Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 95 of 373
Found at i:30667928 original size:47 final size:47
Alignment explanation
Indices: 30667864--30668027 Score: 160
Period size: 47 Copynumber: 3.5 Consensus size: 47
30667854 CATTCATAGG
*
30667864 TGAACTCGAACCCAACTCAACGAGCTTGGATGCCTAGTTACATATCA
1 TGAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATATCA
* * *
30667911 TGAACTCGGACTCAACTCAACAAG-TTCGGATGTTCGC-AG--CCATA--A
1 TGAACTCGAACTCAACTCAACGAGCTT-GGATG--C-CTAGTTACATATCA
* * *
30667956 GTGAACTCGAACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCA
1 -TGAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATATCA
* *
30668004 CGAACTCGGACTCAACTCAACGAG
1 TGAACTCGAACTCAACTCAACGAG
30668028 TTCAGACGTT
Statistics
Matches: 94, Mismatches: 12, Indels: 22
0.73 0.09 0.17
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 31 0.33
47 53 0.56
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (47 bp):
TGAACTCGAACTCAACTCAACGAGCTTGGATGCCTAGTTACATATCA
Found at i:30667971 original size:46 final size:45
Alignment explanation
Indices: 30667910--30668081 Score: 143
Period size: 46 Copynumber: 3.7 Consensus size: 45
30667900 GTTACATATC
*
30667910 ATGAACTCGGACTCAACTCAACAAGTTCGGATGTTCGCAGCCATA
1 ATGAACTCGAACTCAACTCAACAAGTTCGGATGTTCGCAGCCATA
* * * * *
30667955 AGTGAACTCGAACTCAACTCAACGAGCTCGAATG--C-CTAGTTACATCTC
1 A-TGAACTCGAACTCAACTCAACAAGTTCGGATGTTCGC-AG--CCA--TA
* * * * * * *
30668003 ACGAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCATCCATAA
1 ATGAACTCGAACTCAACTCAACAAGTTCGGATGTTCGCAGCCAT-A
30668049 ATGAACTCGAACTCAACTCAACAAGTTCGGATG
1 ATGAACTCGAACTCAACTCAACAAGTTCGGATG
30668082 CCCAAATATC
Statistics
Matches: 96, Mismatches: 21, Indels: 19
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 2 0.02
46 58 0.60
47 28 0.29
48 2 0.02
49 1 0.01
50 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (45 bp):
ATGAACTCGAACTCAACTCAACAAGTTCGGATGTTCGCAGCCATA
Found at i:30667977 original size:93 final size:93
Alignment explanation
Indices: 30667818--30668083 Score: 354
Period size: 93 Copynumber: 2.9 Consensus size: 93
30667808 CGCCCATAAG
* * * * * * *
30667818 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCCCATTCATAGGTGAACTCGAACCCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
30667883 ACGAGCTTGGATGCCTAGTTACATATCA
66 ACGAGCTTGGATGCCTAGTTACATATCA
* * *
30667911 TGAACTCGGACTCAACTCAACAAGTTCGGATGTTCGCAGCCATAAGTGAACTCGAACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
* * *
30667976 ACGAGCTCGAATGCCTAGTTACATCTCA
66 ACGAGCTTGGATGCCTAGTTACATATCA
* * * *
30668004 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTTGCATCCATAAATGAACTCGAACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
*
30668069 ACAAG-TTCGGATGCC
66 ACGAGCTT-GGATGCC
30668084 CAAATATCCG
Statistics
Matches: 149, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
92 1 0.01
93 148 0.99
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCATAAGTGAACTCGAACTCAACTCA
ACGAGCTTGGATGCCTAGTTACATATCA
Found at i:30675667 original size:27 final size:27
Alignment explanation
Indices: 30675636--30675813 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
30675626 TAAATTGTAC
30675636 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *** *
30675663 TGCACTAAGTGTGCGAAACGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30675689 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30675717 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
30675745 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30675772 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30675799 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30675814 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30675777 original size:82 final size:81
Alignment explanation
Indices: 30675637--30675792 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
30675627 AAATTGTACA
* *
30675637 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
30675702 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
*** *
30675718 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACTAAGT
*
30675782 GTGCGAGTTGA
64 GTGCGAATTGA
30675793 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:30675804 original size:82 final size:81
Alignment explanation
Indices: 30675633--30675813 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
30675623 GATTAAATTG
* *
30675633 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAACGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
30675698 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * *** *
30675714 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGAT-GCACT
* **
30675778 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
30675796 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
30675814 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAACGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:30677429 original size:16 final size:16
Alignment explanation
Indices: 30677408--30677445 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
30677398 CATTCTAAAC
30677408 CATTGCAGATATTCAG
1 CATTGCAGATATTCAG
*
30677424 CATTGCAGATATTTAG
1 CATTGCAGATATTCAG
30677440 CATTGC
1 CATTGC
30677446 GATGTGAACG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.34
Consensus pattern (16 bp):
CATTGCAGATATTCAG
Found at i:30678869 original size:27 final size:29
Alignment explanation
Indices: 30678801--30678871 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
30678791 TAGATCAAGT
* *
30678801 ATAACACATATAAAACGTTGAATCAAATA
1 ATAACACACATAAAGCGTTGAATCAAATA
30678830 ATAACACACATAAAGCGTTGAATC-AAT-
1 ATAACACACATAAAGCGTTGAATCAAATA
* *
30678857 GTAACACGCATAAAG
1 ATAACACACATAAAG
30678872 TGCAGGATCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 13 0.34
28 3 0.08
29 22 0.58
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.21
Consensus pattern (29 bp):
ATAACACACATAAAGCGTTGAATCAAATA
Found at i:30683009 original size:37 final size:37
Alignment explanation
Indices: 30682952--30683096 Score: 166
Period size: 37 Copynumber: 3.9 Consensus size: 37
30682942 ATCCAACCGA
30682952 AACACGCCAATCGC-CTATAAGAGCTAATCCACCCAAT
1 AACACGCCAATCGCTC-ATAAGAGCTAATCCACCCAAT
* * * *
30682989 AACATGCCAATTGCTCATAAGATCTAATCCACCCGAT
1 AACACGCCAATCGCTCATAAGAGCTAATCCACCCAAT
* * * *
30683026 AACCCACTAATCGGTCATAAGAGCTAATCCACCCAAT
1 AACACGCCAATCGCTCATAAGAGCTAATCCACCCAAT
* * * *
30683063 AACACGACAATCGCTCACAAAAGCCAATCCACCC
1 AACACGCCAATCGCTCATAAGAGCTAATCCACCC
30683097 GGTAACACAC
Statistics
Matches: 87, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
37 86 0.99
38 1 0.01
ACGTcount: A:0.38, C:0.34, G:0.10, T:0.17
Consensus pattern (37 bp):
AACACGCCAATCGCTCATAAGAGCTAATCCACCCAAT
Found at i:30684000 original size:36 final size:36
Alignment explanation
Indices: 30683953--30684022 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
30683943 GTGTATTCGG
30683953 TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTTAT
1 TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTTAT
* *
30683989 TTATGAAGAAGAGAAATGAAGACGAAAGTAGCTT
1 TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTT
30684023 TTACTTCATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.50, C:0.04, G:0.24, T:0.21
Consensus pattern (36 bp):
TTATGAAGAAGAGAAATGAAAAAGAAAGTAGCTTAT
Found at i:30689542 original size:29 final size:29
Alignment explanation
Indices: 30689510--30689593 Score: 123
Period size: 29 Copynumber: 2.9 Consensus size: 29
30689500 TACACACAGC
* * *
30689510 CATGTCACATGTCGTGGGTGGCACATGGA
1 CATGTCACAGGTCGTGTGTGGCACACGGA
*
30689539 CATGTCGCAGGTCGTGTGTGGCACACGGA
1 CATGTCACAGGTCGTGTGTGGCACACGGA
*
30689568 CATGTTACAGGTCGTGTGTGGCACAC
1 CATGTCACAGGTCGTGTGTGGCACAC
30689594 AGCCAAGTGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.19, C:0.23, G:0.35, T:0.24
Consensus pattern (29 bp):
CATGTCACAGGTCGTGTGTGGCACACGGA
Found at i:30689609 original size:31 final size:29
Alignment explanation
Indices: 30689502--30689609 Score: 90
Period size: 29 Copynumber: 3.7 Consensus size: 29
30689492 TGACTTAATA
* * * *
30689502 CACACAGCCATGTCACATGTCGTGGGTGG
1 CACACAGACATGGCACAGGTCGTGTGTGG
** * *
30689531 CACATGGACATGTCGCAGGTCGTGTGTGG
1 CACACAGACATGGCACAGGTCGTGTGTGG
* **
30689560 CACACGGACATGTTACAGGTCGTGTGTGG
1 CACACAGACATGGCACAGGTCGTGTGTGG
*
30689589 CACACAGCCAAGTGGCACAGG
1 CACACAGAC-A-TGGCACAGG
30689610 CCTGTCCCAG
Statistics
Matches: 64, Mismatches: 13, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
29 56 0.88
30 1 0.02
31 7 0.11
ACGTcount: A:0.22, C:0.25, G:0.33, T:0.19
Consensus pattern (29 bp):
CACACAGACATGGCACAGGTCGTGTGTGG
Found at i:30703181 original size:27 final size:27
Alignment explanation
Indices: 30703150--30703354 Score: 250
Period size: 27 Copynumber: 7.6 Consensus size: 27
30703140 TAAATTGTAC
*
30703150 AGCACTAAGTGTGTGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
30703177 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30703203 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
30703231 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
30703259 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30703286 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
30703313 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
30703340 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
30703355 GACTCGATAT
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
27 134 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:30703345 original size:109 final size:109
Alignment explanation
Indices: 30703150--30703354 Score: 277
Period size: 109 Copynumber: 1.9 Consensus size: 109
30703140 TAAATTGTAC
* *
30703150 AGCACTAAGTGTGTGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
* *
30703215 TGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATGT
66 TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
* ** *
30703259 AGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACTAAGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGT
* ** * *
30703323 GTGCGAGTTGATTATATAGCACTGAGTGTGCG
65 GTGCGAATTGACCATACAGCACTAAGTGTGCG
30703355 GACTCGATAT
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
108 1 0.01
109 81 0.99
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.32
Consensus pattern (109 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTG
TGCGAATTGACCATACAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:30707120 original size:27 final size:28
Alignment explanation
Indices: 30707055--30707232 Score: 177
Period size: 27 Copynumber: 6.5 Consensus size: 28
30707045 TTATTGAGCC
**
30707055 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAGTCCAAAT
* * *
30707083 CGCACACTTAGTGCTACGTAAT-CAAAT
1 CGCACACTTAGTGCCACATAGTCCAAAT
**
30707110 CGCACACTTAGTGCCACATAGTCCATCT
1 CGCACACTTAGTGCCACATAGTCCAAAT
* * *
30707138 CGCACACTTAGTGCCGCATGGT-CAATT
1 CGCACACTTAGTGCCACATAGTCCAAAT
* **
30707165 TGCACACTTAGTG-CATCATA-TCCATTT
1 CGCACACTTAGTGCCA-CATAGTCCAAAT
* *
30707192 CGCACACTTAGTGCAACATAGT-CGAAT
1 CGCACACTTAGTGCCACATAGTCCAAAT
30707219 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30707233 TGTACAATTT
Statistics
Matches: 122, Mismatches: 23, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
26 2 0.02
27 76 0.62
28 44 0.36
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCCACATAGTCCAAAT
Found at i:30707139 original size:55 final size:55
Alignment explanation
Indices: 30707055--30707232 Score: 243
Period size: 55 Copynumber: 3.3 Consensus size: 55
30707045 TTATTGAGCC
* * *
30707055 CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAAAT
** * *
30707110 CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAAAT
* * *
30707165 TGCACACTTAGTG-CATCATA-TCCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCCA-CATAGTCCATCTCGCACACTTAGTGCAACATAGTCAAAT
30707219 CGCACACTTAGTGC
1 CGCACACTTAGTGC
30707233 TGTACAATTT
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 42 0.39
55 65 0.61
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCCACATAGTCCATCTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:30715097 original size:27 final size:27
Alignment explanation
Indices: 30715067--30715240 Score: 163
Period size: 27 Copynumber: 6.4 Consensus size: 27
30715057 ATATTGAGCC
* *
30715067 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
30715094 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
30715121 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
30715149 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
30715176 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
30715203 CGCACACTTAGTGCAACATAGTCAA-T
1 CGCACACTTAGTGCTACATAATCAACT
*
30715229 CGCACCCTTAGT
1 CGCACACTTAGT
30715241 CTGTACAATT
Statistics
Matches: 124, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
26 12 0.10
27 88 0.71
28 24 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:30715206 original size:82 final size:80
Alignment explanation
Indices: 30715088--30715240 Score: 209
Period size: 82 Copynumber: 1.9 Consensus size: 80
30715078 TGCTATATAA
* *
30715088 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-A-TCGCA
30715153 CACTTAGTGCCGCATGG
64 CACTTAGTGCCGCATGG
* * **
30715170 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAATCGCAC
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCAC
*
30715234 CCTTAGT
65 ACTTAGT
30715241 CTGTACAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
80 12 0.19
81 3 0.05
82 48 0.76
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (80 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAATCGCACA
CTTAGTGCCGCATGG
Found at i:30715227 original size:54 final size:53
Alignment explanation
Indices: 30715067--30715240 Score: 190
Period size: 54 Copynumber: 3.2 Consensus size: 53
30715057 ATATTGAGCC
* * *
30715067 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCCACATAGTC-AAT
* * *
30715121 CGCACACTTAGTGC-TACATAGTCAGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCA-ACTCGCACACTTAGTGCCACATAGTCAA-T
* ** *
30715176 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAT
*
30715229 CGCACCCTTAGT
1 CGCACACTTAGT
30715241 CTGTACAATT
Statistics
Matches: 102, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
52 1 0.01
53 12 0.12
54 44 0.43
55 44 0.43
56 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (53 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCCACATAGTCAAT
Found at i:30719911 original size:54 final size:54
Alignment explanation
Indices: 30719822--30720010 Score: 315
Period size: 54 Copynumber: 3.5 Consensus size: 54
30719812 CGTCTTACGG
* *
30719822 CGGGATTACCAGTCCAGGCTAAATCCCCTGAAGTAATAACTCATAGAGCAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAATAACTCATAGAGCAATGT
*
30719876 CAGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAATAACTCATAGAGCAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAATAACTCATAGAGCAATGT
**
30719930 CGGGATTACCAGTCCAGGCTAAATTTCCCGTAGTAATAACTCATAGAGCAATGT
1 CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAATAACTCATAGAGCAATGT
* *
30719984 CGGGATTACCAATCCAAGCTAAATCCC
1 CGGGATTACCAGTCCAGGCTAAATCCC
30720011 TTTTAATGAC
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 125 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (54 bp):
CGGGATTACCAGTCCAGGCTAAATCCCCCGTAGTAATAACTCATAGAGCAATGT
Found at i:30729196 original size:28 final size:28
Alignment explanation
Indices: 30729148--30729226 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
30729138 ATGATTTACT
*
30729148 CAAT-AAAGTCGCACACTTAGTGCT-TA
1 CAATCAAACTCGCACACTTAGTGCTATA
30729174 -ATAGTCAAACTCGCACACTTAGTGCTATA
1 CA-A-TCAAACTCGCACACTTAGTGCTATA
*
30729203 CAATTAAACTCGCACACTTAGTGC
1 CAATCAAACTCGCACACTTAGTGC
30729227 CAATCTCATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
25 1 0.02
26 1 0.02
27 1 0.02
28 39 0.85
29 3 0.07
30 1 0.02
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (28 bp):
CAATCAAACTCGCACACTTAGTGCTATA
Found at i:30736625 original size:18 final size:17
Alignment explanation
Indices: 30736568--30736645 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 17
30736558 CTCACTCTCA
30736568 TTTTCAATTT-TCTTTTC
1 TTTTCAATTTCT-TTTTC
* *
30736585 TTGTTAAAATTCTTTTTC
1 TT-TTCAATTTCTTTTTC
30736603 TTTTTCAATTTCATTTTTC
1 -TTTTCAATTTC-TTTTTC
*
30736622 TTTTTCATATTCTCTTTTTA
1 -TTTTCA-ATT-TCTTTTTC
30736642 TTTT
1 TTTT
30736646 TCACAGACTT
Statistics
Matches: 50, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
17 2 0.04
18 18 0.36
19 20 0.40
20 8 0.16
21 2 0.04
ACGTcount: A:0.15, C:0.14, G:0.01, T:0.69
Consensus pattern (17 bp):
TTTTCAATTTCTTTTTC
Found at i:30736639 original size:20 final size:18
Alignment explanation
Indices: 30736568--30736648 Score: 83
Period size: 18 Copynumber: 4.3 Consensus size: 18
30736558 CTCACTCTCA
30736568 TTTTCAATTT-TCTTTTCT
1 TTTTCAATTTCT-TTTTCT
* * *
30736586 TGTTAAAATTCTTTTTCT
1 TTTTCAATTTCTTTTTCT
30736604 TTTTCAATTTCATTTTTCT
1 TTTTCAATTTC-TTTTTCT
*
30736623 TTTTCATATTCTCTTTTTAT
1 TTTTCA-ATT-TCTTTTTCT
30736643 TTTTCA
1 TTTTCA
30736649 CAGACTTTCT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
18 21 0.40
19 14 0.27
20 15 0.29
21 2 0.04
ACGTcount: A:0.16, C:0.15, G:0.01, T:0.68
Consensus pattern (18 bp):
TTTTCAATTTCTTTTTCT
Found at i:30736680 original size:17 final size:17
Alignment explanation
Indices: 30736654--30736686 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30736644 TTTCACAGAC
30736654 TTTCTCTTTTTCTTTCT
1 TTTCTCTTTTTCTTTCT
*
30736671 TTTCTTTTTTTCTTTC
1 TTTCTCTTTTTCTTTC
30736687 ACACTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTCTCTTTTTCTTTCT
Found at i:30738465 original size:20 final size:23
Alignment explanation
Indices: 30738440--30738489 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 23
30738430 AGCATCTATG
30738440 TGTTCACAC-AATA-A-TAAAAA
1 TGTTCACACTAATATATTAAAAA
30738460 TGTTCACACTAATATATTAAAAA
1 TGTTCACACTAATATATTAAAAA
30738483 TGGTTCA
1 T-GTTCA
30738490 TGAATTCAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
20 9 0.35
21 4 0.15
22 1 0.04
23 7 0.27
24 5 0.19
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (23 bp):
TGTTCACACTAATATATTAAAAA
Found at i:30741313 original size:37 final size:37
Alignment explanation
Indices: 30741263--30741341 Score: 131
Period size: 37 Copynumber: 2.1 Consensus size: 37
30741253 CTTGATTTTT
**
30741263 CCCTTTTTATTTAGTTTATTACCAAATGGCCAAAATG
1 CCCTTTTTATTTAGTTTATTACCAAATAACCAAAATG
*
30741300 CCCTTTTTATTTAGTTTATTACCATATAACCAAAATG
1 CCCTTTTTATTTAGTTTATTACCAAATAACCAAAATG
30741337 CCCTT
1 CCCTT
30741342 CCTTACTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.42
Consensus pattern (37 bp):
CCCTTTTTATTTAGTTTATTACCAAATAACCAAAATG
Found at i:30749187 original size:19 final size:19
Alignment explanation
Indices: 30749163--30749200 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
30749153 ACCTGTCAGA
30749163 AGAAAAT-AAATAAAGAATT
1 AGAAAATAAAATAAA-AATT
30749182 AGAAAATAAAATAAAAATT
1 AGAAAATAAAATAAAAATT
30749201 TAAATTGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.08, T:0.21
Consensus pattern (19 bp):
AGAAAATAAAATAAAAATT
Found at i:30760893 original size:20 final size:20
Alignment explanation
Indices: 30760857--30760894 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
30760847 AATGCAATGC
30760857 AATGCAATATACAAATATAA
1 AATGCAATATACAAATATAA
*
30760877 AATGCTATA-ACATAATAT
1 AATGCAATATACA-AATAT
30760895 CATGCATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (20 bp):
AATGCAATATACAAATATAA
Found at i:30761131 original size:18 final size:17
Alignment explanation
Indices: 30761105--30761138 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
30761095 CATATTGTTT
30761105 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
30761123 GCCCGTGTGGCCCACA
1 GCCCATGTGGCCCACA
30761139 TGGCTTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.15, C:0.44, G:0.29, T:0.12
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:30777720 original size:18 final size:19
Alignment explanation
Indices: 30777697--30777732 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30777687 AACTTGGCAC
*
30777697 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
30777715 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
30777733 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:30779522 original size:27 final size:27
Alignment explanation
Indices: 30779458--30779523 Score: 69
Period size: 29 Copynumber: 2.4 Consensus size: 27
30779448 TCTGAAATGG
* **
30779458 AAAGATATTGAATATGTTTTGGGTGAA
1 AAAGATATTGAATATCTTTTCAGTGAA
* *
30779485 AAAGTATTATTGAATGTCTTTTCATTGAA
1 AAAG-A-TATTGAATATCTTTTCAGTGAA
30779514 AAAGATATTG
1 AAAGATATTG
30779524 TGCTTTTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.28
28 2 0.06
29 21 0.66
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.39
Consensus pattern (27 bp):
AAAGATATTGAATATCTTTTCAGTGAA
Found at i:30782979 original size:20 final size:22
Alignment explanation
Indices: 30782954--30783004 Score: 70
Period size: 20 Copynumber: 2.4 Consensus size: 22
30782944 ATTAAAATAG
30782954 ATAAATTAATTTTTAAT-TA-A
1 ATAAATTAATTTTTAATATATA
*
30782974 ATAAATTATTTTTTAATATATA
1 ATAAATTAATTTTTAATATATA
*
30782996 TTAAATTAA
1 ATAAATTAA
30783005 AAAATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 2 0.08
22 8 0.31
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
ATAAATTAATTTTTAATATATA
Found at i:30783093 original size:16 final size:15
Alignment explanation
Indices: 30783065--30783094 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
30783055 AACTTATTCT
30783065 TATATATTAACATGA
1 TATATATTAACATGA
30783080 TATATATATAACATG
1 TATATAT-TAACATG
30783095 TCGATATAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
TATATATTAACATGA
Found at i:30787761 original size:8 final size:8
Alignment explanation
Indices: 30787744--30787777 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
30787734 AATTTTATGT
*
30787744 TTAATGTA
1 TTAATATA
30787752 TTAATATA
1 TTAATATA
30787760 TTAATATA
1 TTAATATA
*
30787768 TTAATTTA
1 TTAATATA
30787776 TT
1 TT
30787778 TTAATTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (8 bp):
TTAATATA
Found at i:30790119 original size:24 final size:24
Alignment explanation
Indices: 30790086--30790162 Score: 136
Period size: 24 Copynumber: 3.2 Consensus size: 24
30790076 AAGGCTATCA
*
30790086 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
30790110 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
30790134 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
30790158 GGAGA
1 GGAGA
30790163 ATGGTGGACT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.42, T:0.21
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:30791616 original size:27 final size:27
Alignment explanation
Indices: 30791576--30791686 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
30791566 AGGAAGCGTC
* *
30791576 CTGGTGGCTATGCCACATTTATCTAATT
1 CTGGTGGCTCTGCCACATTTATCT-GTT
*
30791604 -TGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
*
30791630 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
* *
30791657 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACATTTATCTGTT
30791683 CTGG
1 CTGG
30791687 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
26 15 0.20
27 60 0.80
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTTATCTGTT
Found at i:30799403 original size:47 final size:47
Alignment explanation
Indices: 30799346--30799696 Score: 479
Period size: 47 Copynumber: 7.4 Consensus size: 47
30799336 ATTGATGTAC
*
30799346 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* *
30799393 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* *
30799442 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
30799491 AAGTGTATATATGTGATAGGGTCC-AGTGACCAACGTGATGAATTTGA
1 AAGTGTATATATGTGATAGGG-CCGAGTGGCCAATGTGATGAATGTGA
* *
30799538 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * * * *
30799585 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
30799632 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
*
30799679 AAGTGTATAAATGTGATA
1 AAGTGTATATATGTGATA
30799697 AGTCCCGAAG
Statistics
Matches: 283, Mismatches: 17, Indels: 8
0.92 0.06 0.03
Matches are distributed among these distances:
46 2 0.01
47 184 0.65
48 2 0.01
49 95 0.34
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
Found at i:30802315 original size:40 final size:40
Alignment explanation
Indices: 30802256--30802455 Score: 287
Period size: 40 Copynumber: 5.0 Consensus size: 40
30802246 AGGTCTCGAC
30802256 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
30802295 GATGTATCCGAGCTAAGTCCCGAAGAGCATTCATGCT-GT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
30802334 GATGTATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
30802374 GATATATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** *
30802414 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
30802454 GA
1 GA
30802456 CGTGTATTCG
Statistics
Matches: 146, Mismatches: 13, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 39 0.27
40 107 0.73
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:30802391 original size:79 final size:80
Alignment explanation
Indices: 30802256--30802455 Score: 287
Period size: 79 Copynumber: 2.5 Consensus size: 80
30802246 AGGTCTCGAC
*
30802256 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGAGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAG
30802320 AGCATTCATGCT-GT
66 AGCATTCATGCTAGT
* * * *
30802334 GATGTATCCGGGCTAAGTTCCGAAGAGCATTTGTGCTAGTGATATATCCGGGCTAAGTTCCGAAG
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAG
*
30802399 AGCATTCGTGCTAGT
66 AGCATTCATGCTAGT
* * ** *
30802414 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA
30802456 CGTGTATTCG
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
78 4 0.04
79 66 0.62
80 37 0.35
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGAGCTAAGTCCCGAAG
AGCATTCATGCTAGT
Found at i:30805980 original size:47 final size:47
Alignment explanation
Indices: 30805809--30806160 Score: 490
Period size: 47 Copynumber: 7.4 Consensus size: 47
30805799 ATTGATGTAC
*
30805809 AAGTATATATATGTGAT-AGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
30805855 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
* * *
30805904 AAGTATATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
* * * *
30805953 AAGTGTATATATGTGATAGGGTCGAGTGACCAACGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
*
30806000 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
* * * *
30806047 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
* *
30806094 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
*
30806141 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
30806161 TCCCGAAGGG
Statistics
Matches: 285, Mismatches: 18, Indels: 5
0.93 0.06 0.02
Matches are distributed among these distances:
46 3 0.01
47 189 0.66
48 14 0.05
49 79 0.28
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGA
Found at i:30814835 original size:31 final size:31
Alignment explanation
Indices: 30814794--30814885 Score: 148
Period size: 31 Copynumber: 3.0 Consensus size: 31
30814784 TATGGGGCAC
*
30814794 GCCCATGTGGGCAGACCGTGTGGTCACACAT
1 GCCCATGTGGGCAGGCCGTGTGGTCACACAT
* * *
30814825 GCCCGTGTGGGCAGGCTGTGTGTTCACACAT
1 GCCCATGTGGGCAGGCCGTGTGGTCACACAT
30814856 GCCCATGTGGGCAGGCCGTGTGGTCACACA
1 GCCCATGTGGGCAGGCCGTGTGGTCACACA
30814886 CGTCCGTATC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 54 1.00
ACGTcount: A:0.16, C:0.28, G:0.35, T:0.21
Consensus pattern (31 bp):
GCCCATGTGGGCAGGCCGTGTGGTCACACAT
Found at i:30819972 original size:17 final size:17
Alignment explanation
Indices: 30819932--30819973 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
30819922 CAAAATAGTT
*
30819932 TGTAAGAACAACTTATA
1 TGTAAGGACAACTTATA
30819949 TGTAAGGACAACTTATA
1 TGTAAGGACAACTTATA
30819966 TGTAAGGA
1 TGTAAGGA
30819974 GGTAGGACGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (17 bp):
TGTAAGGACAACTTATA
Found at i:30824426 original size:30 final size:30
Alignment explanation
Indices: 30824383--30824451 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 30
30824373 TAAAGATAAC
* *
30824383 AAGAAAACC-GAATAAAGGAATCTAAG-ATA
1 AAGAAACCCAGAATAAAGAAATC-AAGAATA
* *
30824412 GAGAAACCCAGAATAAAGAAATCCAGAATA
1 AAGAAACCCAGAATAAAGAAATCAAGAATA
30824442 AAGAAACCCA
1 AAGAAACCCA
30824452 AGATACGATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 9 0.27
30 24 0.73
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCAAGAATA
Found at i:30824437 original size:15 final size:15
Alignment explanation
Indices: 30824383--30824447 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
30824373 TAAAGATAAC
*
30824383 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
* *
30824397 AAGGAATCTA-AGATA
1 AAGAAATCCAGA-ATA
* *
30824412 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30824427 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
30824442 AAGAAA
1 AAGAAA
30824448 CCCAAGATAC
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
14 7 0.18
15 31 0.79
16 1 0.03
ACGTcount: A:0.60, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30827160 original size:13 final size:13
Alignment explanation
Indices: 30827142--30827167 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30827132 ATATTATAAT
30827142 TATTTTATGTTAA
1 TATTTTATGTTAA
30827155 TATTTTATGTTAA
1 TATTTTATGTTAA
30827168 AAATAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:30828621 original size:25 final size:25
Alignment explanation
Indices: 30828593--30828643 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
30828583 CCCGAAGGCA
30828593 TTTGTGCTAGTGATTATATCCGGGC
1 TTTGTGCTAGTGATTATATCCGGGC
30828618 TTTGTGCTAGTGATTATATCCGGGC
1 TTTGTGCTAGTGATTATATCCGGGC
30828643 T
1 T
30828644 AAGTCCCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (25 bp):
TTTGTGCTAGTGATTATATCCGGGC
Found at i:30828676 original size:65 final size:65
Alignment explanation
Indices: 30828553--30828680 Score: 213
Period size: 65 Copynumber: 2.0 Consensus size: 65
30828543 TCCGAAGGCA
* *
30828553 TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCCGGGC
1 TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
*
30828618 TTTGTGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCCGG
1 TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACTATATCCGG
30828681 CTAAATCCCG
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
65 57 0.97
66 2 0.03
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.33
Consensus pattern (65 bp):
TTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTATATCCGGGC
Found at i:30832339 original size:27 final size:27
Alignment explanation
Indices: 30832285--30832395 Score: 154
Period size: 27 Copynumber: 4.1 Consensus size: 27
30832275 AGCATGGCTG
* *
30832285 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30832311 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30832338 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* * *
30832365 CCAGATCAGATAATTGTGGCATAACCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30832392 CCAG
1 CCAG
30832396 GACGCTTCCT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
26 15 0.19
27 60 0.78
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:30839639 original size:27 final size:27
Alignment explanation
Indices: 30839585--30839695 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
30839575 AGCATGGCTT
* * *
30839585 CCAGAACAAATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30839611 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
*
30839638 CCAGAACAGAT-ATATGTGGCAGAACCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
30839665 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
30839692 CCAG
1 CCAG
30839696 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
26 14 0.19
27 59 0.79
28 2 0.03
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:30850120 original size:43 final size:44
Alignment explanation
Indices: 30850072--30850227 Score: 169
Period size: 43 Copynumber: 3.6 Consensus size: 44
30850062 GTTATCGAGA
* * *
30850072 TGAGATTACATGTAAGACCATGTTTGGGACATTGGCATTG-TAT
1 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
*
30850115 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGTTAAT
1 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGAT-AT
* * * *
30850160 T--GATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
* *
30850202 GTGACA--ACATGTAAGACCATATCTGG
1 -TGAGATTACATGTAAGACCATGTCTGG
30850228 AATATGGCAT
Statistics
Matches: 95, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
42 2 0.02
43 88 0.93
44 1 0.01
45 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
TGAGATTACATGTAAGACCATGTCTGGGACAATGGCATCGATAT
Found at i:30852411 original size:39 final size:39
Alignment explanation
Indices: 30852325--30852571 Score: 379
Period size: 39 Copynumber: 6.4 Consensus size: 39
30852315 CGGGACTTTA
* * *
30852325 AGCCCGAATATAATACCAGCACAAATGCCTTC-GGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
30852363 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
30852402 AGCCCGGATATAACACCAACATGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* *
30852441 AGCCCAGATATAACACCAGCACGAATGCCTTTGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
* * * *
30852480 AGCCCAGATAAAACAGCAGCATGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
30852519 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
1 AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
*
30852558 AGCCCGAATATAAC
1 AGCCCGGATATAAC
30852572 GCCAAATCAT
Statistics
Matches: 190, Mismatches: 18, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
38 29 0.15
39 161 0.85
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.19
Consensus pattern (39 bp):
AGCCCGGATATAACACCAGCACGAATGCCTTCGGGGCTT
Found at i:30854585 original size:19 final size:19
Alignment explanation
Indices: 30854561--30854601 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
30854551 GTTATAATAT
*
30854561 TAATATTCCTTTAATATTA
1 TAATATTCATTTAATATTA
*
30854580 TAATATTCATTTCATATTA
1 TAATATTCATTTAATATTA
30854599 TAA
1 TAA
30854602 AACAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (19 bp):
TAATATTCATTTAATATTA
Found at i:30857714 original size:10 final size:10
Alignment explanation
Indices: 30857699--30857731 Score: 52
Period size: 9 Copynumber: 3.5 Consensus size: 10
30857689 TTGGCCAACC
30857699 GGGCTAGAAT
1 GGGCTAGAAT
30857709 GGGCTA-AAT
1 GGGCTAGAAT
30857718 GGGCT-GAAT
1 GGGCTAGAAT
30857727 GGGCT
1 GGGCT
30857732 GTACGGCCCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.24, C:0.12, G:0.42, T:0.21
Consensus pattern (10 bp):
GGGCTAGAAT
Found at i:30857840 original size:28 final size:28
Alignment explanation
Indices: 30857807--30857872 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 28
30857797 AACTATGAGT
30857807 GTGATTGGGCCTGACGGGCCATATGAAA
1 GTGATTGGGCCTGACGGGCCATATGAAA
* * * *
30857835 GTGATT--ACTTGATGGGCCATATGAAT
1 GTGATTGGGCCTGACGGGCCATATGAAA
*
30857861 GAGATTGGGCCT
1 GTGATTGGGCCT
30857873 AAAGGGGCCA
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
26 21 0.72
28 8 0.28
ACGTcount: A:0.24, C:0.15, G:0.33, T:0.27
Consensus pattern (28 bp):
GTGATTGGGCCTGACGGGCCATATGAAA
Found at i:30859160 original size:17 final size:18
Alignment explanation
Indices: 30859129--30859162 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30859119 TTCAAAAAAG
30859129 GGTTTTCAATGAAAACAA
1 GGTTTTCAATGAAAACAA
*
30859147 GGTTTTCGAT-AAAACA
1 GGTTTTCAATGAAAACA
30859163 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAA
Found at i:30870714 original size:17 final size:16
Alignment explanation
Indices: 30870692--30870729 Score: 58
Period size: 17 Copynumber: 2.3 Consensus size: 16
30870682 AAATGCACTC
30870692 TCTCTTTGCTCTCTCAT
1 TCTCTTTGCTCT-TCAT
*
30870709 TCTCTTTGCTCTTTAT
1 TCTCTTTGCTCTTCAT
30870725 TCTCT
1 TCTCT
30870730 ATATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.05, C:0.32, G:0.05, T:0.58
Consensus pattern (16 bp):
TCTCTTTGCTCTTCAT
Found at i:30871186 original size:20 final size:20
Alignment explanation
Indices: 30871157--30871212 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
30871147 GCTTTCAATT
* *
30871157 AAAAGAAACAAAACATAAGC
1 AAAAGCAACAAAACAAAAGC
30871177 AAAAGCAACAAAACAAAAGC
1 AAAAGCAACAAAACAAAAGC
30871197 AAAAGCAACAAAACAA
1 AAAAGCAACAAAACAA
30871213 GTCCAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.71, C:0.18, G:0.09, T:0.02
Consensus pattern (20 bp):
AAAAGCAACAAAACAAAAGC
Found at i:30883695 original size:20 final size:21
Alignment explanation
Indices: 30883670--30883709 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30883660 CTCTTAAAAT
*
30883670 AGGGC-ACATGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
30883690 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
30883710 TTATTACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.28, G:0.40, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:30885008 original size:49 final size:49
Alignment explanation
Indices: 30884904--30885029 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 49
30884894 AGATGCTGAC
*
30884904 GCCATGTCCTAGACATGGTCTTACACTGGCTTTCATATAATGAAGCCGAT
1 GCCATGTCCTAGACA-GGTCTTACACTGGCTTTCATATAATCAAGCCGAT
* * * *
30884954 ACCATGTCCTAGACAGGTCTTACACTGG-TTCTCATCT-ATCAGTGTCGAT
1 GCCATGTCCTAGACAGGTCTTACACTGGCTT-TCATATAATCA-AGCCGAT
* *
30885003 GCCATGTTCTAGACAAGTCTTACACTG
1 GCCATGTCCTAGACAGGTCTTACACTG
30885030 ACACACCACA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
48 5 0.08
49 47 0.71
50 14 0.21
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (49 bp):
GCCATGTCCTAGACAGGTCTTACACTGGCTTTCATATAATCAAGCCGAT
Found at i:30885159 original size:46 final size:47
Alignment explanation
Indices: 30885044--30885263 Score: 223
Period size: 46 Copynumber: 4.7 Consensus size: 47
30885034 ACCACAAGCT
* * *
30885044 GATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCC
1 GATG-CATGTCCCAGACATGTCTTACACTAGC-TCTATATCTCGAGGCC
* * * * *
30885093 GATGCATGTCCCAAATATGTCTTACACTAGCTCT-TGTCTCAACGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTATATCTCGAGGCC
* * *
30885139 GATACCTGTCCCAGACATGTCTTACACTGGCT-TAAATATCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT--ATATCTCGAGGCC
* * * * *
30885187 GATGCATGTCCCAGACATATCTTACACTGGCTCTCAT-GCT-GTGGCT
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCT-ATATCTCGAGGCC
30885233 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
30885264 ACACATATCA
Statistics
Matches: 142, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
45 1 0.01
46 68 0.48
47 4 0.03
48 64 0.45
49 5 0.04
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTATATCTCGAGGCC
Found at i:30885272 original size:94 final size:94
Alignment explanation
Indices: 30885041--30885263 Score: 270
Period size: 94 Copynumber: 2.4 Consensus size: 94
30885031 CACACCACAA
* **
30885041 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCCCA
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCA
* *
30885106 AATATGTCTTACACTAGCTCTTGTCTCAAC
65 AACATATCTTACACTAGCTCTTGTCTCAAC
* * * * * *
30885136 GCCGATACCTGTCCCAGACATGTCTTACACTGGCTTAAATATCTCGAGGCCGATGCATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAA
* ***
30885201 ACATATCTTACACTGGCTCTCATG-CT-GTG
66 ACATATCTTACACTAGCTCT--TGTCTCAAC
30885230 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
30885264 ACACATATCA
Statistics
Matches: 107, Mismatches: 19, Indels: 5
0.82 0.15 0.04
Matches are distributed among these distances:
94 98 0.92
95 7 0.07
96 2 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTAAATATCGCGAGGCCGATGCATGTCCCAA
ACATATCTTACACTAGCTCTTGTCTCAAC
Found at i:30891530 original size:20 final size:21
Alignment explanation
Indices: 30891505--30891544 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
30891495 CTCTTGAAAC
*
30891505 AGGGC-ACATGCCCGTGTAGA
1 AGGGCAACACGCCCGTGTAGA
30891525 AGGGCAACACGCCCGTGTAG
1 AGGGCAACACGCCCGTGTAG
30891545 TCATTATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.28, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTAGA
Found at i:30900765 original size:101 final size:99
Alignment explanation
Indices: 30900554--30900790 Score: 262
Period size: 101 Copynumber: 2.4 Consensus size: 99
30900544 AAGCTATCTG
* * * * *
30900554 ATACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATAATTCGGTACACGTACTAGTCT
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATTCGGTACACATACTAGCCT
* * *
30900619 GCACTTAGTACTACACACGTGACCTCACCATCTA
66 GCACTTAGTACTACACACGCGACCTCAACATATA
* * * * * *
30900653 ATACACGTAGTAGCCTACACTTAGTACTACACACGTGATCGAAGTTATT-GAGTACCCATAGTAG
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TAATTCG-GTACACATACTAG
* * *
30900717 CCTGCACTTAGTACTACACATGCGA-CTTAACAGTATG
63 CCTGCACTTAGTACTACACACGCGACCTCAACA-TATA
*
30900754 GTACACATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATACACATAGTAGCCTGCACTTAGTACTACACACGTG
30900791 TATTCACAAT
Statistics
Matches: 114, Mismatches: 20, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
99 33 0.29
100 9 0.08
101 72 0.63
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (99 bp):
ATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATAATTCGGTACACATACTAGCCT
GCACTTAGTACTACACACGCGACCTCAACATATA
Found at i:30900774 original size:50 final size:50
Alignment explanation
Indices: 30900559--30900790 Score: 222
Period size: 50 Copynumber: 4.6 Consensus size: 50
30900549 ATCTGATACG
* * * *
30900559 CATAGTAGCCTGCACTTAGTACTACACATGAGAC-CAATAAT-TCGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTAT-GGTACA
* * * * * **
30900608 CGTACTAGTCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGA-CTCAACAGTATGGTACA
* * * *
30900658 CGTAGTAGCCTACACTTAGTACTACACACGTGA-TCGA-AGTTATTGAGTACC
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAG-TA-TG-GTACA
* * *
30900709 CATAGTAGCCTGCACTTAGTACTACACATGCGACTTAACAGTATGGTACA
1 CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACA
30900759 CATAGTAGCCTGCACTTAGTACTACACACGTG
1 CATAGTAGCCTGCACTTAGTACTACACACGTG
30900791 TATTCACAAT
Statistics
Matches: 147, Mismatches: 27, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
47 1 0.01
48 2 0.01
49 29 0.20
50 71 0.48
51 38 0.26
52 4 0.03
53 2 0.01
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGTGACTCAACAGTATGGTACA
Found at i:30902658 original size:18 final size:18
Alignment explanation
Indices: 30902635--30902671 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30902625 TCTCGGGATG
*
30902635 ATAATCATTTATTAATTC
1 ATAATCATTTAATAATTC
*
30902653 ATAATCCTTTAATAATTC
1 ATAATCATTTAATAATTC
30902671 A
1 A
30902672 AGCCATCTCC
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:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATCATTTAATAATTC
Found at i:30906927 original size:50 final size:50
Alignment explanation
Indices: 30906807--30907048 Score: 240
Period size: 50 Copynumber: 4.8 Consensus size: 50
30906797 AGCCGAAGCT
* * * ** *
30906807 ATCTGATACACATAGTAGCCTACACTTAGTACTACACATGCAACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* *
30906856 ATC-CAGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
30906906 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CC
* * *** *
30906957 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
* * *
30907006 AGTATGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
30907049 TATTCACAAT
Statistics
Matches: 158, Mismatches: 28, Indels: 13
0.79 0.14 0.07
Matches are distributed among these distances:
48 1 0.01
49 39 0.25
50 78 0.49
51 40 0.25
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACC
Found at i:30909892 original size:18 final size:18
Alignment explanation
Indices: 30909869--30909905 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
30909859 TCCCGGGATG
*
30909869 ATAATCATTTATTAATTC
1 ATAATCATTTAATAATTC
*
30909887 ATAATCCTTTAATAATTC
1 ATAATCATTTAATAATTC
30909905 A
1 A
30909906 AGCCATCTCC
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:0.41, C:0.14, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAATCATTTAATAATTC
Found at i:30914451 original size:50 final size:50
Alignment explanation
Indices: 30914315--30914552 Score: 229
Period size: 50 Copynumber: 4.8 Consensus size: 50
30914305 AGCCGAAGCT
* * * *
30914315 ATCTGATACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC-AATA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * * *
30914364 ATCCGGTACACGTAGTAGCCT----TTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
30914410 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACAGACGTGATCGAAGTC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-TC
* * * * *
30914461 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAA-C
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
* * *
30914510 AGTATGGTACACGTAGTAGCCTACACTTAGTACTACACACGTG
1 A-TCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTG
30914553 TATTCACAAT
Statistics
Matches: 151, Mismatches: 29, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
45 19 0.13
46 20 0.13
49 19 0.13
50 54 0.36
51 39 0.26
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAATC
Found at i:30923563 original size:18 final size:17
Alignment explanation
Indices: 30923542--30923580 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
30923532 AATTTGTATA
*
30923542 ATATATTATTATTAATT
1 ATATATTATTAATAATT
*
30923559 CATATTTTATTAATAATT
1 -ATATATTATTAATAATT
30923577 ATAT
1 ATAT
30923581 TAAAAATGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATATTATTAATAATT
Found at i:30923907 original size:16 final size:16
Alignment explanation
Indices: 30923888--30923921 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
30923878 GCTATATTTT
*
30923888 ATTACAACTCTATTCC
1 ATTACAACCCTATTCC
*
30923904 ATTACAGCCCTATTCC
1 ATTACAACCCTATTCC
30923920 AT
1 AT
30923922 CCACCCCAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTACAACCCTATTCC
Found at i:30938488 original size:22 final size:22
Alignment explanation
Indices: 30938441--30938509 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
30938431 TGGCCTCCAG
* **
30938441 CACGGGCATGT-CCTAGGGTCA
1 CACGGGCATGTGCCTTGGACCA
*
30938462 CACGGGC-TCTTGCCTTGGACCA
1 CACGGGCAT-GTGCCTTGGACCA
30938484 CACGGGCATGTGCCTTGGACCA
1 CACGGGCATGTGCCTTGGACCA
30938506 CACG
1 CACG
30938510 AGCGTGTGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 8 0.20
22 30 0.75
23 1 0.03
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.19
Consensus pattern (22 bp):
CACGGGCATGTGCCTTGGACCA
Found at i:30938517 original size:22 final size:22
Alignment explanation
Indices: 30938472--30938517 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
30938462 CACGGGCTCT
*
30938472 TGCCTTGGACCACACGGGCATG
1 TGCCTTGGACCACACGAGCATG
*
30938494 TGCCTTGGACCACACGAGCGTG
1 TGCCTTGGACCACACGAGCATG
30938516 TG
1 TG
30938518 AGCCTTGTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.17, C:0.30, G:0.33, T:0.20
Consensus pattern (22 bp):
TGCCTTGGACCACACGAGCATG
Found at i:30940675 original size:20 final size:18
Alignment explanation
Indices: 30940628--30940676 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
30940618 GCAGATAAAC
30940628 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
30940645 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
30940665 ATTAAATTAATA
1 ATTAAATTAATA
30940677 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:30943799 original size:17 final size:18
Alignment explanation
Indices: 30943779--30943886 Score: 54
Period size: 17 Copynumber: 6.3 Consensus size: 18
30943769 AAAATAATAT
*
30943779 TATTTTAATAT-ATTTAA
1 TATTTAAATATAATTTAA
*
30943796 TA-TTAAATTTAATTTAA
1 TATTTAAATATAATTTAA
** *
30943813 TATTTATCT-TAA--TAG
1 TATTTAAATATAATTTAA
*
30943828 TATTT-TAT-TAATTTAA
1 TATTTAAATATAATTTAA
*
30943844 TA-TTAAAGTGATTATCTTAA
1 TATTTAAA-T-ATAAT-TTAA
*
30943864 TA-TTAAATTTAATTTAA
1 TATTTAAATATAATTTAA
30943881 TATTTA
1 TATTTA
30943887 TCTTATAGAT
Statistics
Matches: 70, Mismatches: 11, Indels: 19
0.70 0.11 0.19
Matches are distributed among these distances:
14 5 0.07
15 9 0.13
16 11 0.16
17 20 0.29
18 10 0.14
19 4 0.06
20 11 0.16
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.55
Consensus pattern (18 bp):
TATTTAAATATAATTTAA
Found at i:30943807 original size:12 final size:12
Alignment explanation
Indices: 30943788--30943886 Score: 61
Period size: 12 Copynumber: 8.6 Consensus size: 12
30943778 TTATTTTAAT
30943788 ATATTTAATATTA
1 ATATTTAAT-TTA
30943801 A-ATTTAATTTA
1 ATATTTAATTTA
30943812 ATATTT-ATCTTA
1 ATATTTAAT-TTA
*
30943824 ATA-GT-ATTT-
1 ATATTTAATTTA
30943833 -TA-TTAATTTA
1 ATATTTAATTTA
* * *
30943843 ATATTAAAGTGA
1 ATATTTAATTTA
*
30943855 TTATCTTAATATTA
1 ATAT-TTAAT-TTA
30943869 A-ATTTAATTTA
1 ATATTTAATTTA
30943880 ATATTTA
1 ATATTTA
30943887 TCTTATAGAT
Statistics
Matches: 67, Mismatches: 10, Indels: 19
0.70 0.10 0.20
Matches are distributed among these distances:
8 3 0.04
9 4 0.06
10 2 0.03
11 15 0.22
12 35 0.52
13 6 0.09
14 2 0.03
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (12 bp):
ATATTTAATTTA
Found at i:30943868 original size:68 final size:72
Alignment explanation
Indices: 30943792--30943929 Score: 221
Period size: 68 Copynumber: 2.0 Consensus size: 72
30943782 TTTAATATAT
* **
30943792 TTAATATTAAATTTAATTTAATATTTATC-T-TA-AT-AGTATTTTATTAATTTAATATTAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
30943853 GATTATC
66 GATTATC
30943860 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
1 TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
30943925 GATTA
66 GATTA
30943930 AGTTTAATCA
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
68 29 0.46
69 1 0.02
70 2 0.03
71 2 0.03
72 29 0.46
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (72 bp):
TTAATATTAAATTTAATTTAATATTTATCTTATAGATAAGTATTCTATTAATTTAATAACAAAGT
GATTATC
Found at i:30952378 original size:12 final size:12
Alignment explanation
Indices: 30952361--30952393 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
30952351 CAGCCTGTCC
30952361 ATATTAATTTTT
1 ATATTAATTTTT
30952373 ATATT-ATTTTT
1 ATATTAATTTTT
30952384 ATA-TAATTTT
1 ATATTAATTTT
30952394 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 14 0.70
12 5 0.25
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:30953437 original size:61 final size:61
Alignment explanation
Indices: 30953348--30953482 Score: 202
Period size: 60 Copynumber: 2.2 Consensus size: 61
30953338 ATATAAAAAG
* *
30953348 AATTATATTAAAAATATTATTAAATTATTTATTTTTATTTTTATTAAATTATATTTAATAAT
1 AATTATATTAAAAATATGATTAAATTATTTATTATTA-TTTTATTAAATTATATTTAATAAT
* *
30953410 AATTATATT-AGAATATGATTAAATTATTTATTATTATTTTATTAAATTATTTTTAATAAT
1 AATTATATTAAAAATATGATTAAATTATTTATTATTATTTTATTAAATTATATTTAATAAT
30953470 AATCT-TATTAAAA
1 AAT-TATATTAAAA
30953483 TTTAATAATA
Statistics
Matches: 66, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
60 30 0.45
61 27 0.41
62 9 0.14
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (61 bp):
AATTATATTAAAAATATGATTAAATTATTTATTATTATTTTATTAAATTATATTTAATAAT
Found at i:30953465 original size:11 final size:12
Alignment explanation
Indices: 30953364--30953465 Score: 56
Period size: 11 Copynumber: 8.6 Consensus size: 12
30953354 ATTAAAAATA
30953364 TTATTAAATTAT
1 TTATTAAATTAT
**
30953376 TTATTTTTATT-T
1 TTA-TTAAATTAT
30953388 TTATTAAATTAT
1 TTATTAAATTAT
* *
30953400 ATT-TAATAATAAT
1 -TTATTA-AATTAT
30953413 TATATTAGAA-TA-
1 T-TATTA-AATTAT
*
30953425 TGATTAAATTAT
1 TTATTAAATTAT
30953437 TTATT--ATTATT
1 TTATTAAATTA-T
30953448 TTATTAAATTAT
1 TTATTAAATTAT
30953460 TT-TTAA
1 TTATTAA
30953466 TAATAATCTT
Statistics
Matches: 68, Mismatches: 11, Indels: 23
0.67 0.11 0.23
Matches are distributed among these distances:
10 6 0.09
11 21 0.31
12 19 0.28
13 18 0.26
14 4 0.06
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (12 bp):
TTATTAAATTAT
Found at i:30953660 original size:16 final size:16
Alignment explanation
Indices: 30953639--30953679 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
30953629 ACCAAACAGT
30953639 TCTATTTCATTACAAC
1 TCTATTTCATTACAAC
*
30953655 TCTA-TTCTATTACAGC
1 TCTATTTC-ATTACAAC
30953671 TCTATTTCA
1 TCTATTTCA
30953680 ATTAAACATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.46
Consensus pattern (16 bp):
TCTATTTCATTACAAC
Found at i:30953924 original size:24 final size:23
Alignment explanation
Indices: 30953895--30953942 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
30953885 GGTGTAAATA
* *
30953895 ATTTTTTAATATAATTATTATTTTT
1 ATTTTTGAA-ATAA-TAATATTTTT
30953920 ATTTTTGAAATAATAATATTTTT
1 ATTTTTGAAATAATAATATTTTT
30953943 TTTACATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.43
24 4 0.19
25 8 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
ATTTTTGAAATAATAATATTTTT
Found at i:30955213 original size:45 final size:43
Alignment explanation
Indices: 30955083--30955251 Score: 153
Period size: 45 Copynumber: 3.8 Consensus size: 43
30955073 CTATACACCT
** *
30955083 AAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATCAGGAC
1 AAAATGAGTAAGACCATAGCTGAAAGACACTATGA-ATCATGAC
*
30955127 AAAGATGAGTAAGACCATAGCTGAAAGACACTATCGCATCATGAC
1 AAA-ATGAGTAAGACCATAGCTGAAAGACACTAT-GAATCATGAC
* *
30955172 ATAAATGAGTAAGACAAT-GACTAAAAGACACTATGGAATCATGGTA-
1 A-AAATGAGTAAGACCATAG-CTGAAAGACACTAT-GAATCAT-G-AC
* * * * *
30955218 AAAAGGATTAATACCATAGCTGAGACACACTATG
1 AAAATGAGTAAGACCATAGCTGAAAGACACTATG
30955252 GCATCCTTTG
Statistics
Matches: 103, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 5 0.05
45 91 0.88
46 6 0.06
47 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.20, T:0.20
Consensus pattern (43 bp):
AAAATGAGTAAGACCATAGCTGAAAGACACTATGAATCATGAC
Found at i:30961640 original size:32 final size:32
Alignment explanation
Indices: 30961604--30961665 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
30961594 ACAGCGGAGT
*
30961604 CCTTTTTCGTTCCTCTTCTAATAGTCACATCG
1 CCTTTTTCGTTCCTCTACTAATAGTCACATCG
*
30961636 CCTTTTTTGTTCCTCTACTAATAGTCACAT
1 CCTTTTTCGTTCCTCTACTAATAGTCACAT
30961666 TCCTCACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.08, T:0.45
Consensus pattern (32 bp):
CCTTTTTCGTTCCTCTACTAATAGTCACATCG
Found at i:30965627 original size:86 final size:85
Alignment explanation
Indices: 30965508--30965669 Score: 213
Period size: 86 Copynumber: 1.9 Consensus size: 85
30965498 CGATATGTGT
* * * *
30965508 TTTCGTGTAAGACCACGTTTGGGATGTTGGCATCGACT-TATGATTTATGTGTAAGACCATGTCT
1 TTTCATGTAAGACCACGTCTGGGATGTTGGCATCGA-TATATGA-TTATATGTAAGACCACGTCT
30965572 AGGACGTTGGCATCGTACTTGA
64 AGGACGTTGGCATCGTACTTGA
*
30965594 TTTCATGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTATATGTAAGACCACGTCT
1 TTTCATGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATATGATTATATGTAAGACCACGTCT
*
30965657 GGGACGTTGGCAT
64 AGGACGTTGGCAT
30965670 TGTATGAGCT
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
85 32 0.48
86 34 0.51
87 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (85 bp):
TTTCATGTAAGACCACGTCTGGGATGTTGGCATCGATATATGATTATATGTAAGACCACGTCTAG
GACGTTGGCATCGTACTTGA
Found at i:30965637 original size:43 final size:42
Alignment explanation
Indices: 30965513--30965669 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
30965503 TGTGTTTTCG
* *
30965513 TGTAAGACCACGTTTGGGATGTTGGCATCGACT-TATGATTTA
1 TGTAAGACCACGTCTGGGATGTTGGCATCGA-TATTTGATTTA
* * * *
30965555 TGTGTAAGACCATGTCTAGGACGTTGGCATCG-TACTTGATTTCA
1 --TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTT-A
30965599 TGTAAGACC-CTGTCTGGGATAG-TGGCATCGATATTTGATTATA
1 TGTAAGACCAC-GTCTGGGAT-GTTGGCATCGATATTTGATT-TA
*
30965642 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGATGTTGGCAT
30965670 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
42 26 0.28
43 39 0.41
44 29 0.31
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGATGTTGGCATCGATATTTGATTTA
Found at i:30976953 original size:15 final size:15
Alignment explanation
Indices: 30976933--30976965 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
30976923 TTTTAAATTT
30976933 TATTATTATAACATA
1 TATTATTATAACATA
*
30976948 TATTATTATAACTTA
1 TATTATTATAACATA
30976963 TAT
1 TAT
30976966 ATATGAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTATAACATA
Found at i:30977357 original size:42 final size:41
Alignment explanation
Indices: 30977271--30977361 Score: 119
Period size: 42 Copynumber: 2.2 Consensus size: 41
30977261 GAGGTCACAC
* *
30977271 GGCCGTGTGACTCACACGACTAAAAACACGCTTGTGTCTTA
1 GGCCGTGTGACTCACACGACTAAAAACACGCTCGTGTCTCA
* * * *
30977312 GGCCGTGTGACTCACATGGCTGAGACACACGCTCGTGTCTCA
1 GGCCGTGTGACTCACACGACT-AAAAACACGCTCGTGTCTCA
30977354 GGCCGTGT
1 GGCCGTGT
30977362 AACAATCGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 19 0.44
42 24 0.56
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (41 bp):
GGCCGTGTGACTCACACGACTAAAAACACGCTCGTGTCTCA
Found at i:30978645 original size:20 final size:20
Alignment explanation
Indices: 30978622--30978668 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30978612 ACCACTCCAT
*
30978622 TTACTTTCTTACCATTTCAA
1 TTACTTACTTACCATTTCAA
** *
30978642 TTACTTACTTTTCATTTCAT
1 TTACTTACTTACCATTTCAA
30978662 TTACTTA
1 TTACTTA
30978669 GCATAAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.55
Consensus pattern (20 bp):
TTACTTACTTACCATTTCAA
Found at i:30987668 original size:33 final size:33
Alignment explanation
Indices: 30987598--30987704 Score: 178
Period size: 33 Copynumber: 3.2 Consensus size: 33
30987588 TTTGCATTTA
*
30987598 TGATACTTTTACTGTAATGGGCTAAGGCCCACAC
1 TGATACTGTTACTGTAATGGGCTAAGG-CCACAC
30987632 TGATACTGTTACTGTAATGGGCTAAGGCCACAC
1 TGATACTGTTACTGTAATGGGCTAAGGCCACAC
*
30987665 TGATACTGTTACTGTAATCGGCTAAGGCCACAC
1 TGATACTGTTACTGTAATGGGCTAAGGCCACAC
*
30987698 TAATACT
1 TGATACT
30987705 AGACTATCAC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
33 44 0.63
34 26 0.37
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (33 bp):
TGATACTGTTACTGTAATGGGCTAAGGCCACAC
Found at i:31002284 original size:19 final size:19
Alignment explanation
Indices: 31002260--31002296 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31002250 CTCATTACAT
* *
31002260 GCCATAATTAGTTCACAAG
1 GCCATAACTACTTCACAAG
31002279 GCCATAACTACTTCACAA
1 GCCATAACTACTTCACAA
31002297 TACCATAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (19 bp):
GCCATAACTACTTCACAAG
Found at i:31002302 original size:19 final size:19
Alignment explanation
Indices: 31002261--31002305 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
31002251 TCATTACATG
* * *
31002261 CCATAATTAGTTCACAAGG
1 CCATAACTACTTCACAAGA
*
31002280 CCATAACTACTTCACAATA
1 CCATAACTACTTCACAAGA
31002299 CCATAAC
1 CCATAAC
31002306 ATGATAAGAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.29, G:0.07, T:0.24
Consensus pattern (19 bp):
CCATAACTACTTCACAAGA
Found at i:31006421 original size:47 final size:47
Alignment explanation
Indices: 31006367--31006815 Score: 781
Period size: 47 Copynumber: 9.5 Consensus size: 47
31006357 TATTTGAATA
*
31006367 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31006414 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
31006463 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31006510 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31006557 AATGTGAAAATGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
31006604 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31006651 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
31006698 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
31006745 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
31006792 GATGTGAAAGTGTATAAATGTGAT
1 AATGTGAAAGTGTATATATGTGAT
31006816 GAGTCCCGAA
Statistics
Matches: 386, Mismatches: 14, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
47 340 0.88
49 46 0.12
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:31012407 original size:13 final size:13
Alignment explanation
Indices: 31012389--31012416 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
31012379 AATTTAACTG
31012389 AAATGATTCTACC
1 AAATGATTCTACC
31012402 AAATGATTCTACC
1 AAATGATTCTACC
31012415 AA
1 AA
31012417 CTTCCAATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (13 bp):
AAATGATTCTACC
Found at i:31013164 original size:47 final size:47
Alignment explanation
Indices: 31013105--31013199 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
31013095 AATAGGAATG
31013105 AAAAAATATTTTAAAAGAAAGTCTACTAGTGAAACAGAGGAACAACA
1 AAAAAATATTTTAAAAGAAAGTCTACTAGTGAAACAGAGGAACAACA
31013152 AAAAAATATTTTAAAAGAAAGTCTACTAGTGAAACAGAGGAACAACA
1 AAAAAATATTTTAAAAGAAAGTCTACTAGTGAAACAGAGGAACAACA
31013199 A
1 A
31013200 GGAAAAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.19
Consensus pattern (47 bp):
AAAAAATATTTTAAAAGAAAGTCTACTAGTGAAACAGAGGAACAACA
Found at i:31015014 original size:44 final size:44
Alignment explanation
Indices: 31014928--31015014 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
31014918 TATTAGCTAA
* ** * *
31014928 AAAAGTTGTGATAATTGTTTATTTAAAAATAATTATATTTTAAT
1 AAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTTAAT
*
31014972 AAAAGTTGTGATAATTATACATTTAAAAATATTTAGAATTTAA
1 AAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTTAA
31015015 ATTACAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.44
Consensus pattern (44 bp):
AAAAGTTGTGATAATTATACATTTAAAAATAATTAGAATTTAAT
Found at i:31015653 original size:42 final size:44
Alignment explanation
Indices: 31015570--31015665 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 44
31015560 TGCAACTTGA
*
31015570 TTGTGTTTGGAAGGAATACACTCTTAGTGCAATATATATATG-G
1 TTGTGTTTGGAAGGAATACACTCTTAGTGAAATATATATATGTG
* *
31015613 TTGTGTTTGGATGG-ATGCACT-TCTAGTGAAATA-ATTATATGTG
1 TTGTGTTTGGAAGGAATACACTCT-TAGTGAAATATA-TATATGTG
*
31015656 GTGTGTTTGG
1 TTGTGTTTGG
31015666 TTGAAATTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
41 2 0.04
42 21 0.46
43 23 0.50
ACGTcount: A:0.25, C:0.07, G:0.27, T:0.41
Consensus pattern (44 bp):
TTGTGTTTGGAAGGAATACACTCTTAGTGAAATATATATATGTG
Found at i:31017115 original size:13 final size:13
Alignment explanation
Indices: 31017099--31017131 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
31017089 TAAGGGAATA
*
31017099 AAAAGAAATAATG
1 AAAAGAAATAAAG
31017112 AAAAGAAATAAAG
1 AAAAGAAATAAAG
31017125 -AAAGAAA
1 AAAAGAAA
31017132 AATAGACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (13 bp):
AAAAGAAATAAAG
Found at i:31019873 original size:18 final size:17
Alignment explanation
Indices: 31019852--31019901 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
31019842 AATAGCAAGT
*
31019852 AACATAATCATGCAATCC
1 AACATAAACAT-CAATCC
*
31019870 AACATAAAACATCATTCC
1 AACAT-AAACATCAATCC
31019888 AACATAAAACATCA
1 AACAT-AAACATCA
31019902 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (17 bp):
AACATAAACATCAATCC
Found at i:31019902 original size:18 final size:18
Alignment explanation
Indices: 31019867--31019903 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31019857 AATCATGCAA
31019867 TCCAACATAAAACATCAT
1 TCCAACATAAAACATCAT
31019885 TCCAACATAAAACATCAT
1 TCCAACATAAAACATCAT
31019903 T
1 T
31019904 TGTATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (18 bp):
TCCAACATAAAACATCAT
Found at i:31027021 original size:27 final size:27
Alignment explanation
Indices: 31026991--31027045 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
31026981 ATCTAATTCT
31026991 ATCTCTACTATTTTTAATGATTTTTCA
1 ATCTCTACTATTTTTAATGATTTTTCA
31027018 ATCTCTACTATTTTTAATGATTTTTCA
1 ATCTCTACTATTTTTAATGATTTTTCA
31027045 A
1 A
31027046 ACTCATATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.27, C:0.15, G:0.04, T:0.55
Consensus pattern (27 bp):
ATCTCTACTATTTTTAATGATTTTTCA
Found at i:31027440 original size:18 final size:17
Alignment explanation
Indices: 31027417--31027466 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 17
31027407 AATAGCAAGT
*
31027417 AACATAATCATGCAATCC
1 AACATAAACAT-CAATCC
*
31027435 AACATAAAACATCATTCC
1 AACAT-AAACATCAATCC
31027453 AACATAAAACATCA
1 AACAT-AAACATCA
31027467 TTTGTATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (17 bp):
AACATAAACATCAATCC
Found at i:31027467 original size:18 final size:18
Alignment explanation
Indices: 31027432--31027468 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
31027422 AATCATGCAA
31027432 TCCAACATAAAACATCAT
1 TCCAACATAAAACATCAT
31027450 TCCAACATAAAACATCAT
1 TCCAACATAAAACATCAT
31027468 T
1 T
31027469 TGTATAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (18 bp):
TCCAACATAAAACATCAT
Found at i:31028567 original size:39 final size:39
Alignment explanation
Indices: 31028511--31028609 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
31028501 TACCGATTAT
* *
31028511 GTTGTTTTACTCGTTTTCACA-TAAAATCACTTAGCAAAA
1 GTTGTTTTACTCATTTTCA-AGTAAAATCACTTAGAAAAA
*
31028550 GTTGTTTTACTCATTTTCAAGTAAAATCGCTTAGAAAAA
1 GTTGTTTTACTCATTTTCAAGTAAAATCACTTAGAAAAA
* * *
31028589 GTTGTTTAACACAATTTCAAG
1 GTTGTTTTACTCATTTTCAAG
31028610 CTTCGTATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.02
39 52 0.98
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.38
Consensus pattern (39 bp):
GTTGTTTTACTCATTTTCAAGTAAAATCACTTAGAAAAA
Found at i:31033103 original size:20 final size:19
Alignment explanation
Indices: 31033055--31033106 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
31033045 CAAGTGTATG
*
31033055 GTAAAAATAAT-TACATGT
1 GTAAAAATAATATACATAT
31033073 GTAAAAATAATATACATAT
1 GTAAAAATAATATACATAT
*
31033092 GTAGATAATAATATA
1 GTA-AAAATAATATA
31033107 TGTAATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 11 0.37
19 9 0.30
20 10 0.33
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.33
Consensus pattern (19 bp):
GTAAAAATAATATACATAT
Found at i:31033137 original size:5 final size:5
Alignment explanation
Indices: 31033127--31033164 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
31033117 AATATTTAAG
31033127 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TAT
31033165 TATAATAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:31033227 original size:18 final size:17
Alignment explanation
Indices: 31033197--31033231 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31033187 ACAAATAAAT
31033197 AAAAGAAATGAAATAGA
1 AAAAGAAATGAAATAGA
*
31033214 AAAAGGAATAGAAATAGA
1 AAAAGAAAT-GAAATAGA
31033232 GAAGTAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.69, C:0.00, G:0.20, T:0.11
Consensus pattern (17 bp):
AAAAGAAATGAAATAGA
Found at i:31035899 original size:10 final size:10
Alignment explanation
Indices: 31035884--31035910 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
31035874 CAATATTGTA
31035884 TTTATTAGGT
1 TTTATTAGGT
31035894 TTTATTAGGT
1 TTTATTAGGT
31035904 TTTATTA
1 TTTATTA
31035911 TTTATTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.15, T:0.63
Consensus pattern (10 bp):
TTTATTAGGT
Found at i:31040284 original size:42 final size:41
Alignment explanation
Indices: 31040227--31040374 Score: 133
Period size: 41 Copynumber: 3.5 Consensus size: 41
31040217 CAATGCCAAC
* *
31040227 ATCCCAGAC-GTGGTCTTACATGTAATCATATTCGATGCCACT
1 ATCCCAGACAG-GGTCTTACACGTAATCAAATTCGATGCCA-T
* * *
31040269 ATCCTAGACAGGGTCTTACACG-AATCAAATACGATGTCGAT
1 ATCCCAGACAGGGTCTTACACGTAATCAAATTCGATG-CCAT
* * *
31040310 GTCCCAGACATGGTCTTACACGTAATCACATATCGATGCCA-
1 ATCCCAGACAGGGTCTTACACGTAATCAAAT-TCGATGCCAT
31040351 ACGTCCCAGA-AGTGGTCTTACACG
1 A--TCCCAGACAG-GGTCTTACACG
31040375 AATACACATA
Statistics
Matches: 86, Mismatches: 13, Indels: 13
0.77 0.12 0.12
Matches are distributed among these distances:
41 32 0.37
42 30 0.35
43 24 0.28
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (41 bp):
ATCCCAGACAGGGTCTTACACGTAATCAAATTCGATGCCAT
Found at i:31040360 original size:43 final size:42
Alignment explanation
Indices: 31040219--31040388 Score: 168
Period size: 43 Copynumber: 4.0 Consensus size: 42
31040209 ATATTGTACA
* * *
31040219 ATGCCAACATCCCAGACGTGGTCTTACATGTAATCATAT-TCG
1 ATGCCAACATCCCAGACATGGTCTTACACG-AATCACATATCG
* * *
31040261 ATGCC-ACTATCCTAGACAGGGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-ATCCCAGACATGGTCTTACACGAATCACATATCG
* * **
31040302 ATGTCGATGTCCCAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACATCCCAGACATGGTCTTACACG-AATCACATATCG
*
31040345 ATGCCAACGTCCCAGA-AGTGGTCTTACACGAATACACATATCG
1 ATGCCAACATCCCAGACA-TGGTCTTACACGAAT-CACATATCG
31040388 A
1 A
31040389 AAGTCCAATG
Statistics
Matches: 107, Mismatches: 14, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
41 34 0.32
42 36 0.34
43 37 0.35
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAACATCCCAGACATGGTCTTACACGAATCACATATCG
Found at i:31040988 original size:15 final size:15
Alignment explanation
Indices: 31040965--31040994 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31040955 TCAAAAATTC
31040965 CAATACAAAACATAT
1 CAATACAAAACATAT
*
31040980 CAATCCAAAACATAT
1 CAATACAAAACATAT
31040995 ATTTCATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:31042120 original size:26 final size:26
Alignment explanation
Indices: 31042084--31042193 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
31042074 TGATACAAAT
31042084 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
31042110 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
31042136 TGATAATTGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
31042162 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
31042188 TGATAA
1 TGATAA
31042194 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:31043707 original size:26 final size:26
Alignment explanation
Indices: 31043678--31043730 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
31043668 TTTACAGTTT
31043678 TACCCCTAGGAGGTAAATT-ACCGAAA
1 TACCCCTAGG-GGTAAATTGACCGAAA
* *
31043704 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGGTAAATTGACCGAAA
31043730 T
1 T
31043731 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGGTAAATTGACCGAAA
Found at i:31047324 original size:28 final size:28
Alignment explanation
Indices: 31047305--31047360 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
31047295 TTATAATATT
31047305 ATATTTAACTCGTAAATATTAAATAGTA
1 ATATTTAACTCGTAAATATTAAATAGTA
31047333 ATATTTAACTCGTAAATATTAAATAGTA
1 ATATTTAACTCGTAAATATTAAATAGTA
31047361 TGAACTCACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (28 bp):
ATATTTAACTCGTAAATATTAAATAGTA
Found at i:31047333 original size:14 final size:14
Alignment explanation
Indices: 31047316--31047360 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
31047306 TATTTAACTC
31047316 GTAAATATTAAATA
1 GTAAATATTAAATA
* *
31047330 GT-AATATTTAACTC
1 GTAAATA-TTAAATA
31047344 GTAAATATTAAATA
1 GTAAATATTAAATA
31047358 GTA
1 GTA
31047361 TGAACTCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.16
14 17 0.68
15 4 0.16
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (14 bp):
GTAAATATTAAATA
Found at i:31050837 original size:19 final size:19
Alignment explanation
Indices: 31050815--31050869 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
31050805 CATATGAGTT
31050815 CACTAATCACACACAATTC
1 CACTAATCACACACAATTC
*
31050834 CACTAATCACACAAAATTC
1 CACTAATCACACACAATTC
*
31050853 CACTAATCAGACACAAT
1 CACTAATCACACACAAT
31050870 CATCGAGGCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (19 bp):
CACTAATCACACACAATTC
Found at i:31051483 original size:320 final size:320
Alignment explanation
Indices: 31050899--31051534 Score: 1119
Period size: 320 Copynumber: 2.0 Consensus size: 320
31050889 TCATGCAAAA
*
31050899 TGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTCTAAAATGAATGAACATGTTCACAATA
1 TGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTCTAAAATGAATGAACATGTTCACAACA
31050964 ATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGCAA
66 ATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGCAA
31051029 GATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCTCG
131 GATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCTCG
* * *
31051094 TGAATTTGACTTGCTCACACGCGAGTCATCACCAATCTCACTTGGCAAATCATCCAAAACATTGA
196 TGAATTTGACTAGCTCACACGCAAGTCATCACCAATCTCACTTGGCAAATCATCCAAAACATGGA
*
31051159 TTAGAAAATTTTAGGGTGTGACATTTTTCCCTACTTAATTTAGGAAGGTAAAATTTCTAG
261 TTAGAAAATTTTAGGGTATGACATTTTTCCCTACTTAATTTAGGAAGGTAAAATTTCTAG
* *
31051219 TGACATGCTTCTTGTACGTGCTCCACCTATTGTGGATTTTAAAATGAATGAACATGTTCACAACA
1 TGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTCTAAAATGAATGAACATGTTCACAACA
* *
31051284 GTTGAACTCACCACTGGTAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGCAA
66 ATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGCAA
**
31051349 GATGGCGGAACTTGGCGGAATGATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCTCG
131 GATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCTCG
* * *
31051414 TGAATTTGACTAGCTCACACGCAAGTCATCACTAATCTTACTTGGTAAATCATCCAAAACATGGA
196 TGAATTTGACTAGCTCACACGCAAGTCATCACCAATCTCACTTGGCAAATCATCCAAAACATGGA
* * *
31051479 TTAGAAAATTTTGGGGTATGCCATTTTTCCTTACTTAATTTAGGAAGGTAAAATTT
261 TTAGAAAATTTTAGGGTATGACATTTTTCCCTACTTAATTTAGGAAGGTAAAATTT
31051535 TTAACCTTTC
Statistics
Matches: 299, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
320 299 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (320 bp):
TGACATGCTTCTTGTACGTACTCCACCTATTGTGGATTCTAAAATGAATGAACATGTTCACAACA
ATTGAACTCACCACTGGCAGGTTCGCAATGGAAGAACTCACCAAATGTGAAATAGGAATCCGCAA
GATGGCGGAACTTGGCGGAACAATCTACAAGGAAAATACAATAAAATGGAACAAGTCAATTCTCG
TGAATTTGACTAGCTCACACGCAAGTCATCACCAATCTCACTTGGCAAATCATCCAAAACATGGA
TTAGAAAATTTTAGGGTATGACATTTTTCCCTACTTAATTTAGGAAGGTAAAATTTCTAG
Found at i:31052753 original size:5 final size:5
Alignment explanation
Indices: 31052741--31052775 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
31052731 CCTCCCCTCT
*
31052741 CATCC CATAC CATCC CATCC CATCC CATCC CATCC
1 CATCC CATCC CATCC CATCC CATCC CATCC CATCC
31052776 TACCCCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.23, C:0.57, G:0.00, T:0.20
Consensus pattern (5 bp):
CATCC
Found at i:31053537 original size:31 final size:31
Alignment explanation
Indices: 31053501--31053582 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
31053491 TCAAAATTTT
* * *
31053501 TTCATTCAATTCAATTTAATTCGATCAAAAA
1 TTCATTCGATTTAATTCAATTCGATCAAAAA
*
31053532 TTCATTCGATTTAATTCAATTCGATCGAAAA
1 TTCATTCGATTTAATTCAATTCGATCAAAAA
31053563 TTCATTCGATTTAATTCAAT
1 TTCATTCGATTTAATTCAAT
31053583 GAACAATGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.41
Consensus pattern (31 bp):
TTCATTCGATTTAATTCAATTCGATCAAAAA
Found at i:31053540 original size:16 final size:15
Alignment explanation
Indices: 31053519--31053572 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
31053509 ATTCAATTTA
31053519 ATTCGATCAAAAATTC
1 ATTCGATC-AAAATTC
**
31053535 ATTCGAT-TTAATTC
1 ATTCGATCAAAATTC
31053549 AATTCGATCGAAAATTC
1 -ATTCGATC-AAAATTC
31053566 ATTCGAT
1 ATTCGAT
31053573 TTAATTCAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 14 0.45
17 5 0.16
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (15 bp):
ATTCGATCAAAATTC
Found at i:31056107 original size:6 final size:6
Alignment explanation
Indices: 31056098--31056124 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
31056088 ATAGTGATAT
31056098 TGAAGA TGAAGA TGAAGA TGAAGA TGA
1 TGAAGA TGAAGA TGAAGA TGAAGA TGA
31056125 GAATGCTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.33, T:0.19
Consensus pattern (6 bp):
TGAAGA
Done.