Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 31 of 438
Found at i:7669061 original size:21 final size:23
Alignment explanation
Indices: 7669019--7669068 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
7669009 TATTATATGT
7669019 ATATATACTATGTATGTATTTTA
1 ATATATACTATGTATGTATTTTA
*
7669042 ATAT-TACTATGTAT-TTTTTTA
1 ATATATACTATGTATGTATTTTA
7669063 ATATAT
1 ATATAT
7669069 GTATATGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
ATATATACTATGTATGTATTTTA
Found at i:7669255 original size:21 final size:19
Alignment explanation
Indices: 7669230--7669280 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
7669220 TTTTTAATAT
7669230 TATATCTTTATATATG-TCATG
1 TATATCTTT-TA-ATGCT-ATG
*
7669251 TATATATTTTAATGCTATG
1 TATATCTTTTAATGCTATG
7669270 TATATACTTTT
1 TATAT-CTTTT
7669281 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
21 8 0.31
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (19 bp):
TATATCTTTTAATGCTATG
Found at i:7681591 original size:147 final size:147
Alignment explanation
Indices: 7681323--7681807 Score: 512
Period size: 147 Copynumber: 3.1 Consensus size: 147
7681313 TATTTTGATG
* * *
7681323 TTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TTTTAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* * *
7681388 GAGGTAATTTTCAATTTCTGTCTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCT
66 AAGGTAATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
**
7681453 CAGGACATGCTGAGGTAA
131 CAGGACACACTGAGGT-A
** * *
7681471 TTTTAATTTCTGTTTGTCAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGC
1 TTTTAATTTCTGTTT-TCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
7681535 TAAGG-AATTTTCAATTTCTG-CTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
65 TAAGGTAATTTTCAATTTCTGTC-TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGC
7681598 CTCAGGACACACTGAGGTA
129 CTCAGGACACACTGAGGTA
*
7681617 TTTTCAATTTCTGTTTTTTCAATTTATATTTTCCAAAAAAATCAACTCATATTGCGAGAGATGAG
1 TTTT-AATTTCTG--TTTTCAA---A-A---T---------TCAACTCATATTGCGAGAAATGAG
** * *
7681682 TTGAGCCTCGGGACACGCTGAGGT-ATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATA
47 TTGAGCCTCAAGACACGCTAAGGTAATTTTCAATTTCTGTCTTTC---AAAAAAATCAACTCATA
* *
7681746 TTGCGAG-AGATGAGTTGAGCCTCGGGACACGCTGAGGTA
109 TTGCGAGAAG-TGAGTTGAGCCTCAGGACACACTGAGGTA
7681785 TTTTCAATTTCTGTTTTTCAAAA
1 TTTT-AATTTCTG-TTTTCAAAA
7681808 AAAAAAAATC
Statistics
Matches: 290, Mismatches: 19, Indels: 41
0.83 0.05 0.12
Matches are distributed among these distances:
146 6 0.02
147 78 0.27
148 58 0.20
149 9 0.03
151 1 0.00
152 1 0.00
163 1 0.00
164 1 0.00
165 61 0.21
167 10 0.03
168 64 0.22
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (147 bp):
TTTTAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
AAGGTAATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCT
CAGGACACACTGAGGTA
Found at i:7681600 original size:75 final size:75
Alignment explanation
Indices: 7681328--7681633 Score: 421
Period size: 75 Copynumber: 4.1 Consensus size: 75
7681318 TGATGTTTTT
* * * * *
7681328 ATTTCTATTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
7681391 GTAATTTTCA
66 GTAATTTTCA
* * *
7681401 ATTTCTGTCTTTCAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCAGGACATGCTGA
1 ATTTCTGT-TTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGA
7681466 GGTAATTTT-A
65 GGTAATTTTCA
* * *
7681476 ATTTCTGTTTGTC---AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTAA
1 ATTTCTGTTT-TCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGA
7681538 GG-AATTTTCA
65 GGTAATTTTCA
*
7681548 ATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACACTGA
1 ATTTCTG-TTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGA
7681613 GGT-ATTTTCA
65 GGTAATTTTCA
7681623 ATTTCTGTTTT
1 ATTTCTGTTTT
7681634 TTCAATTTAT
Statistics
Matches: 207, Mismatches: 16, Indels: 19
0.86 0.07 0.08
Matches are distributed among these distances:
71 6 0.03
72 57 0.28
73 10 0.05
74 10 0.05
75 72 0.35
76 52 0.25
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (75 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGACACGCTGAG
GTAATTTTCA
Found at i:7681696 original size:90 final size:89
Alignment explanation
Indices: 7681542--7682115 Score: 558
Period size: 90 Copynumber: 6.6 Consensus size: 89
7681532 CGCTAAGGAA
* * *
7681542 TTTTCAATTTCTGCTTTTCAAAAAAATCAACTCATATTGCGAGA-AGTGAGTTGAGCCTCAGGAC
1 TTTTCAATTTAT-ATTTTCAAAAAAATCAACTCATATTGCGAGAGA-TGAGTTGAGCCTCGGGAC
7681606 ACA-CTGAGGTATTTTCAATTTCTGTT
64 ACAGCTGAGGTATTTTCAATTTCTG-T
7681632 TTTTCAATTTATATTTTCCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACA
1 TTTTCAATTTATATTTT-CAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACA
7681697 C-GCTGAGGTATTTTCAATTTCTGT
65 CAGCTGAGGTATTTTCAATTTCTGT
7681721 TTTTC-A---A-A-----AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACAC
1 TTTTCAATTTATATTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACAC
7681776 -GCTGAGGTATTTTCAATTTCTGT
66 AGCTGAGGTATTTTCAATTTCTGT
* * *
7681799 TTTTCAA---A-A----AAAAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGCCAC
1 TTTTCAATTTATATTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACAC
*
7681856 ATGCCGAGGTATTTTCAAAATTTC-GT
66 A-GCTGAGGTATTTTC--AATTTCTGT
* * * * **
7681882 TTTTCAATTTCTATTTCTTC-CAAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCGGCTC
1 TTTTCAATTTATA-TT-TTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGAC
**
7681946 ACATGCTGAGGTATTTTCAATTGATGTT
64 ACA-GCTGAGGTATTTTCAATTTCTG-T
* * * * * *
7681974 TTTTCAGTTTATGCTTTTC--AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGGTCA
1 TTTTCAATTTAT-ATTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACA
* * **
7682037 CATGCCGAAGTATTTTCAAAATCTGT
65 CA-GCTGAGGTATTTTCAATTTCTGT
* * * *
7682063 TTTGCAAATTCTGTTTTC--AAAAATCAACTCATATTGCGAGA-AGTGAGTTGAGC
1 TTTTCAATTTATATTTTCAAAAAAATCAACTCATATTGCGAGAGA-TGAGTTGAGC
7682116 TTTGGCTCAC
Statistics
Matches: 426, Mismatches: 35, Indels: 48
0.84 0.07 0.09
Matches are distributed among these distances:
78 75 0.18
79 3 0.01
80 45 0.11
82 13 0.03
83 9 0.02
84 7 0.02
85 1 0.00
87 1 0.00
88 38 0.09
89 19 0.04
90 140 0.33
91 5 0.01
92 70 0.16
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (89 bp):
TTTTCAATTTATATTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACAC
AGCTGAGGTATTTTCAATTTCTGT
Found at i:7681758 original size:78 final size:78
Alignment explanation
Indices: 7681651--7681888 Score: 388
Period size: 78 Copynumber: 3.0 Consensus size: 78
7681641 TATATTTTCC
7681651 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
7681716 TCTGTTTTTCAAA
66 TCTGTTTTTCAAA
7681729 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
7681794 TCTGTTTTTCAAAAA
66 TCTGTTTTTC--AAA
* * *
7681809 AAAAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGCCACATGCCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG--ACACGCTGAGGTATTTTC--
7681874 AATTTC-GTTTTTCAA
62 AATTTCTGTTTTTCAA
7681889 TTTCTATTTC
Statistics
Matches: 151, Mismatches: 3, Indels: 9
0.93 0.02 0.06
Matches are distributed among these distances:
78 75 0.50
80 45 0.30
81 2 0.01
82 16 0.11
83 7 0.05
84 6 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (78 bp):
AAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGACACGCTGAGGTATTTTCAATT
TCTGTTTTTCAAA
Found at i:7681949 original size:92 final size:89
Alignment explanation
Indices: 7681811--7682222 Score: 398
Period size: 92 Copynumber: 4.6 Consensus size: 89
7681801 TTCAAAAAAA
* * *
7681811 AAAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGGC-CACATGCCGAGGTATTTTCAAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCTCACATGCCGAAGTATTTTC-AA
*
7681875 ATTTCGTTTTTCAATTTCTATTTCTTCC
65 ATTT-GTTTTTCAATTTCTAGTT-TT-C
* *
7681903 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-GGCTCACATGCTGAGGTATTTTC-AA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCTCACATGCCGAAGTATTTTCAAA
* *
7681966 TTGATGTTTTTTCAGTTTAT-GCTTTTC
66 TT--TG-TTTTTCAATTTCTAG-TTTTC
* *
7681993 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTCAGG-TCACATGCCGAAGTATTTTCAAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCTCACATGCCGAAGTATTTTC-AA
* * *
7682057 ATCTGTTTTGCAAATTCT-GTTTTC
65 ATTTGTTTTTCAATTTCTAGTTTTC
* * ** * * *
7682081 AAAAATCAACTCATATTGCGAGAAGTGAGTTGAG-CTTTGGCTCACGTGCTGAACTATTTT-AAA
1 AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCTCACATGCCGAAGTATTTTCAAA
* *
7682144 TTTCTGTTTT-AATATCTAGTTTT-
66 TTTGT-TTTTCAATTTCTAGTTTTC
* * ** *
7682167 AAAGAGTCAATTCATATTGCAAGAAATGAGTTGAG-CTCAGGATCACATGCC-AAGTA
1 AAA-AATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCTCACATGCCGAAGTA
7682223 AAGAATAAAG
Statistics
Matches: 272, Mismatches: 36, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
86 18 0.07
87 50 0.18
88 53 0.19
89 10 0.04
90 61 0.22
91 8 0.03
92 72 0.26
ACGTcount: A:0.30, C:0.17, G:0.18, T:0.34
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGCTCACATGCCGAAGTATTTTCAAA
TTTGTTTTTCAATTTCTAGTTTTC
Found at i:7682075 original size:14 final size:13
Alignment explanation
Indices: 7682049--7682084 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
7682039 TGCCGAAGTA
7682049 TTTTCAAAATCTG
1 TTTTCAAAATCTG
*
7682062 TTTTGCAAATTCTG
1 TTTT-CAAAATCTG
7682076 TTTTCAAAA
1 TTTTCAAAA
7682085 ATCAACTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.14, G:0.08, T:0.47
Consensus pattern (13 bp):
TTTTCAAAATCTG
Found at i:7683893 original size:3 final size:3
Alignment explanation
Indices: 7683887--7684005 Score: 55
Period size: 3 Copynumber: 39.0 Consensus size: 3
7683877 TCATTCCTAA
* * * * *
7683887 TAT TAT TAA TAC TAT TAT T-T CTCT TAT TAT TAT TGT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* ** * * * *
7683932 TAT TCT GGT TAT TAA CA- TAT TAT TAT TTT TAAT GTAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT
*
7683978 TAGT TAT TAT TAT T-T CTAG TAT TAT TAT
1 TA-T TAT TAT TAT TAT -TAT TAT TAT TAT
7684006 ATATAATATT
Statistics
Matches: 86, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
2 3 0.03
3 76 0.88
4 6 0.07
5 1 0.01
ACGTcount: A:0.30, C:0.06, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:7683987 original size:16 final size:15
Alignment explanation
Indices: 7683952--7684005 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 15
7683942 ATTAACATAT
* *
7683952 TATTATTTTTAAT-G
1 TATTATTATTACTAG
7683966 TATTATTATTACTAG
1 TATTATTATTACTAG
*
7683981 TTATTATTATTTCTAG
1 -TATTATTATTACTAG
7683997 TATTATTAT
1 TATTATTAT
7684006 ATATAATATT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.31
15 10 0.29
16 14 0.40
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (15 bp):
TATTATTATTACTAG
Found at i:7684265 original size:3 final size:3
Alignment explanation
Indices: 7684259--7684296 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
7684249 TGATTAGTAA
*
7684259 TAT TAT TAC TA- TATT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TA
7684297 ATAGTGTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
2 2 0.06
3 28 0.88
4 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:7684592 original size:27 final size:30
Alignment explanation
Indices: 7684562--7684624 Score: 87
Period size: 27 Copynumber: 2.2 Consensus size: 30
7684552 ATATGTATCG
7684562 TGTATATTCTTAAT-ACTATA-TAT-TGTA
1 TGTATATTCTTAATAACTATATTATATGTA
*
7684589 TGTATTTTCTTAATAACTATATTATATGTA
1 TGTATATTCTTAATAACTATATTATATGTA
*
7684619 TATATA
1 TGTATA
7684625 CTATGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 13 0.43
28 6 0.20
29 3 0.10
30 8 0.27
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (30 bp):
TGTATATTCTTAATAACTATATTATATGTA
Found at i:7684616 original size:26 final size:26
Alignment explanation
Indices: 7684562--7684621 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
7684552 ATATGTATCG
*
7684562 TGTATATTCTTAATACTATATATTGTA
1 TGTATATTCTTAATAC-ATATATTATA
*
7684589 TGTATTTTCTTAATA-ACTATATTATA
1 TGTATATTCTTAATACA-TATATTATA
7684615 TGTATAT
1 TGTATAT
7684622 ATACTATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 14 0.48
27 14 0.48
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (26 bp):
TGTATATTCTTAATACATATATTATA
Found at i:7684660 original size:21 final size:23
Alignment explanation
Indices: 7684618--7684667 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
7684608 TATTATATGT
7684618 ATATATACTATGTATGTATTTTA
1 ATATATACTATGTATGTATTTTA
*
7684641 ATAT-TACTATGTAT-TTTTTTA
1 ATATATACTATGTATGTATTTTA
7684662 ATATAT
1 ATATAT
7684668 GTATATGTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 10 0.40
22 11 0.44
23 4 0.16
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (23 bp):
ATATATACTATGTATGTATTTTA
Found at i:7684853 original size:21 final size:19
Alignment explanation
Indices: 7684828--7684878 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 19
7684818 TTTTTAATAT
7684828 TATATCTTTATATATG-TCATG
1 TATATCTTT-TA-ATGCT-ATG
*
7684849 TATATATTTTAATGCTATG
1 TATATCTTTTAATGCTATG
7684868 TATATACTTTT
1 TATAT-CTTTT
7684879 TATTTTTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 11 0.42
20 7 0.27
21 8 0.31
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (19 bp):
TATATCTTTTAATGCTATG
Found at i:7686265 original size:287 final size:287
Alignment explanation
Indices: 7685749--7686324 Score: 1116
Period size: 287 Copynumber: 2.0 Consensus size: 287
7685739 CGCGACAGCT
*
7685749 GGCGACTCCACTGGGGAATCATTCTTGAGAGTCGAGTCGAATTAAACACGTGTTGTTAAAATTTT
1 GGCGACTCCACTGGGGAACCATTCTTGAGAGTCGAGTCGAATTAAACACGTGTTGTTAAAATTTT
**
7685814 TGAATTTCTTTGTTCACATTAATATTTAGTCGTGATCCTCAAATTTTGTTTTCAAAAAAATTTAT
66 CAAATTTCTTTGTTCACATTAATATTTAGTCGTGATCCTCAAATTTTGTTTTCAAAAAAATTTAT
7685879 GCATTTACATCATGCTGTAAATATTCTTTTAACTTGTTTTATCTTGTTGATTTTCAGCCCTCAGT
131 GCATTTACATCATGCTGTAAATATTCTTTTAACTTGTTTTATCTTGTTGATTTTCAGCCCTCAGT
7685944 TTTTTAGTTTTTGTAGTTTAGTTTTTAAATAAAACATAAAGGTTTGTGAGTTTCTCCCCACACAC
196 TTTTTAGTTTTTGTAGTTTAGTTTTTAAATAAAACATAAAGGTTTGTGAGTTTCTCCCCACACAC
7686009 CGTGCACTTGCATTTTGCATAACATGA
261 CGTGCACTTGCATTTTGCATAACATGA
*
7686036 GGCGACTCCACTGGGGAACCATTCTTGAGAGTCGAGTCGAATTAGACACGTGTTGTTAAAATTTT
1 GGCGACTCCACTGGGGAACCATTCTTGAGAGTCGAGTCGAATTAAACACGTGTTGTTAAAATTTT
7686101 CAAATTTCTTTGTTCACATTAATATTTAGTCGTGATCCTCAAATTTTGTTTTCAAAAAAATTTAT
66 CAAATTTCTTTGTTCACATTAATATTTAGTCGTGATCCTCAAATTTTGTTTTCAAAAAAATTTAT
7686166 GCATTTACATCATGCTGTAAATATTCTTTTAACTTGTTTTATCTTGTTGATTTTCAGCCCTCAGT
131 GCATTTACATCATGCTGTAAATATTCTTTTAACTTGTTTTATCTTGTTGATTTTCAGCCCTCAGT
7686231 TTTTTAGTTTTTGTAGTTTAGTTTTTAAATAAAACATAAAGGTTTGTGAGTTTCTCCCCACACAC
196 TTTTTAGTTTTTGTAGTTTAGTTTTTAAATAAAACATAAAGGTTTGTGAGTTTCTCCCCACACAC
7686296 CGTGCACTTGCATTTTGCATAACATGA
261 CGTGCACTTGCATTTTGCATAACATGA
7686323 GG
1 GG
7686325 TCTCTACCCG
Statistics
Matches: 285, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
287 285 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (287 bp):
GGCGACTCCACTGGGGAACCATTCTTGAGAGTCGAGTCGAATTAAACACGTGTTGTTAAAATTTT
CAAATTTCTTTGTTCACATTAATATTTAGTCGTGATCCTCAAATTTTGTTTTCAAAAAAATTTAT
GCATTTACATCATGCTGTAAATATTCTTTTAACTTGTTTTATCTTGTTGATTTTCAGCCCTCAGT
TTTTTAGTTTTTGTAGTTTAGTTTTTAAATAAAACATAAAGGTTTGTGAGTTTCTCCCCACACAC
CGTGCACTTGCATTTTGCATAACATGA
Found at i:7692430 original size:21 final size:21
Alignment explanation
Indices: 7692404--7692446 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7692394 CCAAAGTAAG
7692404 AAAAATCATGAAAGTCGTCCT
1 AAAAATCATGAAAGTCGTCCT
7692425 AAAAATCATGAAAGTCGTCCT
1 AAAAATCATGAAAGTCGTCCT
7692446 A
1 A
7692447 CTGGTTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.19, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAAATCATGAAAGTCGTCCT
Found at i:7693396 original size:21 final size:22
Alignment explanation
Indices: 7693363--7693405 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
7693353 TTTTTATTTA
7693363 AAATTTAATTATAAAA-TATAT
1 AAATTTAATTATAAAATTATAT
7693384 AAATATTAA-TATAAAATTATAT
1 AAAT-TTAATTATAAAATTATAT
7693406 TTTATATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATTTAATTATAAAATTATAT
Found at i:7693515 original size:2 final size:2
Alignment explanation
Indices: 7693508--7693538 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7693498 TAGTATATTC
7693508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7693539 GGGAGATTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7704595 original size:13 final size:13
Alignment explanation
Indices: 7704591--7704615 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7704581 CAATTACCCA
7704591 ACCCAACCCAATT
1 ACCCAACCCAATT
7704604 ACCCAACCCAAT
1 ACCCAACCCAAT
7704616 CTTAAAAATT
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:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:7704600 original size:18 final size:18
Alignment explanation
Indices: 7704577--7704614 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
7704567 AATATATATT
7704577 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
7704595 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
7704613 AA
1 AA
7704615 TCTTAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.42, C:0.47, G:0.00, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:7704681 original size:7 final size:6
Alignment explanation
Indices: 7704640--7704680 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
7704630 GTAATTTAAT
*
7704640 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
7704681 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:7704681 original size:20 final size:20
Alignment explanation
Indices: 7704643--7704682 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
7704633 ATTTAATAAA
**
7704643 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
7704663 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
7704683 ATATAATTTT
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:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:7704714 original size:9 final size:9
Alignment explanation
Indices: 7704700--7704785 Score: 86
Period size: 9 Copynumber: 9.6 Consensus size: 9
7704690 TTTATACAAA
7704700 TAATTCGGT
1 TAATTCGGT
*
7704709 TAATTCAGT
1 TAATTCGGT
* *
7704718 TAATTTGGG
1 TAATTCGGT
7704727 TAATTCAGG-
1 TAATTC-GGT
7704736 TAATTCAGG-
1 TAATTC-GGT
*
7704745 TAATTCGGG
1 TAATTCGGT
7704754 TAATTCGGT
1 TAATTCGGT
**
7704763 TAATTCAAT
1 TAATTCGGT
7704772 TAATTCGGT
1 TAATTCGGT
7704781 TAATT
1 TAATT
7704786 TTATACTTAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
8 2 0.03
9 61 0.94
10 2 0.03
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (9 bp):
TAATTCGGT
Found at i:7704739 original size:27 final size:27
Alignment explanation
Indices: 7704700--7704785 Score: 120
Period size: 27 Copynumber: 3.2 Consensus size: 27
7704690 TTTATACAAA
*
7704700 TAATTCGGTTAATTCAGTTAATTTGGG
1 TAATTCGGTTAATTCAGTTAATTCGGG
*
7704727 TAATTCAGG-TAATTCAGGTAATTCGGG
1 TAATTC-GGTTAATTCAGTTAATTCGGG
* *
7704754 TAATTCGGTTAATTCAATTAATTCGGT
1 TAATTCGGTTAATTCAGTTAATTCGGG
7704781 TAATT
1 TAATT
7704786 TTATACTTAT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
26 2 0.04
27 48 0.92
28 2 0.04
ACGTcount: A:0.29, C:0.09, G:0.20, T:0.42
Consensus pattern (27 bp):
TAATTCGGTTAATTCAGTTAATTCGGG
Found at i:7706220 original size:35 final size:35
Alignment explanation
Indices: 7706153--7706320 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
7706143 TCCTCATTGA
*** *
7706153 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
7706189 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
7706229 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
7706264 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
7706299 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
7706321 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:7706279 original size:75 final size:73
Alignment explanation
Indices: 7706148--7706320 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
7706138 GGTTTTCCTC
*** * * **
7706148 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
7706213 TCAGTATGG
65 TCAGTATGG
*
7706222 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
7706286 ACTCAGTATGG
63 ACTCAGTATGG
7706297 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
7706321 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:7708997 original size:11 final size:11
Alignment explanation
Indices: 7708981--7709060 Score: 62
Period size: 9 Copynumber: 7.4 Consensus size: 11
7708971 AAAAAATTAC
7708981 AATTTTTTTAT
1 AATTTTTTTAT
*
7708992 AA--TTTTTAG
1 AATTTTTTTAT
7709001 AATTTTTTTTATT
1 AA-TTTTTTTA-T
7709014 ACAATTTTTTTAT
1 --AATTTTTTTAT
7709027 AA--TTTTTAT
1 AATTTTTTTAT
7709036 AATTTTTTTA-
1 AATTTTTTTAT
* *
7709046 CATTTTTTTGT
1 AATTTTTTTAT
7709057 AATT
1 AATT
7709061 ATTAAATTCA
Statistics
Matches: 55, Mismatches: 5, Indels: 18
0.71 0.06 0.23
Matches are distributed among these distances:
9 17 0.31
10 8 0.15
11 13 0.24
12 6 0.11
13 1 0.02
14 8 0.15
15 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.68
Consensus pattern (11 bp):
AATTTTTTTAT
Found at i:7709022 original size:35 final size:35
Alignment explanation
Indices: 7708976--7709044 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
7708966 TTTTTAAAAA
7708976 ATTACAATTTTTTTATAATTTTTAGAATTTTTTTT
1 ATTACAATTTTTTTATAATTTTTAGAATTTTTTTT
*
7709011 ATTACAATTTTTTTATAATTTTTATAATTTTTTT
1 ATTACAATTTTTTTATAATTTTTAGAATTTTTTT
7709045 ACATTTTTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (35 bp):
ATTACAATTTTTTTATAATTTTTAGAATTTTTTTT
Found at i:7709053 original size:20 final size:20
Alignment explanation
Indices: 7709016--7709052 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7709006 TTTTTATTAC
*
7709016 AATTTTTTTATAATTTTTAT
1 AATTTTTTTACAATTTTTAT
7709036 AATTTTTTTAC-ATTTTT
1 AATTTTTTTACAATTTTT
7709053 TTGTAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (20 bp):
AATTTTTTTACAATTTTTAT
Found at i:7709119 original size:14 final size:13
Alignment explanation
Indices: 7709097--7709142 Score: 51
Period size: 12 Copynumber: 3.5 Consensus size: 13
7709087 TTATCGTGTT
*
7709097 TTTTGTAAATTTTA
1 TTTTATAAA-TTTA
7709111 TTTTATAAATTT-
1 TTTTATAAATTTA
7709123 TTTTAT-AATTTA
1 TTTTATAAATTTA
7709135 TTTATATA
1 TTT-TATA
7709143 CTTTCTAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 5 0.18
12 9 0.32
13 6 0.21
14 8 0.29
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (13 bp):
TTTTATAAATTTA
Found at i:7709132 original size:25 final size:25
Alignment explanation
Indices: 7709095--7709142 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
7709085 AATTATCGTG
7709095 TTTTTTGTAAATTTTATTT-TATAAA
1 TTTTTTGTAAA-TTTATTTATATAAA
7709120 TTTTTT-TATAATTTATTTATATA
1 TTTTTTGTA-AATTTATTTATATA
7709143 CTTTCTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (25 bp):
TTTTTTGTAAATTTATTTATATAAA
Found at i:7710535 original size:20 final size:18
Alignment explanation
Indices: 7710494--7710535 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
7710484 AAATTCATTA
7710494 ATTAAAAATAAAAAAATT
1 ATTAAAAATAAAAAAATT
*
7710512 -TTAAAAATAATACAAATGT
1 ATTAAAAATAA-AAAAAT-T
7710531 ATTAA
1 ATTAA
7710536 TATTTAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
17 10 0.50
18 5 0.25
19 1 0.05
20 4 0.20
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
ATTAAAAATAAAAAAATT
Found at i:7716824 original size:18 final size:20
Alignment explanation
Indices: 7716788--7716829 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
7716778 TGCTTAGTCT
7716788 ATTTTATTTAAATAATAATA
1 ATTTTATTTAAATAATAATA
*
7716808 ATTTT-TTTAAA-AATAATT
1 ATTTTATTTAAATAATAATA
7716826 ATTT
1 ATTT
7716830 GGAATAGATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
19 6 0.29
20 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTATTTAAATAATAATA
Found at i:7717422 original size:20 final size:21
Alignment explanation
Indices: 7717397--7717437 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7717387 TTATAAGAAC
*
7717397 TTTGAGTT-ATTTTGATTAAT
1 TTTGAGTTGATTTTAATTAAT
7717417 TTTGAGTTGATTTTAATTAAT
1 TTTGAGTTGATTTTAATTAAT
7717438 GGTTTATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.59
Consensus pattern (21 bp):
TTTGAGTTGATTTTAATTAAT
Found at i:7721290 original size:17 final size:16
Alignment explanation
Indices: 7721253--7721289 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7721243 AAAATCAAGA
7721253 TTTTTACAACATACAT
1 TTTTTACAACATACAT
* *
7721269 TTTTTACAATATTCAT
1 TTTTTACAACATACAT
7721285 TTTTT
1 TTTTT
7721290 TTTCATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTTACAACATACAT
Found at i:7724170 original size:47 final size:47
Alignment explanation
Indices: 7724061--7724171 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
7724051 CCGGGATAAG
* * *
7724061 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAATATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
7724108 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
7724155 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
7724172 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Found at i:7731366 original size:14 final size:14
Alignment explanation
Indices: 7731335--7731367 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7731325 GATTTGATGA
7731335 AAATTTTTTAAGAG
1 AAATTTTTTAAGAG
*
7731349 -AATTTTTTTAGAG
1 AAATTTTTTAAGAG
7731362 AAATTT
1 AAATTT
7731368 ATGTGCGGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (14 bp):
AAATTTTTTAAGAG
Found at i:7738890 original size:18 final size:18
Alignment explanation
Indices: 7738867--7738902 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7738857 CAAATTTCAA
7738867 TCCATTTTACGTAACCAC
1 TCCATTTTACGTAACCAC
7738885 TCCATTTTACGTAACCAC
1 TCCATTTTACGTAACCAC
7738903 ACCAGATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.06, T:0.33
Consensus pattern (18 bp):
TCCATTTTACGTAACCAC
Found at i:7740846 original size:24 final size:24
Alignment explanation
Indices: 7740795--7740961 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
7740785 GCTTTATCAT
* *
7740795 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
* **
7740820 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTG
*
7740844 ATAACTGGGGCATAAACCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTG
7740867 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
7740891 ATAACTGGGGCATAAGCCCTTTCG
1 ATAACTGGGGCATAAGCCCTTTTG
7740915 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
*
7740939 ATAACTAGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
7740962 TCACTTCCTC
Statistics
Matches: 130, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
23 22 0.17
24 96 0.74
25 12 0.09
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:7740895 original size:71 final size:71
Alignment explanation
Indices: 7740794--7740961 Score: 248
Period size: 71 Copynumber: 2.3 Consensus size: 71
7740784 TGCTTTATCA
*
7740794 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATA
7740858 AACCCTTT
64 AACCCTTT
* * * *
7740866 TATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTCGATAACTGGGGCATAAG
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAA
7740931 CCCTTT
66 CCCTTT
*
7740937 TGATAACTAGGGCATAAGCCCTTTT
1 T-ATAACTGGGGCATAAGCCCTTTT
7740962 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
71 53 0.60
72 35 0.40
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (71 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTCAATAACTGGGGCATAAA
CCCTTT
Found at i:7741037 original size:20 final size:20
Alignment explanation
Indices: 7741012--7741071 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
7741002 TATGATTACC
7741012 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
7741032 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
7741052 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
7741072 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:7741042 original size:11 final size:11
Alignment explanation
Indices: 7741012--7741066 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
7741002 TATGATTACC
7741012 TCATGTGCATA
1 TCATGTGCATA
*
7741023 TCA--TACATA
1 TCATGTGCATA
7741032 TCATGTGCATA
1 TCATGTGCATA
* *
7741043 TCA--TACATT
1 TCATGTGCATA
7741052 TCATGTGCATA
1 TCATGTGCATA
7741063 TCAT
1 TCAT
7741067 ACATACCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:7741146 original size:25 final size:25
Alignment explanation
Indices: 7741114--7741161 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7741104 ATACATAAAC
* * *
7741114 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
7741139 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
7741162 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:7758843 original size:22 final size:20
Alignment explanation
Indices: 7758818--7758860 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
7758808 TATTAATCTA
7758818 AAAAAAATGCCTAAATAATAAT
1 AAAAAAATG-CTAAA-AATAAT
*
7758840 -AAAATATGCTAAAAATAAT
1 AAAAAAATGCTAAAAATAAT
7758859 AA
1 AA
7758861 TACAAGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
19 6 0.32
20 6 0.32
21 7 0.37
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (20 bp):
AAAAAAATGCTAAAAATAAT
Found at i:7760817 original size:26 final size:26
Alignment explanation
Indices: 7760787--7760842 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
7760777 TGAAATGCCC
7760787 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7760813 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7760839 ATCA
1 ATCA
7760843 ATTTGTACCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7761579 original size:22 final size:22
Alignment explanation
Indices: 7761554--7761596 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7761544 GTTTATGTTT
7761554 ATACATTACATACAGAAATAAA
1 ATACATTACATACAGAAATAAA
7761576 ATACATTACATACAGAAATAA
1 ATACATTACATACAGAAATAA
7761597 CTATGTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.58, C:0.14, G:0.05, T:0.23
Consensus pattern (22 bp):
ATACATTACATACAGAAATAAA
Found at i:7762205 original size:22 final size:22
Alignment explanation
Indices: 7762163--7762205 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7762153 TAGAAATGAT
* * *
7762163 TTGAAAAATATAATAATTTAAC
1 TTGAAAAAAATAAAAAATTAAC
7762185 TTGAAAAAAATAAAAAATTAA
1 TTGAAAAAAATAAAAAATTAA
7762206 ATCCAAATGA
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:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
TTGAAAAAAATAAAAAATTAAC
Found at i:7765885 original size:29 final size:30
Alignment explanation
Indices: 7765825--7765886 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 30
7765815 AAGTACTTTG
* * * *
7765825 AAATTTTTTATTTATATTTATTTGGTATTT
1 AAATTTTTTATTTAGATTTAATTGGCACTT
7765855 AAATTTTTT-TTTAGATTTAATTGGCACTT
1 AAATTTTTTATTTAGATTTAATTGGCACTT
7765884 AAA
1 AAA
7765887 CATGAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 19 0.68
30 9 0.32
ACGTcount: A:0.31, C:0.03, G:0.08, T:0.58
Consensus pattern (30 bp):
AAATTTTTTATTTAGATTTAATTGGCACTT
Found at i:7768661 original size:2 final size:2
Alignment explanation
Indices: 7768654--7768694 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
7768644 GGTGGTTTGG
*
7768654 AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7768695 AGTGATTATA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:7772798 original size:15 final size:15
Alignment explanation
Indices: 7772776--7772817 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
7772766 GAGGCCAAAG
7772776 TATAATTTTAA-TTT
1 TATAATTTTAACTTT
*
7772790 TACTAATTTAAACTTT
1 TA-TAATTTTAACTTT
7772806 TATAAATTTTAA
1 TAT-AATTTTAA
7772818 AGGGACTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 9 0.39
16 12 0.52
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAATTTTAACTTT
Found at i:7784128 original size:18 final size:18
Alignment explanation
Indices: 7784107--7784166 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
7784097 AATCGGTTAA
*
7784107 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
7784125 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
7784143 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
7784161 TCAGTA
1 TCAGTA
7784167 GCAAACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:7784712 original size:3 final size:3
Alignment explanation
Indices: 7784704--7784747 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7784694 ATTTTTATTT
7784704 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
7784748 TACCATTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:7785611 original size:31 final size:32
Alignment explanation
Indices: 7785555--7785617 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
7785545 CACACTTGTC
*
7785555 ATAATTTAATATATTTATTACATAAAAATCTT
1 ATAATATAATATATTTATTACATAAAAATCTT
*
7785587 ATAATATAAT-TATTTAATTA-ATAAATATCTT
1 ATAATATAATATATTT-ATTACATAAAAATCTT
7785618 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTT
Found at i:7785648 original size:21 final size:21
Alignment explanation
Indices: 7785605--7785649 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7785595 ATTATTTAAT
* * *
7785605 TAATAAATATCTTTTACTTAA
1 TAATAAATATCTATTAATAAA
7785626 TAATAAATATCTATTAATAAA
1 TAATAAATATCTATTAATAAA
7785647 TAA
1 TAA
7785650 ATATATGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (21 bp):
TAATAAATATCTATTAATAAA
Found at i:7797532 original size:3 final size:3
Alignment explanation
Indices: 7797524--7797565 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7797514 ATATATGCAT
7797524 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7797566 TCTACAATAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7798298 original size:12 final size:11
Alignment explanation
Indices: 7798257--7798298 Score: 50
Period size: 10 Copynumber: 3.8 Consensus size: 11
7798247 CAAGGTAAGC
*
7798257 AGAGAACAAAA
1 AGAGAAAAAAA
7798268 AGAAGAAAAAAA
1 AG-AGAAAAAAA
7798280 AGA-AAAAAAA
1 AGAGAAAAAAA
*
7798290 AGAGCAAAA
1 AGAGAAAAA
7798299 CTAAACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 10 0.37
11 7 0.26
12 10 0.37
ACGTcount: A:0.79, C:0.05, G:0.17, T:0.00
Consensus pattern (11 bp):
AGAGAAAAAAA
Found at i:7798900 original size:42 final size:42
Alignment explanation
Indices: 7798841--7798934 Score: 170
Period size: 42 Copynumber: 2.2 Consensus size: 42
7798831 TCCATCGCAT
*
7798841 CTTGTAGCTTTGGTTCAGTTCATTGCATATTCTGATATGGGC
1 CTTGTAGCTTTGGTTCAGTTCATTGCATATTCTGATATGGAC
*
7798883 CTTGTAGCTTTGGTTCAGTTCATTGCATCTTCTGATATGGAC
1 CTTGTAGCTTTGGTTCAGTTCATTGCATATTCTGATATGGAC
7798925 CTTGTAGCTT
1 CTTGTAGCTT
7798935 CAATCTACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.16, C:0.18, G:0.22, T:0.44
Consensus pattern (42 bp):
CTTGTAGCTTTGGTTCAGTTCATTGCATATTCTGATATGGAC
Found at i:7799388 original size:88 final size:86
Alignment explanation
Indices: 7799281--7799599 Score: 335
Period size: 88 Copynumber: 3.6 Consensus size: 86
7799271 ACGTGAGCAA
* * *
7799281 AGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTGA-AAACAGAATTTGCCAAACAGCTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG--AAACAGCTTTT
*
7799345 GGAAATACCTTGGCATGTGACCCG
64 GAAAATACCTT-GCATGTGACCCG
* * * *
7799369 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA-AAAGCATAAATTGAAAAAACATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAA-CAGAAATTGAAACAGC-TT--
*
7799433 TTGAAAATACC-T-CAACGTG-CCTCG
62 TTGAAAATACCTTGC-ATGTGACC-CG
* ***
7799457 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTG--AAACAGCTTTT
* * *
7799521 GAAAAGACCTCAGCATGTGAGCCG
64 GAAAATACCT-TGCATGTGACCCG
*
7799545 AGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAA
7799600 TTACCTCAGC
Statistics
Matches: 196, Mismatches: 21, Indels: 29
0.80 0.09 0.12
Matches are distributed among these distances:
86 10 0.05
87 25 0.13
88 119 0.61
89 32 0.16
90 10 0.05
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (86 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAGAAATTGAAACAGCTTTTGA
AAATACCTTGCATGTGACCCG
Found at i:7799489 original size:176 final size:176
Alignment explanation
Indices: 7799281--7799996 Score: 526
Period size: 176 Copynumber: 4.3 Consensus size: 176
7799271 ACGTGAGCAA
* * * ** ***
7799281 AGGCTCAACTCACTTCTCGTAATATGAGTTGATTTTTGA-AAACAGAATTTGCCAAACAGCTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAATTGAAAAACAGAAATT
* * ** *
7799345 GGAAATACCTTGGCATGTGACCCGAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGA-A
65 GAAAAGACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
*
7799409 AAGCATAAATTGAAAAAACATTAATTGAAAATACCTCAACGTGCCTCG
130 AA-CAGAAATTGAAAAAACATTAATTGAAAATACCTCAACGTGCCTCG
*
7799457 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACGAACAGAAATTGAAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAAACAGAAATTG
* *
7799522 AAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTTGACAA
66 AAAAGACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA
*
7799587 ACAGAAATTG-------A--AA-T-----TACCTCAGCGTGTCCT-G
131 ACAGAAATTGAAAAAACATTAATTGAAAATACCTCAACGTG-CCTCG
* ** * *
7799618 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTGA-AGAGTAGAAATTGGAAAGCAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTGACA-AACAGAAATTGAAAAACAGA
* * * *
7799682 AATCGAAAATACCTCAG--TGTG-CCCTGAGGCTCAACTCACCTCTTGCAATATTAGTTGATTTT
61 AATTGAAAAGACCTCAGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
* * * *
7799744 T------------TTG-ACAAACATAAATTGAAATTACCTCAGCGTGTCCT-G
125 TGACAAACAGAAATTGAAAAAACATTAATTGAAAATACCTCAACGTG-CCTCG
* * * *
7799783 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-----------TTTTAAAAGCAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAAACAGAAATTG
* * * *
7799837 AAAATACCTCAGC--GTG-CCCTGAGGCTTAACTCACCTCTCGCAATATGAGCTGATTTTTGAAA
66 AAAAGACCTCAGCATGTGACCC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACA
* ** * * *
7799899 AACATAAATTGAAGAAAACAGAAATTGAAATTACCTCAGCATGTCCT-G
130 AACAGAAATTGAA-AAAACATTAATTGAAAATACCTCAACGTG-CCTCG
* *
7799947 AGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAACAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGACAAACAGAAAT
7799997 AAAACATCAG
Statistics
Matches: 444, Mismatches: 46, Indels: 100
0.75 0.08 0.17
Matches are distributed among these distances:
150 67 0.15
151 3 0.01
157 1 0.00
159 2 0.00
160 1 0.00
161 47 0.11
162 8 0.02
163 40 0.09
164 61 0.14
165 88 0.20
166 1 0.00
167 2 0.00
169 1 0.00
175 6 0.01
176 113 0.25
177 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.28
Consensus pattern (176 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACAAACAGAAATTGAAAAACAGAAATTG
AAAAGACCTCAGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAA
ACAGAAATTGAAAAAACATTAATTGAAAATACCTCAACGTGCCTCG
Found at i:7799514 original size:14 final size:14
Alignment explanation
Indices: 7799497--7799525 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7799487 GATTTTGACG
7799497 AACAGAAATTGAAA
1 AACAGAAATTGAAA
7799511 AACAGAAATTGAAA
1 AACAGAAATTGAAA
7799525 A
1 A
7799526 GACCTCAGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.14, T:0.14
Consensus pattern (14 bp):
AACAGAAATTGAAA
Found at i:7799643 original size:73 final size:74
Alignment explanation
Indices: 7799505--7799911 Score: 277
Period size: 75 Copynumber: 5.3 Consensus size: 74
7799495 CGAACAGAAA
* *
7799505 TTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGGCTCAACTCACCTCTCGCGATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCA-GTGAGCCGAGGCTCAACTCACCTCTCACAATAT
7799570 GAGTTGATTT
65 GAGTTGATTT
* ** *
7799580 TTGACAAACAGAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCACAATAT
7799643 GAGTTGATTTTTT
65 GAGTTGA---TTT
* ** * ** *
7799656 TTGAAGAGTAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCAC
1 TTGAAAAACAGAAATT-GAAA--AG--A-C----CT-CAGCAGTGAG-CC-GAGGCTCAACTCAC
** *
7799721 CTCTTGCAATATTAGTTGATTTTT
53 CTCTCACAATATGAGTTGA--TTT
* * ** * * *
7799745 TTGACAAACATAAATTGAAATTACCTCAGC-GTG-TCCTGAGGCTCAACTCACTTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCACAATAT
7799808 GAGTTGATTTTT
65 GAGTTGA--TTT
* * * * * *
7799820 TTTAAAAGCAGAAATTGAAAATACCTCAGC-GTG-CCCTGAGGCTTAACTCACCTCTCGCAATAT
1 TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCC-GAGGCTCAACTCACCTCTCACAATAT
*
7799883 GAGCTGATTT
65 GAGTTGATTT
*
7799893 TTGAAAAACATAAATTGAA
1 TTGAAAAACAGAAATTGAA
7799912 GAAAACAGAA
Statistics
Matches: 269, Mismatches: 45, Indels: 38
0.76 0.13 0.11
Matches are distributed among these distances:
72 2 0.01
73 53 0.20
75 126 0.47
76 15 0.06
77 7 0.03
78 2 0.01
79 1 0.00
81 1 0.00
82 1 0.00
83 1 0.00
84 1 0.00
86 1 0.00
87 2 0.01
88 7 0.03
89 16 0.06
90 33 0.12
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAAGACCTCAGCAGTGAGCCGAGGCTCAACTCACCTCTCACAATATG
AGTTGATTT
Found at i:7799763 original size:165 final size:161
Alignment explanation
Indices: 7799431--7799983 Score: 589
Period size: 165 Copynumber: 3.4 Consensus size: 161
7799421 AAAAAACATT
* * * **
7799431 AATTGAAAATACCTCAACGTG-CCTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTT
* * * * *
7799495 CGA-ACAGAAATTGAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCC-GAGGCTCAACTCAC
65 TGAGATAGAAATTG-AAAGCAGAAATTGAAAATACCTCAG--TGTG-CCCTGAGGCTCAACTCAC
*
7799558 CTCTCGCGATATGAGTTGA--TTTTTGACAAACAGA
126 CTCTCGCAATATGAGTTGATTTTTTTGACAAACAGA
7799592 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGA-TTTTTT
*
7799657 TGAAGAGTAGAAATTGGAAAGCAGAAATCGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACC
65 TG-AGA-TAGAAATT-GAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACC
* * *
7799722 TCTTGCAATATTAGTTGATTTTTTTGACAAACATA
127 TCTCGCAATATGAGTTGATTTTTTTGACAAACAGA
* *
7799757 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
* *
7799822 ----T----A---AAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTCTC
66 GAGATAGAAATTGAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTC
* *
7799876 GCAATATGAGCTGATTTTTGAAAAACATAAATTGAAGAAAACAGA
131 GCAATATGAGTTGA-TTTT--------T---TTG-A-CAAACAGA
*
7799921 AATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
7799984 GAAAAACAGA
Statistics
Matches: 341, Mismatches: 28, Indels: 43
0.83 0.07 0.10
Matches are distributed among these distances:
150 60 0.18
151 4 0.01
154 1 0.00
158 1 0.00
159 1 0.00
161 51 0.15
162 13 0.04
163 36 0.11
164 74 0.22
165 99 0.29
166 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (161 bp):
AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
GAGATAGAAATTGAAAGCAGAAATTGAAAATACCTCAGTGTGCCCTGAGGCTCAACTCACCTCTC
GCAATATGAGTTGATTTTTTTGACAAACAGA
Found at i:7799918 original size:16 final size:16
Alignment explanation
Indices: 7799897--7799927 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7799887 TGATTTTTGA
*
7799897 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
7799913 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
7799928 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:7799980 original size:89 final size:90
Alignment explanation
Indices: 7799823--7799996 Score: 278
Period size: 89 Copynumber: 1.9 Consensus size: 90
7799813 GATTTTTTTT
* * *
7799823 AAAAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTTAACTCACCTCTCGCAATATGAGCT
1 AAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCT
*
7799888 GATTTTTGAAAAACATAAATTGAAG
66 GATTTTTGAAAAACAGAAATTGAAG
* * *
7799913 AAAA-CAGAAATTGAAATTACCTCAGCATGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTT
1 AAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCT
7799977 GATTTTTGAAAAACAGAAAT
66 GATTTTTGAAAAACAGAAAT
7799997 AAAACATCAG
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
89 73 0.95
90 4 0.05
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (90 bp):
AAAAGCAGAAATTGAAAATACCTCAGCATGCCCTGAGGCTCAACTCACCTCTCACAATATGAGCT
GATTTTTGAAAAACAGAAATTGAAG
Found at i:7812604 original size:18 final size:17
Alignment explanation
Indices: 7812577--7812610 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
7812567 ACTCTTATTA
7812577 TTTTTATATTATTAATT
1 TTTTTATATTATTAATT
7812594 TTTTTACTATTATTAAT
1 TTTTTA-TATTATTAAT
7812611 ATTATTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTATATTATTAATT
Found at i:7813046 original size:27 final size:25
Alignment explanation
Indices: 7812997--7813052 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
7812987 ATATTATTAG
*
7812997 TTATGTATATATTCTTTACATTATC
1 TTATGTATATATTCTTTACATTATA
* *
7813022 TTATGTATATATATTTTTCATATTATA
1 TTATGTATATAT-TCTTT-ACATTATA
7813049 TTAT
1 TTAT
7813053 ATACCTATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 12 0.46
26 4 0.15
27 10 0.38
ACGTcount: A:0.30, C:0.07, G:0.04, T:0.59
Consensus pattern (25 bp):
TTATGTATATATTCTTTACATTATA
Found at i:7813055 original size:25 final size:26
Alignment explanation
Indices: 7812985--7813055 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
7812975 TACGTACTTC
*
7812985 TCATATTATTAGTTATGTATATATTCTT
1 TCATATTA-TA-TTATATATATATTCTT
* *
7813013 T-ACATTATCTTATGTATATATATT-TT
1 TCATATTATATTA--TATATATATTCTT
7813039 TCATATTATATTATATA
1 TCATATTATATTATATA
7813056 CCTATCCTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
25 7 0.20
26 4 0.11
27 23 0.66
28 1 0.03
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.56
Consensus pattern (26 bp):
TCATATTATATTATATATATATTCTT
Found at i:7825548 original size:12 final size:13
Alignment explanation
Indices: 7825525--7825559 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
7825515 TGTCGAGGTA
7825525 TTTTCAAATTCTG
1 TTTTCAAATTCTG
7825538 TTTTC-AATTCTG
1 TTTTCAAATTCTG
*
7825550 TTTTTAAATT
1 TTTTCAAATT
7825560 TTTACTTTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.23, C:0.11, G:0.06, T:0.60
Consensus pattern (13 bp):
TTTTCAAATTCTG
Found at i:7825670 original size:73 final size:69
Alignment explanation
Indices: 7825571--7825820 Score: 257
Period size: 70 Copynumber: 3.5 Consensus size: 69
7825561 TTACTTTCCT
* ** *
7825571 AAAACCAACTCATATTGCGAGAGGTGAGTCAAGCCTCAGGTCACGCTGAGGTATTTTAATTCCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAATT--T-
*
7825636 TTGTTTCA
63 ATG-TTCA
* * * *
7825644 AAAATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGT-ATTTTAATTTAT
*
7825709 GTTCC
65 GTTCA
* * *
7825714 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTTAGTTTAT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTA-TTTTAATTTAT
*
7825779 GTTTA
65 GTTCA
** * * * *
7825784 GAAAATTGACTCATCTTGCGAAAGGTGAATTAAGCCT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
7825821 TTTAATTTCT
Statistics
Matches: 149, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
69 1 0.01
70 62 0.42
71 32 0.21
72 1 0.01
73 45 0.30
74 8 0.05
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (69 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTAATTTATG
TTCA
Found at i:7825989 original size:88 final size:87
Alignment explanation
Indices: 7825840--7826002 Score: 231
Period size: 88 Copynumber: 1.9 Consensus size: 87
7825830 TGTTTTTTCA
* * * *
7825840 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTTGGCTTACGTGCTGAGCTATTTTCAATTT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAA-TT
*
7825905 CTATTTTTCAAACTCCGTTCGTC
65 CTATTATTCAAACTCCGTTCGTC
*
7825928 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGAG-TCACATG-TCGAGGTATTTTCAAT
1 AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCG-GCTCACATGCT-GAGCTATTTTCAAT
7825991 TCTATTATTCAA
64 TCTATTATTCAA
7826003 TTCTGTTTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
87 13 0.19
88 53 0.79
89 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (87 bp):
AAAATCAACTCATATTGCAAGAGATGAGTTGAGCCTCGGCTCACATGCTGAGCTATTTTCAATTC
TATTATTCAAACTCCGTTCGTC
Found at i:7826198 original size:87 final size:84
Alignment explanation
Indices: 7825993--7826231 Score: 241
Period size: 87 Copynumber: 2.8 Consensus size: 84
7825983 TTTTCAATTC
* * * * *
7825993 TATTATTCAATTCTG-TTTTTAATTTTTACTTTCCTAAAACCAACTCATATTGCGAGAGGTGAGT
1 TATT-TTCAATT-TGCTTTTCAA-TTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
** *
7826057 CAAGCCTCGGGGCACACTGAGG
63 TGAGCCTCAGGGCACACTGAGG
*
7826079 TATTTTCAATTTGCTTTTCAATTCCTACTTTTCAAAAAGATCAGCTCATATTGCGAGAGGTGAGT
1 TATTTTCAATTTGCTTTTCAATT-CTACTTTTC-AAAA-ATCAACTCATATTGCGAGAGGTGAGT
* *
7826144 TGAGCCTCAGGTCACGCTGAGG
63 TGAGCCTCAGGGCACACTGAGG
* * * *
7826166 TATTTTCAATTTTTG-TTTTCAGTT-TATGTTTTCAAGAATCAACTCATATTGCGAGAGGTGGGT
1 TATTTTCAA--TTTGCTTTTCAATTCTA-CTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGT
7826229 TGA
63 TGA
7826232 ACCTTTTAAT
Statistics
Matches: 130, Mismatches: 16, Indels: 15
0.81 0.10 0.09
Matches are distributed among these distances:
84 4 0.03
85 47 0.36
86 12 0.09
87 55 0.42
88 8 0.06
89 4 0.03
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.38
Consensus pattern (84 bp):
TATTTTCAATTTGCTTTTCAATTCTACTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
GCCTCAGGGCACACTGAGG
Found at i:7826383 original size:71 final size:74
Alignment explanation
Indices: 7826262--7826437 Score: 223
Period size: 71 Copynumber: 2.4 Consensus size: 74
7826252 TCAAAATTAG
* * * * **
7826262 CTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAATTT-TG-TGT-TT
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
* **
7826324 TAATTTCAA
66 AAAAATCAA
*
7826333 CTCATATGGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
7826398 AAAAATCAA
66 AAAAATCAA
* *
7826407 CTCATATTGCGAAAAGTGAGTTGAGCCTCAG
1 CTCATATTGCGAGAGGTGAGTTGAGCCTCAG
7826438 TTCACATGCT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
71 50 0.56
72 2 0.02
73 3 0.03
74 34 0.38
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (74 bp):
CTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAA
AAAAATCAA
Found at i:7826664 original size:44 final size:44
Alignment explanation
Indices: 7826553--7826647 Score: 163
Period size: 44 Copynumber: 2.2 Consensus size: 44
7826543 GAATAAAGAT
7826553 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTAAAATTACAG
1 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTAAAATTACAG
* * *
7826597 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTGAAGTTATAG
1 TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTAAAATTACAG
7826641 TGGAGCT
1 TGGAGCT
7826648 GATCGAGGAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.35
Consensus pattern (44 bp):
TGGAGCTAATTGAAGATGTCAGATTTTGTCTCCTAAAATTACAG
Found at i:7828244 original size:43 final size:44
Alignment explanation
Indices: 7828159--7828247 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
7828149 CTCCCGAACC
*
7828159 TTAATTTTTCTCTGGCTTTTAACGTAGACCTAAACTCGGCCTTT
1 TTAATTTTTCTCTGGCTTTTAACATAGACCTAAACTCGGCCTTT
7828203 TTAATTTTTCTCTGGCTTTT-ACATAGACCTAAACTCGGCCTTT
1 TTAATTTTTCTCTGGCTTTTAACATAGACCTAAACTCGGCCTTT
7828246 TT
1 TT
7828248 CTCGTTTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 24 0.55
44 20 0.45
ACGTcount: A:0.20, C:0.22, G:0.12, T:0.45
Consensus pattern (44 bp):
TTAATTTTTCTCTGGCTTTTAACATAGACCTAAACTCGGCCTTT
Found at i:7828908 original size:12 final size:11
Alignment explanation
Indices: 7828891--7828968 Score: 56
Period size: 11 Copynumber: 6.8 Consensus size: 11
7828881 ATATATATGC
7828891 ATATAATAAAGT
1 ATATAATAAA-T
7828903 ATATAAT-AAT
1 ATATAATAAAT
7828913 AATAATAATAATAT
1 -AT-ATAATAA-AT
*
7828927 ATAATAATAAAC
1 AT-ATAATAAAT
7828939 A-ATAAT-AAT
1 ATATAATAAAT
7828948 AATATAAT-AAT
1 -ATATAATAAAT
7828959 AATATAATAA
1 -ATATAATAA
7828969 TATCTACAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
9 2 0.04
10 7 0.12
11 20 0.35
12 15 0.26
13 11 0.19
14 2 0.04
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (11 bp):
ATATAATAAAT
Found at i:7828911 original size:3 final size:3
Alignment explanation
Indices: 7828905--7828970 Score: 91
Period size: 3 Copynumber: 22.0 Consensus size: 3
7828895 AATAAAGTAT
*
7828905 ATA ATA ATA ATA ATA ATA ATA TATA ATA ATAA ACA ATA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA AT-A ATA ATA ATA ATA ATA
7828951 ATA ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA
7828971 TCTACAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 48 0.84
4 5 0.09
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7828965 original size:29 final size:32
Alignment explanation
Indices: 7828907--7828970 Score: 101
Period size: 35 Copynumber: 1.9 Consensus size: 32
7828897 TAAAGTATAT
7828907 AATAATAATAATAATAATATATAATAATAAAC
1 AATAATAATAATAATAATATATAATAATAAAC
7828939 AATAATAATAATATAATAATAATATAATAATA
1 AATAATAAT-A-ATAATAAT-ATATAATAATA
7828971 TCTACAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
32 9 0.31
33 1 0.03
34 8 0.28
35 11 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (32 bp):
AATAATAATAATAATAATATATAATAATAAAC
Found at i:7828971 original size:19 final size:18
Alignment explanation
Indices: 7828903--7828971 Score: 88
Period size: 19 Copynumber: 3.8 Consensus size: 18
7828893 ATAATAAAGT
7828903 ATATAATAATAATAATAATA
1 ATAT-ATAATAAT-ATAATA
*
7828923 ATATATAATAATA-AACA
1 ATATATAATAATATAATA
7828940 ATA-ATAATAATATAATA
1 ATATATAATAATATAATA
7828957 ATAATATAATAATAT
1 AT-ATATAATAATAT
7828972 CTACAATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
16 9 0.20
17 11 0.25
18 2 0.05
19 18 0.41
20 4 0.09
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (18 bp):
ATATATAATAATATAATA
Found at i:7834566 original size:14 final size:12
Alignment explanation
Indices: 7834546--7834579 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 12
7834536 TCAGTATTAT
7834546 TTTTAATGAAAGG
1 TTTTAATGAAA-G
7834559 TCTTTAATGAAAG
1 T-TTTAATGAAAG
7834572 TTTTAATG
1 TTTTAATG
7834580 CTTAAAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 7 0.35
13 3 0.15
14 10 0.50
ACGTcount: A:0.35, C:0.03, G:0.18, T:0.44
Consensus pattern (12 bp):
TTTTAATGAAAG
Found at i:7836625 original size:23 final size:24
Alignment explanation
Indices: 7836599--7836646 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
7836589 AATAAGACTA
*
7836599 TAGTAATAATGAT-AATAAAAAAT
1 TAGTAATAATAATAAATAAAAAAT
7836622 TAGTAATAATAATAAAATAAAAAAT
1 TAGTAATAATAAT-AAATAAAAAAT
7836647 ATGATGGTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.55
25 10 0.45
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (24 bp):
TAGTAATAATAATAAATAAAAAAT
Found at i:7836676 original size:3 final size:3
Alignment explanation
Indices: 7836668--7836866 Score: 147
Period size: 3 Copynumber: 66.0 Consensus size: 3
7836658 AGTAATAGTG
* * *
7836668 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA GTA GTT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
7836716 GTT TTG GTA ATAA ATA ATA ATA GACA A-A ATA ATA ATA AT- ATA A-A
1 ATA ATA ATA AT-A ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA
* * *
7836760 ATA ATA ATA ATA ATA A-A ATGA AGA AAA ACA ATA ATA CATTA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA ATA ATA
** * * * *
7836807 ATA A-A ATCA GGA ATA ATA ATT ATA ACA ACA ATA ATA ATA ATT ATA
1 ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7836852 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
7836867 TGAAATTCGA
Statistics
Matches: 163, Mismatches: 22, Indels: 22
0.79 0.11 0.11
Matches are distributed among these distances:
2 10 0.06
3 141 0.87
4 10 0.06
5 2 0.01
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7838469 original size:41 final size:41
Alignment explanation
Indices: 7838415--7838494 Score: 108
Period size: 41 Copynumber: 2.0 Consensus size: 41
7838405 TGTTGCTTTA
* *
7838415 ATCTACTCCACTGCAACTTT-AGGGAAATAAGATTTGTTTTG
1 ATCTACTCCACTGCAA-TTTCAGAGAAATAAGATCTGTTTTG
* *
7838456 ATCTACTCTACTGCAATTTCAGAGAGATAAGATCTGTTT
1 ATCTACTCCACTGCAATTTCAGAGAAATAAGATCTGTTT
7838495 ATTCATAGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 3 0.09
41 31 0.91
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.36
Consensus pattern (41 bp):
ATCTACTCCACTGCAATTTCAGAGAAATAAGATCTGTTTTG
Found at i:7838883 original size:93 final size:92
Alignment explanation
Indices: 7838613--7839312 Score: 550
Period size: 93 Copynumber: 7.6 Consensus size: 92
7838603 CCAATGCCAT
* *
7838613 TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAAATAAGATCTGTTTAT
1 TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TTAT
* * *
7838678 TTATAGCTTCATTCTGTTCTACTACAAC
65 TTATAGCTTCAATCTGTTCCACTGCAAC
* * * * * *
7838706 TTCAGGGAAATAAGATTTGCTATCTTCTG-TCTACTCCACTGCAACTTAAAAGAGATAAGA-C--
1 TTCAGGGAGATAAGGTTTG---T-TT-TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
* * * *
7838767 -TA-GT-GA-CTTCAACCTGCTCCACTGCAAC
61 TTATTTATAGCTTCAATCTGTTCCACTGCAAC
* * * * *
7838795 TTCAGGGAGATGAGGTTTGTTTTGATCTACACTACTACAACTTCAGAGAGATAAAATCTGTTTAT
1 TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TTAT
7838860 TTATAGCTTCAATCTGTTCCACTGCAAC
65 TTATAGCTTCAATCTGTTCCACTGCAAC
* * * *
7838888 TTCAGGGAAATAAGATTTGCTATCTTCTG-TCTGCTCCACTGTAACTTCAG-GAAGATAAGA-C-
1 TTCAGGGAGATAAGGTTTG---T-TT-TGATCTGCTCTACTGCAACTTCAGAG-AGATAAGATCT
* * * * **
7838949 --TA-GT-GA-CTTCAACCTGCTCCACAACAAC
60 GTTATTTATAGCTTCAATCTGTTCCACTGCAAC
* * *
7838977 TTCAGGGAGATAAGGTTTGTTTTTATCTGCTCTACTGCAACTCCAGAAAGATAAGATCTGCTTAT
1 TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TTAT
7839042 TTATAGCTTCAATCTGTTCCACTGCAAC
65 TTATAGCTTCAATCTGTTCCACTGCAAC
* * * *
7839070 TTCAGGGAAATAAGATTTGCTATCTTCTG-TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--
1 TTCAGGGAGATAAGGTTTG---T-TT-TGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG
* * * *
7839131 -TA-GT-GA-CTTCAACCTGCTCCACTGCAAC
61 TTATTTATAGCTTCAATCTGTTCCACTGCAAC
* *
7839159 TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTCCAGAGAGATAAGATCTGTTTAT
1 TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTG-TTAT
*
7839224 TTATAGCTTCAATCTGTTCCACTGAAAC
65 TTATAGCTTCAATCTGTTCCACTGCAAC
* * * * * * *
7839252 TTCAGGGAAATAAGATTTGCTATTTTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGAT
1 TTCAGGGAGATAAGGTTTG---TTTTGA-TCTGCTCTACTGCAACTTCAGAGAGATAAGAT
7839313 TTGTAACTTC
Statistics
Matches: 474, Mismatches: 85, Indels: 92
0.73 0.13 0.14
Matches are distributed among these distances:
84 5 0.01
85 84 0.18
86 6 0.01
89 105 0.22
90 9 0.02
91 6 0.01
92 9 0.02
93 124 0.26
96 12 0.03
97 109 0.23
98 5 0.01
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (92 bp):
TTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTTATT
TATAGCTTCAATCTGTTCCACTGCAAC
Found at i:7838968 original size:44 final size:44
Alignment explanation
Indices: 7838866--7839172 Score: 187
Period size: 44 Copynumber: 6.8 Consensus size: 44
7838856 TTATTTATAG
* * *
7838866 CTTCAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTGCT-A
1 CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTAG-TGA
** *
7838910 TCTTCTGTCTGCTCCACTGTAACTTCAGGAAGATAAGACTAGTGA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTGA
* ** * * *
7838955 CTTCAACCTGCTCCACAACAACTTCAGGGAGATAAG-GT-TTG-
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTGA
* ** * * * * *
7838996 TTTTTATCTGCTCTACTGCAACTCCAGAAAGATAAGATCTGCTTATTTATA
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGA----C-TA-GT-GA
* * *
7839047 GCTTCAATCTGTTCCACTGCAACTTCAGGGAA-ATAAGATTTGCT-A
1 -CTTCAATCTGCTCCACTGCAACTTCA-GGAAGATAAGACTAG-TGA
** *
7839092 TCTTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGA
1 -CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTGA
* *
7839137 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAG
7839173 GTTTGTTTTG
Statistics
Matches: 198, Mismatches: 47, Indels: 35
0.71 0.17 0.12
Matches are distributed among these distances:
41 26 0.13
42 2 0.01
43 1 0.01
44 71 0.36
45 64 0.32
47 3 0.02
49 2 0.01
52 26 0.13
53 3 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGTGA
Found at i:7839221 original size:41 final size:41
Alignment explanation
Indices: 7839144--7839221 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
7839134 TGACTTCAAC
* * * * *
7839144 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGAT
1 CTGCTCCACTACAACTCCAGAGAGATAAGATCTGTTTTGAT
*
7839185 CTGCTCTACTACAACTCCAGAGAGATAAGATCTGTTT
1 CTGCTCCACTACAACTCCAGAGAGATAAGATCTGTTT
7839222 ATTTATAGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.32
Consensus pattern (41 bp):
CTGCTCCACTACAACTCCAGAGAGATAAGATCTGTTTTGAT
Found at i:7839314 original size:45 final size:44
Alignment explanation
Indices: 7838867--7839327 Score: 256
Period size: 45 Copynumber: 10.2 Consensus size: 44
7838857 TATTTATAGC
* * * *
7838867 TTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TATT
** ** * * * *
7838912 TTCTGTCTGCTCCACTGTAACTTCAGGAAGATAAGACTAGTGA-C
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGT-ATT
* * *
7838956 TTCAACCTGCTCCACAACAACTTCAGGGAGATAAGGTTTGT-TT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTATT
* * * ** *
7838999 TT--ATCTGCTCTACTGCAACTCCAGAAAGATAAGATCTGCTTATTTAT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG--TA--T-T
* * * *
7839046 AGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATC
1 ---TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTG-TATT
** * * * *
7839094 TTCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGA-C
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGT-ATT
* * *
7839138 TTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG--TT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTATT
* * * * *
7839180 TT-GATCTGCTCTACTACAACTCCAGAGAGATAAGATCTGTTTATTTAT
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGAT-T-TGTA--T-T
* *
7839228 AGCTTCAATCTGTTCCACTGA-AACTTCAGGGAAATAAGATTTGCTATT
1 ---TTCAATCTGCTCCACT-ACAACTTCAGGGAGATAAGATTTG-TATT
* * **
7839276 TTCAGTCTGCTCCACTACAACTTTAGGGAGATAAGATTTGTAAC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTATT
7839320 TTCAATCT
1 TTCAATCT
7839328 ACTTTGCTGA
Statistics
Matches: 315, Mismatches: 72, Indels: 59
0.71 0.16 0.13
Matches are distributed among these distances:
41 54 0.17
42 3 0.01
43 4 0.01
44 79 0.25
45 102 0.32
46 1 0.00
47 2 0.01
48 2 0.01
49 2 0.01
50 3 0.01
51 7 0.02
52 55 0.17
53 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (44 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGTATT
Found at i:7839344 original size:182 final size:182
Alignment explanation
Indices: 7838420--7839311 Score: 1363
Period size: 182 Copynumber: 4.9 Consensus size: 182
7838410 CTTTAATCTA
* * * * * *
7838420 CTCCACTGCAACTTTAGGGAAATAAGATTTGTTTTGATCTACTCTACTGCAATTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATA
* * * * * *
7838485 AGATCTGTTTATTCATAGCTTTAATATGTTTCACTGCAACTTCAGGGAAATAAGATTCGCTACCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* * * *
7838550 TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGGCTTCAATC-A
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
* * * *
7838601 CTCCAATGCCATTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAAATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATA
* * *
7838666 AGATCTGTTTATTTATAGCTTCATTCTGTTCTACTACAACTTCAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* * **
7838731 TCTGTCTACTCCACTGCAACTTAAAAGAGATAAGACTAGTGACTTCAACCTG
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
* * *
7838783 CTCCACTGCAACTTCAGGGAGATGAGGTTTGTTTTGATCTACACTACTACAACTTCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATA
*
7838848 AAATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* *
7838913 TCTGTCTGCTCCACTGTAACTTCAGGAAGATAAGACTAGTGACTTCAACCTG
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
** * * * *
7838965 CTCCACAACAACTTCAGGGAGATAAGGTTTGTTTTTATCTGCTCTACTGCAACTCCAGAAAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATA
*
7839030 AGATCTGCTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
7839095 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
*
7839147 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTCCAGAGAGATA
1 CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATA
* *
7839212 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGAAACTTCAGGGAAATAAGATTTGCTATTT
66 AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
* * *
7839277 TCAGTCTGCTCCACTACAACTTTAGGGAGATAAGA
131 TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGA
7839312 TTTGTAACTT
Statistics
Matches: 642, Mismatches: 68, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
181 154 0.24
182 488 0.76
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (182 bp):
CTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGCTCTACTACAACTTCAGAGAGATA
AGATCTGTTTATTTATAGCTTCAATCTGTTCCACTGCAACTTCAGGGAAATAAGATTTGCTATCT
TCTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTGACTTCAACCTG
Found at i:7839452 original size:68 final size:68
Alignment explanation
Indices: 7839333--7839534 Score: 287
Period size: 68 Copynumber: 3.0 Consensus size: 68
7839323 AATCTACTTT
* * * *
7839333 GCTGAAACTTCAAGGAGATCTGCTATGGCTTCGAGTCGCTCTAACGCCATTTCAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
7839398 TCC
66 TCC
* * * * *
7839401 GCTGAAAATTCATGGAGATCTGTTGTGGCTTCTAGCCGCTCCAACGTCATTTTAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
*
7839466 TCT
66 TCC
* **
7839469 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTATAGCTACTCCAACGCCATTTCAGGGAGAAGAGA
1 GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
7839534 T
66 T
7839535 TTGTAATTCC
Statistics
Matches: 116, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 116 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (68 bp):
GCTGAAACTTCAAGGAGATCTGCTGTGGCTTCTAGCCGCTCCAACGCCATTTCAGGGAGAAGAGA
TCC
Found at i:7839945 original size:86 final size:85
Alignment explanation
Indices: 7839531--7840321 Score: 908
Period size: 86 Copynumber: 9.2 Consensus size: 85
7839521 CAGGGAGAAG
* * * * * **
7839531 AGATTTGTAATTCCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCTAAACGCCTTCGATCCA
1 AGATCTGTAATT--CAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTCACCGTCTTCGATCTG
* * *
7839596 TTCCGCTACTGCTTAGGGAGATA
63 CTCCGCTACTGCTTAAGGAGACA
* *
7839619 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTAACCATCTTCGA-CTCG
1 AGATCTGTAA--TTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCT-G
*
7839683 CTCCGCTACTGCTTAAGGAGATA
63 CTCCGCTACTGCTTAAGGAGACA
* * * * * ***
7839706 ATATTTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTAAACGCCTTCGATCCATTC
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCTGCTC
* *
7839771 CGCTACTGCTTAGGGAGATA
66 CGCTACTGCTTAAGGAGACA
* ** * *
7839791 AGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTAACTATCTTCGACCCG
1 AGATCTGTAA--TTCAGCCTGTTACCCTACTGCTT-AGGGGTTAAGGCTCACCGTCTTCGATCTG
* *
7839856 CTCCGCTATTGCTTAAGGAGATA
63 CTCCGCTACTGCTTAAGGAGACA
* * *
7839879 ATATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCATCGTCTTTGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTCACCGTCTTCGATCTGCT
*
7839944 CCGCTACTGCTTAGGGAGACA
65 CCGCTACTGCTTAAGGAGACA
* * * * * *
7839965 AGATTTATAATTCGGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTTACCATCTTTGATCTGCTC
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCTGCTC
*
7840030 CACTACTGCTT-AGAGAGACA
66 CGCTACTGCTTAAG-GAGACA
* * * *
7840050 AGATCTGTAATTCGGCATGTTACCCTACTACTTAGGGGTTAAGGCTCACCGTCTTTGATCTGCTC
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCTGCTC
*
7840115 CACTACTGCTT-AGAGAGACA
66 CGCTACTGCTTAAG-GAGACA
* *
7840135 AGATCTGTAATT-AGGCCTGTTACCTTACTGCTTAGGGGGTTAAGGCTCACCGTCTTTGATCTGC
1 AGATCTGTAATTCA-GCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTCACCGTCTTCGATCTGC
*
7840199 TCCACTACTGCTT-AGAGAGACA
64 TCCGCTACTGCTTAAG-GAGACA
* *
7840221 AGATCTGTAATTCGGCCTGTTACCCTACTGCTTAGGGGGTTAAGGTTCACCGTCTTCGATCTGCT
1 AGATCTGTAATTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTCACCGTCTTCGATCTGCT
* * *
7840286 CCACTACTTCTTAGGGAGACA
65 CCGCTACTGCTTAAGGAGACA
7840307 AGATCTGTAAATTCA
1 AGATCTGT-AATTCA
7840322 CCGATGTTGC
Statistics
Matches: 623, Mismatches: 66, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
84 1 0.00
85 227 0.36
86 232 0.37
87 78 0.13
88 83 0.13
90 2 0.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (85 bp):
AGATCTGTAATTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTCACCGTCTTCGATCTGCTC
CGCTACTGCTTAAGGAGACA
Found at i:7842997 original size:2 final size:2
Alignment explanation
Indices: 7842992--7843046 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
7842982 AACTAATGGC
* * *
7842992 AT AT AT AC AT A- AT AT AT AT AT AT A- AT AC AC AT A- AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
7843031 AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT
7843047 TAGAAATGAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
1 3 0.07
2 41 0.93
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (2 bp):
AT
Found at i:7843024 original size:22 final size:23
Alignment explanation
Indices: 7842992--7843043 Score: 88
Period size: 22 Copynumber: 2.3 Consensus size: 23
7842982 AACTAATGGC
*
7842992 ATATATACATAATATATATATAT
1 ATATACACATAATATATATATAT
7843015 A-ATACACATAATATATATATAT
1 ATATACACATAATATATATATAT
7843037 ATATACA
1 ATATACA
7843044 TATTAGAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 21 0.78
23 6 0.22
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATACACATAATATATATATAT
Found at i:7843580 original size:11 final size:12
Alignment explanation
Indices: 7843564--7843600 Score: 60
Period size: 11 Copynumber: 3.2 Consensus size: 12
7843554 AGAAAAAAAA
7843564 GGAAGAGAG-AG
1 GGAAGAGAGAAG
7843575 GGAAGAGAGAAG
1 GGAAGAGAGAAG
7843587 GG-AGAGAGAAG
1 GGAAGAGAGAAG
7843598 GGA
1 GGA
7843601 GGGGGAAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (12 bp):
GGAAGAGAGAAG
Found at i:7843601 original size:11 final size:11
Alignment explanation
Indices: 7843562--7843611 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
7843552 AAAGAAAAAA
*
7843562 AAGGAAGAGAG
1 AAGGGAGAGAG
7843573 -AGGGAAGAGAG
1 AAGGG-AGAGAG
7843584 AAGGGAGAGAG
1 AAGGGAGAGAG
* *
7843595 AAGGGAGGGGG
1 AAGGGAGAGAG
7843606 AAGGGA
1 AAGGGA
7843612 AATCCGGTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 3 0.09
11 27 0.79
12 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.56, T:0.00
Consensus pattern (11 bp):
AAGGGAGAGAG
Found at i:7844396 original size:35 final size:35
Alignment explanation
Indices: 7844322--7844423 Score: 179
Period size: 35 Copynumber: 2.9 Consensus size: 35
7844312 GGGGTGTGTG
*
7844322 ATGGTGCTGGCGGCAGACAGCAT-GGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
*
7844356 GTGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
7844391 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
1 ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGG
7844424 AAGAGGCAAG
Statistics
Matches: 64, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
34 21 0.33
35 43 0.67
ACGTcount: A:0.22, C:0.13, G:0.49, T:0.17
Consensus pattern (35 bp):
ATGGTGCTGGTGGCAGACAGCATGGGAGAGTGGGA
Found at i:7845210 original size:48 final size:50
Alignment explanation
Indices: 7845134--7845280 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 50
7845124 ATATGACCTA
**
7845134 AGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTGAAAAACAA-AA-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
* *
7845182 AGG-TACAACTCACCTCTCGCAATATGAGTTGCTTTTTGAAAGACAGAAATTAAC
1 AGGCT-CAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA-A-A-CAA-TAAC
*
7845236 AGGCTCAACTCACCTCTCGCAATGTGAGTTGATTTTTGAAAAACA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACA
7845281 GGAATTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
47 1 0.01
48 36 0.43
49 1 0.01
50 1 0.01
51 3 0.04
52 1 0.01
53 3 0.04
54 37 0.44
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (50 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAATAAC
Found at i:7845516 original size:147 final size:140
Alignment explanation
Indices: 7845337--7845925 Score: 953
Period size: 147 Copynumber: 4.1 Consensus size: 140
7845327 TCAACTCACC
7845337 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
* *
7845402 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGC
7845467 TCAACTCACCTCTCGCAA
123 TCAACTCACCTCTCGCAA
*
7845485 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
*
7845550 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
*
7845615 CCTCTCGCCA
131 CCTCTCGCAA
*
7845625 TATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACT
1 TATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACT
7845690 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
59 CACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
*
7845755 TAACTCACCTCTCGCAA
124 CAACTCACCTCTCGCAA
7845772 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* *
7845837 AGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACGCA
66 CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
7845902 CCTCTCGCAA
131 CCTCTCGCAA
*
7845912 TGTGAGTTGATTTT
1 TATGAGTTGATTTT
7845926 CTGTCACTTG
Statistics
Matches: 419, Mismatches: 15, Indels: 22
0.92 0.03 0.05
Matches are distributed among these distances:
140 193 0.46
142 2 0.00
143 2 0.00
144 1 0.00
145 1 0.00
147 210 0.50
148 10 0.02
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (140 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
CCTCTCGCAA
Found at i:7845549 original size:70 final size:70
Alignment explanation
Indices: 7845436--7845925 Score: 836
Period size: 70 Copynumber: 6.9 Consensus size: 70
7845426 CATAAATTGA
*
7845436 AAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
7845501 AACAT
66 AACAT
*
7845506 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
7845571 AACAT
66 AACAT
* *
7845576 AAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCACCTCTCGCCATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
7845641 AACATAAATT
66 AAC----A-T
*
7845651 GAAAATTGAAATTACCTCAACGTGTTTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 --AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
7845716 GAAACAT
64 GAAACAT
*
7845723 AAATTGAAATTACCTCAACGTGTCTTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
7845788 AACAT
66 AACAT
*
7845793 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTGA
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
7845858 AACAT
66 AACAT
* *
7845863 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACGCACCTCTCGCAATGTGAGTTGATTTT
1 AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
7845926 CTGTCACTTG
Statistics
Matches: 398, Mismatches: 15, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
70 329 0.83
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
77 65 0.16
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.32
Consensus pattern (70 bp):
AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AACAT
Found at i:7845621 original size:217 final size:217
Alignment explanation
Indices: 7845337--7845925 Score: 1066
Period size: 217 Copynumber: 2.7 Consensus size: 217
7845327 TCAACTCACC
7845337 TATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
1 TATGAGTTGA-TTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTC
7845402 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
65 TCGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGC
7845467 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
130 TCAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTT
7845532 GAGGCTTAACTCACCTCTCGCAA
195 GAGGCTTAACTCACCTCTCGCAA
*
7845555 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTAAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
7845620 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
7845685 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
131 CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
7845750 AGGCTTAACTCACCTCTCGCAA
196 AGGCTTAACTCACCTCTCGCAA
7845772 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
1 TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
* * *
7845837 AGCAATATGAGTTGATTTTGAAAC----A-T--AAATTGAAATTACCTCAACGTGTCTTGAGGCT
66 CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
* *
7845895 CAACGCACCTCTCGCAATGTGAGTTGATTTT
131 CAACTCACCTCTCGCAATATGAGTTGATTTT
7845926 CTGTCACTTG
Statistics
Matches: 364, Mismatches: 7, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
210 60 0.16
212 1 0.00
213 1 0.00
217 292 0.80
218 10 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (217 bp):
TATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACCTCT
CGCCATATGAGTTGATTTTGAAACATAAATTGAAAATTGAAATTACCTCAACGTGTTTTGAGGCT
CAACTCACCTCTCGCAATATGAGTTGATTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTG
AGGCTTAACTCACCTCTCGCAA
Found at i:7855213 original size:26 final size:26
Alignment explanation
Indices: 7855177--7855310 Score: 218
Period size: 26 Copynumber: 5.2 Consensus size: 26
7855167 CATGATATTC
7855177 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
7855203 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
7855229 TTATCATGGAACATTTACCTAA-CCA
1 TTATCATGAAACATTTACCTAACCCA
* *
7855254 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
7855280 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
7855305 TTATCA
1 TTATCA
7855311 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
25 48 0.46
26 57 0.54
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:7855274 original size:51 final size:51
Alignment explanation
Indices: 7855177--7855310 Score: 216
Period size: 51 Copynumber: 2.6 Consensus size: 51
7855167 CATGATATTC
*
7855177 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAA-CCATTATCATGAAACATTTACCTAACCCA
* *
7855229 TTATCATGGAACATTTACCTAACCATTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
7855280 TTATCAT-GAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACC-ATTATCA
7855311 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
50 16 0.21
51 41 0.53
52 21 0.27
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (51 bp):
TTATCATGGAACATTTACCTAACCATTATCATGAAACATTTACCTAACCCA
Found at i:7855314 original size:20 final size:22
Alignment explanation
Indices: 7855186--7855311 Score: 92
Period size: 25 Copynumber: 5.1 Consensus size: 22
7855176 CTTATCATGA
*
7855186 AACATTTACCTAACCCATTATC
1 AACATTTACCTAACCTATTATC
*
7855208 ATGAAACATTTACCTAACCCATTATC
1 ----AACATTTACCTAACCTATTATC
7855234 ATGGAACATTTACCTAACC-ATTATC
1 ----AACATTTACCTAACCTATTATC
7855259 ATGGAACATTTACCTAACCTATTATC
1 ----AACATTTACCTAACCTATTATC
7855285 ATGAACATTTACCTAACCTATTATC
1 ---AACATTTACCTAACCTATTATC
7855310 AA
1 AA
7855312 TTTGTATCAA
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
22 2 0.02
25 48 0.50
26 46 0.48
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (22 bp):
AACATTTACCTAACCTATTATC
Found at i:7859186 original size:2 final size:2
Alignment explanation
Indices: 7859179--7859208 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7859169 ATAGTGATAG
7859179 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7859209 TAAAGTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7859268 original size:22 final size:22
Alignment explanation
Indices: 7859241--7859283 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7859231 ATGAAAAGTG
7859241 TATACATAATAATA-GTAAAATA
1 TATACATAAT-ATACGTAAAATA
7859263 TATACATAATATACGTAAAAT
1 TATACATAATATACGTAAAAT
7859284 GAACATATAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.56, C:0.07, G:0.05, T:0.33
Consensus pattern (22 bp):
TATACATAATATACGTAAAATA
Found at i:7859368 original size:23 final size:22
Alignment explanation
Indices: 7859323--7859365 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7859313 AATAAATATG
7859323 TACAT-ATATATTGAAAATAAA
1 TACATAATATATTGAAAATAAA
7859344 TACATAATAATATT-AAAATAAA
1 TACATAAT-ATATTGAAAATAAA
7859366 ATAATAAGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
TACATAATATATTGAAAATAAA
Found at i:7859438 original size:40 final size:41
Alignment explanation
Indices: 7859394--7859494 Score: 100
Period size: 40 Copynumber: 2.4 Consensus size: 41
7859384 AAATAATAAG
*
7859394 TATAATAATAAATATAATGATATACGAAAATAATAT-TA-T-A
1 TATAATAATAAATATAATG-TATAAGAAAAT-ATATGTACTAA
* * * *
7859434 TATAAAAATATATATACACGTATAATAAAATATATGTACTAA
1 TATAATAATAAATATA-ATGTATAAGAAAATATATGTACTAA
7859476 TATTAATAATAAATATAAT
1 TA-TAATAATAAATATAAT
7859495 AGGAATAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
39 4 0.08
40 25 0.52
41 3 0.06
42 4 0.08
43 12 0.25
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (41 bp):
TATAATAATAAATATAATGTATAAGAAAATATATGTACTAA
Found at i:7859664 original size:9 final size:9
Alignment explanation
Indices: 7859650--7859674 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7859640 TACATACATA
7859650 ATATATAAT
1 ATATATAAT
7859659 ATATATAAT
1 ATATATAAT
7859668 ATATATA
1 ATATATA
7859675 TTAAAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATATATAAT
Found at i:7859843 original size:25 final size:24
Alignment explanation
Indices: 7859759--7859855 Score: 78
Period size: 25 Copynumber: 4.0 Consensus size: 24
7859749 TTAGAAATAT
*
7859759 ACAATGATATTAGAA-ATATACATA
1 ACAAT-ATATTAAAATATATACATA
*
7859783 A-AATAGTA-TAAAAGATA-A-ATA
1 ACAATA-TATTAAAATATATACATA
7859804 ACTAATAATATTAAAATATATACATA
1 AC-AAT-ATATTAAAATATATACATA
* *
7859830 ACAATATATGTAAATTGTATACATA
1 ACAATATAT-TAAAATATATACATA
7859855 A
1 A
7859856 TATAGTTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
21 4 0.07
22 6 0.10
23 13 0.22
24 14 0.23
25 18 0.30
26 5 0.08
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (24 bp):
ACAATATATTAAAATATATACATA
Found at i:7861940 original size:76 final size:75
Alignment explanation
Indices: 7861810--7862217 Score: 309
Period size: 76 Copynumber: 5.2 Consensus size: 75
7861800 GAAAACAGAA
* * *
7861810 TTTT-AAAAACAGAAACTGAAAATACCTCAGCGTGTCCCGAGGCTCAGCTCACCTCTCGCAATAT
1 TTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
7861874 GAGCTTGATTT
66 GAG-TTGATTT
* *
7861885 TTTTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCGACTCACCTCTCGCAATAT
1 TTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
7861950 GAGTTGA--T
66 GAGTTGATTT
* ** *** * *
7861958 TTTTG--AAACATAAATTGAAAA-A-CAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAAC
1 TTTTGAAAAACAGAAATTGAAAATACCTCAGCGTG----T-CCTGAG-G-CTCA--A----C---
7862019 TCACCTCTCGCAATATGAGTTGATTTTTTTTT
50 TCACCTCTCGCAATATGAGTTGA------TTT
** *
7862051 TTTTGATGAATAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
1 TTTTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATA
7862115 TGAGTTGA-TT
65 TGAGTTGATTT
* * *
7862125 TTTTGAAATACAGAAATTGAAAATACCTCAGCATTTGAGCC-GATGG-TCAACTCACCTCTCGCA
1 TTTTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-TCCTGA-GGCTCAACTCACCTCTCGCA
7862188 ATATGAGTTGATTT
62 ATATGAGTTGATTT
7862202 TTTTG-AAAACAGAAAT
1 TTTTGAAAAACAGAAAT
7862218 CAGAATACCA
Statistics
Matches: 266, Mismatches: 31, Indels: 71
0.72 0.08 0.19
Matches are distributed among these distances:
69 4 0.02
70 1 0.00
71 15 0.06
73 7 0.03
74 30 0.11
75 13 0.05
76 102 0.38
77 11 0.04
78 1 0.00
81 23 0.09
82 1 0.00
84 1 0.00
85 23 0.09
88 1 0.00
90 3 0.01
91 1 0.00
92 5 0.02
93 7 0.03
94 4 0.02
95 8 0.03
96 1 0.00
97 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (75 bp):
TTTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
GAGTTGATTT
Found at i:7861986 original size:14 final size:14
Alignment explanation
Indices: 7861963--7861992 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7861953 TTGATTTTTG
*
7861963 AAACATAAATTGAA
1 AAACAGAAATTGAA
7861977 AAACAGAAATTGAA
1 AAACAGAAATTGAA
7861991 AA
1 AA
7861993 TACCTCAGCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:7862028 original size:161 final size:163
Alignment explanation
Indices: 7861759--7862147 Score: 543
Period size: 161 Copynumber: 2.3 Consensus size: 163
7861749 CACGTGACCC
* * *
7861759 GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGATGAAAACAGAATTTTAAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--TGAAAACAGAAATTGAAAAACAGAA
* *
7861824 ACTGAAAATACCTCAGCGTGTCCCGAGGCTCAGCTCACCTCTCGCAATATGAGCTTGA-TTTTTT
64 ACTGAAAATACCTCAGCGTGTCACGAGGCTCAACTCACCTCTCGCAATATGAG-TTGATTTTTTT
7861888 TGAAAAACAAAAATTGAAAA-TACCTCAGCGTGTCCT
128 TGAAAAACAAAAATT-AAAATTACCTCAGCGTGTCCT
* * *
7861924 GAGGCTCGACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAACATAAATTGAAAAACAGAAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAACAGAAAC
*
7861987 TGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTT
66 TGAAAATACCTCAGCGTGTCACGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTT
** * *
7862052 TTTGATGAATAGAAATTAAAATTACCTCAGCGTGTCCT
126 TTTGAAAAACAAAAATTAAAATTACCTCAGCGTGTCCT
7862090 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAATACAGAAATTGAAAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA-ACAGAAATTGAAAA
7862148 TACCTCAGCA
Statistics
Matches: 199, Mismatches: 15, Indels: 16
0.87 0.07 0.07
Matches are distributed among these distances:
160 4 0.02
161 68 0.34
162 2 0.01
164 4 0.02
165 35 0.18
166 65 0.33
167 6 0.03
168 2 0.01
169 13 0.07
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (163 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACAGAAATTGAAAAACAGAAAC
TGAAAATACCTCAGCGTGTCACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGA
AAAACAAAAATTAAAATTACCTCAGCGTGTCCT
Found at i:7862030 original size:85 final size:85
Alignment explanation
Indices: 7861887--7862147 Score: 343
Period size: 85 Copynumber: 3.1 Consensus size: 85
7861877 CTTGATTTTT
* *
7861887 TTGAAAAACAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCGACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
7861952 GTTGATTTTTGAAACATAAA
66 GTTGATTTTTGAAACATAAA
*
7861972 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCATGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
** ***
7862037 GTTGATTTTT----TTTTTT
66 GTTGATTTTTGAAACATAAA
** *
7862053 TTGATGAATAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAA-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATG
*
7862117 AGTTGATTTTTTGAAATACAGAAA
65 AGTTGA-TTTTTG-AA-ACATAAA
7862141 TTGAAAA
1 TTGAAAA
7862148 TACCTCAGCA
Statistics
Matches: 148, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
80 4 0.03
81 62 0.42
82 5 0.03
85 72 0.49
88 5 0.03
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (85 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAACATAAA
Found at i:7862140 original size:74 final size:75
Alignment explanation
Indices: 7861976--7862217 Score: 248
Period size: 81 Copynumber: 3.1 Consensus size: 75
7861966 CATAAATTGA
* *
7861976 AAAACAGAAATTGAAAATACCTCAGC-GTG-TCATGA-GGCTCAACTCACCTCTCGCAATATGAG
1 AAAACAGAAATTGAAAATACCTCAGCAGTGAGC-CGATGG-TCAACTCACCTCTCGCAATATGAG
7862038 TTGATTTTTTTTTTTTTG
64 TTGA------TTTTTTTG
* * *
7862056 ATGAATAGAAATT-AAAATTACCTCAGC-GTG-TCCTGA-GGCTCAACTCACCTCTCGCAATATG
1 A-AAACAGAAATTGAAAA-TACCTCAGCAGTGAGCC-GATGG-TCAACTCACCTCTCGCAATATG
7862117 AGTTGA-TTTTTTG
62 AGTTGATTTTTTTG
*
7862130 AAATACAGAAATTGAAAATACCTCAGCATTTGAGCCGATGGTCAACTCACCTCTCGCAATATGAG
1 AAA-ACAGAAATTGAAAATACCTCAGCA-GTGAGCCGATGGTCAACTCACCTCTCGCAATATGAG
7862195 TTGATTTTTTTG
64 TTGATTTTTTTG
7862207 AAAACAGAAAT
1 AAAACAGAAAT
7862218 CAGAATACCA
Statistics
Matches: 145, Mismatches: 7, Indels: 24
0.82 0.04 0.14
Matches are distributed among these distances:
73 1 0.01
74 25 0.17
75 4 0.03
76 40 0.28
77 14 0.10
80 5 0.03
81 56 0.39
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.32
Consensus pattern (75 bp):
AAAACAGAAATTGAAAATACCTCAGCAGTGAGCCGATGGTCAACTCACCTCTCGCAATATGAGTT
GATTTTTTTG
Found at i:7870523 original size:22 final size:22
Alignment explanation
Indices: 7870495--7870539 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
7870485 AATGGATGAA
7870495 TGAATAAATGACAAATGAATGT
1 TGAATAAATGACAAATGAATGT
*
7870517 TGAATAAATGACGAATGAATGT
1 TGAATAAATGACAAATGAATGT
7870539 T
1 T
7870540 AGTCATGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.20, T:0.29
Consensus pattern (22 bp):
TGAATAAATGACAAATGAATGT
Found at i:7874981 original size:22 final size:21
Alignment explanation
Indices: 7874913--7874982 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 21
7874903 TATACAATGG
*
7874913 TATTAGAA-ATATACATAAAA
1 TATTAAAATATATACATAAAA
*
7874933 TAGTATAAAAATAAATA-ACTAATAA
1 TA-T-T-AAAATATATACA-TAA-AA
7874958 TATTAAAATATATACATAACAA
1 TATTAAAATATATACATAA-AA
7874980 TAT
1 TAT
7874983 ATGTAAATTG
Statistics
Matches: 39, Mismatches: 4, Indels: 12
0.71 0.07 0.22
Matches are distributed among these distances:
20 2 0.05
21 1 0.03
22 18 0.46
23 6 0.15
24 8 0.21
25 4 0.10
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (21 bp):
TATTAAAATATATACATAAAA
Found at i:7874981 original size:25 final size:24
Alignment explanation
Indices: 7874913--7875003 Score: 75
Period size: 25 Copynumber: 3.8 Consensus size: 24
7874903 TATACAATGG
* *
7874913 TATTAGAAATATACATAA-AATAG
1 TATTAAAAATATACATAACAATAA
7874936 TA-TAAAAATA-A-ATAACTAATAA
1 TATTAAAAATATACATAAC-AATAA
7874958 TATTAAAATATATACATAACAAT-A
1 TATTAAAA-ATATACATAACAATAA
**
7874982 TATGTAAATTGTATACATAACA
1 TAT-TAAA-AATATACATAACA
7875004 TAGTTATAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
20 4 0.07
21 1 0.02
22 13 0.23
23 7 0.12
24 7 0.12
25 19 0.34
26 5 0.09
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.32
Consensus pattern (24 bp):
TATTAAAAATATACATAACAATAA
Found at i:7876675 original size:12 final size:13
Alignment explanation
Indices: 7876634--7876674 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
7876624 TATAATACGT
*
7876634 AAATTAAGTAAAA
1 AAATTATGTAAAA
7876647 AAATT-TGTCAAAA
1 AAATTATGT-AAAA
7876660 AAATTATGTAAAA
1 AAATTATGTAAAA
7876673 AA
1 AA
7876675 TAATATAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 2 0.08
13 20 0.80
14 3 0.12
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (13 bp):
AAATTATGTAAAA
Found at i:7878253 original size:92 final size:93
Alignment explanation
Indices: 7878086--7878276 Score: 303
Period size: 92 Copynumber: 2.1 Consensus size: 93
7878076 CCTTCTTTCA
* * *
7878086 TATATTCTACGAAGTATAAATCATCTCAATTCCACTAATAATTAAAGTTATAAAATATGAAACAT
1 TATACTCTACGAAGTATAAATCATCTCAATTCCACCAATAATTAAAGATATAAAATATGAAACAT
* *
7878151 GCTAGTACGATCCGAC-TTTTTTTATAT
66 GCTAGCACGATCCGACATTTTTCTATAT
* * *
7878178 TATACTCTACGAAGTATGAATCATCTCAATTCCACCAATAATTAAAGATATAAAATATGCAATAT
1 TATACTCTACGAAGTATAAATCATCTCAATTCCACCAATAATTAAAGATATAAAATATGAAACAT
7878243 GCTAGCACGATCCGACATTTTTCTATAT
66 GCTAGCACGATCCGACATTTTTCTATAT
7878271 TATACT
1 TATACT
7878277 AAGGTGATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 74 0.82
93 16 0.18
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.35
Consensus pattern (93 bp):
TATACTCTACGAAGTATAAATCATCTCAATTCCACCAATAATTAAAGATATAAAATATGAAACAT
GCTAGCACGATCCGACATTTTTCTATAT
Found at i:7878766 original size:27 final size:27
Alignment explanation
Indices: 7878735--7878803 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
7878725 GATAAAAAAC
* *
7878735 TATAACATTTCTTATA-AATAAATATAT
1 TATAACACTT-TTATATAAGAAATATAT
7878762 TATAACACTTTTATATAAGAAATATAT
1 TATAACACTTTTATATAAGAAATATAT
*
7878789 TATAATACTTTTATA
1 TATAACACTTTTATA
7878804 ACATGTAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.13
27 33 0.87
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.45
Consensus pattern (27 bp):
TATAACACTTTTATATAAGAAATATAT
Found at i:7881220 original size:9 final size:9
Alignment explanation
Indices: 7881208--7881459 Score: 127
Period size: 10 Copynumber: 26.3 Consensus size: 9
7881198 AAACATCATA
7881208 AAAAATTAT
1 AAAAATTAT
7881217 -AAAATTATT
1 AAAAATTA-T
*
7881226 AAAAATGAT
1 AAAAATTAT
*
7881235 -AAACTTAT
1 AAAAATTAT
*
7881243 AAAAATAATAA
1 AAAAAT--TAT
7881254 AAAAACTTAT
1 AAAAA-TTAT
*
7881264 AAATATTAT
1 AAAAATTAT
7881273 AATAAATTAT
1 AA-AAATTAT
7881283 AATAAATCTA-
1 AA-AAAT-TAT
* *
7881293 ATAAGTTAT
1 AAAAATTAT
7881302 AATAAATTAT
1 AA-AAATTAT
7881312 AAAAAATTAT
1 -AAAAATTAT
*
7881322 -AAATTTAAT
1 AAAAATT-AT
*
7881331 AAAAACATATT
1 AAAAA-TTA-T
*
7881342 TAAAATATAT
1 AAAAAT-TAT
*
7881352 AAAATATTAC
1 AAAA-ATTAT
7881362 AAAAACTTAT
1 AAAAA-TTAT
7881372 AAAAATTCAT
1 AAAAATT-AT
* *
7881382 AAAAGCTTGT
1 AAAA-ATTAT
*
7881392 AAAAATATAA
1 AAAAAT-TAT
*
7881402 AAAAATTCT
1 AAAAATTAT
*
7881411 AATAAAATAT
1 AA-AAATTAT
7881421 AAAAA-TAT
1 AAAAATTAT
* *
7881429 CAAAACTATT
1 AAAAATTA-T
7881439 AAAAATTAT
1 AAAAATTAT
*
7881448 AAAAACTAT
1 AAAAATTAT
7881457 AAA
1 AAA
7881460 TTACAAAAAA
Statistics
Matches: 186, Mismatches: 33, Indels: 48
0.70 0.12 0.18
Matches are distributed among these distances:
8 27 0.15
9 42 0.23
10 93 0.50
11 23 0.12
12 1 0.01
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAAATTAT
Done.