Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 232 of 352
Found at i:76419239 original size:39 final size:40
Alignment explanation
Indices: 76419088--76419291 Score: 324
Period size: 40 Copynumber: 5.2 Consensus size: 40
76419078 GGACTAAGAT
* * *
76419088 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
76419128 CCGAAGGCATTTGTACGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
76419168 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
76419208 CCGAAGGCATTTGTGC-AGTTACTATATCCGGGCTAAGT-
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
** *
76419246 CCGAAGGCATTTGTGCGAGTTGTTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
76419285 CCGAAGG
1 CCGAAGG
76419292 TACTTGGGTT
Statistics
Matches: 154, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
38 23 0.15
39 40 0.26
40 91 0.59
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:76427144 original size:40 final size:40
Alignment explanation
Indices: 76427079--76427324 Score: 359
Period size: 40 Copynumber: 6.2 Consensus size: 40
76427069 GAACTAAGAT
* * *
76427079 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
76427119 CCGAAGGAATTTGTACGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
76427159 CCGAAGGCATTTGTACGAGTTACTATATCCGTGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
76427199 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
76427239 CCGAAGGCATTTGTGCGATTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * ** * *
76427279 TCGAAGGTATTTGTGCGAGTTGTTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
76427318 CCGAAGG
1 CCGAAGG
76427325 TACTTGGGTT
Statistics
Matches: 188, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
39 15 0.08
40 173 0.92
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:76430676 original size:6 final size:6
Alignment explanation
Indices: 76430669--76430702 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
76430659 AGGGTACACG
*
76430669 GGCACG GGCACA GGCACA GGCACA GGCACA GGCA
1 GGCACA GGCACA GGCACA GGCACA GGCACA GGCA
76430703 TGGGCATGGG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.32, G:0.38, T:0.00
Consensus pattern (6 bp):
GGCACA
Found at i:76430708 original size:18 final size:18
Alignment explanation
Indices: 76430669--76430717 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
76430659 AGGGTACACG
76430669 GGCACGGGCACAGGCACA
1 GGCACGGGCACAGGCACA
* **
76430687 GGCACAGGCACAGGCATG
1 GGCACGGGCACAGGCACA
*
76430705 GGCATGGGCACAG
1 GGCACGGGCACAG
76430718 ACAAGGGCAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.27, C:0.29, G:0.41, T:0.04
Consensus pattern (18 bp):
GGCACGGGCACAGGCACA
Found at i:76430725 original size:18 final size:18
Alignment explanation
Indices: 76430693--76430728 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76430683 CACAGGCACA
* *
76430693 GGCACAGGCATGGGCATG
1 GGCACAGACAAGGGCATG
76430711 GGCACAGACAAGGGCATG
1 GGCACAGACAAGGGCATG
76430729 TTTCCTTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.22, G:0.42, T:0.08
Consensus pattern (18 bp):
GGCACAGACAAGGGCATG
Found at i:76442742 original size:42 final size:45
Alignment explanation
Indices: 76442681--76443140 Score: 340
Period size: 48 Copynumber: 10.0 Consensus size: 45
76442671 TCGTTTTCTT
** *
76442681 GATGCCATAGTTCAACTATGGTCTTACACAT-C-T-TCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATACATATCACAT-ATC
* *
76442723 GATGCCATAGTCCAGCTATGGCCTTACACAT-C-T-TCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATACATATCACAT-ATC
* * *
76442765 GATGCCATAGTCCAACTATGGTCTTACACAT--AT-TCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATATC
* *
76442807 GATGCCATAGCCAAGCTATGGTCTTACACGTAATCACATATCACATGTC
1 GATGCCATAGCCCAGCTATGGTCTTACAC---AT-ACATATCACATATC
76442856 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AT-ACATATCACATATC
76442904 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AT-ACATATCACATATC
* *
76442952 GATGCCATAGCCCAGCTATGGTCTTACACAAATCACATATCTCA-CT-
1 GATGCCATAGCCCAGCTATGGTCTTACAC--AT-ACATATCACATATC
* * ** * * *
76442998 GATGTCATATCCCAAATATGGTCTTATACAGTAGCATAT-ATCACACC
1 GATGCCATAGCCCAGCTATGGTCTTACACA-TA-CATATCA-CATATC
* * * * *
76443045 GATGCCATATCCCAGATATGGTCTTATACGCAAGCACATAATCACATCTTTCC
1 GATGCCATAGCCCAGCTATGGTC-T-TACAC-A-TACAT-ATCACA--TAT-C
* *
76443098 GATGCCATAGCCCAGCTATGGTCTTATACAGA-A-ATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATATC
76443141 ACATATTGTC
Statistics
Matches: 355, Mismatches: 41, Indels: 43
0.81 0.09 0.10
Matches are distributed among these distances:
41 2 0.01
42 100 0.28
43 1 0.00
44 4 0.01
45 10 0.03
46 30 0.08
47 22 0.06
48 109 0.31
49 42 0.12
50 8 0.02
51 4 0.01
52 1 0.00
53 22 0.06
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (45 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATATC
Found at i:76442824 original size:84 final size:87
Alignment explanation
Indices: 76442681--76442992 Score: 341
Period size: 84 Copynumber: 3.5 Consensus size: 87
76442671 TCGTTTTCTT
** * *
76442681 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-GATGCCATAGTCCAGCTATGGC
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACAT-ATCGATGCCATAG-CCAGCTATGGT
76442745 CTTACAC-AT-C-T-TCACATAAT-
64 CTTACACGATACATATCACAT-ATC
* *
76442765 GATGCCATAGTCCAACTATGGTCTTACACATATTCATATATCGATGCCATAGCCAAGCTATGGTC
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATATCGATGCCATAGCC-AGCTATGGTC
*
76442830 TTACACGTAATCACATATCACATGTC
65 TTACACG--AT-ACATATCACATATC
*
76442856 GATGCCATAGCCCAGCTATGGTCTTACACGGATCACATATCACATATCGATGCCATAGCCCAGCT
1 GATGCCATAGCCCAACTATGGTCTTACAC--AT---AT-TCACATATCGATGCCATAG-CCAGCT
76442921 ATGGTCTTACACGGATCACATATCACATATC
59 ATGGTCTTACAC-GAT-ACATATCACATATC
* *
76442952 GATGCCATAGCCCAGCTATGGTCTTACACA-AATCACATATC
1 GATGCCATAGCCCAACTATGGTCTTACACATATTCACATATC
76442993 TCACTGATGT
Statistics
Matches: 200, Mismatches: 10, Indels: 31
0.83 0.04 0.13
Matches are distributed among these distances:
83 4 0.02
84 61 0.31
87 2 0.01
89 10 0.05
90 3 0.01
91 33 0.17
93 2 0.01
94 1 0.00
96 47 0.23
97 34 0.17
98 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (87 bp):
GATGCCATAGCCCAACTATGGTCTTACACATATTCACATATCGATGCCATAGCCAGCTATGGTCT
TACACGATACATATCACATATC
Found at i:76442910 original size:48 final size:48
Alignment explanation
Indices: 76442791--76443146 Score: 387
Period size: 48 Copynumber: 7.3 Consensus size: 48
76442781 TATGGTCTTA
* *
76442791 CACATATTCATATATCGATGCCATAGCCAAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
76442841 CACATATCACATGTCGATGCCATAGCCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
*
76442889 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGGAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
*
76442937 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACAAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * ** * * *
76442985 CACATATCTCA-CT-GATGTCATATCCCAAATATGGTCTTATACAGTAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GAAT
* * * * * *
76443032 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTATACGCAAG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
76443079 CACATAATCACATCTTTCCGATGCCATAGCCCAGCTATGGTCTTATACAGAAAT
1 CACAT-ATCACA--TAT-CGATGCCATAGCCCAGCTATGGTCTTACAC-G-AAT
76443133 CACATATCACATAT
1 CACATATCACATAT
76443147 TGTCATGGTC
Statistics
Matches: 264, Mismatches: 32, Indels: 19
0.84 0.10 0.06
Matches are distributed among these distances:
46 25 0.09
47 43 0.16
48 110 0.42
49 36 0.14
50 6 0.02
51 2 0.01
53 34 0.13
54 8 0.03
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:76443123 original size:53 final size:53
Alignment explanation
Indices: 76442998--76443144 Score: 155
Period size: 53 Copynumber: 2.9 Consensus size: 53
76442988 ATATCTCACT
* * * * *
76442998 GATGTCATATCCCAAATATGGTCTTATACAG-TAGCATATATCACA-----CC
1 GATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACATATCACATCTTTCC
* *
76443045 GATGCCATATCCCAGATATGGTCTTATAC-GCAAGCACATAATCACATCTTTCC
1 GATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACAT-ATCACATCTTTCC
* *
76443098 GATGCCATAGCCCAGCTATGGTCTTATACAGAAATCACATATCACAT
1 GATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACATATCACAT
76443145 ATTGTCATGG
Statistics
Matches: 84, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
46 1 0.01
47 33 0.39
48 6 0.07
53 36 0.43
54 8 0.10
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.28
Consensus pattern (53 bp):
GATGCCATAGCCCAGATATGGTCTTATACAGAAAGCACATATCACATCTTTCC
Found at i:76447063 original size:40 final size:40
Alignment explanation
Indices: 76446967--76447192 Score: 312
Period size: 40 Copynumber: 5.6 Consensus size: 40
76446957 TATTCGGATG
* **
76446967 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-TAGTGACT
76447008 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
76447048 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTGACT
*
76447091 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
76447131 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
76447171 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
76447193 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.08
40 83 0.49
41 34 0.20
43 37 0.22
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:76447211 original size:83 final size:81
Alignment explanation
Indices: 76446967--76447192 Score: 366
Period size: 83 Copynumber: 2.8 Consensus size: 81
76446957 TATTCGGATG
*
76446967 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTTCCTATATCCGGGCTAAGTCCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTTACTATATCCGGGCTAAGTCCCGAAGGC
76447032 ATTTGTGCTAGTGACT
66 ATTTGTGCTAGTGACT
* *
76447048 ATATCCGGGCGAAGTCCCGAAGGCATTTGTGCGAGTAGTTACTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA--AGTTACTATATCCGGGCTAAGTCCCGAAG
76447113 GCATTTGTGCTAGTGACT
64 GCATTTGTGCTAGTGACT
* * *
76447131 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCG-AGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTTACTATATCCGGGCTAAGTCCCGAAGG
76447193 TACTTGGGTT
Statistics
Matches: 135, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
79 15 0.11
80 11 0.08
81 33 0.24
83 76 0.56
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTTACTATATCCGGGCTAAGTCCCGAAGGC
ATTTGTGCTAGTGACT
Found at i:76455166 original size:40 final size:40
Alignment explanation
Indices: 76455111--76455335 Score: 294
Period size: 40 Copynumber: 5.6 Consensus size: 40
76455101 TATTCGGATG
*
76455111 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
76455151 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAATGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
76455191 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
76455234 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
76455274 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT
*
76455314 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
76455336 TACTTTGGTT
Statistics
Matches: 161, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 14 0.09
40 111 0.69
41 1 0.01
43 33 0.20
44 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:76455266 original size:83 final size:80
Alignment explanation
Indices: 76455111--76455335 Score: 348
Period size: 83 Copynumber: 2.8 Consensus size: 80
76455101 TATTCGGATG
*
76455111 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
76455176 TTTGTGCTAATGACT
66 TTTGTGCTAATGACT
*
76455191 ATATCCGGG-TGAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAA
1 ATATCCGGGCT-AAGTCCCGAAGGCATTTGTGC--G-AGTTGCTATATCCGGGCTAAGTCCCGAA
*
76455255 GGCATTTGTGCTAGTGACT
62 GGCATTTGTGCTAATGACT
*
76455274 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGG
76455336 TACTTTGGTT
Statistics
Matches: 134, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
79 16 0.12
80 42 0.31
81 1 0.01
82 1 0.01
83 72 0.54
84 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAATGACT
Found at i:76458875 original size:7 final size:7
Alignment explanation
Indices: 76458858--76458926 Score: 63
Period size: 7 Copynumber: 9.7 Consensus size: 7
76458848 TCTATTTCAA
76458858 AAAAAAGG
1 AAAAAA-G
76458866 AAAAAAG
1 AAAAAAG
76458873 -AAAAA-
1 AAAAAAG
*
76458878 AAAAGAG
1 AAAAAAG
76458885 AAAAAA-
1 AAAAAAG
76458891 ATAAAAAG
1 A-AAAAAG
76458899 AAAAAAG
1 AAAAAAG
*
76458906 AGACAAATG
1 A-A-AAAAG
76458915 AAAAAAG
1 AAAAAAG
76458922 AAAAA
1 AAAAA
76458927 TGGAGAGGCC
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
6 10 0.20
7 27 0.53
8 9 0.18
9 5 0.10
ACGTcount: A:0.81, C:0.01, G:0.14, T:0.03
Consensus pattern (7 bp):
AAAAAAG
Found at i:76458906 original size:23 final size:23
Alignment explanation
Indices: 76458866--76458926 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
76458856 AAAAAAAAGG
*
76458866 AAAAAAGAAA-AAAAAAGAGA-A
1 AAAAAAAAAAGAAAAAAGAGACA
76458887 AAAAATAAAAAGAAAAAAGAGACA
1 AAAAA-AAAAAGAAAAAAGAGACA
**
76458911 AATGAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
76458927 TGGAGAGGCC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.15
22 4 0.12
23 21 0.62
24 4 0.12
ACGTcount: A:0.82, C:0.02, G:0.13, T:0.03
Consensus pattern (23 bp):
AAAAAAAAAAGAAAAAAGAGACA
Found at i:76459978 original size:44 final size:44
Alignment explanation
Indices: 76459774--76460267 Score: 371
Period size: 44 Copynumber: 11.2 Consensus size: 44
76459764 CAAAGAAATA
* *
76459774 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * **
76459818 AGATCTGACA-CTCCTGTGCTTACAGCGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* **
76459863 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * *
76459906 AGCA--TGGCATCCCTTTGTTTTTACGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
*
76459949 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* ** * * * * ** **
76459993 AGATCTGATATTCCTGTGCTTACAGCGAAGTAGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAG-TCGAAGATAGC
*
76460038 AGCA--TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* *
76460081 AGATTTGGCATCCCCGTGTTTATAGGGAACAAATCGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * * * **
76460125 AGATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TCGAAGATAGC
* * *
76460170 AGCA--TGGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGA
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
* * * * *
76460213 AGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAG--ATAGC
*
76460259 CGATTTGGC
1 AGATTTGGC
76460268 TTTCACTGTT
Statistics
Matches: 351, Mismatches: 79, Indels: 38
0.75 0.17 0.08
Matches are distributed among these distances:
42 3 0.01
43 71 0.20
44 226 0.64
45 36 0.10
46 15 0.04
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTCGAAGATAGC
Found at i:76460065 original size:175 final size:175
Alignment explanation
Indices: 76459774--76460166 Score: 581
Period size: 175 Copynumber: 2.2 Consensus size: 175
76459764 CAAAGAAATA
*
76459774 AGATTTGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
76459839 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATT
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
* ** * * *
76459904 TCAGCA-TGGCATCCCTTTGTTTTTACGGAACAAGTTGAAGATAGC
131 GCAG-ATTGGCATCCCCGTGTTTATACGGAACAAATCGAAGATAGC
* *
76459949 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGATATTCCTGTGCTT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
*
76460014 ACAGCGAAGTAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
66 ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
*
76460079 GCAGATTTGGCATCCCCGTGTTTATAGGGAACAAATCGAAGATAGC
131 GCAGA-TTGGCATCCCCGTGTTTATACGGAACAAATCGAAGATAGC
* * * * * * *
76460125 AGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGAT
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAATCGAAGAT
76460167 TTCAGCATGG
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
174 1 0.01
175 128 0.65
176 56 0.29
177 11 0.06
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.27
Consensus pattern (175 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGCAGATCTGACACTCCTGTGCTT
ACAGCGAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATA
GCAGATTGGCATCCCCGTGTTTATACGGAACAAATCGAAGATAGC
Found at i:76460066 original size:132 final size:132
Alignment explanation
Indices: 76459779--76460252 Score: 605
Period size: 132 Copynumber: 3.6 Consensus size: 132
76459769 AAATAAGATT
* * * * *
76459779 TGGCATCCCTGTATTTATAGGGAACAAATCGAAGATAGCAGATCTGACA-CTCCTGTGCTTACAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATC-CCTGTGCTTACAG
* * ** * * * * * * *
76459843 CGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTGTGTTTATAGGGAACAAG-TTGAAGATTT
65 GGAA-CAAATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGCGAAGAAGATCGAAGATTT
76459905 CAGCA
128 CAGCA
* * * * *
76459910 TGGCATCCCTTTGTTTTTACGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
* *
76459975 GAACAAATCGAAGATAGCAGATCTGATATTCCTGTGCTTACAGCGAAGTAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGAAGATCGAAGATTTCAG
76460040 CA
131 CA
* * *
76460042 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCCGTGTTTATAGG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
* *
76460107 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAG
66 GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGAAGATCGAAGATTTCAG
76460172 CA
131 CA
* * * *
76460174 TGGCATCCCTGTGTTTATAGGGAATAAGTTGAAGATAGAAGATTTGGCATCCTTGTGCTTACAAG
1 TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
76460239 GAACAAATCGAAGA
66 GAACAAATCGAAGA
76460253 CATAGCCGAT
Statistics
Matches: 302, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
130 14 0.05
131 75 0.25
132 213 0.71
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (132 bp):
TGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGCTTACAGG
GAACAAATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGCGAAGAAGATCGAAGATTTCAG
CA
Found at i:76460749 original size:206 final size:206
Alignment explanation
Indices: 76460214--76460732 Score: 806
Period size: 206 Copynumber: 2.5 Consensus size: 206
76460204 GAAGATAGAA
* *
76460214 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCCGATTTGGCTTTCAC-TGTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * * * *
76460278 TATGATAAAGCAAATCTAAGATAATTTGGCATCTCTGTACTGTCACAGAACAAATCGAAGTTTGC
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGC
* * * * *
76460343 CGTCTCCATATTCGATGGAGAGCAGACACATAGCAGATATAGCCTTCATATGTTTATACTGAAGC
131 CATCTCCATATTCGATGGAGAGCAGACACATAGCAGATATAACCTTCAGATGATTAGACTGAAGC
*
76460408 AGATCCAAGGT
196 AGATCCAAGAT
*
76460419 GATTTCGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
76460484 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGC
* * * *
76460549 CATCTCCATATTTGATGGAGGGCAGACACATAGCAGATCTAACCTTCAGGTGATTAGACTGAAGC
131 CATCTCCATATTCGATGGAGAGCAGACACATAGCAGATATAACCTTCAGATGATTAGACTGAAGC
76460614 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * *
76460625 GGTTTGGTATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCGCGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
76460690 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGT
76460733 TAGAAAATAG
Statistics
Matches: 287, Mismatches: 26, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
205 58 0.20
206 229 0.80
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGC
CATCTCCATATTCGATGGAGAGCAGACACATAGCAGATATAACCTTCAGATGATTAGACTGAAGC
AGATCCAAGAT
Found at i:76461163 original size:19 final size:19
Alignment explanation
Indices: 76461139--76461217 Score: 117
Period size: 19 Copynumber: 4.2 Consensus size: 19
76461129 AATCTTTAAG
76461139 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
76461158 GATATGCATTCTTAGATAT
1 GATATGCAATCTTAGATAT
76461177 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
76461194 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
76461215 GAT
1 GAT
76461218 CTTGTAATCT
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.30
19 29 0.54
21 9 0.17
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:76461186 original size:36 final size:37
Alignment explanation
Indices: 76461145--76461217 Score: 121
Period size: 36 Copynumber: 2.0 Consensus size: 37
76461135 TAAGGATATG
*
76461145 CAATCTTAGATATGATATGCATTCTT-AGATATGATA
1 CAATCTTAGATATGATATGCAATCTTAAGATATGATA
76461181 CAATCTTAGATATGATATGCAATCTTGAAGATATGAT
1 CAATCTTAGATATGATATGCAATCTT-AAGATATGAT
76461218 CTTGTAATCT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 25 0.74
38 9 0.26
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (37 bp):
CAATCTTAGATATGATATGCAATCTTAAGATATGATA
Found at i:76466619 original size:27 final size:27
Alignment explanation
Indices: 76466589--76467008 Score: 418
Period size: 27 Copynumber: 15.6 Consensus size: 27
76466579 TAATAAAGAG
*
76466589 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
76466616 AAATTATCAAAATACCC-CTAATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
*
76466643 AAATTACCAAAATACCCTCGA-TTGT-
1 AAATTACCGAAATACCCTCGATTTGTA
*
76466668 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
76466695 AAATTACCAAAATACCCCCAATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
76466722 AAATTACCGAAACACCCTTGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
76466749 AAATTACCGAAACACCCTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
76466776 AAATTATCGAAACACCCTCGATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * *
76466803 AAATTATTGAAACACCCTTGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
76466830 AAATTACCAAAATACCTTCTATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
76466857 AAATTACCAAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
**
76466884 AAATTATTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
76466911 AAATTAACGAAACACCCCCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
76466938 AAATTATCAAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
* *
76466965 AAATTACCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
* *
76466992 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
76467009 CTGTTGGGTA
Statistics
Matches: 333, Mismatches: 55, Indels: 10
0.84 0.14 0.03
Matches are distributed among these distances:
25 19 0.06
26 10 0.03
27 303 0.91
28 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:76467009 original size:81 final size:81
Alignment explanation
Indices: 76466589--76467008 Score: 463
Period size: 81 Copynumber: 5.2 Consensus size: 81
76466579 TAATAAAGAG
* * * *
76466589 AAATTACTGAAATACCCTCGATTTGTAAAATTATCAAAATACCC-CTAATTTGTAAAATTACCAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTC-GATTTGTAAAATTACCGA
*
76466653 AATACCCTCGA-TTGT-
65 AATACCCTTGATTTGTA
* * * * * *
76466668 AAATTACTGAAATACCCTCGATTTGTAAAATTACCAAAATACCCCCAATTTGTGAAATTACCGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
* *
76466733 ACACCCTTGATTTGTG
66 ATACCCTTGATTTGTA
* * * * **
76466749 AAATTACCGAAACACCCTCAATTTGTAAAATTATCGAAACACCCTCGATTTTTAAAATTATTGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
*
76466814 ACACCCTTGATTTGTA
66 ATACCCTTGATTTGTA
* * * * **
76466830 AAATTACCAAAATACCTTCTATTTGTAAAATTACCAAAATACCCTCGATTTGTAAAATTATTGAA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
*
76466895 ATACCCTCGATTTGTA
66 ATACCCTTGATTTGTA
* * * * *
76466911 AAATTAACGAAACACCCCCAATTTGTAAAATTATCAAAATACCCTTG-TAGTGTAAAATTACCGA
1 AAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCGAT-TTGTAAAATTACCGA
*
76466975 AATACCCTTG-TAGTGTA
65 AATACCCTTGAT-TTGTA
* *
76466992 AAATGACCGACATACCC
1 AAATTACCGAAATACCC
76467009 CTGTTGGGTA
Statistics
Matches: 291, Mismatches: 45, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
79 68 0.23
80 7 0.02
81 216 0.74
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCGAAATACCCTCAATTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTACCGAA
ATACCCTTGATTTGTA
Found at i:76467019 original size:27 final size:27
Alignment explanation
Indices: 76466947--76467024 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
76466937 AAAATTATCA
* * *
76466947 AAATACCCTTGTAGTGTAAAATTACCG
1 AAATACCCCTGTAGGGTAAAATGACCG
* *
76466974 AAATACCCTTGTAGTGTAAAATGACCG
1 AAATACCCCTGTAGGGTAAAATGACCG
* *
76467001 ACATACCCCTGTTGGGTAAAATGA
1 AAATACCCCTGTAGGGTAAAATGA
76467025 TTGTTTGCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAAAATGACCG
Found at i:76468702 original size:48 final size:48
Alignment explanation
Indices: 76468644--76469380 Score: 1285
Period size: 48 Copynumber: 15.3 Consensus size: 48
76468634 ATATACACAC
* *
76468644 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
76468692 ATCTCATACATATTTCACATTAGTCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76468740 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76468788 ATCTCATACATATTTCACATTAGCTATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76468836 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76468884 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76468932 ATCTCATACATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76468980 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76469028 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76469076 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
76469124 ATCTCATACATATTTCACAGTAGCCACTCGGCTTTACCACGTATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76469172 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
*
76469222 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
76469270 TTCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
76469318 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76469366 ATCTCATATATATTT
1 ATCTCATACATATTT
76469381 ATCTTGTACA
Statistics
Matches: 660, Mismatches: 27, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
48 614 0.93
50 46 0.07
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:76471638 original size:28 final size:27
Alignment explanation
Indices: 76471547--76471646 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 27
76471537 CTGACTGATT
* *
76471547 TCGCACACATAGCGCTC-GATTAAAGAAA
1 TCGCACACATAGTGCTCAG-TT-AAGAAC
* **
76471575 TCGCACACATAGTGCCTCAATTACCAATC
1 TCGCACACATAGTG-CTCAGTTAAGAA-C
76471604 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCAGTT-AAGAAC
* *
76471632 TTGCACACACAGTGC
1 TCGCACACATAGTGC
76471647 CTCATAACTC
Statistics
Matches: 58, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
28 36 0.62
29 22 0.38
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (27 bp):
TCGCACACATAGTGCTCAGTTAAGAAC
Found at i:76471723 original size:40 final size:40
Alignment explanation
Indices: 76471678--76472046 Score: 596
Period size: 40 Copynumber: 9.2 Consensus size: 40
76471668 TCTTCGAGGT
* * * *
76471678 TTAGCCTGGATATATCACTAGCACGAAAGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
76471718 TTAGCCCAGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
76471758 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
*
76471798 TTAGCCTGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
76471838 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
76471878 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* *
76471918 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCAGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
76471958 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
* * * *
76471998 TTAGCCCGGCTATAACA-TCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATACATCACT-AGCACGAATGCTCTTCGGAAC
76472038 TTAGCCCGG
1 TTAGCCCGG
76472047 TTATATAACT
Statistics
Matches: 308, Mismatches: 20, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
39 1 0.00
40 307 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
Found at i:76473527 original size:48 final size:48
Alignment explanation
Indices: 76473469--76473917 Score: 763
Period size: 48 Copynumber: 9.3 Consensus size: 48
76473459 ATATACACAC
* *
76473469 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76473517 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76473565 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76473613 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
76473661 ATCTCATACATATTTCACAGTAGCCACTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
76473709 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
* * *
76473759 TTCTCATACATATTTCACATTAGCCATTCGACTTTACCATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
76473807 TTCTCATACATATTTCACTTTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
76473855 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTGCCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
76473903 ATCTCATATATATTT
1 ATCTCATACATATTT
76473918 ATCTTGTACA
Statistics
Matches: 382, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
48 337 0.88
50 45 0.12
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:76480079 original size:43 final size:43
Alignment explanation
Indices: 76479954--76480110 Score: 135
Period size: 43 Copynumber: 3.7 Consensus size: 43
76479944 TGTGTTATCA
*
76479954 TGTAAGACCA-AGTCTGGGAC-GTTGGCATCGAT-TTGTGATTTATG
1 TGTAAGACCATA-TCTGGGACAG-TGGCATCGATATT-TGATTT-CG
* * * * *
76479998 TGTAAGACCATGTCTAGGACATTGGCATTG-TATATGATTTCG
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTTCG
* * *
76480040 TGTAAGACCCTATCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTTCG
**
76480083 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATATCTGGGACAG-TGGCAT
76480111 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 17, Indels: 11
0.76 0.14 0.09
Matches are distributed among these distances:
42 27 0.30
43 39 0.43
44 25 0.27
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATATCTGGGACAGTGGCATCGATATTTGATTTCG
Found at i:76485860 original size:45 final size:44
Alignment explanation
Indices: 76485794--76485918 Score: 142
Period size: 45 Copynumber: 2.8 Consensus size: 44
76485784 GTTGAAAAAC
* * * **
76485794 GAGTAAGACCATAGCTAAAAGACATTATTGCATCGTGAATCAAA
1 GAGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCAAA
* *
76485838 TGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTCAAA
1 -GAGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCAAA
* * *
76485883 CATGTAAGACCATAGTTGAAAGACTCTATGGCATCA
1 GA-GTAAGACCATAGCTGAAAGACACTATGGCATCA
76485919 TGTCAGGAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
44 1 0.01
45 68 0.99
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.22
Consensus pattern (44 bp):
GAGTAAGACCATAGCTGAAAGACACTATGGCATCACGAATCAAA
Found at i:76488166 original size:20 final size:20
Alignment explanation
Indices: 76488141--76488178 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
76488131 TCATGTCTCC
*
76488141 GGTCTACATGCCCATGTGGT
1 GGTCTACACGCCCATGTGGT
76488161 GGTCTACACGCCCATGTG
1 GGTCTACACGCCCATGTG
76488179 CAAGCTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (20 bp):
GGTCTACACGCCCATGTGGT
Found at i:76498603 original size:21 final size:21
Alignment explanation
Indices: 76498579--76498622 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
76498569 CCGTGTTGAT
76498579 TTCGTACTTTGGCCCATTT-TC
1 TTCGT-CTTTGGCCCATTTCTC
* *
76498600 TTCGTTTTTGGCCCGTTTCTC
1 TTCGTCTTTGGCCCATTTCTC
76498621 TT
1 TT
76498623 TCCTTTCGCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.05, C:0.27, G:0.16, T:0.52
Consensus pattern (21 bp):
TTCGTCTTTGGCCCATTTCTC
Found at i:76505046 original size:24 final size:24
Alignment explanation
Indices: 76504979--76505046 Score: 93
Period size: 24 Copynumber: 2.8 Consensus size: 24
76504969 GCTGATAAAC
* *
76504979 AGTAAGCTCTAATGAGCTG-GAAAT
1 AGTAAGCTCTAACGAGCTGAG-ATT
76505003 AGTAAGCTCTAACGAGCTGAGATT
1 AGTAAGCTCTAACGAGCTGAGATT
*
76505027 AGTAAGCTCTTACGAGCTGA
1 AGTAAGCTCTAACGAGCTGA
76505047 TATATCGGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 39 0.98
25 1 0.03
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (24 bp):
AGTAAGCTCTAACGAGCTGAGATT
Found at i:76505066 original size:26 final size:23
Alignment explanation
Indices: 76504979--76505071 Score: 80
Period size: 24 Copynumber: 3.8 Consensus size: 23
76504969 GCTGATAAAC
* *
76504979 AGTAAGCTCTAATGAGCTG-GAAAT
1 AGTAAGCTCT-ACGAGCTGAG-ATT
76505003 AGTAAGCTCTAACGAGCTGAGATT
1 AGTAAGCTCT-ACGAGCTGAGATT
*
76505027 AGTAAGCTCTTACGAGCTGATATAT
1 AGTAAGCTC-TACGAGCTGAGAT-T
*
76505052 CGGTAAGCTCATACGAGCTG
1 -AGTAAGCTC-TACGAGCTG
76505072 CGGTGAGTCC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
24 40 0.67
25 3 0.05
26 17 0.28
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTACGAGCTGAGATT
Found at i:76512219 original size:23 final size:24
Alignment explanation
Indices: 76512155--76512221 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
76512145 GCTCCTCCTA
76512155 AGCTGATAAACAGTAAGCTCGAACG
1 AGCTGA-AAACAGTAAGCTCGAACG
* *
76512180 AGTTGAAAACAGTAAGCTCG-ATG
1 AGCTGAAAACAGTAAGCTCGAACG
* *
76512203 AGCTGAGATCAGTAAGCTC
1 AGCTGAAAACAGTAAGCTC
76512222 TTAAGAGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 18 0.49
24 14 0.38
25 5 0.14
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.19
Consensus pattern (24 bp):
AGCTGAAAACAGTAAGCTCGAACG
Found at i:76519115 original size:26 final size:25
Alignment explanation
Indices: 76519086--76519167 Score: 128
Period size: 26 Copynumber: 3.2 Consensus size: 25
76519076 TGGTACAAAT
76519086 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
*
76519112 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
76519138 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTTCCA
76519164 TGAT
1 TGAT
76519168 TGGAATTTCA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
25 2 0.04
26 48 0.92
27 2 0.04
ACGTcount: A:0.34, C:0.07, G:0.23, T:0.35
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:76520681 original size:26 final size:26
Alignment explanation
Indices: 76520652--76520704 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
76520642 TTTACAGTTT
*
76520652 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCATAGG-GATAAATTGACCAAAA
* *
76520678 TACCCATAGGGTTAAATTGACCTAAA
1 TACCCATAGGGATAAATTGACCAAAA
76520704 T
1 T
76520705 GCATGTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCATAGGGATAAATTGACCAAAA
Found at i:76530056 original size:18 final size:19
Alignment explanation
Indices: 76530021--76530065 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
76530011 ATGAAACATA
76530021 ATAGA-AAAGAGAAAATTG
1 ATAGAGAAAGAGAAAATTG
*
76530039 ATAGAGAAAGAG-AGATTG
1 ATAGAGAAAGAGAAAATTG
*
76530057 AGAGAGAAA
1 ATAGAGAAA
76530066 AAATCAGAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.58, C:0.00, G:0.29, T:0.13
Consensus pattern (19 bp):
ATAGAGAAAGAGAAAATTG
Found at i:76533847 original size:131 final size:129
Alignment explanation
Indices: 76533603--76533935 Score: 454
Period size: 131 Copynumber: 2.6 Consensus size: 129
76533593 TAATTATCCA
* *
76533603 TTTAAAAATTCTTTAAAACAAAGGCGATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTATC
1 TTTAAAAATTCTTTAAAAC-AAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACC
** * * *
76533668 ATGCTGGGTTGCAATTTCCTTTTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGT
65 ATGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
*
76533733 CTTTAAAAATTCTTTAAAACGAAGGAAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAC
1 -TTTAAAAATTCTTTAAAAC-AAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTAC
*
76533798 CATGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATGTCCCTTTAGAATTTCACTCATG
64 CATGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATATCCCTTTAGAATTTCACTCATG
76533863 T
129 T
** * * * * * * **
76533864 TTTCTAAATTC--TAAAACAAGGCAATGTACAATGTCTAGAAATTCGAGGAATCGTGCCCTACTG
1 TTTAAAAATTCTTTAAAACAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACCA
76533927 TGCTGGGTT
66 TGCTGGGTT
76533936 TCGGTTTTTC
Statistics
Matches: 181, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
127 46 0.25
128 6 0.03
130 9 0.05
131 120 0.66
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (129 bp):
TTTAAAAATTCTTTAAAACAAGGCAATGTTCGATGTTTGGCAATTCGGGGAATCGTGCCCTACCA
TGCTGGGTTGCAATTTCCCGTTTGTCCAAAATAATCAAATATCCCTTTAGAATTTCACTCATGT
Found at i:76536982 original size:122 final size:122
Alignment explanation
Indices: 76536765--76537008 Score: 434
Period size: 122 Copynumber: 2.0 Consensus size: 122
76536755 ATCTCTGGCA
* *
76536765 CTTATCACTATTAGTGTCTTTGCTAGAAATGCTCATTATCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAATGCTCATTACCAGGCATGTATCTTAGCTGCTTGTTT
76536830 ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
66 ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
*
76536887 CTTATCACTATTAGTGTCTTTGATAGAATTGCTCATTACCAGGCATGTATCTTAGCTGCTTGTTT
1 CTTATCACTATTAGTGTCTTTGATAGAAATGCTCATTACCAGGCATGTATCTTAGCTGCTTGTTT
* * *
76536952 ACTGATGTACATGTAAGATGCTTTGGTTAATGTATGTGTTTCCTTACTGCAATGTAT
66 ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
76537009 TAATATCCTC
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
122 116 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (122 bp):
CTTATCACTATTAGTGTCTTTGATAGAAATGCTCATTACCAGGCATGTATCTTAGCTGCTTGTTT
ACTGATGTACATGTAAGATGCTATAGTTAATGTATGCGTTTCCTTACTGCAATGTAT
Found at i:76540253 original size:10 final size:9
Alignment explanation
Indices: 76540238--76540382 Score: 51
Period size: 9 Copynumber: 15.7 Consensus size: 9
76540228 TTTTTTTCAT
76540238 AAAAATAATA
1 AAAAAT-ATA
*
76540248 AAAAATAGA
1 AAAAATATA
*
76540257 AAAAAGCATA
1 AAAAA-TATA
* *
76540267 AAAAATTTT
1 AAAAATATA
76540276 AAAAATATA
1 AAAAATATA
*
76540285 AAAATTAATA
1 AAAAAT-ATA
** *
76540295 AAACTTATT
1 AAAAATATA
*
76540304 AAAATTATA
1 AAAAATATA
**
76540313 AAAGCT-T-
1 AAAAATATA
*
76540320 ATAAATATTA
1 AAAAATA-TA
*
76540330 TAAAATATA
1 AAAAATATA
*
76540339 AAAAATCTA
1 AAAAATATA
* *
76540348 ATTAAATCTA
1 A-AAAATATA
*
76540358 ATAAATTATA
1 A-AAAATATA
*
76540368 AAAAAAATA
1 AAAAATATA
*
76540377 TAAAAT
1 AAAAAT
76540383 TAATAAAACT
Statistics
Matches: 99, Mismatches: 30, Indels: 13
0.70 0.21 0.09
Matches are distributed among these distances:
7 3 0.03
8 1 0.01
9 54 0.55
10 41 0.41
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATATA
Found at i:76540307 original size:19 final size:18
Alignment explanation
Indices: 76540285--76540334 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 18
76540275 TAAAAATATA
76540285 AAAATTAATAAAACTTATT
1 AAAATT-ATAAAACTTATT
76540304 AAAATTATAAAAGCTTA-T
1 AAAATTATAAAA-CTTATT
76540322 AAATATTATAAAA
1 AAA-ATTATAAAA
76540335 TATAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 10 0.34
19 19 0.66
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATAAAACTTATT
Found at i:76540323 original size:28 final size:26
Alignment explanation
Indices: 76540258--76540341 Score: 75
Period size: 28 Copynumber: 3.2 Consensus size: 26
76540248 AAAAATAGAA
* *
76540258 AAAAGCATAAAAAATT-TTAAAAATAT
1 AAAAGCTTATAAAATTATT-AAAATAT
*
76540284 AAAA-ATTAATAAAACTTATTAAAATTAT
1 AAAAGCTT-ATAAAA-TTATTAAAA-TAT
76540312 AAAAGCTTATAAATATTA-TAAAATAT
1 AAAAGCTTATAAA-ATTATTAAAATAT
76540338 AAAA
1 AAAA
76540342 AATCTAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
25 1 0.02
26 16 0.33
27 11 0.23
28 17 0.35
29 3 0.06
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (26 bp):
AAAAGCTTATAAAATTATTAAAATAT
Found at i:76540332 original size:47 final size:46
Alignment explanation
Indices: 76540276--76540402 Score: 120
Period size: 47 Copynumber: 2.7 Consensus size: 46
76540266 AAAAAATTTT
76540276 AAAAATATAAAAATTAATAAAACTTATTAAAAT-T-ATAAAAGCTTATA
1 AAAAATATAAAAATTAATAAAACTTATTAAAATCTAAT-AAA--TTATA
* * *
76540323 AATATTAT-AAAATATAA-AAAATCTAATT-AAATCTAATAAATTATA
1 AAAAATATAAAAAT-TAATAAAA-CTTATTAAAATCTAATAAATTATA
*
76540368 AAAAAAATATAAAATTAATAAAACTTAATTAAAAT
1 AAAAATATA-AAAATTAATAAAACTT-ATTAAAAT
76540403 ATTTAAAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
45 10 0.16
46 18 0.28
47 30 0.47
48 6 0.09
ACGTcount: A:0.63, C:0.04, G:0.01, T:0.32
Consensus pattern (46 bp):
AAAAATATAAAAATTAATAAAACTTATTAAAATCTAATAAATTATA
Found at i:76540343 original size:28 final size:28
Alignment explanation
Indices: 76540240--76540372 Score: 71
Period size: 27 Copynumber: 4.8 Consensus size: 28
76540230 TTTTTCATAA
* * * *
76540240 AAATAATAAAAAATAGAAAAAAGCATA-
1 AAATATTATAAAATATAAAAAAGCTTAT
* *
76540267 AAAAATTTTAAAA-ATATAAAAA--TTAAT
1 AAATATTATAAAATATA-AAAAAGCTT-AT
*
76540294 AAA-ACTTATTAAAAT-TATAAAAGCTTAT
1 AAATA-TTA-TAAAATATAAAAAAGCTTAT
* *
76540322 AAATATTATAAAATATAAAAAATCTAATT
1 AAATATTATAAAATATAAAAAAGCTTA-T
* * *
76540351 AAATCTAATAAATTATAAAAAA
1 AAATATTATAAAATATAAAAAA
76540373 AATATAAAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 20
0.70 0.12 0.17
Matches are distributed among these distances:
25 1 0.01
26 4 0.05
27 29 0.36
28 24 0.30
29 23 0.28
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (28 bp):
AAATATTATAAAATATAAAAAAGCTTAT
Found at i:76540395 original size:10 final size:9
Alignment explanation
Indices: 76540285--76540402 Score: 66
Period size: 10 Copynumber: 12.6 Consensus size: 9
76540275 TAAAAATATA
76540285 AAAATTAAT
1 AAAATTAAT
*
76540294 AAAACTTATT
1 AAAA-TTAAT
76540304 AAAATT-AT
1 AAAATTAAT
76540312 AAAAGCTT-AT
1 AAAA--TTAAT
76540322 AAATATT-AT
1 AAA-ATTAAT
76540331 AAAATATAA-
1 AAAAT-TAAT
76540340 AAAATCTAAT
1 AAAAT-TAAT
*
76540350 TAAATCTAAT
1 AAAAT-TAAT
* *
76540360 AAATTATAAA
1 AAAAT-TAAT
*
76540370 AAAAAT-AT
1 AAAATTAAT
76540378 AAAATTAAT
1 AAAATTAAT
76540387 AAAACTTAATT
1 AAAA-TTAA-T
76540398 AAAAT
1 AAAAT
76540403 ATTTAAAATT
Statistics
Matches: 87, Mismatches: 12, Indels: 19
0.74 0.10 0.16
Matches are distributed among these distances:
8 13 0.15
9 29 0.33
10 39 0.45
11 6 0.07
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (9 bp):
AAAATTAAT
Found at i:76540710 original size:16 final size:15
Alignment explanation
Indices: 76540691--76540734 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
76540681 AAACAATTAG
*
76540691 TTAATTAATTAAAGTT
1 TTAATTAACT-AAGTT
76540707 TTAATTAACTAAGTT
1 TTAATTAACTAAGTT
*
76540722 TAAATTTAACTAA
1 TTAA-TTAACTAA
76540735 TTATATGTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (15 bp):
TTAATTAACTAAGTT
Found at i:76545244 original size:79 final size:79
Alignment explanation
Indices: 76545149--76545362 Score: 241
Period size: 79 Copynumber: 2.7 Consensus size: 79
76545139 GTATGCAGTG
* *
76545149 CTTGGAGACAACTTGCATTTCACCAGTTCGCAGCTTCATCTCAGTTCGCAAGCTCTTTGTTTGTA
1 CTTGGAGACAATTTGCATTTCACCAGTTCGCAGCTCCATCTCAGTTCGCAAGCTCTTTGTTTGTA
* * *
76545214 GCTCGCATGCAGCC
66 CCTCACATGCAACC
* * * * *
76545228 CTTGGAGACCATTTGCATTGCACCAGTTCACAGCTCCATCTCAGCTT-ACAAGCTTTTTGTTTGT
1 CTTGGAGACAATTTGCATTTCACCAGTTCGCAGCTCCATCTCAG-TTCGCAAGCTCTTTGTTTGT
76545292 ACCTCACATGCAACC
65 ACCTCACATGCAACC
* ** ** * ** *
76545307 TTTGGAGACTGTTCACACTTCATTAGTTCGCAGCTCCATCCCAGTTCGCAAGCTCT
1 CTTGGAGACAATTTGCATTTCACCAGTTCGCAGCTCCATCTCAGTTCGCAAGCTCT
76545363 CTTCTTGCAG
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
78 2 0.02
79 106 0.96
80 2 0.02
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.32
Consensus pattern (79 bp):
CTTGGAGACAATTTGCATTTCACCAGTTCGCAGCTCCATCTCAGTTCGCAAGCTCTTTGTTTGTA
CCTCACATGCAACC
Found at i:76547200 original size:27 final size:26
Alignment explanation
Indices: 76547170--76547232 Score: 83
Period size: 26 Copynumber: 2.4 Consensus size: 26
76547160 ATTTACTAAA
76547170 ATACCCTTATGTATG-AAAATTACCATT
1 ATACCCTTA-G-ATGCAAAATTACCATT
*
76547197 ATACCCTTAGGTGCAAAATTACCATT
1 ATACCCTTAGATGCAAAATTACCATT
*
76547223 ATGCCCTTAG
1 ATACCCTTAG
76547233 GGTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 2 0.06
26 22 0.67
27 9 0.27
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (26 bp):
ATACCCTTAGATGCAAAATTACCATT
Found at i:76547435 original size:27 final size:28
Alignment explanation
Indices: 76547337--76547440 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 28
76547327 GAGGAAGCGT
76547337 TCTGGTGGCTCTGCCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
76547364 TCTGGTGGTTTTGCCACAAATATCTGT-
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
76547391 TTTGGTGGCTTTGCCAC-AATATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTGTA
* *
76547418 TCTGGTGACTCTGTCAC-AATATC
1 TCTGGTGGCTCTGCCACAAATATC
76547441 AGTTCTAGCA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
26 9 0.13
27 58 0.87
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.37
Consensus pattern (28 bp):
TCTGGTGGCTCTGCCACAAATATCTGTA
Found at i:76555417 original size:49 final size:49
Alignment explanation
Indices: 76555339--76555584 Score: 296
Period size: 49 Copynumber: 5.0 Consensus size: 49
76555329 GTAGCCAAAG
* * *
76555339 CTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* * * *
76555388 TTATCCGGTACACGTAGTAGCCTGCACTTAGTATTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AA
* * * *
76555438 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA
* * * *
76555488 GTTAT-TAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -CTATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
* *
76555538 CAATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
76555585 TCACAATAGC
Statistics
Matches: 165, Mismatches: 27, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
49 79 0.48
50 49 0.30
51 37 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAA
Found at i:76555570 original size:100 final size:99
Alignment explanation
Indices: 76555341--76555584 Score: 337
Period size: 100 Copynumber: 2.5 Consensus size: 99
76555331 AGCCAAAGCT
* * * * * *
76555341 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
* * *
76555406 AGCCTGCACTTAGTATTACACACGTGACCTAACC
66 AGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
76555440 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATTAGGTACGCATA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCAGGTACACATA
*
76555505 GTAGCCTGCACTTAGTACTACACATGCGACC-AACA
64 GTAGCCTGCACTTAGTACTACACACGCGACCTAACA
76555540 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
76555585 TCACAATAGC
Statistics
Matches: 127, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
99 39 0.31
100 48 0.38
101 40 0.31
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (99 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCAGGTACACATAGT
AGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:76556054 original size:30 final size:30
Alignment explanation
Indices: 76556020--76556080 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
76556010 TCCTTAAATC
*
76556020 AAACTTTGGCAAAATTACAATTTTTCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
76556050 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
76556080 A
1 A
76556081 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:76558131 original size:16 final size:15
Alignment explanation
Indices: 76558084--76558151 Score: 68
Period size: 15 Copynumber: 4.5 Consensus size: 15
76558074 TCCAAAAAAA
*
76558084 CCAAGATAGAGAAAT
1 CCAAGATAAAGAAAT
* *
76558099 CTAA-A-ACAGAGAAT
1 CCAAGATAAAGA-AAT
76558113 CCAAGAATAAAGAAAT
1 CCAAG-ATAAAGAAAT
76558129 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
76558144 CCATGATA
1 CCAAGATA
76558152 CGAGAATCCA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
13 4 0.09
14 7 0.16
15 20 0.45
16 9 0.20
17 4 0.09
ACGTcount: A:0.56, C:0.15, G:0.15, T:0.15
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:76560888 original size:49 final size:49
Alignment explanation
Indices: 76560816--76560989 Score: 233
Period size: 51 Copynumber: 3.5 Consensus size: 49
76560806 CTGGTATGCA
*
76560816 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
* * * *
76560865 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AA-TTATCAGGTACACG
* ** *
76560916 TAGTAGCCTGCACTTAGTACTACATATGCGA-CAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
*
76560964 TAGTAGCTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
76560990 CGTGACCTCA
Statistics
Matches: 108, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
48 33 0.31
49 33 0.31
50 3 0.03
51 39 0.36
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAGGTACACG
Found at i:76560927 original size:51 final size:49
Alignment explanation
Indices: 76560803--76560996 Score: 228
Period size: 49 Copynumber: 3.9 Consensus size: 49
76560793 TAGCCGAAGC
** *
76560803 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * *
76560852 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AA-T
* * * * *
76560903 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGA-CAAC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
* * * *
76560951 AATCTGGTACACGTAGTAGCTTGCACTTAGTACTACACACGTGACC
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
76560997 TCAAAATAGC
Statistics
Matches: 121, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
48 36 0.30
49 43 0.36
50 3 0.02
51 39 0.32
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAAT
Found at i:76560990 original size:99 final size:100
Alignment explanation
Indices: 76560803--76560997 Score: 320
Period size: 99 Copynumber: 2.0 Consensus size: 100
76560793 TAGCCGAAGC
* * **
76560803 TATCTGGTATGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAG
76560868 TAGCCTGCACTTAGTACTACACACGTGACCTAAGT
66 TAGCCTGCACTTAGTACTACACACGTGACCTAAGT
* *
76560903 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACATATGCGA-CAACAATCTGGTACACGTAG
1 TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAG
*
76560967 TAGCTTGCACTTAGTACTACACACGTGACCT
66 TAGCCTGCACTTAGTACTACACACGTGACCT
76560998 CAAAATAGCT
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
99 47 0.53
100 41 0.47
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.27
Consensus pattern (100 bp):
TATCAGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCCGGTACACGTAG
TAGCCTGCACTTAGTACTACACACGTGACCTAAGT
Found at i:76563092 original size:27 final size:27
Alignment explanation
Indices: 76563061--76563123 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
76563051 AATTTACTAA
76563061 AATACCCCTAAGTATG-AAAATTACCAT
1 AATACCCCTAA-TATGCAAAATTACCAT
*
76563088 AATACCCCT-ATGTGCAAAATTACCAT
1 AATACCCCTAATATGCAAAATTACCAT
*
76563114 TATACCCCTA
1 AATACCCCTA
76563124 TGGTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
25 3 0.09
26 20 0.62
27 9 0.28
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (27 bp):
AATACCCCTAATATGCAAAATTACCAT
Found at i:76564608 original size:46 final size:46
Alignment explanation
Indices: 76564558--76564730 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
76564548 TGGTTGAGCA
76564558 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
76564604 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
**
76564649 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
76564697 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76564731 GGGGTGGGTT
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.58
47 29 0.27
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:76564714 original size:93 final size:93
Alignment explanation
Indices: 76564555--76564725 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
76564545 GGATGGTTGA
***
76564555 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
76564620 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
76564648 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
76564713 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
76564726 ACTTAGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:76566110 original size:27 final size:27
Alignment explanation
Indices: 76566046--76566147 Score: 125
Period size: 27 Copynumber: 3.7 Consensus size: 27
76566036 GGGCGTTACA
* * *
76566046 GTGGCTTTGCCACAAATATCTGTGTTTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
*
76566074 GTAGCTCTGCCACAAATATCTGT-TCTG
1 GTGGCTCTGCCAC-AATATCTGTATCTG
76566101 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
76566128 GTGACTCTGTCACAATATCT
1 GTGGCTCTGCCACAATATCT
76566148 ATTCTGGCAG
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.13
27 37 0.55
28 21 0.31
ACGTcount: A:0.21, C:0.24, G:0.21, T:0.35
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:76566136 original size:54 final size:54
Alignment explanation
Indices: 76566046--76566154 Score: 141
Period size: 54 Copynumber: 2.0 Consensus size: 54
76566036 GGGCGTTACA
* * * *
76566046 GTGGCTTTGCCACAAATATCTGTGTTTGGTAGCTCTGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAAATATCTGTATCTGGTAGCTCTGCCAC-AATATCTATTCTG
*
76566101 GTGGCTCTGCCAC-AATATCTGTATCTGGT-GACTCTGTCACAATATCTATTCTG
1 GTGGCTCTGCCACAAATATCTGTATCTGGTAG-CTCTGCCACAATATCTATTCTG
76566154 G
1 G
76566155 CAGTCATGCT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 14 0.29
54 22 0.46
55 12 0.25
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (54 bp):
GTGGCTCTGCCACAAATATCTGTATCTGGTAGCTCTGCCACAATATCTATTCTG
Found at i:76571202 original size:33 final size:33
Alignment explanation
Indices: 76571129--76571206 Score: 88
Period size: 33 Copynumber: 2.4 Consensus size: 33
76571119 ATATGTATAC
* *
76571129 GTGTAAGACCA-AAGCTGGGCTATGGCATCCTA
1 GTGTAAGACCATAAGCTGGGCTATGGCATACGA
* *
76571161 ATGATAAGACCATAA-CTGGGTTATGGCATTACGA
1 GTG-TAAGACCATAAGCTGGGCTATGGCA-TACGA
76571195 GTGTAAGACCAT
1 GTGTAAGACCAT
76571207 GGTAGGGCCA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
32 2 0.05
33 29 0.76
34 7 0.18
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (33 bp):
GTGTAAGACCATAAGCTGGGCTATGGCATACGA
Found at i:76571251 original size:30 final size:30
Alignment explanation
Indices: 76571195--76571251 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
76571185 GGCATTACGA
* *
76571195 GTGTAAGACCATGGTAGGGCCATGGCAATT
1 GTGTAAGACCATAGTAGGACCATGGCAATT
* *
76571225 GTGTAAGACCATAGTTGGACCGTGGCA
1 GTGTAAGACCATAGTAGGACCATGGCA
76571252 TCAAGAAAAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (30 bp):
GTGTAAGACCATAGTAGGACCATGGCAATT
Found at i:76571501 original size:24 final size:24
Alignment explanation
Indices: 76571474--76571522 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
76571464 AAAGCCTATG
*
76571474 AACCTATTAGGCTTCATTAAGCTT
1 AACCTATTAAGCTTCATTAAGCTT
76571498 AACCTATTAAGCTTCATTAAGCTT
1 AACCTATTAAGCTTCATTAAGCTT
76571522 A
1 A
76571523 CTTGTGTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (24 bp):
AACCTATTAAGCTTCATTAAGCTT
Found at i:76573830 original size:27 final size:27
Alignment explanation
Indices: 76573792--76573855 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
76573782 CCCCAAAATG
*
76573792 GGTAAAATGATCGTAGTGTCCC-TGCAA
1 GGTAAAATGATCGTAATG-CCCTTGCAA
* *
76573819 GGTAAAATGATCGTAATGCCCTTGTAG
1 GGTAAAATGATCGTAATGCCCTTGCAA
76573846 GGTAAAATGA
1 GGTAAAATGA
76573856 CTGTAATACC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
26 3 0.09
27 30 0.91
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.27
Consensus pattern (27 bp):
GGTAAAATGATCGTAATGCCCTTGCAA
Found at i:76573861 original size:27 final size:27
Alignment explanation
Indices: 76573819--76573937 Score: 132
Period size: 27 Copynumber: 4.4 Consensus size: 27
76573809 GTCCCTGCAA
* *
76573819 GGTAAAATGA-TCGTAATGCCCTTGTAG
1 GGTAAAATGACT-GTAATACCCCTGTAG
*
76573846 GGTAAAATGACTGTAATACCCCTATAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* *
76573873 GGTAAAATGACTGTAATGCCGCTGTAG
1 GGTAAAATGACTGTAATACCCCTGTAG
* * * * *
76573900 GATAAAGTGTCCGTAATACCCCTGTAT
1 GGTAAAATGACTGTAATACCCCTGTAG
76573927 GGTAAAATGAC
1 GGTAAAATGAC
76573938 GATTATGCCC
Statistics
Matches: 75, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
27 74 0.99
28 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.27
Consensus pattern (27 bp):
GGTAAAATGACTGTAATACCCCTGTAG
Found at i:76573877 original size:54 final size:53
Alignment explanation
Indices: 76573819--76573949 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 53
76573809 GTCCCTGCAA
* *
76573819 GGTAAAATGATCGTAATGCCCTTGTAGGGTAAAATGACTGTAATACCCCTATAG
1 GGTAAAATGA-CGTAATGCCCTTGTAGGATAAAATGACCGTAATACCCCTATAG
* * * *
76573873 GGTAAAATGACTGTAATGCCGC-TGTAGGATAAAGTGTCCGTAATACCCCTGTAT
1 GGTAAAATGAC-GTAATGCC-CTTGTAGGATAAAATGACCGTAATACCCCTATAG
*
76573927 GGTAAAATGACGATTATGCCCTT
1 GGTAAAATGACG-TAATGCCCTT
76573950 ATGTTTCGTA
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
53 3 0.05
54 62 0.94
55 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (53 bp):
GGTAAAATGACGTAATGCCCTTGTAGGATAAAATGACCGTAATACCCCTATAG
Found at i:76582489 original size:40 final size:40
Alignment explanation
Indices: 76582248--76582470 Score: 313
Period size: 40 Copynumber: 5.6 Consensus size: 40
76582238 CGGATGATAA
* * *
76582248 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* *
76582288 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
76582328 CCGGGCTAAGTCCCAAAGGCATTTGTGCAAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
76582368 CCGGGCTAAGTCCCGAAGGAATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
76582408 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
76582448 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
76582471 CGAGTAAGTA
Statistics
Matches: 165, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
40 165 1.00
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:76584282 original size:15 final size:16
Alignment explanation
Indices: 76584262--76584300 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
76584252 AATTGGAAAG
*
76584262 ATGAAAAGTT-ATTAA
1 ATGAAAAATTAATTAA
76584277 ATGAAAAATTAATTAA
1 ATGAAAAATTAATTAA
76584293 ATGAAAAA
1 ATGAAAAA
76584301 AAATTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (16 bp):
ATGAAAAATTAATTAA
Found at i:76584635 original size:20 final size:20
Alignment explanation
Indices: 76584612--76584664 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
76584602 TGAATAGTTG
*
76584612 TAAAATTTGATGAAAAATTA
1 TAAAATTTTATGAAAAATTA
* *
76584632 TAAAATTTTA-GGAAAATTC
1 TAAAATTTTATGAAAAATTA
76584651 TAAAATTTTATGAA
1 TAAAATTTTATGAA
76584665 TATATGTGCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (20 bp):
TAAAATTTTATGAAAAATTA
Found at i:76589452 original size:30 final size:30
Alignment explanation
Indices: 76589416--76589483 Score: 118
Period size: 30 Copynumber: 2.3 Consensus size: 30
76589406 CACATGGTTA
*
76589416 GACACACGGGCGTGTGTCCAGGTCGTGTGT
1 GACACACGGGCGTGTGTCCAGGCCGTGTGT
*
76589446 GACACACGGGCGTGTGTCTAGGCCGTGTGT
1 GACACACGGGCGTGTGTCCAGGCCGTGTGT
76589476 GACACACG
1 GACACACG
76589484 ATTCCCTCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.21
Consensus pattern (30 bp):
GACACACGGGCGTGTGTCCAGGCCGTGTGT
Found at i:76589461 original size:17 final size:17
Alignment explanation
Indices: 76589416--76589462 Score: 57
Period size: 13 Copynumber: 3.0 Consensus size: 17
76589406 CACATGGTTA
76589416 GACACACGGGCGTGTGT
1 GACACACGGGCGTGTGT
*
76589433 --C-CA-GGTCGTGTGT
1 GACACACGGGCGTGTGT
76589446 GACACACGGGCGTGTGT
1 GACACACGGGCGTGTGT
76589463 CTAGGCCGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
13 9 0.38
14 2 0.08
15 2 0.08
16 2 0.08
17 9 0.38
ACGTcount: A:0.15, C:0.23, G:0.40, T:0.21
Consensus pattern (17 bp):
GACACACGGGCGTGTGT
Found at i:76594212 original size:29 final size:27
Alignment explanation
Indices: 76594142--76594224 Score: 134
Period size: 26 Copynumber: 3.1 Consensus size: 27
76594132 TAATTATTAT
76594142 TACTAACT-AAGAACAAAACATAATAA
1 TACTAACTAAAGAACAAAACATAATAA
76594168 TACTAACTAAAG-ACAAAACATAATAA
1 TACTAACTAAAGAACAAAACATAATAA
76594194 TACTAACTAAAGACAACAAAACATAATAA
1 TACTAACTAAAG--AACAAAACATAATAA
76594223 TA
1 TA
76594225 ATGTTCCCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
26 34 0.64
27 3 0.06
29 16 0.30
ACGTcount: A:0.61, C:0.16, G:0.04, T:0.19
Consensus pattern (27 bp):
TACTAACTAAAGAACAAAACATAATAA
Found at i:76596634 original size:39 final size:39
Alignment explanation
Indices: 76596582--76596814 Score: 326
Period size: 39 Copynumber: 5.9 Consensus size: 39
76596572 TGAGGTCCGC
*
76596582 AGGC-TTTACGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
76596620 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
76596659 AGGCATTTATGCTGGTGTTTTATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
76596698 AGGCATTTGTGCTGGTGTTTTATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
*
76596737 AGGCATTTATGCTGGTATTATATCCGGGCTAAAGTCCCGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
* *
76596777 AGGC-TTTATGATGGTATTATATCTGGGCTTAAAGTCCC
1 AGGCATTTATGCTGGTATTATATCCGGGC-T-AAGTCCC
76596815 ACATGCTTTT
Statistics
Matches: 180, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
38 4 0.02
39 155 0.86
40 21 0.12
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:76599162 original size:13 final size:13
Alignment explanation
Indices: 76599144--76599170 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76599134 GATGAAAAGT
76599144 TGAAATGTTTGAA
1 TGAAATGTTTGAA
76599157 TGAAATGTTTGAA
1 TGAAATGTTTGAA
76599170 T
1 T
76599171 CAAGGTGTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (13 bp):
TGAAATGTTTGAA
Found at i:76602756 original size:39 final size:39
Alignment explanation
Indices: 76602705--76602938 Score: 328
Period size: 39 Copynumber: 6.0 Consensus size: 39
76602695 TGTGGTCCGC
* *
76602705 AGGC-TTTATGCTGGTATTATATTCGGGCTTAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* *
76602743 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
76602782 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
76602821 AGGCATTTGTGCTGGTGTTATATCCGGGCTAAATCCCGA
1 AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
* * *
76602860 AGGCATTTATGTTGGTATTATATCCGGGCTAAAGTCCTGC
1 AGGCATTTATGCTGGTATTATATCCGGGCT-AAGTCCCGA
*
76602900 AGGC-TTTATGATGGTATTATATCCGGGCTTAAAGTCCCG
1 AGGCATTTATGCTGGTATTATATCCGGGC-T-AAGTCCCG
76602939 CATGCTTTTT
Statistics
Matches: 176, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
38 4 0.02
39 153 0.87
40 19 0.11
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (39 bp):
AGGCATTTATGCTGGTATTATATCCGGGCTAAGTCCCGA
Found at i:76603098 original size:18 final size:18
Alignment explanation
Indices: 76603071--76603106 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
76603061 AAGTTGGTCA
*
76603071 GGTATGTATTATATACTT
1 GGTATATATTATATACTT
76603089 GGTATATATTATATACTT
1 GGTATATATTATATACTT
76603107 TTATATGTTA
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:0.31, C:0.06, G:0.14, T:0.50
Consensus pattern (18 bp):
GGTATATATTATATACTT
Found at i:76612050 original size:5 final size:5
Alignment explanation
Indices: 76612040--76612079 Score: 53
Period size: 5 Copynumber: 7.6 Consensus size: 5
76612030 TCATATTTGC
*
76612040 TTTTA TTTTA TTATTT TTATTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TT-TTA TT-TTA TTTTA TTTTA TTTTA TTT
76612080 CAATTTTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 23 0.72
6 9 0.28
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:76612789 original size:32 final size:32
Alignment explanation
Indices: 76612753--76612834 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
76612743 TGGGCATGTG
*
76612753 GTGTGGACCACACGGGCAAGGCCAATCTAGGC
1 GTGTGGACCACACGGGCAAGGCCAAACTAGGC
*
76612785 GTGTGGACCACACGGGCAAGGCCAAACTGGGC
1 GTGTGGACCACACGGGCAAGGCCAAACTAGGC
76612817 GTGTGGACCACACGGGCA
1 GTGTGGACCACACGGGCA
76612835 TGTGAGCCCA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.24, C:0.28, G:0.37, T:0.11
Consensus pattern (32 bp):
GTGTGGACCACACGGGCAAGGCCAAACTAGGC
Found at i:76612790 original size:37 final size:36
Alignment explanation
Indices: 76612725--76612834 Score: 112
Period size: 32 Copynumber: 3.2 Consensus size: 36
76612715 CGTGTGTGCA
*
76612725 ACACGGGCTAGGCCAAGT-TGGGCATGTGGTGTGGACC
1 ACACGGGCAAGGCCAA-TCTGGGC-TGTGGTGTGGACC
*
76612762 ACACGGGCAAGGCCAATCTAGGC----GTGTGGACC
1 ACACGGGCAAGGCCAATCTGGGCTGTGGTGTGGACC
*
76612794 ACACGGGCAAGGCCAAACTGGGC----GTGTGGACC
1 ACACGGGCAAGGCCAATCTGGGCTGTGGTGTGGACC
76612826 ACACGGGCA
1 ACACGGGCA
76612835 TGTGAGCCCA
Statistics
Matches: 68, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
32 48 0.71
36 1 0.01
37 19 0.28
ACGTcount: A:0.24, C:0.26, G:0.37, T:0.13
Consensus pattern (36 bp):
ACACGGGCAAGGCCAATCTGGGCTGTGGTGTGGACC
Found at i:76614446 original size:18 final size:18
Alignment explanation
Indices: 76614423--76614458 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
76614413 TTAGCCCCTC
76614423 CGTTAAATTTTATTTGTT
1 CGTTAAATTTTATTTGTT
76614441 CGTTAAATTTTATTTGTT
1 CGTTAAATTTTATTTGTT
76614459 AAATGATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.06, G:0.11, T:0.61
Consensus pattern (18 bp):
CGTTAAATTTTATTTGTT
Found at i:76614636 original size:13 final size:14
Alignment explanation
Indices: 76614620--76614649 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
76614610 TTATTTTTAA
76614620 AAATAAA-AATTCT
1 AAATAAATAATTCT
76614633 AAATAAATAATTCT
1 AAATAAATAATTCT
76614647 AAA
1 AAA
76614650 AATTCAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.44
14 9 0.56
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AAATAAATAATTCT
Found at i:76617185 original size:154 final size:155
Alignment explanation
Indices: 76616951--76617264 Score: 533
Period size: 154 Copynumber: 2.0 Consensus size: 155
76616941 TAGTTTTGAC
* **
76616951 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTGTTATGTGCATAAATAACAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCACATAAATAACAAACTTTTA
* *
76617016 CAAAAGTTTTTCAAACTCAATCAAT-AAAAGACTGATATATAAACTCATCAATATTATCAAAACT
66 CAAAAGTTTTTCAAACTCAATCAATAAAAAGACTGAGATATAAACTCATCAATATTAGCAAAA-T
76617080 -AATTATCTTAATTGCATGATCTGAA
130 GAATTATCTTAATTGCATGATCTGAA
*
76617105 ATTAACTAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCACATAAATAACAAACTTTTA
1 ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCACATAAATAACAAACTTTTA
*
76617170 CAAAAGTTTTTCAAACTCAATCAATAAAAATACTGAGATATAAACTCATCAATATTAGCAAAATG
66 CAAAAGTTTTTCAAACTCAATCAATAAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATG
*
76617235 AATTATCTTAATTGCATGATTTGAA
131 AATTATCTTAATTGCATGATCTGAA
76617260 ATTAA
1 ATTAA
76617265 TTATTTAAAC
Statistics
Matches: 150, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
154 87 0.58
155 63 0.42
ACGTcount: A:0.43, C:0.15, G:0.08, T:0.33
Consensus pattern (155 bp):
ATTAACCAGAGGCGTTCAATCAATAATTTCTCTAAACTATTATGCACATAAATAACAAACTTTTA
CAAAAGTTTTTCAAACTCAATCAATAAAAAGACTGAGATATAAACTCATCAATATTAGCAAAATG
AATTATCTTAATTGCATGATCTGAA
Found at i:76619458 original size:40 final size:40
Alignment explanation
Indices: 76619412--76619507 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
76619402 CGTTTGAATG
*
76619412 AAAAACGCCACTATAG-ATCAAGCATTAGCGG-TGCTTTTCA
1 AAAAACGCCGCTATAGCA-CAAGCATTAGCGGCT-CTTTTCA
* * *
76619452 AAAAACGCCGCTAAAGCACGAGCATTAGCGGCTCTTTTTA
1 AAAAACGCCGCTATAGCACAAGCATTAGCGGCTCTTTTCA
*
76619492 ACAAACGCCGCTATAG
1 AAAAACGCCGCTATAG
76619508 GTTCACCTTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 46 0.96
41 2 0.04
ACGTcount: A:0.34, C:0.25, G:0.19, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTATAGCACAAGCATTAGCGGCTCTTTTCA
Found at i:76620244 original size:21 final size:22
Alignment explanation
Indices: 76620203--76620255 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
76620193 ATTTTAAGGT
* *
76620203 TTATGGATTATAGGTTTGGGGA
1 TTATGGTTTATAGGGTTGGGGA
*
76620225 TTATGGTTTA-AGGGTTGGGGT
1 TTATGGTTTATAGGGTTGGGGA
*
76620246 TTAAGGTTTA
1 TTATGGTTTA
76620256 GGAGTTATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (22 bp):
TTATGGTTTATAGGGTTGGGGA
Found at i:76620294 original size:21 final size:20
Alignment explanation
Indices: 76620232--76620302 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
76620222 GGATTATGGT
*
76620232 TTAAGGGTT-GGGGTTTAAGG
1 TTAAGGGTTAGGGG-TTAGGG
* *
76620252 TTTAGGAGTTA-TGGTTAGGGG
1 TTAAGG-GTTAGGGGTTA-GGG
76620273 TTAAGGGTTAGGGGTCTAGGG
1 TTAAGGGTTAGGGGT-TAGGG
76620294 TTAAGGGTT
1 TTAAGGGTT
76620303 TATGTTTTAG
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
20 12 0.29
21 27 0.66
22 2 0.05
ACGTcount: A:0.20, C:0.01, G:0.44, T:0.35
Consensus pattern (20 bp):
TTAAGGGTTAGGGGTTAGGG
Found at i:76620313 original size:21 final size:21
Alignment explanation
Indices: 76620289--76620343 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
76620279 GTTAGGGGTC
* *
76620289 TAGGGTTAAGGGTTTATGTTT
1 TAGGGTTAAGGATTTATGGTT
* * *
76620310 TAGGATTTATGATTTATGGTT
1 TAGGGTTAAGGATTTATGGTT
76620331 TAGGGATTAAGGA
1 TAGGG-TTAAGGA
76620344 ATAAGGATTA
Statistics
Matches: 25, Mismatches: 8, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 20 0.80
22 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TAGGGTTAAGGATTTATGGTT
Found at i:76620519 original size:22 final size:22
Alignment explanation
Indices: 76620494--76620575 Score: 62
Period size: 21 Copynumber: 3.8 Consensus size: 22
76620484 TAGGGTATAT
*
76620494 AGTTAAGGGTTTAAGGTTTATG
1 AGTTAAGAGTTTAAGGTTTATG
* *
76620516 AGTTAATATTTTAAGGTTTATG
1 AGTTAAGAGTTTAAGGTTTATG
* * *
76620538 -GATTATGA-TTTAAGGGTTAGG
1 AG-TTAAGAGTTTAAGGTTTATG
* *
76620559 ATTTAAG-GTTTAGGGTT
1 AGTTAAGAGTTTAAGGTT
76620576 AGAGGTTATG
Statistics
Matches: 46, Mismatches: 11, Indels: 7
0.72 0.17 0.11
Matches are distributed among these distances:
21 23 0.50
22 23 0.50
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.44
Consensus pattern (22 bp):
AGTTAAGAGTTTAAGGTTTATG
Found at i:76620635 original size:15 final size:14
Alignment explanation
Indices: 76620617--76620664 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
76620607 TGGTTTATGT
76620617 TTTAAGATTTTAGGG
1 TTTAA-ATTTTAGGG
*
76620632 TTTAAAATTTAGGG
1 TTTAAATTTTAGGG
* *
76620646 ATTAAAGGTTTAGGG
1 TTTAAA-TTTTAGGG
76620661 TTTA
1 TTTA
76620665 GATTAATTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 13 0.46
15 15 0.54
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TTTAAATTTTAGGG
Found at i:76620644 original size:14 final size:15
Alignment explanation
Indices: 76620615--76620664 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
76620605 AATGGTTTAT
*
76620615 GTTTTAAGATTTTAGG
1 GTTTAAAGA-TTTAGG
76620631 GTTTAAA-ATTTAGG
1 GTTTAAAGATTTAGG
* *
76620645 GATTAAAGGTTTAGG
1 GTTTAAAGATTTAGG
76620660 GTTTA
1 GTTTA
76620665 GATTAATTAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.41
15 11 0.38
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (15 bp):
GTTTAAAGATTTAGG
Found at i:76625635 original size:43 final size:43
Alignment explanation
Indices: 76625513--76625753 Score: 155
Period size: 43 Copynumber: 5.6 Consensus size: 43
76625503 ACTATTTTTT
* * * *
76625513 TAAAGGTTATATTCTTTAGCGGCGTTTGTGAGAAAAGC-GCTGC
1 TAAAGGTCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGGC-GC
* * * * * * *
76625556 TAAAGGTC-TATTATATAGCGGCGTTTTTGGAAAAAGCGGCAC
1 TAAAGGTCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGGCGC
* *
76625598 TAAAGATCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGCCGC
1 TAAAGGTCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGGCGC
* * * * * * *
76625641 TAAAGGTCATGGTCTTTGGTAGCATTTGTGAAAAAAGTGCCGT
1 TAAAGGTCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGGCGC
* * * * * ** *
76625684 TAATGGTCATGGTCATTAGCGGCATTTGTGGGAAAAGC-GCGGT
1 TAAAGGTCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGGC-GC
* * * *
76625727 TAAAGATCATGGCCTTTAGCGGCGTTT
1 TAAAGGTCATAGTCTTTAGCAGCGTTT
76625754 TTTAAAATAA
Statistics
Matches: 158, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
42 33 0.21
43 125 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (43 bp):
TAAAGGTCATAGTCTTTAGCAGCGTTTGTGAAAAAAGCGGCGC
Found at i:76627195 original size:16 final size:17
Alignment explanation
Indices: 76627164--76627197 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
76627154 CACCAAATTC
*
76627164 ACATCAATCTACACAGA
1 ACATCAAACTACACAGA
76627181 ACATCAAAC-ACACAGA
1 ACATCAAACTACACAGA
76627197 A
1 A
76627198 GTAAGCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.53, C:0.29, G:0.06, T:0.12
Consensus pattern (17 bp):
ACATCAAACTACACAGA
Found at i:76640997 original size:27 final size:25
Alignment explanation
Indices: 76640954--76641009 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
76640944 GCTGTCGCAG
*
76640954 ATTCAAATCCTTTTGATTCATTAAATA
1 ATTCAAATCCTTTTGA-TCAGTAAA-A
*
76640981 ATTCAAA-CTTTTGTGATCAGTAAAA
1 ATTCAAATCCTTT-TGATCAGTAAAA
76641006 ATTC
1 ATTC
76641010 GACATTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 5 0.19
26 11 0.42
27 10 0.38
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (25 bp):
ATTCAAATCCTTTTGATCAGTAAAA
Found at i:76651324 original size:18 final size:18
Alignment explanation
Indices: 76651297--76651333 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
76651287 TATTAATGAT
76651297 AATTAATAAAATAAAATA
1 AATTAATAAAATAAAATA
* *
76651315 AATTATTAAATTAAAATA
1 AATTAATAAAATAAAATA
76651333 A
1 A
76651334 TTTTTATTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTAATAAAATAAAATA
Found at i:76651851 original size:14 final size:14
Alignment explanation
Indices: 76651832--76651867 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
76651822 AACTTTGATA
*
76651832 ATTTTAATTTCACC
1 ATTTTAAATTCACC
*
76651846 ATTTTAAATTCATC
1 ATTTTAAATTCACC
76651860 ATTTTAAA
1 ATTTTAAA
76651868 GACAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTTAAATTCACC
Found at i:76651895 original size:15 final size:15
Alignment explanation
Indices: 76651875--76651907 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
76651865 AAAGACAAAA
76651875 ATAATAAGATATA-AT
1 ATAATAA-ATATATAT
76651890 ATAATAAATATATAT
1 ATAATAAATATATAT
76651905 ATA
1 ATA
76651908 TATATATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
ATAATAAATATATAT
Found at i:76656265 original size:2 final size:2
Alignment explanation
Indices: 76656260--76656298 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
76656250 TGTATATATA
76656260 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
76656299 AATTGAATGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:76656742 original size:18 final size:20
Alignment explanation
Indices: 76656719--76656764 Score: 78
Period size: 18 Copynumber: 2.4 Consensus size: 20
76656709 TGAAAATGAC
76656719 GTGAAATGGAA-GTGAAA-T
1 GTGAAATGGAATGTGAAATT
76656737 GTGAAATGGAATGTGAAATT
1 GTGAAATGGAATGTGAAATT
76656757 GTGAAATG
1 GTGAAATG
76656765 AGTTGGGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 11 0.42
19 6 0.23
20 9 0.35
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (20 bp):
GTGAAATGGAATGTGAAATT
Found at i:76664586 original size:16 final size:17
Alignment explanation
Indices: 76664560--76664593 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
76664550 GATGTGTAAC
76664560 ACCCTAAAAATCCCGAA
1 ACCCTAAAAATCCCGAA
76664577 ACCC-AAAAATCCCGAA
1 ACCCTAAAAATCCCGAA
76664593 A
1 A
76664594 TCCTGAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.50, C:0.35, G:0.06, T:0.09
Consensus pattern (17 bp):
ACCCTAAAAATCCCGAA
Found at i:76666104 original size:29 final size:29
Alignment explanation
Indices: 76666072--76666127 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
76666062 TAACGAGCCA
*
76666072 TATAAATGTGATTTGGGCCTAATGGGCTG
1 TATAAAGGTGATTTGGGCCTAATGGGCTG
* *
76666101 TATACAGGTGGTTTGGGCCTAATGGGC
1 TATAAAGGTGATTTGGGCCTAATGGGC
76666128 CATAGGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.34, T:0.32
Consensus pattern (29 bp):
TATAAAGGTGATTTGGGCCTAATGGGCTG
Found at i:76669195 original size:79 final size:79
Alignment explanation
Indices: 76669060--76669279 Score: 259
Period size: 79 Copynumber: 2.8 Consensus size: 79
76669050 TTGAATGATG
* * * * *
76669060 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCC-GGATAAGAT-CCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAATCCGGGATAAG-TCCCGAAGGCATT
* *
76669123 TGTGCGAGATACTAAT
64 TGTGCGAGATACAAAA
*
76669139 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAATCCGGGATAAGTCCCGAAGGCATTT
*
76669203 GTGCGAGTTACAAAA
65 GTGCGAGATACAAAA
* * *
76669218 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACTA-AATCCGGGATAAGTCCCGAAGGCA
76669280 ATTGAAAGAG
Statistics
Matches: 123, Mismatches: 12, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
78 22 0.18
79 55 0.45
80 41 0.33
81 5 0.04
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAATCCGGGATAAGTCCCGAAGGCATTTG
TGCGAGATACAAAA
Found at i:76669207 original size:40 final size:40
Alignment explanation
Indices: 76669060--76669279 Score: 261
Period size: 40 Copynumber: 5.5 Consensus size: 40
76669050 TTGAATGATG
* * * *
76669060 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
76669100 TCC-GGATAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
76669139 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
76669178 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACAAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
76669218 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
76669259 -CCGGGCTATGTCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGCA
76669280 ATTGAAAGAG
Statistics
Matches: 156, Mismatches: 18, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 56 0.36
40 98 0.63
41 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:76673811 original size:43 final size:42
Alignment explanation
Indices: 76673734--76673847 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
76673724 ATTAAGATTA
76673734 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
1 CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
* * *
76673776 CGTGTAAGACTATAGT-TGGGCTATTGGCATTGATACGAGA-TT
1 CGTGTAAGACCATA-TCTGGGATA-TGGCATCGATACGAGACTT
* * *
76673818 ACATGCAAGACCATATCTGGGATGTGGCAT
1 -CGTGTAAGACCATATCTGGGATATGGCAT
76673848 TGGTACGGTA
Statistics
Matches: 60, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (42 bp):
CGTGTAAGACCATATCTGGGATATGGCATCGATACGAGACTT
Found at i:76688542 original size:49 final size:49
Alignment explanation
Indices: 76688485--76688658 Score: 231
Period size: 49 Copynumber: 3.5 Consensus size: 49
76688475 CTGGTATGCA
76688485 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * * ** ** * *
76688534 TAGTAGCCTGCACTTAGTGCTATACACGTAACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
*
76688584 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* *
76688633 TAGTATCCTGCATTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
76688659 CGTGACCTCA
Statistics
Matches: 103, Mismatches: 21, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
49 63 0.61
50 40 0.39
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:76688644 original size:99 final size:99
Alignment explanation
Indices: 76688485--76688666 Score: 310
Period size: 99 Copynumber: 1.8 Consensus size: 99
76688475 CTGGTATGCA
76688485 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
* *
76688550 GTGCTATACACGTAACCTAACCATCTGATACACG
66 GTACTACACACGTAACCTAACCATCTGATACACG
* * *
76688584 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATTCGGTACACGTAGTATCCTGCATTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
*
76688649 GTACTACACACGTGACCT
66 GTACTACACACGTAACCT
76688667 CACAATAGAT
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 77 1.00
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCCTGCACTTA
GTACTACACACGTAACCTAACCATCTGATACACG
Found at i:76696987 original size:49 final size:49
Alignment explanation
Indices: 76696924--76697165 Score: 227
Period size: 49 Copynumber: 4.9 Consensus size: 49
76696914 CCAAAGCTAT
* * *
76696924 CTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTAC
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAC
* ** ** *
76696973 CTGGTACACGTAGTAGCCTGCACGTAGTACTACACACATGACCTAACCAT
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC-AATTAC
* * * **
76697023 CTGATACACGTAGTAGCCTGCACTTAATACTACACACGTGATTGAAGTTA-
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA-TTAC
* * * * *
76697073 TTGGGTACGCATAGTAGCCTGCACTTAGTAATACACATGCGACCAATTATC
1 CT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTA-C
* * *
76697124 C-GGTACACGTAGTAGCCTACACTTAGTACTACGCACGTGACC
1 CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACC
76697166 TCACAATAGA
Statistics
Matches: 152, Mismatches: 35, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
49 74 0.49
50 45 0.30
51 33 0.22
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (49 bp):
CTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAATTAC
Found at i:76697044 original size:50 final size:49
Alignment explanation
Indices: 76696934--76697059 Score: 162
Period size: 50 Copynumber: 2.6 Consensus size: 49
76696924 CTGGTACGCA
** ** *
76696934 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTACCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACACGACCAACCACCTGATACACG
* * *
76696983 TAGTAGCCTGCACGTAGTACTACACACATGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACACGACC-AACCACCTGATACACG
*
76697033 TAGTAGCCTGCACTTAATACTACACAC
1 TAGTAGCCTGCACTTAGTACTACACAC
76697060 GTGATTGAAG
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
49 29 0.44
50 37 0.56
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACACGACCAACCACCTGATACACG
Found at i:76701064 original size:25 final size:20
Alignment explanation
Indices: 76701004--76701053 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
76700994 GGCTGAGGAC
76701004 ACGGGCGTGTCCCAAGCCAT
1 ACGGGCGTGTCCCAAGCCAT
76701024 ACGGGCGTGTCCCAAGCCAT
1 ACGGGCGTGTCCCAAGCCAT
76701044 ACGGGCGTGT
1 ACGGGCGTGT
76701054 GTTACCACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.18, C:0.32, G:0.34, T:0.16
Consensus pattern (20 bp):
ACGGGCGTGTCCCAAGCCAT
Found at i:76701293 original size:17 final size:17
Alignment explanation
Indices: 76701271--76701308 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
76701261 TTGTTTATGT
76701271 TTAAGTCTGGTAATTCC
1 TTAAGTCTGGTAATTCC
76701288 TTAAGTCTGGTAATTCC
1 TTAAGTCTGGTAATTCC
76701305 TTAA
1 TTAA
76701309 ACCCTGTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.26, C:0.16, G:0.16, T:0.42
Consensus pattern (17 bp):
TTAAGTCTGGTAATTCC
Found at i:76710631 original size:27 final size:27
Alignment explanation
Indices: 76710599--76711292 Score: 657
Period size: 27 Copynumber: 26.0 Consensus size: 27
76710589 AAAGTACTCC
*
76710599 CGATTTACAGAATTTCCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
76710626 CAATTTAAAGAATTACAGTTTTACCTT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
76710653 C-AGTTTATAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
76710680 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
76710707 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
76710734 CAATTT--ATAA--A---TTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ** *
76710754 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
76710781 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
76710808 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
76710835 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
76710862 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
76710889 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
76710916 CGGTTTACAAAATTACAGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
76710943 CAATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
76710970 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
76710997 CGATTTATAAAATTACC-ATTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
76711023 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
76711050 CGATTTACAGAATTACCGTTTTACCAT
1 CGATTTACAGAATTACCGTTTTACCCT
* * **
76711077 C-AGGTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
76711104 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
76711131 -TAGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
76711158 TGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
76711185 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
76711212 TGATTTACAGAATTACTAG-TTTACCCT
1 CGATTTACAGAATTAC-CGTTTTACCCT
* *
76711239 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
76711266 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
76711293 TGACTGTGAA
Statistics
Matches: 552, Mismatches: 89, Indels: 52
0.80 0.13 0.08
Matches are distributed among these distances:
20 13 0.02
22 3 0.01
23 1 0.00
24 1 0.00
25 3 0.01
26 33 0.06
27 489 0.89
28 9 0.02
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:76711332 original size:27 final size:27
Alignment explanation
Indices: 76711302--76711497 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
76711292 TTGACTGTGA
* *
76711302 AATTACTGAAATACCCCTGTAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
76711329 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** * * *
76711356 AATTACTAAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
76711383 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * *
76711410 AATTATCGAAATATCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
76711437 AAATACCGAAATACCCCTGTATGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* * * * *
76711464 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTGTAGGGTAG
76711491 AATTACC
1 AATTACC
76711498 ATTTTGCCCC
Statistics
Matches: 140, Mismatches: 29, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 140 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:76711370 original size:54 final size:54
Alignment explanation
Indices: 76711302--76711481 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 54
76711292 TTGACTGTGA
* * *
76711302 AATTACTGAAATACCCCTGTAGGATAGAATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
* * *
76711356 AATTACTAAAATACCCTTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
* * * *
76711410 AATTA-TCGAAATATCCTTGTAGGGTAGAAATACCGAAATACCCCTGTATGGTAG
1 AATTACT-GAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
* *
76711464 AATTACCGAGATACCCTT
1 AATTACTGAAATACCCTT
76711482 ATGGGGTAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 107 0.99
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (54 bp):
AATTACTGAAATACCCTTGTAGGATAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:76711734 original size:27 final size:26
Alignment explanation
Indices: 76711696--76711775 Score: 97
Period size: 27 Copynumber: 3.0 Consensus size: 26
76711686 CGGAGGAAGC
76711696 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
76711723 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
76711749 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
76711776 CTTGACCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
26 9 0.19
27 39 0.81
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:76711898 original size:22 final size:22
Alignment explanation
Indices: 76711866--76711924 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
76711856 CCCGTTATTA
*
76711866 ATGGCTCTGTGCCAACCTAAAT
1 ATGGCTTTGTGCCAACCTAAAT
* * * *
76711888 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCAACCTAAAT
*
76711910 ATGGCTTCGTGCCAA
1 ATGGCTTTGTGCCAA
76711925 ACGTATTTAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
ATGGCTTTGTGCCAACCTAAAT
Found at i:76712111 original size:27 final size:27
Alignment explanation
Indices: 76712089--76712157 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
76712079 TAGGTGGGTT
*
76712089 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
* *
76712116 TGCCATAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
76712143 TGTCACGATATCTGT
1 TGCCACAATATCTGT
76712158 TCTAGCAGCC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 34 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.23, G:0.20, T:0.38
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:76712289 original size:6 final size:6
Alignment explanation
Indices: 76712280--76712345 Score: 73
Period size: 6 Copynumber: 10.8 Consensus size: 6
76712270 TTGCATTCAC
* *
76712280 ATTCTG ATTCTG ATTCTG -TCACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT-TC-TG ATTCTG ATTCTG ATTCTG ATTCTG
76712329 -TTACTG ATTCTG ATTCT
1 ATT-CTG ATTCTG ATTCT
76712346 CATTTTGGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
5 3 0.06
6 43 0.84
7 4 0.08
8 1 0.02
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:76712315 original size:31 final size:30
Alignment explanation
Indices: 76712280--76712345 Score: 105
Period size: 31 Copynumber: 2.2 Consensus size: 30
76712270 TTGCATTCAC
76712280 ATTCTGATTCTGATTCTGTCACGTAATTCTG
1 ATTCTGATTCTGATTCTGTCAC-TAATTCTG
* *
76712311 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTCACTAATTCTG
76712341 ATTCT
1 ATTCT
76712346 CATTTTGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 12 0.36
31 21 0.64
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTCACTAATTCTG
Found at i:76714404 original size:53 final size:54
Alignment explanation
Indices: 76714366--76715048 Score: 785
Period size: 54 Copynumber: 12.9 Consensus size: 54
76714356 GTACTCCCGA
* *
76714366 TTTACAGAATTACCGTTTTACCCTC-ATTTACAGAATTACAGTTTTA-CCTCAG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * * *
76714418 TTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACCGTTTTACCCTCAG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
76714472 TTTACAGAATTA-C-TTTTACCCTCAATTT--ATAA--A---TTTTACCCT-TG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** *
76714516 ATTTGTAAAATTACCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAG
1 -TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* ** *
76714571 TTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** *
76714625 TTTACAAAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTC-G
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* *
76714678 TTTACAAAATTACAGTTTTACCCTC-ATTTACAGAATTACCATTTTACCCTCAG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * ** * *
76714731 TTTATAGAATTACTATTTTACCCTCGATTTATAGAATTACC-ATTTACCCTC-G
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** *
76714783 ATTTGTAAAATTACCGTTTTACCCTCGATTTACA-AATTACCGTTTTACCATCAG
1 -TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** * *
76714837 TTTACAAAATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTTAG
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
* * * *
76714891 TTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCCTC-G
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
** *
76714944 ATTTGTAAAATTACCG-TTTACCCTCGATTTACAGAATTACTAG-TTTACCCTCAG
1 -TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC-CGTTTTACCCTCAG
* *
76714998 TTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCT
1 TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
76715049 TGATGTGAAA
Statistics
Matches: 541, Mismatches: 66, Indels: 46
0.83 0.10 0.07
Matches are distributed among these distances:
44 1 0.00
45 18 0.03
46 1 0.00
47 14 0.03
48 1 0.00
49 3 0.01
50 3 0.01
51 1 0.00
52 69 0.13
53 184 0.34
54 245 0.45
55 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (54 bp):
TTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG
Found at i:76714456 original size:27 final size:27
Alignment explanation
Indices: 76714363--76715048 Score: 650
Period size: 27 Copynumber: 26.0 Consensus size: 27
76714353 AAAGTACTCC
*
76714363 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
76714390 C-ATTTACAGAATTA-CAGTTTTA-CCT
1 CGATTTACAGAATTACCA-TTTTACCCT
*
76714415 C-AGTTTATAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* * *
76714442 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
76714469 C-AGTTTACAGAATTA-C-TTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
76714494 CAATTT-----A-TA-AATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* ** * *
76714514 TGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
76714541 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
76714568 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
76714595 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
76714622 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
76714649 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
*
76714676 CG-TTTACAAAATTA-CAGTTTTACCCT
1 CGATTTACAGAATTACCA-TTTTACCCT
76714702 C-ATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
76714728 C-AGTTTATAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
*
76714755 CGATTTATAGAATTACCA-TTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
** * *
76714781 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
76714808 CGATTTACA-AATTACCGTTTTACCAT
1 CGATTTACAGAATTACCATTTTACCCT
* *
76714834 C-AGTTTACAAAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
76714861 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* **
76714888 -TAGTTTACAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* * *
76714915 CGATTTACAAAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
** * *
76714942 CGATTTGTAAAATTACC-GTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* *
76714968 CGATTTACAGAATTACTAGTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
* * *
76714995 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCATTTTACCCT
* *
76715022 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTTTACCCT
76715049 TGATGTGAAA
Statistics
Matches: 557, Mismatches: 69, Indels: 66
0.80 0.10 0.10
Matches are distributed among these distances:
19 2 0.00
20 14 0.03
25 23 0.04
26 153 0.27
27 358 0.64
28 7 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTTTACCCT
Done.