Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 63 of 208
Found at i:23537055 original size:54 final size:54
Alignment explanation
Indices: 23536997--23537175 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
23536987 ATTAAAATAT
*
23536997 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
23537051 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
23537114 TAT
53 -AC
*
23537117 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
23537171 ATAAT
1 ATAAT
23537176 ATATGATACT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:23537118 original size:18 final size:17
Alignment explanation
Indices: 23537097--23537131 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23537087 TTATTATTAA
23537097 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
23537115 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
23537132 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:23537246 original size:18 final size:17
Alignment explanation
Indices: 23537207--23537238 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
23537197 TTTTAAATAA
23537207 TTAATATTAAATATATT
1 TTAATATTAAATATATT
23537224 TTAAT-TTAAATATAT
1 TTAATATTAAATATAT
23537239 GATTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATTAAATATATT
Found at i:23537263 original size:120 final size:120
Alignment explanation
Indices: 23536960--23537252 Score: 482
Period size: 120 Copynumber: 2.4 Consensus size: 120
23536950 ATCATATTTA
23536960 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
23537025 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
* *
23537080 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
23537145 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATA-AAATTTT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAA--AT
* * *
23537201 AA-ATAATTAATATTAAATATATTTTAATTTAAATATATGATTTAATAAAATT
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
23537253 TAAAATAATT
Statistics
Matches: 161, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
119 3 0.02
120 155 0.96
121 3 0.02
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTATAAAATATAAAAT
Found at i:23539574 original size:8 final size:8
Alignment explanation
Indices: 23539557--23539588 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
23539547 TTCAATCACC
*
23539557 AAAACCAT
1 AAAACAAT
23539565 AAAACAAT
1 AAAACAAT
23539573 AAAACAAT
1 AAAACAAT
23539581 AAAACAAT
1 AAAACAAT
23539589 CTGTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.72, C:0.16, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAACAAT
Found at i:23540670 original size:44 final size:44
Alignment explanation
Indices: 23540622--23540709 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
23540612 TATTTTCAGG
* *
23540622 TAACAATTTATTTAAGCATATTAAATTACAGTCCAAAATATTGA
1 TAACAATATAGTTAAGCATATTAAATTACAGTCCAAAATATTGA
*
23540666 TAACAATATAGTTAAGCATATTAAATTATAGTCCAAAATATTGA
1 TAACAATATAGTTAAGCATATTAAATTACAGTCCAAAATATTGA
23540710 ATCATCCTCA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.35
Consensus pattern (44 bp):
TAACAATATAGTTAAGCATATTAAATTACAGTCCAAAATATTGA
Found at i:23541247 original size:24 final size:23
Alignment explanation
Indices: 23541202--23541264 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 23
23541192 TTTAAATTTC
23541202 ATTTTATAACATTTTATAA-TAT-T
1 ATTTTAT-A-ATTTTATAATTATAT
*
23541225 -TTTTTTAATTTTTATAATTATAT
1 ATTTTATAA-TTTTATAATTATAT
23541248 ATTTTATAATTTTATAA
1 ATTTTATAATTTTATAA
23541265 AAAGTCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 1 0.03
21 9 0.26
22 8 0.24
23 9 0.26
24 7 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.62
Consensus pattern (23 bp):
ATTTTATAATTTTATAATTATAT
Found at i:23541254 original size:15 final size:15
Alignment explanation
Indices: 23541234--23541263 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23541224 TTTTTTTAAT
23541234 TTTTATAATTATATA
1 TTTTATAATTATATA
*
23541249 TTTTATAATTTTATA
1 TTTTATAATTATATA
23541264 AAAAGTCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTATAATTATATA
Found at i:23541972 original size:16 final size:16
Alignment explanation
Indices: 23541937--23541974 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
23541927 TTTGGTTCAC
* *
23541937 TGTAATTGAATAGGGT
1 TGTAATTGAATAGAGA
23541953 TGTAATTGAATAGAGA
1 TGTAATTGAATAGAGA
23541969 TGTAAT
1 TGTAAT
23541975 CAATAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.26, T:0.37
Consensus pattern (16 bp):
TGTAATTGAATAGAGA
Found at i:23543414 original size:15 final size:16
Alignment explanation
Indices: 23543394--23543430 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
23543384 ACAAAATCAA
23543394 ATAAAA-TTACATAAT
1 ATAAAAGTTACATAAT
*
23543409 ATAAAAGTTACATTAT
1 ATAAAAGTTACATAAT
23543425 ATAAAA
1 ATAAAA
23543431 ATTAAATGAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
ATAAAAGTTACATAAT
Found at i:23543611 original size:60 final size:60
Alignment explanation
Indices: 23543547--23543668 Score: 167
Period size: 60 Copynumber: 2.0 Consensus size: 60
23543537 ATACTAAACT
* *** *
23543547 AAACACAACAATTTATAGTTTAATCCTAAATTACTAATAAATTAAAATT-T-AAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATT--AATTATAAAATAATTAC
23543607 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
23543667 AA
1 AA
23543669 TATTCATACA
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
58 4 0.07
59 1 0.02
60 50 0.91
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:23543690 original size:23 final size:23
Alignment explanation
Indices: 23543662--23543772 Score: 140
Period size: 23 Copynumber: 4.8 Consensus size: 23
23543652 TTATAAAATA
23543662 ATTACAATATTCATACAAACAAT
1 ATTACAATATTCATACAAACAAT
*
23543685 ATTACAATATCCATAC--A-AA-
1 ATTACAATATTCATACAAACAAT
23543704 ATTACAATATTCATACAAACAAT
1 ATTACAATATTCATACAAACAAT
*
23543727 ATTACAATATTCATACAAAATTACAAA
1 ATTACAATATTCATAC--AA--ACAAT
23543754 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
23543773 ATACTAATCC
Statistics
Matches: 77, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
19 15 0.19
20 2 0.03
21 2 0.03
22 2 0.03
23 32 0.42
25 4 0.05
27 20 0.26
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (23 bp):
ATTACAATATTCATACAAACAAT
Found at i:23543718 original size:42 final size:42
Alignment explanation
Indices: 23543661--23543752 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
23543651 ATTATAAAAT
23543661 AATTACAATATTCATACAAACAATATTACAATATCCATACAA
1 AATTACAATATTCATACAAACAATATTACAATATCCATACAA
*
23543703 AATTACAATATTCATACAAACAATATTACAATATTCATACAA
1 AATTACAATATTCATACAAACAATATTACAATATCCATACAA
23543745 AATTACAA
1 AATTACAA
23543753 AATTACAATA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.29
Consensus pattern (42 bp):
AATTACAATATTCATACAAACAATATTACAATATCCATACAA
Found at i:23543760 original size:27 final size:27
Alignment explanation
Indices: 23543698--23543774 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
23543688 ACAATATCCA
23543698 TACAAAATTACAATATTCATAC--AA-
1 TACAAAATTACAATATTCATACAAAAT
*
23543722 -ACAATATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
23543748 TACAAAATTACAATATTCATACAAAAT
1 TACAAAATTACAATATTCATACAAAAT
23543775 ACTAATCCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
23 20 0.43
25 2 0.04
27 25 0.53
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.30
Consensus pattern (27 bp):
TACAAAATTACAATATTCATACAAAAT
Found at i:23543843 original size:80 final size:80
Alignment explanation
Indices: 23543748--23543934 Score: 329
Period size: 80 Copynumber: 2.3 Consensus size: 80
23543738 CATACAAAAT
* *
23543748 TACAAAATTACAATATTCATACAAAATACTAATCCAAAACTATAAATACAAAATTAATTATAAAA
1 TACAAAATTAAAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
23543813 TAATTACAATATTCA
66 TAATTACAATATTCA
* *
23543828 TACAACATTATAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
1 TACAAAATTAAAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
23543893 TAATTACAATATTCA
66 TAATTACAATATTCA
*
23543908 TATAAAATTAAAATATTCATACAAAAT
1 TACAAAATTAAAATATTCATACAAAAT
23543935 TACAATATTC
Statistics
Matches: 101, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 101 1.00
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.31
Consensus pattern (80 bp):
TACAAAATTAAAATATTCATACAAAATACTAATCAAAAACTATAAATACAAAATTAATTATAAAA
TAATTACAATATTCA
Found at i:23543900 original size:23 final size:22
Alignment explanation
Indices: 23543869--23543915 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
23543859 ATCAAAAACT
23543869 ATAAATACAAAATTAATTATAAA
1 ATAAATACAAAATTAA-TATAAA
* * *
23543892 ATAATTACAATATTCATATAAA
1 ATAAATACAAAATTAATATAAA
23543914 AT
1 AT
23543916 TAAAATATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (22 bp):
ATAAATACAAAATTAATATAAA
Found at i:23543917 original size:99 final size:100
Alignment explanation
Indices: 23543685--23544155 Score: 585
Period size: 101 Copynumber: 4.6 Consensus size: 100
23543675 TACAAACAAT
* *
23543685 ATTACAATATCCATACAAAATTACAATATTCATACAAACAATATTACAATATTCATACAAAATTA
1 ATTACAATATTCATAAAAAATTACAATATTCATAC-AA-AA-ATTACAATATTCATACAAAA-TA
* * * ** *
23543750 CAAAAT-TACAA-TATTCATACAAAATACTAATCCA-AAACTATA
62 C-TAATCAAAAACTATAAATACAAAAT--TAAT-TATAAA--ATA
* * *
23543792 AATACAAAATTAATT-ATAAAATAATTACAATATTCATAC-AACATTATAATATTCATACAAAAT
1 ATTAC--AA-T-ATTCATAAAA-AATTACAATATTCATACAAAAATTACAATATTCATACAAAAT
23543855 ACTAATCAAAAACTATAAATACAAAATTAATTATAAAATA
61 ACTAATCAAAAACTATAAATACAAAATTAATTATAAAATA
* *
23543895 ATTACAATATTCATATAAAATTAAAATATTCATAC-AAAATTACAATATTCATACAAAATACTAA
1 ATTACAATATTCATAAAAAATTACAATATTCATACAAAAATTACAATATTCATACAAAATACTAA
23543959 TCAAAAACTATAAATACAAAATTAATTATAAAATA
66 TCAAAAACTATAAATACAAAATTAATTATAAAATA
*
23543994 ATTACAATATTCATAAAAAATTACAATATTCATACAAAAAATTACACTATTCATACAAAATACTA
1 ATTACAATATTCATAAAAAATTACAATATTCATAC-AAAAATTACAATATTCATACAAAATACTA
*
23544059 ATCCAAAACTATAAATACAAAATTAATTATAAAATA
65 ATCAAAAACTATAAATACAAAATTAATTATAAAATA
* * *
23544095 ATTACAATATTCATACAAAATTATAATATTCATACAAAAAGTTACAATATACATACAAAAT
1 ATTACAATATTCATAAAAAATTACAATATTCATACAAAAA-TTACAATATTCATACAAAAT
23544156 TACCCATTGA
Statistics
Matches: 328, Mismatches: 24, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
99 114 0.35
100 11 0.03
101 115 0.35
103 7 0.02
104 1 0.00
105 10 0.03
106 6 0.02
107 35 0.11
108 1 0.00
109 3 0.01
110 6 0.02
111 19 0.06
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.30
Consensus pattern (100 bp):
ATTACAATATTCATAAAAAATTACAATATTCATACAAAAATTACAATATTCATACAAAATACTAA
TCAAAAACTATAAATACAAAATTAATTATAAAATA
Found at i:23543974 original size:80 final size:84
Alignment explanation
Indices: 23543751--23544032 Score: 244
Period size: 80 Copynumber: 3.5 Consensus size: 84
23543741 ACAAAATTAC
* * *
23543751 AAAATTACAATATTCATACAAAA-TAC--TA---ATCCAAAACTATAAATACAAAATTAATTATA
1 AAAATTAAAATATTCATACAAAATTACAATATTCATACAAAA-TATAAATACAAAA-TAACTATA
*
23543810 AAATAATTACAATATTCATAC
64 AAATAATTACAATATTCATAA
* * * * *
23543831 AACATTATAATATTCATACAAAA-TAC--TAATCA-A-AAACTATAAATACAAAATTAATTATAA
1 AAAATTAAAATATTCATACAAAATTACAATATTCATACAAAATATAAATACAAAA-TAACTATAA
*
23543891 AATAATTACAATATTCATAT
65 AATAATTACAATATTCATAA
23543911 AAAATTAAAATATTCATACAAAATTACAATATTCATACAAAATACT-AAT-C-AAA-AACTAT-A
1 AAAATTAAAATATTCATACAAAATTACAATATTCATACAAAATA-TAAATACAAAATAACTATAA
23543971 AATACA--A-AATTAATT-ATAA
65 AATA-ATTACAA-T-ATTCATAA
* *
23543990 AATAATTACAATATTCATAAAAAATTACAATATTCATACAAAA
1 AA-AATTAAAATATTCATACAAAATTACAATATTCATACAAAA
23544033 AATTACACTA
Statistics
Matches: 176, Mismatches: 13, Indels: 26
0.82 0.06 0.12
Matches are distributed among these distances:
78 2 0.01
79 7 0.04
80 135 0.77
81 12 0.07
83 9 0.05
84 2 0.01
85 8 0.05
86 1 0.01
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.30
Consensus pattern (84 bp):
AAAATTAAAATATTCATACAAAATTACAATATTCATACAAAATATAAATACAAAATAACTATAAA
ATAATTACAATATTCATAA
Found at i:23544149 original size:21 final size:20
Alignment explanation
Indices: 23543661--23544158 Score: 182
Period size: 19 Copynumber: 24.3 Consensus size: 20
23543651 ATTATAAAAT
23543661 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC-AA-A
*
23543683 ATATTACAATATCCATAC-AA
1 A-ATTACAATATTCATACAAA
23543703 AATTACAATATTCATACAAACA
1 AATTACAATATTCATAC-AA-A
23543725 ATATTACAATATTCATACAAAATTACAA
1 A-ATTACAATATTCATAC------A-AA
23543753 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* * * *
23543772 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-AAA
* * *
23543792 AA-TACAAAATTAATTATAAAA
1 AATTACAATATTCA-TA-CAAA
23543813 TAATTACAATATTCATAC-AA
1 -AATTACAATATTCATACAAA
* *
23543833 CATTATAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* *
23543852 AA-TAC--TAATCA-AAAACTA
1 AATTACAATATTCATACAA--A
* * * *
23543870 TAAATACAAAATTAATTATAAAA
1 -AATTACAATATTCA-TA-CAAA
*
23543893 TAATTACAATATTCATA-TAA
1 -AATTACAATATTCATACAAA
*
23543913 AATTAAAATATTCATAC-AA
1 AATTACAATATTCATACAAA
23543932 AATTACAATATTCATAC-AA
1 AATTACAATATTCATACAAA
* *
23543951 AA-TAC--TAATCA-AAAACTA
1 AATTACAATATTCATACAA--A
* * * *
23543969 TAAATACAAAATTAATTATAAAA
1 -AATTACAATATTCA-TA-CAAA
23543992 TAATTACAATATTCATA-AAA
1 -AATTACAATATTCATACAAA
23544012 AATTACAATATTCATACAAAA
1 AATTACAATATTCATAC-AAA
*
23544033 AATTACACTATTCATAC-AA
1 AATTACAATATTCATACAAA
* * * *
23544052 AA-TACTA-ATCCAAAACTATA
1 AATTACAATATTC-ATAC-AAA
* * *
23544072 AA-TACAAAATTAATTATAAAA
1 AATTACAATATTCA-TA-CAAA
23544093 TAATTACAATATTCATAC-AA
1 -AATTACAATATTCATACAAA
*
23544113 AATTATAATATTCATACAAA
1 AATTACAATATTCATACAAA
*
23544133 AAGTTACAATATACATAC-AA
1 AA-TTACAATATTCATACAAA
23544153 AATTAC
1 AATTAC
23544159 CCATTGACGC
Statistics
Matches: 367, Mismatches: 57, Indels: 107
0.69 0.11 0.20
Matches are distributed among these distances:
15 2 0.01
16 12 0.03
17 6 0.02
18 20 0.05
19 118 0.32
20 41 0.11
21 44 0.12
22 21 0.06
23 75 0.20
24 2 0.01
25 6 0.02
27 16 0.04
28 3 0.01
29 1 0.00
ACGTcount: A:0.56, C:0.14, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTACAATATTCATACAAA
Found at i:23544208 original size:27 final size:27
Alignment explanation
Indices: 23544166--23544235 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
23544156 TACCCATTGA
*
23544166 CGCCTCCCTATAAGGCACTTTTAATGG
1 CGCCTCCCTATGAGGCACTTTTAATGG
*
23544193 CGCCTCCTTATGAGGCACTTTTAATGG
1 CGCCTCCCTATGAGGCACTTTTAATGG
*
23544220 TGCCTCCCTATGAGGC
1 CGCCTCCCTATGAGGC
23544236 GCCACCTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.30, G:0.21, T:0.30
Consensus pattern (27 bp):
CGCCTCCCTATGAGGCACTTTTAATGG
Found at i:23547978 original size:11 final size:11
Alignment explanation
Indices: 23547962--23547990 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
23547952 TTCAAAAATT
23547962 CTCTTAAGTTC
1 CTCTTAAGTTC
23547973 CTCTTAAGTTC
1 CTCTTAAGTTC
23547984 CTCTTAA
1 CTCTTAA
23547991 CTCCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (11 bp):
CTCTTAAGTTC
Found at i:23548827 original size:7 final size:7
Alignment explanation
Indices: 23548815--23548839 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
23548805 AGTCGATTGA
23548815 TATTTAG
1 TATTTAG
23548822 TATTTAG
1 TATTTAG
23548829 TATTTAG
1 TATTTAG
23548836 TATT
1 TATT
23548840 ATGTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:23549517 original size:18 final size:18
Alignment explanation
Indices: 23549490--23549525 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
23549480 CAGGTGCGTT
*
23549490 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
23549508 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
23549526 CTCTTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:23549986 original size:25 final size:25
Alignment explanation
Indices: 23549958--23550005 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
23549948 TATTTTGATA
23549958 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
23549983 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
23550006 ATTTTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:23550077 original size:23 final size:23
Alignment explanation
Indices: 23550051--23550554 Score: 373
Period size: 23 Copynumber: 22.1 Consensus size: 23
23550041 AATACCCTTA
*
23550051 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
23550074 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * ***
23550096 ACTTAAAAACCTTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
*
23550118 AACTTAAAAAACCTAACCTAA-TT
1 AA-TTAAAAACCCTAACCTAATTT
* *
23550141 AACTTAAAAAACCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
23550165 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
*
23550188 AATTAAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
** *
23550210 GCTTAAAAACCATAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
23550233 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * *
23550255 AATTAAAAACCCTAAGCTAACTA
1 AATTAAAAACCCTAACCTAATTT
* *** *
23550278 AATTAAAAACCATAACCTCCCTA
1 AATTAAAAACCCTAACCTAATTT
23550301 AACTTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAATTT
23550325 AATTAAAAACCCTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* *
23550347 ACTTAAAAACCCTAACCTAATTA
1 AATTAAAAACCCTAACCTAATTT
***
23550370 AATTAAAAACCCTAACC-CCCTT
1 AATTAAAAACCCTAACCTAATTT
* *
23550392 AACTTAAAAACTCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
*
23550416 AATTAAAAATCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
23550439 AATTTAAAACCTTAAACCCTAA---
1 AATTAAAAACCCT-AA-CCTAATTT
* * * **
23550461 ACTTAAAAACCATATCC--CCTT
1 AATTAAAAACCCTAACCTAATTT
*
23550482 AACTTAAAAACCCTAACCTAATTA
1 AA-TTAAAAACCCTAACCTAATTT
23550506 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAATTT
* *
23550529 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCTAATTT
23550552 AAT
1 AAT
23550555 AATTTTACTT
Statistics
Matches: 386, Mismatches: 61, Indels: 68
0.75 0.12 0.13
Matches are distributed among these distances:
20 18 0.05
21 10 0.03
22 74 0.19
23 222 0.58
24 37 0.10
25 25 0.06
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (23 bp):
AATTAAAAACCCTAACCTAATTT
Found at i:23550247 original size:114 final size:113
Alignment explanation
Indices: 23550048--23550545 Score: 494
Period size: 114 Copynumber: 4.4 Consensus size: 113
23550038 ATTAATACCC
* * *
23550048 TTAAATTAAAAATCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCTTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCTTAA-A
* * * *
23550113 CCCTTAACTTAAAAAACCTAACCTAATTAACTTAAAAAACCTAACCTAA
65 CCCTAAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* * *
23550162 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAGCTTAAAAACCAT-AA-
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCTTAAAC
*
23550225 CCTAATTTAATTAAAAACCCTAAACCCTAA--AA-TTAAAAACCCTAAGCTAA
66 CCTAA---AATTAAAAACCCT-AA-CCTAATTAACTTAAAAACCCTAACCTAA
* * *** * * *
23550275 CTAAATTAAAAACCATAACCTCCCTAAACTTAAAAACCCT-AA-CCTAATTTAATTAAAAACCCT
1 TTAAATTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCCTAA---ACTTAAAAACCTT
* * ***
23550338 AAACCCTAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCCC
62 AAACCCTAAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* * * * * *
23550390 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAATCCT-AA-CCTAATTTAATTTAAAACCTTA
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAA---ACTTAAAAACCTTA
* * * **
23550453 AACCCTAAACTTAAAAACCATATCC-CCTTAACTTAAAAACCCTAACCTAA
63 AACCCTAAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
23550503 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
23550546 TAAATTAATA
Statistics
Matches: 322, Mismatches: 46, Indels: 31
0.81 0.12 0.08
Matches are distributed among these distances:
111 4 0.01
112 10 0.03
113 97 0.30
114 152 0.47
115 47 0.15
116 7 0.02
117 5 0.02
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (113 bp):
TTAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCTTAAAC
CCTAAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
Found at i:23550338 original size:38 final size:40
Alignment explanation
Indices: 23550163--23550422 Score: 162
Period size: 45 Copynumber: 5.8 Consensus size: 40
23550153 CTAACCTAAT
*
23550163 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATT--AAA-C--AAACCC
* * *
23550207 TAAGCTTAAAAACCATAACCTAATTTAATTAAAAACCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATT--AAA--C-AAACCC
* * *
23550252 TAAAATTAAAAACCCTAAGCTAACTAAATTAAAAACCATAACCTCCC
1 TAAACTTAAAAACCCTAACCTAATTAAATT--AAA-CA-AA---CCC
*
23550299 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTAAATT--AAA--C-AAACCC
*
23550344 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCCC
1 TAAACTTAAAAACCCTAACCTAATTAAATT--AAA--C-AA-ACCC
* *
23550390 TTAACTTAAAAACTCTAACCTAATTAAATTAAA
1 TAAACTTAAAAACCCTAACCTAATTAAATTAAA
23550423 AATCCTAACC
Statistics
Matches: 191, Mismatches: 16, Indels: 18
0.85 0.07 0.08
Matches are distributed among these distances:
43 1 0.01
44 10 0.05
45 108 0.57
46 33 0.17
47 34 0.18
48 4 0.02
49 1 0.01
ACGTcount: A:0.50, C:0.25, G:0.01, T:0.25
Consensus pattern (40 bp):
TAAACTTAAAAACCCTAACCTAATTAAATTAAACAAACCC
Found at i:23550511 original size:251 final size:249
Alignment explanation
Indices: 23550049--23550539 Score: 711
Period size: 251 Copynumber: 2.0 Consensus size: 249
23550039 TTAATACCCT
* * *
23550049 TAAATTAAAAATCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCTTAACCC
1 TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCC
** * *
23550114 CCTTAACTTAAAAAACCTAACCTAATTAACTTAAAAAACCTAACCTAATTAAATTAAAAACCCTA
66 AATTAAATTAAAAAACCTAACCCAATTAACTTAAAAAACCTAACCTAATTAAATTAAAAACCCTA
* *
23550179 ACCTAATTTAATTAAAAACCTTAAACCCTAAGCTTAAAAACCATAACCTAATTTAATTAAAAACC
131 ACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCATAACC-AACTTAATTAAAAACC
*
23550244 CTAAACCCTAAAATTAAAAACCCTAAGCTAACTAAATTAAAAACCATAACCTCCC
195 CTAAACCCTAAAATTAAAAACCCTAACCTAACTAAATTAAAAACCATAACCTCCC
23550299 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
1 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACC
* * ** *
23550364 TAATTAAATTAAAAACCCTAACCCCCTTAACTT-AAAAACTCTAACCTAATTAAATTAAAAATCC
65 CAATTAAATTAAAAAACCTAACCCAATTAACTTAAAAAAC-CTAACCTAATTAAATTAAAAACCC
* * *
23550428 TAACCTAATTTAATTTAAAACCTTAAACCCTAAACTTAAAAACCATATCC-CCTTAACTTAAAAA
129 TAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCATAACCAACTTAA-TTAAAAA
* *
23550492 CCCT-AA-CCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAAACC
193 CCCTAAACCCT-A--AAATTAAAAACCCTAACCTAACTAAATTAAAAACC
23550540 CTAAACTAAA
Statistics
Matches: 215, Mismatches: 20, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
248 3 0.01
249 7 0.03
250 21 0.10
251 184 0.86
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.26
Consensus pattern (249 bp):
TAAATTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAACCC
AATTAAATTAAAAAACCTAACCCAATTAACTTAAAAAACCTAACCTAATTAAATTAAAAACCCTA
ACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCATAACCAACTTAATTAAAAACCC
TAAACCCTAAAATTAAAAACCCTAACCTAACTAAATTAAAAACCATAACCTCCC
Found at i:23550671 original size:115 final size:116
Alignment explanation
Indices: 23550548--23550794 Score: 433
Period size: 115 Copynumber: 2.1 Consensus size: 116
23550538 CCCTAAACTA
* ** *
23550548 AATTAATAATTTTACTTTCACATAATGTTAGATTTAGAAAAATGTTTTTTTTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAAATGTTTTGATTGGTACTAAAAATT
*
23550613 AATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
*
23550663 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGATTGGTACTAAAAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAAATGTTTTGATTGGTACTAAAAATT
23550728 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
23550779 AATTAATAATTTTACA
1 AATTAATAATTTTACA
23550795 AACTTAATTT
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
115 83 0.66
116 42 0.34
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.45
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTAGAAAAATGTTTTGATTGGTACTAAAAATT
AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
Found at i:23554031 original size:124 final size:124
Alignment explanation
Indices: 23553804--23554176 Score: 543
Period size: 124 Copynumber: 3.0 Consensus size: 124
23553794 CAAACATGCT
* * *
23553804 ACTGTAGCAAAAGCGCGTTCATAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCATGAGGGCACGATTTT-ACAAATTCTTCTCAAATAGCATCCTGCT
* * *
23553869 AGAAGCGATTTTATACTATTTGCTTAGAAACAT-AAAAAAAATTTATTTCTTCCATGACCG
65 AGAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAA-TTATTTCTTCCATGACCG
* * *
23553929 ACTGTAGCAAAAGCGCGTCCATGATGGCATGATTTTACAAATTCTTCTCAAATAGCATCCTACTA
1 ACTGTAGCAAAAGCGCGTCCATGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
*
23553994 GAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCT
66 GAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
* * *
23554053 ACTGTAGCAAAAGCGCGTCCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCATGCTA
1 ACTGTAGCAAAAGCGCGTCCATGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
*** *
23554118 GAAGCGATTTTATACTATTTGA-TCAGAAACGTCAACTCGAAATTATTTCTTCCAAGACC
66 GAAGCGATTTTATACTATTT-ACTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGACC
23554177 TAAAAACCCT
Statistics
Matches: 225, Mismatches: 20, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
124 166 0.74
125 59 0.26
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCATGAGGGCACGATTTTACAAATTCTTCTCAAATAGCATCCTGCTA
GAAGCGATTTTATACTATTTACTCAGAAACGTCAAAAAAAATTATTTCTTCCATGACCG
Found at i:23555248 original size:19 final size:19
Alignment explanation
Indices: 23555220--23555259 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
23555210 AACTTAGTTG
*
23555220 GTTATTGTTTATCTATTAA
1 GTTATGGTTTATCTATTAA
*
23555239 GTTATGGTTTATTTATTAA
1 GTTATGGTTTATCTATTAA
23555258 GT
1 GT
23555260 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.25, C:0.03, G:0.15, T:0.57
Consensus pattern (19 bp):
GTTATGGTTTATCTATTAA
Found at i:23555335 original size:11 final size:11
Alignment explanation
Indices: 23555319--23555368 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
23555309 TTTATTTAAA
23555319 ATTATAATAAT
1 ATTATAATAAT
*
23555330 ATTATAACAA-
1 ATTATAATAAT
*
23555340 ATTATTATAAT
1 ATTATAATAAT
23555351 ACTTAT-ATAAT
1 A-TTATAATAAT
23555362 ACTTATA
1 A-TTATA
23555369 CTTTTTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 21 0.64
12 4 0.12
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (11 bp):
ATTATAATAAT
Found at i:23555341 original size:21 final size:22
Alignment explanation
Indices: 23555317--23555357 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
23555307 ATTTTATTTA
23555317 AAATTATAATAATA-TTATAAC
1 AAATTATAATAATACTTATAAC
*
23555338 AAATTATTATAATACTTATA
1 AAATTATAATAATACTTATA
23555358 TAATACTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAATTATAATAATACTTATAAC
Found at i:23555542 original size:29 final size:29
Alignment explanation
Indices: 23555510--23555570 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
23555500 TTATTTATTT
* *
23555510 AATTTATTTTTATTTTTTAAAAT-TTTTAA
1 AATTTATATTT-TTTGTTAAAATATTTTAA
* *
23555539 AATTTCTATTTTTTGTTAAATTATTTTAA
1 AATTTATATTTTTTGTTAAAATATTTTAA
23555568 AAT
1 AAT
23555571 AGATGAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (29 bp):
AATTTATATTTTTTGTTAAAATATTTTAA
Found at i:23560597 original size:5 final size:5
Alignment explanation
Indices: 23560587--23560624 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
23560577 ATATCCTTTC
*
23560587 AATAT AATAT AATAT AATAT AATAT AATAT TATAT AAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AAT
23560625 TGAATTCTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
AATAT
Found at i:23561342 original size:25 final size:26
Alignment explanation
Indices: 23561289--23561343 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 26
23561279 AGTGTTTTTT
23561289 ATTTT-CTTCTGTCTATTCTCTACTC
1 ATTTTACTTCTGTCTATTCTCTACTC
* * *
23561314 -TTTTACTTCTTTCTATTGT-TAGTC
1 ATTTTACTTCTGTCTATTCTCTACTC
23561338 ATTTTA
1 ATTTTA
23561344 AAGAATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.15, C:0.20, G:0.05, T:0.60
Consensus pattern (26 bp):
ATTTTACTTCTGTCTATTCTCTACTC
Found at i:23565647 original size:17 final size:16
Alignment explanation
Indices: 23565617--23565652 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
23565607 CTTGGACAGT
23565617 AGAAGAAAAGAGAAAA
1 AGAAGAAAAGAGAAAA
*
23565633 AGAAGAAATAGAGAAGA
1 AGAAGAAA-AGAGAAAA
23565650 AGA
1 AGA
23565653 GGAGGAGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (16 bp):
AGAAGAAAAGAGAAAA
Found at i:23566523 original size:30 final size:32
Alignment explanation
Indices: 23566453--23566525 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
23566443 AAAATGTTAA
23566453 TTGAGTGACTGATTTGTCACTTTTCAATAACG
1 TTGAGTGACTGATTTGTCACTTTTCAATAACG
* * *
23566485 TT-AGTGACTGTTTTGTTATTTTTTC-A-AA-G
1 TTGAGTGACTGATTTGTCA-CTTTTCAATAACG
23566514 TTGAGTGACTGA
1 TTGAGTGACTGA
23566526 AATGAAACCT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
29 3 0.09
30 10 0.29
31 15 0.43
32 7 0.20
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.45
Consensus pattern (32 bp):
TTGAGTGACTGATTTGTCACTTTTCAATAACG
Found at i:23574655 original size:101 final size:101
Alignment explanation
Indices: 23574540--23574825 Score: 457
Period size: 101 Copynumber: 2.8 Consensus size: 101
23574530 AAAGTGATGG
23574540 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
23574605 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* *
23574641 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTTGTATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
* **
23574706 TATGTGCAGACTACTATGCGTACTGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
* * * *
23574742 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
23574806 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
23574826 TGAATCCGCA
Statistics
Matches: 170, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
101 135 0.79
102 31 0.18
103 4 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
Found at i:23574667 original size:51 final size:49
Alignment explanation
Indices: 23574540--23574823 Score: 254
Period size: 51 Copynumber: 5.6 Consensus size: 49
23574530 AAAGTGATGG
* * *
23574540 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATA-G-TTGA
* * * *
23574590 TCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TT-GA
*
23574641 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTTG-
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACC---A-GATA-GTTGA
* * * **
23574694 T-A--TGTGTAGTACTATGTGCAGACTACTATGCGTACTGGATAGCTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAG-TT-GA
* * *
23574742 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGATGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGT--TGA
* *
23574793 TCACATGTGTAGTACTATGTGCATGCTACTA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTA
23574824 TGTGAATCCG
Statistics
Matches: 192, Mismatches: 27, Indels: 29
0.77 0.11 0.12
Matches are distributed among these distances:
45 1 0.01
46 6 0.03
47 1 0.01
48 1 0.01
49 1 0.01
50 69 0.36
51 101 0.53
52 2 0.01
53 1 0.01
54 2 0.01
55 6 0.03
56 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (49 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGATAGTTGA
Found at i:23574827 original size:26 final size:26
Alignment explanation
Indices: 23574747--23574827 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
23574737 TTCGATCACG
*
23574747 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
23574773 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
23574798 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
23574824 TGTG
1 TGTG
23574828 AATCCGCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:23574951 original size:41 final size:44
Alignment explanation
Indices: 23574847--23574961 Score: 132
Period size: 41 Copynumber: 2.7 Consensus size: 44
23574837 CATTGAATAT
* * *
23574847 AAAGATGGTTGCTAAGTGTTGATTCCACCGTATCCTTGACTGTG
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGACTGTG
**
23574891 AAAGG-GGTTGCTATCTGCTGATTCC-CCGTATCATTGA-T-T-
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGACTGTG
*
23574930 ATATGGTGGTTGCTAAGTGCTGATTCCACCGT
1 A-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
23574962 GTAATGGTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
39 1 0.02
40 4 0.07
41 19 0.32
42 15 0.25
43 17 0.28
44 4 0.07
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (44 bp):
AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTGACTGTG
Found at i:23580614 original size:5 final size:5
Alignment explanation
Indices: 23580604--23580629 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23580594 AGCCATCAGC
23580604 TGAGT TGAGT TGAGT TGAGT TGAGT T
1 TGAGT TGAGT TGAGT TGAGT TGAGT T
23580630 TAAGTACGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.38, T:0.42
Consensus pattern (5 bp):
TGAGT
Found at i:23583870 original size:21 final size:21
Alignment explanation
Indices: 23583835--23583955 Score: 91
Period size: 21 Copynumber: 5.8 Consensus size: 21
23583825 GTTTAACTTA
* *
23583835 TATGAGTTTCCGTTCAACCCT
1 TATGGGTTTCTGTTCAACCCT
* * *
23583856 GATGGGTTTCTGTTCAGCTCCA
1 TATGGGTTTCTGTTCAAC-CCT
* * *
23583878 T-TGAGCTTCTGTTTAACCCT
1 TATGGGTTTCTGTTCAACCCT
* *
23583898 TATGGGTTTCTGTTCAGCTCT
1 TATGGGTTTCTGTTCAACCCT
* * *
23583919 TATGGGTTTCTGTTTAGCACT
1 TATGGGTTTCTGTTCAACCCT
* *
23583940 TATGTGCTTCTGTTCA
1 TATGGGTTTCTGTTCA
23583956 GCCTTCGGGC
Statistics
Matches: 77, Mismatches: 21, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 3 0.04
21 72 0.94
22 2 0.03
ACGTcount: A:0.14, C:0.21, G:0.21, T:0.44
Consensus pattern (21 bp):
TATGGGTTTCTGTTCAACCCT
Found at i:23583914 original size:42 final size:42
Alignment explanation
Indices: 23583834--23583957 Score: 133
Period size: 42 Copynumber: 3.0 Consensus size: 42
23583824 TGTTTAACTT
* * * *
23583834 ATATGAGTTTCCGTTCAACCCTGATGGGTTTCTGTTCAGCTCC
1 ATATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCT-C
23583877 AT-TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTC
1 ATATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTC
* * * * * * *
23583918 TTATGGGTTTCTGTTTAGCACTTATGTGCTTCTGTTCAGC
1 ATATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGC
23583958 CTTCGGGCTT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 2 0.03
42 65 0.94
43 2 0.03
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.43
Consensus pattern (42 bp):
ATATGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTC
Found at i:23583953 original size:63 final size:63
Alignment explanation
Indices: 23583817--23583938 Score: 156
Period size: 63 Copynumber: 1.9 Consensus size: 63
23583807 TAACTCTCAC
* *
23583817 GAGCTTCTGTTTAACTTATATGAGTTTCCGTTCAACCCTGATGGGTTTCTGTTCAGCTCCATT
1 GAGCTTCTGTTTAACCTATATGAGTTTCCGTTCAACCCTGATGGGTTTCTGTTCAGCACCATT
* * * * * *
23583880 GAGCTTCTGTTTAACCCT-TATGGGTTTCTGTTCAGCTCTTATGGGTTTCTGTTTAGCAC
1 GAGCTTCTGTTTAA-CCTATATGAGTTTCCGTTCAACCCTGATGGGTTTCTGTTCAGCAC
23583939 TTATGTGCTT
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
63 48 0.96
64 2 0.04
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (63 bp):
GAGCTTCTGTTTAACCTATATGAGTTTCCGTTCAACCCTGATGGGTTTCTGTTCAGCACCATT
Found at i:23605142 original size:201 final size:201
Alignment explanation
Indices: 23604475--23605465 Score: 1386
Period size: 201 Copynumber: 5.0 Consensus size: 201
23604465 GCGGTGATCT
* * * * * **
23604475 TAACTGCTCCATTCTACTAATATCTTCCCTAATTGG-CAACTCGGCAGCTGGAGCAGTGAGAATT
1 TAACTGCTCCGTTCTACCAATATCTT-CCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACC
** * * * ** * *
23604539 ACAGTCTTGCGTCTATTCTTCCTCAAGGGGGATTGGTGTTGTGAAGTA-ATGGCAGACTTGGCCC
65 ACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCT-GCATACTTGGCCC
* ** * * * ** *
23604603 TCTCAACCTCACTCCTATCTTGTACAATTGCATCCACTTCTTCAGTTGTGCCTTTTCCTTGAAGC
129 TCTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACC
23604668 GGTGCCT-
194 GGTGCCTC
* * * * *
23604675 TCAACTGCTCCGTACTACCAATATGTTCCTTATTTGCCAAATCTGCAGCTGGAGCAGTAAGAATC
1 T-AACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACC
*
23604740 ACAGTCTTGCGTCTGTTCCTCCTCGAGGGGGCTTC---TTGT----T-G-TGC---CTTGGCCCT
65 ACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
* * * *
23604793 CTCAACCTCACTACTATCTTCCACAATTGCATCCAGTTCTTCAGTCGTGCCTTTTCCTACAAGCG
130 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCG
23604858 GTGCCTC
195 GTGCCTC
23604865 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
* * *
23604930 CAGTTTTGCGTCTGCCCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGTCCTC
66 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
*
23604995 TCGACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
131 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
23605060 TGCCTC
196 TGCCTC
*
23605066 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTTAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
*
23605131 CAGTTTTGCGTCTGC-CCTTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
66 CAGTCTTGCGTCTGCTCC-TCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCT
* *
23605195 CTCGACCTCACTACTATCTTCAACAATTGCATCCAGTTCTTCAGTCGTGCCTTTCCCTACAACCG
130 CTCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCG
23605260 GTGCCTC
195 GTGCCTC
*
23605267 TAACTGCTCCGTTCTACCAATATCTACCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
1 TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
23605332 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
66 CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
* * *
23605397 TCAACCTCACTACTGTCTTCAACAATTGCATCCAATTCTTCAGTCGAGCCCTTT-CCTCCAACCG
131 TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTG-CCTTTCCCTACAACCG
*
23605461 ATGCC
195 GTGCC
23605466 AAATCGGAAG
Statistics
Matches: 724, Mismatches: 48, Indels: 37
0.89 0.06 0.05
Matches are distributed among these distances:
189 163 0.23
190 1 0.00
192 6 0.01
193 1 0.00
194 1 0.00
196 1 0.00
197 1 0.00
198 7 0.01
200 10 0.01
201 526 0.73
202 7 0.01
ACGTcount: A:0.20, C:0.30, G:0.19, T:0.31
Consensus pattern (201 bp):
TAACTGCTCCGTTCTACCAATATCTTCCTTATTGGCCAAATCGGCAGCTGGAGCAGTAAGAACCA
CAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTCTTGTTGTGAAGTAGCTGCATACTTGGCCCTC
TCAACCTCACTACTATCTTCAACAATTGCATCCAATTCTTCAGTCGTGCCTTTCCCTACAACCGG
TGCCTC
Found at i:23605513 original size:162 final size:162
Alignment explanation
Indices: 23605301--23605596 Score: 477
Period size: 162 Copynumber: 1.8 Consensus size: 162
23605291 TACCTTATTG
* *
23605301 GCCAAATCGGCAGCTGGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
1 GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
* * * *
23605366 TTGTTGTGAAGTAGCTG-CATACTTGGCCCTCTCAACCTCACTACTGTCTTCAACAATTGCATCC
66 TTGTTGTGAAGTAAC-GACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCC
23605430 AATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
130 AATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
* *
23605463 GCCAAATCGGAAGCTAGAGCGGTAAGAGCCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
1 GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
* * *
23605528 TTGTTGTGAAGTAACGACACACTTGACCTTCTCAACCTCACTACTCTCTTCAACAATTGCCTCTA
66 TTGTTGTGAAGTAACGACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCCA
23605593 ATTC
131 ATTC
23605597 AGCACTCCTG
Statistics
Matches: 122, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
161 1 0.01
162 121 0.99
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (162 bp):
GCCAAATCGGAAGCTAGAGCAGTAAGAACCACAGTCTTGCGTCTGCTCCTCCTCGAGGGGGCTTC
TTGTTGTGAAGTAACGACACACTTGACCCTCTCAACCTCACTACTCTCTTCAACAATTGCATCCA
ATTCTTCAGTCGAGCCCTTTCCTCCAACCGAT
Found at i:23608310 original size:27 final size:28
Alignment explanation
Indices: 23608270--23608326 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
23608260 AATATTATAT
*
23608270 TTAATATTTGAATAATT-TAGTTAAAAAA
1 TTAATATTTAAAT-ATTATAGTTAAAAAA
*
23608298 TTAA-ATTTAAATATTATATTTAAAAAA
1 TTAATATTTAAATATTATAGTTAAAAAA
23608325 TT
1 TT
23608327 TTAACCTAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 3 0.12
27 19 0.73
28 4 0.15
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (28 bp):
TTAATATTTAAATATTATAGTTAAAAAA
Found at i:23611330 original size:12 final size:12
Alignment explanation
Indices: 23611313--23611337 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
23611303 TGTAGGTTTC
23611313 TAAAAATGGAAA
1 TAAAAATGGAAA
23611325 TAAAAATGGAAA
1 TAAAAATGGAAA
23611337 T
1 T
23611338 GATCCATTTG
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:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (12 bp):
TAAAAATGGAAA
Found at i:23611513 original size:26 final size:26
Alignment explanation
Indices: 23611484--23611540 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
23611474 ACATATTTTC
23611484 TCAAAAATTTACCAGGGGC-AAAATCG
1 TCAAAAATTTACCA-GGGCTAAAATCG
* * *
23611510 TCAAAATTTTATCATGGCTAAAATCG
1 TCAAAAATTTACCAGGGCTAAAATCG
23611536 TCAAA
1 TCAAA
23611541 TTTTTGGGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (26 bp):
TCAAAAATTTACCAGGGCTAAAATCG
Found at i:23616181 original size:33 final size:30
Alignment explanation
Indices: 23616117--23616182 Score: 78
Period size: 33 Copynumber: 2.1 Consensus size: 30
23616107 ATCAAATCTA
* *
23616117 AAATTTAACATAGTATAGGGATCAAAATTG
1 AAATTTAACATAGTAGAGGGACCAAAATTG
*
23616147 AAATTTAACTATAAAGTAGAGGGACCAAATTTG
1 AAATTTAAC-AT--AGTAGAGGGACCAAAATTG
23616180 AAA
1 AAA
23616183 ATTGACCATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 9 0.30
31 2 0.07
33 19 0.63
ACGTcount: A:0.48, C:0.08, G:0.17, T:0.27
Consensus pattern (30 bp):
AAATTTAACATAGTAGAGGGACCAAAATTG
Found at i:23620080 original size:62 final size:62
Alignment explanation
Indices: 23620014--23620133 Score: 163
Period size: 62 Copynumber: 1.9 Consensus size: 62
23620004 AGATGATAAA
* *
23620014 TTTTTAGAATTAAAACTAAATTG-AA-AATTTTTGTAAATATTGAGGGCTAAATTTATTACTTT
1 TTTTTAGAATTAAAACTAAA--GAAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTACTTT
* * *
23620076 TTTTTAGAATTTAAATTAAAGAAATAAATTTTGTAAAGATTGAGGGCTACATTTATTA
1 TTTTTAGAATTAAAACTAAAGAAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTA
23620134 TTATTATTTT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
60 1 0.02
61 2 0.04
62 48 0.94
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.43
Consensus pattern (62 bp):
TTTTTAGAATTAAAACTAAAGAAATAAATTTTGTAAAGATTGAGGGCTAAATTTATTACTTT
Found at i:23626375 original size:42 final size:41
Alignment explanation
Indices: 23626324--23626414 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 41
23626314 TTAAAATGAT
*
23626324 TTATATTAAAAAAACACTACC-ATAAATATAAAAAATATTTTA
1 TTATATTAAAAAAACAC--CCAATAAATATAAAAAATATCTTA
* *
23626366 TTATATT-AAAAAACACCCAATAACTATAATAAATATCTTA
1 TTATATTAAAAAAACACCCAATAAATATAAAAAATATCTTA
*
23626406 TTGTATTAA
1 TTATATTAA
23626415 TATATTTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 2 0.05
40 24 0.56
41 10 0.23
42 7 0.16
ACGTcount: A:0.53, C:0.11, G:0.01, T:0.35
Consensus pattern (41 bp):
TTATATTAAAAAAACACCCAATAAATATAAAAAATATCTTA
Found at i:23640840 original size:4 final size:4
Alignment explanation
Indices: 23640831--23640855 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
23640821 AGTCAAACAT
23640831 GAGG GAGG GAGG GAGG GAGG GAGG G
1 GAGG GAGG GAGG GAGG GAGG GAGG G
23640856 TCCCCATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.76, T:0.00
Consensus pattern (4 bp):
GAGG
Found at i:23645953 original size:103 final size:104
Alignment explanation
Indices: 23645774--23646037 Score: 406
Period size: 103 Copynumber: 2.5 Consensus size: 104
23645764 ACTGTTATTA
* * * *
23645774 GTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGAA
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
** *
23645839 TCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATACG
66 TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
*
23645877 GTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAACACTTAGCAACCCCTCGGGGGA
1 GTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGGA
23645941 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
65 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
* **
23645981 GTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
23646038 TTATGTACAA
Statistics
Matches: 146, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 1 0.01
103 80 0.55
104 64 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (104 bp):
GTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGAA
TCAGCACATAGCAACCCCCTTTCACATTTCAAAGATACG
Found at i:23647407 original size:37 final size:37
Alignment explanation
Indices: 23647312--23647465 Score: 130
Period size: 37 Copynumber: 4.2 Consensus size: 37
23647302 CCTGTTTTGA
* * * *
23647312 CGTGTTATCGAGTGAATTAGCTCTTATGAGCATTTGG
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
* * * ** *
23647349 CATGTTTTTGATTGGACTAGCTCTT-CAGAGCAATTGG
1 CGTGTTATCGGGTGGATTAGCTCTTAC-GAGCAATTGG
* * *
23647386 CGTGTTATCGGGTTGATTAGCTCTTACGAGCAGTTGA
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
* * * **
23647423 CGTGTTATCTGGTGGTTTAGCTCTTATGAGTGATTGG
1 CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
23647460 CGTGTT
1 CGTGTT
23647466 TCAGTTAGAT
Statistics
Matches: 90, Mismatches: 25, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
37 89 0.99
38 1 0.01
ACGTcount: A:0.18, C:0.14, G:0.29, T:0.39
Consensus pattern (37 bp):
CGTGTTATCGGGTGGATTAGCTCTTACGAGCAATTGG
Found at i:23659042 original size:42 final size:43
Alignment explanation
Indices: 23658972--23659054 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 43
23658962 TCTTACATGT
* *
23658972 AATCAAATATCGATGCCATTGTCCTAGACAGGGTCTTACACAA
1 AATCAAATATCGATGCCAATATCCTAGACAGGGTCTTACACAA
* * *
23659015 AATCATATA-CGATGCCAATATCTTAGACATGGTCTTACAC
1 AATCAAATATCGATGCCAATATCCTAGACAGGGTCTTACAC
23659055 TTAAATCTCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
42 27 0.77
43 8 0.23
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (43 bp):
AATCAAATATCGATGCCAATATCCTAGACAGGGTCTTACACAA
Found at i:23663052 original size:15 final size:17
Alignment explanation
Indices: 23663020--23663054 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23663010 CACGGGTGGC
23663020 CACATGGGCGTGTGCCA
1 CACATGGGCGTGTGCCA
23663037 CACATGGGCG-GT-CCA
1 CACATGGGCGTGTGCCA
23663052 CAC
1 CAC
23663055 TGCCGTGTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.20, C:0.34, G:0.31, T:0.14
Consensus pattern (17 bp):
CACATGGGCGTGTGCCA
Found at i:23668178 original size:30 final size:30
Alignment explanation
Indices: 23668142--23668198 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
23668132 AAACCTTTTA
*
23668142 TTTTTCCCCAAAATTTTTACTCCCTCCCAT
1 TTTTTCCCCAAAACTTTTACTCCCTCCCAT
* *
23668172 TTTTTCCCTAAAACTTTTATTCCCTCC
1 TTTTTCCCCAAAACTTTTACTCCCTCC
23668199 TCATCTCACC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.35, G:0.00, T:0.46
Consensus pattern (30 bp):
TTTTTCCCCAAAACTTTTACTCCCTCCCAT
Found at i:23672792 original size:7 final size:7
Alignment explanation
Indices: 23672780--23672807 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23672770 TACTAGTAGT
23672780 AATAATA
1 AATAATA
23672787 AATAATA
1 AATAATA
23672794 AATAATA
1 AATAATA
23672801 AATAATA
1 AATAATA
23672808 TTAACTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AATAATA
Found at i:23677417 original size:20 final size:19
Alignment explanation
Indices: 23677391--23677441 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
23677381 TTGAAGCAGG
* *
23677391 AATATCGATGCCTTAGGAA
1 AATATCGATACCTTAAGAA
23677410 ATATATCGATACCTTAAGAA
1 A-ATATCGATACCTTAAGAA
23677430 AAGTATCGATAC
1 AA-TATCGATAC
23677442 TGGATCGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
AATATCGATACCTTAAGAA
Found at i:23678177 original size:13 final size:13
Alignment explanation
Indices: 23678159--23678195 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
23678149 TTGGATAGTA
23678159 AAAAATATTATTT
1 AAAAATATTATTT
*
23678172 -AAAA-ATTAATT
1 AAAAATATTATTT
23678183 AAAAATATTATTT
1 AAAAATATTATTT
23678196 CAAATGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
11 6 0.30
12 8 0.40
13 6 0.30
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAAATATTATTT
Found at i:23679799 original size:25 final size:25
Alignment explanation
Indices: 23679770--23679867 Score: 83
Period size: 25 Copynumber: 4.0 Consensus size: 25
23679760 GCACTCTCTC
23679770 GAGCCATATAACAGGAAGCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
* * *
23679795 GAGCCATGTAACAGGAAACTTAT-T
1 GAGCCATATAACAGGAAGCTCATGT
** * **
23679819 CGAGCTTTATAACTGGAAGCTCATAA
1 -GAGCCATATAACAGGAAGCTCATGT
**
23679845 GAGCCATAT-TTAGGAAGCTCATG
1 GAGCCATATAACAGGAAGCTCATG
23679868 CTAGCTAATA
Statistics
Matches: 55, Mismatches: 16, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
24 11 0.20
25 44 0.80
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:23680008 original size:25 final size:25
Alignment explanation
Indices: 23679977--23680037 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
23679967 AGCCAATTAA
23679977 CGGGAAGCTCACGAAGAGTCATAAT
1 CGGGAAGCTCACGAAGAGTCATAAT
*
23680002 CGGGAAGCTTACGAAGAGTCATAAT
1 CGGGAAGCTCACGAAGAGTCATAAT
23680027 CGGGAAGCTCA
1 CGGGAAGCTCA
23680038 TAAGAGCTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.34, C:0.20, G:0.30, T:0.16
Consensus pattern (25 bp):
CGGGAAGCTCACGAAGAGTCATAAT
Found at i:23680509 original size:21 final size:21
Alignment explanation
Indices: 23680485--23680527 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23680475 TAAATTTAAC
*
23680485 TCAATTTAATACAATTCATAT
1 TCAATTCAATACAATTCATAT
*
23680506 TCAATTCAATCCAATTCATAT
1 TCAATTCAATACAATTCATAT
23680527 T
1 T
23680528 TTAGGCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.19, G:0.00, T:0.42
Consensus pattern (21 bp):
TCAATTCAATACAATTCATAT
Found at i:23681583 original size:31 final size:31
Alignment explanation
Indices: 23681523--23681584 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
23681513 AAATTGAATA
* *
23681523 TTTTAAAAGTATAGTTATCACATTAGACATT
1 TTTTAAAAGTACAGTTATCAAATTAGACATT
23681554 TTTTAAAAGTACA-TGTATCAAATGT-GACATT
1 TTTTAAAAGTACAGT-TATCAAAT-TAGACATT
23681585 ATTCCATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 1 0.04
31 25 0.93
32 1 0.04
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.40
Consensus pattern (31 bp):
TTTTAAAAGTACAGTTATCAAATTAGACATT
Found at i:23681936 original size:9 final size:9
Alignment explanation
Indices: 23681922--23681969 Score: 60
Period size: 9 Copynumber: 5.1 Consensus size: 9
23681912 ATTTTCAAAT
23681922 AATTTAAAA
1 AATTTAAAA
23681931 AATTTAAAA
1 AATTTAAAA
23681940 AATATTAAAA
1 AAT-TTAAAA
* *
23681950 AATATACAA
1 AATTTAAAA
23681959 AATTATAAAA
1 AATT-TAAAA
23681969 A
1 A
23681970 TTATAAGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 19 0.58
10 14 0.42
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AATTTAAAA
Found at i:23681960 original size:10 final size:9
Alignment explanation
Indices: 23681926--23681975 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
23681916 TCAAATAATT
*
23681926 TAAAAAATT
1 TAAAAAATA
23681935 TAAAAAATA
1 TAAAAAATA
23681944 TTAAAAAATA
1 -TAAAAAATA
*
23681954 TACAAAATTA
1 TA-AAAAATA
*
23681964 TAAAAATTA
1 TAAAAAATA
23681973 TAA
1 TAA
23681976 GAACATAATG
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 20 0.54
10 17 0.46
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (9 bp):
TAAAAAATA
Found at i:23681960 original size:19 final size:18
Alignment explanation
Indices: 23681922--23681975 Score: 63
Period size: 19 Copynumber: 2.9 Consensus size: 18
23681912 ATTTTCAAAT
*
23681922 AATTTAAAAAATTTAAAA
1 AATTTAAAAAATATAAAA
*
23681940 AATATTAAAAAATATACAA
1 AAT-TTAAAAAATATAAAA
*
23681959 AATTATAAAAATTATAA
1 AATT-TAAAAAATATAA
23681976 GAACATAATG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 4 0.13
19 26 0.87
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (18 bp):
AATTTAAAAAATATAAAA
Found at i:23681970 original size:9 final size:9
Alignment explanation
Indices: 23681928--23681975 Score: 53
Period size: 10 Copynumber: 5.2 Consensus size: 9
23681918 AAATAATTTA
23681928 AAAAATT-T
1 AAAAATTAT
*
23681936 AAAAAATATT
1 AAAAATTA-T
*
23681946 AAAAAATAT
1 AAAAATTAT
23681955 ACAAAATTAT
1 A-AAAATTAT
23681965 AAAAATTAT
1 AAAAATTAT
23681974 AA
1 AA
23681976 GAACATAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 6 0.17
9 12 0.34
10 17 0.49
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:23682719 original size:18 final size:18
Alignment explanation
Indices: 23682696--23682733 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
23682686 CTTTCTCCTT
23682696 ATATATATAAAACAAAGG
1 ATATATATAAAACAAAGG
*
23682714 ATATATATAAAAGAAAGG
1 ATATATATAAAACAAAGG
23682732 AT
1 AT
23682734 TGTATGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.13, T:0.24
Consensus pattern (18 bp):
ATATATATAAAACAAAGG
Found at i:23684836 original size:31 final size:31
Alignment explanation
Indices: 23684801--23684859 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
23684791 AAATAAGTAC
*
23684801 TAAACTATTCAAAAATTTTCGTTTAAGTCAA
1 TAAACTATTCAAAAATTTTCATTTAAGTCAA
* *
23684832 TAAACTATTCAAAATTTTTTATTTAAGT
1 TAAACTATTCAAAAATTTTCATTTAAGT
23684860 TATTGGATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (31 bp):
TAAACTATTCAAAAATTTTCATTTAAGTCAA
Found at i:23693481 original size:13 final size:13
Alignment explanation
Indices: 23693463--23693488 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23693453 TTGGATCCAT
23693463 ACCAAAACAATCA
1 ACCAAAACAATCA
23693476 ACCAAAACAATCA
1 ACCAAAACAATCA
23693489 TGATACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:23698552 original size:25 final size:25
Alignment explanation
Indices: 23698468--23698607 Score: 99
Period size: 25 Copynumber: 5.6 Consensus size: 25
23698458 ACACCACAAA
* * *
23698468 TCTTATGAGCATCCCGATAATAGGC
1 TCTTATGAGCTTCTCGATAATTGGC
** * * * *
23698493 TCCCACGAGCTTCCCGTTATTTGGC
1 TCTTATGAGCTTCTCGATAATTGGC
*** *
23698518 TCTCCGGAGCTTC-CTGATAATTGAC
1 TCTTATGAGCTTCTC-GATAATTGGC
23698543 TCTTATGAGCTTCTCGATTAA-TGGC
1 TCTTATGAGCTTCTCGA-TAATTGGC
23698568 TCTTCA-GAGCTTCTCGAT-ATTGGC
1 TCTT-ATGAGCTTCTCGATAATTGGC
*
23698592 TCATATGAGCTTCTCG
1 TCTTATGAGCTTCTCG
23698608 TTAACGACTC
Statistics
Matches: 91, Mismatches: 18, Indels: 13
0.75 0.15 0.11
Matches are distributed among these distances:
23 2 0.02
24 19 0.21
25 65 0.71
26 5 0.05
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.34
Consensus pattern (25 bp):
TCTTATGAGCTTCTCGATAATTGGC
Found at i:23698568 original size:50 final size:49
Alignment explanation
Indices: 23698499--23698629 Score: 149
Period size: 50 Copynumber: 2.7 Consensus size: 49
23698489 AGGCTCCCAC
* * * *
23698499 GAGCTTCCCGTTATTTGGCTCTCCGGAGCTTCCT-GATAATTGACTCTTAT
1 GAGCTTCTCGTTA-ATGGCTCTCCAGAGCTTCCTCGAT-ATTGACTCATAT
* *
23698549 GAGCTTCTCGATTAATGGCTCTTCAGAGCTT-CTCGATATTGGCTCATAT
1 GAGCTTCTCG-TTAATGGCTCTCCAGAGCTTCCTCGATATTGACTCATAT
* *
23698598 GAGCTTCTCGTTAACGACTCTCCAGAGCTTCC
1 GAGCTTCTCGTTAATGGCTCTCCAGAGCTTCC
23698630 CATGTCATGG
Statistics
Matches: 69, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
48 17 0.25
49 23 0.33
50 26 0.38
51 3 0.04
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (49 bp):
GAGCTTCTCGTTAATGGCTCTCCAGAGCTTCCTCGATATTGACTCATAT
Found at i:23698643 original size:49 final size:49
Alignment explanation
Indices: 23698537--23698632 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
23698527 CTTCCTGATA
* * * * * *
23698537 ATTGACTCTTATGAGCTTCTCGATTAATGGCTCTTCAGAGCTTCTCGAT
1 ATTGGCTCATATGAGCTTCTCGATTAACGACTCTCCAGAGCTTCTCCAT
23698586 ATTGGCTCATATGAGCTTCTCG-TTAACGACTCTCCAGAGCTTC-CCAT
1 ATTGGCTCATATGAGCTTCTCGATTAACGACTCTCCAGAGCTTCTCCAT
23698633 GTCATGGCTC
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
47 3 0.07
48 18 0.44
49 20 0.49
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (49 bp):
ATTGGCTCATATGAGCTTCTCGATTAACGACTCTCCAGAGCTTCTCCAT
Found at i:23698649 original size:49 final size:49
Alignment explanation
Indices: 23698547--23698649 Score: 120
Period size: 49 Copynumber: 2.1 Consensus size: 49
23698537 ATTGACTCTT
* * * * *
23698547 ATGAGCTTCTCGATTAATGGCTCTTCAGAGCTTCTCGATATTGGCTCAT
1 ATGAGCTTCTCGATTAACGACTCTCCAGAGCTTCTCCATATTGGCTCAC
*
23698596 ATGAGCTTCTCG-TTAACGACTCTCCAGAGCTTC-CCATGTCATGGCTCAC
1 ATGAGCTTCTCGATTAACGACTCTCCAGAGCTTCTCCATAT--TGGCTCAC
23698645 ATGAG
1 ATGAG
23698650 ATTCCCATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 4 0.09
48 18 0.39
49 24 0.52
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (49 bp):
ATGAGCTTCTCGATTAACGACTCTCCAGAGCTTCTCCATATTGGCTCAC
Found at i:23706344 original size:29 final size:29
Alignment explanation
Indices: 23706309--23706368 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
23706299 GGTGGGCCAG
*
23706309 ACAGGCGTGTGCTTGGTCGTGTAGATCAC
1 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
* *
23706338 ACAGGCGTGTTCTTGGCCGTGTGGATCAC
1 ACAGGCGTGTGCTTGGCCGTGTAGATCAC
23706367 AC
1 AC
23706369 GGGCTAGCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.17, C:0.23, G:0.33, T:0.27
Consensus pattern (29 bp):
ACAGGCGTGTGCTTGGCCGTGTAGATCAC
Found at i:23707332 original size:16 final size:16
Alignment explanation
Indices: 23707280--23707332 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 16
23707270 ATAAAAAGTT
23707280 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
*
23707296 GAAAGATATGGTTATCGA
1 -AAAGATATGGGTATC-A
23707314 AAAGATATGGGTATCA
1 AAAGATATGGGTATCA
23707330 AAA
1 AAA
23707333 TCTGAGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 4 0.12
17 28 0.85
18 1 0.03
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.25
Consensus pattern (16 bp):
AAAGATATGGGTATCA
Found at i:23710673 original size:17 final size:17
Alignment explanation
Indices: 23710651--23710700 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
23710641 ATAGAAAGTC
* *
23710651 AAAGATATGAGTATTAG
1 AAAGATATGGGTATCAG
23710668 AAAGATATGGGTATCAG
1 AAAGATATGGGTATCAG
*
23710685 AAATATATGGGTATCA
1 AAAGATATGGGTATCA
23710701 AAATCTGAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.28
Consensus pattern (17 bp):
AAAGATATGGGTATCAG
Found at i:23725905 original size:641 final size:641
Alignment explanation
Indices: 23724770--23725959 Score: 1527
Period size: 641 Copynumber: 1.9 Consensus size: 641
23724760 TGTTAAGAAA
* ** *
23724770 TTTTACTGATTACATGTTTAATTTGATGAAATGGAACAAATTGCATAAAATGTAAAAGTTGAATT
1 TTTTACCGATTACATGTTTAATTTGATGAAAAAGAACAAATTGCATAAAATGCAAAAGTTGAATT
* * * *
23724835 CTAGTAGCTAAAGGTACCAATTAGCTATGGAATTCAAAATTGAAGGACCTTATATGGGAAATAGA
66 CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTTATATGGCAAATAGA
* * * * *
23724900 CCATTTAGAGGAGTTAGTATATAAGGATGATTATTCATCATTGGAAATTTAAAAAAAGTAAAGGG
131 CCATTAAGAGGAGTTAGTAGATAAGGATGATGATTCATCATTGGAAATTTAAAAAAAGAAAAGGA
* * * ** * * *
23724965 TTAATTTGAAAAGATGATAAATAATGATGATAAAAGAAATAAATAATTAAATTAAAGTCATTTTC
196 TGAAATTGAAAAGATGATAAATAAAGATGATAAAAGAAATAAATAAACAAAATAAAGTAATATTC
* *** ** *
23725030 ATCATTTTTCCTAAAACAAAATACATAGAAACCCTAGTTTTGATGCTTGAAGATAGAAAAGCTTA
261 ATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATGAAACCTGAAGATAGAAAAGCTTA
* * * * * * *
23725095 TTTTGATTAATTAAGTGAGTATTATTATCCTATTTTTTACTGATTTTTATGTTTCCAAGATAATT
326 TTTGGATAAATTAAGTAAGTATCATTATCCTAGTTTTTAATGATTTTTATGTTTCCAAGATAATA
* * *
23725160 TTAGCTTAATTTAGCTATCTCGGGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
391 ATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
**
23725225 GGATGAATATAGTTGAATTATGAAGTTCTATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
456 GGATGAATATACATGAATTATGAAGTTCTATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
23725290 CCTTTGTAAAGAGAATTTTGATGAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
521 CCTTTGTAAAGAGAATTTTGATGAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
23725355 TTTATTTCATGGTCTGCATTATGATAGAAATGTCGTATGAAAATTTCGTAAAATTT
586 TTTATTTCATGGTCTGCATTATGATAGAAATGTCGTATGAAAATTTCGTAAAATTT
* * *
23725411 TTTTACCGATTACATGTTTAATTTGATGAAAAAGACCAAATTGCATAAAGTGCAAAAGTTGGATT
1 TTTTACCGATTACATGTTTAATTTGATGAAAAAGAACAAATTGCATAAAATGCAAAAGTTGAATT
* * *
23725476 CTAATAGCTAAAGGGATCAAATAGCTATGGAATTCAAAATTGGAGGTCCTTATATGGCAAATAGA
66 CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTTATATGGCAAATAGA
* *
23725541 CCATTAAGAGGAGTTAGTAGATAAGTATGATGATTCATCATTGGAAAATTT-AATAAAGAAAAGG
131 CCATTAAGAGGAGTTAGTAGATAAGGATGATGATTCATCATTGG-AAATTTAAAAAAAGAAAAGG
* * *
23725605 ATGAAATTGGAAAGATGAAATAAATAAAGATGAT-AAA-TAATAAAATAAAACAAAATACCA-TA
195 ATGAAATTGAAAAGATG--ATAAATAAAGATGATAAAAGAAAT-AAAT-AAACAAAATA-AAGTA
** * * * *
23725667 ATATT-ATCATCTTTCCTAAATTAGAA-AGATGGAAACCCTAGCCATGAAAACCT-AAGTTCA-A
255 ATATTCATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATG-AAACCTGAAGAT-AGA
* * ** * * *
23725728 GCAAGCTTATTTGGCTAAATTGGGTAAGTATCATTGT-CTCGTTTTTAATGATTTTTATGTTTTC
318 -AAAGCTTATTTGGATAAATTAAGTAAGTATCATTATCCTAGTTTTTAATGATTTTTATGTTTCC
* ** **
23725792 GAGATCGTAATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAGTTATTAAAGTGTTAAGG
382 AAGATAATAATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTT-AGG
* * * * * *
23725857 -TTTTTCTATGGATGAGTATACATGAATTATGAAGTTTTATGTTAGAAAATGAATGGTTGTTGAT
446 ATTTTTCCATGGATGAATATACATGAATTATGAAGTTCTATGGTAGAAAATGAAAGGTTGGTGAT
* *
23725921 AGATAAACAACTTTTGTAAAGGGAATTTTGATGAAATTA
511 AGATAAACAACCTTTGTAAAGAGAATTTTGATGAAATTA
23725960 TGATTTAGGG
Statistics
Matches: 462, Mismatches: 77, Indels: 20
0.83 0.14 0.04
Matches are distributed among these distances:
641 371 0.80
642 64 0.14
643 26 0.06
644 1 0.00
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.35
Consensus pattern (641 bp):
TTTTACCGATTACATGTTTAATTTGATGAAAAAGAACAAATTGCATAAAATGCAAAAGTTGAATT
CTAATAGCTAAAGGGACCAAATAGCTATGGAATTCAAAATTGAAGGACCTTATATGGCAAATAGA
CCATTAAGAGGAGTTAGTAGATAAGGATGATGATTCATCATTGGAAATTTAAAAAAAGAAAAGGA
TGAAATTGAAAAGATGATAAATAAAGATGATAAAAGAAATAAATAAACAAAATAAAGTAATATTC
ATCATCTTTCCTAAAACAAAATACATAGAAACCCTAGCCATGAAACCTGAAGATAGAAAAGCTTA
TTTGGATAAATTAAGTAAGTATCATTATCCTAGTTTTTAATGATTTTTATGTTTCCAAGATAATA
ATAGCTTAATCTAGCTATCTCGAGGATTAATTTGCAAAACTATTAAAGTGTTAGGATTTTTCCAT
GGATGAATATACATGAATTATGAAGTTCTATGGTAGAAAATGAAAGGTTGGTGATAGATAAACAA
CCTTTGTAAAGAGAATTTTGATGAAATTACCACAAATTTGAGTCTAGATGGAAACTTATTTTAAT
TTTATTTCATGGTCTGCATTATGATAGAAATGTCGTATGAAAATTTCGTAAAATTT
Found at i:23733372 original size:27 final size:27
Alignment explanation
Indices: 23733336--23733391 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
23733326 TCTGCCTAGC
23733336 TTTTCTGTACAAATAACTCATTATTCT
1 TTTTCTGTACAAATAACTCATTATTCT
*
23733363 TTTTCTGTACAAATAACTCATTCTTCT
1 TTTTCTGTACAAATAACTCATTATTCT
23733390 TT
1 TT
23733392 CTTAAAGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.20, G:0.04, T:0.50
Consensus pattern (27 bp):
TTTTCTGTACAAATAACTCATTATTCT
Found at i:23733536 original size:14 final size:14
Alignment explanation
Indices: 23733517--23733552 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
23733507 AGGAATTAAA
23733517 AGAAGGCATTACGG
1 AGAAGGCATTACGG
23733531 AGAAGGCATTACGG
1 AGAAGGCATTACGG
23733545 AGAAGGCA
1 AGAAGGCA
23733553 ATTAAGGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.39, C:0.14, G:0.36, T:0.11
Consensus pattern (14 bp):
AGAAGGCATTACGG
Found at i:23751143 original size:26 final size:27
Alignment explanation
Indices: 23751087--23751183 Score: 126
Period size: 27 Copynumber: 3.7 Consensus size: 27
23751077 TATAACAGTT
* * *
23751087 ATTTTACCCTCTGAGGGTATTTTGGTA
1 ATTTTACCCTATGAGGGTATTTCGGTC
*
23751114 ATTTTACCCTATGA-GGTATGTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* *
23751140 ATTTTACCTTATGAGGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
23751167 ATTTTACCCTATG-GGGT
1 ATTTTACCCTATGAGGGT
23751184 CTCGGTGCAG
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
26 26 0.43
27 35 0.57
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCGGTC
Found at i:23762343 original size:29 final size:29
Alignment explanation
Indices: 23762237--23762713 Score: 112
Period size: 31 Copynumber: 15.6 Consensus size: 29
23762227 ACGAGGATGT
*
23762237 CGAATTGGATTTGTATATGATTATACATTGC
1 CGAATT-GATTCGTATATGA-TATACATTGC
* *
23762268 CGAACTTGATTCTTGTATGGATATACATTGC
1 CGAA-TTGATTCGTATAT-GATATACATTGC
* *
23762299 CGAATTG-TTTGTTATATGATATA-AGTTGT
1 CGAATTGATTCG-TATATGATATACA-TTGC
* * * *
23762328 CGAATTGATTCGTATATGGTTGTACCTTAC
1 CGAATTGATTCGTATAT-GATATACATTGC
* * * * * * *
23762358 TGAAATTAATTTGTACATGGTTATATATTGT
1 CG-AATTGATTCGTATAT-GATATACATTGC
*
23762389 CGACATTGAATT-GCT-TATGAATATAGGA-TGC
1 CGA-ATTG-ATTCG-TATATG-ATATA-CATTGC
* * *
23762420 TGAATTGGATTTC-TATTTGATGATACATTTC
1 CGAATT-GA-TTCGTATATGAT-ATACATTGC
* * * *
23762451 CAAACTTGATTCGTGTATGGTTATACATTGT
1 CGAA-TTGATTCGTATAT-GATATACATTGC
*
23762482 CGAATTG-TTTGTTATATGGATATA-AGTTGC
1 CGAATTGATTCG-TATAT-GATATACA-TTGC
* * * * *
23762512 TGAATTGATTCATATATGGCTGTACCTTGC
1 CGAATTGATTCGTATAT-GATATACATTGC
* * * * * * *
23762542 TGAAATTAATTTGTACATGGTTATATATTGT
1 CG-AATTGATTCGTATAT-GATATACATTGC
* * *
23762573 CAATATTGAATT-GTTTATGAATATAGGA-TGC
1 CGA-ATTG-ATTCGTATATG-ATATA-CATTGC
* *
23762604 CGAATTGGATTTGTATATGATTATACATTTC
1 CGAATT-GATTCGTATATGA-TATACATTGC
* *
23762635 CGAACTTGATTCGTGTATGGTTATACATTGC
1 CGAA-TTGATTCGTATAT-GATATACATTGC
* * * *
23762666 CAAATAGTTTGGTATATGAATATA-AGTTGC
1 CGAATTGATTCGTATATG-ATATACA-TTGC
* *
23762696 TGAATTGATTCATATATG
1 CGAATTGATTCGTATATG
23762714 GTTGTACATT
Statistics
Matches: 320, Mismatches: 87, Indels: 79
0.66 0.18 0.16
Matches are distributed among these distances:
28 1 0.00
29 29 0.09
30 107 0.33
31 163 0.51
32 20 0.06
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (29 bp):
CGAATTGATTCGTATATGATATACATTGC
Found at i:23762519 original size:184 final size:184
Alignment explanation
Indices: 23762174--23762848 Score: 944
Period size: 184 Copynumber: 3.7 Consensus size: 184
23762164 TATACATTTT
* * *
23762174 TGAAATTAATTCGTACATTGTTATATATTGTCGATATTGAATTGTTTACGAATACGAGGATG-TC
1 TGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATA-TAGGATGCT-
* * *
23762238 GAATTGGATTTGTATATGATTATACATTGCCGAACTTGATTCTTGTATGGATATACATTGCCGAA
64 GAATTGGATTTGTATATGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGCCGAA
* *
23762303 TTGTTTGTTATAT-GATATAAGTTG-TCGAATTGATTCGTATATGGTTGTACCTTAC
129 TTGTTTGTTATATGGATATAAGTTGCT-GAATTGATTCATATATGGTTGTACCTTGC
* * *
23762358 TGAAATTAATTTGTACATGGTTATATATTGTCGACATTGAATTGCTTATGAATATAGGATGCTGA
1 TGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGCTGA
* * * * *
23762423 ATTGGATTTCTATTTGATGATACATTTCCAAACTTGATTCGTGTATGGTTATACATTGTCGAATT
66 ATTGGATTTGTATATGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGCCGAATT
*
23762488 GTTTGTTATATGGATATAAGTTGCTGAATTGATTCATATATGGCTGTACCTTGC
131 GTTTGTTATATGGATATAAGTTGCTGAATTGATTCATATATGGTTGTACCTTGC
* * *
23762542 TGAAATTAATTTGTACATGGTTATATATTGTCAATATTGAATTGTTTATGAATATAGGATGCCGA
1 TGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGCTGA
* *
23762607 ATTGGATTTGTATATGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGCCAAATA
66 ATTGGATTTGTATATGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGCCGAATT
* * *
23762672 GTTTGGTATATGAATATAAGTTGCTGAATTGATTCATATATGGTTGTACATTGC
131 GTTTGTTATATGGATATAAGTTGCTGAATTGATTCATATATGGTTGTACCTTGC
* *
23762726 TAAAAATTAATTCATACATGGTTATATATTGTCGATATTGAATTGTTTATG-A-AT---A-----
1 T-GAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGCTG
* * **
23762781 AATTGGATTTGTGTATGATTATACATTGCCGAACTTGATTCGTAAATGGTTATACATTGCCGAAT
65 AATTGGATTTGTATATGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGCCGAAT
23762846 TGT
130 TGT
23762849 GGGATATATC
Statistics
Matches: 445, Mismatches: 42, Indels: 17
0.88 0.08 0.03
Matches are distributed among these distances:
175 62 0.14
180 1 0.00
183 78 0.18
184 258 0.58
185 46 0.10
ACGTcount: A:0.29, C:0.10, G:0.19, T:0.42
Consensus pattern (184 bp):
TGAAATTAATTCGTACATGGTTATATATTGTCGATATTGAATTGTTTATGAATATAGGATGCTGA
ATTGGATTTGTATATGATTATACATTTCCGAACTTGATTCGTGTATGGTTATACATTGCCGAATT
GTTTGTTATATGGATATAAGTTGCTGAATTGATTCATATATGGTTGTACCTTGC
Found at i:23780485 original size:40 final size:40
Alignment explanation
Indices: 23780303--23780525 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
23780293 TCCTCGTTCA
* * * * *
23780303 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
23780342 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
23780382 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
23780422 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
23780462 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
23780502 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23780526 CAGCATTCAA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 37 0.23
40 115 0.72
41 8 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23780534 original size:41 final size:41
Alignment explanation
Indices: 23780457--23780534 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23780447 TTAGTATCTC
* * *
23780457 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23780498 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23780535 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23788385 original size:40 final size:40
Alignment explanation
Indices: 23788202--23788371 Score: 234
Period size: 40 Copynumber: 4.3 Consensus size: 40
23788192 TCCTCGTTCA
* * * * *
23788202 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
23788241 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
23788281 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
23788321 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
23788361 AAGGCCTTCGG
1 AATGCCTTCGG
23788372 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 34 0.29
40 85 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23788408 original size:80 final size:79
Alignment explanation
Indices: 23788200--23788424 Score: 211
Period size: 80 Copynumber: 2.8 Consensus size: 79
23788190 GCTCCTCGTT
* * * * * * *
23788200 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCA-CACAATGCCTTCGGGACATAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACT-AGCACAATGCCTTCGGGACTTAACCCGG
23788264 ATTTAACAACTCGCA
65 ATTTAACAACTCGCA
* * * *
23788279 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCAC-AATGCCTTCGGGACTTAACCCGG
** *
23788344 ATTTAGTATCTCGCA
65 ATTTAACAACTCGCA
** * ** * *
23788359 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCGCTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACAATGCCTTCGGGACTTAACCCG
23788423 GA
64 GA
23788425 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 21, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
79 37 0.31
80 79 0.65
81 5 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACAATGCCTTCGGGACTTAACCCGGA
TTTAACAACTCGCA
Found at i:23801561 original size:24 final size:25
Alignment explanation
Indices: 23801532--23801579 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
23801522 ATATAAATAT
23801532 GAAAATATTC-ATTAAAAAATATAG
1 GAAAATATTCGATTAAAAAATATAG
*
23801556 GAAAATATTCGTTTAAAAAATATA
1 GAAAATATTCGATTAAAAAATATA
23801580 TACATGTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.31
Consensus pattern (25 bp):
GAAAATATTCGATTAAAAAATATAG
Found at i:23803119 original size:3 final size:3
Alignment explanation
Indices: 23803111--23803144 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23803101 AGAATCCCAG
*
23803111 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23803145 GGCATTGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:23808708 original size:3 final size:3
Alignment explanation
Indices: 23808700--23808725 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23808690 TCTATCTACT
23808700 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
23808726 TAATCTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:23822859 original size:88 final size:90
Alignment explanation
Indices: 23822733--23822918 Score: 249
Period size: 89 Copynumber: 2.1 Consensus size: 90
23822723 TGATTTTAGT
23822733 AATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTA-TATATTATAT
1 AATTCATATAAGAACATTTTATTATTAAGAATTTTATG-AATTATATATCACTATTA-ATTATAT
* *
23822797 -TAAT-ATTAATTATTTT-AATTGTATA
64 GTAATAATT-ATTATTTTAAATTATACA
* * *
23822822 AATTCATATAAGAA-ATTTTTATTA-TCAGAATTTTATGAATTATATATTATTATTAATTATATG
1 AATTCATATAAGAACA-TTTTATTATTAAGAATTTTATGAATTATATATCACTATTAATTATATG
23822885 TAATAATTATTATTTTAAATTATACA
65 TAATAATTATTATTTTAAATTATACA
23822911 AATTCATA
1 AATTCATA
23822919 ACTATAATCA
Statistics
Matches: 87, Mismatches: 5, Indels: 10
0.85 0.05 0.10
Matches are distributed among these distances:
87 20 0.23
88 27 0.31
89 40 0.46
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (90 bp):
AATTCATATAAGAACATTTTATTATTAAGAATTTTATGAATTATATATCACTATTAATTATATGT
AATAATTATTATTTTAAATTATACA
Found at i:23822999 original size:26 final size:25
Alignment explanation
Indices: 23822924--23822999 Score: 73
Period size: 26 Copynumber: 3.0 Consensus size: 25
23822914 TCATAACTAT
*
23822924 AATCATATTAGTTATA-ATATTTTA
1 AATCATATTAGTTATATATATATTA
** * * *
23822948 AATTTTATTAATCATATATTTAATTA
1 AATCATATTAGTTATATATAT-ATTA
23822974 AATCATATTAGTTATATCATATATTA
1 AATCATATTAGTTATAT-ATATATTA
23823000 TGATTTGAGT
Statistics
Matches: 38, Mismatches: 11, Indels: 4
0.72 0.21 0.08
Matches are distributed among these distances:
24 12 0.32
25 3 0.08
26 20 0.53
27 3 0.08
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (25 bp):
AATCATATTAGTTATATATATATTA
Found at i:23823085 original size:16 final size:17
Alignment explanation
Indices: 23823047--23823086 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
23823037 AATTTTATTA
23823047 AATAA-TATATTTTAAT
1 AATAATTATATTTTAAT
*
23823063 TAT-ATTATA-TTTAAT
1 AATAATTATATTTTAAT
23823078 AATAATTAT
1 AATAATTAT
23823087 GTTATTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATAATTATATTTTAAT
Found at i:23823318 original size:142 final size:145
Alignment explanation
Indices: 23823151--23823418 Score: 447
Period size: 142 Copynumber: 1.9 Consensus size: 145
23823141 ATAAGAATAT
*
23823151 TAATTATTAAGAATTTATTAAATTATATATTTTAATTAAAATATATT-TATAATAATTATGTTT-
1 TAATTATTAAGAATTTATTAAATTATATATTTTAATT-AAATATATTAAATAATAATTATGTTTA
23823214 AATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTAC
65 AATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTAC
23823276 CAAAACAAATTTCTGC
130 CAAAACAAATTTCTGC
23823292 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATATATTAAATAATAATTATGTTTA
1 TAATTATTAAGAA-TTTATTAAATTATATATTTTAATTAAATATATTAAATAATAATTATGTTTA
*
23823357 AATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
65 AATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
23823419 CAATAATCAT
Statistics
Matches: 117, Mismatches: 2, Indels: 9
0.91 0.02 0.07
Matches are distributed among these distances:
141 22 0.19
142 39 0.33
143 26 0.22
144 2 0.02
147 23 0.20
148 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (145 bp):
TAATTATTAAGAATTTATTAAATTATATATTTTAATTAAATATATTAAATAATAATTATGTTTAA
ATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTACC
AAAACAAATTTCTGC
Found at i:23823324 original size:17 final size:17
Alignment explanation
Indices: 23823304--23823337 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
23823294 ATTATTAAGA
23823304 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA-TATAT
23823321 ATTTTAATTAAATATAT
1 ATTTTAATTAAATATAT
23823338 TAAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATTTTAATTAAATATAT
Found at i:23823546 original size:43 final size:45
Alignment explanation
Indices: 23823498--23823591 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
23823488 TTACACCTCT
*
23823498 ATTACATTCAACCAAACA-CAG-TTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
23823541 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
23823586 ATTACA
1 ATTACA
23823592 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 18 0.40
44 1 0.02
45 26 0.58
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:23823591 original size:16 final size:16
Alignment explanation
Indices: 23823570--23823602 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
23823560 TTGATTTGCT
*
23823570 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
23823586 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
23823602 A
1 A
23823603 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:23823612 original size:21 final size:21
Alignment explanation
Indices: 23823583--23823625 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23823573 ACACCTCTAT
* *
23823583 TCCATTACACCTCTAATCCAA
1 TCCAATACACCGCTAATCCAA
23823604 TCCAATACACCGCTAATCCAA
1 TCCAATACACCGCTAATCCAA
23823625 T
1 T
23823626 ACAGCGAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.35, C:0.37, G:0.02, T:0.26
Consensus pattern (21 bp):
TCCAATACACCGCTAATCCAA
Found at i:23841436 original size:40 final size:40
Alignment explanation
Indices: 23841338--23841600 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
23841328 TCCTCGTTCA
* * * * *
23841338 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
23841377 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
23841417 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
23841457 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
23841497 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
23841537 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
23841577 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
23841601 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:23849407 original size:36 final size:37
Alignment explanation
Indices: 23849365--23849446 Score: 130
Period size: 40 Copynumber: 2.2 Consensus size: 37
23849355 CGGACTTACC
23849365 GATTTAATAACT-CGAATGCCTTCGGGACTTAACCCG
1 GATTTAATAACTCCGAATGCCTTCGGGACTTAACCCG
23849401 GATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 GATTTAATAACT--C-CGAATGCCTTCGGGACTTAACCCG
23849441 GATTTA
1 GATTTA
23849447 GTATCTCGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
36 12 0.29
40 30 0.71
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (37 bp):
GATTTAATAACTCCGAATGCCTTCGGGACTTAACCCG
Found at i:23849430 original size:40 final size:40
Alignment explanation
Indices: 23849377--23849522 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 40
23849367 TTTAATAACT
23849377 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* *
23849417 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * * * * * *
23849457 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CGAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
* *
23849498 C-AAAGCCTTCGGGACTTAGCCCGGA
1 CGAATGCCTTCGGGACTTAACCCGGA
23849523 CAGCATTCAA
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
39 3 0.03
40 79 0.88
41 8 0.09
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:23873122 original size:13 final size:13
Alignment explanation
Indices: 23873104--23873128 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23873094 TATTTTAATA
23873104 TTATTTTGTGTGT
1 TTATTTTGTGTGT
23873117 TTATTTTGTGTG
1 TTATTTTGTGTG
23873129 CATTTGATTG
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:0.08, C:0.00, G:0.24, T:0.68
Consensus pattern (13 bp):
TTATTTTGTGTGT
Found at i:23874232 original size:114 final size:114
Alignment explanation
Indices: 23874105--23874440 Score: 609
Period size: 114 Copynumber: 2.9 Consensus size: 114
23874095 AAATCAGCAT
* * * *
23874105 ATATATATATATATATATTGTATATTTTATAAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
23874170 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
23874219 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
23874284 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
* * *
23874333 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTGAAAGTATATAAATTGAAATTAGT
1 ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
23874398 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
66 TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATAT
23874441 GTATAAGATC
Statistics
Matches: 215, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
114 215 1.00
ACGTcount: A:0.43, C:0.03, G:0.13, T:0.41
Consensus pattern (114 bp):
ATATATATGTATATCTATTGTATATTTGATGAGCTATAATTAAAAATATATGAATTGAAATTAGT
TAAGTATGAATGTTATATATATGCATAAATGAAGTTCGAATATATGTAA
Found at i:23874964 original size:41 final size:41
Alignment explanation
Indices: 23874913--23875059 Score: 217
Period size: 41 Copynumber: 3.6 Consensus size: 41
23874903 TGGACTTTAC
23874913 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
* *
23874954 GTCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
**
23874995 ACCTAGCAGGCTAAGTGCCGGTGATCT-AAATCAGGCTATAA
1 GTCTAGCAGGCTAAGTGCCGGTGATCTGAAA-CAGGCTATAA
*
23875036 G-CTTAGCAGGTTAAGTGCCGGTGA
1 GTC-TAGCAGGCTAAGTGCCGGTGA
23875060 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
40 3 0.03
41 93 0.97
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (41 bp):
GTCTAGCAGGCTAAGTGCCGGTGATCTGAAACAGGCTATAA
Found at i:23877964 original size:28 final size:31
Alignment explanation
Indices: 23877906--23877964 Score: 79
Period size: 28 Copynumber: 2.0 Consensus size: 31
23877896 ATATATAGTT
23877906 TTTATATTATTTATAAAGGTTATAATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
* *
23877937 TTTATA-TA-TTAT-AATGTTATTATAATAA
1 TTTATATTATTTATAAAGGTTATAATAATAA
23877965 AAACAAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 14 0.54
29 4 0.15
30 2 0.08
31 6 0.23
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
TTTATATTATTTATAAAGGTTATAATAATAA
Found at i:23879693 original size:41 final size:41
Alignment explanation
Indices: 23879648--23879753 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 41
23879638 GACTTTACAT
23879648 CTAGCAGGCTAAGTGCCGGTGAATTGAATCAAGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAATTGAATCAAGCTATAAGC
* *
23879689 CTAGCAGGCTAAGTGCCGGTGAACTGAATCAGGCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGAATTGAATCAAGCTATAAGC
*
23879730 CTAGCAGG-TGAAGTGCCAGTGAAT
1 CTAGCAGGCT-AAGTGCCGGTGAAT
23879754 CTATTTAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 1 0.02
41 59 0.98
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.21
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGAATTGAATCAAGCTATAAGC
Found at i:23882732 original size:23 final size:23
Alignment explanation
Indices: 23882702--23882750 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
23882692 AAAAACAAAA
23882702 TTCTTCAAAGTAACATCAGTTTT
1 TTCTTCAAAGTAACATCAGTTTT
23882725 TTCTTCAAAGTAACATCAGTTTT
1 TTCTTCAAAGTAACATCAGTTTT
23882748 TTC
1 TTC
23882751 CACGGTTAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (23 bp):
TTCTTCAAAGTAACATCAGTTTT
Found at i:23883261 original size:17 final size:17
Alignment explanation
Indices: 23883239--23883275 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
23883229 AAAAAAAGTA
23883239 TATAACTTTATAATGAT
1 TATAACTTTATAATGAT
*
23883256 TATAACTTTATACTGAT
1 TATAACTTTATAATGAT
23883273 TAT
1 TAT
23883276 TTAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (17 bp):
TATAACTTTATAATGAT
Found at i:23888739 original size:13 final size:14
Alignment explanation
Indices: 23888718--23888755 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
23888708 TTCTTTACTA
*
23888718 AAGGAATTAAA-AG
1 AAGGCATTAAAGAG
23888731 AAGGCATTAAAGAG
1 AAGGCATTAAAGAG
23888745 AAGGCAATTAA
1 AAGGC-ATTAA
23888756 GGAAAGCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 10 0.45
14 7 0.32
15 5 0.23
ACGTcount: A:0.55, C:0.05, G:0.24, T:0.16
Consensus pattern (14 bp):
AAGGCATTAAAGAG
Found at i:23892274 original size:52 final size:52
Alignment explanation
Indices: 23892217--23892322 Score: 176
Period size: 52 Copynumber: 2.0 Consensus size: 52
23892207 AGAATTCAAT
* * *
23892217 ATCACATCAATTAACAATTATGTACTTATTATTTTGTCAATTCTTTTAAAAC
1 ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTCAAAAC
*
23892269 ATCACATCAATTAACAATTATTTACTTATTATTTTATCAATTCGTTCAAAAC
1 ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTCAAAAC
23892321 AT
1 AT
23892323 ACTCACATTT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.16, G:0.03, T:0.43
Consensus pattern (52 bp):
ATCACATCAATTAACAATTATGTACTTATTATTTTATCAATTCGTTCAAAAC
Found at i:23893588 original size:13 final size:13
Alignment explanation
Indices: 23893570--23893594 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23893560 TACTGCAACT
23893570 ATGAATTTATTTC
1 ATGAATTTATTTC
23893583 ATGAATTTATTT
1 ATGAATTTATTT
23893595 GATGTTGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.08, T:0.56
Consensus pattern (13 bp):
ATGAATTTATTTC
Found at i:23893785 original size:56 final size:52
Alignment explanation
Indices: 23893699--23893997 Score: 369
Period size: 50 Copynumber: 5.7 Consensus size: 52
23893689 GGTAAAATGA
23893699 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-T--GATCATGAGAGG
* *
23893755 TCCCATTTAAGACCATGTTTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC-T--GATCATGAGAGG
*
23893811 -CCCATGTAAGACCATGTCTGGGACATGGCATTGGCACC-GA-GATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATCATGAGAGG
* * *
23893860 TCCTATGTAAGACCATGTCTGGGACATGGCGTTGGCACC-GA-GATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATCATGAGAGG
* * **
23893910 TCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCA-CTGAT-ATGAGAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATCATGAG-AGG
*
23893961 TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
23893998 TGTCATGGTC
Statistics
Matches: 223, Mismatches: 16, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
49 9 0.04
50 89 0.40
51 35 0.16
54 2 0.01
55 34 0.15
56 54 0.24
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.24
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCTGATCATGAGAGG
Found at i:23901505 original size:96 final size:104
Alignment explanation
Indices: 23901339--23901583 Score: 301
Period size: 96 Copynumber: 2.4 Consensus size: 104
23901329 TTTGGGTAAA
*
23901339 AAGATCTCATGTAATACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCCA
1 AAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCCA
* *
23901404 TGTAAGACCATGTCTGGGACATGGCGTTGGCA-CGAGACGAG
63 TGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAG
* * *
23901445 -AGGTC-CATGTAA-ACCATGT-TGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGT-CCACTG
1 AAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCA-TG
* *
23901502 TAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAG
65 TAAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAG
* *
23901542 AATATCTCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
23901584 GTTATGATCA
Statistics
Matches: 122, Mismatches: 10, Indels: 18
0.81 0.07 0.12
Matches are distributed among these distances:
95 3 0.02
96 39 0.32
97 9 0.07
98 3 0.02
99 7 0.06
100 7 0.06
101 19 0.16
102 17 0.14
103 7 0.06
104 7 0.06
105 4 0.03
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (104 bp):
AAGATCTCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCATGT
AAGACCATGTCTGGGACATGGCATGGGCACCGAGACGAG
Found at i:23905653 original size:39 final size:40
Alignment explanation
Indices: 23905550--23905734 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
23905540 TTGAATGATG
* * *
23905550 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
23905589 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
23905630 TCCGGGCTAAG-CCTGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
23905669 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
23905708 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
23905735 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:23905687 original size:79 final size:81
Alignment explanation
Indices: 23905550--23905734 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
23905540 TTGAATGATG
*
23905550 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
23905614 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * * **
23905629 TTCCGGGCTAAG-CCTGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
23905691 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
23905709 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23905735 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 32 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:23905756 original size:79 final size:79
Alignment explanation
Indices: 23905603--23905767 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
23905593 GGACTAAGAT
* * **
23905603 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCTGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
23905668 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
23905682 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
23905745 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
23905761 CCGAAGG
1 CCGAAGG
23905768 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Done.