCTTT-ATAAA
1 CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
* * *
1278615 CGCCGCTATTGACTGTGTATTTAACGGCATTTATCTTT-ATAAA
1 CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
* *
1278658 CGTCGCTATTAACTGTGTATTTAG
1 CGCCGCTATTGACTGTGTATTTAG
1278682 TGCATTTGTA
Statistics
Matches: 195, Mismatches: 39, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
42 36 0.18
43 157 0.81
44 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.21, T:0.40
Consensus pattern (44 bp):
CGCCGCTATTGACTGTGTATTTAGCGGCGTTTGTCTTTGATAAA
Found at i:1282392 original size:43 final size:43
Alignment explanation
Indices: 1282267--1282392 Score: 145
Period size: 43 Copynumber: 3.0 Consensus size: 43
1282257 TAAATTTTTC
* * *
1282267 CTGTTGCGACGTTTGTCTTTGAAAACGCCGC-AAACTACTACT
1 CTGTTGTGGCGTTTGTCTTTGAAAACGCCGCTAAAGTACTACT
* * **
1282309 CTGTTGTGGCG--T-T-TTTAAAAACACCGCTAAAGTAAAACT
1 CTGTTGTGGCGTTTGTCTTTGAAAACGCCGCTAAAGTACTACT
*
1282348 CTGTTGTGGCGTTTGTCTTTGAAAACGCCACTAAAGTACTACT
1 CTGTTGTGGCGTTTGTCTTTGAAAACGCCGCTAAAGTACTACT
1282391 CT
1 CT
1282393 ATTGCGGTAT
Statistics
Matches: 67, Mismatches: 12, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
38 12 0.18
39 20 0.30
40 1 0.01
41 1 0.01
42 10 0.15
43 23 0.34
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (43 bp):
CTGTTGTGGCGTTTGTCTTTGAAAACGCCGCTAAAGTACTACT
Found at i:1282454 original size:41 final size:41
Alignment explanation
Indices: 1282392--1282537 Score: 79
Period size: 41 Copynumber: 3.6 Consensus size: 41
1282382 AGTACTACTC
** * *
1282392 TATTGCGGTATTTATTAAAAAAT-GCCACTAAAGATGGAATT
1 TATTGCGGCGTTTATTATAAAAATGCCACTAAAGAT-GAATT
** *
1282433 TATTGCGGCGTTT-TTATAAAAACACCGCTAAAG-T-AATACT
1 TATTGCGGCGTTTATTATAAAAATGCCACTAAAGATGAAT--T
* * * * *
1282473 GTGTTACGGCGTTTGTTGAT-AAAATGCCACTATAGATGAACCT
1 -TATTGCGGCGTTTATT-ATAAAAATGCCACTAAAGATGAA-TT
*
1282516 TATTGCGGCGTTT-GTATAAAAA
1 TATTGCGGCGTTTATTATAAAAA
1282538 CACCGTTAAA
Statistics
Matches: 79, Mismatches: 16, Indels: 20
0.69 0.14 0.17
Matches are distributed among these distances:
38 3 0.04
40 11 0.14
41 35 0.44
42 24 0.30
43 4 0.05
44 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (41 bp):
TATTGCGGCGTTTATTATAAAAATGCCACTAAAGATGAATT
Found at i:1282571 original size:83 final size:84
Alignment explanation
Indices: 1282408--1282633 Score: 231
Period size: 83 Copynumber: 2.7 Consensus size: 84
1282398 GGTATTTATT
* * * *
1282408 AAAAAATGCCACTAAAGATGGAA-TTTATTGCGGCGTTTTTATAAAAACACCGCTAAAGTAATAC
1 AAAAAATGCCACTATAGAT-GAACCTTATTGCGGCGTTTGTATAAAAACACCGCTAAAGTAATAA
** * * *
1282472 TGTGTTACGGCGTTTGTT-G
65 ACTGTTACAGCATTTGTTAA
* * *
1282491 ATAAAATGCCACTATAGATGAACCTTATTGCGGCGTTTGTATAAAAACACCGTTAAAGTACTAAA
1 AAAAAATGCCACTATAGATGAACCTTATTGCGGCGTTTGTATAAAAACACCGCTAAAGTAATAAA
*
1282556 CTGTTGCAGCATTTGTTAA
66 CTGTTACAGCATTTGTTAA
* * * * * * * * *
1282575 AAAAAATACCAATATAGATGAACCCTATTGTGACATTTATAGAAAAACGCCGCTAAAGT
1 AAAAAATGCCACTATAGATGAACCTTATTGCGGCGTTTGTATAAAAACACCGCTAAAGT
1282634 TACCATTTTG
Statistics
Matches: 117, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
82 3 0.03
83 66 0.56
84 48 0.41
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (84 bp):
AAAAAATGCCACTATAGATGAACCTTATTGCGGCGTTTGTATAAAAACACCGCTAAAGTAATAAA
CTGTTACAGCATTTGTTAA
Done.