Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 40
Found at i:7493142 original size:23 final size:23
Alignment explanation
Indices: 7493116--7493159 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
7493106 CACCACAGCT
*
7493116 CGTATAAATGCACCGAAGTGCTG
1 CGTAGAAATGCACCGAAGTGCTG
* *
7493139 CGTAGAATTGCACCGTAGTGC
1 CGTAGAAATGCACCGAAGTGC
7493160 CATATAATGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCTG
Found at i:7493329 original size:150 final size:149
Alignment explanation
Indices: 7493138--7493443 Score: 540
Period size: 150 Copynumber: 2.0 Consensus size: 149
7493128 CCGAAGTGCT
*
7493138 GCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATATAATTCCTTAAGAA
1 GCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAA
* * * *
7493203 TCATATACATATACTAGGGATCAAGTATTTGTCTTTCCAAGACTTCACACATGTTCCACAGAATA
66 TCATATACATATACTAAGGATCAAGCATGTGTCTTT-CAAGACTTCACACATGTTCCAAAGAATA
*
7493268 TATATATATCCCGAAGGACC
130 TACATATATCCCGAAGGACC
7493288 GCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAA
1 GCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAA
7493353 TCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATAT
66 TCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATAT
*
7493418 ACATATGTCCCGAAGGACC
131 ACATATATCCCGAAGGACC
7493437 GCGTAGA
1 GCGTAGA
7493444 CCCTCTACCC
Statistics
Matches: 149, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
149 52 0.35
150 97 0.65
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (149 bp):
GCGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCCTTAAGAA
TCATATACATATACTAAGGATCAAGCATGTGTCTTTCAAGACTTCACACATGTTCCAAAGAATAT
ACATATATCCCGAAGGACC
Found at i:7493958 original size:19 final size:20
Alignment explanation
Indices: 7493921--7493958 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7493911 TTTTTTCTCA
*
7493921 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
7493941 TGGGGGTATCGATTCCCC
1 TGGGGGAATCGATTCCCC
7493959 TCTAGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.34, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:7495457 original size:16 final size:16
Alignment explanation
Indices: 7495436--7495467 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7495426 AATTACCGTT
*
7495436 TCCCGTCCCCGTATCA
1 TCCCGTACCCGTATCA
7495452 TCCCGTACCCGTATCA
1 TCCCGTACCCGTATCA
7495468 GTGCAACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.47, G:0.12, T:0.25
Consensus pattern (16 bp):
TCCCGTACCCGTATCA
Found at i:7501454 original size:25 final size:26
Alignment explanation
Indices: 7501426--7501476 Score: 86
Period size: 25 Copynumber: 2.0 Consensus size: 26
7501416 AGGTCTCCAA
7501426 CGTTTATGTTCATGTTC-ATTATGTT
1 CGTTTATGTTCATGTTCGATTATGTT
*
7501451 CGTTTATGTTCATGTTCGTTTATGTT
1 CGTTTATGTTCATGTTCGATTATGTT
7501477 TTTTTATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.71
26 7 0.29
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.57
Consensus pattern (26 bp):
CGTTTATGTTCATGTTCGATTATGTT
Found at i:7501467 original size:16 final size:16
Alignment explanation
Indices: 7501446--7501476 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7501436 CATGTTCATT
7501446 ATGTTCGTTTATGTTC
1 ATGTTCGTTTATGTTC
7501462 ATGTTCGTTTATGTT
1 ATGTTCGTTTATGTT
7501477 TTTTTATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.13, C:0.10, G:0.19, T:0.58
Consensus pattern (16 bp):
ATGTTCGTTTATGTTC
Found at i:7501575 original size:16 final size:14
Alignment explanation
Indices: 7501554--7501588 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
7501544 AATTTATTCG
7501554 TTTATGTTCGTGTTCA
1 TTTATGTTCGT-TT-A
7501570 TTTATGTTCGTTTA
1 TTTATGTTCGTTTA
7501584 TTTAT
1 TTTAT
7501589 TAAATGAACG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.32
15 2 0.11
16 11 0.58
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.63
Consensus pattern (14 bp):
TTTATGTTCGTTTA
Found at i:7503713 original size:111 final size:111
Alignment explanation
Indices: 7503519--7503851 Score: 569
Period size: 111 Copynumber: 3.0 Consensus size: 111
7503509 TGGAAATCAT
* *
7503519 ATATCTCTACACTTTGTTGATACGGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGTTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
*
7503584 TATTTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
* * * *
7503630 ATATCTCGATATTTTGCTGATACGATAACATTTTAACGCTTTAATTTAATTTAAATTATTAGTAA
1 ATATCTCGACACTTTGTTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
7503695 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
66 TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
*
7503741 ATATCTCGACACTTTGTTTATAC-AGTAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
1 ATATCTCGACACTTTGTTGATACGA-TAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTA
*
7503805 ATAATTAGTTGATTTATTTAATGCATGATTATTAAATTAAGAATTAA
65 ATAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
7503852 TTTTTGTAAT
Statistics
Matches: 208, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
110 1 0.00
111 207 1.00
ACGTcount: A:0.37, C:0.07, G:0.10, T:0.46
Consensus pattern (111 bp):
ATATCTCGACACTTTGTTGATACGATAACATTTTAACGTTTTAATTTAATTTAAATTATTAGTAA
TAATTAGTTGATTTATTTAATGCATGATTATTAGATTAAGAATTAA
Found at i:7506379 original size:75 final size:76
Alignment explanation
Indices: 7506277--7506485 Score: 280
Period size: 75 Copynumber: 2.8 Consensus size: 76
7506267 CCGTTGTACA
* * *
7506277 AGGGGGGAATCGGTACCCCCT-TGGGGGGAATCAGTTCCCTCCGAGCATACTGGAATTCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
** *
7506341 CAAAACTGTTT
66 CAAAACCATTC
* *
7506352 AGGGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
*
7506416 CCAAACCATTC
66 CAAAACCATTC
* *
7506427 AGGGGGAAATCGGTTCCTCCTATGGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 AGGGGGGAATCGGTTCCTCCTAT-GGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
7506486 TTTGGCTTTG
Statistics
Matches: 117, Mismatches: 13, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
75 86 0.74
76 1 0.01
77 30 0.26
ACGTcount: A:0.22, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
AGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAG
CAAAACCATTC
Found at i:7507105 original size:17 final size:17
Alignment explanation
Indices: 7507083--7507126 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
7507073 TTCATAAATC
7507083 CAAAATCCAACAATCCA
1 CAAAATCCAACAATCCA
*
7507100 CAAAATCAAACAATCCA
1 CAAAATCCAACAATCCA
7507117 -AAATATCCAA
1 CAAA-ATCCAA
7507127 AATGTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.14
Consensus pattern (17 bp):
CAAAATCCAACAATCCA
Found at i:7507118 original size:9 final size:8
Alignment explanation
Indices: 7507078--7507128 Score: 52
Period size: 9 Copynumber: 6.2 Consensus size: 8
7507068 CACCATTCAT
7507078 AAATCC-A
1 AAATCCAA
7507085 AAATCCAA
1 AAATCCAA
*
7507093 CAATCCACA
1 AAATCCA-A
7507102 AAAT-CAA
1 AAATCCAA
7507109 ACAATCCAA
1 A-AATCCAA
7507118 AATATCCAA
1 AA-ATCCAA
7507127 AA
1 AA
7507129 TGTTGAAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
7 8 0.22
8 13 0.35
9 16 0.43
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (8 bp):
AAATCCAA
Found at i:7509145 original size:21 final size:23
Alignment explanation
Indices: 7509094--7509145 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
7509084 GATTCCCCTG
7509094 TGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGAATCGGTTCCCCTTCA
**
7509117 AAGGGGGAATCGGTT-CCC-TCA
1 TGGGGGGAATCGGTTCCCCTTCA
7509138 TGGGGGGA
1 TGGGGGGA
7509146 TCGAATCCCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.36
22 3 0.12
23 13 0.52
ACGTcount: A:0.17, C:0.21, G:0.40, T:0.21
Consensus pattern (23 bp):
TGGGGGGAATCGGTTCCCCTTCA
Found at i:7515015 original size:76 final size:76
Alignment explanation
Indices: 7514924--7515111 Score: 263
Period size: 76 Copynumber: 2.5 Consensus size: 76
7514914 CGTTGTACAA
* ** *
7514924 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAGCAAAACTGTTTAGGGGGGAATCG
1 GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCAGAGCAAAACCATTCAGGGGGGAATCG
7514989 GTTCCTCCTAT
66 GTTCCTCCTAT
* * *
7515000 -GGGGGAATCGGGTTCCCTCCGAGCATTCTGGAAATCTCAGAGCCAAACCATTCAGGGGGGAATC
1 GGGGGGAATC-GGTTCCCTCCGAGCATACTGGAATTCTCAGAGCAAAACCATTCAGGGGGGAATC
7515064 GGTTCCTCCTAT
65 GGTTCCTCCTAT
*
7515076 GGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 -GGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
7515112 TTTGGCTTTG
Statistics
Matches: 98, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
75 9 0.09
76 59 0.60
77 21 0.21
78 9 0.09
ACGTcount: A:0.21, C:0.23, G:0.31, T:0.24
Consensus pattern (76 bp):
GGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCAGAGCAAAACCATTCAGGGGGGAATCG
GTTCCTCCTAT
Found at i:7520873 original size:34 final size:33
Alignment explanation
Indices: 7520834--7520921 Score: 115
Period size: 34 Copynumber: 2.6 Consensus size: 33
7520824 AATGTTAATA
*
7520834 AACAAAATTATCAAAATAAA-TTAACAAAAAGTCC
1 AACAAAATTAACAAAATAAATTTAA-AAAAA-TCC
*
7520868 AACAAAATAAACAAAATAAATTTTAAAAAAATCC
1 AACAAAATTAACAAAATAAA-TTTAAAAAAATCC
*
7520902 AACCAAATTAACAAAATAAA
1 AACAAAATTAACAAAATAAA
7520922 GTAAGTATTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
34 39 0.81
35 5 0.10
36 4 0.08
ACGTcount: A:0.66, C:0.14, G:0.01, T:0.19
Consensus pattern (33 bp):
AACAAAATTAACAAAATAAATTTAAAAAAATCC
Found at i:7523242 original size:17 final size:17
Alignment explanation
Indices: 7523217--7523249 Score: 50
Period size: 16 Copynumber: 1.9 Consensus size: 17
7523207 TAATTAAATA
7523217 AAATATTAAA-AAATTT
1 AAATATTAAATAAATTT
7523233 AAATAGTTAAATAAATT
1 AAATA-TTAAATAAATT
7523250 ACTAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 5 0.33
18 5 0.33
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
AAATATTAAATAAATTT
Found at i:7524034 original size:14 final size:14
Alignment explanation
Indices: 7524015--7524041 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7524005 ACTGTTGTTT
7524015 AAAAATAATAATTA
1 AAAAATAATAATTA
7524029 AAAAATAATAATT
1 AAAAATAATAATT
7524042 CATTTGATCC
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:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AAAAATAATAATTA
Found at i:7533699 original size:19 final size:20
Alignment explanation
Indices: 7533675--7533736 Score: 69
Period size: 19 Copynumber: 3.1 Consensus size: 20
7533665 ATTTTGACCA
7533675 TTTAGCCGCCCATGCATTG-
1 TTTAGCCGCCCATGCATTGT
7533694 TTTAGCCGCCC---CACTTGT
1 TTTAGCCGCCCATGCA-TTGT
7533712 TTTCAGCCGCCCATGCATTGAT
1 TTT-AGCCGCCCATGCATTG-T
7533734 TTT
1 TTT
7533737 CAACAATCTC
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
16 2 0.06
17 3 0.08
18 3 0.08
19 19 0.53
21 3 0.08
22 6 0.17
ACGTcount: A:0.15, C:0.32, G:0.18, T:0.35
Consensus pattern (20 bp):
TTTAGCCGCCCATGCATTGT
Found at i:7537795 original size:16 final size:16
Alignment explanation
Indices: 7537769--7537811 Score: 68
Period size: 16 Copynumber: 2.6 Consensus size: 16
7537759 ATCCGACAAA
7537769 ATTTCACTATTCACGAT
1 ATTT-ACTATTCACGAT
*
7537786 ATTTACTATTCATGAT
1 ATTTACTATTCACGAT
7537802 ATTTACTATT
1 ATTTACTATT
7537812 TACGTGAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.49
Consensus pattern (16 bp):
ATTTACTATTCACGAT
Found at i:7543747 original size:16 final size:16
Alignment explanation
Indices: 7543722--7543763 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
7543712 ATTTAATTTT
7543722 AATTAATTAAATATAG
1 AATTAATTAAATATAG
*
7543738 AATTATTTAAATATAG
1 AATTAATTAAATATAG
*
7543754 ATTTAATTAA
1 AATTAATTAA
7543764 TTTGAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (16 bp):
AATTAATTAAATATAG
Found at i:7554583 original size:14 final size:14
Alignment explanation
Indices: 7554564--7554594 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
7554554 GAACTAATGA
7554564 TTTATTTTATTTAT
1 TTTATTTTATTTAT
7554578 TTTATTTTATTTAT
1 TTTATTTTATTTAT
7554592 TTT
1 TTT
7554595 TGCAACACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTATTTTATTTAT
Found at i:7555035 original size:6 final size:6
Alignment explanation
Indices: 7555024--7555050 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7555014 TGGCTGGTGA
7555024 TGCTTC TGCTTC TGCTTC TGCTTC TGC
1 TGCTTC TGCTTC TGCTTC TGCTTC TGC
7555051 ATCATCTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.19, T:0.48
Consensus pattern (6 bp):
TGCTTC
Found at i:7556020 original size:4 final size:4
Alignment explanation
Indices: 7556011--7556282 Score: 544
Period size: 4 Copynumber: 68.0 Consensus size: 4
7556001 TTAACCATAC
7556011 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7556059 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7556107 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7556155 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7556203 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7556251 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
7556283 GCATGTATGT
Statistics
Matches: 268, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 268 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:7560474 original size:32 final size:32
Alignment explanation
Indices: 7560438--7560587 Score: 106
Period size: 32 Copynumber: 4.7 Consensus size: 32
7560428 TTTGTTTAGA
*
7560438 TCAATATCAGATCGTTTGATTTTTGGATCGAG
1 TCAATATCAGATCGGTTGATTTTTGGATCGAG
** * * * * **** *
7560470 TCAATATTGGGTCGGGTCAATACCAGATCGGG
1 TCAATATCAGATCGGTTGATTTTTGGATCGAG
* ** *
7560502 TCAATACCAGATCAATTGATTTTTGGGTCGAG
1 TCAATATCAGATCGGTTGATTTTTGGATCGAG
* *
7560534 TTAATATC-GAATCGGTTAGA-TTTTGGATCGGG
1 TCAATATCAG-ATCGGTT-GATTTTTGGATCGAG
7560566 TCAATATCAGATCGGTTGATTT
1 TCAATATCAGATCGGTTGATTT
7560588 AAGTACCTAA
Statistics
Matches: 80, Mismatches: 34, Indels: 8
0.66 0.28 0.07
Matches are distributed among these distances:
31 3 0.04
32 74 0.93
33 3 0.04
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.35
Consensus pattern (32 bp):
TCAATATCAGATCGGTTGATTTTTGGATCGAG
Found at i:7560500 original size:16 final size:16
Alignment explanation
Indices: 7560481--7560514 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
7560471 CAATATTGGG
7560481 TCGGGTCAATACCAGA
1 TCGGGTCAATACCAGA
7560497 TCGGGTCAATACCAGA
1 TCGGGTCAATACCAGA
7560513 TC
1 TC
7560515 AATTGATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (16 bp):
TCGGGTCAATACCAGA
Found at i:7560833 original size:27 final size:26
Alignment explanation
Indices: 7560792--7560843 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
7560782 ATTCTCCCTC
* *
7560792 CCCTTCGTCTGTGCTCTCCCCATCATT
1 CCCTTCGCCTATGCTCT-CCCATCATT
7560819 CCCTTCGCCTATGCTCTCCCATCAT
1 CCCTTCGCCTATGCTCTCCCATCAT
7560844 CCCATGCTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.10, C:0.46, G:0.10, T:0.35
Consensus pattern (26 bp):
CCCTTCGCCTATGCTCTCCCATCATT
Found at i:7561466 original size:30 final size:32
Alignment explanation
Indices: 7561432--7561496 Score: 89
Period size: 30 Copynumber: 2.1 Consensus size: 32
7561422 TAGTGTCATC
* **
7561432 TTAATGTATAGTT-ATTTTGTTG-AAAATATG
1 TTAATGTATACTTAATTTCATTGAAAAATATG
7561462 TTAATGTATACTTAATTTCATTGAAAAATATG
1 TTAATGTATACTTAATTTCATTGAAAAATATG
7561494 TTA
1 TTA
7561497 TTTTTGTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
30 12 0.40
31 7 0.23
32 11 0.37
ACGTcount: A:0.37, C:0.03, G:0.12, T:0.48
Consensus pattern (32 bp):
TTAATGTATACTTAATTTCATTGAAAAATATG
Found at i:7565476 original size:191 final size:191
Alignment explanation
Indices: 7565205--7565602 Score: 735
Period size: 191 Copynumber: 2.1 Consensus size: 191
7565195 CTCACCAAGG
7565205 GTTCCATCAAGATTAAACTATCAAACACAATACCAGAAAGACCCAAATTCATGAAATATATACAT
1 GTTCCATCAAGATTAAACTATCAAACACAATACCAGAAAGACCCAAATTCATGAAATATATACAT
7565270 CTAAGAATACACATATTCAACCATAAACGTACAAGAGTGTGTATACAATACTACCCATAAAGAAT
66 CTAAGAATACACATATTCAACCATAAACGTACAAGAGTGTGTATACAATACTACCCATAAAGAAT
* * *
7565335 GTACATTCAACTATAAACGTTCACAAGTTTCAAAAAAGAAAGAAACAACTAAATACCCATA
131 GTACATTCAACCATAAACATTCACAAGTTTCAAAAAAGAAAGAAACAACAAAATACCCATA
*
7565396 GTTCCATCAAGATTAAACTATCAAACACAATACCAGAAAGACCCAAATTCATGAAATATATGCAT
1 GTTCCATCAAGATTAAACTATCAAACACAATACCAGAAAGACCCAAATTCATGAAATATATACAT
*
7565461 CTACA-TATACACATATTCAACCATAAACGTACAAGAGTGTGTATACAATACTACCCATAAAGAA
66 CTA-AGAATACACATATTCAACCATAAACGTACAAGAGTGTGTATACAATACTACCCATAAAGAA
7565525 TGTACATTCAACCATAAACATTCACAAGTTTCAAAAAAGAAAGAAACAACAAAATACCCATA
130 TGTACATTCAACCATAAACATTCACAAGTTTCAAAAAAGAAAGAAACAACAAAATACCCATA
7565587 GTTCCATCAAGATTAA
1 GTTCCATCAAGATTAA
7565603 GTTGTAATAT
Statistics
Matches: 201, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
191 200 1.00
192 1 0.00
ACGTcount: A:0.48, C:0.21, G:0.09, T:0.23
Consensus pattern (191 bp):
GTTCCATCAAGATTAAACTATCAAACACAATACCAGAAAGACCCAAATTCATGAAATATATACAT
CTAAGAATACACATATTCAACCATAAACGTACAAGAGTGTGTATACAATACTACCCATAAAGAAT
GTACATTCAACCATAAACATTCACAAGTTTCAAAAAAGAAAGAAACAACAAAATACCCATA
Found at i:7566134 original size:13 final size:13
Alignment explanation
Indices: 7566097--7566166 Score: 59
Period size: 13 Copynumber: 5.1 Consensus size: 13
7566087 TATTTTGGAG
*
7566097 TTAAATTTTATAAT
1 TTAAA-TTTAAAAT
* *
7566111 TTATGATTTAAGAT
1 TTA-AATTTAAAAT
7566125 TTAAATTTAAAAT
1 TTAAATTTAAAAT
* *
7566138 TTATATATAAAAT
1 TTAAATTTAAAAT
7566151 TTGAAATATTAAAAT
1 TT-AAAT-TTAAAAT
7566166 T
1 T
7566167 ATTTAAATAT
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
13 21 0.48
14 15 0.34
15 8 0.18
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (13 bp):
TTAAATTTAAAAT
Found at i:7566692 original size:25 final size:26
Alignment explanation
Indices: 7566663--7566721 Score: 111
Period size: 25 Copynumber: 2.3 Consensus size: 26
7566653 TAGCTTATTA
7566663 TTTTATTATATTTTATTGTACTAA-T
1 TTTTATTATATTTTATTGTACTAATT
7566688 TTTTATTATATTTTATTGTACTAATT
1 TTTTATTATATTTTATTGTACTAATT
7566714 TTTTATTA
1 TTTTATTA
7566722 CTTTTTGCAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.73
26 9 0.27
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.66
Consensus pattern (26 bp):
TTTTATTATATTTTATTGTACTAATT
Found at i:7566720 original size:16 final size:15
Alignment explanation
Indices: 7566673--7566716 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
7566663 TTTTATTATA
7566673 TTTTATTGTACTAAT
1 TTTTATTGTACTAAT
7566688 TTTTA-T-TA-T-A-
1 TTTTATTGTACTAAT
7566698 TTTTATTGTACTAAT
1 TTTTATTGTACTAAT
7566713 TTTT
1 TTTT
7566717 TATTACTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
10 5 0.21
11 2 0.08
12 3 0.12
13 3 0.12
14 2 0.08
15 9 0.38
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (15 bp):
TTTTATTGTACTAAT
Found at i:7568874 original size:45 final size:44
Alignment explanation
Indices: 7568795--7568915 Score: 190
Period size: 44 Copynumber: 2.8 Consensus size: 44
7568785 GATAGACTTG
* *
7568795 TTTTTATTTATTTT-GTTTTTAATGTTTTTATTTAATTATGAATT
1 TTTTTATTTATTTTATTTTTTAATGTTTTTATTTAATTATGAA-C
*
7568839 TTTTTATTTATTTTATTTTTTAATATTTTTATTTAATTATGAAC
1 TTTTTATTTATTTTATTTTTTAATGTTTTTATTTAATTATGAAC
*
7568883 TTTTTATTTATTTTATTTCTTAATGTTTTTATT
1 TTTTTATTTATTTTATTTTTTAATGTTTTTATT
7568916 ATTTAATTAT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
44 45 0.63
45 26 0.37
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (44 bp):
TTTTTATTTATTTTATTTTTTAATGTTTTTATTTAATTATGAAC
Found at i:7568890 original size:25 final size:24
Alignment explanation
Indices: 7568819--7568925 Score: 66
Period size: 24 Copynumber: 4.6 Consensus size: 24
7568809 GTTTTTAATG
7568819 TTTTTATTTAATTATGAATTTTT-
1 TTTTTATTTAATTATGAATTTTTA
* *
7568842 TTATTTATTTTATT-T---TTTAATA
1 TT-TTTATTTAATTATGAATTT-TTA
7568864 TTTTTATTTAATTATGAACTTTTTA
1 TTTTTATTTAATTATGAA-TTTTTA
* * * * *
7568889 TTTAT-TTTATTTCTTAATGTTT-
1 TTTTTATTTAATTATGAATTTTTA
*
7568911 TTATTATTTAATTAT
1 TTTTTATTTAATTAT
7568926 TTGAATTGTA
Statistics
Matches: 62, Mismatches: 13, Indels: 18
0.67 0.14 0.19
Matches are distributed among these distances:
20 3 0.05
21 11 0.18
22 6 0.10
23 14 0.23
24 19 0.31
25 6 0.10
26 3 0.05
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (24 bp):
TTTTTATTTAATTATGAATTTTTA
Found at i:7575424 original size:8 final size:9
Alignment explanation
Indices: 7575389--7575425 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
7575379 TAAATACAAA
7575389 TAAAATATT
1 TAAAATATT
*
7575398 TAAAATATA
1 TAAAATATT
7575407 TAAAA-ATT
1 TAAAATATT
7575415 TAAAAT-TT
1 TAAAATATT
7575423 TAA
1 TAA
7575426 CGGGAATTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
8 12 0.48
9 13 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
TAAAATATT
Found at i:7576204 original size:20 final size:20
Alignment explanation
Indices: 7576179--7576218 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7576169 TTTAATTGAG
7576179 ATTTGAGGAGATTGAAATGT
1 ATTTGAGGAGATTGAAATGT
7576199 ATTTGAGGAGATTGAAATGT
1 ATTTGAGGAGATTGAAATGT
7576219 TTTCCGACGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.30, T:0.35
Consensus pattern (20 bp):
ATTTGAGGAGATTGAAATGT
Found at i:7580796 original size:5 final size:5
Alignment explanation
Indices: 7580786--7580813 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7580776 TGCACTACTC
7580786 TCGGA TCGGA TCGGA TCGGA TCGGA TCG
1 TCGGA TCGGA TCGGA TCGGA TCGGA TCG
7580814 TTGGCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.39, T:0.21
Consensus pattern (5 bp):
TCGGA
Found at i:7581085 original size:73 final size:71
Alignment explanation
Indices: 7580909--7581122 Score: 281
Period size: 73 Copynumber: 3.0 Consensus size: 71
7580899 TTTGGGATGC
* *
7580909 TTTTTTCAAGGTACTTCAATTCAATGCTTTATTTACTCATGAATTTAGCAAAAAT-CTGCTTAAT
1 TTTTTTCAA-GTACTTCAATTCAATGC-TTAATTACTCATGAATTTAG-TAAAATCCTGCTTAAT
7580973 ATGGA--TT
63 ATGGATGTT
* *
7580980 TTTTTTCAAGTCACTTCAATTGAATGCTTAATTACTCATGATTTTAGTAAAATCCTGCTTAATAT
1 TTTTTTCAAGT-ACTTCAATTCAATGCTTAATTACTCATGAATTTAGTAAAATCCTGCTTAATAT
7581045 GGATGTT
65 GGATGTT
* * * *
7581052 GTTTTTTCAAGATACTTCAATTTAATGCTTAATTACTCATGAATTTAGTAAAATCCGGCATACTA
1 -TTTTTTCAAG-TACTTCAATTCAATGCTTAATTACTCATGAATTTAGTAAAATCCTGCTTAATA
7581117 TGGATG
64 TGGATG
7581123 CTTTGTAGTG
Statistics
Matches: 128, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
69 5 0.04
70 34 0.27
71 23 0.18
72 2 0.02
73 63 0.49
74 1 0.01
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.43
Consensus pattern (71 bp):
TTTTTTCAAGTACTTCAATTCAATGCTTAATTACTCATGAATTTAGTAAAATCCTGCTTAATATG
GATGTT
Found at i:7595718 original size:30 final size:31
Alignment explanation
Indices: 7595675--7595762 Score: 88
Period size: 33 Copynumber: 2.8 Consensus size: 31
7595665 ACACCAGAGT
**
7595675 TGGCTCAATTACAGGCTGTTCAGGT-ACAAC
1 TGGCTCAGCTACAGGCTGTTCAGGTAACAAC
* * *
7595705 TGGCTCAGCTACAGGTTGTTTAGATATAACAAC
1 TGGCTCAGCTACAGGCTGTTCAG--GTAACAAC
* *
7595738 CGGCTCAGCTTCAGGCTGTTCAGGT
1 TGGCTCAGCTACAGGCTGTTCAGGT
7595763 GCACGTGACT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
30 19 0.42
31 1 0.02
32 1 0.02
33 24 0.53
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.28
Consensus pattern (31 bp):
TGGCTCAGCTACAGGCTGTTCAGGTAACAAC
Found at i:7598695 original size:20 final size:20
Alignment explanation
Indices: 7598651--7598695 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7598641 AAAGACTTTG
*
7598651 TAACTAACCATTAACAACCT
1 TAACTAAACATTAACAACCT
* *
7598671 CAACTAAACATTAACAGCCT
1 TAACTAAACATTAACAACCT
7598691 TAACT
1 TAACT
7598696 GCTAACAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.24
Consensus pattern (20 bp):
TAACTAAACATTAACAACCT
Found at i:7599373 original size:24 final size:24
Alignment explanation
Indices: 7599341--7599386 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7599331 CCGCCTATGT
*
7599341 GGGTACATTTTCAAATCCACACGC
1 GGGTACATTCTCAAATCCACACGC
7599365 GGGTACATTCTCAAATCCACAC
1 GGGTACATTCTCAAATCCACAC
7599387 CCACTACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
GGGTACATTCTCAAATCCACACGC
Found at i:7599925 original size:34 final size:34
Alignment explanation
Indices: 7599877--7599944 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
7599867 GAGACAAGTT
7599877 CTTTAAACAATTAAAGAGCGATTATTCTTGTCAA
1 CTTTAAACAATTAAAGAGCGATTATTCTTGTCAA
* *
7599911 CTTTAAACATTTAAAGAGCTATTATTCTTGTCAA
1 CTTTAAACAATTAAAGAGCGATTATTCTTGTCAA
7599945 TGTGGGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (34 bp):
CTTTAAACAATTAAAGAGCGATTATTCTTGTCAA
Found at i:7601665 original size:2 final size:2
Alignment explanation
Indices: 7601658--7601689 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
7601648 TCAACAAGTC
7601658 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
7601690 TAAATTAATT
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:7602077 original size:23 final size:23
Alignment explanation
Indices: 7602040--7602094 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
7602030 TAATTATGTA
* * *
7602040 TTTGTGACACGTTTATCTCTGTCT
1 TTTGTGGCACTTTTATCTCCG-CT
7602064 TTT-TGGCACTTTTATCTCCGCT
1 TTTGTGGCACTTTTATCTCCGCT
7602086 TTTGTGGCA
1 TTTGTGGCA
7602095 TGTTTTTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.19
23 19 0.70
24 3 0.11
ACGTcount: A:0.11, C:0.22, G:0.18, T:0.49
Consensus pattern (23 bp):
TTTGTGGCACTTTTATCTCCGCT
Found at i:7605440 original size:37 final size:36
Alignment explanation
Indices: 7605381--7605500 Score: 190
Period size: 35 Copynumber: 3.3 Consensus size: 36
7605371 ATCCCATTAT
* *
7605381 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
7605417 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
7605453 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
7605488 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
7605501 TTGGTTGCAA
Statistics
Matches: 79, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
35 35 0.44
36 15 0.19
37 29 0.37
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:7605456 original size:21 final size:21
Alignment explanation
Indices: 7605432--7605492 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
7605422 TTCAAAGAAA
7605432 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
7605453 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
7605467 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
7605488 CATTT
1 CATTT
7605493 TTTCAAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:7609372 original size:10 final size:10
Alignment explanation
Indices: 7609357--7609383 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
7609347 TTTTCCTGAG
7609357 ATAGATTGAT
1 ATAGATTGAT
7609367 ATAGATTGAT
1 ATAGATTGAT
7609377 ATAGATT
1 ATAGATT
7609384 TTTCTGGTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.19, T:0.41
Consensus pattern (10 bp):
ATAGATTGAT
Found at i:7610088 original size:36 final size:37
Alignment explanation
Indices: 7610017--7610101 Score: 111
Period size: 37 Copynumber: 2.3 Consensus size: 37
7610007 ATCCCATTAT
*
7610017 CATTTTTC-AACAAACATCTACCAAAATTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAAATTTGAAAAAC
* * *
7610053 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAAATTTGAAAAAC
7610089 CATTTTTTCAAAG
1 CA-TTTTTCAAAG
7610102 TTGATTGTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
36 13 0.31
37 29 0.69
ACGTcount: A:0.44, C:0.19, G:0.05, T:0.33
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAAATTTGAAAAAC
Found at i:7613345 original size:25 final size:24
Alignment explanation
Indices: 7613282--7613367 Score: 136
Period size: 24 Copynumber: 3.5 Consensus size: 24
7613272 ATTATACAAG
*
7613282 TTCTGCACCTCAAATTCCACAATT
1 TTCTGCACCTCAAATTCCTCAATT
*
7613306 TTCTGCATCTCAAATTCCTCAATTT
1 TTCTGCACCTCAAATTCCTCAA-TT
*
7613331 TTCTGCACCTAAAATTCCTCAATT
1 TTCTGCACCTCAAATTCCTCAATT
7613355 TTCTGCACCTCAA
1 TTCTGCACCTCAA
7613368 TTTTCTGCAG
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
24 34 0.61
25 22 0.39
ACGTcount: A:0.27, C:0.31, G:0.05, T:0.37
Consensus pattern (24 bp):
TTCTGCACCTCAAATTCCTCAATT
Found at i:7613367 original size:15 final size:15
Alignment explanation
Indices: 7613347--7613376 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
7613337 ACCTAAAATT
7613347 CCTCAATTTTCTGCA
1 CCTCAATTTTCTGCA
7613362 CCTCAATTTTCTGCA
1 CCTCAATTTTCTGCA
7613377 GTCTCTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.07, T:0.40
Consensus pattern (15 bp):
CCTCAATTTTCTGCA
Found at i:7614047 original size:15 final size:15
Alignment explanation
Indices: 7614027--7614070 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 15
7614017 ATATCAATGA
7614027 TTCTGCTCATAATTT
1 TTCTGCTCATAATTT
7614042 TTCTGCTGATCATAATTT
1 TTCTGC---TCATAATTT
7614060 TTCTGCTCATA
1 TTCTGCTCATA
7614071 TTAATACTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 11 0.42
18 15 0.58
ACGTcount: A:0.20, C:0.20, G:0.09, T:0.50
Consensus pattern (15 bp):
TTCTGCTCATAATTT
Found at i:7622194 original size:45 final size:45
Alignment explanation
Indices: 7622124--7622274 Score: 230
Period size: 45 Copynumber: 3.3 Consensus size: 45
7622114 TTTATTTTCG
*
7622124 TTTTTCGAATAAATGCATGCGAACTAGATATCATGCGGTTAGGTTTA
1 TTTTTTGAAT-AA-GCATGCGAACTAGATATCATGCGGTTAGGTTTA
*
7622171 TTTTTTGAATAAGCATGCAAACTAGATATCATGCGGTTAGGTTTA
1 TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGGTTTA
* *
7622216 TTTTTTTAATAAGCATGCGAATTAGATATCATGCGGTTAGGATTTA
1 TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGG-TTTA
7622262 TTTTTGTGAATAA
1 TTTTT-TGAATAA
7622275 CAAAGCATGG
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
45 70 0.73
46 11 0.11
47 15 0.16
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (45 bp):
TTTTTTGAATAAGCATGCGAACTAGATATCATGCGGTTAGGTTTA
Found at i:7624833 original size:543 final size:543
Alignment explanation
Indices: 7623806--7624893 Score: 2032
Period size: 543 Copynumber: 2.0 Consensus size: 543
7623796 TGAGAGTGGT
*
7623806 GCCATCTCCATTAGAGTTAGCTAAGCGCAATTTTGAAGCAGAACGGAGACAATGGAGAATGACTT
1 GCCATCTCCATTAGAGTTAGCTAAGCGCAATTTCGAAGCAGAACGGAGACAATGGAGAATGACTT
* * *
7623871 TGCAGAAGTTGGAAGATGAAGTATATCAAAGGGGATTGGAGATCGACATTCAAAAGAGTAGAGCA
66 TGCAGAAGCTGGAAGATGAAGTATATCAAAAGGGATTAGAGATCGACATTCAAAAGAGTAGAGCA
7623936 GATCGAATTGAAAAAGTGGAGAAGCAACTTCGGCTAGACTTTGACGATCTTCGGTCAACTTATCA
131 GATCGAATTGAAAAAGTGGAGAAGCAACTTCGGCTAGACTTTGACGATCTTCGGTCAACTTATCA
* *
7624001 GCGGATGGTAAAAGCTTAGACATGTTCTAGCTCGAGTAAGTCATCTGTCGAATGGAGGCAAGAAA
196 GCGGATGGTAAAAGCTCAGACAGGTTCTAGCTCGAGTAAGTCATCTGTCGAATGGAGGCAAGAAA
* *
7624066 TGGCGAGCCTCAAGAGAGTAGCTGGAGAGAGTCAAGAAGAGATCAAACAAAGCAGGCACCAAGTG
261 TGGCGAGCCTCAAGAGAGTAACTGGAGAGAGTCAAGAAGAGATCAAACAAAGCAGACACCAAGTG
7624131 AAGATTTTATCGAAAGAAAATGATTCTTTAGAGCAGCGGTTACAAGAGAGTCAAGCCCTGAATGA
326 AAGATTTTATCGAAAGAAAATGATTCTTTAGAGCAGCGGTTACAAGAGAGTCAAGCCCTGAATGA
7624196 GAAGTTGAAGGGGAAGATTTCAAGTTTAGAGATCACATTACGACGATGCCAGAGCGGAGAAGGTA
391 GAAGTTGAAGGGGAAGATTTCAAGTTTAGAGATCACATTACGACGATGCCAGAGCGGAGAAGGTA
*
7624261 GCTCAAGCCGTGGGGAAGTTGAGAGTCTGAAAAAATAAGTGAGTGAACTTGAGGCCATGGTTCAA
456 GCTCAAGCCGTGGGGAAGTTGAGAGTCTGAAAAAACAAGTGAGTGAACTTGAGGCCATGGTTCAA
7624326 GATTTTCAGAGGCAAGCAAGTGA
521 GATTTTCAGAGGCAAGCAAGTGA
* *
7624349 GCCATCTCCATTAGAGTTAGCTAAGCGCGATTTCGAAGCAGAACGTAGACAATGGAGAATGACTT
1 GCCATCTCCATTAGAGTTAGCTAAGCGCAATTTCGAAGCAGAACGGAGACAATGGAGAATGACTT
*
7624414 TGCAGAAGCTGGAAGATGAAGTATATCAAAAGGGATTAGAGATCGACATTCAAAATAGTAGAGCA
66 TGCAGAAGCTGGAAGATGAAGTATATCAAAAGGGATTAGAGATCGACATTCAAAAGAGTAGAGCA
* *
7624479 GATCGAATTGAAAAAGTGGAGAAGCAACTTCGGCTAGAGTTTGATGATCTTCGGTCAACTTATCA
131 GATCGAATTGAAAAAGTGGAGAAGCAACTTCGGCTAGACTTTGACGATCTTCGGTCAACTTATCA
7624544 GCGGATGGTAAAAGCTCAGACAGGTTCTAGCTCGAGTAAGTCATCTGTCGAATGGAGGCAAGAAA
196 GCGGATGGTAAAAGCTCAGACAGGTTCTAGCTCGAGTAAGTCATCTGTCGAATGGAGGCAAGAAA
*
7624609 TGGCGAGCCTCAAGAGAGTAACTGGAGAGAGTCAAGAAGAGCTCAAACAAAGCAGACACCAAGTG
261 TGGCGAGCCTCAAGAGAGTAACTGGAGAGAGTCAAGAAGAGATCAAACAAAGCAGACACCAAGTG
7624674 AAGATTTTATCGAAAGAAAATGATTCTTTAGAGCAGCGGTTACAAGAGAGTCAAGCCCTGAATGA
326 AAGATTTTATCGAAAGAAAATGATTCTTTAGAGCAGCGGTTACAAGAGAGTCAAGCCCTGAATGA
*
7624739 GAAGTTGAAGGGGAAGATTTCAAGTTTAGAGATCACATTACGACGATGCGAGAGCGGAGAAGGTA
391 GAAGTTGAAGGGGAAGATTTCAAGTTTAGAGATCACATTACGACGATGCCAGAGCGGAGAAGGTA
7624804 GCTCAAGCCGTGGGGAAGTTGAGAGTCTGAAAAAACAAGTGAGTGAACTTGAGGCCATGGTTCAA
456 GCTCAAGCCGTGGGGAAGTTGAGAGTCTGAAAAAACAAGTGAGTGAACTTGAGGCCATGGTTCAA
7624869 GATTTTCAGAGGCAAGCAAGTGA
521 GATTTTCAGAGGCAAGCAAGTGA
7624892 GC
1 GC
7624894 TATCGATAGT
Statistics
Matches: 529, Mismatches: 16, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
543 529 1.00
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (543 bp):
GCCATCTCCATTAGAGTTAGCTAAGCGCAATTTCGAAGCAGAACGGAGACAATGGAGAATGACTT
TGCAGAAGCTGGAAGATGAAGTATATCAAAAGGGATTAGAGATCGACATTCAAAAGAGTAGAGCA
GATCGAATTGAAAAAGTGGAGAAGCAACTTCGGCTAGACTTTGACGATCTTCGGTCAACTTATCA
GCGGATGGTAAAAGCTCAGACAGGTTCTAGCTCGAGTAAGTCATCTGTCGAATGGAGGCAAGAAA
TGGCGAGCCTCAAGAGAGTAACTGGAGAGAGTCAAGAAGAGATCAAACAAAGCAGACACCAAGTG
AAGATTTTATCGAAAGAAAATGATTCTTTAGAGCAGCGGTTACAAGAGAGTCAAGCCCTGAATGA
GAAGTTGAAGGGGAAGATTTCAAGTTTAGAGATCACATTACGACGATGCCAGAGCGGAGAAGGTA
GCTCAAGCCGTGGGGAAGTTGAGAGTCTGAAAAAACAAGTGAGTGAACTTGAGGCCATGGTTCAA
GATTTTCAGAGGCAAGCAAGTGA
Found at i:7632495 original size:14 final size:14
Alignment explanation
Indices: 7632456--7632636 Score: 137
Period size: 14 Copynumber: 12.9 Consensus size: 14
7632446 CACCTGAAAA
7632456 AAAAAAGAGAAAA-G
1 AAAAAAGA-AAAATG
*
7632470 AAGAAAGCAAAAAT-
1 AAAAAAG-AAAAATG
7632484 AAATAAAGAAAAAT-
1 AAA-AAAGAAAAATG
*
7632498 AAAGAAA-ATAAAATAA
1 AAA-AAAGA-AAAAT-G
7632514 AAAAAATGAAAAATG
1 AAAAAA-GAAAAATG
*
7632529 -AAAATG-AAAATG
1 AAAAAAGAAAAATG
*
7632541 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
*
7632555 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
*
7632569 AAAAATGAAAAATG
1 AAAAAAGAAAAATG
7632583 AAAAAAGAAAAA-G
1 AAAAAAGAAAAATG
*
7632596 AAAAAATAGCAAAATG
1 -AAAAA-AGAAAAATG
*
7632612 AAAAGAA-AAAAAAG
1 AAAA-AAGAAAAATG
7632626 -AAAAAGAAAAA
1 AAAAAAGAAAAA
7632637 ATGGGAAAAT
Statistics
Matches: 143, Mismatches: 9, Indels: 31
0.78 0.05 0.17
Matches are distributed among these distances:
12 8 0.06
13 17 0.12
14 88 0.62
15 19 0.13
16 10 0.07
17 1 0.01
ACGTcount: A:0.76, C:0.01, G:0.13, T:0.09
Consensus pattern (14 bp):
AAAAAAGAAAAATG
Found at i:7632525 original size:7 final size:7
Alignment explanation
Indices: 7632515--7632636 Score: 146
Period size: 7 Copynumber: 17.7 Consensus size: 7
7632505 ATAAAATAAA
7632515 AAAAATG
1 AAAAATG
7632522 AAAAATG
1 AAAAATG
7632529 -AAAATG
1 AAAAATG
7632535 -AAAATG
1 AAAAATG
7632541 AAAAATG
1 AAAAATG
7632548 AAAAATG
1 AAAAATG
7632555 AAAAATG
1 AAAAATG
7632562 AAAAATG
1 AAAAATG
7632569 AAAAATG
1 AAAAATG
7632576 AAAAATG
1 AAAAATG
*
7632583 AAAAAAG
1 AAAAATG
7632590 AAAAA-G
1 AAAAATG
7632596 AAAAAATAG
1 -AAAAAT-G
*
7632605 CAAAATG
1 AAAAATG
*
7632612 AAAAGA-A
1 AAAA-ATG
*
7632619 AAAAAAG
1 AAAAATG
7632626 AAAAA-G
1 AAAAATG
7632632 AAAAA
1 AAAAA
7632637 ATGGGAAAAT
Statistics
Matches: 104, Mismatches: 5, Indels: 13
0.85 0.04 0.11
Matches are distributed among these distances:
6 20 0.19
7 77 0.74
8 6 0.06
9 1 0.01
ACGTcount: A:0.75, C:0.01, G:0.14, T:0.10
Consensus pattern (7 bp):
AAAAATG
Found at i:7632526 original size:21 final size:21
Alignment explanation
Indices: 7632465--7632637 Score: 117
Period size: 21 Copynumber: 8.1 Consensus size: 21
7632455 AAAAAAAGAG
7632465 AAAAGAAGAAA-GCAAAAATAAA
1 AAAAGAA-AAATG-AAAAATAAA
* *
7632487 TAAAGAAAAATAAAGAAAATAAA
1 AAAAGAAAAAT-GA-AAAATAAA
*
7632510 ATAAA-AAAAATGAAAAAT-GA
1 A-AAAGAAAAATGAAAAATAAA
* *
7632530 AAATG-AAAATGAAAAATGAA
1 AAAAGAAAAATGAAAAATAAA
* *
7632550 AAATGAAAAATGAAAAATGAA
1 AAAAGAAAAATGAAAAATAAA
* *
7632571 AAATGAAAAATGAAAAA-AGA
1 AAAAGAAAAATGAAAAATAAA
*
7632591 AAAAGAAAAAATAGCAAAATGAAA
1 AAAAG-AAAAAT-GAAAAAT-AAA
*
7632615 AGAAA-AAAAA-GAAAAAGAAA
1 A-AAAGAAAAATGAAAAATAAA
7632635 AAA
1 AAA
7632638 TGGGAAAATG
Statistics
Matches: 125, Mismatches: 14, Indels: 27
0.75 0.08 0.16
Matches are distributed among these distances:
19 16 0.13
20 17 0.14
21 51 0.41
22 13 0.10
23 19 0.15
24 6 0.05
25 3 0.02
ACGTcount: A:0.76, C:0.01, G:0.13, T:0.10
Consensus pattern (21 bp):
AAAAGAAAAATGAAAAATAAA
Found at i:7632637 original size:7 final size:7
Alignment explanation
Indices: 7632452--7632637 Score: 100
Period size: 7 Copynumber: 26.6 Consensus size: 7
7632442 ATTTCACCTG
7632452 AAAA-AA
1 AAAAGAA
*
7632458 AAAAGAG
1 AAAAGAA
7632465 AAAAGAA
1 AAAAGAA
* *
7632472 GAAAGCA
1 AAAAGAA
*
7632479 AAAATAA
1 AAAAGAA
7632486 ATAAAGAA
1 A-AAAGAA
7632494 AAATA-AA
1 AAA-AGAA
*
7632501 GAAAATAA
1 -AAAAGAA
7632509 AATAA-AA
1 AA-AAGAA
7632516 AAAATGAA
1 AAAA-GAA
*
7632524 AAATG-A
1 AAAAGAA
*
7632530 AAATG-A
1 AAAAGAA
*
7632536 AAATGAA
1 AAAAGAA
*
7632543 AAATGAA
1 AAAAGAA
*
7632550 AAATGAA
1 AAAAGAA
*
7632557 AAATGAA
1 AAAAGAA
*
7632564 AAATGAA
1 AAAAGAA
*
7632571 AAATGAA
1 AAAAGAA
*
7632578 AAATGAA
1 AAAAGAA
7632585 AAAAG-A
1 AAAAGAA
7632591 AAAAGAAA
1 AAAAG-AA
*
7632599 AAATAGCA
1 AAA-AGAA
*
7632607 AAATGAA
1 AAAAGAA
7632614 AAGAA-AA
1 AA-AAGAA
7632621 AAAAG-A
1 AAAAGAA
7632627 AAAAGAA
1 AAAAGAA
7632634 AAAA
1 AAAA
7632638 TGGGAAAATG
Statistics
Matches: 151, Mismatches: 14, Indels: 29
0.78 0.07 0.15
Matches are distributed among these distances:
6 32 0.21
7 89 0.59
8 28 0.19
9 2 0.01
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (7 bp):
AAAAGAA
Found at i:7632645 original size:21 final size:21
Alignment explanation
Indices: 7632500--7632677 Score: 84
Period size: 21 Copynumber: 8.8 Consensus size: 21
7632490 AGAAAAATAA
* *
7632500 AGAAAATAAAATAAAAAAAATG
1 AGAAAAGAAAA-AGAAAAAATG
*
7632522 A-AAAATGAAAATG--AAAATG
1 AGAAAA-GAAAAAGAAAAAATG
7632541 A-AAAATGAAAAATG-AAAAATG
1 AGAAAA-GAAAAA-GAAAAAATG
7632562 A-AAAATGAAAAATG-AAAAATG
1 AGAAAA-GAAAAA-GAAAAAATG
*
7632583 AAAAAAGAAAAAGAAAAAAT-
1 AGAAAAGAAAAAGAAAAAATG
7632603 AGCAAAATG-AAAAG---AAA--
1 AG-AAAA-GAAAAAGAAAAAATG
7632620 A-AAAAGAAAAAGAAAAAATG
1 AGAAAAGAAAAAGAAAAAATG
* * *
7632640 GGAAAATGGAATA-AAAAAATG
1 AGAAAA-GAAAAAGAAAAAATG
7632661 AG-AAAGAAAAACGAAAA
1 AGAAAAGAAAAA-GAAAA
7632678 GAAAAAATGA
Statistics
Matches: 128, Mismatches: 11, Indels: 35
0.74 0.06 0.20
Matches are distributed among these distances:
14 1 0.01
15 9 0.07
17 1 0.01
18 6 0.05
19 21 0.16
20 6 0.05
21 70 0.55
22 14 0.11
ACGTcount: A:0.74, C:0.01, G:0.15, T:0.10
Consensus pattern (21 bp):
AGAAAAGAAAAAGAAAAAATG
Found at i:7634048 original size:37 final size:36
Alignment explanation
Indices: 7633982--7634053 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
7633972 AAACATGTCA
*
7633982 ATCTTAAGCCTTCACGGAAGAGTAATGAAGCAAACC
1 ATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAACC
* *
7634018 ATCTGTAAGCCTTCACGAAAGATTAGTGAAGCAAAC
1 ATCT-TAAGCCTTCACGAAAGAGTAATGAAGCAAAC
7634054 TCATTTTATG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.39, C:0.21, G:0.19, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACGAAAGAGTAATGAAGCAAACC
Found at i:7634348 original size:111 final size:108
Alignment explanation
Indices: 7634071--7634397 Score: 361
Period size: 111 Copynumber: 3.0 Consensus size: 108
7634061 ATGAAGATCG
* *
7634071 AGTCATATACTCTCTGAAGGAATAGGGAGTGGACACATTTTATGAAGA---TCGAGTCCTATACT
1 AGTCATATACTCTCTGAAGGAATAGGGAG-CGACACATTTTATGAAGATTTTCGAGTCTTATACT
* *
7634133 CTCTGAAGGAATAGGGAGCGGACACGTTTGTTAAAGATTG----
65 CTCTGAAGGAATAGGGAGCGGACACGTTTTTTGAAGATTGTTCA
*
7634173 AGTCATATACTCTCTGAAGGAATAGGGAGCGA-ACCTGTTTATTGAAGATTTTCCGAGT-TCTAT
1 AGTCATATACTCTCTGAAGGAATAGGGAGCGACACAT-TTTA-TGAAGATTTT-CGAGTCT-TAT
* *
7634236 ACTCTCTGAAGGAATAGAGAGCGGACCCGTTTTATTGAAGATTGTTCA
62 ACTCTCTGAAGGAATAGGGAGCGGACACGTTTT-TTGAAGATTGTTCA
* * *
7634284 AGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTTTATGAAGATTGTTCGAGTCTTATAC
1 AGTCATATACTCTCTGAAGGAATAGGGAGC-GACACATTTTATGAAGATT-TTCGAGTCTTATAC
* ** *
7634349 T-TCCTGAAGGAATAGGGAGCAGG-CTCGTCATTTGAAGATTTTTCA
64 TCT-CTGAAGGAATAGGGAGC-GGACACGTTTTTTGAAGATTGTTCA
7634394 AGTC
1 AGTC
7634398 TACTTTATCA
Statistics
Matches: 191, Mismatches: 16, Indels: 28
0.81 0.07 0.12
Matches are distributed among these distances:
100 3 0.02
101 6 0.03
102 35 0.18
105 1 0.01
106 38 0.20
107 9 0.05
110 18 0.09
111 67 0.35
112 11 0.06
113 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (108 bp):
AGTCATATACTCTCTGAAGGAATAGGGAGCGACACATTTTATGAAGATTTTCGAGTCTTATACTC
TCTGAAGGAATAGGGAGCGGACACGTTTTTTGAAGATTGTTCA
Found at i:7634370 original size:55 final size:54
Alignment explanation
Indices: 7634055--7634368 Score: 323
Period size: 51 Copynumber: 5.9 Consensus size: 54
7634045 GAAGCAAACT
* *
7634055 CATTTTATGAAGA---TCGAGTCATATACTCTCTGAAGGAATAGGGAGTGGACA
1 CATTTTATGAAGATTTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
*
7634106 CATTTTATGAAGA---TCGAGTCCTATACTCTCTGAAGGAATAGGGAGCGGACA
1 CATTTTATGAAGATTTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
7634157 CGTTTGT-TAAAGA--TT-GAGTCATATACTCTCTGAAGGAATAGGGAGC-GA-A
1 CATTT-TATGAAGATTTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
* * *
7634206 CCTGTTTATTGAAGATTTTCCGAGT-TCTATACTCTCTGAAGGAATAGAGAGCGGACC
1 CAT-TTTA-TGAAGATTTT-CGAGTCT-TATACTCTCTGAAGGAATAGGGAGCGGACA
* * * * *
7634263 CGTTTTATTGAAGATTGTTCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACA
1 CATTTTA-TGAAGATT-TTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
7634319 CATTTTATGAAGATTGTTCGAGTCTTATACT-TCCTGAAGGAATAGGGAGC
1 CATTTTATGAAGATT-TTCGAGTCTTATACTCT-CTGAAGGAATAGGGAGC
7634369 AGGCTCGTCA
Statistics
Matches: 229, Mismatches: 19, Indels: 26
0.84 0.07 0.09
Matches are distributed among these distances:
49 4 0.02
50 4 0.02
51 93 0.41
52 2 0.01
53 2 0.01
54 1 0.00
55 66 0.29
56 52 0.23
57 5 0.02
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (54 bp):
CATTTTATGAAGATTTTCGAGTCTTATACTCTCTGAAGGAATAGGGAGCGGACA
Found at i:7634385 original size:55 final size:55
Alignment explanation
Indices: 7634119--7634398 Score: 224
Period size: 55 Copynumber: 5.1 Consensus size: 55
7634109 TTTATGAAGA
* * * * *
7634119 TCGAGTCCTATACTCTCTGAAGGAATAGGGAGC-GGACACGTTTGTTAAAGA---T
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGG-CTCGTTTATTGAAGATTGT
* * **
7634171 T-GAGTCATATACTCTCTGAAGGAATAGGGAGCGAACCT-GTTTATTGAAGATT-T
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGC-AGGCTCGTTTATTGAAGATTGT
*
7634224 TCCGAGT-TCTATACTCTCTGAAGGAATAGAGAGC-GGACCCGTTTTATTGAAGATTGT
1 T-CGAGTCT-TATACTCTCTGAAGGAATAGAGAGCAGG-CTCG-TTTATTGAAGATTGT
* * * * *
7634281 TCAAGTCTTATACTCTCTGAATGAATAGAGAGCAGACACATTT-TATGAAGATTGT
1 TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGGCTCGTTTAT-TGAAGATTGT
* * *
7634336 TCGAGTCTTATACT-TCCTGAAGGAATAGGGAGCAGGCTCG-TCATTTGAAGATTTT
1 TCGAGTCTTATACTCT-CTGAAGGAATAGAGAGCAGGCTCGTTTA-TTGAAGATTGT
*
7634391 TCAAGTCT
1 TCGAGTCT
7634399 ACTTTATCAC
Statistics
Matches: 186, Mismatches: 25, Indels: 31
0.77 0.10 0.13
Matches are distributed among these distances:
51 40 0.22
52 2 0.01
53 2 0.01
54 4 0.02
55 90 0.48
56 44 0.24
57 4 0.02
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (55 bp):
TCGAGTCTTATACTCTCTGAAGGAATAGAGAGCAGGCTCGTTTATTGAAGATTGT
Found at i:7642922 original size:17 final size:16
Alignment explanation
Indices: 7642896--7642927 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7642886 TCTCTAAATA
7642896 ATTTTAATATAATTTT
1 ATTTTAATATAATTTT
7642912 ATTTCTAATATAATTT
1 ATTT-TAATATAATTT
7642928 ATATATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTAATATAATTTT
Found at i:7643655 original size:236 final size:233
Alignment explanation
Indices: 7643244--7643703 Score: 629
Period size: 236 Copynumber: 2.0 Consensus size: 233
7643234 TGATTCGTGG
* * *
7643244 GAAAACATATAATTAATATATTAAAAATAATTAAATTAATCATCCAATCTCTATTTTAATAAACA
1 GAAAACATATAATTAAAATATTAAAAATAATTAAATTAATCATCCAATCTATATTTGAATAAACA
* * * **
7643309 TTCGGATTATAGGGTTAAATTTATAGAATATTTTATTAAAATAGTGACTAAATTGATAAAATGTG
66 TTCGGATTATAGGGTTAAATTTATAGAATAGTCTATTAAAACAGTGACTAAATTGATAAAATGCA
***
7643374 TAAATATTAAGGAACAAATCTATAATTATGCCAATTTTATTAACTGTCACGTCATTTCCTCCGTT
131 TAAATATTAAGGAACAAATCTATAATTATGCCAATTTTATTAACTGTCACGTCACCACCTCCGTT
**
7643439 AAAAACTAATTGTCACTGGCTTGATTGAATCGCCACCT
196 AAAAACTAACGGTCACTGGCTTGATTGAATCGCCACCT
* * *
7643477 GAAAACATCTAATTAAAATATTAAAATTAATTAAATTAATCCTCCAATC-ATATATTGACACGTG
1 GAAAACATATAATTAAAATATTAAAAATAATTAAATTAATCATCCAATCTATAT-TTGA-A--T-
* * *
7643541 ACACATTTGGATTGA-AGGGTTAAATTTATAGAAT-GTCTATTAAAACAGTGACTAAATTGATAG
61 AAACATTCGGATT-ATAGGGTTAAATTTATAGAATAGTCTATTAAAACAGTGACTAAATTGATAA
* *
7643604 AATGCATAAATATTAAGGACCAAATCTATAATTATGCCAATTTTCTTAACTGTCACGTCACCACC
125 AATGCATAAATATTAAGGAACAAATCTATAATTATGCCAATTTTATTAACTGTCACGTCACCACC
* * *
7643669 TCTGTTAAAAATTAACGGTCAGTGGCTTGATTGAA
190 TCCGTTAAAAACTAACGGTCACTGGCTTGATTGAA
7643704 GCATTTAAAT
Statistics
Matches: 197, Mismatches: 24, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
232 3 0.02
233 48 0.24
234 1 0.01
236 114 0.58
237 30 0.15
238 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.35
Consensus pattern (233 bp):
GAAAACATATAATTAAAATATTAAAAATAATTAAATTAATCATCCAATCTATATTTGAATAAACA
TTCGGATTATAGGGTTAAATTTATAGAATAGTCTATTAAAACAGTGACTAAATTGATAAAATGCA
TAAATATTAAGGAACAAATCTATAATTATGCCAATTTTATTAACTGTCACGTCACCACCTCCGTT
AAAAACTAACGGTCACTGGCTTGATTGAATCGCCACCT
Found at i:7647234 original size:2 final size:2
Alignment explanation
Indices: 7647227--7647312 Score: 172
Period size: 2 Copynumber: 43.0 Consensus size: 2
7647217 GAAGATACCT
7647227 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7647269 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7647311 TA
1 TA
7647313 ATTATTATGT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 84 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7647815 original size:26 final size:26
Alignment explanation
Indices: 7647786--7647847 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
7647776 CATAAAATAT
7647786 ATATTTTAAATGAAAATAAAAATAAA
1 ATATTTTAAATGAAAATAAAAATAAA
* * * * *
7647812 ATATTTCAAGTTAAATTAATAATAAA
1 ATATTTTAAATGAAAATAAAAATAAA
7647838 ATATATTTAA
1 ATAT-TTTAA
7647848 TAAGTTAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (26 bp):
ATATTTTAAATGAAAATAAAAATAAA
Found at i:7647863 original size:25 final size:25
Alignment explanation
Indices: 7647800--7647893 Score: 77
Period size: 25 Copynumber: 3.6 Consensus size: 25
7647790 TTTAAATGAA
* *
7647800 AATAAAAATAAAATATTTCAAGTTAAATT
1 AATAAAAA-AATATATTT-AA--TAAGTT
*
7647829 AATAATAAAATATATTTAATAAGTT
1 AATAAAAAAATATATTTAATAAGTT
*
7647854 AATAAAAAAAT-TATTT-TTAAGTT
1 AATAAAAAAATATATTTAATAAGTT
7647877 AATATATAAAAA-ATATT
1 AATA-A-AAAAATATATT
7647894 CTGAATTTAA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
23 10 0.18
24 6 0.11
25 24 0.42
27 2 0.04
28 8 0.14
29 7 0.12
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (25 bp):
AATAAAAAAATATATTTAATAAGTT
Found at i:7647874 original size:23 final size:25
Alignment explanation
Indices: 7647822--7647893 Score: 78
Period size: 25 Copynumber: 2.9 Consensus size: 25
7647812 ATATTTCAAG
* *
7647822 TTAAATTAATAATAAAATATATTTA
1 TTAAGTTAATAAAAAAATATATTTA
*
7647847 ATAAGTTAATAAAAAAAT-TATTT-
1 TTAAGTTAATAAAAAAATATATTTA
7647870 TTAAGTTAATATATAAAAA-ATATT
1 TTAAGTTAATA-A-AAAAATATATT
7647894 CTGAATTTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 10 0.25
24 6 0.15
25 24 0.60
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (25 bp):
TTAAGTTAATAAAAAAATATATTTA
Found at i:7647887 original size:26 final size:27
Alignment explanation
Indices: 7647822--7647890 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 27
7647812 ATATTTCAAG
* *
7647822 TTAAATTAATA-ATAAAATA-TATTTA
1 TTAAGTTAATATATAAAAAATTATTTA
*
7647847 ATAAGTT-A-ATA-AAAAAATTATTT-
1 TTAAGTTAATATATAAAAAATTATTTA
7647870 TTAAGTTAATATATAAAAAAT
1 TTAAGTTAATATATAAAAAAT
7647891 ATTCTGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
23 12 0.34
24 8 0.23
25 8 0.23
26 7 0.20
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (27 bp):
TTAAGTTAATATATAAAAAATTATTTA
Found at i:7654123 original size:31 final size:31
Alignment explanation
Indices: 7654088--7654160 Score: 128
Period size: 31 Copynumber: 2.4 Consensus size: 31
7654078 AAAAATATAT
7654088 GATATGATCACTTTCATTTTTATTTAATTAA
1 GATATGATCACTTTCATTTTTATTTAATTAA
*
7654119 GATATGATTACTTTCATTTTTATTTAATTAA
1 GATATGATCACTTTCATTTTTATTTAATTAA
*
7654150 GATGTGATCAC
1 GATATGATCAC
7654161 CCCGAGTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.32, C:0.10, G:0.10, T:0.49
Consensus pattern (31 bp):
GATATGATCACTTTCATTTTTATTTAATTAA
Found at i:7658040 original size:22 final size:21
Alignment explanation
Indices: 7658003--7658058 Score: 60
Period size: 22 Copynumber: 2.7 Consensus size: 21
7657993 ATTCAACAGA
* * * *
7658003 AATATTTTAATTATATTATTT
1 AATATTTAAATAATATTAATC
7658024 AATTATTTAAATAATATTAATC
1 AA-TATTTAAATAATATTAATC
7658046 AA-ATTTAAATAAT
1 AATATTTAAATAAT
7658059 TAATGTTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 11 0.37
21 2 0.07
22 17 0.57
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (21 bp):
AATATTTAAATAATATTAATC
Found at i:7665905 original size:70 final size:70
Alignment explanation
Indices: 7665817--7665947 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 70
7665807 TTAAAAATAT
* * *
7665817 ATATATTATATAGCTTTGAAAATGATTTTTGAAAATATATATATAT-ATATA-ATATAGTTTTTT
1 ATATATAATATAGCTTTGAAAA-CA-TTTTGAAAATATATATATATAATATATATATAATTTTTT
7665880 TGCTAAA
64 TGCTAAA
* *
7665887 ATATATAATATAGTTTTGAAAACATTTTGAATATATATATATATAATATATATATAATTTT
1 ATATATAATATAGCTTTGAAAACATTTTGAAAATATATATATATAATATATATATAATTTT
7665948 GAAAACATTT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
68 19 0.35
69 6 0.11
70 29 0.54
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (70 bp):
ATATATAATATAGCTTTGAAAACATTTTGAAAATATATATATATAATATATATATAATTTTTTTG
CTAAA
Found at i:7665948 original size:44 final size:47
Alignment explanation
Indices: 7665886--7665976 Score: 143
Period size: 45 Copynumber: 2.0 Consensus size: 47
7665876 TTTTTGCTAA
* *
7665886 AATATATAATATAGTTTTGAAAACA-TTTTGAATATATATA-TATAT
1 AATATATAATATAATTTTGAAAACATTTTTGAAAATATATATTATAT
7665931 AATATAT-ATATAATTTTGAAAACATTTTTGAAAATATATATTATAT
1 AATATATAATATAATTTTGAAAACATTTTTGAAAATATATATTATAT
7665977 GATTTTCAAA
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
44 16 0.38
45 21 0.50
46 5 0.12
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.45
Consensus pattern (47 bp):
AATATATAATATAATTTTGAAAACATTTTTGAAAATATATATTATAT
Found at i:7665982 original size:35 final size:34
Alignment explanation
Indices: 7665931--7666167 Score: 227
Period size: 33 Copynumber: 6.8 Consensus size: 34
7665921 ATATATATAT
7665931 AATATATA-TATA-ATTTTGAAAACATTTTTGAA
1 AATATATATTATATATTTTGAAAACATTTTTGAA
*
7665963 AATATATATTATATGATTTTCAAAACA-TTTTG-A
1 AATATATATTATAT-ATTTTGAAAACATTTTTGAA
*
7665996 AATATATATTATATTGTTTTGAAAACA-TTTTGAAAAA
1 AATATATATTATA-TATTTTGAAAACATTTTTG---AA
*
7666033 ATATATATATTATATAGTTTTGAAAATGATTTTTGAAA
1 A-ATATATATTATATA-TTTTGAAAA-CATTTTTG-AA
*
7666071 AATATATATAATATATAATTTT-AAAATATTTTTGAA
1 AATATATAT--TATAT-ATTTTGAAAACATTTTTGAA
* *
7666107 AATATATATTATATAGTTTTGGAAATATTTTTGAA
1 AATATATATTATATA-TTTTGAAAACATTTTTGAA
* *
7666142 AATATATTATTAT-TATTATAAAAACA
1 AATATA-TATTATATATTTTGAAAACA
7666168 AAATACACAA
Statistics
Matches: 176, Mismatches: 11, Indels: 34
0.80 0.05 0.15
Matches are distributed among these distances:
32 8 0.05
33 34 0.19
34 22 0.12
35 32 0.18
36 17 0.10
37 18 0.10
38 29 0.16
39 10 0.06
40 6 0.03
ACGTcount: A:0.46, C:0.02, G:0.07, T:0.46
Consensus pattern (34 bp):
AATATATATTATATATTTTGAAAACATTTTTGAA
Found at i:7666015 original size:112 final size:113
Alignment explanation
Indices: 7665694--7666162 Score: 380
Period size: 112 Copynumber: 4.2 Consensus size: 113
7665684 TTTATTATAT
* *
7665694 ATATATATATATATAATATAGTATAACTTTTGCAAAT-ATTTTTGAAAAATATA-ATATATA-AT
1 ATATATATATATAT-AT-TA-TATAA-TTTTGAAAATCATTTTTGAAAAATATATATATATATAA
* * * *
7665756 TTTTAGAAA-ATGGTTTTTGAAAACATATAATATACT-GTTTT-AAAATCGGTCTT--A
62 TTTTA-AAACA---TTTTTGAAAATATATATTATA-TAGTTTTGAAAA-C-ATTTTGAA
** *
7665810 A-A-A-ATATATATATTATATAGCTTTGAAAATGATTTTTGAAAATATATATATATATATAA---
1 ATATATATATATATATTATATAATTTTGAAAATCATTTTTGAAAA-ATATATATATATATAATTT
* ***
7665869 TATAGTTTTTTTGCTAAAATATATA--ATATAGTTTTGAAAACATTTTGAA
65 TAAAACATTTTTG--AAAATATATATTATATAGTTTTGAAAACATTTTGAA
*
7665918 TATATATATATATAATATATATATAATTTTGAAAA-CATTTTTG-AAAATATATAT-TATATGAT
1 -ATATATATATAT-ATAT-TATATAATTTTGAAAATCATTTTTGAAAAATATATATATATATAAT
*
7665980 TTTCAAAACA-TTTTG-AAATATATATTATATTGTTTTGAAAACATTTTGAA
63 TTT-AAAACATTTTTGAAAATATATATTATATAGTTTTGAAAACATTTTGAA
* *
7666030 A-A-A-ATATATATATTATATAGTTTTGAAAATGATTTTTGAAAAATATATATAATATATAATTT
1 ATATATATATATATATTATATAATTTTGAAAATCATTTTTGAAAAATATATAT-ATATATAATTT
* * *
7666092 TAAAATATTTTTGAAAATATATATTATATAGTTTTGGAAATATTTTTGAA
65 TAAAACATTTTTGAAAATATATATTATATAGTTTTGAAAACA-TTTTGAA
7666142 A-ATATAT-TAT-TATTATTATAA
1 ATATATATATATATATTA-TATAA
7666163 AAACAAAATA
Statistics
Matches: 293, Mismatches: 27, Indels: 69
0.75 0.07 0.18
Matches are distributed among these distances:
106 19 0.06
107 26 0.09
108 22 0.08
109 25 0.09
110 49 0.17
111 42 0.14
112 55 0.19
113 34 0.12
114 19 0.06
115 1 0.00
116 1 0.00
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.45
Consensus pattern (113 bp):
ATATATATATATATATTATATAATTTTGAAAATCATTTTTGAAAAATATATATATATATAATTTT
AAAACATTTTTGAAAATATATATTATATAGTTTTGAAAACATTTTGAA
Found at i:7667043 original size:13 final size:12
Alignment explanation
Indices: 7667026--7667079 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
7667016 TTTCCTTTGA
7667026 TTTTTTAATATAT
1 TTTTTTAATAT-T
*
7667039 ATTTTTAA-A-T
1 TTTTTTAATATT
7667049 TTTTTTAATATT
1 TTTTTTAATATT
*
7667061 TTTTTTAATAAT
1 TTTTTTAATATT
7667073 TTTTTTA
1 TTTTTTA
7667080 TCTTATTTCA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
10 8 0.22
11 1 0.03
12 20 0.56
13 7 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTAATATT
Found at i:7667052 original size:23 final size:24
Alignment explanation
Indices: 7667026--7667087 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
7667016 TTTCCTTTGA
7667026 TTTTTTAATATATATTTTT-A-AAT
1 TTTTTTAATAT-TATTTTTAATAAT
*
7667049 TTTTTTAATATTTTTTTTAATAAT
1 TTTTTTAATATTATTTTTAATAAT
*
7667073 TTTTTT-ATCTTATTT
1 TTTTTTAATATTATTT
7667088 CATTTTTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.18
23 19 0.56
24 9 0.26
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (24 bp):
TTTTTTAATATTATTTTTAATAAT
Found at i:7667174 original size:10 final size:10
Alignment explanation
Indices: 7667131--7667183 Score: 74
Period size: 10 Copynumber: 5.4 Consensus size: 10
7667121 TTTTTATGTT
7667131 TTTTCTTTAA
1 TTTTCTTTAA
7667141 -TTTCTTTAA
1 TTTTCTTTAA
*
7667150 TATTT-TTTGA
1 T-TTTCTTTAA
7667160 TTTTCTTTAA
1 TTTTCTTTAA
7667170 TTTTCTTTAA
1 TTTTCTTTAA
7667180 TTTT
1 TTTT
7667184 ATTTTTTCCT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
9 12 0.32
10 23 0.61
11 3 0.08
ACGTcount: A:0.19, C:0.08, G:0.02, T:0.72
Consensus pattern (10 bp):
TTTTCTTTAA
Found at i:7667226 original size:30 final size:29
Alignment explanation
Indices: 7667123--7667250 Score: 113
Period size: 30 Copynumber: 4.4 Consensus size: 29
7667113 CTCTCTTATT
* *
7667123 TTTATGTTTTTT-CTTTAATTTCTTTAATA
1 TTTAT-TTTTTTCCTTTGATTTATTTAATA
* *
7667152 TTT-TTTGATTTT-CTTTAATTTTCTTTAAT-
1 TTTATTT--TTTTCCTTTGA-TTTATTTAATA
* *
7667181 TTTA-TTTTTTCCTTTGATTTATTTATTT
1 TTTATTTTTTTCCTTTGATTTATTTAATA
*
7667209 TTTATGTTTTTTTCTTTGATTTATTTAATA
1 TTTAT-TTTTTTCCTTTGATTTATTTAATA
7667239 TTTATTTTTTTC
1 TTTATTTTTTTC
7667251 TAACATATTT
Statistics
Matches: 84, Mismatches: 7, Indels: 16
0.79 0.07 0.15
Matches are distributed among these distances:
27 14 0.17
28 10 0.12
29 24 0.29
30 36 0.43
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.73
Consensus pattern (29 bp):
TTTATTTTTTTCCTTTGATTTATTTAATA
Found at i:7676138 original size:16 final size:15
Alignment explanation
Indices: 7676111--7676145 Score: 61
Period size: 16 Copynumber: 2.3 Consensus size: 15
7676101 CGATTTATTA
7676111 TATTTTTATTATTTT
1 TATTTTTATTATTTT
7676126 TATTTTATATTATTTT
1 TATTTT-TATTATTTT
7676142 TATT
1 TATT
7676146 CATAATCCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTTTTATTATTTT
Found at i:7676585 original size:21 final size:22
Alignment explanation
Indices: 7676561--7676616 Score: 69
Period size: 21 Copynumber: 2.5 Consensus size: 22
7676551 TAATTTTATA
7676561 TATATTAACTTGAAATAT-TTT
1 TATATTAACTTGAAATATATTT
* *
7676582 TATATCAACTATTAAATATATTT
1 TATATTAACT-TGAAATATATTT
7676605 TATTATTAACTT
1 TA-TATTAACTT
7676617 AATTAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 9 0.31
22 7 0.24
23 6 0.21
24 7 0.24
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (22 bp):
TATATTAACTTGAAATATATTT
Found at i:7676602 original size:24 final size:27
Alignment explanation
Indices: 7676573--7676631 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 27
7676563 TATTAACTTG
7676573 AAATATTTTTA-TATCAAC-T-ATTAA
1 AAATATTTTTATTATCAACTTAATTAA
* *
7676597 ATATA-TTTTATTATTAACTTAATTAA
1 AAATATTTTTATTATCAACTTAATTAA
7676623 AAATATTTT
1 AAATATTTT
7676632 ATTTTCATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 1 0.04
26 9 0.32
27 3 0.11
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (27 bp):
AAATATTTTTATTATCAACTTAATTAA
Found at i:7676618 original size:22 final size:20
Alignment explanation
Indices: 7676561--7676618 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 20
7676551 TAATTTTATA
7676561 TATATTAACTTGAAATATTTT
1 TATATTAACTT-AAATATTTT
*
7676582 TATATCAACTATTAAATATATTT
1 TATATTAAC--TTAAATAT-TTT
7676605 TATTATTAACTTAA
1 TA-TATTAACTTAA
7676619 TTAAAAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 8 0.26
22 10 0.32
23 7 0.23
24 6 0.19
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (20 bp):
TATATTAACTTAAATATTTT
Found at i:7676621 original size:26 final size:24
Alignment explanation
Indices: 7676573--7676634 Score: 74
Period size: 26 Copynumber: 2.6 Consensus size: 24
7676563 TATTAACTTG
7676573 AAATAT-TTTTA-TATCAACTATT
1 AAATATATTTTATTATCAACTATT
*
7676595 AAATATATTTTATTATTAACTTAATT
1 AAATATATTTTATTATCAAC-T-ATT
*
7676621 AAAAATATTTTATT
1 AAATATATTTTATT
7676635 TTCATTTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 6 0.18
23 5 0.15
24 6 0.18
25 1 0.03
26 16 0.47
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.52
Consensus pattern (24 bp):
AAATATATTTTATTATCAACTATT
Found at i:7687530 original size:21 final size:21
Alignment explanation
Indices: 7687468--7687535 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
7687458 ATCTTAAATT
*
7687468 ATAAACCTTGAACCCTAAATC
1 ATAAACCTTGAACCCTAAACC
* *
7687489 AT-AACCATATTACCCCTAAACC
1 ATAAACC-T-TGAACCCTAAACC
* *
7687511 ATAAACCTTGAACCTTAAACT
1 ATAAACCTTGAACCCTAAACC
7687532 ATAA
1 ATAA
7687536 TTTAGGGTTT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 4 0.11
21 16 0.43
22 13 0.35
23 4 0.11
ACGTcount: A:0.44, C:0.28, G:0.03, T:0.25
Consensus pattern (21 bp):
ATAAACCTTGAACCCTAAACC
Found at i:7687782 original size:60 final size:60
Alignment explanation
Indices: 7687673--7687785 Score: 138
Period size: 60 Copynumber: 1.9 Consensus size: 60
7687663 CCTTAAGCCT
* * * * * *
7687673 ATTTTAAATTAGTCCTCAAACTTTTGATTATTTCAGTTTCATCCCCAAACTATGACCTTC
1 ATTTTAAATTAGTCCCCAAACTTTTGAATATTCCAATTCCATCACCAAACTATGACCTTC
* *
7687733 ATTTTAAATTGGTCCCCAAACTTTTAGAATATTCCAATTCCAT-AGCAAACTAT
1 ATTTTAAATTAGTCCCCAAACTTTT-GAATATTCCAATTCCATCACCAAACTAT
7687786 TCATATACAC
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
60 31 0.70
61 13 0.30
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (60 bp):
ATTTTAAATTAGTCCCCAAACTTTTGAATATTCCAATTCCATCACCAAACTATGACCTTC
Found at i:7690964 original size:17 final size:17
Alignment explanation
Indices: 7690942--7690980 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
7690932 ATGGTTTTCA
7690942 GAACCGGACCGGTTAGC
1 GAACCGGACCGGTTAGC
*
7690959 GAACCGGACCGGTTAGT
1 GAACCGGACCGGTTAGC
7690976 GAACC
1 GAACC
7690981 AGTCATGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.13
Consensus pattern (17 bp):
GAACCGGACCGGTTAGC
Found at i:7691243 original size:17 final size:17
Alignment explanation
Indices: 7691223--7691267 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 17
7691213 GGTAAAACAT
7691223 ATTAAATAATAAATATA
1 ATTAAATAATAAATATA
7691240 ATTAAATAAT---TATA
1 ATTAAATAATAAATATA
*
7691254 ATTAAAAAATAAAT
1 ATTAAATAATAAAT
7691268 TTGGGGTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
14 13 0.54
17 11 0.46
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATTAAATAATAAATATA
Found at i:7692440 original size:32 final size:34
Alignment explanation
Indices: 7692358--7692457 Score: 132
Period size: 32 Copynumber: 2.9 Consensus size: 34
7692348 GTTCGGGTCG
*
7692358 GGTTTTTTAAGTGTGCTATTCGGGTCGAGTCGTGTCA
1 GGTTTTTTAAGTGTGATATTCGGGTCG-G--GTGTCA
*
7692395 GGTTTTTTAAAGTGAGATATTCGGGTCGGGT-T-A
1 GGTTTTTT-AAGTGTGATATTCGGGTCGGGTGTCA
7692428 GGTTTTTTAAGTGTGATATTCGGGTCGGGT
1 GGTTTTTTAAGTGTGATATTCGGGTCGGGT
7692458 CGAGTTTAGG
Statistics
Matches: 59, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
32 21 0.36
33 9 0.15
34 1 0.02
35 2 0.03
37 9 0.15
38 17 0.29
ACGTcount: A:0.16, C:0.09, G:0.34, T:0.41
Consensus pattern (34 bp):
GGTTTTTTAAGTGTGATATTCGGGTCGGGTGTCA
Found at i:7693078 original size:17 final size:18
Alignment explanation
Indices: 7693056--7693102 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
7693046 AATGGAATTG
*
7693056 GATTCCAATTCC-TGACA
1 GATTCCAATTCCTTCACA
7693073 GATTCCAATTCCTTCACA
1 GATTCCAATTCCTTCACA
*
7693091 TATTCCAATTCC
1 GATTCCAATTCC
7693103 CTCAGAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.28, C:0.32, G:0.06, T:0.34
Consensus pattern (18 bp):
GATTCCAATTCCTTCACA
Found at i:7697995 original size:160 final size:160
Alignment explanation
Indices: 7697829--7698227 Score: 483
Period size: 159 Copynumber: 2.5 Consensus size: 160
7697819 AGTTACATAA
* * * * * * *
7697829 GTATTCTATTGTGGTATATGAGAATGTAGTTTAAATTTGGCAAAAAAAAAGTG-GCTTAAAATAA
1 GTATTCTACTATGGTTTAGGAGCATGTAGTTCAAATTTGG-AAAAAAAAA-TGAACTTAAAATAA
*
7697893 ATCACAAATTGAAGAAATAAAG-AGATTAT-AAAAAATAAAGGACTAAATTGAA-AAATTAAAAA
64 ATCACAAATTGAAGAAAT-AAGTAGATTATGAAAAAATAAAGGACTAAATT-AAGAAATGAAAAA
* *
7697955 TTTGCTATCAAAAAGAGGAATTAAAAGTACACAT
127 ATTGCTATCAAAAAGAAGAATTAAAAGTACACAT
* *
7697989 GTATTCTACTATGGTTTAGGAGCATGT-GACTCAAATTTGG-TAAAAAAATGAACTTAAAATAAA
1 GTATTCTACTATGGTTTAGGAGCATGTAG-TTCAAATTTGGAAAAAAAAATGAACTTAAAATAAA
* * *
7698052 TGACAAATTGAAGAAATAAGTAGATTATGAAAAATTGAAGGACTAAATTAAGAAATGAAAAAATT
65 TCACAAATTGAAGAAATAAGTAGATTATGAAAAAATAAAGGACTAAATTAAGAAATGAAAAAATT
* * *
7698117 GTTATCGAAAAGAAGAATTGAAAGTACACAT
130 GCTATCAAAAAGAAGAATTAAAAGTACACAT
* * *
7698148 GTATTCTACTATGGTTTAGGAGCATTTAGTTCAAATTTGG---TAAAAATGAACTTAAAATGAAT
1 GTATTCTACTATGGTTTAGGAGCATGTAGTTCAAATTTGGAAAAAAAAATGAACTTAAAATAAAT
* *
7698210 GATAAATTGAAGAAATAA
66 CACAAATTGAAGAAATAA
7698228 TGAAATAATA
Statistics
Matches: 210, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
157 42 0.20
158 43 0.20
159 93 0.44
160 32 0.15
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.29
Consensus pattern (160 bp):
GTATTCTACTATGGTTTAGGAGCATGTAGTTCAAATTTGGAAAAAAAAATGAACTTAAAATAAAT
CACAAATTGAAGAAATAAGTAGATTATGAAAAAATAAAGGACTAAATTAAGAAATGAAAAAATTG
CTATCAAAAAGAAGAATTAAAAGTACACAT
Found at i:7698062 original size:158 final size:158
Alignment explanation
Indices: 7697883--7698227 Score: 502
Period size: 159 Copynumber: 2.2 Consensus size: 158
7697873 AAAAAAGTGG
*
7697883 CTTAAAATAAATCACAAATTGAAGAAATAAAG-AGATTAT-AAAAAATAAAGGACTAAATTGAA-
1 CTTAAAATAAATGACAAATTGAAGAAATAAAGTAGATTATGAAAAAATAAAGGACTAAATT-AAG
* * *
7697945 AAATTAAAAATTTGCTATCAAAAAGAGGAATTAAAAGTACACATGTATTCTACTATGGTTTAGGA
65 AAATGAAAAAATTGCTATCAAAAAGAAGAATTAAAAGTACACATGTATTCTACTATGGTTTAGGA
7698010 GCATGTGA-CTCAAATTTGGTAAAAAAATGAA
130 GCAT-TGAGCTCAAATTTGGT--AAAAATGAA
* *
7698041 CTTAAAATAAATGACAAATTGAAGAAAT-AAGTAGATTATGAAAAATTGAAGGACTAAATTAAGA
1 CTTAAAATAAATGACAAATTGAAGAAATAAAGTAGATTATGAAAAAATAAAGGACTAAATTAAGA
* * *
7698105 AATGAAAAAATTGTTATCGAAAAGAAGAATTGAAAGTACACATGTATTCTACTATGGTTTAGGAG
66 AATGAAAAAATTGCTATCAAAAAGAAGAATTAAAAGTACACATGTATTCTACTATGGTTTAGGAG
* *
7698170 CATTTAGTTCAAATTTGGTAAAAATGAA
131 CATTGAGCTCAAATTTGGTAAAAATGAA
* *
7698198 CTTAAAATGAATGATAAATTGAAGAAATAA
1 CTTAAAATAAATGACAAATTGAAGAAATAA
7698228 TGAAATAATA
Statistics
Matches: 169, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
157 38 0.22
158 39 0.23
159 92 0.54
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.28
Consensus pattern (158 bp):
CTTAAAATAAATGACAAATTGAAGAAATAAAGTAGATTATGAAAAAATAAAGGACTAAATTAAGA
AATGAAAAAATTGCTATCAAAAAGAAGAATTAAAAGTACACATGTATTCTACTATGGTTTAGGAG
CATTGAGCTCAAATTTGGTAAAAATGAA
Found at i:7712443 original size:61 final size:61
Alignment explanation
Indices: 7712362--7712493 Score: 201
Period size: 61 Copynumber: 2.2 Consensus size: 61
7712352 TCCTAGAGGG
* * *
7712362 GTATTGATATTGAGACATTTTTCAAACATCGATGCAAAATTTGGTACTGATACTCAGAATA
1 GTATTGATACTGAGACATTTTTCAAACATCGAAGCAAAATTTGGTACTGATAATCAGAATA
* * * *
7712423 GTCTTGATACTGAGATATTTTTCAAACATCGAAGCAAATTTTGGTACTGATAATTAGAATA
1 GTATTGATACTGAGACATTTTTCAAACATCGAAGCAAAATTTGGTACTGATAATCAGAATA
7712484 GTATTGATAC
1 GTATTGATAC
7712494 CCTAGTACAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (61 bp):
GTATTGATACTGAGACATTTTTCAAACATCGAAGCAAAATTTGGTACTGATAATCAGAATA
Found at i:7720645 original size:3 final size:3
Alignment explanation
Indices: 7720639--7720701 Score: 83
Period size: 3 Copynumber: 21.0 Consensus size: 3
7720629 CGGGTCTTCT
* **
7720639 TTA TTA TTA TTT TTA TCG TTA TT- TTA TTA TTA TTA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
7720684 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
7720702 ATTTACAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
2 2 0.04
3 47 0.90
4 3 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:7720823 original size:24 final size:25
Alignment explanation
Indices: 7720791--7720858 Score: 122
Period size: 24 Copynumber: 2.8 Consensus size: 25
7720781 CCCATCATAG
7720791 TTAGGGTTTCAAACCCTAAAACAGA
1 TTAGGGTTTCAAACCCTAAAACAGA
7720816 TTA-GGTTTCAAACCCT-AAACAGA
1 TTAGGGTTTCAAACCCTAAAACAGA
7720839 TTAGGGTTTCAAACCCTAAA
1 TTAGGGTTTCAAACCCTAAA
7720859 TGTTCCAGCC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
23 10 0.24
24 26 0.63
25 5 0.12
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (25 bp):
TTAGGGTTTCAAACCCTAAAACAGA
Found at i:7722607 original size:25 final size:25
Alignment explanation
Indices: 7722554--7722607 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
7722544 TGTTGTAAAT
**
7722554 ATTTATTTCACATATTTCTATTTCT
1 ATTTATTTCACATATTTCTATTTAA
7722579 ATTTATTTC-CAT-TTTCTTTATTTAA
1 ATTTATTTCACATATTTC--TATTTAA
7722604 ATTT
1 ATTT
7722608 GTCCAAATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 4 0.16
24 3 0.12
25 18 0.72
ACGTcount: A:0.24, C:0.13, G:0.00, T:0.63
Consensus pattern (25 bp):
ATTTATTTCACATATTTCTATTTAA
Found at i:7728102 original size:4 final size:4
Alignment explanation
Indices: 7728093--7728160 Score: 54
Period size: 4 Copynumber: 17.2 Consensus size: 4
7728083 TCACAAATCA
* *
7728093 ACAT ACAT ACAT -CAAT ACAA ACAT ATAT -CAAT ACAT ACAT ACAT -CAAT
1 ACAT ACAT ACAT AC-AT ACAT ACAT ACAT AC-AT ACAT ACAT ACAT AC-AT
*
7728141 ACAT ACAT ACCT A-AT ACAT A
1 ACAT ACAT ACAT ACAT ACAT A
7728161 AAATTTGCAT
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
3 4 0.08
4 44 0.86
5 3 0.06
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:7728122 original size:16 final size:16
Alignment explanation
Indices: 7728093--7728160 Score: 102
Period size: 16 Copynumber: 4.3 Consensus size: 16
7728083 TCACAAATCA
7728093 ACATACATACATCAAT
1 ACATACATACATCAAT
* *
7728109 ACAAACATATATCAAT
1 ACATACATACATCAAT
7728125 ACATACATACATCAAT
1 ACATACATACATCAAT
*
7728141 ACATACATACCT-AAT
1 ACATACATACATCAAT
7728156 ACATA
1 ACATA
7728161 AAATTTGCAT
Statistics
Matches: 47, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
15 8 0.17
16 39 0.83
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (16 bp):
ACATACATACATCAAT
Found at i:7728536 original size:36 final size:35
Alignment explanation
Indices: 7728443--7728546 Score: 136
Period size: 35 Copynumber: 2.9 Consensus size: 35
7728433 TTGAGGGTGT
* **
7728443 TTTCTTGAAACAAATTTTGTCTCGCTTGAGACAGC
1 TTTCTTAAAACAAATTTTGTCTCGCTTGAGACAAA
* *
7728478 TTTCTAAAAACAAATTTTGTCTCGTTTGAGACAAA
1 TTTCTTAAAACAAATTTTGTCTCGCTTGAGACAAA
* *
7728513 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACA
1 TT-TCTTAAAACAAATTTTGTCTCGCTTGAGACA
7728547 TTTTTCCTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
35 32 0.54
36 27 0.46
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (35 bp):
TTTCTTAAAACAAATTTTGTCTCGCTTGAGACAAA
Found at i:7728637 original size:104 final size:105
Alignment explanation
Indices: 7728513--7728708 Score: 299
Period size: 104 Copynumber: 1.9 Consensus size: 105
7728503 TTGAGACAAA
* *
7728513 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACC-AATTTTGAATTT
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGAT-CCAAATTTCGAATTT
7728577 GATTCAC-TTAAAACAAA-TTAATCTCACCTTAGATTGTTGT
65 GATTCACATT-AAACAAAGTTAATCTCACCTTAGATTGTTGT
* *
7728617 TTCTTTTAAAACAAATTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATCCAAATTTCGAATTTG
1 TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATCCAAATTTCGAATTTG
* *
7728682 TTTCACATTAAACAAAGTTGATCTCAC
66 ATTCACATTAAACAAAGTTAATCTCAC
7728709 TTGAGATCGT
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
103 2 0.02
104 70 0.84
105 11 0.13
ACGTcount: A:0.30, C:0.20, G:0.11, T:0.40
Consensus pattern (105 bp):
TTCTCTTAAAACAAACTTCGTCTCGCTTGAGACATTTTCCCTTTGAGATCCAAATTTCGAATTTG
ATTCACATTAAACAAAGTTAATCTCACCTTAGATTGTTGT
Found at i:7729092 original size:28 final size:28
Alignment explanation
Indices: 7729029--7729130 Score: 125
Period size: 29 Copynumber: 3.6 Consensus size: 28
7729019 TCTGGAGACA
* * *
7729029 GTTTCTCTTGAGATAAATCTTTGAGTCT
1 GTTTCTTTTGAAAAAAATCTTTGAGTCT
*
7729057 GTTCCTTTTGAATAAAAATCTTTGAGT-T
1 GTTTCTTTTGAA-AAAAATCTTTGAGTCT
7729085 GTTTCTTTTGAAACAAATATCTTTGAGTCT
1 GTTTCTTTTGAAA-AAA-ATCTTTGAGTCT
*
7729115 ATTTCTTTTGAAAAAA
1 GTTTCTTTTGAAAAAA
7729131 TTTATCTCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
27 1 0.02
28 24 0.38
29 26 0.41
30 13 0.20
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (28 bp):
GTTTCTTTTGAAAAAAATCTTTGAGTCT
Found at i:7729364 original size:15 final size:15
Alignment explanation
Indices: 7729344--7729375 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
7729334 AGTCGTTACA
7729344 CTTGAAACATTTTCT
1 CTTGAAACATTTTCT
7729359 CTTGAAACATTTTCT
1 CTTGAAACATTTTCT
7729374 CT
1 CT
7729376 AAAACAAGAT
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:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (15 bp):
CTTGAAACATTTTCT
Found at i:7729861 original size:40 final size:40
Alignment explanation
Indices: 7729803--7730167 Score: 211
Period size: 40 Copynumber: 8.7 Consensus size: 40
7729793 CCAGTCGTCC
* * *
7729803 TCATCATGTAGGAACCGTGTCATCCCCAGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGATCTCT
* * * * *
7729843 TCATCACGTATGAGCCGTGTCAACCATAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCTAG---ACCAGATC-TCT
* * * *
7729886 TCATCACATAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGATCTCT
* *
7729932 TCATCACGTATGAGCCGTGTCATTCCC-CGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCA-TCCCTAGACCAGATCTCT
* * *
7729972 TCATCACGTATGAGCCGTGTCA-CCCTAGATAACCAG-CCGTCC
1 TCATCACGTAGGAGCCGTGTCATCCCTAG---ACCAGATC-TCT
* * *
7730014 TCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
1 TCATCACGTAGGAGCCGTGTCATC-CC--TAGA---CCAGATCTCT
* *
7730060 TCATCACGTATGAGCCGTGTCATTCCC-CGACCAGATCTCT
1 TCATCACGTAGGAGCCGTGTCA-TCCCTAGACCAGATCTCT
* * *
7730100 TCATCACGTAGGAGCCGTGTCAACCATAGATAACCA-AACTCT
1 TCATCACGTAGGAGCCGTGTCATCCCTAG---ACCAGATCTCT
* * *
7730142 TCATCACGTACGAGCAGTGTCGTCCC
1 TCATCACGTAGGAGCCGTGTCATCCC
7730168 CAACAACCAA
Statistics
Matches: 250, Mismatches: 45, Indels: 58
0.71 0.13 0.16
Matches are distributed among these distances:
38 3 0.01
39 3 0.01
40 85 0.34
41 1 0.00
42 53 0.21
43 37 0.15
44 3 0.01
46 59 0.24
47 6 0.02
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (40 bp):
TCATCACGTAGGAGCCGTGTCATCCCTAGACCAGATCTCT
Found at i:7730151 original size:128 final size:129
Alignment explanation
Indices: 7729803--7730135 Score: 589
Period size: 128 Copynumber: 2.6 Consensus size: 129
7729793 CCAGTCGTCC
* * *
7729803 TCATCATGTAGGAACCGTGTCA-TCCCCAGACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
1 TCATCACGTATGAGCCGTGTCATTCCCC-GACCAGATCTCTTCATCACGTATGAGCCGTGTCAAC
*
7729867 CATAGATAACCAGCCGTCCTCATCACATAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
65 CATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
7729932 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTC-ACC
1 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
*
7729996 CTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
66 ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
*
7730060 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTAGGAGCCGTGTCAACC
1 TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
7730125 ATAGATAACCA
66 ATAGATAACCA
7730136 AACTCTTCAT
Statistics
Matches: 195, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
128 125 0.64
129 65 0.33
130 5 0.03
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (129 bp):
TCATCACGTATGAGCCGTGTCATTCCCCGACCAGATCTCTTCATCACGTATGAGCCGTGTCAACC
ATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCT
Found at i:7730319 original size:3 final size:3
Alignment explanation
Indices: 7730313--7730370 Score: 80
Period size: 3 Copynumber: 19.0 Consensus size: 3
7730303 CGGGTCTTCT
* **
7730313 TTA TTA TTA TTT TTA TCG TTA TTA TTA TTA TTA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
7730359 TTA TTA TTA TTA
1 TTA TTA TTA TTA
7730371 ATTTACAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:7730487 original size:25 final size:25
Alignment explanation
Indices: 7730458--7730527 Score: 133
Period size: 24 Copynumber: 2.8 Consensus size: 25
7730448 AACCCATCAT
7730458 ATTAGGGTTTCAAACCCTAAAACAG
1 ATTAGGGTTTCAAACCCTAAAACAG
7730483 ATTAGGGTTTCAAACCCT-AAACAG
1 ATTAGGGTTTCAAACCCTAAAACAG
7730507 ATTAGGGTTTCAAACCCTAAA
1 ATTAGGGTTTCAAACCCTAAA
7730528 TGTTCCAGCC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
24 24 0.55
25 20 0.45
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.26
Consensus pattern (25 bp):
ATTAGGGTTTCAAACCCTAAAACAG
Found at i:7732255 original size:25 final size:25
Alignment explanation
Indices: 7732226--7732274 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
7732216 TTGTTGTAAA
7732226 TATTTATTTCACATATTTC-TATTTC
1 TATTTATTTC-CATATTTCTTATTTC
*
7732251 TATTTATTTCCATTTTTCTTATTT
1 TATTTATTTCCATATTTCTTATTT
7732275 AAATATTGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.20, C:0.14, G:0.00, T:0.65
Consensus pattern (25 bp):
TATTTATTTCCATATTTCTTATTTC
Found at i:7735169 original size:31 final size:30
Alignment explanation
Indices: 7735133--7735199 Score: 98
Period size: 30 Copynumber: 2.2 Consensus size: 30
7735123 ATTTAAAAAA
* *
7735133 TAAGATACGATTATTTTTGTTTTTATTTAAT
1 TAAGATACG-TCACTTTTGTTTTTATTTAAT
*
7735164 TAAGATATGTCACTTTTGTTTTTATTTAAT
1 TAAGATACGTCACTTTTGTTTTTATTTAAT
7735194 TAAGAT
1 TAAGAT
7735200 GTGGTCACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 25 0.76
31 8 0.24
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.55
Consensus pattern (30 bp):
TAAGATACGTCACTTTTGTTTTTATTTAAT
Found at i:7736171 original size:33 final size:34
Alignment explanation
Indices: 7736129--7736198 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
7736119 AAATGTGTGA
*
7736129 TTATATAAAAA-AATTAACTGCTATTAATGACGG
1 TTATATAAAAATAATTAACTGCTATTAACGACGG
*
7736162 TTATATAAAAATATTTAACTGCTATTAACGACGG
1 TTATATAAAAATAATTAACTGCTATTAACGACGG
7736196 TTA
1 TTA
7736199 ACTCGGGACG
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.43, C:0.10, G:0.11, T:0.36
Consensus pattern (34 bp):
TTATATAAAAATAATTAACTGCTATTAACGACGG
Found at i:7741502 original size:34 final size:34
Alignment explanation
Indices: 7741464--7741531 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
7741454 TCCTTATTAA
*
7741464 AATAAAAATATTATATTATATTTAA-AAAATTATT
1 AATAAAAATATTATA-TATACTTAATAAAATTATT
* * *
7741498 AATAAATATATTTTATATACTTAATAATATTATT
1 AATAAAAATATTATATATACTTAATAAAATTATT
7741532 TTATGAAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (34 bp):
AATAAAAATATTATATATACTTAATAAAATTATT
Found at i:7741521 original size:22 final size:23
Alignment explanation
Indices: 7741495--7741549 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
7741485 TTAAAAAATT
7741495 ATTAATAAATA-TATTTTAT-ATA
1 ATTAATAAATATTATTTTATGA-A
*
7741517 CTTAAT-AATATTATTTTATGAA
1 ATTAATAAATATTATTTTATGAA
7741539 ATTAATAAATA
1 ATTAATAAATA
7741550 AAAATAATCT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.14
22 19 0.68
23 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
ATTAATAAATATTATTTTATGAA
Found at i:7741615 original size:33 final size:31
Alignment explanation
Indices: 7741574--7741652 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 31
7741564 AGTAATTTAT
* *
7741574 TATATATTATTAAAATAAAATATAGTATCATA
1 TATATATTATTAAAATAAAAAATA-TATAATA
** *
7741606 TATATTATTATGGAACTAAAAAATATATAATA
1 TATA-TATTATTAAAATAAAAAATATATAATA
7741638 T-TATATTATTAAAAT
1 TATATATTATTAAAAT
7741653 TATTAGTAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
30 9 0.24
31 2 0.05
32 11 0.29
33 16 0.42
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.42
Consensus pattern (31 bp):
TATATATTATTAAAATAAAAAATATATAATA
Found at i:7741651 original size:23 final size:23
Alignment explanation
Indices: 7741625--7741694 Score: 62
Period size: 23 Copynumber: 3.3 Consensus size: 23
7741615 ATGGAACTAA
7741625 AAAATATATAATATTATATTATT
1 AAAATATATAATATTATATTATT
* *
7741648 AAAAT-TATTAGTAATATATT-TT
1 AAAATATA-TAATATTATATTATT
*
7741670 AATA-AT-TAATATT-T-TTATT
1 AAAATATATAATATTATATTATT
7741689 AAAATA
1 AAAATA
7741695 ATACTAAAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
18 2 0.05
19 6 0.16
20 6 0.16
22 8 0.22
23 15 0.41
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (23 bp):
AAAATATATAATATTATATTATT
Found at i:7743457 original size:4 final size:4
Alignment explanation
Indices: 7743448--7743504 Score: 69
Period size: 4 Copynumber: 14.2 Consensus size: 4
7743438 TGTTATCGTT
* * * *
7743448 TGTA TGTA TGTA TGCA TGTA TGTA TATA TGTA TGTA TGTA CGTA CGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
7743496 CGTA TGTA T
1 TGTA TGTA T
7743505 AACTGAGAGA
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.26, C:0.07, G:0.23, T:0.44
Consensus pattern (4 bp):
TGTA
Found at i:7756189 original size:14 final size:14
Alignment explanation
Indices: 7756170--7756217 Score: 57
Period size: 14 Copynumber: 3.5 Consensus size: 14
7756160 GAGAGTGTGA
7756170 GAAGAAGAAAGAAG
1 GAAGAAGAAAGAAG
7756184 GAAGAAGGAAA-AAG
1 GAAGAA-GAAAGAAG
7756198 GAAGGAAG-AAGAA-
1 GAA-GAAGAAAGAAG
7756211 GAAGAAG
1 GAAGAAG
7756218 CTGCTGCCAC
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 4 0.13
13 5 0.16
14 15 0.48
15 7 0.23
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (14 bp):
GAAGAAGAAAGAAG
Found at i:7764620 original size:17 final size:18
Alignment explanation
Indices: 7764587--7764625 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
7764577 TAATATTAAT
7764587 TAAAATATCTATAAATTA
1 TAAAATATCTATAAATTA
7764605 TAAAATATCT-TAAATTA
1 TAAAATATCTATAAATTA
7764622 TAAA
1 TAAA
7764626 CATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAATATCTATAAATTA
Found at i:7764803 original size:15 final size:15
Alignment explanation
Indices: 7764783--7764813 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7764773 CAACAAATAG
7764783 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
7764798 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
7764813 A
1 A
7764814 TTTAAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:7767882 original size:25 final size:24
Alignment explanation
Indices: 7767828--7767882 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
7767818 TACTCGAGCT
* *
7767828 CGAGCTTTGACCACTATTTTTGAC
1 CGAGCTATGACAACTATTTTTGAC
* *
7767852 CAAGCTATGACAACTTTTTTTGGAC
1 CGAGCTATGACAACTATTTTT-GAC
7767877 CGAGCT
1 CGAGCT
7767883 CGAGTATCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (24 bp):
CGAGCTATGACAACTATTTTTGAC
Found at i:7771504 original size:2 final size:2
Alignment explanation
Indices: 7771497--7771535 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7771487 TCGTACAAGG
7771497 TA TA TA 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 TA TA TA T
7771536 GTTATAATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7773000 original size:13 final size:13
Alignment explanation
Indices: 7772979--7773012 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7772969 TTGACGACCA
*
7772979 ACAAAAAAAATGAT
1 ACAAAAAAACT-AT
7772993 ACAAAAAAACTAT
1 ACAAAAAAACTAT
7773006 ACAAAAA
1 ACAAAAA
7773013 TCGAGAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.74, C:0.12, G:0.03, T:0.12
Consensus pattern (13 bp):
ACAAAAAAACTAT
Found at i:7777543 original size:23 final size:23
Alignment explanation
Indices: 7777499--7777545 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7777489 TAAGCGGCTT
** *
7777499 ATGTGGCAGCTGATGTGGCGATG
1 ATGTGGCAGCTGACATGACGATG
*
7777522 ATGTGGTAGCTGACATGACGATG
1 ATGTGGCAGCTGACATGACGATG
7777545 A
1 A
7777546 CATGATAGCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.23, C:0.13, G:0.38, T:0.26
Consensus pattern (23 bp):
ATGTGGCAGCTGACATGACGATG
Found at i:7779274 original size:21 final size:20
Alignment explanation
Indices: 7779188--7779345 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
7779178 AAATGACCAA
**
7779188 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
7779207 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
7779227 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
7779247 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
7779268 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
7779289 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
7779309 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
7779330 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
7779346 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Done.