Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 56 of 117
Found at i:10416508 original size:10 final size:9
Alignment explanation
Indices: 10416490--10416532 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
10416480 ATGATATAAC
10416490 AATTTTTAA
1 AATTTTTAA
10416499 AATATTTTAA
1 AAT-TTTTAA
*
10416509 AATTTATAA
1 AATTTTTAA
10416518 AATTCTATTAA
1 AATT-T-TTAA
10416529 AATT
1 AATT
10416533 ATAAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
9 12 0.41
10 10 0.34
11 7 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
AATTTTTAA
Found at i:10417629 original size:34 final size:37
Alignment explanation
Indices: 10417561--10417640 Score: 103
Period size: 34 Copynumber: 2.2 Consensus size: 37
10417551 ACACTGGAAC
*
10417561 AGATTTTATAAGTAATAATATTAAATAAATATATTTT
1 AGATTTTATAAGTAATAATATTAAATAAAGATATTTT
**
10417598 AGATTTTAT-A-T-ATAATATTATGTAAAGATATTTT
1 AGATTTTATAAGTAATAATATTAAATAAAGATATTTT
*
10417632 ACATTTTAT
1 AGATTTTAT
10417641 TTTAATTTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
34 28 0.72
35 1 0.03
36 1 0.03
37 9 0.23
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (37 bp):
AGATTTTATAAGTAATAATATTAAATAAAGATATTTT
Found at i:10417923 original size:145 final size:144
Alignment explanation
Indices: 10417675--10418264 Score: 463
Period size: 145 Copynumber: 4.1 Consensus size: 144
10417665 ATTTGTTACA
* * * ** *
10417675 TTTTTTTA-CTTAAAAATGTAATATTTATTAAAATTATAGAATTTTTAAAATATGATTTCAACAT
1 TTTTTTTATCTTAAAAATGCAATTTTTATTAAAATTTTAGAATTTCAAAAATATAATTTCAACAT
** ** * * * * **
10417739 CTTTTATGTTTCATAT-TTGAAAA-ATGAGATGTTTATTAAAGTTTTAGAATTTTGGAAATAAAA
66 CTACTACATTTCTTATCTT-AAAACAT--GATCTTTGTTAAAATTTTAGAATTTTAAAAATAAAA
*
10417802 TTTTAATATTCACTATG
128 TTTCAATATTCACTATG
*
10417819 TTTTTTTATCTTAAAAATGCAGTTTTTATTAAAATTTTAGAATTTCAAAAATATAATTTCAACAT
1 TTTTTTTATCTTAAAAATGCAATTTTTATTAAAATTTTAGAATTTCAAAAATATAATTTCAACAT
* * ** *
10417884 CTACTACATTTTTTATCTTAAATACATGATCTTTGTTAAAAATCCA-AATTTTCAAAAAAAAAAA
66 CTACTACATTTCTTATCTTAAA-ACATGATCTTTGTTAAAATTTTAGAATTTT---AAAAATAAA
10417948 ATTTCAATA-TCAACTATG
127 ATTTCAATATTC-ACTATG
* * * * * * * *
10417966 -TTTTATATCTTAAAAAAGCAATCTTTGTTAAAATTTCATAATTTCAAAATTATTATTTCAACAT
1 TTTTTTTATCTTAAAAATGCAATTTTTATTAAAATTTTAGAATTTCAAAAATATAATTTCAACAT
* * * ** * *
10418030 TTACCACATTT-TCATCTTAAAAACGCGATCTTTGTTAAAATTTTAGAATTTTTAAAATAAAGTT
66 CTACTACATTTCTTATCTT-AAAACATGATCTTTGTTAAAATTTTAGAATTTTAAAAATAAAATT
*
10418094 GCAAT-TTCA--ACTG
130 TCAATATTCACTA-TG
*** * * *
10418107 TATTTTTTATCTTAAAAATATGATTTGTATTCAAATTTTAGAATTTCAAAAATA-AATTTTTAAC
1 T-TTTTTTATCTTAAAAATGCAATTTTTATTAAAATTTTAGAATTTCAAAAATATAA-TTTCAAC
* * ** * * *
10418171 ATCTACTATATTTCTTATCTTAAAAAAACAT-TTTTTTAAAATTTTAGAAATTTT-AAAATATAT
64 ATCTACTACATTTCTTATCTTAAAACATGATCTTTGTTAAAATTTTAG-AATTTTAAAAATAAAA
*
10418234 TTTCAACATTCACTA--
128 TTTCAATATTCACTATG
**
10418249 CATTTTTATCTTAAAA
1 TTTTTTTATCTTAAAA
10418265 TTCCAAAATT
Statistics
Matches: 353, Mismatches: 73, Indels: 43
0.75 0.16 0.09
Matches are distributed among these distances:
140 1 0.00
141 16 0.05
142 29 0.08
143 87 0.25
144 20 0.06
145 100 0.28
146 78 0.22
147 22 0.06
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (144 bp):
TTTTTTTATCTTAAAAATGCAATTTTTATTAAAATTTTAGAATTTCAAAAATATAATTTCAACAT
CTACTACATTTCTTATCTTAAAACATGATCTTTGTTAAAATTTTAGAATTTTAAAAATAAAATTT
CAATATTCACTATG
Found at i:10418011 original size:74 final size:72
Alignment explanation
Indices: 10417798--10418014 Score: 190
Period size: 74 Copynumber: 2.9 Consensus size: 72
10417788 TTTTGGAAAT
* * * * * *
10417798 AAAATTTTAATATTCACTATGTTTTTTTATCTTAAAAATGCAGTTTTTATTAAAATTTTAGAATT
1 AAAATTTCAATA-TCACTATG-TTTTTTATCTTAAAAAAGCAATCTTTGTTAAAATTTCA-AATT
*
10417863 TC--AAAAAT
63 TCAAAAAAAA
* * ** * * *
10417871 ATAATTTCAACATCTACTACATTTTTTATCTT-AAATA-CATGATCTTTGTTAAAAATCCAAATT
1 AAAATTTCAATATC-ACTATGTTTTTTATCTTAAAAAAGCA--ATCTTTGTTAAAATTTCAAA-T
10417934 TTCAAAAAAAA
62 TTCAAAAAAAA
*
10417945 AAAATTTCAATATCAACTATGTTTTATATCTTAAAAAAGCAATCTTTGTTAAAATTTCATAATTT
1 AAAATTTCAATATC-ACTATGTTTTTTATCTTAAAAAAGCAATCTTTGTTAAAATTTCA-AATTT
10418010 CAAAA
64 CAAAA
10418015 TTATTATTTC
Statistics
Matches: 112, Mismatches: 23, Indels: 17
0.74 0.15 0.11
Matches are distributed among these distances:
70 2 0.02
71 5 0.04
72 29 0.26
73 13 0.12
74 55 0.49
75 6 0.05
76 2 0.02
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.42
Consensus pattern (72 bp):
AAAATTTCAATATCACTATGTTTTTTATCTTAAAAAAGCAATCTTTGTTAAAATTTCAAATTTCA
AAAAAAA
Found at i:10418081 original size:146 final size:147
Alignment explanation
Indices: 10417798--10418069 Score: 370
Period size: 146 Copynumber: 1.9 Consensus size: 147
10417788 TTTTGGAAAT
* * * * * *
10417798 AAAATTTTAATATTCACTATGTTTTTTTATCTTAAAAATGCAGTTTTTATTAAAATTTTAGAATT
1 AAAATTTCAATATTCACTATGTTTTTATATCTTAAAAAAGCAATCTTTATTAAAATTTCAGAATT
* * * *
10417863 TCAAAAATATAATTTCAACATCTACTACATTTTTTATCTTAAATACATGATCTTTGTTAAAAATC
66 TCAAAAATATAATTTCAACATCTACCACATTTTTCATCTTAAAAACACGATCTTTGTTAAAAATC
10417928 CAAATTTTCAAAAAAAA
131 CAAATTTTCAAAAAAAA
* *
10417945 AAAATTTCAATA-TCAACTATG-TTTTATATCTTAAAAAAGCAATCTTTGTTAAAATTTCATAAT
1 AAAATTTCAATATTC-ACTATGTTTTTATATCTTAAAAAAGCAATCTTTATTAAAATTTCAGAAT
* * * *
10418008 TTCAAAATTATTATTTCAACATTTACCACA-TTTTCATCTTAAAAACGCGATCTTTGTTAAAA
65 TTCAAAAATATAATTTCAACATCTACCACATTTTTCATCTTAAAAACACGATCTTTGTTAAAA
10418070 TTTTAGAATT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
145 28 0.26
146 63 0.58
147 17 0.16
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.42
Consensus pattern (147 bp):
AAAATTTCAATATTCACTATGTTTTTATATCTTAAAAAAGCAATCTTTATTAAAATTTCAGAATT
TCAAAAATATAATTTCAACATCTACCACATTTTTCATCTTAAAAACACGATCTTTGTTAAAAATC
CAAATTTTCAAAAAAAA
Found at i:10418143 original size:72 final size:70
Alignment explanation
Indices: 10418064--10418264 Score: 190
Period size: 72 Copynumber: 2.9 Consensus size: 70
10418054 GCGATCTTTG
** * * **
10418064 TTAAAATTTTAGAATTTTTAAAATAAAGTTGCAATTTCAACTGTATTTTTTATCTTAAAAATATG
1 TTAAAATTTTAGAATTTTTAAAATAAAGTTGCAACATCAACTATATTTCTTATCTTAAAAA-AAC
10418129 ATTTGTA
65 ATTT-TA
* ** * ** *
10418136 TTCAAATTTTAGAATTTCAAAAATAAATTTTTAACATCTACTATATTTCTTATCTTAAAAAAACA
1 TTAAAATTTTAGAATTTTTAAAATAAAGTTGCAACATCAACTATATTTCTTATCTTAAAAAAACA
*
10418201 TTTTT
66 TTTTA
* * * * *
10418206 TTAAAATTTTAGAAATTTTAAAATATATTTTCAACATTC-ACTACATTT-TTATCTTAAAA
1 TTAAAATTTTAGAATTTTTAAAATAAAGTTGCAACA-TCAACTATATTTCTTATCTTAAAA
10418265 TTCCAAAATT
Statistics
Matches: 107, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
69 11 0.10
70 39 0.36
71 7 0.07
72 50 0.47
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (70 bp):
TTAAAATTTTAGAATTTTTAAAATAAAGTTGCAACATCAACTATATTTCTTATCTTAAAAAAACA
TTTTA
Found at i:10418378 original size:123 final size:121
Alignment explanation
Indices: 10418148--10418388 Score: 267
Period size: 123 Copynumber: 2.0 Consensus size: 121
10418138 CAAATTTTAG
** * *
10418148 AATTTCAAAAATAAATTTTTAACATCTACTATATTTCTTATCTTAAAAAAACATTTTTTTAAAAT
1 AATTTCAAAAATAAAAGTTCAACAACTACTATATTTCTTATCTTAAAAAAACATTTTTTTAAAAT
* *
10418213 TTTAGAAATTTTAAAATATATTTTCAACATTCACTACA-TTTTTATCTTAAAATTCCAA
66 TTTAGAAATTTTAAAATAAATTTT--A-ATCCACTACATTTTTTATCTTAAAATTCCAA
* * *
10418271 AATTTCAAAAATAAAAGTTCAACAACTATTATATATT-TTATCTTAAAAACATAGTTTTTGTTAA
1 AATTTCAAAAATAAAAGTTCAACAACTACTATAT-TTCTTATCTTAAAAAAACA-TTTTT-TTAA
*
10418335 AATTTTA-AATTTTTGAAAATAAAATTTT-ATCCACTA-AGTTTTTTTATCTTAAAA
63 AATTTTAGAAATTTT-AAAAT-AAATTTTAATCCACTACA--TTTTTTATCTTAAAA
10418389 ACATAATATT
Statistics
Matches: 100, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
121 1 0.01
122 7 0.07
123 43 0.43
124 27 0.27
125 16 0.16
126 6 0.06
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.44
Consensus pattern (121 bp):
AATTTCAAAAATAAAAGTTCAACAACTACTATATTTCTTATCTTAAAAAAACATTTTTTTAAAAT
TTTAGAAATTTTAAAATAAATTTTAATCCACTACATTTTTTATCTTAAAATTCCAA
Found at i:10418597 original size:26 final size:28
Alignment explanation
Indices: 10418568--10418619 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
10418558 ATTTCCTTTG
10418568 AGAAAAT-CTTTTTATTTT-TATTTTCT
1 AGAAAATACTTTTTATTTTCTATTTTCT
*
10418594 AGAAAATAGTTTTTATTTTCTATTTT
1 AGAAAATACTTTTTATTTTCTATTTT
10418620 TTGTTTCCTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 7 0.30
27 10 0.43
28 6 0.26
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.60
Consensus pattern (28 bp):
AGAAAATACTTTTTATTTTCTATTTTCT
Found at i:10420913 original size:26 final size:26
Alignment explanation
Indices: 10420884--10420936 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
10420874 AATTTAATAA
* * *
10420884 ATATAAAAATATATTTTTTATATTTT
1 ATATAAAAATAAATTATTAATATTTT
*
10420910 ATATAAATATAAATTATTAATATTTT
1 ATATAAAAATAAATTATTAATATTTT
10420936 A
1 A
10420937 CATTATATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATATAAAAATAAATTATTAATATTTT
Found at i:10424036 original size:2 final size:2
Alignment explanation
Indices: 10424029--10424056 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10424019 GTTTTGAGAA
10424029 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
10424057 CAATTCCGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10427280 original size:22 final size:25
Alignment explanation
Indices: 10427232--10427281 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10427222 AGGAAAGATT
* *
10427232 ATAATTTCACATATTTAAAATACAA
1 ATAATTTCACATATTAAAAAGACAA
10427257 ATAATTTCA-A-ATTAAAAAGA-AA
1 ATAATTTCACATATTAAAAAGACAA
10427279 ATA
1 ATA
10427282 TGAGAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 5 0.22
23 8 0.35
24 1 0.04
25 9 0.39
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (25 bp):
ATAATTTCACATATTAAAAAGACAA
Found at i:10429660 original size:10 final size:10
Alignment explanation
Indices: 10429645--10429682 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
10429635 ACATGATTTG
*
10429645 TACACACTCA
1 TACACACACA
10429655 TACACACACA
1 TACACACACA
10429665 TACACACACA
1 TACACACACA
10429675 TACACACA
1 TACACACA
10429683 TATATATTTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.47, C:0.39, G:0.00, T:0.13
Consensus pattern (10 bp):
TACACACACA
Found at i:10430652 original size:3 final size:3
Alignment explanation
Indices: 10430627--10430734 Score: 69
Period size: 3 Copynumber: 36.3 Consensus size: 3
10430617 ATTATAGTTA
* * * *
10430627 TAT TAT ATAT TAT TGT TAC TAT TAT TAT TAT TAT TAT GA- TAT T-G
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
10430671 TACA TAG T-T TAT TAG TAT TAT TAT TGT TAT CAA AAT TAT TGT TAT
1 TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10430716 TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
10430735 TTCTTTCCTT
Statistics
Matches: 79, Mismatches: 21, Indels: 10
0.72 0.19 0.09
Matches are distributed among these distances:
2 3 0.04
3 71 0.90
4 5 0.06
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:10430658 original size:18 final size:18
Alignment explanation
Indices: 10430613--10430663 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
10430603 TTATATGGCA
*
10430613 ATATATTATAGTTATATT
1 ATATATTATTGTTATATT
10430631 ATATATTATTGTTACTATT
1 ATATATTATTGTTA-TATT
*
10430650 AT-TATTATTATTAT
1 ATATATTATTGTTAT
10430664 GATATTGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 23 0.77
19 6 0.20
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (18 bp):
ATATATTATTGTTATATT
Found at i:10431271 original size:31 final size:31
Alignment explanation
Indices: 10431233--10431304 Score: 101
Period size: 31 Copynumber: 2.3 Consensus size: 31
10431223 TTTAAATATT
*
10431233 TGAATTTTTTGATGAATTTTCTA-TTGAGATA
1 TGAATTTTTTGATGAATTTTCTAGTGGA-ATA
* *
10431264 TGAATTTTTTGATGAGTTTTCTGGTGGAATA
1 TGAATTTTTTGATGAATTTTCTAGTGGAATA
10431295 TGAATTTTTT
1 TGAATTTTTT
10431305 TATGGGATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 34 0.92
32 3 0.08
ACGTcount: A:0.25, C:0.03, G:0.19, T:0.53
Consensus pattern (31 bp):
TGAATTTTTTGATGAATTTTCTAGTGGAATA
Found at i:10431567 original size:18 final size:19
Alignment explanation
Indices: 10431546--10431615 Score: 54
Period size: 21 Copynumber: 3.6 Consensus size: 19
10431536 GATCATAAGG
*
10431546 TTTTCTTTTTTCA-TTTAT
1 TTTTATTTTTTCATTTTAT
*
10431564 TTTTATTTTTTGATTTTAT
1 TTTTATTTTTTCATTTTAT
* *
10431583 TTCATT-TTATTTTTAGTTTAT
1 TT--TTATT-TTTTCATTTTAT
10431604 TTTTATTATTTT
1 TTTTATT-TTTT
10431616 TTGGTTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 11 0.26
19 9 0.21
20 9 0.21
21 14 0.33
ACGTcount: A:0.16, C:0.04, G:0.03, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTTCATTTTAT
Found at i:10431624 original size:22 final size:21
Alignment explanation
Indices: 10431563--10431629 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
10431553 TTTTCATTTA
*
10431563 TTTTTATTTTTTGATTTTATT
1 TTTTTATTTTTTGGTTTTATT
*
10431584 TCATTTTA-TTTTTAG-TTTATT
1 T--TTTTATTTTTTGGTTTTATT
10431605 TTTATTATTTTTTGGTTTTATT
1 TTT-TTATTTTTTGGTTTTATT
10431627 TTT
1 TTT
10431630 GAGAAATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 2 0.05
20 3 0.08
21 14 0.37
22 14 0.37
23 5 0.13
ACGTcount: A:0.15, C:0.01, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTTTATTTTTTGGTTTTATT
Found at i:10434114 original size:18 final size:19
Alignment explanation
Indices: 10434093--10434131 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
10434083 TTTAATATCT
10434093 TAAAAG-AA-TAAATAAAAC
1 TAAAAGAAATTAAA-AAAAC
10434111 TAAAAGAAATTAAAAAAAC
1 TAAAAGAAATTAAAAAAAC
10434130 TA
1 TA
10434132 GAAAAATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 9 0.47
20 4 0.21
ACGTcount: A:0.72, C:0.05, G:0.05, T:0.18
Consensus pattern (19 bp):
TAAAAGAAATTAAAAAAAC
Found at i:10435720 original size:26 final size:25
Alignment explanation
Indices: 10435671--10435727 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
10435661 TATAACTCAA
* *
10435671 GATAAAAATAAAAAACAAACAAGAT
1 GATAAAAATAAAAAACAAAAAAGAG
**
10435696 GATAAAAATAAAAATGAATAAAAGAG
1 GATAAAAATAAAAAACAA-AAAAGAG
10435722 GATAAA
1 GATAAA
10435728 TAAAGTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.70, C:0.04, G:0.12, T:0.14
Consensus pattern (25 bp):
GATAAAAATAAAAAACAAAAAAGAG
Found at i:10435786 original size:22 final size:21
Alignment explanation
Indices: 10435758--10435801 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 21
10435748 ATATATATAC
10435758 AGATAAATACAACAT-AAATAAA
1 AGATAAATA-AA-ATAAAATAAA
10435780 AGATAAATAAAATAAAATAAA
1 AGATAAATAAAATAAAATAAA
10435801 A
1 A
10435802 TTCATCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 2 0.10
21 10 0.48
22 9 0.43
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.18
Consensus pattern (21 bp):
AGATAAATAAAATAAAATAAA
Found at i:10435799 original size:10 final size:11
Alignment explanation
Indices: 10435760--10435802 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
10435750 ATATATACAG
* *
10435760 ATAAATACAAC
1 ATAAATAAAAT
*
10435771 ATAAATAAAAG
1 ATAAATAAAAT
10435782 ATAAATAAAAT
1 ATAAATAAAAT
10435793 A-AAATAAAAT
1 ATAAATAAAAT
10435803 TCATCAATTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
10 9 0.31
11 20 0.69
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (11 bp):
ATAAATAAAAT
Found at i:10438334 original size:80 final size:80
Alignment explanation
Indices: 10438172--10438355 Score: 194
Period size: 80 Copynumber: 2.3 Consensus size: 80
10438162 TATATCTAAC
* * * * * * *
10438172 TCTTTCATCTCCCT-TACAAGTGACGAGAGCTAGTGAGTGTGATGTTTTGGCTTTTTTCAAATCT
1 TCTTTCATCTCCTTCTACATGTGATGAGAGCTAGTCAGTGTGATGTCTTAGCTTTTTCCAAATCT
* *
10438236 TTTACGTAATAGGTT
66 TTCACGTAATAGGCT
* *
10438251 TCTTTCAT-TTCTTACTACATGTGATGAGAGCTTGTCAGTGTGATGTCTTAGCTTTTTCCAAAT-
1 TCTTTCATCTCCTT-CTACATGTGATGAGAGCTAGTCAGTGTGATGTCTTAGCTTTTTCCAAATC
* **
10438314 TTGTCATGTCGTAGGCT
65 TT-TCACGTAATAGGCT
*
10438331 TCTTTCATCTCCTTCTACATATGAT
1 TCTTTCATCTCCTTCTACATGTGAT
10438356 AGAATCTGTT
Statistics
Matches: 85, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
78 3 0.04
79 10 0.12
80 68 0.80
81 4 0.05
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (80 bp):
TCTTTCATCTCCTTCTACATGTGATGAGAGCTAGTCAGTGTGATGTCTTAGCTTTTTCCAAATCT
TTCACGTAATAGGCT
Found at i:10439702 original size:24 final size:24
Alignment explanation
Indices: 10439656--10439702 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10439646 AATTTGAGTT
* *
10439656 TTATTCGCTGCAAATTATTGAAAA
1 TTATTCGCTGAAAATTATGGAAAA
10439680 TTATT-GCTGAAAATTGATGGAAA
1 TTATTCGCTGAAAATT-ATGGAAA
10439703 GAAAGCTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (24 bp):
TTATTCGCTGAAAATTATGGAAAA
Found at i:10443991 original size:21 final size:21
Alignment explanation
Indices: 10443965--10444014 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
10443955 AGAGTACCTA
* *
10443965 TGCATCATGCCTAGTGTTGAT
1 TGCATCACGCCTAGGGTTGAT
*
10443986 TGCATCACGCCTTGGGTTGAT
1 TGCATCACGCCTAGGGTTGAT
*
10444007 TGCGTCAC
1 TGCATCAC
10444015 ACAATCTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (21 bp):
TGCATCACGCCTAGGGTTGAT
Found at i:10452244 original size:4 final size:4
Alignment explanation
Indices: 10452235--10452274 Score: 64
Period size: 4 Copynumber: 10.2 Consensus size: 4
10452225 ATTTGAAGTT
*
10452235 TATG TATG TATG TATG TGTG TATG TATG T-TG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG T
10452275 TACGGTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
3 3 0.09
4 30 0.91
ACGTcount: A:0.20, C:0.00, G:0.28, T:0.53
Consensus pattern (4 bp):
TATG
Found at i:10457309 original size:17 final size:17
Alignment explanation
Indices: 10457287--10457324 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
10457277 AGAAAGTTAA
*
10457287 CCATGTATTTAGTGACC
1 CCATGTATTTAGTAACC
10457304 CCATGTATTTAGTAACC
1 CCATGTATTTAGTAACC
10457321 CCAT
1 CCAT
10457325 TTGAAACAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.34
Consensus pattern (17 bp):
CCATGTATTTAGTAACC
Found at i:10473208 original size:15 final size:15
Alignment explanation
Indices: 10473188--10473218 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10473178 GATATGTTCT
10473188 ACTCTTAAATATAAA
1 ACTCTTAAATATAAA
10473203 ACTCTTAAATATAAA
1 ACTCTTAAATATAAA
10473218 A
1 A
10473219 TGCACTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (15 bp):
ACTCTTAAATATAAA
Found at i:10478247 original size:26 final size:25
Alignment explanation
Indices: 10478213--10478265 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
10478203 TCAACTACGC
*
10478213 TTGATTTATTGTTGAGATATTGATATT
1 TTGATTTATT-TTG-GAGATTGATATT
*
10478240 TTGA-TTATTTTGGAGATTGGTATT
1 TTGATTTATTTTGGAGATTGATATT
10478264 TT
1 TT
10478266 AGCTATTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 12 0.50
25 3 0.12
26 5 0.21
27 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.21, T:0.57
Consensus pattern (25 bp):
TTGATTTATTTTGGAGATTGATATT
Found at i:10478679 original size:21 final size:20
Alignment explanation
Indices: 10478655--10478693 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
10478645 GCATGAACTC
*
10478655 AAATCTCAAGTTTCAAAATTG
1 AAATCTCAA-TATCAAAATTG
10478676 AAATCTCAATATCAAAAT
1 AAATCTCAATATCAAAAT
10478694 ATCAATCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
AAATCTCAATATCAAAATTG
Found at i:10488488 original size:13 final size:12
Alignment explanation
Indices: 10488457--10488500 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
10488447 GCTAAAATTT
*
10488457 ATTAAATAAAAA
1 ATTAAATTAAAA
*
10488469 ATAAAATTAAAA
1 ATTAAATTAAAA
10488481 ATCTAAATTAATAA
1 AT-TAAATTAA-AA
10488495 ATTAAA
1 ATTAAA
10488501 AGATCTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 12 0.44
13 11 0.41
14 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (12 bp):
ATTAAATTAAAA
Found at i:10488511 original size:21 final size:22
Alignment explanation
Indices: 10488472--10488518 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
10488462 ATAAAAAATA
10488472 AAATTAAAAATCTAAATTA-AT
1 AAATTAAAAATCTAAATTATAT
*
10488493 AAATTAAAAGATCT-TATTATAT
1 AAATTAAAA-ATCTAAATTATAT
10488515 AAAT
1 AAAT
10488519 CAAATGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
AAATTAAAAATCTAAATTATAT
Found at i:10491548 original size:53 final size:53
Alignment explanation
Indices: 10491361--10491541 Score: 188
Period size: 53 Copynumber: 3.4 Consensus size: 53
10491351 TATTTTTATT
* * * *
10491361 TTTTATTTTCAATCAAACACTATATTTCTATTTTTAAAAAA-GTAGTTTTTGTAAA
1 TTTT-TTTT-AATCAAACACTACATTTCTA-CTTTAAAAAATGAAGTCTTTGTAAA
* * * *
10491416 ATTTTTTTAATCAAAAACTACGTTTTTACTTTAAAAAAAT-ATAGTCTTTGTAAA
1 TTTTTTTTAATCAAACACTACATTTCTACTTT-AAAAAATGA-AGTCTTTGTAAA
* *
10491470 -TTTTTTTAATTAAACATTACATTTCTACTTTAAAAAATGAAGTCTTTGTAAA
1 TTTTTTTTAATCAAACACTACATTTCTACTTTAAAAAATGAAGTCTTTGTAAA
*
10491522 TTTTTTTTCAATCCAACACT
1 TTTTTTTT-AATCAAACACT
10491542 GCTTTCTTGA
Statistics
Matches: 104, Mismatches: 16, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
52 22 0.21
53 56 0.54
54 23 0.22
55 3 0.03
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (53 bp):
TTTTTTTTAATCAAACACTACATTTCTACTTTAAAAAATGAAGTCTTTGTAAA
Found at i:10495764 original size:18 final size:17
Alignment explanation
Indices: 10495714--10495764 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
10495704 TTTTTTTCAA
*
10495714 ATAAAAAATAAAAAATTT
1 ATAAAAAATAAATAA-TT
*
10495732 ATAAAAAAT-ATTAATT
1 ATAAAAAATAAATAATT
10495748 ATAACAAAATAAATAAT
1 ATAA-AAAATAAATAAT
10495765 CAGTAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.21
17 8 0.29
18 14 0.50
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAAATAAATAATT
Found at i:10496638 original size:32 final size:32
Alignment explanation
Indices: 10496592--10496657 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
10496582 ATAAACACAA
* * *
10496592 TATTTGATCAATTTAATTTTTTTAAAATGTAG
1 TATTAGATCAATTTAATTATTTTAAAAAGTAG
10496624 TATTAGATCAATTTAATTATTTTAAAAAGTAG
1 TATTAGATCAATTTAATTATTTTAAAAAGTAG
10496656 TA
1 TA
10496658 ATTGTGCTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.03, G:0.09, T:0.48
Consensus pattern (32 bp):
TATTAGATCAATTTAATTATTTTAAAAAGTAG
Found at i:10502373 original size:90 final size:90
Alignment explanation
Indices: 10502220--10502400 Score: 308
Period size: 90 Copynumber: 2.0 Consensus size: 90
10502210 AATCATATGA
* * * *
10502220 AAATATAAGTTGGTAATTTCATTGTAATCTAAAACCATGTGTATAATAATTGGTAAAAAATACTT
1 AAATATAAGTTGGCAACTTCATTGTAATCCAAAACCATGTGTATAATAACTGGTAAAAAATACTT
10502285 ACAAGTTCATACTTTACATTTTTAT
66 ACAAGTTCATACTTTACATTTTTAT
10502310 AAATATAAGTTGGCAACTTCATTGTAATCCAAAACCATGTGTATAATAACTGGTAAAAAATACTT
1 AAATATAAGTTGGCAACTTCATTGTAATCCAAAACCATGTGTATAATAACTGGTAAAAAATACTT
* *
10502375 ACAAGTTTATGCTTTACATTTTTAT
66 ACAAGTTCATACTTTACATTTTTAT
10502400 A
1 A
10502401 CCTATTTTTC
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 85 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (90 bp):
AAATATAAGTTGGCAACTTCATTGTAATCCAAAACCATGTGTATAATAACTGGTAAAAAATACTT
ACAAGTTCATACTTTACATTTTTAT
Found at i:10503295 original size:53 final size:52
Alignment explanation
Indices: 10503207--10503308 Score: 132
Period size: 53 Copynumber: 1.9 Consensus size: 52
10503197 ATGACATTAG
** * * * *
10503207 CAAACAATGAAAAATCACCAAGCATTCTCCCAGTAAGCATTTGAAAATTCAC
1 CAAACAATGAAAAATCACCAAGCAAACACCAAGTAAGCAATCGAAAATTCAC
*
10503259 CAAACATATGAAAATTCACCAAGCAAACACCAAGTAAGCAATCGAAAATT
1 CAAACA-ATGAAAAATCACCAAGCAAACACCAAGTAAGCAATCGAAAATT
10503309 AAAATATAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
52 6 0.14
53 36 0.86
ACGTcount: A:0.48, C:0.24, G:0.10, T:0.19
Consensus pattern (52 bp):
CAAACAATGAAAAATCACCAAGCAAACACCAAGTAAGCAATCGAAAATTCAC
Found at i:10504325 original size:63 final size:61
Alignment explanation
Indices: 10504185--10504472 Score: 227
Period size: 63 Copynumber: 4.6 Consensus size: 61
10504175 TGCGTTTATA
* * * * *** *
10504185 TGTTTTGAAATGCAATAATTTATAATTGTAATTTTTTTAAAGATCAATCAATTACTTTGTTTCTT
1 TGTTTTAAAATGCAATAATTGATAAATGTAA--TTTTTAAA-AACAATCAATTACTGCATTAC-T
* * *
10504250 TATTTTAAAATGCAGTAATTGATAAATGTAATTGTTTAAAAACAATCAATTACTGCATTGCT
1 TGTTTTAAAATGCAATAATTGATAAATGTAATT-TTTAAAAACAATCAATTACTGCATTACT
* * * * * * * *
10504312 TGATTTTATAATGCATTAATTGATAATTTTAA-TTTTAATAAATAATCAATTATTGCCTTTATT
1 TG-TTTTAAAATGCAATAATTGATAAATGTAATTTTTAA-AAACAATCAATTACTG-CATTACT
* * * *
10504375 TGTTTTAAAATGCAATAATTGATAAATGTGATTATTTTAAAATAATCAAATACTGCATTACTT
1 TGTTTTAAAATGCAATAATTGATAAATGTAATT-TTTAAAAACAATCAATTACTGCATTAC-T
* * * * *
10504438 TGTTTTATAATGTAGTAATTGATAATTTTAATTTT
1 TGTTTTAAAATGCAATAATTGATAAATGTAATTTT
10504473 AATGAAATTT
Statistics
Matches: 180, Mismatches: 36, Indels: 17
0.77 0.15 0.07
Matches are distributed among these distances:
61 5 0.03
62 47 0.26
63 92 0.51
64 10 0.06
65 26 0.14
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.47
Consensus pattern (61 bp):
TGTTTTAAAATGCAATAATTGATAAATGTAATTTTTAAAAACAATCAATTACTGCATTACT
Found at i:10504394 original size:125 final size:121
Alignment explanation
Indices: 10504241--10504725 Score: 496
Period size: 125 Copynumber: 4.0 Consensus size: 121
10504231 ATCAATTACT
* * * * * *
10504241 TTGTTTCTTTATTTTAAAATGCAGTAATTGATAAATGTAATTGTTTAAAAACAATCAATTACTGC
1 TTGTTTATTT-TTTTAAAATACAATAATTGATAAATGTAATTATTTTAAAATAATCAATTACTGC
* * * *
10504306 ATTGC-TTGATTTTATAATGCATTAATTGATAATTTTAATTTTAATAAATAATCAATTA
65 ATTACTTTG-TTTTATAATGTAGTAATTGATAATTTTAATTTTAATAAATGAT-AATTA
* * *
10504364 TTGCCTTTATTTGTTTTAAAATGCAATAATTGATAAATGTGATTATTTTAAAATAATCAAATACT
1 TTG--TTTATTT-TTTTAAAATACAATAATTGATAAATGTAATTATTTTAAAATAATCAATTACT
10504429 GCATTACTTTGTTTTATAATGTAGTAATTGATAATTTTAA-TTT--T-AATGA-AA-T-
63 GCATTACTTTGTTTTATAATGTAGTAATTGATAATTTTAATTTTAATAAATGATAATTA
* * * * *
10504481 TT-TTTA---TTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAGTTATTGCG
1 TTGTTTATTTTTTTAAAATACAATAATTGATAAATGTAATTATTTTAAAATAATCAATTACTGCA
10504542 TTAC-TTGATTTTATAATGTAGTAATTGATAATTTTAATTTTAATCAAATGATTAATTA
66 TTACTTTG-TTTTATAATGTAGTAATTGATAATTTTAATTTTAAT-AAATGA-TAATTA
* * *
10504600 TTGTGTT-TCTTTATTTAAAATACAATAATTGATAAATGTATTTGTTTTAAAATAATCAAATGA-
1 TTGT-TTAT-TTT-TTTAAAATACAATAATTGATAAATGTAATTATTTTAAAATAATC-AATTAC
* * * *
10504663 TGCGTTACTTTTGTTTTATAATGTAATAATTGATAATTGTAATTTTAATTAAAAGAATAATTA
62 TGCATTAC-TTTGTTTTATAATGTAGTAATTGATAATTTTAATTTTAA-TAAATG-ATAATTA
10504726 CCACATTGTT
Statistics
Matches: 308, Mismatches: 29, Indels: 47
0.80 0.08 0.12
Matches are distributed among these distances:
109 3 0.01
110 80 0.26
111 3 0.01
113 1 0.00
114 4 0.01
115 5 0.02
117 4 0.01
118 2 0.01
119 4 0.01
120 1 0.00
121 6 0.02
122 1 0.00
123 3 0.01
124 4 0.01
125 133 0.43
126 49 0.16
127 5 0.02
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (121 bp):
TTGTTTATTTTTTTAAAATACAATAATTGATAAATGTAATTATTTTAAAATAATCAATTACTGCA
TTACTTTGTTTTATAATGTAGTAATTGATAATTTTAATTTTAATAAATGATAATTA
Found at i:10504493 original size:110 final size:110
Alignment explanation
Indices: 10504377--10504590 Score: 333
Period size: 110 Copynumber: 1.9 Consensus size: 110
10504367 CCTTTATTTG
* *
10504377 TTTTAAAATG-CAATAATTGATAAATGTGATTATTTTAAAATAATCAAATACTGCATTACTTTG-
1 TTTTAAAA-GACAATAATTGATAAATATAATTATTTTAAAATAATCAAATACTGCATTAC-TTGA
*
10504440 TTTTATAATGTAGTAATTGATAATTTTAATTTTAATGAAATTTTTTA
64 TTTTATAATGTAGTAATTGATAATTTTAATTTTAATCAAATTTTTTA
** * *
10504487 TTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAGTTATTGCGTTACTTGATT
1 TTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAAATACTGCATTACTTGATT
10504552 TTATAATGTAGTAATTGATAATTTTAATTTTAATCAAAT
66 TTATAATGTAGTAATTGATAATTTTAATTTTAATCAAAT
10504591 GATTAATTAT
Statistics
Matches: 95, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
109 4 0.04
110 91 0.96
ACGTcount: A:0.40, C:0.05, G:0.09, T:0.46
Consensus pattern (110 bp):
TTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAAATACTGCATTACTTGATT
TTATAATGTAGTAATTGATAATTTTAATTTTAATCAAATTTTTTA
Found at i:10504568 original size:63 final size:62
Alignment explanation
Indices: 10504498--10504725 Score: 176
Period size: 63 Copynumber: 3.6 Consensus size: 62
10504488 TTTAAAAGAC
*
10504498 AATAATTGATAAATATAATTATTTTAAAATAATCAGTTATTGCGTTACTTGATTTTATAATGT
1 AATAATTGATAAATATAATT-TTTTAAAATAATCAATTATTGCGTTACTTGATTTTATAATGT
* * * * * * * * * * * **
10504561 AGTAATTGATAATTTTAATTTTAATCAAATGATTAATTATTGTGTTTCTTTA-TTTAAAATAC
1 AATAATTGATAAATATAATTTT-TTAAAATAATCAATTATTGCGTTACTTGATTTTATAATGT
* * *
10504623 AATAATTGATAAATGTATTTGTTTTAAAATAATCAAATGA-TGCGTTACTTTTG-TTTTATAATG
1 AATAATTGATAAATATAATT-TTTTAAAATAATC-AATTATTGCGTTAC--TTGATTTTATAATG
10504686 T
62 T
* * *
10504687 AATAATTGATAATTGTAATTTTAATTAAAAGAAT-AATTA
1 AATAATTGATAAATATAATTTT--TTAAAATAATCAATTA
10504726 CCACATTGTT
Statistics
Matches: 124, Mismatches: 33, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
62 38 0.31
63 50 0.40
64 27 0.22
65 9 0.07
ACGTcount: A:0.40, C:0.04, G:0.10, T:0.46
Consensus pattern (62 bp):
AATAATTGATAAATATAATTTTTTAAAATAATCAATTATTGCGTTACTTGATTTTATAATGT
Found at i:10504659 original size:235 final size:236
Alignment explanation
Indices: 10504248--10504711 Score: 659
Period size: 235 Copynumber: 2.0 Consensus size: 236
10504238 ACTTTGTTTC
* * * *
10504248 TTTATTTTAAAATGCAGTAATTGATAAATGTAATTGTTTAAAAACAATCAATTACTGCATTGCTT
1 TTTATTTTAAAATGCAATAATTGATAAATATAATTATTTAAAAACAATCAATTACTGCATTACTT
* *
10504313 GATTTTATAATGCATTAATTGATAATTTTAATTTTAATAAATAATCAATTATTGCCTTTATTTGT
66 GATTTTATAATGCAGTAATTGATAATTTTAATTTTAATAAATAATCAATTATTGCCTTTATTTGA
*
10504378 TTTAAAATGCAATAATTGATAAATGTGATTATTTTAAAATAATCAAAT-ACTGCATTAC-TTTGT
131 TTTAAAATACAATAATTGATAAATGTGATTATTTTAAAATAATCAAATGA-TGCATTACTTTTGT
* *
10504441 TTTATAATGTAGTAATTGATAATTTTAATTTTAATGAAATTT
195 TTTATAATGTAATAATTGATAATTGTAATTTTAATGAAATTT
* * * * *
10504483 TTTATTTTAAAA-GACAATAATTGATAAATATAATTATTTTAAAATAATCAGTTATTGCGTTACT
1 TTTATTTTAAAATG-CAATAATTGATAAATATAATTATTTAAAAACAATCAATTACTGCATTACT
* * * ** *
10504547 TGATTTTATAATGTAGTAATTGATAATTTTAATTTTAATCAAATGATTAATTATTGTGTTTCTTT
65 TGATTTTATAATGCAGTAATTGATAATTTTAATTTTAAT-AAATAATCAATTATTGCCTTTATTT
* *
10504612 -ATTTAAAATACAATAATTGATAAATGT-ATTTGTTTTAAAATAATCAAATGATGCGTTACTTTT
129 GATTTAAAATACAATAATTGATAAATGTGA-TTATTTTAAAATAATCAAATGATGCATTACTTTT
10504675 GTTTTATAATGTAATAATTGATAATTGTAATTTTAAT
193 GTTTTATAATGTAATAATTGATAATTGTAATTTTAAT
10504712 TAAAAGAATA
Statistics
Matches: 202, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
234 2 0.01
235 141 0.70
236 59 0.29
ACGTcount: A:0.38, C:0.05, G:0.09, T:0.47
Consensus pattern (236 bp):
TTTATTTTAAAATGCAATAATTGATAAATATAATTATTTAAAAACAATCAATTACTGCATTACTT
GATTTTATAATGCAGTAATTGATAATTTTAATTTTAATAAATAATCAATTATTGCCTTTATTTGA
TTTAAAATACAATAATTGATAAATGTGATTATTTTAAAATAATCAAATGATGCATTACTTTTGTT
TTATAATGTAATAATTGATAATTGTAATTTTAATGAAATTT
Found at i:10504725 original size:126 final size:126
Alignment explanation
Indices: 10504483--10504838 Score: 344
Period size: 125 Copynumber: 2.8 Consensus size: 126
10504473 AATGAAATTT
* *
10504483 TTTATTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAGTTATTGCGTTACTT
1 TTTATTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAATGATTGCGTTACTT
* * * *
10504548 GATTTTATAATGTAGTAATTGATAATTTTAATTTTAATCAAATGATTAATTATTGTGTTTC
66 GATTTTATAATGTAATAATTGATAATTGTAATTTTAATCAAAAGAATAATTATTGTGTTTC
* * * *
10504609 TTTA-TTTAAAATACAATAATTGATAAATGTATTTGTTTTAAAATAATCAAATGA-TGCGTTACT
1 TTTATTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATC-AATGATTGCGTTAC-
* *****
10504672 TTTG-TTTTATAATGTAATAATTGATAATTGTAATTTTAATTAAAAGAATAATTACCACATTGT-
64 -TTGATTTTATAATGTAATAATTGATAATTGTAATTTTAATCAAAAGAATAATTATTGTGTT-TC
* * * * * * * * * *
10504735 TTTATTTTATAACACAGTAATTGATCATTATAATT-TTTTTAAACAATCAATTATTGCATTGCTT
1 TTTATTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAATGATTGCGTTACTT
* * * ** * *
10504799 TATTTAAAAATACAATAATTGATATTTGTAATTTTTATCA
66 GATTTTATAATGTAATAATTGATAATTGTAATTTTAATCA
10504839 TTATCGATTT
Statistics
Matches: 187, Mismatches: 36, Indels: 15
0.79 0.15 0.06
Matches are distributed among these distances:
124 2 0.01
125 83 0.44
126 75 0.40
127 27 0.14
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (126 bp):
TTTATTTTAAAAGACAATAATTGATAAATATAATTATTTTAAAATAATCAATGATTGCGTTACTT
GATTTTATAATGTAATAATTGATAATTGTAATTTTAATCAAAAGAATAATTATTGTGTTTC
Found at i:10511114 original size:12 final size:12
Alignment explanation
Indices: 10511094--10511126 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
10511084 TCTAAGATCA
10511094 CCTCCTCCTCTT
1 CCTCCTCCTCTT
*
10511106 CCTCTTCCTCTT
1 CCTCCTCCTCTT
10511118 CCTCCTCCT
1 CCTCCTCCT
10511127 TGTTCTCACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (12 bp):
CCTCCTCCTCTT
Found at i:10512962 original size:29 final size:30
Alignment explanation
Indices: 10512930--10513000 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
10512920 ATTGTTTAAA
10512930 ATAAAATATTATTTTA-ATATAATAAAAAG
1 ATAAAATATTATTTTATATATAATAAAAAG
* *
10512959 ATAAAA-ATT-TAATTATATATAATAAAAAT
1 ATAAAATATTAT-TTTATATATAATAAAAAG
10512988 ATAAAGAT-TTATT
1 ATAAA-ATATTATT
10513001 AAAAAATTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
27 1 0.03
28 6 0.18
29 23 0.68
30 3 0.09
31 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (30 bp):
ATAAAATATTATTTTATATATAATAAAAAG
Found at i:10513626 original size:12 final size:12
Alignment explanation
Indices: 10513609--10513633 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10513599 AGGGAACCAA
10513609 TAATAATAATTC
1 TAATAATAATTC
10513621 TAATAATAATTC
1 TAATAATAATTC
10513633 T
1 T
10513634 TCAAATGTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TAATAATAATTC
Found at i:10519294 original size:164 final size:163
Alignment explanation
Indices: 10519023--10519332 Score: 478
Period size: 164 Copynumber: 1.9 Consensus size: 163
10519013 AAAGGATTTG
* *
10519023 AGAAAAATTAGAGGTATTCCGAATTGAGGAAAAGATGAGAGAGGGCTGATTGAGATGGTTTGGAC
1 AGAAAAATTAGAGGTAGTCCGAATTGAGGAAAAGATGAGAGAGGGCCGATTGAGATGGTTTGGAC
* * * * * * *
10519088 ATGTGAAACCTAGGCTTGTCTATGCACTAGTTAGGGGAAATGAGCTTCTAGATTTATGAGAGACC
66 ATGTGAAACCTAAGCCTATCTATGCACCAGTTAGGAGAAATGAGCTTCTAGATTTATGAAACACC
10519153 AAAACTTCTAGAGGTAGACCAATAAAGAGATCTA
131 -AAACTTCTAGAGGTAGACCAATAAAGAGATCTA
*
10519187 AGAAAAATTAG-GAGTAGTCTGAATTGAGGAAAAGATGAGAGAGGGCCGATTGAGATGGTTTGGA
1 AGAAAAATTAGAG-GTAGTCCGAATTGAGGAAAAGATGAGAGAGGGCCGATTGAGATGGTTTGGA
*
10519251 CATGTGAAACCTAAGCCTATCTATGCACCAGTTAGGAGAAATGAGTTTCTAGATTTATGAAACAC
65 CATGTGAAACCTAAGCCTATCTATGCACCAGTTAGGAGAAATGAGCTTCTAGATTTATGAAACAC
* *
10519316 CAAATTTCTAGGGGTAG
130 CAAACTTCTAGAGGTAG
10519333 GCCATGAAAG
Statistics
Matches: 132, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
163 15 0.11
164 117 0.89
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (163 bp):
AGAAAAATTAGAGGTAGTCCGAATTGAGGAAAAGATGAGAGAGGGCCGATTGAGATGGTTTGGAC
ATGTGAAACCTAAGCCTATCTATGCACCAGTTAGGAGAAATGAGCTTCTAGATTTATGAAACACC
AAACTTCTAGAGGTAGACCAATAAAGAGATCTA
Found at i:10523459 original size:18 final size:18
Alignment explanation
Indices: 10523424--10523457 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10523414 CACATGATTA
10523424 TAATATTATAAAATAAAT
1 TAATATTATAAAATAAAT
10523442 TAATATTAT-AAATAAA
1 TAATATTATAAAATAAA
10523458 ATAAATTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAATATTATAAAATAAAT
Found at i:10523974 original size:18 final size:18
Alignment explanation
Indices: 10523896--10523998 Score: 52
Period size: 18 Copynumber: 5.6 Consensus size: 18
10523886 TTAATTTACG
*
10523896 TTAATTTGTTAGATTATT
1 TTAATTTGTTATATTATT
* *
10523914 TTAATTTAATTTACACTTATTTT
1 TTAATTT--GTTATA-TTA--TT
*
10523937 TTTATTTGTT-T-TTA--
1 TTAATTTGTTATATTATT
10523951 TTAATTTGTTATATTATT
1 TTAATTTGTTATATTATT
***
10523969 TTAATTCAATATATATATT
1 TTAATTTGTTATAT-TATT
10523988 TTATATTTGTT
1 TTA-ATTTGTT
10523999 TACATTGATC
Statistics
Matches: 62, Mismatches: 12, Indels: 20
0.66 0.13 0.21
Matches are distributed among these distances:
14 9 0.15
15 1 0.02
16 3 0.05
18 21 0.34
19 7 0.11
20 8 0.13
21 5 0.08
23 8 0.13
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (18 bp):
TTAATTTGTTATATTATT
Found at i:10527886 original size:89 final size:89
Alignment explanation
Indices: 10527792--10527960 Score: 320
Period size: 89 Copynumber: 1.9 Consensus size: 89
10527782 GTTTGATATC
10527792 CAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATCAATTCAACATCATGT
1 CAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATCAATTCAACATCATGT
10527857 ATATGTTTAGATCTCATTTGACGT
66 ATATGTTTAGATCTCATTTGACGT
* *
10527881 CAAAGTTCTTTGAAAAGCTTCTTTTGTCTAAGTGTAAGGAGTGTTGTATCAATTCAACATCATGT
1 CAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATCAATTCAACATCATGT
10527946 ATATGTTTAGATCTC
66 ATATGTTTAGATCTC
10527961 TTTACATATA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
89 78 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.40
Consensus pattern (89 bp):
CAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATCAATTCAACATCATGT
ATATGTTTAGATCTCATTTGACGT
Found at i:10527980 original size:89 final size:89
Alignment explanation
Indices: 10527777--10527967 Score: 314
Period size: 89 Copynumber: 2.2 Consensus size: 89
10527767 AGGACGTTTC
* *
10527777 ATCTCGTTTGATATCCAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATC
1 ATCTCATTTGACAT-CAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATC
10527842 AATTCAACATCATGTATATGTTTAG
65 AATTCAACATCATGTATATGTTTAG
* * *
10527867 ATCTCATTTGACGTCAAAGTTCTTTGAAAAGCTTCTTTTGTCTAAGTGTAAGGAGTGTTGTATCA
1 ATCTCATTTGACATCAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATCA
10527932 ATTCAACATCATGTATATGTTTAG
66 ATTCAACATCATGTATATGTTTAG
10527956 ATCTC-TTT-ACAT
1 ATCTCATTTGACAT
10527968 ATATGTTGTC
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
87 3 0.03
88 3 0.03
89 78 0.82
90 11 0.12
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.41
Consensus pattern (89 bp):
ATCTCATTTGACATCAAAGTTCTTTGAAAAACTTCTTTTGTCTAAGTGTAAAGAGTGTTGTATCA
ATTCAACATCATGTATATGTTTAG
Found at i:10528292 original size:3 final size:3
Alignment explanation
Indices: 10528284--10528312 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10528274 TTTAAAACAT
10528284 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10528313 TTTCAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10529644 original size:19 final size:21
Alignment explanation
Indices: 10529606--10529645 Score: 59
Period size: 18 Copynumber: 2.0 Consensus size: 21
10529596 TGACTTTTCA
10529606 TTATTATTTCATTTACTTTTT
1 TTATTATTTCATTTACTTTTT
10529627 TTATT-TTT-ATTTA-TTTTT
1 TTATTATTTCATTTACTTTTT
10529645 T
1 T
10529646 ATCAGAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 5 0.26
20 3 0.16
21 5 0.26
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
TTATTATTTCATTTACTTTTT
Found at i:10529764 original size:37 final size:36
Alignment explanation
Indices: 10529680--10529766 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
10529670 ATTATTTTTT
* *
10529680 ATAAAAAATTATACGAAATTTTAAATTTATAATTAT
1 ATAAAAAATTAAACGAAATTTTAAATTTATAATTAC
** * *
10529716 ATCAATTAATTAAACTAAATTTTAAATTT-TATTTGACC
1 AT-AAAAAATTAAACGAAATTTTAAATTTATAATT-A-C
10529754 ATAAAAAATTAAA
1 ATAAAAAATTAAA
10529767 TTTTATTTGA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
36 6 0.15
37 32 0.80
38 2 0.05
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (36 bp):
ATAAAAAATTAAACGAAATTTTAAATTTATAATTAC
Found at i:10534819 original size:16 final size:17
Alignment explanation
Indices: 10534794--10534830 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
10534784 TAATCTCAAT
*
10534794 ATTTACAATT-AATAAA
1 ATTTAAAATTAAATAAA
10534810 ATTTAAAATTAAATAAA
1 ATTTAAAATTAAATAAA
10534827 ATTT
1 ATTT
10534831 TATGACTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTAAAATTAAATAAA
Found at i:10535731 original size:2 final size:2
Alignment explanation
Indices: 10535724--10535752 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10535714 ACTCCATTGA
10535724 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 A
10535753 GCAGCGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10535857 original size:16 final size:17
Alignment explanation
Indices: 10535838--10535870 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
10535828 TTTCCAATTT
10535838 TATTATTTTA-AAAATA
1 TATTATTTTATAAAATA
*
10535854 TATTTTTTTATAAAATA
1 TATTATTTTATAAAATA
10535871 GATGTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTATTTTATAAAATA
Found at i:10544516 original size:30 final size:30
Alignment explanation
Indices: 10544449--10544558 Score: 120
Period size: 30 Copynumber: 3.7 Consensus size: 30
10544439 ACTCTTCTAC
* *
10544449 TTTT-AGAAATTTA-TCCCTATAGTATTA-
1 TTTTAAGAAATTTAGTCCTTATAATATTAT
* *
10544476 TTTAAAGAAATTTAGTCCTTGTAATATTAT
1 TTTTAAGAAATTTAGTCCTTATAATATTAT
*
10544506 TTTTAAGAAATTTAGTCCATATAATATTATTT
1 TTTTAAGAAATTTAGTCCTTATAATATTA--T
*
10544538 TTTTAA-AAAATTAGTCCTTAT
1 TTTTAAGAAATTTAGTCCTTAT
10544559 GCATTACAAA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 3 0.04
28 9 0.13
29 11 0.16
30 26 0.38
31 13 0.19
32 7 0.10
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (30 bp):
TTTTAAGAAATTTAGTCCTTATAATATTAT
Found at i:10547134 original size:45 final size:45
Alignment explanation
Indices: 10547078--10547344 Score: 245
Period size: 45 Copynumber: 5.9 Consensus size: 45
10547068 AACTCATCTT
* *
10547078 AACAGAGGCTCAATAACTTTTGAAAAATAAATATAGGCTCCTCTA
1 AACAGAGGCTTAATAACTTTTAAAAAATAAATATAGGCTCCTCTA
* * ** * *
10547123 AATAGAGGCTCAACGACTTTTAAAAAATAAATAGA-GCTACTCTA
1 AACAGAGGCTTAATAACTTTTAAAAAATAAATATAGGCTCCTCTA
** * * * *
10547167 AATGGAGACTTAA-AGACATTTGAAAAAAATAAATATAAGCTCTTCTA
1 AACAGAGGCTTAATA-AC-TTT-TAAAAAATAAATATAGGCTCCTCTA
* *
10547214 AACAGAGGCTTAATGACTTTTGAACAAATAAATA-AGGCTCCTCTA
1 AACAGAGGCTTAATAACTTTT-AAAAAATAAATATAGGCTCCTCTA
** * *
10547259 AACAGAGAATTAATAACTTTTAAAAAAATAAATA-AGGCTCTTATA
1 AACAGAGGCTTAATAACTTTT-AAAAAATAAATATAGGCTCCTCTA
* * *
10547304 AACAGAAGCTTAATGACTATTTAAAAAATAAATATAAGCTC
1 AACAGAGGCTTAATAACT-TTTAAAAAATAAATATAGGCTC
10547345 TCTTTTTTTT
Statistics
Matches: 180, Mismatches: 34, Indels: 15
0.79 0.15 0.07
Matches are distributed among these distances:
44 20 0.11
45 106 0.59
46 35 0.19
47 19 0.11
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (45 bp):
AACAGAGGCTTAATAACTTTTAAAAAATAAATATAGGCTCCTCTA
Found at i:10547214 original size:91 final size:90
Alignment explanation
Indices: 10547100--10547337 Score: 293
Period size: 91 Copynumber: 2.6 Consensus size: 90
10547090 ATAACTTTTG
* * * *
10547100 AAAAATAAATATAGGCTCCTCTAAATAGAGGCTCAACGACTTTTAAAAAATAAAT-AGAGCTACT
1 AAAAATAAATATAGGCTCTTCTAAACAGAGGCTTAATGACTTTTAAAAAATAAATAAG-GCTACT
** *
10547164 CTAAATGGAGACTTAA-AGACATTTGAA
65 CTAAACAGAGAATTAATA-AC-TTTGAA
* * *
10547191 AAAAATAAATATAAGCTCTTCTAAACAGAGGCTTAATGACTTTTGAACAAATAAATAAGGCTCCT
1 AAAAATAAATATAGGCTCTTCTAAACAGAGGCTTAATGACTTTT-AAAAAATAAATAAGGCTACT
*
10547256 CTAAACAGAGAATTAATAACTTTTAA
65 CTAAACAGAGAATTAATAACTTTGAA
* *
10547282 AAAAATAAATA-AGGCTCTTATAAACAGAAGCTTAATGACTATTTAAAAAATAAATA
1 AAAAATAAATATAGGCTCTTCTAAACAGAGGCTTAATGACT-TTTAAAAAATAAATA
10547338 TAAGCTCTCT
Statistics
Matches: 128, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
90 37 0.29
91 58 0.45
92 30 0.23
93 3 0.02
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (90 bp):
AAAAATAAATATAGGCTCTTCTAAACAGAGGCTTAATGACTTTTAAAAAATAAATAAGGCTACTC
TAAACAGAGAATTAATAACTTTGAA
Found at i:10547330 original size:136 final size:135
Alignment explanation
Indices: 10547078--10547345 Score: 330
Period size: 136 Copynumber: 2.0 Consensus size: 135
10547068 AACTCATCTT
* ** *
10547078 AACAGAGGCTCAATAACTTTTGAAAAATAAATATAGGCTCCTCTAAATAGAGGCTCAACGACTTT
1 AACAGAGGCTCAATAACTTTTGAAAAATAAATATAGGCTCCTCTAAACAGAGAATCAACAACTTT
* * *
10547143 TAAAAAATAAATAGAGCTACTCTAAATGGAGACTTAAAGACATTTGAAAAAAATAAATATAAGCT
66 TAAAAAATAAATAGAGCTACTATAAAAGAAGACTTAAAGACATTT-AAAAAAATAAATATAAGCT
10547208 CTTCTA
130 CTTCTA
* * * *
10547214 AACAGAGGCTTAATGACTTTTGAACAAATAAATA-AGGCTCCTCTAAACAGAGAATTAATAACTT
1 AACAGAGGCTCAATAACTTTTGAA-AAATAAATATAGGCTCCTCTAAACAGAGAATCAACAACTT
*
10547278 TTAAAAAAATAAATA-AGGCT-CTTATAAACAGAAG-CTTAATGACTATTT-AAAAAATAAATAT
65 TT-AAAAAATAAATAGA-GCTAC-TATAAA-AGAAGACTTAAAGAC-ATTTAAAAAAATAAATAT
10547339 AAGCTCT
125 AAGCTCT
10547346 CTTTTTTTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
136 70 0.61
137 37 0.32
138 7 0.06
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (135 bp):
AACAGAGGCTCAATAACTTTTGAAAAATAAATATAGGCTCCTCTAAACAGAGAATCAACAACTTT
TAAAAAATAAATAGAGCTACTATAAAAGAAGACTTAAAGACATTTAAAAAAATAAATATAAGCTC
TTCTA
Found at i:10548464 original size:23 final size:23
Alignment explanation
Indices: 10548412--10548485 Score: 73
Period size: 23 Copynumber: 3.3 Consensus size: 23
10548402 CTTTTTAAGA
**
10548412 TTTTTT-ATTTAAGTTC-TCTTT
1 TTTTTTCATTTATTTTCTTCTTT
*
10548433 TTTCATTCATTCTATTTTCTT-TTT
1 TTT-TTTCATT-TATTTTCTTCTTT
*
10548457 TTTTTTCATTTATTTTTTTCTTT
1 TTTTTTCATTTATTTTCTTCTTT
10548480 TTTTTT
1 TTTTTT
10548486 TTTTTTAAGC
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.07
22 10 0.23
23 18 0.42
24 11 0.26
25 1 0.02
ACGTcount: A:0.11, C:0.11, G:0.01, T:0.77
Consensus pattern (23 bp):
TTTTTTCATTTATTTTCTTCTTT
Found at i:10548487 original size:13 final size:12
Alignment explanation
Indices: 10548447--10548491 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
10548437 ATTCATTCTA
10548447 TTTTCTTTTTTT
1 TTTTCTTTTTTT
*
10548459 TTTTCATTTATTT
1 TTTTC-TTTTTTT
10548472 TTTTCTTTTTTT
1 TTTTCTTTTTTT
10548484 TTTT-TTTT
1 TTTTCTTTT
10548492 AAGCGTAACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 4 0.13
12 15 0.50
13 11 0.37
ACGTcount: A:0.04, C:0.07, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:10548489 original size:27 final size:27
Alignment explanation
Indices: 10548430--10548487 Score: 93
Period size: 25 Copynumber: 2.2 Consensus size: 27
10548420 TTAAGTTCTC
10548430 TTTTTTCATTCATTCTATTTTCTTTTT
1 TTTTTTCATTCATTCTATTTTCTTTTT
*
10548457 TTTTTTCATTTATT-T-TTTTCTTTTT
1 TTTTTTCATTCATTCTATTTTCTTTTT
10548482 TTTTTT
1 TTTTTT
10548488 TTTTAAGCGT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
25 16 0.53
26 1 0.03
27 13 0.43
ACGTcount: A:0.09, C:0.10, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTTTTCATTCATTCTATTTTCTTTTT
Found at i:10553763 original size:11 final size:11
Alignment explanation
Indices: 10553730--10553755 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10553720 ATCATTGTTT
10553730 GAAAAAAAAAA
1 GAAAAAAAAAA
10553741 GAAAAAAAAAA
1 GAAAAAAAAAA
10553752 GAAA
1 GAAA
10553756 TAATAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:10561677 original size:3 final size:3
Alignment explanation
Indices: 10561664--10561693 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
10561654 TAAAAATAAA
10561664 TAT TAAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TA
10561694 ATTTTATCCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:10561925 original size:17 final size:18
Alignment explanation
Indices: 10561903--10561940 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10561893 AAATACTTTA
10561903 AAACAAA-ATAAAT-AAAT
1 AAACAAATA-AAATAAAAT
10561920 AAACAAATAAAATAAAAT
1 AAACAAATAAAATAAAAT
10561938 AAA
1 AAA
10561941 ACCAAAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (18 bp):
AAACAAATAAAATAAAAT
Found at i:10565304 original size:27 final size:26
Alignment explanation
Indices: 10565242--10565367 Score: 76
Period size: 27 Copynumber: 4.6 Consensus size: 26
10565232 AAAAAGTTAC
10565242 AAAAAATTAAAAATATATATGAAATATTTT
1 AAAAAATT-AAAA-AT-T-TGAAATATTTT
**
10565272 TTAAAATTCAAAAATTTGAAATATTTT
1 AAAAAATT-AAAAATTTGAAATATTTT
* * * *
10565299 AAAAAATTATAAATTTCAAAAATATAT
1 AAAAAATTAAAAATTTGAAATAT-TTT
* * *
10565326 AAAAATTTTAAAAATTCT-AAAAATTCT
1 AAAAA-ATTAAAAATT-TGAAATATTTT
*
10565353 AAAATA-TAAAAATTT
1 AAAAAATTAAAAATTT
10565368 ATATAACAAT
Statistics
Matches: 79, Mismatches: 14, Indels: 12
0.75 0.13 0.11
Matches are distributed among these distances:
24 1 0.01
25 8 0.10
26 12 0.15
27 30 0.38
28 15 0.19
29 3 0.04
30 10 0.13
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (26 bp):
AAAAAATTAAAAATTTGAAATATTTT
Found at i:10565312 original size:19 final size:18
Alignment explanation
Indices: 10565281--10565339 Score: 52
Period size: 19 Copynumber: 3.2 Consensus size: 18
10565271 TTTAAAATTC
10565281 AAAAATT-TGAAATATTTTA
1 AAAAATTAT-AAA-ATTTTA
*
10565300 AAAAATTAT-AAA-TTTC
1 AAAAATTATAAAATTTTA
10565316 AAAAATATATAAAAATTTTA
1 AAAAAT-TAT-AAAATTTTA
10565336 AAAA
1 AAAA
10565340 TTCTAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
16 9 0.27
17 4 0.12
18 2 0.06
19 10 0.30
20 8 0.24
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAAATTATAAAATTTTA
Found at i:10565314 original size:17 final size:19
Alignment explanation
Indices: 10565294--10565364 Score: 71
Period size: 17 Copynumber: 4.0 Consensus size: 19
10565284 AATTTGAAAT
*
10565294 ATTTTAAAAA-AT-TATAA
1 ATTTTAAAAATATATAAAA
*
10565311 ATTTCAAAAATATATAAAA
1 ATTTTAAAAATATATAAAA
*
10565330 ATTTTAAAAAT-TCTAAAA
1 ATTTTAAAAATATATAAAA
*
10565348 ATTCT-AAAATATA-AAAA
1 ATTTTAAAAATATATAAAA
10565365 TTTATATAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
17 18 0.40
18 13 0.29
19 14 0.31
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTTTAAAAATATATAAAA
Found at i:10565337 original size:9 final size:9
Alignment explanation
Indices: 10565281--10565356 Score: 64
Period size: 9 Copynumber: 8.4 Consensus size: 9
10565271 TTTAAAATTC
*
10565281 AAAAATTTG
1 AAAAATTTT
*
10565290 AAATATTTT
1 AAAAATTTT
*
10565299 AAAAA-ATT
1 AAAAATTTT
* *
10565307 ATAAATTTC
1 AAAAATTTT
*
10565316 AAAAATATAT
1 AAAAAT-TTT
10565326 AAAAATTTT
1 AAAAATTTT
*
10565335 AAAAATTCT
1 AAAAATTTT
*
10565344 AAAAATTCT
1 AAAAATTTT
10565353 AAAA
1 AAAA
10565357 TATAAAAATT
Statistics
Matches: 53, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
8 6 0.11
9 40 0.75
10 7 0.13
ACGTcount: A:0.59, C:0.04, G:0.01, T:0.36
Consensus pattern (9 bp):
AAAAATTTT
Found at i:10565339 original size:35 final size:36
Alignment explanation
Indices: 10565273--10565364 Score: 102
Period size: 35 Copynumber: 2.6 Consensus size: 36
10565263 AAATATTTTT
*
10565273 TAAAATTCAAAAAT-T-TGAAATATTTTAAAAAATTA
1 TAAAATTCAAAAATATAT-AAAAATTTTAAAAAATTA
* *
10565308 TAAATTTCAAAAATATATAAAAATTTT-AAAAATTC
1 TAAAATTCAAAAATATATAAAAATTTTAAAAAATTA
*
10565343 TAAAAATTCTAAAATATA-AAAA
1 T-AAAATTCAAAAATATATAAAA
10565365 TTTATATAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
35 25 0.51
36 23 0.47
37 1 0.02
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.35
Consensus pattern (36 bp):
TAAAATTCAAAAATATATAAAAATTTTAAAAAATTA
Found at i:10565346 original size:18 final size:17
Alignment explanation
Indices: 10565281--10565367 Score: 77
Period size: 18 Copynumber: 4.9 Consensus size: 17
10565271 TTTAAAATTC
*
10565281 AAAAATTTGAAATATTTT
1 AAAAATTT-AAAAATTTT
* * *
10565299 AAAAAATTATAAATTTC
1 AAAAATTTAAAAATTTT
10565316 AAAAATATATAAAAATTTT
1 AAAAAT-T-TAAAAATTTT
*
10565335 AAAAATTCTAAAAATTCT
1 AAAAATT-TAAAAATTTT
*
10565353 -AAAATATAAAAATTT
1 AAAAATTTAAAAATTT
10565368 ATATAACAAT
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
16 8 0.14
17 16 0.29
18 18 0.32
19 14 0.25
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (17 bp):
AAAAATTTAAAAATTTT
Found at i:10565512 original size:28 final size:27
Alignment explanation
Indices: 10565425--10565517 Score: 66
Period size: 29 Copynumber: 3.3 Consensus size: 27
10565415 AAATAACTAG
*
10565425 AAATTATAAA-ATTAAAAAATTAA-AAA
1 AAATTA-AAACATCAAAAAATTAAGAAA
*
10565451 AAATTTTTGAAACATCAAAAAATTAAGAAA
1 AAA---TTAAAACATCAAAAAATTAAGAAA
* * *
10565481 AAA-TAAAACATTCTAAAAAATTTATAAG
1 AAATTAAAACA-TC-AAAAAATTAAGAAA
10565509 AAATTAAAA
1 AAATTAAAA
10565518 ATTTTATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
26 9 0.17
27 2 0.04
28 17 0.32
29 19 0.36
30 6 0.11
ACGTcount: A:0.66, C:0.04, G:0.03, T:0.27
Consensus pattern (27 bp):
AAATTAAAACATCAAAAAATTAAGAAA
Found at i:10565516 original size:19 final size:19
Alignment explanation
Indices: 10565494--10565550 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
10565484 TAAAACATTC
*
10565494 TAAAAAATTTATAAGAAAT
1 TAAAAAATTTATAAAAAAT
*
10565513 TAAAAATTTTATAAAAAAT
1 TAAAAAATTTATAAAAAAT
* * *
10565532 AAAAAAAATTATTAAAAAT
1 TAAAAAATTTATAAAAAAT
10565551 CCAAGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TAAAAAATTTATAAAAAAT
Found at i:10567114 original size:20 final size:20
Alignment explanation
Indices: 10567077--10567137 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
10567067 TTTGCAAGTC
*
10567077 TAATTAAATTTTTA-TATTT
1 TAATTAAAATTTTATTATTT
*
10567096 TAA-TATATATTTTATTATTT
1 TAATTA-AAATTTTATTATTT
*
10567116 TACTTAAAATTTTATTATTT
1 TAATTAAAATTTTATTATTT
10567136 TA
1 TA
10567138 TTTATATACA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 2 0.06
19 9 0.26
20 22 0.63
21 2 0.06
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (20 bp):
TAATTAAAATTTTATTATTT
Found at i:10570721 original size:21 final size:19
Alignment explanation
Indices: 10570697--10570735 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
10570687 CATATTGAAT
10570697 TTAAAATATAAATTTGTTAAA
1 TTAAAATA-AAATTT-TTAAA
*
10570718 TTAAAGTAAAATTTTTAA
1 TTAAAATAAAATTTTTAA
10570736 TGTTATTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 6 0.35
21 7 0.41
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
TTAAAATAAAATTTTTAAA
Found at i:10571789 original size:18 final size:19
Alignment explanation
Indices: 10571763--10571819 Score: 80
Period size: 19 Copynumber: 3.1 Consensus size: 19
10571753 TATTAAATAT
* *
10571763 AGAAAAAAAAAAAAGGAAG
1 AGAAAAAAAAAAAAGAAAA
10571782 AGAAAAAAAAAAAAGAAAA
1 AGAAAAAAAAAAAAGAAAA
*
10571801 AG-AAAAAAGAAAAGAAAA
1 AGAAAAAAAAAAAAGAAAA
10571819 A
1 A
10571820 AAGTTGAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 16 0.46
19 19 0.54
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
AGAAAAAAAAAAAAGAAAA
Found at i:10571798 original size:13 final size:13
Alignment explanation
Indices: 10571768--10571822 Score: 65
Period size: 13 Copynumber: 4.0 Consensus size: 13
10571758 AATATAGAAA
10571768 AAAAAAAAAGGAAGAG
1 AAAAAAAAA--AA-AG
10571784 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
10571797 AAAAAGAAAAAAG
1 AAAAAAAAAAAAG
*
10571810 AAAAGAAAAAAAG
1 AAAAAAAAAAAAG
10571823 TTGAGTTGGC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
13 25 0.69
14 2 0.06
16 9 0.25
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:10572179 original size:17 final size:16
Alignment explanation
Indices: 10572149--10572187 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
10572139 TGAATCATTC
10572149 AAAAAAATTAAAAT-T
1 AAAAAAATTAAAATAT
10572164 AAAAAAATTATTAAATAT
1 AAAAAAATTA--AAATAT
10572182 AAAAAA
1 AAAAAA
10572188 TAAAAAAAGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
17 4 0.19
18 7 0.33
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAAAAATTAAAATAT
Found at i:10575759 original size:20 final size:21
Alignment explanation
Indices: 10575722--10575771 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
10575712 TAAACAAACA
*
10575722 AACCTTAAACGAACATAAATG
1 AACCTTAAACAAACATAAATG
* **
10575743 AACC-TAAACAAATATAAACA
1 AACCTTAAACAAACATAAATG
10575763 AACCTTAAA
1 AACCTTAAA
10575772 ATAGGATTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.58, C:0.20, G:0.04, T:0.18
Consensus pattern (21 bp):
AACCTTAAACAAACATAAATG
Found at i:10578206 original size:21 final size:21
Alignment explanation
Indices: 10578160--10578199 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
10578150 GTTAATTTTT
10578160 AAAATAAACTTTAAAAATAAA
1 AAAATAAACTTTAAAAATAAA
*
10578181 AAAATAAAC-TTAATAATAA
1 AAAATAAACTTTAAAAATAA
10578200 TACAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAATAAACTTTAAAAATAAA
Found at i:10590471 original size:50 final size:51
Alignment explanation
Indices: 10590412--10590698 Score: 268
Period size: 50 Copynumber: 5.6 Consensus size: 51
10590402 TGACATTTCG
* *
10590412 TTTCTAAGATAGAA-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTCA
1 TTTCTAAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTCT
* * *
10590462 TTTCTAAGATAAAATTTTTAAAATTGTTGAGCTTCTGTTGAGA-GAAGC-CT
1 TTTCTAAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAA-CTCT
* * * *
10590512 TTTTTAAGATAAAATTTTTACAGTTGTTGAGCCTCTGCTAAGAGAAACT-T
1 TTTCTAAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTCT
* *
10590562 TTTTTGAAGATAAAAATTTCTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAAC-CTT
1 TTTCT-AAGAT-AAAA-TT-TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTC-T
* ** * *
10590617 TTTCAAAGATAAAATTTCTTTTAAA-TTGTTGAGCCTCTATTGAGATG-A-GCT
1 TTTCTAAGATAAAA--T-TTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTCT
* *
10590668 TTT-TAAGATAGAATTTTTAAAATTGTTGAGC
1 TTTCTAAGATAAAATTTTTAAAGTTGTTGAGC
10590699 TTCGAGTAAG
Statistics
Matches: 201, Mismatches: 22, Indels: 30
0.79 0.09 0.12
Matches are distributed among these distances:
47 7 0.03
48 10 0.05
50 69 0.34
51 37 0.18
52 6 0.03
53 24 0.12
54 43 0.21
55 5 0.02
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (51 bp):
TTTCTAAGATAAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTCT
Found at i:10590548 original size:101 final size:98
Alignment explanation
Indices: 10590412--10590701 Score: 305
Period size: 101 Copynumber: 2.8 Consensus size: 98
10590402 TGACATTTCG
* *
10590412 TTTCTAAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAACTCATTTCTAAGATAAAAT
1 TTTCTAAGATAAAATTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAACT--TTT-TAAGATAAAAT
* *
10590477 TTTTAAAATTGTTGAGCTTCTGTTGAGA-GAAGCCTT
63 TTTTAAAATTGTTGAGCTTCTGCTAAGAGGAA-CCTT
* *
10590513 TTT-TAAGATAAAATTTTTACAGTTGTTGAGCCTCTGCTAAGAGAAACTTTTTTTGAAGATAAAA
1 TTTCTAAGATAAAATTTTTA-AGTTGTTGAGCCTCTGCTGAGAGGAAC--TTTTT-AAGAT-AAA
* *
10590577 ATTTCTTTAAAGTTGTTGAGCCTCTGCTAAGAGGAACCTT
61 A-TT-TTTAAAATTGTTGAGCTTCTGCTAAGAGGAACCTT
* * ** * * *
10590617 TTTCAAAGATAAAATTTCTTTTAAATTGTTGAGCCTCTATTGAGATGAGCTTTTTAAGATAGAAT
1 TTTCTAAGATAAAA--T-TTTTAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTAAGATAAAAT
10590682 TTTTAAAATTGTTGAGCTTC
63 TTTTAAAATTGTTGAGCTTC
10590702 GAGTAAGAAA
Statistics
Matches: 158, Mismatches: 19, Indels: 24
0.79 0.09 0.12
Matches are distributed among these distances:
100 15 0.09
101 53 0.34
102 6 0.04
103 6 0.04
104 35 0.22
105 17 0.11
107 21 0.13
108 5 0.03
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (98 bp):
TTTCTAAGATAAAATTTTTAAGTTGTTGAGCCTCTGCTGAGAGGAACTTTTTAAGATAAAATTTT
TAAAATTGTTGAGCTTCTGCTAAGAGGAACCTT
Found at i:10591089 original size:24 final size:27
Alignment explanation
Indices: 10591062--10591121 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 27
10591052 TTTAAAATAC
*
10591062 AAAAATAAAAGA-AAA-ATAAAAATG-
1 AAAAATAAAAGACAAACAGAAAAATGA
10591086 -AAAA-AAAAGACAAACAGAAAAATGA
1 AAAAATAAAAGACAAACAGAAAAATGA
10591111 AAAAATAAAAG
1 AAAAATAAAAG
10591122 CTAAGAAACG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 6 0.20
23 7 0.23
24 8 0.27
26 4 0.13
27 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.08
Consensus pattern (27 bp):
AAAAATAAAAGACAAACAGAAAAATGA
Found at i:10592129 original size:8 final size:9
Alignment explanation
Indices: 10592103--10592128 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
10592093 AGGTAAAAAA
10592103 AATTTTTTT
1 AATTTTTTT
10592112 AATTTTTTT
1 AATTTTTTT
10592121 AATTTTTT
1 AATTTTTT
10592129 ATATATTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
AATTTTTTT
Found at i:10592139 original size:23 final size:24
Alignment explanation
Indices: 10592113--10592160 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
10592103 AATTTTTTTA
* * *
10592113 ATTTTTTTAAT-TTTTTATATATT
1 ATTTTATTAATATTTATACATATT
10592136 ATTTTATTAATATTTATACATATT
1 ATTTTATTAATATTTATACATATT
10592160 A
1 A
10592161 AAATATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
ATTTTATTAATATTTATACATATT
Found at i:10592263 original size:16 final size:16
Alignment explanation
Indices: 10592231--10592282 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10592221 TTAATTTTTA
10592231 AAATAAACTTTAA-AAT
1 AAATAAAC-TTAATAAT
10592247 AAATAAACTTAATAAT
1 AAATAAACTTAATAAT
* *
10592263 AATACAAAATTAATAA-
1 AA-ATAAACTTAATAAT
10592279 AAAT
1 AAAT
10592283 TGTAAGAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 5 0.16
16 15 0.48
17 11 0.35
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATAAACTTAATAAT
Found at i:10601077 original size:24 final size:23
Alignment explanation
Indices: 10601032--10601082 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
10601022 CTTTTTACAT
*
10601032 TATAATTTTATTATCATAATATA
1 TATAATTTTATTATAATAATATA
10601055 TATAATTTTTATT-TAAT-ATATA
1 TATAA-TTTTATTATAATAATATA
10601077 TA-AATT
1 TATAATT
10601083 ATCTTTTACC
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 2 0.08
21 2 0.08
22 7 0.27
23 8 0.31
24 7 0.27
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (23 bp):
TATAATTTTATTATAATAATATA
Found at i:10602577 original size:140 final size:141
Alignment explanation
Indices: 10602309--10602570 Score: 339
Period size: 141 Copynumber: 1.9 Consensus size: 141
10602299 CTTCGAAAAA
* * * * * * *
10602309 GTCAAATTATAAAAATACCTTTTAAGGGTATTTTAGTATTTTTACATCTTTTGATGTGTGATCAA
1 GTCAAATTAAAAAAATACCTTTTAAGGGCATTTTAGTAATTTCACATCTTTCGATGTATGATAAA
* * * *
10602374 AGTTTTTAATACATCAAAAATCATAGAATAATATAAAAATATGATTTGGAGCATTTCACGAAATT
66 AGTTTTTAATACA-CAAAAATCATAAAATAATATAAAAACATGATATAGAGCATTTCACGAAATT
10602439 GACCTCAAGAAG
130 GACCTCAAGAAG
* * *
10602451 GTCAAATTAAAAAAATA-TTTTTAAGGGCATTTTAGTAATTTCATATCTTTCGATTTATGATAAA
1 GTCAAATTAAAAAAATACCTTTTAAGGGCATTTTAGTAATTTCACATCTTTCGATGTATGATAAA
* * *
10602515 AGTTTTTAGTGGCA-AAAAATCATAAAATAATATAAAACCATGATATAGAGCATTTC
66 AGTTTTTAAT-ACACAAAAATCATAAAATAATATAAAAACATGATATAGAGCATTTC
10602571 GTGAAATAAA
Statistics
Matches: 102, Mismatches: 17, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
140 37 0.36
141 47 0.46
142 18 0.18
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.37
Consensus pattern (141 bp):
GTCAAATTAAAAAAATACCTTTTAAGGGCATTTTAGTAATTTCACATCTTTCGATGTATGATAAA
AGTTTTTAATACACAAAAATCATAAAATAATATAAAAACATGATATAGAGCATTTCACGAAATTG
ACCTCAAGAAG
Found at i:10602701 original size:123 final size:123
Alignment explanation
Indices: 10602482--10602730 Score: 435
Period size: 123 Copynumber: 2.0 Consensus size: 123
10602472 TAAGGGCATT
* *
10602482 TTAGTAATTTCATATCTTTCGATTTATGATAAAAGTTTTTAGTGGCAAAAAATCATAAAATAATA
1 TTAGTAATTCCATATCTTTCAATTTATGATAAAAGTTTTTAGTGGCAAAAAATCATAAAATAATA
*
10602547 TAAAACCATGATATAGAGCATTTCGTGAAATAAAGCTCGGGATGGTTAATTTACTAAA
66 TAAAACCATGATATAGAGCATTTCGTGAAATAAAGCTCGAGATGGTTAATTTACTAAA
* *
10602605 TTAGTAATTCCATATCTTTCAATTTGTGATAAAAGTTTTTAGTGGCCAAAAATCATAAAATAATA
1 TTAGTAATTCCATATCTTTCAATTTATGATAAAAGTTTTTAGTGGCAAAAAATCATAAAATAATA
* *
10602670 TAAAACCATGATGTGGAGCATTTCGTGAAATAAAGCTCGAGATGGTTAATTTACTAAA
66 TAAAACCATGATATAGAGCATTTCGTGAAATAAAGCTCGAGATGGTTAATTTACTAAA
10602728 TTA
1 TTA
10602731 CCCCTAAGGG
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
123 119 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (123 bp):
TTAGTAATTCCATATCTTTCAATTTATGATAAAAGTTTTTAGTGGCAAAAAATCATAAAATAATA
TAAAACCATGATATAGAGCATTTCGTGAAATAAAGCTCGAGATGGTTAATTTACTAAA
Found at i:10611094 original size:31 final size:31
Alignment explanation
Indices: 10611036--10611095 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
10611026 TATATTAAAG
*
10611036 TTTTAAAATAATTTTATATTAATATTTAATA
1 TTTTAAAATAATTTTAAATTAATATTTAATA
* *
10611067 TTTTTAAATAATTTTAGAATTCA-ATTTAA
1 TTTTAAAATAATTTTA-AATTAATATTTAA
10611096 ATAAAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.84
32 4 0.16
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
TTTTAAAATAATTTTAAATTAATATTTAATA
Found at i:10611749 original size:74 final size:74
Alignment explanation
Indices: 10611662--10611799 Score: 160
Period size: 73 Copynumber: 1.9 Consensus size: 74
10611652 AAAGATATCC
10611662 AGAAAAATATTTTGGAAGTGT-AAAGAAAAAATT-TGCCTCTAAATTTT-ATTGTT-TTTCAAAT
1 AGAAAAATATTTT-G-AGTGTCAAAGAAAAAATTCT-CCTCTAAATTTTCATTGTTCTTT-AAAT
10611723 TTTAGCAGTGTCT
62 TTTAGCAGTGTCT
* * * *
10611736 AGAACAAA-ATTTTGAGTGTCCAAGAAAACATTCTCCTTTAAATTTTCCTTGTTCTTTAAATTTT
1 AGAA-AAATATTTTGAGTGTCAAAGAAAAAATTCTCCTCTAAATTTTCATTGTTCTTTAAATTTT
10611800 GGAAGTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
72 5 0.09
73 22 0.40
74 22 0.40
75 6 0.11
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (74 bp):
AGAAAAATATTTTGAGTGTCAAAGAAAAAATTCTCCTCTAAATTTTCATTGTTCTTTAAATTTTA
GCAGTGTCT
Found at i:10611761 original size:22 final size:23
Alignment explanation
Indices: 10611719--10611761 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10611709 ATTGTTTTTC
*
10611719 AAATTTTAGCAGTGTCTAGAACA
1 AAATTTTAGCAGTGTCAAGAACA
10611742 AAATTTT-G-AGTGTCCAAGAA
1 AAATTTTAGCAGTGT-CAAGAA
10611762 AACATTCTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.30
Consensus pattern (23 bp):
AAATTTTAGCAGTGTCAAGAACA
Found at i:10614297 original size:14 final size:14
Alignment explanation
Indices: 10614266--10614304 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
10614256 TTTTCATAAA
*
10614266 AAGATTTAAGGGTTT
1 AAGATTT-AGGATTT
*
10614281 AAGGTTTAGGATTT
1 AAGATTTAGGATTT
10614295 AAGATTTAGG
1 AAGATTTAGG
10614305 TTTCACTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.28, T:0.38
Consensus pattern (14 bp):
AAGATTTAGGATTT
Found at i:10615883 original size:16 final size:16
Alignment explanation
Indices: 10615862--10615895 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
10615852 AATAACCAAC
10615862 AAAGCCATCAATACAT
1 AAAGCCATCAATACAT
10615878 AAAGCCATCAATACAT
1 AAAGCCATCAATACAT
10615894 AA
1 AA
10615896 TAATTGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.24, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAGCCATCAATACAT
Found at i:10616435 original size:32 final size:32
Alignment explanation
Indices: 10616373--10616437 Score: 87
Period size: 32 Copynumber: 2.0 Consensus size: 32
10616363 ATATATAAAC
* * *
10616373 AAAAATAACAAAAGTAATCTTTAAACAAATAA
1 AAAAATAAAAAAAATAATCCTTAAACAAATAA
10616405 AAAAATAAAAAATAATAATCCTTAAA-AAATAA
1 AAAAATAAAAAA-AATAATCCTTAAACAAATAA
10616437 A
1 A
10616438 TGATAGTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 18 0.62
33 11 0.38
ACGTcount: A:0.69, C:0.08, G:0.02, T:0.22
Consensus pattern (32 bp):
AAAAATAAAAAAAATAATCCTTAAACAAATAA
Found at i:10618605 original size:33 final size:30
Alignment explanation
Indices: 10618568--10618657 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 30
10618558 GCAAGTGATC
*
10618568 AAATTATATCCAAACAATAAAAAATAAATAATT
1 AAATTATAT-CAAA-AATAAAAAATAAA-AATA
* *
10618601 AAATTATAT-TAAAATAATAAATAAAAATA
1 AAATTATATCAAAAATAAAAAATAAAAATA
10618630 AAATTATATTCAAATAATGAAAAAATAA
1 AAATTATA-TCAAA-AAT-AAAAAATAA
10618658 TAAAGTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.23
30 13 0.27
31 4 0.08
32 3 0.06
33 17 0.35
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (30 bp):
AAATTATATCAAAAATAAAAAATAAAAATA
Found at i:10618622 original size:26 final size:27
Alignment explanation
Indices: 10618585--10618657 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
10618575 ATCCAAACAA
*
10618585 TAAAA-AATAAAT-AATTAAATTATAT
1 TAAAATAATAAATAAATAAAATTATAT
10618610 TAAAATAATAAATAAAAATAAAATTATAT
1 TAAAATAATAAAT--AAATAAAATTATAT
*
10618639 TCAAATAATGAAA-AAATAA
1 TAAAATAAT-AAATAAATAA
10618658 TAAAGTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 6 0.15
29 20 0.49
30 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (27 bp):
TAAAATAATAAATAAATAAAATTATAT
Found at i:10619443 original size:21 final size:21
Alignment explanation
Indices: 10619419--10619458 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
10619409 AACTTGCTGA
10619419 AGGAAACCAGCAGTCTGTTGC
1 AGGAAACCAGCAGTCTGTTGC
*
10619440 AGGAAACCAGTAGTCTGTT
1 AGGAAACCAGCAGTCTGTT
10619459 ACTGTTCTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.23
Consensus pattern (21 bp):
AGGAAACCAGCAGTCTGTTGC
Found at i:10621507 original size:15 final size:15
Alignment explanation
Indices: 10621487--10621535 Score: 55
Period size: 15 Copynumber: 3.2 Consensus size: 15
10621477 GGAACTGGAC
10621487 TTTATTTTTTTTTAT
1 TTTATTTTTTTTTAT
*
10621502 TTTATTTTTTGCTT-T
1 TTTATTTTTT-TTTAT
*
10621517 TTTATTTATTTTTACT
1 TTTATTTTTTTTTA-T
10621533 TTT
1 TTT
10621536 TTTAATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 2 0.07
15 20 0.71
16 6 0.21
ACGTcount: A:0.12, C:0.04, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTATTTTTTTTTAT
Found at i:10621524 original size:24 final size:25
Alignment explanation
Indices: 10621491--10621537 Score: 71
Period size: 23 Copynumber: 1.9 Consensus size: 25
10621481 CTGGACTTTA
10621491 TTTTTTTTTA-TTTTA-TTTTTTGC
1 TTTTTTTTTATTTTTACTTTTTTGC
10621514 TTTTTTATTTATTTTTACTTTTTT
1 TTTTTT-TTTATTTTTACTTTTTT
10621538 TAATTTAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 6 0.29
24 4 0.19
25 5 0.24
26 6 0.29
ACGTcount: A:0.11, C:0.04, G:0.02, T:0.83
Consensus pattern (25 bp):
TTTTTTTTTATTTTTACTTTTTTGC
Found at i:10621536 original size:19 final size:20
Alignment explanation
Indices: 10621493--10621559 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 20
10621483 GGACTTTATT
*
10621493 TTTTTTTATTTTATTTTTTGC
1 TTTTTTTA-TTTATTTTTTAC
10621514 -TTTTTTATTTA-TTTTTAC
1 TTTTTTTATTTATTTTTTAC
*
10621532 TTTTTTTAATTTAATTTGTTTAA
1 TTTTTTT-ATTT-ATTT-TTTAC
10621555 TTTTT
1 TTTTT
10621560 GTGTTTTAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 6 0.15
19 10 0.26
20 11 0.28
21 1 0.03
22 2 0.05
23 9 0.23
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.78
Consensus pattern (20 bp):
TTTTTTTATTTATTTTTTAC
Found at i:10621537 original size:20 final size:19
Alignment explanation
Indices: 10621487--10621544 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
10621477 GGAACTGGAC
10621487 TTTATTTTTTTTTATTTTATT
1 TTTA-TTTTTTTTA-TTTATT
*
10621508 TTT-TGCTTTTTTATTTATT
1 TTTAT-TTTTTTTATTTATT
*
10621527 TTTACTTTTTTTAATTTA
1 TTTA-TTTTTTTTATTTA
10621545 ATTTGTTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
19 10 0.32
20 17 0.55
21 4 0.13
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTATTTTTTTTATTTATT
Found at i:10622806 original size:20 final size:20
Alignment explanation
Indices: 10622770--10622811 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
10622760 CAACAAACAC
*
10622770 AAAAAAAAATTTCAGAA-GA
1 AAAAAAAAATCTCAGAATGA
10622789 AAAAAAAAATCTCAAGAATGA
1 AAAAAAAAATCTC-AGAATGA
10622810 AA
1 AA
10622812 TTTTCAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 4 0.20
21 4 0.20
ACGTcount: A:0.69, C:0.07, G:0.10, T:0.14
Consensus pattern (20 bp):
AAAAAAAAATCTCAGAATGA
Found at i:10622923 original size:11 final size:11
Alignment explanation
Indices: 10622897--10622925 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
10622887 GATTTAGGAA
10622897 TTTTTTAGAAT
1 TTTTTTAGAAT
10622908 TTTTTTA-AAT
1 TTTTTTAGAAT
10622918 TTTTTTAG
1 TTTTTTAG
10622926 GTCACTAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.59
11 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (11 bp):
TTTTTTAGAAT
Found at i:10623308 original size:26 final size:25
Alignment explanation
Indices: 10623272--10623377 Score: 85
Period size: 26 Copynumber: 4.2 Consensus size: 25
10623262 TTCTTTTTCC
10623272 TTTTATTT-TTTGTTT-TTGTTTTTA
1 TTTTATTTATTT-TTTATTGTTTTTA
* *
10623296 TTTTATTTATTTTATGTTGATTTTTA
1 TTTTATTTATTTTTTATTG-TTTTTA
*
10623322 TGTTATTTATTTTTTATT-TTTTTA
1 TTTTATTTATTTTTTATTGTTTTTA
** * *
10623346 TGATA-TTATTGTTATTATTATTGTTA
1 TTTTATTTATT-TT-TTATTGTTTTTA
10623372 TTTTAT
1 TTTTAT
10623378 ATAATTACTA
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
23 5 0.07
24 22 0.33
25 11 0.16
26 29 0.43
ACGTcount: A:0.18, C:0.00, G:0.08, T:0.75
Consensus pattern (25 bp):
TTTTATTTATTTTTTATTGTTTTTA
Found at i:10623327 original size:17 final size:15
Alignment explanation
Indices: 10623273--10623335 Score: 57
Period size: 15 Copynumber: 4.6 Consensus size: 15
10623263 TCTTTTTCCT
10623273 TTTATTTTT-TGTT-
1 TTTATTTTTATGTTA
* *
10623286 TTTGTTTTTATTTTA
1 TTTATTTTTATGTTA
10623301 TTTA-TTTTATG---
1 TTTATTTTTATGTTA
*
10623312 TTGATTTTTATGTTA
1 TTTATTTTTATGTTA
10623327 TTTATTTTT
1 TTTATTTTT
10623336 TATTTTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
11 3 0.08
12 7 0.18
13 8 0.21
14 9 0.24
15 11 0.29
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (15 bp):
TTTATTTTTATGTTA
Found at i:10623338 original size:11 final size:10
Alignment explanation
Indices: 10623272--10623344 Score: 51
Period size: 11 Copynumber: 7.2 Consensus size: 10
10623262 TTCTTTTTCC
10623272 TTTTATTTTT
1 TTTTATTTTT
* *
10623282 TGTT-TTTGT
1 TTTTATTTTT
10623291 TTTTA-TTTT
1 TTTTATTTTT
*
10623300 ATTTATTTTAT
1 TTTTATTTT-T
* *
10623311 GTTGATTTTT
1 TTTTATTTTT
*
10623321 ATGTTATTTATT
1 -TTTTATTT-TT
10623333 TTTTATTTTT
1 TTTTATTTTT
10623343 TT
1 TT
10623345 ATGATATTAT
Statistics
Matches: 47, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
9 14 0.30
10 11 0.23
11 20 0.43
12 2 0.04
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:10623340 original size:22 final size:23
Alignment explanation
Indices: 10623274--10623352 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 23
10623264 CTTTTTCCTT
* * *
10623274 TTATTTTTTGTTTTTGTTTTTATT
1 TTATTTATT-TTTTTATTTTTATG
10623298 TTATTTATTTTATGTTGATTTTTATG
1 TTATTTATTTT-T-TT-ATTTTTATG
*
10623324 TTATTTATTTTTTATTTTTTTATG
1 TTATTTATTTTTT-TATTTTTATG
*
10623348 ATATT
1 TTATT
10623353 ATTGTTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.04
24 22 0.48
25 4 0.09
26 18 0.39
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (23 bp):
TTATTTATTTTTTTATTTTTATG
Found at i:10623366 original size:12 final size:12
Alignment explanation
Indices: 10623349--10623377 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10623339 TTTTTTATGA
10623349 TATTATTGTTAT
1 TATTATTGTTAT
10623361 TATTATTGTTAT
1 TATTATTGTTAT
10623373 T-TTAT
1 TATTAT
10623378 ATAATTACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 4 0.24
12 13 0.76
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (12 bp):
TATTATTGTTAT
Found at i:10623427 original size:12 final size:12
Alignment explanation
Indices: 10623404--10623437 Score: 50
Period size: 13 Copynumber: 2.7 Consensus size: 12
10623394 ATTCTTTCAT
10623404 AAATAAATAAATA
1 AAATAAA-AAATA
10623417 AAATAAAAAATA
1 AAATAAAAAATA
10623429 AAACTAAAA
1 AAA-TAAAA
10623438 TAAAATATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:10623455 original size:18 final size:18
Alignment explanation
Indices: 10623402--10623442 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
10623392 TAATTCTTTC
10623402 ATAAATAAAT-AAA-TAAA
1 ATAAA-AAATAAAACTAAA
10623419 ATAAAAAATAAAACTAAA
1 ATAAAAAATAAAACTAAA
10623437 ATAAAA
1 ATAAAA
10623443 TATGAACCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.18
17 8 0.36
18 10 0.45
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAACTAAA
Found at i:10623642 original size:23 final size:25
Alignment explanation
Indices: 10623594--10623645 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 25
10623584 TTTTGCTAAA
*
10623594 AAATAAAATTTAAAAAGATAAAAAT
1 AAATAAAATTAAAAAAGATAAAAAT
*
10623619 AAATAAAA-TAAAAAAGA-AATAAT
1 AAATAAAATTAAAAAAGATAAAAAT
10623642 AAAT
1 AAAT
10623646 TGTTTAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 9 0.36
24 8 0.32
25 8 0.32
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (25 bp):
AAATAAAATTAAAAAAGATAAAAAT
Found at i:10623985 original size:14 final size:17
Alignment explanation
Indices: 10623965--10624004 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 17
10623955 AAATTTTTTT
10623965 TAAATAATAA-AAAT-G
1 TAAATAATAATAAATAG
10623980 -AAATAATAATAAATAG
1 TAAATAATAATAAATAG
10623996 TAAATAATA
1 TAAATAATA
10624005 GCAAAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 1 0.05
17 8 0.36
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (17 bp):
TAAATAATAATAAATAG
Found at i:10625077 original size:24 final size:24
Alignment explanation
Indices: 10625050--10625104 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
10625040 TCCACCCAAG
*
10625050 ATTTTTTTTGTTT-TTTTTGTTTTC
1 ATTTTTTTTGTTTATTTTT-TGTTC
10625074 ATTTTTTTTGTTTATTTTTTGTTC
1 ATTTTTTTTGTTTATTTTTTGTTC
10625098 ATTTTTT
1 ATTTTTT
10625105 AAAAAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.07, C:0.04, G:0.07, T:0.82
Consensus pattern (24 bp):
ATTTTTTTTGTTTATTTTTTGTTC
Found at i:10625205 original size:20 final size:19
Alignment explanation
Indices: 10625177--10625218 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
10625167 GGTGTTCACA
10625177 TTTCATTTCCATTTATTT-TT
1 TTTCATTT-CATTT-TTTATT
*
10625197 TTTCCTTTCATTTTTTATT
1 TTTCATTTCATTTTTTATT
10625216 TTT
1 TTT
10625219 AATTAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 3 0.15
19 10 0.50
20 7 0.35
ACGTcount: A:0.12, C:0.14, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTCATTTCATTTTTTATT
Found at i:10628552 original size:37 final size:37
Alignment explanation
Indices: 10628511--10628589 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
10628501 CCCAATACAA
* * * * *
10628511 ATTTTATGTGTAATAATATTAAGTAAATATATTTTAG
1 ATTTTATATATAATAATATTAAATAAAAATATTTTAC
10628548 ATTTTATATATAATAATATTAAATAAAAATATTTTAC
1 ATTTTATATATAATAATATTAAATAAAAATATTTTAC
10628585 ATTTT
1 ATTTT
10628590 TTTTTTCATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.49
Consensus pattern (37 bp):
ATTTTATATATAATAATATTAAATAAAAATATTTTAC
Found at i:10628776 original size:72 final size:71
Alignment explanation
Indices: 10628645--10628778 Score: 178
Period size: 72 Copynumber: 1.9 Consensus size: 71
10628635 AATCATCTTT
* * * *
10628645 TCAACAAAATTACGTTTTTATTTTAGAAATGTCACATTTATTGAATTCTAAAAAATATATTTTTT
1 TCAACAAAATTACATTTTTATCTTAGAAATATCACATTTATTAAATTCTAAAAAATATATTTTTT
10628710 ATATTG
66 ATATTG
** * * *
10628716 TCAACAAAATCTACATTTTTATCTTAGAAATATCATTTTTATTAAATTTTTAAAATTATATTT
1 TCAACAAAAT-TACATTTTTATCTTAGAAATATCACATTTATTAAATTCTAAAAAATATATTT
10628779 ATTTTGTATT
Statistics
Matches: 53, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
71 10 0.19
72 43 0.81
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (71 bp):
TCAACAAAATTACATTTTTATCTTAGAAATATCACATTTATTAAATTCTAAAAAATATATTTTTT
ATATTG
Found at i:10629825 original size:29 final size:29
Alignment explanation
Indices: 10629792--10629847 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
10629782 TTTTAAGCAA
10629792 TCACATTTAAAGAAGAAACACCATTGCAT
1 TCACATTTAAAGAAGAAACACCATTGCAT
*
10629821 TCACATTTAAAGAAGCAACACCATTGC
1 TCACATTTAAAGAAGAAACACCATTGC
10629848 TTCTTGTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (29 bp):
TCACATTTAAAGAAGAAACACCATTGCAT
Found at i:10635428 original size:3 final size:3
Alignment explanation
Indices: 10635420--10635587 Score: 59
Period size: 3 Copynumber: 62.0 Consensus size: 3
10635410 TGTTGTATCA
* * *
10635420 TAT TAT TA- TAT TA- TAT TAT TAT TAC TAT T-G TAT AAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * *
10635464 AAT ACAT TA- TAT TAT TAC TA- TAG TA- TAT TA- CAT TAC TAC TAT
1 TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
10635506 TAT TAT TA- TAT CA- TAT CA- TAT TA- TAT TA- TAT TA- TAC TA- TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
10635547 TA- TAT TA- TAC TA- TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10635588 CATTTATTTT
Statistics
Matches: 127, Mismatches: 18, Indels: 40
0.69 0.10 0.22
Matches are distributed among these distances:
2 34 0.27
3 91 0.72
4 2 0.02
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.54
Consensus pattern (3 bp):
TAT
Done.