Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 31 of 141
Found at i:9497558 original size:23 final size:25
Alignment explanation
Indices: 9497506--9497564 Score: 77
Period size: 26 Copynumber: 2.4 Consensus size: 25
9497496 ATTTATAATT
*
9497506 ATTTAAGTAATAAATTTAAGTAACAT
1 ATTTAAGTAATAAATTTAAG-AACAA
9497532 ATTTAAGTAATAAATTT-A-AACAA
1 ATTTAAGTAATAAATTTAAGAACAA
*
9497555 ATTTTAGTAA
1 ATTTAAGTAA
9497565 GTAATGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 13 0.42
25 1 0.03
26 17 0.55
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (25 bp):
ATTTAAGTAATAAATTTAAGAACAA
Found at i:9497575 original size:40 final size:40
Alignment explanation
Indices: 9497522--9497933 Score: 178
Period size: 40 Copynumber: 10.5 Consensus size: 40
9497512 GTAATAAATT
* *
9497522 TAAGTAACATATTTAAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATATATTTTAGTAATAAATTTAAACAAATTTTAG
*
9497562 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATATATTTTAGTAATAAATTTAAACAAATTTTAG
*
9497602 TAAGTAATTTATTTTAGTAAGTAATGTATTTTAGTAACAAA-TTTA-
1 TAAGTAATATATTTTAGTAA-TAA---A-TTTA--AACAAATTTTAG
* *
9497647 -AA--CA-A-ATTTTAGTAA-ATAATGT------ATTTTAG
1 TAAGTAATATATTTTAGTAATA-AATTTAAACAAATTTTAG
* *
9497676 TAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAG
1 TAAGTAATATATTTTAGTAATAAATTTAAACAAATTTTAG
* * *
9497716 TAAATAATGTATTTTAGTAAGTAATGTATTTTAGTAATAAA--TT--
1 TAAGTAATATATTTTAGTAA-TAA---A-TTTA--AACAAATTTTAG
* * ***
9497759 T-A--AACACATTTTAGTAAGT-AA-TT-AATGTATTTTAG
1 TAAGTAATATATTTTAGTAA-TAAATTTAAACAAATTTTAG
* ** ** ** * **
9497794 -AAATAA-AT-TTAAACAAATTTATGTAAGTAATGTATTTTAG
1 TAAGTAATATATTTTAGTAATAAATTTAAACAA---ATTTTAG
*
9497834 TAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAG
1 TAAGTAATATATTTTAGTAATAAATTTAAACAAATTTTAG
* *
9497874 TAAGTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATG
1 TAAGTAATATATTTTAGTAATAAATTTAAACAAATTTTA-G
*
9497914 TAAGTAATGTATTTTAGTAA
1 TAAGTAATATATTTTAGTAA
9497934 GTAATGTATT
Statistics
Matches: 285, Mismatches: 41, Indels: 92
0.68 0.10 0.22
Matches are distributed among these distances:
27 1 0.00
28 4 0.01
30 2 0.01
31 4 0.01
32 1 0.00
33 2 0.01
34 17 0.06
35 10 0.04
36 4 0.01
37 4 0.01
38 1 0.00
39 6 0.02
40 173 0.61
41 10 0.04
42 3 0.01
43 14 0.05
44 4 0.01
45 10 0.04
46 4 0.01
47 11 0.04
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.42
Consensus pattern (40 bp):
TAAGTAATATATTTTAGTAATAAATTTAAACAAATTTTAG
Found at i:9497602 original size:23 final size:23
Alignment explanation
Indices: 9497506--9497612 Score: 77
Period size: 23 Copynumber: 4.8 Consensus size: 23
9497496 ATTTATAATT
* *
9497506 ATTTAAGTAATAAATTTAAGTAACAT
1 ATTTTAGTAATAAATTT-A--AACAA
*
9497532 ATTTAAGTAATAAATTTAAACAA
1 ATTTTAGTAATAAATTTAAACAA
*
9497555 ATTTTAGTAAGT-AATGT------
1 ATTTTAGTAA-TAAATTTAAACAA
9497572 ATTTTAGTAATAAATTTAAACAA
1 ATTTTAGTAATAAATTTAAACAA
9497595 ATTTTAGTAAGT-AATTTA
1 ATTTTAGTAA-TAAATTTA
9497613 TTTTAGTAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 21
0.73 0.04 0.23
Matches are distributed among these distances:
16 1 0.01
17 14 0.21
23 33 0.49
24 2 0.03
25 1 0.01
26 17 0.25
ACGTcount: A:0.48, C:0.03, G:0.08, T:0.41
Consensus pattern (23 bp):
ATTTTAGTAATAAATTTAAACAA
Found at i:9497632 original size:57 final size:57
Alignment explanation
Indices: 9497555--9497780 Score: 398
Period size: 57 Copynumber: 4.0 Consensus size: 57
9497545 ATTTAAACAA
* * *
9497555 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTT
1 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAATGT
9497612 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAATGT
9497669 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAATGT
1 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAATGT
* * *
9497726 ATTTTAGTAAGTAATGTATTTTAGTAATAAATTTAAACACATTTTAGTAAGTAAT
1 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAAT
9497781 TAATGTATTT
Statistics
Matches: 163, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 163 1.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (57 bp):
ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTTTAGTAAATAATGT
Found at i:9497773 original size:23 final size:23
Alignment explanation
Indices: 9497743--9497813 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 23
9497733 TAAGTAATGT
*
9497743 ATTTTAGTAATAAATTTAAACAC
1 ATTTTAGTAATAAATTTAAACAA
***
9497766 ATTTTAGTAAGT-AA-TT-AATGT
1 ATTTTAGTAA-TAAATTTAAACAA
*
9497787 ATTTTAGAAATAAATTTAAACAA
1 ATTTTAGTAATAAATTTAAACAA
9497810 ATTT
1 ATTT
9497814 ATGTAAGTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 13 0.35
22 4 0.11
23 18 0.49
24 1 0.03
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (23 bp):
ATTTTAGTAATAAATTTAAACAA
Found at i:9497790 original size:44 final size:41
Alignment explanation
Indices: 9497726--9497933 Score: 179
Period size: 40 Copynumber: 4.7 Consensus size: 41
9497716 TAAATAATGT
9497726 ATTT-TAGTAAGTAATGTATTTTAGTAATAAATTTAAACACA
1 ATTTATAGTAAGTAATGTATTTTAGTAATAAATTTAAACA-A
* * *
9497767 TTTTAGTAAGTAATTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTTA-T-AGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
*
9497810 ATTTAT-GTAAGTAATGTATTTTAGTAAGTAATGTATTTTAGTAATAA
1 ATTTATAGTAAGTAATGTATTTTAGTAA-TAA---A-TTTA--AACAA
*
9497857 ATTTAAACAAATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAA
1 ATTT------A---TAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
9497907 ATTTAT-GTAAGTAATGTATTTTAGTAA
1 ATTTATAGTAAGTAATGTATTTTAGTAA
9497934 GTAATGTATT
Statistics
Matches: 137, Mismatches: 10, Indels: 41
0.73 0.05 0.22
Matches are distributed among these distances:
40 39 0.28
41 7 0.05
42 1 0.01
43 6 0.04
44 34 0.25
45 4 0.03
47 8 0.06
50 8 0.06
52 4 0.03
53 2 0.01
56 4 0.03
57 20 0.15
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (41 bp):
ATTTATAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:9497856 original size:57 final size:57
Alignment explanation
Indices: 9497775--9498016 Score: 304
Period size: 57 Copynumber: 4.5 Consensus size: 57
9497765 CATTTTAGTA
* *
9497775 AGTAATTAATGTATTTTAGAAATAAATTTAAACAAA-TTTATGTAAGTAATGTATTTT
1 AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTA-GTAAGTAATGTATTTT
9497832 AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTT
1 AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTT
* *
9497889 AG-AAATAA---A-TTTA--AACAAATTT-----A----T-GTAAGTAATGTATTTT
1 AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTT
*
9497929 AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATTTATTTT
1 AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTT
9497986 AGTAAGTAATGTATTTTAGTAATAAATTTAA
1 AGTAAGTAATGTATTTTAGTAATAAATTTAA
9498017 CATTCAATCG
Statistics
Matches: 160, Mismatches: 7, Indels: 36
0.79 0.03 0.18
Matches are distributed among these distances:
40 18 0.11
41 6 0.04
44 1 0.01
45 5 0.03
47 8 0.05
50 8 0.05
52 5 0.03
53 1 0.01
56 6 0.04
57 98 0.61
58 4 0.03
ACGTcount: A:0.44, C:0.02, G:0.11, T:0.43
Consensus pattern (57 bp):
AGTAAGTAATGTATTTTAGTAATAAATTTAAACAAATTTTAGTAAGTAATGTATTTT
Found at i:9497934 original size:97 final size:97
Alignment explanation
Indices: 9497669--9497987 Score: 541
Period size: 97 Copynumber: 3.2 Consensus size: 97
9497659 TAAATAATGT
* * *
9497669 ATTTTAGTAAGTAATGTATTTTAGTAACAAATTTAAACAAATTT-TAGTAAATAATGTATTTTAG
1 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAATTTAT-GTAAGTAATGTATTTTAG
*
9497733 TAAGTAATGTATTTTAGTAATAAATTTAAACAC
65 TAAGTAATGTATTTTAGTAATAAATTTAAACAA
9497766 ATTTTAGTAAGTAATTAATGTATTTTAGAAATAAATTTAAACAAATTTATGTAAGTAATGTATTT
1 ATTTTAGTAAG----TAATGTATTTTAGAAATAAATTTAAACAAATTTATGTAAGTAATGTATTT
9497831 TAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
62 TAGTAAGTAATGTATTTTAGTAATAAATTTAAACAA
9497867 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAATTTATGTAAGTAATGTATTTTAGT
1 ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAATTTATGTAAGTAATGTATTTTAGT
9497932 AAGTAATGTATTTTAGTAATAAATTTAAACAA
66 AAGTAATGTATTTTAGTAATAAATTTAAACAA
*
9497964 ATTTTAGTAAGTAATTTATTTTAG
1 ATTTTAGTAAGTAATGTATTTTAG
9497988 TAAGTAATGT
Statistics
Matches: 212, Mismatches: 5, Indels: 10
0.93 0.02 0.04
Matches are distributed among these distances:
97 120 0.57
101 91 0.43
102 1 0.00
ACGTcount: A:0.43, C:0.03, G:0.11, T:0.43
Consensus pattern (97 bp):
ATTTTAGTAAGTAATGTATTTTAGAAATAAATTTAAACAAATTTATGTAAGTAATGTATTTTAGT
AAGTAATGTATTTTAGTAATAAATTTAAACAA
Found at i:9499366 original size:11 final size:11
Alignment explanation
Indices: 9499350--9499389 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
9499340 GATGATAATA
9499350 CATTAGTTACC
1 CATTAGTTACC
9499361 CATTAGTTACC
1 CATTAGTTACC
*
9499372 CACTAGTTACC
1 CATTAGTTACC
9499383 CA-TAGTT
1 CATTAGTT
9499390 TGAGATATTC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
10 5 0.18
11 23 0.82
ACGTcount: A:0.28, C:0.28, G:0.10, T:0.35
Consensus pattern (11 bp):
CATTAGTTACC
Found at i:9500834 original size:14 final size:14
Alignment explanation
Indices: 9500815--9500844 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9500805 CACGAACAGC
9500815 AAGATGATTAACTA
1 AAGATGATTAACTA
9500829 AAGATGATTAACTA
1 AAGATGATTAACTA
9500843 AA
1 AA
9500845 AACCTTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.13, T:0.27
Consensus pattern (14 bp):
AAGATGATTAACTA
Found at i:9501096 original size:71 final size:71
Alignment explanation
Indices: 9500980--9501322 Score: 652
Period size: 71 Copynumber: 4.8 Consensus size: 71
9500970 CCAGATCCAG
*
9500980 ATTTCAGAA-CCAAAGCATAATTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
1 ATTTCA-AATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTC
*
9501044 AAAAATT
65 AGAAATT
9501051 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
9501116 GAAATT
66 GAAATT
9501122 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
9501187 GAAATT
66 GAAATT
9501193 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
9501258 GAAATT
66 GAAATT
9501264 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
1 ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCA
9501323 AATCCACTCA
Statistics
Matches: 269, Mismatches: 2, Indels: 2
0.99 0.01 0.01
Matches are distributed among these distances:
70 2 0.01
71 267 0.99
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.26
Consensus pattern (71 bp):
ATTTCAAATCCAAAGCATATTTCAGAACATAACAACATAATCAAAAACAAATTATTTCAGACTCA
GAAATT
Found at i:9501657 original size:22 final size:22
Alignment explanation
Indices: 9501629--9501675 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9501619 GTGGCTGTAA
*
9501629 TAACAGAAACGCCTTACCTATT
1 TAACAGAAACGCCTTACATATT
9501651 TAACAGAAACGCCTTACATATT
1 TAACAGAAACGCCTTACATATT
9501673 TAA
1 TAA
9501676 TCGGAATAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.28
Consensus pattern (22 bp):
TAACAGAAACGCCTTACATATT
Found at i:9502690 original size:15 final size:15
Alignment explanation
Indices: 9502657--9502724 Score: 57
Period size: 15 Copynumber: 4.4 Consensus size: 15
9502647 GATTTAACCC
* *
9502657 TAAACCTCTAAACTTT
1 TAAACC-CTAAAATCT
9502673 TAAACCCTAAAATCT
1 TAAACCCTAAAATCT
*
9502688 TAAACTGCT-AAATCGT
1 TAAAC-CCTAAAATC-T
*
9502704 TAAACCCTAAACTCT
1 TAAACCCTAAAATCT
*
9502719 AAAACC
1 TAAACC
9502725 AACAACCAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
15 25 0.58
16 18 0.42
ACGTcount: A:0.43, C:0.26, G:0.03, T:0.28
Consensus pattern (15 bp):
TAAACCCTAAAATCT
Found at i:9502836 original size:14 final size:14
Alignment explanation
Indices: 9502817--9502887 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
9502807 ACCCCAGACT
9502817 CCTAAACCTTAAAC
1 CCTAAACCTTAAAC
*
9502831 CCTAAACACCCTAATAC
1 CCT-AA-ACCTTAA-AC
9502848 CCT-AACCTTAAA-
1 CCTAAACCTTAAAC
* * *
9502860 CCTACATCGTAAAC
1 CCTAAACCTTAAAC
*
9502874 CCTAAACTTTAAAC
1 CCTAAACCTTAAAC
9502888 TTTACACTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
12 3 0.07
13 7 0.16
14 19 0.44
15 3 0.07
16 6 0.14
17 5 0.12
ACGTcount: A:0.41, C:0.35, G:0.01, T:0.23
Consensus pattern (14 bp):
CCTAAACCTTAAAC
Found at i:9503329 original size:113 final size:115
Alignment explanation
Indices: 9503124--9503329 Score: 290
Period size: 113 Copynumber: 1.8 Consensus size: 115
9503114 ATCAACAAAT
* * * *
9503124 CGCCGCTAATACTATGCTTTAGCGGCGTTTTACCGAAATCGCCACTAAATCAAGTATACATCAAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
*
9503189 ACCAAAACGATGCGTTTTGGTTCAGATACTTGGTGACGCTTTTATCCAAG
66 ACCAAAACGATGCGTTTTGGTTAAGATACTTGGTGACGCTTTTATCCAAG
* * * *
9503239 CGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
* **
9503302 GCCAAAATTATGCGTTTTGGTTAAGATA
66 ACCAAAACGATGCGTTTTGGTTAAGATA
9503330 TTTTGCTGCT
Statistics
Matches: 79, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
113 48 0.61
114 1 0.01
115 30 0.38
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (115 bp):
CGCCGCTAATACTATGCTTTAACGGCGTTTCACCGAAAGCGCCACTAAATCAACTATACATCAAG
ACCAAAACGATGCGTTTTGGTTAAGATACTTGGTGACGCTTTTATCCAAG
Found at i:9503499 original size:208 final size:208
Alignment explanation
Indices: 9503239--9503769 Score: 708
Period size: 226 Copynumber: 2.5 Consensus size: 208
9503229 TTTATCCAAG
9503239 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
9503304 CAAAATTATGCGTTTTGGTTAAGATATTTTGCT-GCTATTAATATTCTTTAGCGGCGGTTTACCG
66 CAAAATTATGCGTTTTGGTTAAGATATTTTGCTCGCTATTAATATTCTTTAGCGGCGGTTTACCG
9503368 TAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTTTGTTAAGATATTTTGCGG
131 TAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCG-TTTTGTTAAGATATTTTGCGG
9503433 CGCTAGCTACAAAT
195 CGCTAGCTACAAAT
9503447 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
9503512 CAAAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCCGCTATTAATATTC
66 CAAAATTATGCGTTTTGGTTAAGATATTTT-----G---CT----------CGCTATTAATATTC
*
9503577 TTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACGCTGCGTTTT
113 TTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTT
*
9503642 GTTAAGATATTTTGTGGCGCTAGCTACAAAT
178 GTTAAGATATTTTGCGGCGCTAGCTACAAAT
* * * * * * *
9503673 CGCCGCTAATACTA--CTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAG
1 CGCCGCTAATACTATGCTTTAACGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATACATCGAG
* ** * * * *
9503736 ACCAAAACGATGTGTTTCGCTTAAGATAGTTTGC
64 GCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
9503770 GGCGCTTCCA
Statistics
Matches: 286, Mismatches: 16, Indels: 32
0.86 0.05 0.10
Matches are distributed among these distances:
208 95 0.33
213 1 0.00
216 2 0.01
218 1 0.00
221 1 0.00
224 14 0.05
225 1 0.00
226 98 0.34
227 73 0.26
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.33
Consensus pattern (208 bp):
CGCCGCTAATACTATGCTTTAACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGC
CAAAATTATGCGTTTTGGTTAAGATATTTTGCTCGCTATTAATATTCTTTAGCGGCGGTTTACCG
TAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTTTGTTAAGATATTTTGCGGC
GCTAGCTACAAAT
Found at i:9503776 original size:226 final size:224
Alignment explanation
Indices: 9503337--9503886 Score: 719
Period size: 226 Copynumber: 2.4 Consensus size: 224
9503327 ATATTTTGCT
9503337 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
9503402 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
66 AACACTGCG-TTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTA-GCTTT
* * * ** * *
9503467 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTT
129 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
*
9503532 AAGATATTTTGCGGCGCTTCTCACAAAGCGCC
194 AAGATAGTTTGCGGCGCTTC-CACAAAGCGCC
9503564 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
* * *
9503629 AACGCTGCGTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATACTA-CTTTAG
66 AACACTGCGTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTAGCTTTAA
* * * * *
9503693 CGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGCTT
131 CGGCGTTTCA-C-TAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTT
* *
9503758 AAGATAGTTTGCGGCGCTTCCATAAAGCGTC
194 AAGATAGTTTGCGGCGCTTCCACAAAGCGCC
* * * * * * * * * * *
9503789 GCTATTACTGTACTTTAACGGC-GTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGA-C
1 GCTATTAATATTCTTTAGCGGCGGTTTACC-GTAAGCGCCACTAATT-TTATATACATTAAGATC
* * *
9503852 CAAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCG
64 AAAACACTGCGTTTT-GTTAAGATATTTTGCGGCG
9503887 TTTCCAGAAA
Statistics
Matches: 285, Mismatches: 33, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
224 20 0.07
225 56 0.20
226 136 0.48
227 73 0.26
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (224 bp):
GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
AACACTGCGTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTAGCTTTAA
CGGCGTTTCACTAAGCGCCACTAATTCTACTATAAATCAAGACCAAAACGATGCGTTTCGCTTAA
GATAGTTTGCGGCGCTTCCACAAAGCGCC
Found at i:9503813 original size:114 final size:113
Alignment explanation
Indices: 9503337--9504000 Score: 571
Period size: 113 Copynumber: 5.9 Consensus size: 113
9503327 ATATTTTGCT
* * * * * * *
9503337 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATCA
1 GCTATTACTATACTTTAACGGC-GTTTACCATAAGCGCCACTAATTCTAGTATACATCAAGACCA
* * * *
9503401 AAAC-ACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCC
65 AAACGA-TGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCCACAAAGCGCC
* * * * *
9503451 GCTAATACTATGCTTTAACGGCGTTT--CACTAAGCGCCACTAATTCTACTATACATCGAGGCCA
1 GCTATTACTATACTTTAACGGCGTTTACCA-TAAGCGCCACTAATTCTAGTATACATCAAGACCA
**
9503514 AAATTATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCACAAAGCGCC
65 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTC-CACAAAGCGCC
* * * * * * *
9503564 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTA-TATACATTAAGATCA
1 GCTATTACTATACTTTAACGGC-GTTTACCATAAGCGCCACTAATTCTAGTATACATCAAGACCA
* * * * *
9503628 AAACGCTGCGTTTT-GTTAAGATATTTTGTGGCGCTAGCTACAAATCGCC
65 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCT-TCCACAAAGCGCC
* * * * *
9503677 GCTAATAC--TACTTTAGCGGCGTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCA
1 GCTATTACTATACTTTAACGGCGTTT-ACCATAAGCGCCACTAATTCTAGTATACATCAAGACCA
* * * * * *
9503740 AAACGATGTGTTTCGCTTAAGATAGTTTGCGGCGCTTCCATAAAGCGTC
65 AAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCACAAAGCGCC
* * * *
9503789 GCTATTACTGTACTTTAACGGCGTTTTCCTATAAACGCCACTAATTCTAAG-ATACCTCAAGACC
1 GCTATTACTATACTTTAACGGCGTTTACC-ATAAGCGCCACTAATTCT-AGTATACATCAAGACC
** * * *
9503853 -AAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCGTTTCCAGAAAGCGCC
64 AAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCACAAAGCGCC
* * * * * * * *
9503902 GCTATTACTGTCCTTTAATGGCGTTT-CGCGTAAACGCCACTACTTTTAAG-ATACATCAAGACG
1 GCTATTACTATACTTTAACGGCGTTTAC-CATAAGCGCCACTAATTCT-AGTATACATCAAGACC
* * *
9503965 AAAAC-ACAGCGTTTTGGTTAAGAGATTTCGCGGCGC
64 AAAACGA-TGCGTTTTGGTTAAGATATTTTGCGGCGC
9504001 ATTGTGGTAA
Statistics
Matches: 448, Mismatches: 84, Indels: 37
0.79 0.15 0.07
Matches are distributed among these distances:
110 4 0.01
111 30 0.07
112 86 0.19
113 221 0.49
114 87 0.19
115 19 0.04
116 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (113 bp):
GCTATTACTATACTTTAACGGCGTTTACCATAAGCGCCACTAATTCTAGTATACATCAAGACCAA
AACGATGCGTTTTGGTTAAGATATTTTGCGGCGCTTCCACAAAGCGCC
Found at i:9503942 original size:226 final size:225
Alignment explanation
Indices: 9503337--9503969 Score: 650
Period size: 226 Copynumber: 2.8 Consensus size: 225
9503327 ATATTTTGCT
* * * * * * *
9503337 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
*
9503402 AACACTGCGTTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTT
66 AACACTGCG-TTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACT-TACTTT
* * * * ** * *
9503467 AACGGCGTTTCACTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTT
129 AACGGCGTTTCGCTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTCGCTT
*
9503532 AAGATATTTTGCGGCGCTTCTCACAAAGCGCC
194 AAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * * * * *
9503564 GCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAA
1 GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
* * *
9503629 AACGCTGCGTTTTGTTAAGATATTTTGTGGCGCTAGCTACAAATCGCCGCTAATAC-TACTTTAG
66 AACACTGCGTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTTACTTTAA
* * * *
9503693 CGGCGTTT-GACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGATGTGTTTCGCT
131 CGGCGTTTCG--C-TAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTCGCT
* *
9503757 TAAGATAGTTTGCGGCGCTTC-CATAAAGCGTC
193 TAAGATAGTTTGCGGCGCTTCTCACAAAGCGCC
* * * *
9503789 GCTATTACTGTACTTTAACGGC-GTTTTCCTATAAACGCCACTAATTCTAAGATACCTCAAGA-C
1 GCTATTAATATACTTTAACGGCGGTTTACC-ATAAACGCCACTAATT-TAAGATACATCAAGATC
* * * ** * * * * *
9503852 CAAACTCTGCGTTTTGGTTAAGCTATTTTGCGGCG-TTTCCAGAAAGCGCCGCTATTACTGTCCT
64 AAAACACTGCGTTTT-GTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACT-TACT
* * * * *
9503916 TTAATGGCGTTTCGCGTAAACGCCACTACTTTTAAG-ATACATCAAGACGAAAAC
127 TTAACGGCGTTTCGC-TAAGCGCCACTAATTCT-AGTATACATCAAGACCAAAAC
9503970 ACAGCGTTTT
Statistics
Matches: 346, Mismatches: 50, Indels: 21
0.83 0.12 0.05
Matches are distributed among these distances:
224 20 0.06
225 73 0.21
226 164 0.47
227 88 0.25
228 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (225 bp):
GCTATTAATATACTTTAACGGCGGTTTACCATAAACGCCACTAATTTAAGATACATCAAGATCAA
AACACTGCGTTTTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTTACTTTAA
CGGCGTTTCGCTAAGCGCCACTAATTCTAGTATACATCAAGACCAAAACGATGCGTTTCGCTTAA
GATAGTTTGCGGCGCTTCTCACAAAGCGCC
Found at i:9503979 original size:338 final size:339
Alignment explanation
Indices: 9503349--9503992 Score: 752
Period size: 338 Copynumber: 1.9 Consensus size: 339
9503339 TATTAATATT
* * * * *
9503349 CTTTAGCGGCGGTTTACCGTAAGCGCCACTAATTTTATATACATTAAGATCAAAACACTGCGTTT
1 CTTTAGCGGCGGTTTACCATAAGCGCCACTAATTCTATATAAATCAAGACCAAAACACTGCGTTT
* * * * *
9503414 TTGTTAAGATATTTTGCGGCGCTAGCTACAAATCGCCGCTAATACTATGCTTTAACGGCGTTTCA
66 TCGTTAAGATAGTTTGCGGCGCTAGCCACAAAGCGCCGCTAATACTATACTTTAACGGCGTTTCA
* ** * * *
9503479 CTAAGCGCCACTAATTCTACTATACATCGAGGCCAAAATTATGCGTTTTGGTTAAGATATTTTGC
131 CTAAACGCCACTAATTCTAAGATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
* * *
9503544 GGCGCTTCTCACAAAGCGCCGCTATTAATATTCTTTAGCGGCGGTTTACCGTAAGCGCCACTAAT
196 GGCGCTTCTCACAAAGCGCCGCTATTAATATCCTTTAACGGCGGTTTACCGTAAACGCCACTAAT
* * * * *
9503609 TTTATATACATTAAGATCAAAACGCTGCGTTTT-GTTAAGATATTTTGTGGCGCTAGCTACAAAT
261 TTTAGATACATCAAGATCAAAACACAGCGTTTTGGTTAAGAGATTTTGTGGCGCTAGCTACAAAT
9503673 CGCCGCTAATACTA
326 CGCCGCTAATACTA
* * *
9503687 CTTTAGCGGC-GTTTGACCATATGCGCCACTAGTTCTAGTATAAATCAAGACCAAAACGA-TGTG
1 CTTTAGCGGCGGTTT-ACCATAAGCGCCACTAATTCTA-TATAAATCAAGACCAAAAC-ACTGCG
* * * * *
9503750 -TTTCGCTTAAGATAGTTTGCGGCGCT-TCCATAAAGCGTCGCTATTACTGTACTTTAACGGCGT
63 TTTTCG-TTAAGATAGTTTGCGGCGCTAGCCACAAAGCGCCGCTAATACTATACTTTAACGGCG-
* * *
9503813 TTTC-CTATAAACGCCACTAATTCTAAGATACCTCAAGACC-AAACTCTGCGTTTTGGTTAAGCT
126 TTTCAC--TAAACGCCACTAATTCTAAGATACATCAAGACCAAAACTATGCGTTTTGGTTAAGAT
* * * * *
9503876 ATTTTGCGGCGTTTC-CAGAAAGCGCCGCTATTACTGTCCTTTAATGGC-GTTT-CGCGTAAACG
189 ATTTTGCGGCGCTTCTCACAAAGCGCCGCTATTAATATCCTTTAACGGCGGTTTAC-CGTAAACG
*
9503938 CCACTACTTTTAAGATACATCAAGA-CGAAAACACAGCGTTTTGGTTAAGAGATTT
253 CCACTAATTTT-AGATACATCAAGATC-AAAACACAGCGTTTTGGTTAAGAGATTT
9503993 CGCGGCGCAT
Statistics
Matches: 254, Mismatches: 41, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
336 1 0.00
337 26 0.10
338 112 0.44
339 87 0.34
340 28 0.11
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (339 bp):
CTTTAGCGGCGGTTTACCATAAGCGCCACTAATTCTATATAAATCAAGACCAAAACACTGCGTTT
TCGTTAAGATAGTTTGCGGCGCTAGCCACAAAGCGCCGCTAATACTATACTTTAACGGCGTTTCA
CTAAACGCCACTAATTCTAAGATACATCAAGACCAAAACTATGCGTTTTGGTTAAGATATTTTGC
GGCGCTTCTCACAAAGCGCCGCTATTAATATCCTTTAACGGCGGTTTACCGTAAACGCCACTAAT
TTTAGATACATCAAGATCAAAACACAGCGTTTTGGTTAAGAGATTTTGTGGCGCTAGCTACAAAT
CGCCGCTAATACTA
Found at i:9504168 original size:12 final size:12
Alignment explanation
Indices: 9504151--9504177 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9504141 TTAGTCCCTA
9504151 ACACATAGGAAC
1 ACACATAGGAAC
9504163 ACACATAGGAAC
1 ACACATAGGAAC
9504175 ACA
1 ACA
9504178 TTTAGTCTAC
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:0.52, C:0.26, G:0.15, T:0.07
Consensus pattern (12 bp):
ACACATAGGAAC
Found at i:9510022 original size:56 final size:56
Alignment explanation
Indices: 9509961--9510072 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
9509951 TTTAGCCTTC
*
9509961 TCTTTCCTTTTTCCTTCAATTAGGTCCTCTCCTTTCTTTTCTTTCTCTTCAATTTT
1 TCTTTCCCTTTTCCTTCAATTAGGTCCTCTCCTTTCTTTTCTTTCTCTTCAATTTT
9510017 TCTTTCCCTTTTCCTTCAATTAGGTCCTCTCCTTTCTTTTCTTTCTCTTCAATTTT
1 TCTTTCCCTTTTCCTTCAATTAGGTCCTCTCCTTTCTTTTCTTTCTCTTCAATTTT
9510073 CATAACAAAT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.09, C:0.29, G:0.04, T:0.58
Consensus pattern (56 bp):
TCTTTCCCTTTTCCTTCAATTAGGTCCTCTCCTTTCTTTTCTTTCTCTTCAATTTT
Found at i:9510869 original size:7 final size:7
Alignment explanation
Indices: 9510857--9510950 Score: 71
Period size: 7 Copynumber: 13.4 Consensus size: 7
9510847 GTAATATATA
9510857 TAGGGTT
1 TAGGGTT
9510864 TAGGGTT
1 TAGGGTT
* *
9510871 TAGGATG
1 TAGGGTT
* *
9510878 TATGATT
1 TAGGGTT
*
9510885 CAGGGTT
1 TAGGGTT
*
9510892 TAGGATT
1 TAGGGTT
*
9510899 TAGGGTA
1 TAGGGTT
* *
9510906 TATGATT
1 TAGGGTT
9510913 TAGGGTT
1 TAGGGTT
*
9510920 TAGGGTA
1 TAGGGTT
*
9510927 TAGTGTT
1 TAGGGTT
**
9510934 TAGACTT
1 TAGGGTT
9510941 TAGGGTT
1 TAGGGTT
9510948 TAG
1 TAG
9510951 AGATAAAATT
Statistics
Matches: 64, Mismatches: 23, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 64 1.00
ACGTcount: A:0.22, C:0.02, G:0.34, T:0.41
Consensus pattern (7 bp):
TAGGGTT
Found at i:9510900 original size:28 final size:28
Alignment explanation
Indices: 9510858--9510923 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
9510848 TAATATATAT
* *
9510858 AGGGTTTAGGGTTTAGGATGTATGATTC
1 AGGGTTTAGGATTTAGGATATATGATTC
* *
9510886 AGGGTTTAGGATTTAGGGTATATGATTT
1 AGGGTTTAGGATTTAGGATATATGATTC
9510914 AGGGTTTAGG
1 AGGGTTTAGG
9510924 GTATAGTGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.23, C:0.02, G:0.36, T:0.39
Consensus pattern (28 bp):
AGGGTTTAGGATTTAGGATATATGATTC
Found at i:9517741 original size:23 final size:23
Alignment explanation
Indices: 9517715--9517772 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
9517705 TTTGGTGGCG
9517715 TGTCATACATGTGAATGGTCGCA
1 TGTCATACATGTGAATGGTCGCA
* * *
9517738 TGTCATACATGTGGATGTTCGCG
1 TGTCATACATGTGAATGGTCGCA
9517761 TGT-ATGACATGT
1 TGTCAT-ACATGT
9517773 TAGCAATTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (23 bp):
TGTCATACATGTGAATGGTCGCA
Found at i:9520846 original size:20 final size:20
Alignment explanation
Indices: 9520821--9520884 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
9520811 GAAAATGTAA
9520821 ATTTTGAAATTTTTACAAA-T
1 ATTTTGAAATTTTTA-AAATT
*
9520841 ATTTTGAAA-TTTAAAAATT
1 ATTTTGAAATTTTTAAAATT
*
9520860 ATTTTGAATTTTTTAAAATT
1 ATTTTGAAATTTTTAAAATT
9520880 ATTTT
1 ATTTT
9520885 TTTATTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
18 3 0.08
19 13 0.33
20 23 0.59
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAATT
Found at i:9527430 original size:18 final size:19
Alignment explanation
Indices: 9527393--9527429 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9527383 TTTTAAAAAA
9527393 TATAAAT-TTTAGAATTTT
1 TATAAATATTTAGAATTTT
*
9527411 TATAAATATTTTGAATTTT
1 TATAAATATTTAGAATTTT
9527430 AAAAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAATATTTAGAATTTT
Found at i:9527435 original size:18 final size:21
Alignment explanation
Indices: 9527361--9527440 Score: 60
Period size: 25 Copynumber: 3.8 Consensus size: 21
9527351 TTCTTTATAT
* * *
9527361 ATTTTTTAGAATT-TTTTATA
1 ATTTTTAAAAATTATTTTAGA
9527381 ATTTTTAAAAAATATAAATTTTAGA
1 ATTTTT-AAAAAT-T--ATTTTAGA
*
9527406 ATTTTTATAAA-TATTTT-GA
1 ATTTTTAAAAATTATTTTAGA
9527425 A-TTTTAAAAATTATTT
1 ATTTTTAAAAATTATTT
9527441 AAAATTATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
18 8 0.16
19 8 0.16
20 11 0.22
21 4 0.08
22 2 0.04
24 4 0.08
25 12 0.24
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (21 bp):
ATTTTTAAAAATTATTTTAGA
Found at i:9527439 original size:19 final size:20
Alignment explanation
Indices: 9527398--9527440 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
9527388 AAAAATATAA
*
9527398 ATTTTAGAATTTTTATAAAT
1 ATTTTAGAATTTTTAAAAAT
9527418 ATTTT-GAA-TTTTAAAAATT
1 ATTTTAGAATTTTTAAAAA-T
9527437 ATTT
1 ATTT
9527441 AAAATTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (20 bp):
ATTTTAGAATTTTTAAAAAT
Found at i:9532660 original size:21 final size:21
Alignment explanation
Indices: 9532620--9532675 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
9532610 GGAGCAGAGA
**
9532620 TATCAATACTTGCT-AAAAGG
1 TATCAATACTTTTTGAAAAGG
9532640 TAT-AGATACTTTTTGAAAAGG
1 TATCA-ATACTTTTTGAAAAGG
9532661 TATCAATACTTTTTG
1 TATCAATACTTTTTG
9532676 TCATTGTTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 1 0.03
20 10 0.32
21 19 0.61
22 1 0.03
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (21 bp):
TATCAATACTTTTTGAAAAGG
Found at i:9533101 original size:32 final size:32
Alignment explanation
Indices: 9533058--9533124 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
9533048 ATTTTAAAAA
*
9533058 TTATATTTAATACAATATAACAATTATTATAT
1 TTATATTTAATACAATAAAACAATTATTATAT
* * * * *
9533090 TTATTTTTAATATAATAAAATATTTATTTTAT
1 TTATATTTAATACAATAAAACAATTATTATAT
9533122 TTA
1 TTA
9533125 CAATAGTTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (32 bp):
TTATATTTAATACAATAAAACAATTATTATAT
Found at i:9533393 original size:26 final size:26
Alignment explanation
Indices: 9533353--9533413 Score: 104
Period size: 26 Copynumber: 2.3 Consensus size: 26
9533343 GAGCTACTAT
9533353 TATCCAAATGCTAATGAAAGTCTTGA
1 TATCCAAATGCTAATGAAAGTCTTGA
* *
9533379 TATCCAAATGTTAATGAAAGTCTTGT
1 TATCCAAATGCTAATGAAAGTCTTGA
9533405 TATCCAAAT
1 TATCCAAAT
9533414 TCCCTCTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (26 bp):
TATCCAAATGCTAATGAAAGTCTTGA
Found at i:9536951 original size:69 final size:68
Alignment explanation
Indices: 9536876--9537022 Score: 177
Period size: 68 Copynumber: 2.1 Consensus size: 68
9536866 AGTGAAAATC
* * * *
9536876 AACACATTTGAACAGCTTAATTAATTAAATAAAACCACATAATTGACAGCACATTTGGACAGTGA
1 AACACATTTGAACAGCTTAATTAACT-AATAAAACAACATAAATGACAGCACATTAGGACAGTGA
9536941 ATTT
65 ATTT
* * * * * * *
9536945 AGCACATTTGGATAGCTTTATTGACTAATAAAACAACATAAATGACGGGACATTAGGACAGTGAA
1 AACACATTTGAACAGCTTAATTAACTAATAAAACAACATAAATGACAGCACATTAGGACAGTGAA
9537010 TTT
66 TTT
*
9537013 AACAAATTTG
1 AACACATTTG
9537023 CACAAGCAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
68 45 0.69
69 20 0.31
ACGTcount: A:0.42, C:0.14, G:0.15, T:0.29
Consensus pattern (68 bp):
AACACATTTGAACAGCTTAATTAACTAATAAAACAACATAAATGACAGCACATTAGGACAGTGAA
TTT
Found at i:9540219 original size:24 final size:24
Alignment explanation
Indices: 9540166--9540219 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
9540156 AATCAAAAAA
* **
9540166 AGAAAAAGCATTCCAAAATCAATG
1 AGAAAAAGCAATCCAAAAGAAATG
9540190 AGAAAAAGCAATCCAAAAGAAAT-
1 AGAAAAAGCAATCCAAAAGAAATG
9540213 AGAAAAA
1 AGAAAAA
9540220 TATGAATTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 7 0.26
24 20 0.74
ACGTcount: A:0.63, C:0.13, G:0.13, T:0.11
Consensus pattern (24 bp):
AGAAAAAGCAATCCAAAAGAAATG
Found at i:9543248 original size:19 final size:19
Alignment explanation
Indices: 9543217--9543259 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
9543207 GGGTATATAA
9543217 TTAA-TTAAATTAT-TTAAT
1 TTAATTTAAATTATATT-AT
*
9543235 TTAATTTAATTTATATTAT
1 TTAATTTAAATTATATTAT
9543254 TTAATT
1 TTAATT
9543260 ATATTGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 4 0.18
19 16 0.73
20 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
TTAATTTAAATTATATTAT
Found at i:9543255 original size:14 final size:13
Alignment explanation
Indices: 9543217--9543264 Score: 57
Period size: 13 Copynumber: 3.8 Consensus size: 13
9543207 GGGTATATAA
*
9543217 TTAATTAAATTAT
1 TTAATTATATTAT
9543230 TTAATT-TA--AT
1 TTAATTATATTAT
9543240 TTAATTTATATTAT
1 TTAA-TTATATTAT
9543254 TTAATTATATT
1 TTAATTATATT
9543265 GTACATTTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
10 6 0.20
11 2 0.07
12 3 0.10
13 13 0.43
14 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTATATTAT
Found at i:9545817 original size:21 final size:21
Alignment explanation
Indices: 9545792--9545840 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
9545782 GAAGGGTAGT
*
9545792 ACACGGCCGTGTGACAG-AGGC
1 ACACGGCCGAGTGA-AGTAGGC
* *
9545813 ACACGTCCGAGTGAAGTAGGG
1 ACACGGCCGAGTGAAGTAGGC
9545834 ACACGGC
1 ACACGGC
9545841 TGTTTGAAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.27, C:0.27, G:0.37, T:0.10
Consensus pattern (21 bp):
ACACGGCCGAGTGAAGTAGGC
Found at i:9546127 original size:60 final size:59
Alignment explanation
Indices: 9545948--9546133 Score: 171
Period size: 60 Copynumber: 3.1 Consensus size: 59
9545938 GCCACAGCCA
* * * *
9545948 TGTGTCCCATAACACACGCCCGTGTTGAATCCCT-A-GGCCCCAAATCAGTCACATGGTCA
1 TGTGTCCCATAACACACGCCCGTGTGGAA-CCCTAATTG-CCCAAATCAGTCACATGGCCG
* * * * ** * * * *
9546007 TGTGTCCCGA-AGCATAGGCTCGTGTGGGAACCCTAATTTTCAAAATTAGTTACATAGCCG
1 TGTGTCCC-ATAACACACGCCCGTGT-GGAACCCTAATTGCCCAAATCAGTCACATGGCCG
*
9546067 TGTGTCCCATAACACACGCCCGTGTGGAAGCCCTAATTGCCCAAATCAGTCACACGGCCG
1 TGTGTCCCATAACACACGCCCGTGTGGAA-CCCTAATTGCCCAAATCAGTCACATGGCCG
9546127 TGTGTCC
1 TGTGTCC
9546134 AATGGACACG
Statistics
Matches: 96, Mismatches: 25, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
59 28 0.29
60 68 0.71
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.24
Consensus pattern (59 bp):
TGTGTCCCATAACACACGCCCGTGTGGAACCCTAATTGCCCAAATCAGTCACATGGCCG
Found at i:9553699 original size:47 final size:49
Alignment explanation
Indices: 9553616--9553749 Score: 147
Period size: 46 Copynumber: 2.8 Consensus size: 49
9553606 TGTAACCCGC
* * *
9553616 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTA-CAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTAGCAT
*
9553666 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTAGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTAGCAT
* *
9553709 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGATGCC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC
9553750 CAAATATCCC
Statistics
Matches: 70, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
42 3 0.04
43 4 0.06
44 2 0.03
45 2 0.03
46 28 0.40
47 27 0.39
48 2 0.03
49 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTAGCAT
Found at i:9553865 original size:29 final size:29
Alignment explanation
Indices: 9553823--9553879 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
9553813 TCCCAATCAT
9553823 GTGTCTCAACCATCTTCTACGGAATGCCC
1 GTGTCTCAACCATCTTCTACGGAATGCCC
*
9553852 GTGTCTTAACCATCTTCTACGGAATGCC
1 GTGTCTCAACCATCTTCTACGGAATGCC
9553880 GATACCGATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.21, C:0.32, G:0.18, T:0.30
Consensus pattern (29 bp):
GTGTCTCAACCATCTTCTACGGAATGCCC
Found at i:9555086 original size:18 final size:18
Alignment explanation
Indices: 9555063--9555105 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
9555053 AAATCAGGAT
9555063 ATTACAGGGTTACAGAGC
1 ATTACAGGGTTACAGAGC
9555081 ATTACAGGGTTACAGAGC
1 ATTACAGGGTTACAGAGC
9555099 ATTACAG
1 ATTACAG
9555106 TGCATAATAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (18 bp):
ATTACAGGGTTACAGAGC
Found at i:9568106 original size:40 final size:44
Alignment explanation
Indices: 9568055--9568164 Score: 120
Period size: 44 Copynumber: 2.6 Consensus size: 44
9568045 TGAGTCTGCC
* * *
9568055 CCACTGTAACTTCAGGGAGATAAGA-CT-AG-ATGTGATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATCTAAGTATGTAATCTACT
* * * * *
9568096 -CTCTGCAACTTCAGAGAGATAACATCTAAGTTTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATCTAAGTATGTAATCTACT
9568139 CCACTGCAACTTCAGGGAGATAAGAT
1 CCACTGCAACTTCAGGGAGATAAGAT
9568165 TTGCCGTCGT
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
40 20 0.37
41 2 0.04
42 2 0.04
43 8 0.15
44 22 0.41
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATCTAAGTATGTAATCTACT
Found at i:9568639 original size:267 final size:267
Alignment explanation
Indices: 9568158--9568647 Score: 755
Period size: 267 Copynumber: 1.8 Consensus size: 267
9568148 CTTCAGGGAG
* * *
9568158 ATAAGATTTGCCGTCGTGGCTTCAATCTGCTCCGCTACAACGCCAGGGAAGTAAGATTCACTGCC
1 ATAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAGATTCACTGCC
* ** *
9568223 GTGGTTTCAATCTGCTCTATTGTAATGCTAAAGAGATAGAATTTGCTGCCCACAGCTTTAATCCG
66 GTGGTTTCAATCTGCTCCACCGTAATGCTAAAGAGATAGAATTCGCTGCCCACAGCTTTAATCCG
* *
9568288 CTCCACTTCAGCTAATCCAAGCCTTAACGCTAGAAAGATAAGATTCACCGTCGTGGCTTCAATCT
131 CTCCACTTCAGATAATCCAAGCCTTAACACTAGAAAGATAAGATTCACCGTCGTGGCTTCAATCT
*
9568353 ACTCCGCTACAACGCCAGGGAAGTAAGACTCGCCGTCACAGCTTCAGTCTTTTAAATTGATATGT
196 ACTCCGCTACAACGCCAGGGAAATAAGACTCGCCGTCACAGCTTCAGTCTTTTAAATTGATATGT
9568418 TGAGGAA
261 TGAGGAA
* * * * * **
9568425 ATAAGATTCGCCGTCGTAGCTTCAATCTGTTCTACTACACCGTCAGGGGAGTAAGATTCACTGTT
1 ATAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAGATTCACTGCC
*
9568490 GTGGTTTCAATCTGCTCCACCGTAATGCTAAAGAGATAGGATTCGCTGCCCACAGCTTTAATCCG
66 GTGGTTTCAATCTGCTCCACCGTAATGCTAAAGAGATAGAATTCGCTGCCCACAGCTTTAATCCG
* * ** *
9568555 CTCCACTTCAGATAATCCTAGCCTTAATACTAGGGAGATAAGATTCGCCGTCGTGGCTTCAATCT
131 CTCCACTTCAGATAATCCAAGCCTTAACACTAGAAAGATAAGATTCACCGTCGTGGCTTCAATCT
* *
9568620 GCTCCGCTACAATGCCAGGGAAATAAGA
196 ACTCCGCTACAACGCCAGGGAAATAAGA
9568648 TTCGTCGTTG
Statistics
Matches: 198, Mismatches: 25, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
267 198 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (267 bp):
ATAAGATTCGCCGTCGTAGCTTCAATCTGCTCCACTACAACGCCAGGGAAGTAAGATTCACTGCC
GTGGTTTCAATCTGCTCCACCGTAATGCTAAAGAGATAGAATTCGCTGCCCACAGCTTTAATCCG
CTCCACTTCAGATAATCCAAGCCTTAACACTAGAAAGATAAGATTCACCGTCGTGGCTTCAATCT
ACTCCGCTACAACGCCAGGGAAATAAGACTCGCCGTCACAGCTTCAGTCTTTTAAATTGATATGT
TGAGGAA
Found at i:9580654 original size:20 final size:19
Alignment explanation
Indices: 9580628--9580666 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
9580618 TAAATTAATA
9580628 AAAAAAATGAAAGAACTAAAT
1 AAAAAAAT-AAAGAA-TAAAT
9580649 AAAAAAATAAAGAATAAA
1 AAAAAAATAAAGAATAAA
9580667 AGGTACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.77, C:0.03, G:0.08, T:0.13
Consensus pattern (19 bp):
AAAAAAATAAAGAATAAAT
Found at i:9583004 original size:12 final size:12
Alignment explanation
Indices: 9582966--9583007 Score: 54
Period size: 11 Copynumber: 3.7 Consensus size: 12
9582956 TTAAATATGG
9582966 ATTTGAGA-GAA
1 ATTTGAGAGGAA
9582977 ATTTG-GAAGG-A
1 ATTTGAG-AGGAA
9582988 ATTTGAGAGGAA
1 ATTTGAGAGGAA
9583000 ATTTGAGA
1 ATTTGAGA
9583008 TAGGATTAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
10 1 0.04
11 15 0.56
12 11 0.41
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (12 bp):
ATTTGAGAGGAA
Found at i:9586535 original size:14 final size:16
Alignment explanation
Indices: 9586503--9586535 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
9586493 TTTTAAATAA
9586503 TTTTATATATATAATT
1 TTTTATATATATAATT
*
9586519 TTTTATAT-TATTATT
1 TTTTATATATATAATT
9586534 TT
1 TT
9586536 GAAATCAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTATATATATAATT
Found at i:9594968 original size:20 final size:20
Alignment explanation
Indices: 9594939--9594978 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
9594929 TATTTTCCTT
*
9594939 TGTATTTTCCTCTTATCTTA
1 TGTATCTTCCTCTTATCTTA
9594959 TGTATCTTCCTCTTATCTTA
1 TGTATCTTCCTCTTATCTTA
9594979 CACATGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.57
Consensus pattern (20 bp):
TGTATCTTCCTCTTATCTTA
Found at i:9598606 original size:9 final size:9
Alignment explanation
Indices: 9598590--9598675 Score: 93
Period size: 9 Copynumber: 9.0 Consensus size: 9
9598580 CTTTGTGTTG
9598590 TAATTTTTA
1 TAATTTTTA
*
9598599 TGATTTTTA
1 TAATTTTTA
9598608 TAATTTTTA
1 TAATTTTTA
9598617 -AATTATATTA
1 TAATT-T-TTA
*
9598627 TAAGTTTTGA
1 TAA-TTTTTA
9598637 TAATTTTTA
1 TAATTTTTA
9598646 TAAATTTTTTTA
1 T-AA--TTTTTA
9598658 TAATTTTTA
1 TAATTTTTA
9598667 TAATTTTTA
1 TAATTTTTA
9598676 AAATACTACA
Statistics
Matches: 66, Mismatches: 4, Indels: 14
0.79 0.05 0.17
Matches are distributed among these distances:
8 4 0.06
9 38 0.58
10 10 0.15
11 5 0.08
12 9 0.14
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
TAATTTTTA
Found at i:9598627 original size:19 final size:19
Alignment explanation
Indices: 9598593--9598674 Score: 87
Period size: 21 Copynumber: 4.2 Consensus size: 19
9598583 TGTGTTGTAA
*
9598593 TTTTTATGATTTTTATAA-
1 TTTTTATAATTTTTATAAT
*
9598611 TTTTTA-AATTATATTATAAG
1 TTTTTATAATT-T-TTATAAT
*
9598631 TTTTGATAATTTTTATAAATT
1 TTTTTATAATTTTTAT-AA-T
9598652 TTTTTATAATTTTTATAAT
1 TTTTTATAATTTTTATAAT
9598671 TTTT
1 TTTT
9598675 AAAATACTAC
Statistics
Matches: 54, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
17 3 0.06
18 7 0.13
19 15 0.28
20 10 0.19
21 19 0.35
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAT
Found at i:9598657 original size:12 final size:11
Alignment explanation
Indices: 9598602--9598674 Score: 52
Period size: 10 Copynumber: 7.3 Consensus size: 11
9598592 ATTTTTATGA
9598602 TTTTTATAA--
1 TTTTTATAATT
9598611 TTTTTA-AATT
1 TTTTTATAATT
* * *
9598621 ATATTATAA-G
1 TTTTTATAATT
*
9598631 TTTTGATAATT
1 TTTTTATAATT
*
9598642 TTTATA-AATT
1 TTTTTATAATT
9598652 TTTTTATAA--
1 TTTTTATAATT
9598661 TTTTTATAATT
1 TTTTTATAATT
9598672 TTT
1 TTT
9598675 AAAATACTAC
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
8 2 0.04
9 15 0.32
10 19 0.40
11 11 0.23
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (11 bp):
TTTTTATAATT
Found at i:9602154 original size:33 final size:33
Alignment explanation
Indices: 9602107--9602170 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
9602097 ACATGTCCTA
* * *
9602107 TACCAGTGTCTTCGTCATCGAATCTAACCCCTT
1 TACCAATGTATTCGTCATCGAATCCAACCCCTT
* *
9602140 TACCAATGTATTCGTCTTCTAATCCAACCCC
1 TACCAATGTATTCGTCATCGAATCCAACCCC
9602171 AAGTGACCTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.23, C:0.34, G:0.09, T:0.33
Consensus pattern (33 bp):
TACCAATGTATTCGTCATCGAATCCAACCCCTT
Found at i:9605528 original size:33 final size:33
Alignment explanation
Indices: 9605490--9605556 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
9605480 CCAATCAAAC
9605490 AAAGATTTAGCCCAAAAGAAAAAAAGGGGAAAG
1 AAAGATTTAGCCCAAAAGAAAAAAAGGGGAAAG
*
9605523 AAAGATTTAGCCCAGAAGAAAAAAAGGGGAAAG
1 AAAGATTTAGCCCAAAAGAAAAAAAGGGGAAAG
9605556 A
1 A
9605557 GTGATGACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.57, C:0.09, G:0.25, T:0.09
Consensus pattern (33 bp):
AAAGATTTAGCCCAAAAGAAAAAAAGGGGAAAG
Found at i:9605863 original size:3 final size:3
Alignment explanation
Indices: 9605857--9605883 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9605847 TTTTTTTGGT
9605857 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
9605884 AAGAAGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:9606220 original size:6 final size:6
Alignment explanation
Indices: 9606205--9606259 Score: 101
Period size: 6 Copynumber: 9.2 Consensus size: 6
9606195 TTCAGGTTTA
*
9606205 GCGGTC GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT
1 GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT GCGGTT
9606253 GCGGTT G
1 GCGGTT G
9606260 GGGCATTTGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 48 1.00
ACGTcount: A:0.00, C:0.18, G:0.51, T:0.31
Consensus pattern (6 bp):
GCGGTT
Found at i:9608003 original size:24 final size:23
Alignment explanation
Indices: 9607975--9608038 Score: 60
Period size: 22 Copynumber: 2.8 Consensus size: 23
9607965 TAGGGTAGAG
*
9607975 TATAAATCTTTATAATTTGTTATA
1 TATAAATCTTTATAATTTGATA-A
* *
9607999 TATAATTCAATT-TAA-TTGATAA
1 TATAAATC-TTTATAATTTGATAA
*
9608021 TATAAATCTTTATGATTT
1 TATAAATCTTTATAATTT
9608039 ATTTTATTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
21 2 0.06
22 10 0.32
23 7 0.23
24 10 0.32
25 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (23 bp):
TATAAATCTTTATAATTTGATAA
Found at i:9613819 original size:38 final size:38
Alignment explanation
Indices: 9613777--9613902 Score: 110
Period size: 38 Copynumber: 3.2 Consensus size: 38
9613767 TTTTTTTTAA
9613777 AAAAAATGATTGTACAAAAATAAAAAATATTAACTTTT
1 AAAAAATGATTGTACAAAAATAAAAAATATTAACTTTT
* * ** * * ***
9613815 AAAAAATAAAATAAT-TACACTATTTAGAAATTAATTTTTTTTT
1 AAAAAAT--GAT--TGTACA-AAAATAAAAAAT-ATTAACTTTT
9613858 AAAAAATGATTGTACAAAAATAAAAAATATTAACTTTT
1 AAAAAATGATTGTACAAAAATAAAAAATATTAACTTTT
9613896 AAAAAAT
1 AAAAAAT
9613903 AAAATAATTA
Statistics
Matches: 63, Mismatches: 18, Indels: 14
0.66 0.19 0.15
Matches are distributed among these distances:
38 21 0.33
39 8 0.13
40 6 0.10
41 6 0.10
42 8 0.13
43 14 0.22
ACGTcount: A:0.56, C:0.05, G:0.04, T:0.35
Consensus pattern (38 bp):
AAAAAATGATTGTACAAAAATAAAAAATATTAACTTTT
Found at i:9613826 original size:43 final size:42
Alignment explanation
Indices: 9613775--9613907 Score: 121
Period size: 42 Copynumber: 3.2 Consensus size: 42
9613765 AATTTTTTTT
9613775 AAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTAA
1 AAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTAA
* ** ** * * **
9613817 AAAATAAAAT-AAT-TAC-ACTATTTAGAA-ATTAATTTTTTT
1 AAAA-AAAATGATTGTACAAAAATAAAAAATATTAACTTTTAA
**
9613856 TTAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTAA
1 AAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTAA
9613898 AAAATAAAAT
1 AAAA-AAAAT
9613908 AATTAAAAAT
Statistics
Matches: 63, Mismatches: 22, Indels: 11
0.66 0.23 0.11
Matches are distributed among these distances:
38 5 0.08
39 13 0.21
40 9 0.14
41 9 0.14
42 17 0.27
43 10 0.16
ACGTcount: A:0.58, C:0.05, G:0.04, T:0.34
Consensus pattern (42 bp):
AAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTAA
Found at i:9613873 original size:81 final size:82
Alignment explanation
Indices: 9613751--9613912 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 82
9613741 AAAAAAATTT
9613751 ACTATTTAGAAATTAATTTTTTTTAAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTA
1 ACTATTTAGAAATTAATTTTTTTTAAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTA
9613816 AAAAATAAAATAATTAC
66 AAAAATAAAATAATTAC
*
9613833 ACTATTTAGAAATTAATTTTTTTT-TAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTA
1 ACTATTTAGAAATTAATTTTTTTTAAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTA
9613897 AAAAATAAAATAATTA
66 AAAAATAAAATAATTA
9613913 AAAATTATAA
Statistics
Matches: 79, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
81 55 0.70
82 24 0.30
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (82 bp):
ACTATTTAGAAATTAATTTTTTTTAAAAAAAATGATTGTACAAAAATAAAAAATATTAACTTTTA
AAAAATAAAATAATTAC
Found at i:9618573 original size:127 final size:127
Alignment explanation
Indices: 9618347--9618601 Score: 501
Period size: 127 Copynumber: 2.0 Consensus size: 127
9618337 TCGGTTATTT
9618347 AGAATTAACAAATAAAATCGAAACCCAATATGTTAGGGCTCAATTTTTCTTGAAAATCCCTAACT
1 AGAATTAACAAATAAAATCGAAACCCAATATGTTAGGGCTCAATTTTTCTTGAAAATCCCTAACT
9618412 TTGAATATCATTTTTATTTTGAAAACCTTTAAATCATCATAAAAAAATTAATGTTTTGACAA
66 TTGAATATCATTTTTATTTTGAAAACCTTTAAATCATCATAAAAAAATTAATGTTTTGACAA
9618474 AGAATTAACAAATAAAATCGAAACCCAATATGTTAGGGCTCAATTTTTCTTGAAAATCCCTAACT
1 AGAATTAACAAATAAAATCGAAACCCAATATGTTAGGGCTCAATTTTTCTTGAAAATCCCTAACT
*
9618539 TTGAATATCGTTTTTATTTTGAAAACCTTTAAATCATCATAAAAAAATTAATGTTTTGACAA
66 TTGAATATCATTTTTATTTTGAAAACCTTTAAATCATCATAAAAAAATTAATGTTTTGACAA
9618601 A
1 A
9618602 ATCAAAATAT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (127 bp):
AGAATTAACAAATAAAATCGAAACCCAATATGTTAGGGCTCAATTTTTCTTGAAAATCCCTAACT
TTGAATATCATTTTTATTTTGAAAACCTTTAAATCATCATAAAAAAATTAATGTTTTGACAA
Found at i:9619304 original size:25 final size:23
Alignment explanation
Indices: 9619276--9619335 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 23
9619266 ATTTGTACAT
9619276 ATTATAAAAATGTATAAACAT-ATGA
1 ATTATAAAAATG-A-AAACATAAT-A
9619301 ATTATAAAACATGAAAACATAAATA
1 ATTATAAAA-ATGAAAACAT-AATA
9619326 ATTATAAAAA
1 ATTATAAAAA
9619336 ATATGAATGT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
24 7 0.22
25 20 0.62
26 5 0.16
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (23 bp):
ATTATAAAAATGAAAACATAATA
Found at i:9619317 original size:75 final size:73
Alignment explanation
Indices: 9619202--9619341 Score: 176
Period size: 75 Copynumber: 1.9 Consensus size: 73
9619192 ACATAAAAAC
* * * *
9619202 TATTATAAAAATATATACATATGTATATAAAGCTAAGAAAA-ATAAAATAATAATAAAATATATG
1 TATTATAAAAATATAAACATATGAATATAAAACTAAGAAAACAT-AAATAATAATAAAAAATATG
9619266 ATTTGTACA
65 ATTTGTACA
* *
9619275 TATTATAAAAATGTATAAACATATGAATTATAAAAC-ATGAAAACATAAATAATTATAAAAAATA
1 TATTATAAAAA--TATAAACATATGAA-TATAAAACTAAGAAAACATAAATAATAATAAAAAATA
9619339 TGA
63 TGA
9619342 ATGTATATAA
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
73 11 0.19
75 37 0.65
76 9 0.16
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (73 bp):
TATTATAAAAATATAAACATATGAATATAAAACTAAGAAAACATAAATAATAATAAAAAATATGA
TTTGTACA
Found at i:9619431 original size:24 final size:22
Alignment explanation
Indices: 9619400--9619455 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
9619390 TATACGCACT
* * *
9619400 ATATATATATTTA-AAACATTT
1 ATATATATATATATTAACATAT
9619421 ATATAATATATATATTAACATAT
1 ATAT-ATATATATATTAACATAT
9619444 ATATATATATAT
1 ATATATATATAT
9619456 GCGCACATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 4 0.13
22 16 0.53
23 10 0.33
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (22 bp):
ATATATATATATATTAACATAT
Found at i:9619508 original size:24 final size:25
Alignment explanation
Indices: 9619480--9619530 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
9619470 ATACAATAAT
*
9619480 AATAATAT-AATAAT-TATACTAAAA
1 AATAATATAAACAATATATA-TAAAA
9619504 AATAATATAAACAATATATATAAAA
1 AATAATATAAACAATATATATAAAA
9619529 AA
1 AA
9619531 ACTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 12 0.50
26 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (25 bp):
AATAATATAAACAATATATATAAAA
Found at i:9621139 original size:101 final size:101
Alignment explanation
Indices: 9620965--9622070 Score: 1423
Period size: 101 Copynumber: 11.0 Consensus size: 101
9620955 CGTAATGTCA
* * * * * * *
9620965 GGGAAACAAGATTCACCGTAGTAGCTTCAATCTGTTCC-ACTACGCC-ATCAGGGAAGTAAGATT
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCT-AAGGAAGTAAGATT
9621028 CGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
65 CGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
* * * *
9621065 GGGAACCCAGATCCGCCGTCGTGGCTTCAATCTGTTCCAACTACACCACTAAGAAAGTAAGATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
9621130 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
* * *
9621166 GGGAAACCAGATCCGCCGTCGTGGCTTCAATCTGTTCCAACTACACCACTAAGAAAGTAAGATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
9621231 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
* * * *
9621267 GGGAAACCAGATCCGCCGTCGTGGCTTTAATCTGTTCCAACTACACCGCCAAAGAAGTAAGATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
* *
9621332 GCCATTGTGGCTTCAATCTTTTTAATTGCAATGTCT
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
** ** *
9621368 GGGAAATAAGATCAACCGTCGTAGCTTCAATCTGTTCCAACTACACCGCCAAGGAAGTAAGATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
*
9621433 GCCGTTGTGACTTCAATCTTTTTAATTGCAATGACT
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
* * *
9621469 GGGAAACCAGATCCGCCGTCGTAGCTTCAATATGTTCC-ACTGCACCGCTAGGGAAGTAAGATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
* * * *
9621533 GCCATTGTGGCTTCAATCTTTTAAATTGCAAATGTCG
66 GCCGTTGTGGCTTCAATCTTTTTAATTGC-AATGACT
* * * *
9621570 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-ACTACACCGCCAGGGAAATAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
* * **
9621634 ACCGTTGTGGTTTCAATCCTTTTCCATTGCAATGACT
66 GCCGTTGTGGCTTCAAT-CTTTTTAATTGCAATGACT
* * * * * *
9621671 GGGAAACCAGATCCGCCGTCGTGGCTTTAATCTGTTCCAACTACACCACCAGGGAAGTAAAATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
* *
9621736 GTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCT
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
* * * * * * *
9621772 GGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCAATTAGACTGCTAGGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
** * * *
9621837 ATCGTTGTGGCTTCAATCTTTTTAACTACAATGTCT
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
* *
9621873 GGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCC-ACTGCACCGCTAAGGAAGTAAGATTC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
* * * * *
9621937 GCCATTGTGGCTTCAATCTTTTAAATTACAAATGTCG
66 GCCGTTGTGGCTTCAATCTTTTTAATTGC-AATGACT
* * * * *
9621974 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTC-ACTACACCGCCAGGGAAATAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
* * * * * *
9622038 ACCGTTATGGTTTCAATCCTTTTCATTGTAATG
66 GCCGTTGTGGCTTCAATCTTTTTAATTGCAATG
9622071 CCAAAGAGAT
Statistics
Matches: 892, Mismatches: 108, Indels: 12
0.88 0.11 0.01
Matches are distributed among these distances:
100 129 0.14
101 716 0.80
102 47 0.05
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (101 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCAACTACACCGCTAAGGAAGTAAGATTC
GCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACT
Found at i:9621746 original size:404 final size:402
Alignment explanation
Indices: 9620958--9622070 Score: 1701
Period size: 404 Copynumber: 2.8 Consensus size: 402
9620948 GCTTAACCGT
* * * **
9620958 AATGTCAGGGAAACAAGATTCACCGTAGTAGCTTCAATCTGTTCC-ACTACGCCATCAGGGAAGT
1 AATGTCTGGGAAACAAGA-TCACCGTCGTAGCTTCAATCTGTTCCAACTACACCGCCAGGGAAGT
*
9621022 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACTGGGAACCCAGATCCGCCGTCGT
65 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACTGGGAAACCAGATCCGCCGTCGT
* * * * *
9621087 GGCTTCAATCTGTTCCAACTACACCACTAAGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTT
130 AGCTTCAATCTGTTCC-ACTGCACCGCTAAGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTT
* * * * * *
9621152 TAATTGC-AATGACTGGGAAACCAGATCCGCCGTCGTGGCTTCAATCTGTTCCAACTACACCACT
194 AAATTGCAAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCC-ACTACACCGCC
* * * * * *
9621216 A-AGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACTGGGAAACCAGATC
258 AGGGAAA-TAAGATCCACCGTTGTGGTTTCAATCCTTTTCATTGCAATGACTGGGAAACCAGATC
* *
9621280 CGCCGTCGTGGCTTTAATCTGTTCCAACTACACCGCCAAAGAAGTAAGATTCGCCATTGTGGCTT
322 CGCCGTCGTGGCTTTAATCTGTTCCAACTACACCACCAAAGAAGTAAAATTCGCCATTGTGGCTT
9621345 CAATCTTTTTAATTGC
387 CAATCTTTTTAATTGC
* *
9621361 AATGTCTGGGAAATAAGATCAACCGTCGTAGCTTCAATCTGTTCCAACTACACCGCCAAGGAAGT
1 AATGTCTGGGAAACAAGATC-ACCGTCGTAGCTTCAATCTGTTCCAACTACACCGCCAGGGAAGT
*
9621426 AAGATTCGCCGTTGTGACTTCAATCTTTTTAATTGCAATGACTGGGAAACCAGATCCGCCGTCGT
65 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACTGGGAAACCAGATCCGCCGTCGT
* *
9621491 AGCTTCAATATGTTCCACTGCACCGCTAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTA
130 AGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTA
9621556 AATTGCAAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAG
195 AATTGCAAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAG
9621621 GGAAATAAGATCCACCGTTGTGGTTTCAATCCTTTTCCATTGCAATGACTGGGAAACCAGATCCG
260 GGAAATAAGATCCACCGTTGTGGTTTCAATCCTTTT-CATTGCAATGACTGGGAAACCAGATCCG
** * *
9621686 CCGTCGTGGCTTTAATCTGTTCCAACTACACCACCAGGGAAGTAAAATTCGTCGTTGTGGCTTCA
324 CCGTCGTGGCTTTAATCTGTTCCAACTACACCACCAAAGAAGTAAAATTCGCCATTGTGGCTTCA
9621751 ATCTTTTTAATTGC
389 ATCTTTTTAATTGC
* * * *
9621765 AATGTCTGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCAATTAGACTGCTAGGGAAGT
1 AATGTCTGGGAAACAAGAT-CACCGTCGTAGCTTCAATCTGTTCCAACTACACCGCCAGGGAAGT
* ** * * * *
9621830 AAGATCCATCGTTGTGGCTTCAATCTTTTTAACTACAATGTCTGGGAAACCAGATCCACCGTCGT
65 AAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACTGGGAAACCAGATCCGCCGTCGT
9621895 AGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTA
130 AGCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTA
* *
9621960 AATTACAAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGCCAG
195 AATTGCAAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAG
* *
9622025 GGAAATAAGATCCACCGTTATGGTTTCAATCCTTTTCATTGTAATG
260 GGAAATAAGATCCACCGTTGTGGTTTCAATCCTTTTCATTGCAATG
9622071 CCAAAGAGAT
Statistics
Matches: 650, Mismatches: 54, Indels: 12
0.91 0.08 0.02
Matches are distributed among these distances:
402 2 0.00
403 134 0.21
404 513 0.79
405 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (402 bp):
AATGTCTGGGAAACAAGATCACCGTCGTAGCTTCAATCTGTTCCAACTACACCGCCAGGGAAGTA
AGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGACTGGGAAACCAGATCCGCCGTCGTA
GCTTCAATCTGTTCCACTGCACCGCTAAGGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTAA
ATTGCAAATGTCGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGCCAGG
GAAATAAGATCCACCGTTGTGGTTTCAATCCTTTTCATTGCAATGACTGGGAAACCAGATCCGCC
GTCGTGGCTTTAATCTGTTCCAACTACACCACCAAAGAAGTAAAATTCGCCATTGTGGCTTCAAT
CTTTTTAATTGC
Found at i:9622053 original size:50 final size:50
Alignment explanation
Indices: 9620963--9622055 Score: 351
Period size: 50 Copynumber: 21.7 Consensus size: 50
9620953 ACCGTAATGT
* * * * * * ***
9620963 CAGGGAAACAAGATTCACCGTAGTAGCTTCAATCTGTTCCACTACGCCAT
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* * * * * * * * *
9621013 CAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGA
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* *** * * * **
9621063 CTGGGAACCCAGATCCGCCGTCGTGGCTTCAATCTGTTCCAACTACACCAC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTC-ACTACACTGC
* * * * * * * * * *
9621114 TA-AGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGA
1 CAGGGAAA-TAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* ** * * * **
9621164 CTGGGAAACCAGATCCGCCGTCGTGGCTTCAATCTGTTCCAACTACACCAC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTC-ACTACACTGC
* * * * * * * * * *
9621215 TA-AGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTTAATTGCAATGA
1 CAGGGAAA-TAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* ** * * * * *
9621265 CTGGGAAACCAGATCCGCCGTCGTGGCTTTAATCTGTTCCAACTACACCGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTC-ACTACACTGC
** * * * * * * * * * *
9621316 CAAAGAAGTAAGATTCGCCATTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* * * * * *
9621366 CTGGGAAATAAGATCAACCGTCGTAGCTTCAATCTGTTCCAACTACACCGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTC-ACTACACTGC
* * * * * * * * * * *
9621417 CAAGGAAGTAAGATTCGCCGTTGTGACTTCAATCTTTTTAATTGCAATGA
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* ** * * * * * * *
9621467 CTGGGAAACCAGATCCGCCGTCGTAGCTTCAATATGTTCCACTGCACCGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* * * * * * * * * *
9621517 TAGGGAAGTAAGATTCGCCATTGTGGCTTCAATCT-TTTAAATTGCAAATGT
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTT-CACTAC-ACTGC
* ** * * * * *
9621568 CGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACCGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* * * * *
9621618 CAGGGAAATAAGATCCACCGTTGTGGTTTCAATCCT-TTTCCATTGCAATGA
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAAT-CTGTTT-CACTACACTGC
* ** * * * * **
9621669 CTGGGAAACCAGATCCGCCGTCGTGGCTTTAATCTGTTCCAACTACACCAC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTC-ACTACACTGC
* * * ** * * * * * *
9621720 CAGGGAAGTAAAATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGT
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* * * * * * *
9621770 CTGGGAAACAAGATCCACCGTCGTAGCTTCAATCTGTTCCAATTAGACTGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTC-ACTACACTGC
* * * * * * *
9621821 TAGGGAAGTAAGATCCATCGTTGTGGCTTCAATCTTTTTAACTACAATGT
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* ** * * * * *
9621871 CTGGGAAACCAGATCCACCGTCGTAGCTTCAATCTGTTCCACTGCACCGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* * * * * * * * * *
9621921 TAAGGAAGTAAGATTCGCCATTGTGGCTTCAATCT-TTTAAATTACAAATGT
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTT-CACTAC-ACTGC
* ** * * * *
9621972 CGGGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTTCACTACACCGC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
* *
9622022 CAGGGAAATAAGATCCACCGTTATGGTTTCAATC
1 CAGGGAAATAAGATCCACCGTTGTGGCTTCAATC
9622056 CTTTTCATTG
Statistics
Matches: 696, Mismatches: 328, Indels: 38
0.66 0.31 0.04
Matches are distributed among these distances:
49 4 0.01
50 390 0.56
51 297 0.43
52 5 0.01
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (50 bp):
CAGGGAAATAAGATCCACCGTTGTGGCTTCAATCTGTTTCACTACACTGC
Found at i:9623449 original size:15 final size:15
Alignment explanation
Indices: 9623429--9623474 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
9623419 CCTTAGCCTC
9623429 TCCATTTTT-ACTTTT
1 TCCATTTTTCA-TTTT
9623444 TCCATTTTTCATTTT
1 TCCATTTTTCATTTT
9623459 T-CATTTTTCTATTTT
1 TCCATTTTTC-ATTTT
9623474 T
1 T
9623475 ATTTTTTCAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.28
15 20 0.69
16 1 0.03
ACGTcount: A:0.13, C:0.17, G:0.00, T:0.70
Consensus pattern (15 bp):
TCCATTTTTCATTTT
Found at i:9623456 original size:22 final size:22
Alignment explanation
Indices: 9623431--9623480 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
9623421 TTAGCCTCTC
9623431 CATTTTT-ACTTTTTCCATTTTT
1 CATTTTTCA-TTTTTCCATTTTT
*
9623453 CATTTTTCATTTTTCTATTTTT
1 CATTTTTCATTTTTCCATTTTT
9623475 -ATTTTT
1 CATTTTT
9623481 TCACATCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 6 0.23
22 19 0.73
23 1 0.04
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (22 bp):
CATTTTTCATTTTTCCATTTTT
Found at i:9623458 original size:6 final size:7
Alignment explanation
Indices: 9623431--9623480 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
9623421 TTAGCCTCTC
9623431 CATTTTT
1 CATTTTT
9623438 -ACTTTTT
1 CA-TTTTT
9623445 CCATTTTT
1 -CATTTTT
9623453 CATTTTT
1 CATTTTT
9623460 CATTTTT
1 CATTTTT
9623467 CTATTTTT
1 C-ATTTTT
9623475 -ATTTTT
1 CATTTTT
9623481 TCACATCTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
6 7 0.18
7 20 0.51
8 11 0.28
9 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (7 bp):
CATTTTT
Found at i:9623482 original size:15 final size:14
Alignment explanation
Indices: 9623431--9623480 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
9623421 TTAGCCTCTC
9623431 CATTTTT-ACTTTTT
1 CATTTTTCA-TTTTT
9623445 CCATTTTTCATTTTT
1 -CATTTTTCATTTTT
9623460 CATTTTTCTATTTTT
1 CATTTTTC-ATTTTT
9623475 -ATTTTT
1 CATTTTT
9623481 TCACATCTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
14 14 0.42
15 18 0.55
16 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:9624651 original size:14 final size:14
Alignment explanation
Indices: 9624632--9624661 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9624622 TATCATTATA
9624632 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
9624646 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
9624660 GT
1 GT
9624662 ATACGGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:9624656 original size:21 final size:21
Alignment explanation
Indices: 9624631--9624685 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9624621 TTATCATTAT
* *
9624631 AGTTTAGGGTTTAAGGTTTAG
1 AGTTTAAGGTTTAAGGTGTAG
* * *
9624652 GGTTTAAGGTATACGGTGTAG
1 AGTTTAAGGTTTAAGGTGTAG
9624673 AGTTTAAGGTTTA
1 AGTTTAAGGTTTA
9624686 TGAGTTATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.33, T:0.40
Consensus pattern (21 bp):
AGTTTAAGGTTTAAGGTGTAG
Found at i:9624763 original size:57 final size:57
Alignment explanation
Indices: 9624682--9624794 Score: 181
Period size: 57 Copynumber: 2.0 Consensus size: 57
9624672 GAGTTTAAGG
* * *
9624682 TTTATGAGTTATTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTACGATTTATA
1 TTTAGGAGTTACTATCTTAAGGTTTATGGATTATGGGTTTAGGGATTACGATTTATA
* *
9624739 TTTAGGAGTTACTATCTTATGGTTTATGGATTATGGGTTTAGGGATTATGATTTAT
1 TTTAGGAGTTACTATCTTAAGGTTTATGGATTATGGGTTTAGGGATTACGATTTAT
9624795 GGTTTAAGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.25, C:0.03, G:0.24, T:0.49
Consensus pattern (57 bp):
TTTAGGAGTTACTATCTTAAGGTTTATGGATTATGGGTTTAGGGATTACGATTTATA
Found at i:9624829 original size:14 final size:13
Alignment explanation
Indices: 9624812--9624856 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
9624802 GGGTTGGAGT
*
9624812 TTAAGGTTTAGTGG
1 TTAAGGTTAAG-GG
9624826 TTAAGGGTTAAGGG
1 TTAA-GGTTAAGGG
9624840 TTAAGGGTTAAGGG
1 TTAA-GGTTAAGGG
9624854 TTA
1 TTA
9624857 GGGGTTTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 23 0.79
15 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.38, T:0.36
Consensus pattern (13 bp):
TTAAGGTTAAGGG
Found at i:9624834 original size:7 final size:7
Alignment explanation
Indices: 9624824--9624862 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
9624814 AAGGTTTAGT
9624824 GGTTAAG
1 GGTTAAG
9624831 GGTTAAG
1 GGTTAAG
9624838 GGTTAAG
1 GGTTAAG
9624845 GGTTAAG
1 GGTTAAG
*
9624852 GGTTAGG
1 GGTTAAG
9624859 GGTT
1 GGTT
9624863 TATGATTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.23, C:0.00, G:0.46, T:0.31
Consensus pattern (7 bp):
GGTTAAG
Found at i:9624897 original size:7 final size:7
Alignment explanation
Indices: 9624819--9624898 Score: 52
Period size: 7 Copynumber: 11.3 Consensus size: 7
9624809 AGTTTAAGGT
*
9624819 TTAGTGG
1 TTAGGGG
*
9624826 TTAAGGG
1 TTAGGGG
*
9624833 TTAAGGG
1 TTAGGGG
*
9624840 TTAAGGG
1 TTAGGGG
*
9624847 TTAAGGG
1 TTAGGGG
9624854 TTAGGGG
1 TTAGGGG
* **
9624861 TTTATGAT
1 -TTAGGGG
* *
9624869 TTATGGT
1 TTAGGGG
9624876 TTAGGGG
1 TTAGGGG
*
9624883 ATAGGGG
1 TTAGGGG
9624890 TTAGGGG
1 TTAGGGG
9624897 TT
1 TT
9624899 TAGATTAATT
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
7 57 0.93
8 4 0.07
ACGTcount: A:0.21, C:0.00, G:0.42, T:0.36
Consensus pattern (7 bp):
TTAGGGG
Found at i:9625587 original size:200 final size:200
Alignment explanation
Indices: 9625243--9625642 Score: 782
Period size: 200 Copynumber: 2.0 Consensus size: 200
9625233 AAAATTTGTG
9625243 TGTTTTTTATTTTTCTATTTCTATTTTTCTTTGCGATATATTGTCATTACCGACATTATATTTTT
1 TGTTTTTTATTTTTCTATTTCTATTTTTCTTTGCGATATATTGTCATTACCGACATTATATTTTT
9625308 CTCAAATTGGTATCAGAGCTTACGAGTTGTTCATCTCAATCACGGTAATGACGTTTTTGAAGTAC
66 CTCAAATTGGTATCAGAGCTTACGAGTTGTTCATCTCAATCACGGTAATGACGTTTTTGAAGTAC
*
9625373 GAAATTCCGTTGTTGGATCGCAACACCAGATTTGCATTGTGGCAGATAAAGATGCAAGCAGTTCT
131 GAAATTCCGTTGTTGGATCGCAACACCAGATTTGCATTGTGGAAGATAAAGATGCAAGCAGTTCT
9625438 TGCAC
196 TGCAC
9625443 TGTTTTTTATTTTTCTATTTCTATTTTTCTTTGCGATATATTGTCATTACCGACATTATATTTTT
1 TGTTTTTTATTTTTCTATTTCTATTTTTCTTTGCGATATATTGTCATTACCGACATTATATTTTT
9625508 CTCAAATTGGTATCAGAGCTTACGAGTTGTTCATCTCAATCACGGTAATGACGTTTTTGAAGTAC
66 CTCAAATTGGTATCAGAGCTTACGAGTTGTTCATCTCAATCACGGTAATGACGTTTTTGAAGTAC
*
9625573 GAAATTCTGTTGTTGGATCGCAACACCAGATTTGCATTGTGGAAGATAAAGATGCAAGCAGTTCT
131 GAAATTCCGTTGTTGGATCGCAACACCAGATTTGCATTGTGGAAGATAAAGATGCAAGCAGTTCT
9625638 TGCAC
196 TGCAC
9625643 AGATGGACTT
Statistics
Matches: 198, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 198 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (200 bp):
TGTTTTTTATTTTTCTATTTCTATTTTTCTTTGCGATATATTGTCATTACCGACATTATATTTTT
CTCAAATTGGTATCAGAGCTTACGAGTTGTTCATCTCAATCACGGTAATGACGTTTTTGAAGTAC
GAAATTCCGTTGTTGGATCGCAACACCAGATTTGCATTGTGGAAGATAAAGATGCAAGCAGTTCT
TGCAC
Found at i:9630048 original size:14 final size:14
Alignment explanation
Indices: 9630029--9630058 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9630019 TATCATTATA
9630029 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
9630043 GTTTAGGGTTTAAG
1 GTTTAGGGTTTAAG
9630057 GT
1 GT
9630059 ATACGGTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.37, T:0.43
Consensus pattern (14 bp):
GTTTAGGGTTTAAG
Found at i:9630053 original size:21 final size:21
Alignment explanation
Indices: 9630028--9630082 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
9630018 TTATCATTAT
* *
9630028 AGTTTAGGGTTTAAGGTTTAG
1 AGTTTAAGGTTTAAGGTGTAG
* * *
9630049 GGTTTAAGGTATACGGTGTAG
1 AGTTTAAGGTTTAAGGTGTAG
9630070 AGTTTAAGGTTTA
1 AGTTTAAGGTTTA
9630083 TGAGTTATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.02, G:0.33, T:0.40
Consensus pattern (21 bp):
AGTTTAAGGTTTAAGGTGTAG
Found at i:9631795 original size:13 final size:13
Alignment explanation
Indices: 9631777--9631810 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
9631767 ATTTGTGCAT
9631777 GACTTTCCTGACA
1 GACTTTCCTGACA
9631790 GACTTTCCTGACA
1 GACTTTCCTGACA
*
9631803 GACATTCC
1 GACTTTCC
9631811 AGAAAGGGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.24, C:0.32, G:0.15, T:0.29
Consensus pattern (13 bp):
GACTTTCCTGACA
Found at i:9633529 original size:21 final size:21
Alignment explanation
Indices: 9633503--9633560 Score: 84
Period size: 21 Copynumber: 2.8 Consensus size: 21
9633493 TTTAAAAATA
9633503 TTTTAAAATACTTTTTTTT-AT
1 TTTTAAAATA-TTTTTTTTAAT
9633524 TTTTAAAATATTTTTTTTAAT
1 TTTTAAAATATTTTTTTTAAT
9633545 TTTCTAAAAT-TTTTTT
1 TTT-TAAAATATTTTTT
9633561 GTGTTTATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.23
21 21 0.60
22 6 0.17
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTAAAATATTTTTTTTAAT
Found at i:9634154 original size:43 final size:43
Alignment explanation
Indices: 9634107--9634199 Score: 159
Period size: 43 Copynumber: 2.2 Consensus size: 43
9634097 TCTTTATAGT
*
9634107 GGCGTTTGTGGTAGAAGCGTCACTAAAGGTTATGATCTTTAGC
1 GGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGATCTTTAGC
* *
9634150 GGCGTTTTTGGTAGAAGCGTCGCTAAAGGTCATGATCTTTAGC
1 GGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGATCTTTAGC
9634193 GGCGTTT
1 GGCGTTT
9634200 AGGTGATTAG
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.20, C:0.15, G:0.31, T:0.33
Consensus pattern (43 bp):
GGCGTTTGTGGTAGAAGCGTCACTAAAGGTCATGATCTTTAGC
Found at i:9636102 original size:19 final size:19
Alignment explanation
Indices: 9636061--9636102 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
9636051 ATTGAACTTG
* * *
9636061 AAAATTGGACCCGAGATCG
1 AAAATTAGACCCGAGAACC
9636080 AAAATTAGACCCGAGAACC
1 AAAATTAGACCCGAGAACC
9636099 AAAA
1 AAAA
9636103 ATCAAAACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.48, C:0.21, G:0.19, T:0.12
Consensus pattern (19 bp):
AAAATTAGACCCGAGAACC
Found at i:9637014 original size:25 final size:26
Alignment explanation
Indices: 9636968--9637017 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
9636958 AGTTGTAAAA
9636968 AGAAAATTTTCTAAAGAAATTATTTC
1 AGAAAATTTTCTAAAGAAATTATTTC
* *
9636994 AGAAAA-TTTCTAGAGATATTATTT
1 AGAAAATTTTCTAAAGAAATTATTT
9637018 TTATTTACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (26 bp):
AGAAAATTTTCTAAAGAAATTATTTC
Found at i:9640667 original size:30 final size:30
Alignment explanation
Indices: 9640621--9640709 Score: 116
Period size: 25 Copynumber: 3.1 Consensus size: 30
9640611 ATTTCTTATG
*
9640621 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
9640652 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
9640681 ----TATTTGATACCCATATCTTTAACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
9640707 CCA
1 CCA
9640710 TAAATATGGA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
25 22 0.42
26 2 0.04
29 2 0.04
30 19 0.37
31 7 0.13
ACGTcount: A:0.27, C:0.26, G:0.06, T:0.42
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:9640676 original size:15 final size:15
Alignment explanation
Indices: 9640631--9640677 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
9640621 CCAATATCTC
9640631 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
9640646 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
9640661 GATACCCATATCTTT
1 GATACCCATATCTTT
9640676 GA
1 GA
9640678 CTTTATTTGA
Statistics
Matches: 24, Mismatches: 6, Indels: 4
0.71 0.18 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:9645326 original size:30 final size:27
Alignment explanation
Indices: 9645290--9645368 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 27
9645280 CAATATCTCA
9645290 ATACCCATATCTTTGACTTTCCAATATTTG
1 ATACCCATATCTTTGACTTT-C--TATTTG
9645320 ATACCCATATCTTTGAC-TT-TATTTG
1 ATACCCATATCTTTGACTTTCTATTTG
9645345 ATACCCATATCTTTGACTTTCTAT
1 ATACCCATATCTTTGACTTTCTAT
9645369 AAATATGGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 7
0.87 0.00 0.13
Matches are distributed among these distances:
25 23 0.49
26 2 0.04
27 3 0.06
29 2 0.04
30 17 0.36
ACGTcount: A:0.25, C:0.23, G:0.06, T:0.46
Consensus pattern (27 bp):
ATACCCATATCTTTGACTTTCTATTTG
Found at i:9649446 original size:22 final size:21
Alignment explanation
Indices: 9649410--9649450 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
9649400 TTTTGTAGAG
9649410 ATAAAAAAACAATAAGATTAAA
1 ATAAAAAAACAATAA-ATTAAA
**
9649432 ATAAAAAAAGTATAAATTA
1 ATAAAAAAACAATAAATTA
9649451 TGTAGTATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.71, C:0.02, G:0.05, T:0.22
Consensus pattern (21 bp):
ATAAAAAAACAATAAATTAAA
Found at i:9664130 original size:20 final size:20
Alignment explanation
Indices: 9664090--9664132 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9664080 AAAATTTAAG
* **
9664090 AATAAAGAATAAATATTCAA
1 AATAAAAAATAAATAAACAA
9664110 AATAAAAAATAAATAAACAA
1 AATAAAAAATAAATAAACAA
9664130 AAT
1 AAT
9664133 TTAAAAGTGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (20 bp):
AATAAAAAATAAATAAACAA
Found at i:9688312 original size:38 final size:38
Alignment explanation
Indices: 9688270--9688345 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
9688260 AAAACCCAAG
9688270 AAAGAAAAAAAGCTCAAAATTGTTAAATTGAACATGAT
1 AAAGAAAAAAAGCTCAAAATTGTTAAATTGAACATGAT
9688308 AAAGAAAAAAAGCTCAAAATTGTTAAATTGAACATGAT
1 AAAGAAAAAAAGCTCAAAATTGTTAAATTGAACATGAT
9688346 TATAAAAACG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.55, C:0.08, G:0.13, T:0.24
Consensus pattern (38 bp):
AAAGAAAAAAAGCTCAAAATTGTTAAATTGAACATGAT
Found at i:9693623 original size:7 final size:7
Alignment explanation
Indices: 9693611--9693637 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9693601 AAAAAGATGT
9693611 AAAAATA
1 AAAAATA
9693618 AAAAATA
1 AAAAATA
9693625 AAAAATA
1 AAAAATA
9693632 AAAAAT
1 AAAAAT
9693638 GGCAAGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:9697361 original size:16 final size:16
Alignment explanation
Indices: 9697340--9697371 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9697330 AAAAGAAAAG
*
9697340 ATATCTGATTAATGAA
1 ATATCTGATAAATGAA
9697356 ATATCTGATAAATGAA
1 ATATCTGATAAATGAA
9697372 TCGGTAACTC
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:0.47, C:0.06, G:0.12, T:0.34
Consensus pattern (16 bp):
ATATCTGATAAATGAA
Found at i:9700842 original size:7 final size:7
Alignment explanation
Indices: 9700830--9700856 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
9700820 AAAAAGATGT
9700830 AAAAATA
1 AAAAATA
9700837 AAAAATA
1 AAAAATA
9700844 AAAAATA
1 AAAAATA
9700851 AAAAAT
1 AAAAAT
9700857 GGCAAGTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:9709523 original size:3 final size:3
Alignment explanation
Indices: 9709483--9709507 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9709473 GCAACTTTAT
9709483 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
9709508 ATTTTCAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:9709947 original size:16 final size:15
Alignment explanation
Indices: 9709926--9709959 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
9709916 ATGGGAACAT
9709926 AATAATTTAAATATAA
1 AATAA-TTAAATATAA
*
9709942 AATAATTCAATATAA
1 AATAATTAAATATAA
9709957 AAT
1 AAT
9709960 TTAATTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATTAAATATAA
Found at i:9713630 original size:29 final size:29
Alignment explanation
Indices: 9713595--9713658 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
9713585 AATTGATCTG
**
9713595 AATTTTTAAATTTGAAAAATA-GAAAGACTA
1 AATTTTTAAAAGT-AAAAATATGAAA-ACTA
9713625 AATTTTTAAAAGTAAAAATATGAAAACTA
1 AATTTTTAAAAGTAAAAATATGAAAACTA
9713654 AATTT
1 AATTT
9713659 CAAACTTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
29 16 0.52
30 15 0.48
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (29 bp):
AATTTTTAAAAGTAAAAATATGAAAACTA
Found at i:9715812 original size:19 final size:19
Alignment explanation
Indices: 9715783--9715829 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
9715773 GGATATATTT
9715783 TAAAT-TTATTTAGATAGA
1 TAAATCTTATTTAGATAGA
*
9715801 TAAATCTTATTTAGGTAGA
1 TAAATCTTATTTAGATAGA
9715820 TAAATCTTAT
1 TAAATCTTAT
9715830 AGATATTCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 5 0.19
19 22 0.81
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (19 bp):
TAAATCTTATTTAGATAGA
Found at i:9715931 original size:43 final size:43
Alignment explanation
Indices: 9715851--9715935 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 43
9715841 GAATATTTTA
** *
9715851 TTTTATCTTTTAGTAGTTTATTAGAATAAGGGGATTATTTTCT
1 TTTTATCTTTTAGTAGTTTATTAGAATAAAAGAATTATTTTCT
9715894 TTTTATCTTTTAGTAGTTTATTAGAATAAAAGAATTATTTTC
1 TTTTATCTTTTAGTAGTTTATTAGAATAAAAGAATTATTTTC
9715936 CCAATTAGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.29, C:0.05, G:0.13, T:0.53
Consensus pattern (43 bp):
TTTTATCTTTTAGTAGTTTATTAGAATAAAAGAATTATTTTCT
Found at i:9719121 original size:41 final size:41
Alignment explanation
Indices: 9719063--9719469 Score: 564
Period size: 41 Copynumber: 9.9 Consensus size: 41
9719053 AAGTTTTTGA
* *
9719063 GGCCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCT-G
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* * *
9719103 GCGCCTTTAGCTGCGTTTTTGACGAAGCGCCACTAATGCTCG
1 G-GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* * *
9719145 GGCCTTTAGCAGCGTTTTTGACGAAGAGCCGCTAATGCTCG
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* *
9719186 GGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTAG
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
*
9719227 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCG
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
*
9719268 GGCCTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCG
1 GGCC-TTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* * *
9719310 GGCCTTTAGCGGCGTTTTTGACGAAGCGCTGCTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* * *
9719351 GGCCTTTAGCGGTGTTTTTGAAAAAGCGCCGCTAATGCTCC
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* * *
9719392 GGTCTTTAGCTGCGTTTTTTGAAGAAGCGCCGCTAATGCTCC
1 GGCCTTTAGCGGCG-TTTTTGAAGAAGCGCCGCTAATGCTCG
* * *
9719434 AGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAAT
9719470 AATAATAAAA
Statistics
Matches: 329, Mismatches: 34, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
40 1 0.00
41 249 0.76
42 79 0.24
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
Found at i:9719345 original size:124 final size:122
Alignment explanation
Indices: 9719063--9719469 Score: 571
Period size: 124 Copynumber: 3.3 Consensus size: 122
9719053 AAGTTTTTGA
* * **
9719063 GGCCTTTAGCGGCGTTTTAGAAAAAGCGCCGCTAATGCTGGCGCCTTTAGCTGCGTTTTTGACGA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTGG-GCCTTTAGCGGCGTTTTTGAAAA
* * *
9719128 AGCGCCACTAATGCTCGGGCCTTTAGCAGCGTTTTTGACGAAGAGCCGCTAATGCTCG
65 AGCGCCGCTAATGCTCGGGCCTTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
* *
9719186 GGCCTTTAGCGGCGTTTGTGAAGAAGCGCCGCTAATGCTAGGGCCTTTAGCGGCGTTTTTGAAAA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-GGGCCTTTAGCGGCGTTTTTGAAAA
* *
9719251 AGCGCCGCTAATGCTCGGGCCTTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATTCTCG
65 AGCGCCGCTAATGCTCGGGCC-TTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
** * * *
9719310 GGCCTTTAGCGGCGTTTTTGACGAAGCGCTGCTAATGCTCTGGCCTTTAGCGGTGTTTTTGAAAA
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-GGGCCTTTAGCGGCGTTTTTGAAAA
* * * *
9719375 AGCGCCGCTAATGCTCCGGTCTTTAGCTGCGTTTTTTGAAGAAGCGCCGCTAATGCTCC
65 AGCGCCGCTAATGCTCGGGCCTTTAGCAGCG-TTTTTGAAGAAGCGCCGCTAATGCTCG
* *
9719434 AGTCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
1 GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
9719470 AATAATAAAA
Statistics
Matches: 254, Mismatches: 27, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
123 85 0.33
124 169 0.67
ACGTcount: A:0.19, C:0.24, G:0.29, T:0.29
Consensus pattern (122 bp):
GGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTGGGCCTTTAGCGGCGTTTTTGAAAAA
GCGCCGCTAATGCTCGGGCCTTTAGCAGCGTTTTTGAAGAAGCGCCGCTAATGCTCG
Found at i:9719604 original size:21 final size:20
Alignment explanation
Indices: 9719580--9719630 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
9719570 ATTTCGTTGT
*
9719580 ATTTATTATATATGATAACAA
1 ATTTATT-TAAATGATAACAA
9719601 ATTTACATTTAAATGATAACAA
1 ATTT--ATTTAAATGATAACAA
9719623 ATTATATT
1 ATT-TATT
9719631 GTTTAATACA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
21 7 0.27
22 15 0.58
23 4 0.15
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
ATTTATTTAAATGATAACAA
Found at i:9720358 original size:21 final size:20
Alignment explanation
Indices: 9720308--9720358 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
9720298 AATTGGGGTA
*
9720308 ATTAGGGTTATGAGTTTGAG
1 ATTAGGGTTATGAGTTAGAG
9720328 ATTAGAGGTTCA-GAGTTAGAG
1 ATTAG-GGTT-ATGAGTTAGAG
9720349 ATTTAGGGTT
1 A-TTAGGGTT
9720359 TAGATATTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 5 0.19
21 17 0.63
22 5 0.19
ACGTcount: A:0.27, C:0.02, G:0.33, T:0.37
Consensus pattern (20 bp):
ATTAGGGTTATGAGTTAGAG
Found at i:9722854 original size:124 final size:124
Alignment explanation
Indices: 9722634--9722908 Score: 550
Period size: 124 Copynumber: 2.2 Consensus size: 124
9722624 GGCAAGTAAA
9722634 TTTTTAGAGAAAGTTCTATGAAGTTTTTTATGGATTCTGTGGCGCAGACCCATATTTTTTATTTT
1 TTTTTAGAGAAAGTTCTATGAAGTTTTTTATGGATTCTGTGGCGCAGACCCATATTTTTTATTTT
9722699 GGCATATCATGTAATTGTTTTACAAGTAAAAAAGTAGACTGAAGCAGTTTACTATGAAG
66 GGCATATCATGTAATTGTTTTACAAGTAAAAAAGTAGACTGAAGCAGTTTACTATGAAG
9722758 TTTTTAGAGAAAGTTCTATGAAGTTTTTTATGGATTCTGTGGCGCAGACCCATATTTTTTATTTT
1 TTTTTAGAGAAAGTTCTATGAAGTTTTTTATGGATTCTGTGGCGCAGACCCATATTTTTTATTTT
9722823 GGCATATCATGTAATTGTTTTACAAGTAAAAAAGTAGACTGAAGCAGTTTACTATGAAG
66 GGCATATCATGTAATTGTTTTACAAGTAAAAAAGTAGACTGAAGCAGTTTACTATGAAG
9722882 TTTTTAGAGAAAGTTCTATGAAGTTTT
1 TTTTTAGAGAAAGTTCTATGAAGTTTT
9722909 AATCTATGCT
Statistics
Matches: 151, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
124 151 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (124 bp):
TTTTTAGAGAAAGTTCTATGAAGTTTTTTATGGATTCTGTGGCGCAGACCCATATTTTTTATTTT
GGCATATCATGTAATTGTTTTACAAGTAAAAAAGTAGACTGAAGCAGTTTACTATGAAG
Found at i:9725264 original size:43 final size:43
Alignment explanation
Indices: 9724980--9725242 Score: 239
Period size: 43 Copynumber: 6.1 Consensus size: 43
9724970 TGTTTTAAGT
* * * * *
9724980 GCGTTT-TTGCAAGAAGCGTCGCTAAAGGT-TTGTTCTATAGCA
1 GCGTTTGTAGCAA-AAGCGCCGCTAAAGGTCATGGTCTATAGCG
* * * * * *
9725022 GTGTTTGTGGTAAAAGCGTCGCTAAAGGTCTTCAG-CTATAGCG
1 GCGTTTGTAGCAAAAGCGCCGCTAAAGGTCAT-GGTCTATAGCG
* * * * * *
9725065 GTGTTTGTGGGAAAAGCGCCGCTAAAGATCCTGATCTATAGCG
1 GCGTTTGTAGCAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
* * *
9725108 GCGTTTGTTGGAAAAGCGCCGCTAAAGGTCATGATCTATAGCG
1 GCGTTTGTAGCAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
* *
9725151 GCGTTTGTAGCAAAAGCGCCGCTAAAAGTCATGGTCTTTAGCG
1 GCGTTTGTAGCAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
* *
9725194 GCGTTT-TCCAACAAAA-CACCGCTAAAGGTCATGGTCTATAGCG
1 GCGTTTGT--AGCAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
9725237 GCGTTT
1 GCGTTT
9725243 ATAATAAAAG
Statistics
Matches: 190, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
42 22 0.12
43 162 0.85
44 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
GCGTTTGTAGCAAAAGCGCCGCTAAAGGTCATGGTCTATAGCG
Found at i:9725274 original size:22 final size:22
Alignment explanation
Indices: 9725248--9725290 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9725238 CGTTTATAAT
* * *
9725248 AAAAGCGTCGTTAAAGGCCTAA
1 AAAAGCGCCGCTAAAAGCCTAA
9725270 AAAAGCGCCGCTAAAAGCCTA
1 AAAAGCGCCGCTAAAAGCCTA
9725291 TTTTGGTGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (22 bp):
AAAAGCGCCGCTAAAAGCCTAA
Found at i:9734656 original size:37 final size:36
Alignment explanation
Indices: 9734584--9734656 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 36
9734574 ATGATTAAAC
9734584 AATTCAATAATATAAATAGTAAAAAAATATTAAATTT
1 AATTCAATAATATAAATAGTAAAAAAATA-TAAATTT
*
9734621 AATTTAATAATATAAATAGTAAATATAAATA-AAATT
1 AATTCAATAATATAAATAGTAAA-A-AAATATAAATT
9734657 ATTACTATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
37 27 0.82
38 1 0.03
39 5 0.15
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (36 bp):
AATTCAATAATATAAATAGTAAAAAAATATAAATTT
Found at i:9734865 original size:30 final size:30
Alignment explanation
Indices: 9734821--9734881 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
9734811 GGGGGTGGGA
* *
9734821 TGGGAGAGGAGTAAAAGTTTTGAGGGGAAAG
1 TGGGAGAGAAGTAAAAGTTTTG-GGAGAAAG
9734852 TGGGA-AGAAGTAAAAGTTTTGGGAGAAAG
1 TGGGAGAGAAGTAAAAGTTTTGGGAGAAAG
9734881 T
1 T
9734882 AAAGAAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 8 0.29
30 15 0.54
31 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.41, T:0.21
Consensus pattern (30 bp):
TGGGAGAGAAGTAAAAGTTTTGGGAGAAAG
Found at i:9737279 original size:12 final size:12
Alignment explanation
Indices: 9737262--9737287 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
9737252 CGTTTGTGTA
9737262 TTCGATATAATG
1 TTCGATATAATG
9737274 TTCGATATAATG
1 TTCGATATAATG
9737286 TT
1 TT
9737288 TTCTGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTCGATATAATG
Found at i:9738712 original size:13 final size:13
Alignment explanation
Indices: 9738694--9738721 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
9738684 CTTGTACAAG
9738694 TAAACTTCATAAA
1 TAAACTTCATAAA
9738707 TAAACTTCATAAA
1 TAAACTTCATAAA
9738720 TA
1 TA
9738722 GAGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:9739161 original size:20 final size:20
Alignment explanation
Indices: 9739136--9739175 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9739126 AATATTTTTC
*
9739136 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
9739156 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
9739176 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:9739177 original size:34 final size:35
Alignment explanation
Indices: 9739124--9739190 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
9739114 CAAACACCAG
* *
9739124 AAAATATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
9739159 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
9739191 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:9739182 original size:14 final size:14
Alignment explanation
Indices: 9739159--9739198 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
9739149 ACAGAAAAGT
*
9739159 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
9739173 AAATCATTTTACGG
1 AAAACATTTTACAG
9739187 AAAACATTTTAC
1 AAAACATTTTAC
9739199 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:9740519 original size:61 final size:61
Alignment explanation
Indices: 9740454--9740641 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
9740444 TTATAATTAA
9740454 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * *
9740515 AATATATGATACT-ATAAAA-T-ATAATTTAA-C-ATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAA--TAATCAAT-ATTCTTATATGAATTTACTCA-AATCA
*
9740573 A
61 T
*
9740574 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
9740635 AATATAT
1 AATATAT
9740642 GATACTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
58 3 0.03
59 33 0.34
60 17 0.18
61 40 0.42
62 3 0.03
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCAT
Found at i:9740578 original size:16 final size:16
Alignment explanation
Indices: 9740534--9740580 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
9740524 TACTATAAAA
*
9740534 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
9740550 TATTATT-AAATATAT
1 TATAATTAAAATATAT
9740565 TATAATTAAAATATAT
1 TATAATTAAAATATAT
9740581 AATTTAATAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:9740718 original size:120 final size:120
Alignment explanation
Indices: 9740417--9740686 Score: 495
Period size: 120 Copynumber: 2.2 Consensus size: 120
9740407 ATTTAATCAT
*
9740417 ATTTAAACATAATTATTATTAAATGTATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
9740482 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
65 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
9740538 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
1 ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
9740603 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGGTA
66 TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
9740658 ATTTAACATAATTATTATTAAATATATTA
1 ATTTAACATAATTATTATTAAATATATTA
9740687 AATATAATTT
Statistics
Matches: 145, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
120 141 0.97
121 4 0.03
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAA
TCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATA
Found at i:9743896 original size:33 final size:33
Alignment explanation
Indices: 9743859--9743924 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
9743849 ATTATAAAGC
9743859 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
*
9743892 ATGTATAATTGACGTAAAATTAATTGTTGGTAT
1 ATGTATAATTGACCTAAAATTAATTGTTGGTAT
9743925 TTGTTAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.36, C:0.05, G:0.17, T:0.42
Consensus pattern (33 bp):
ATGTATAATTGACCTAAAATTAATTGTTGGTAT
Found at i:9749241 original size:28 final size:28
Alignment explanation
Indices: 9749177--9749246 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
9749167 GTAAAGAAAA
9749177 AGAAAAGAAACAGAAGACACAAATCGGC
1 AGAAAAGAAACAGAAGACACAAATCGGC
** * *
9749205 AGATGAGAAACAGAGGGA-GCAAATCGGC
1 AGAAAAGAAACAGA-AGACACAAATCGGC
9749233 AGAAAAGAAA-AGAA
1 AGAAAAGAAACAGAA
9749247 AAGAAACAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
27 3 0.09
28 29 0.85
29 2 0.06
ACGTcount: A:0.56, C:0.13, G:0.27, T:0.04
Consensus pattern (28 bp):
AGAAAAGAAACAGAAGACACAAATCGGC
Found at i:9749606 original size:21 final size:21
Alignment explanation
Indices: 9749582--9749625 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
9749572 ATTCAAATCT
* *
9749582 TTTTCTATTTCATGTTTTAAA
1 TTTTCTAATTAATGTTTTAAA
* *
9749603 TTTTTTAATTAATGTTTTTAA
1 TTTTCTAATTAATGTTTTAAA
9749624 TT
1 TT
9749626 AATAAATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (21 bp):
TTTTCTAATTAATGTTTTAAA
Found at i:9749620 original size:13 final size:13
Alignment explanation
Indices: 9749604--9749628 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9749594 TGTTTTAAAT
9749604 TTTTTAATTAATG
1 TTTTTAATTAATG
9749617 TTTTTAATTAAT
1 TTTTTAATTAAT
9749629 AAATATATTG
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:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:9750015 original size:19 final size:19
Alignment explanation
Indices: 9749980--9750023 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
9749970 TATATAAAAA
*
9749980 AATAATATTTTTATTATAT
1 AATAATATTTATATTATAT
9749999 AATACATATTTAT-TTATAT
1 AATA-ATATTTATATTATAT
9750018 AA-AATA
1 AATAATA
9750024 AAAGAGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 3 0.13
18 1 0.04
19 12 0.52
20 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (19 bp):
AATAATATTTATATTATAT
Done.