Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 3 of 332
Found at i:788484 original size:21 final size:21
Alignment explanation
Indices: 788460--788509 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
788450 GTGTCATATT
788460 TCAGGCACCTCGTGTGTCGTA
1 TCAGGCACCTCGTGTGTCGTA
* *
788481 TCAGGCATCTCGTGTGTCGTT
1 TCAGGCACCTCGTGTGTCGTA
*
788502 TTAGGCAC
1 TCAGGCAC
788510 TTTATGTGTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.32
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGTCGTA
Found at i:788517 original size:21 final size:21
Alignment explanation
Indices: 788439--788521 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
788429 TTTATCGATC
* *
788439 AGGCACTTTATGTGTCATATTT
1 AGGCACTTCATGTGTCGT-TTT
* * * *
788461 CAGGCACCTCGTGTGTCGTATC
1 -AGGCACTTCATGTGTCGTTTT
*
788483 AGGCA-TCTCGTGTGTCGTTTT
1 AGGCACT-TCATGTGTCGTTTT
*
788504 AGGCACTTTATGTGTCGT
1 AGGCACTTCATGTGTCGT
788522 ACTCTAATCA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
21 31 0.66
22 2 0.04
23 14 0.30
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (21 bp):
AGGCACTTCATGTGTCGTTTT
Found at i:788704 original size:18 final size:19
Alignment explanation
Indices: 788683--788723 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
788673 AATGAAATGA
788683 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
788701 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
788720 GAAA
1 GAAA
788724 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:788832 original size:17 final size:17
Alignment explanation
Indices: 788810--788842 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
788800 TATTGTTAAG
788810 AAGTAAAGTGTGAATAC
1 AAGTAAAGTGTGAATAC
*
788827 AAGTAAATTGTGAATA
1 AAGTAAAGTGTGAATA
788843 TATTGTATAT
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:0.48, C:0.03, G:0.21, T:0.27
Consensus pattern (17 bp):
AAGTAAAGTGTGAATAC
Found at i:803026 original size:19 final size:19
Alignment explanation
Indices: 803004--803041 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
802994 CCACACAGCA
803004 TAGGCTGTGACACACGGCC
1 TAGGCTGTGACACACGGCC
803023 TAGGCTGTGACACACGGCC
1 TAGGCTGTGACACACGGCC
803042 GTGTGTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.32, G:0.32, T:0.16
Consensus pattern (19 bp):
TAGGCTGTGACACACGGCC
Found at i:810134 original size:125 final size:125
Alignment explanation
Indices: 809895--810122 Score: 384
Period size: 125 Copynumber: 1.8 Consensus size: 125
809885 ATAACAACGA
* * * * *
809895 ACACTCCTTAGCATCACACCTTAAATGTAAGATCATCCCTTAACATAGACAACCTAGAAACTCCG
1 ACACTCCTTAGCACCACACCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCA
*
809960 AAACATTGTAGCAAAAATACTCCATAAAAACAAAAGAAACACAAAAATTAGAAATCGAGC
66 AAAAATTGTAGCAAAAATACTCCATAAAAACAAAAGAAACACAAAAATTAGAAATCGAGC
*
810020 ACACTCCTTAGCACCACTCCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCA
1 ACACTCCTTAGCACCACACCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCA
*
810085 AAAAATTGTAGCAAGAATACTCCATAAAAACAAAAGAA
66 AAAAATTGTAGCAAAAATACTCCATAAAAACAAAAGAA
810123 CGACGAAAAT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
125 95 1.00
ACGTcount: A:0.47, C:0.25, G:0.09, T:0.19
Consensus pattern (125 bp):
ACACTCCTTAGCACCACACCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCA
AAAAATTGTAGCAAAAATACTCCATAAAAACAAAAGAAACACAAAAATTAGAAATCGAGC
Found at i:810140 original size:12 final size:12
Alignment explanation
Indices: 810125--810149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
810115 CAAAAGAACG
810125 ACGAAAATTAAA
1 ACGAAAATTAAA
810137 ACGAAAATTAAA
1 ACGAAAATTAAA
810149 A
1 A
810150 ATTGAGCACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (12 bp):
ACGAAAATTAAA
Found at i:810158 original size:125 final size:124
Alignment explanation
Indices: 809902--810162 Score: 321
Period size: 125 Copynumber: 2.1 Consensus size: 124
809892 CGAACACTCC
* * * * * *
809902 TTAGCATCACACCTTAAATGTAAGATCATCCCTTAACATAGACAACCTAGAAACTCCGAAACATT
1 TTAGCA-CACTCCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCAAAAAATT
** ****
809967 GTAGCAAAAATACTCCATAAAAACAAAAGAAACACAAAAATTAGAAATCGAGCACACTCC
65 GTAGCAAAAATACTCCATAAAAACAAAAGAAACACAAAAATTAGAAATCGAAAACAAAAA
810027 TTAGCACCACTCCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCAAAAAATT
1 TTAGCA-CACTCCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCAAAAAATT
* * *
810092 GTAGCAAGAATACTCCATAAAAACAAAAG-AACGACGAAAATTA-AAA-CGAAAATTAAAAA
65 GTAGCAAAAATACTCCATAAAAACAAAAGAAAC-ACAAAAATTAGAAATCGAAAA-CAAAAA
810151 TTGAGCACACTC
1 TT-AGCACACTC
810163 GTTAGCATCA
Statistics
Matches: 117, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
123 4 0.03
124 14 0.12
125 99 0.85
ACGTcount: A:0.49, C:0.23, G:0.10, T:0.19
Consensus pattern (124 bp):
TTAGCACACTCCTTAAATGTAAGATCATACCTTAACACAGACAACCTAAAAACTCCAAAAAATTG
TAGCAAAAATACTCCATAAAAACAAAAGAAACACAAAAATTAGAAATCGAAAACAAAAA
Found at i:810959 original size:24 final size:24
Alignment explanation
Indices: 810923--810969 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
810913 GCAATTTTGG
** * *
810923 ACTTTTCTTATTTTCCTTTTCTTC
1 ACTTTTCAAATTTCCCTCTTCTTC
810947 ACTTTTCAAATTTCCCTCTTCTT
1 ACTTTTCAAATTTCCCTCTTCTT
810970 TTCCTTTCCT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.28, G:0.00, T:0.60
Consensus pattern (24 bp):
ACTTTTCAAATTTCCCTCTTCTTC
Found at i:812461 original size:13 final size:13
Alignment explanation
Indices: 812443--812468 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
812433 TTGCCCCTGC
812443 CACTAAAAGTCGA
1 CACTAAAAGTCGA
812456 CACTAAAAGTCGA
1 CACTAAAAGTCGA
812469 GATATAAGTG
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:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (13 bp):
CACTAAAAGTCGA
Found at i:815063 original size:14 final size:14
Alignment explanation
Indices: 815044--815073 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
815034 GGTAATGATG
815044 TATCAAATGAAGCC
1 TATCAAATGAAGCC
815058 TATCAAATGAAGCC
1 TATCAAATGAAGCC
815072 TA
1 TA
815074 AAACATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (14 bp):
TATCAAATGAAGCC
Found at i:816395 original size:12 final size:12
Alignment explanation
Indices: 816378--816402 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
816368 TGAAAAACAT
816378 ATTTCAATGGAA
1 ATTTCAATGGAA
816390 ATTTCAATGGAA
1 ATTTCAATGGAA
816402 A
1 A
816403 CTGCCAAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.32
Consensus pattern (12 bp):
ATTTCAATGGAA
Found at i:817204 original size:17 final size:17
Alignment explanation
Indices: 817182--817216 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
817172 GAAGGGAGAA
817182 TGATTATATTACGGTAG
1 TGATTATATTACGGTAG
817199 TGATTATATTACGGTAG
1 TGATTATATTACGGTAG
817216 T
1 T
817217 ATTCACTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.43
Consensus pattern (17 bp):
TGATTATATTACGGTAG
Found at i:824128 original size:9 final size:9
Alignment explanation
Indices: 824114--824138 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
824104 AATAATTCAT
824114 AAAGGAGGA
1 AAAGGAGGA
824123 AAAGGAGGA
1 AAAGGAGGA
824132 AAAGGAG
1 AAAGGAG
824139 AAGACCGGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
AAAGGAGGA
Found at i:837960 original size:52 final size:48
Alignment explanation
Indices: 837875--838241 Score: 439
Period size: 46 Copynumber: 7.6 Consensus size: 48
837865 TTTGAGTACT
* **
837875 TCTGATCAAGTG--ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
837921 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
837973 TCTGATCAAGTG--ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
838019 TCTGATCAAGTGAC--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
838065 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
838117 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
838169 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
838215 TCTGATCAA--GAAACAAAGTGATAAGTG
1 TCTGATCAAGTGACATAAAGTGATAAGTG
838242 GCTACACTTA
Statistics
Matches: 289, Mismatches: 16, Indels: 32
0.86 0.05 0.09
Matches are distributed among these distances:
44 2 0.01
46 150 0.52
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (48 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:837995 original size:98 final size:97
Alignment explanation
Indices: 837875--838224 Score: 494
Period size: 98 Copynumber: 3.6 Consensus size: 97
837865 TTTGAGTACT
* *
837875 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
837940 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
837973 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
838033 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
838065 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
838130 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
838169 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
838225 AAACAAAGTG
Statistics
Matches: 226, Mismatches: 14, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
92 41 0.18
95 1 0.00
96 1 0.00
98 141 0.62
101 1 0.00
104 41 0.18
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:838223 original size:196 final size:196
Alignment explanation
Indices: 837889--838241 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
837879 ATCAAGTGAT
* * *
837889 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
837954 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
**
838019 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
838084 G
196 G
* *
838085 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
838150 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
838215 TCTGATCAAGAAACAAAGTGATAAGTG
131 TCTGATCAAGAAACAAAGTGATAAGTG
838242 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAAACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:838249 original size:37 final size:37
Alignment explanation
Indices: 838205--838313 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
838195 GATAGCTTTA
838205 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
838242 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
838279 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
838314 ATCATACGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 51 0.77
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:847568 original size:18 final size:18
Alignment explanation
Indices: 847542--847581 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
847532 TATCAGATGA
*
847542 AGAAGAAGAAACTTCTTC
1 AGAAAAAGAAACTTCTTC
*
847560 AGAAAAAGAAATTTCTTC
1 AGAAAAAGAAACTTCTTC
847578 AGAA
1 AGAA
847582 GAGTCATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.50, C:0.12, G:0.15, T:0.23
Consensus pattern (18 bp):
AGAAAAAGAAACTTCTTC
Found at i:850763 original size:18 final size:18
Alignment explanation
Indices: 850736--850788 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
850726 TGTTAATATA
*
850736 GGAGTAAATCCCTGATTG
1 GGAGTAAATCCTTGATTG
*
850754 GGAGTCAATCCTTGATTG
1 GGAGTAAATCCTTGATTG
850772 GGAGTAAATCCTTGATT
1 GGAGTAAATCCTTGATT
850789 AGGATTTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (18 bp):
GGAGTAAATCCTTGATTG
Found at i:854198 original size:21 final size:20
Alignment explanation
Indices: 854174--854215 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
854164 TTTGATAGAA
854174 ATTACAAATATAATTTT-ATTT
1 ATTACAAA-AT-ATTTTCATTT
*
854195 ATTAGAAAATATTTTCATTT
1 ATTACAAAATATTTTCATTT
854215 A
1 A
854216 ATAGATTGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 5 0.26
20 7 0.37
21 7 0.37
ACGTcount: A:0.43, C:0.05, G:0.02, T:0.50
Consensus pattern (20 bp):
ATTACAAAATATTTTCATTT
Found at i:883497 original size:1 final size:1
Alignment explanation
Indices: 883491--883515 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
883481 ATGCAAATTT
883491 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
883516 GGCAATCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:886968 original size:20 final size:20
Alignment explanation
Indices: 886943--886983 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
886933 ACCGACTTGT
886943 AATAAATTCAGTAGCACCTC
1 AATAAATTCAGTAGCACCTC
886963 AATAAATTCAGTAGCACCTC
1 AATAAATTCAGTAGCACCTC
886983 A
1 A
886984 CTGGCAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.24, G:0.10, T:0.24
Consensus pattern (20 bp):
AATAAATTCAGTAGCACCTC
Found at i:890434 original size:49 final size:49
Alignment explanation
Indices: 890362--890458 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
890352 AACAAGGTTT
890362 TAGTTTAATTAACCCATAATAAACTTTAGGGAAATGACTCAGATACATA
1 TAGTTTAATTAACCCATAATAAACTTTAGGGAAATGACTCAGATACATA
890411 TAGTTTAATTAACCCATAATAAACTTTAGGGAAATGACTCAGATACAT
1 TAGTTTAATTAACCCATAATAAACTTTAGGGAAATGACTCAGATACAT
890459 GAGAACCATC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (49 bp):
TAGTTTAATTAACCCATAATAAACTTTAGGGAAATGACTCAGATACATA
Found at i:896598 original size:16 final size:17
Alignment explanation
Indices: 896573--896607 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
896563 TACCAAGCAA
*
896573 AAGTTTTCTATC-CTTC
1 AAGTTATCTATCTCTTC
896589 AAGTTATCTATCTCTTC
1 AAGTTATCTATCTCTTC
896606 AA
1 AA
896608 TTTTCCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.46
Consensus pattern (17 bp):
AAGTTATCTATCTCTTC
Found at i:897498 original size:15 final size:15
Alignment explanation
Indices: 897474--897527 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
897464 TCTGAATTTT
*
897474 AAAATATAAAGTTAGA
1 AAAAT-TAAAGTTACA
* *
897490 AAAATTAAATTTATA
1 AAAATTAAAGTTACA
*
897505 AAAATAAAAG-TACA
1 AAAATTAAAGTTACA
897519 AAAATTAAA
1 AAAATTAAA
897528 TTCTAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
14 11 0.34
15 16 0.50
16 5 0.16
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.26
Consensus pattern (15 bp):
AAAATTAAAGTTACA
Found at i:897501 original size:29 final size:29
Alignment explanation
Indices: 897468--897536 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
897458 GTTGAATCTG
*
897468 AATTTTAAAATAT-AAAGTTAGAAAAATTA
1 AATTTTAAAATATAAAAG-TACAAAAATTA
897497 AATTTATAAAA-ATAAAAGTACAAAAATTA
1 AATTT-TAAAATATAAAAGTACAAAAATTA
*
897526 AATTCTAAAAT
1 AATTTTAAAAT
897537 TTTAAAAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.14
29 21 0.60
30 9 0.26
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (29 bp):
AATTTTAAAATATAAAAGTACAAAAATTA
Found at i:902633 original size:35 final size:36
Alignment explanation
Indices: 902586--902658 Score: 139
Period size: 35 Copynumber: 2.1 Consensus size: 36
902576 ATCTTGAAAC
902586 TTTATTTCCTTTTTCTTCTTCTTCTTCTCCTTTTTT
1 TTTATTTCCTTTTTCTTCTTCTTCTTCTCCTTTTTT
902622 TTTA-TTCCTTTTTCTTCTTCTTCTTCTCCTTTTTT
1 TTTATTTCCTTTTTCTTCTTCTTCTTCTCCTTTTTT
902657 TT
1 TT
902659 GTTTCATTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 33 0.89
36 4 0.11
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.73
Consensus pattern (36 bp):
TTTATTTCCTTTTTCTTCTTCTTCTTCTCCTTTTTT
Found at i:905567 original size:11 final size:11
Alignment explanation
Indices: 905553--905639 Score: 86
Period size: 11 Copynumber: 8.0 Consensus size: 11
905543 ATATCCAAAC
*
905553 AATAATAATAT
1 AATAATAAAAT
*
905564 AATAGTAAAAT
1 AATAATAAAAT
* *
905575 AGTAACAAAAT
1 AATAATAAAAT
* *
905586 AGTAAGAAAAT
1 AATAATAAAAT
905597 AATAATAAAAT
1 AATAATAAAAT
* *
905608 AATAACAAAAC
1 AATAATAAAAT
905619 AATAA-AAAAT
1 AATAATAAAAT
*
905629 AATAAGAAAAT
1 AATAATAAAAT
905640 TTACAATTTA
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
10 9 0.14
11 55 0.86
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:905606 original size:22 final size:22
Alignment explanation
Indices: 905553--905639 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 22
905543 ATATCCAAAC
*
905553 AATAATAATATAAT-AGTAAAAT
1 AATAATAAAATAATAAG-AAAAT
* * *
905575 AGTAACAAAATAGTAAGAAAAT
1 AATAATAAAATAATAAGAAAAT
* *
905597 AATAATAAAATAATAACAAAAC
1 AATAATAAAATAATAAGAAAAT
905619 AATAA-AAAATAATAAGAAAAT
1 AATAATAAAATAATAAGAAAAT
905640 TTACAATTTA
Statistics
Matches: 53, Mismatches: 11, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
21 14 0.26
22 37 0.70
23 2 0.04
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (22 bp):
AATAATAAAATAATAAGAAAAT
Found at i:905606 original size:33 final size:32
Alignment explanation
Indices: 905549--905639 Score: 110
Period size: 33 Copynumber: 2.8 Consensus size: 32
905539 TACAATATCC
* * *
905549 AAACAATAATAATATAATAGTAAAATAGTAACA
1 AAACAATAA-AAAATAATAATAAAATAATAACA
* *
905582 AAATAGTAAGAAAATAATAATAAAATAATAACA
1 AAACAATAA-AAAATAATAATAAAATAATAACA
*
905615 AAACAATAAAAAATAATAAGAAAAT
1 AAACAATAAAAAATAATAATAAAAT
905640 TTACAATTTA
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 15 0.31
33 34 0.69
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.21
Consensus pattern (32 bp):
AAACAATAAAAAATAATAATAAAATAATAACA
Found at i:917537 original size:12 final size:12
Alignment explanation
Indices: 917520--917546 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
917510 AAGAGAAGGA
917520 TGATGATGATGG
1 TGATGATGATGG
917532 TGATGATGATGG
1 TGATGATGATGG
917544 TGA
1 TGA
917547 GGACCTAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.41, T:0.33
Consensus pattern (12 bp):
TGATGATGATGG
Found at i:919537 original size:20 final size:20
Alignment explanation
Indices: 919475--919536 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
919465 AATTTAAAAT
*
919475 TTTTTATAAA-TATTTT-AA
1 TTTTTAAAAATTATTTTGAA
*
919493 ATTTTAAAAATTATTTTGAA
1 TTTTTAAAAATTATTTTGAA
*
919513 TTTTTGAAAATTATTTTG-A
1 TTTTTAAAAATTATTTTGAA
919532 TTTTT
1 TTTTT
919537 TTTTTTGTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
18 8 0.21
19 12 0.32
20 18 0.47
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTTAAAAATTATTTTGAA
Found at i:920851 original size:18 final size:18
Alignment explanation
Indices: 920830--920866 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
920820 TTTTTTGAAT
920830 TTTTATTAACTTTTTATA
1 TTTTATTAACTTTTTATA
* *
920848 TTTTATTGATTTTTTATA
1 TTTTATTAACTTTTTATA
920866 T
1 T
920867 ATATTTAATA
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:0.24, C:0.03, G:0.03, T:0.70
Consensus pattern (18 bp):
TTTTATTAACTTTTTATA
Found at i:922829 original size:29 final size:30
Alignment explanation
Indices: 922776--922834 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
922766 ATGAACATTC
*
922776 TCATTTAATAATTTCCATGTACAAT-ATCA
1 TCATTTAATAATTTCCATATACAATCATCA
*
922805 TCATTTCAT-ATTTCCATATATCAATCATCA
1 TCATTTAATAATTTCCATATA-CAATCATCA
922835 CGTATCGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 10 0.38
29 12 0.46
30 4 0.15
ACGTcount: A:0.36, C:0.20, G:0.02, T:0.42
Consensus pattern (30 bp):
TCATTTAATAATTTCCATATACAATCATCA
Found at i:923540 original size:26 final size:26
Alignment explanation
Indices: 923511--923567 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 26
923501 TTGATTATGT
**
923511 AACAAAGTTCACATTTATA-ACATTCA
1 AACAAA-TTCACACATATACACATTCA
923537 AAC-AATTCACACATATACACATTCA
1 AACAAATTCACACATATACACATTCA
923562 ATACAA
1 A-ACAA
923568 GCACATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 10 0.38
25 10 0.38
26 5 0.19
27 1 0.04
ACGTcount: A:0.49, C:0.23, G:0.02, T:0.26
Consensus pattern (26 bp):
AACAAATTCACACATATACACATTCA
Found at i:923572 original size:25 final size:24
Alignment explanation
Indices: 923526--923572 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 24
923516 AGTTCACATT
*
923526 TATAACATTCAAACAATTCACACA
1 TATAACATTCAAACAATGCACACA
923550 TATACACATTCAATACAA-GCACA
1 TATA-ACATTCAA-ACAATGCACA
923573 TAAATATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 4 0.20
25 12 0.60
26 4 0.20
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (24 bp):
TATAACATTCAAACAATGCACACA
Found at i:940104 original size:51 final size:51
Alignment explanation
Indices: 940044--940143 Score: 200
Period size: 51 Copynumber: 2.0 Consensus size: 51
940034 ATTAATTTGG
940044 GTAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAGA
1 GTAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAGA
940095 GTAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCA
1 GTAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCA
940144 ATTACATGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (51 bp):
GTAAAAAGTATAAAAATATCTTATCTTCAACTTATTATACACCCATTCAGA
Found at i:941164 original size:3 final size:3
Alignment explanation
Indices: 941156--941195 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
941146 TTTTATAGAG
941156 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
941196 GGTGTTATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:943645 original size:3 final size:3
Alignment explanation
Indices: 943637--943662 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
943627 AATGAGTAGG
943637 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
943663 GGAGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:950774 original size:24 final size:25
Alignment explanation
Indices: 950744--950792 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
950734 TAGTTTGGAC
*
950744 AACAACA-TTAAACTTAAAACCTAA
1 AACAACACTTAAAATTAAAACCTAA
*
950768 AACAACACTTAAAATTAAAGCCTAA
1 AACAACACTTAAAATTAAAACCTAA
950793 TAAAGCAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.20
Consensus pattern (25 bp):
AACAACACTTAAAATTAAAACCTAA
Found at i:951751 original size:6 final size:6
Alignment explanation
Indices: 951740--951789 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
951730 GTAGGTAAAG
* * * * *
951740 TAGTAA TAGTAA TAGTAA TAGTAG TAGTAG TAATAA TAATAA TAATAA
1 TAGTAA TAGTAA TAGTAA TAGTAA TAGTAA TAGTAA TAGTAA TAGTAA
951788 TA
1 TA
951790 ATAGGGATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (6 bp):
TAGTAA
Found at i:952799 original size:8 final size:8
Alignment explanation
Indices: 952786--952815 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
952776 CAGCAACATG
952786 CATGCAAC
1 CATGCAAC
952794 CATGCAAC
1 CATGCAAC
952802 CATGCAAC
1 CATGCAAC
952810 CATGCA
1 CATGCA
952816 GGAGCAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.37, C:0.37, G:0.13, T:0.13
Consensus pattern (8 bp):
CATGCAAC
Found at i:967140 original size:16 final size:17
Alignment explanation
Indices: 967119--967158 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
967109 TTAAATTAAT
967119 TTAAATTATTTT-TCAA
1 TTAAATTATTTTCTCAA
*
967135 TTAAATAATTTTCTCAA
1 TTAAATTATTTTCTCAA
*
967152 TTCAATT
1 TTAAATT
967159 CTAATCCTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAAATTATTTTCTCAA
Found at i:975385 original size:19 final size:19
Alignment explanation
Indices: 975361--975398 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
975351 TTGAGATTGC
975361 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
975380 CAACCTATTTGCCTGAAAT
1 CAACCTATTTGCCTGAAAT
975399 TATTCATTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (19 bp):
CAACCTATTTGCCTGAAAT
Found at i:975492 original size:6 final size:7
Alignment explanation
Indices: 975474--975499 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
975464 CACTCCCTTT
975474 TAAAAAA
1 TAAAAAA
975481 TAAAAAA
1 TAAAAAA
975488 TAAAAAA
1 TAAAAAA
975495 TAAAA
1 TAAAA
975500 TTTCAAAGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
TAAAAAA
Found at i:977496 original size:24 final size:24
Alignment explanation
Indices: 977469--977522 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
977459 TTTCTTTCCT
*
977469 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
977493 TTGCATTGCATCATGTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
977517 TTGCAT
1 TTGCAT
977523 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:977511 original size:19 final size:19
Alignment explanation
Indices: 977489--977532 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
977479 CCCATGCATT
977489 TGCATTGCATTGCATCATG
1 TGCATTGCATTGCATCATG
*
977508 TGCATTGCATTGCATCATT
1 TGCATTGCATTGCATCATG
977527 TGCATT
1 TGCATT
977533 AGATTTTCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.41
Consensus pattern (19 bp):
TGCATTGCATTGCATCATG
Found at i:985756 original size:3 final size:3
Alignment explanation
Indices: 985750--985797 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
985740 ATCATCATCG
* * * *
985750 GAA GAA GAA GAA GAG GAG GAA GAA GAA GAA GAG GAA GAA GAA GGA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
985798 CCTGGAGTGG
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:985770 original size:18 final size:18
Alignment explanation
Indices: 985749--985797 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
985739 AATCATCATC
985749 GGAAGAAGAAGAAGAGGA
1 GGAAGAAGAAGAAGAGGA
985767 GGAAGAAGAAGAAGAGGA
1 GGAAGAAGAAGAAGAGGA
* *
985785 AGAAGAAGGAGAA
1 GGAAGAAGAAGAA
985798 CCTGGAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (18 bp):
GGAAGAAGAAGAAGAGGA
Found at i:985771 original size:15 final size:15
Alignment explanation
Indices: 985753--985792 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
985743 ATCATCGGAA
*
985753 GAAGAAGAAGAGGAG
1 GAAGAAGAAGAAGAG
985768 GAAGAAGAAGAAGAG
1 GAAGAAGAAGAAGAG
985783 GAAGAAGAAG
1 GAAGAAGAAG
985793 GAGAACCTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.42, T:0.00
Consensus pattern (15 bp):
GAAGAAGAAGAAGAG
Found at i:997814 original size:20 final size:20
Alignment explanation
Indices: 997786--997835 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
997776 TTGATTAAGG
997786 TATCGATACCTTGGATGTGA
1 TATCGATACCTTGGATGTGA
* *
997806 TATCAATACCTTGGATGTGG
1 TATCGATACCTTGGATGTGA
997826 TATCGATACC
1 TATCGATACC
997836 AAAATTACAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (20 bp):
TATCGATACCTTGGATGTGA
Found at i:1008032 original size:13 final size:13
Alignment explanation
Indices: 1008014--1008039 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1008004 GCTTTAGAAT
1008014 TTGGGTTTTTAAG
1 TTGGGTTTTTAAG
1008027 TTGGGTTTTTAAG
1 TTGGGTTTTTAAG
1008040 ATAATCTCGA
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:0.15, C:0.00, G:0.31, T:0.54
Consensus pattern (13 bp):
TTGGGTTTTTAAG
Found at i:1011274 original size:13 final size:14
Alignment explanation
Indices: 1011251--1011283 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1011241 ATATTACATT
*
1011251 AATATATAATTTAA
1 AATATATAATTAAA
1011265 AATATA-AATTAAA
1 AATATATAATTAAA
1011278 AATATA
1 AATATA
1011284 GCAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATATAATTAAA
Found at i:1017022 original size:18 final size:17
Alignment explanation
Indices: 1016995--1017028 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1016985 CAACAATTCA
*
1016995 TCAACCAACTCCACCAT
1 TCAACCAACTCAACCAT
1017012 TCAATCCAACTCAACCA
1 TCAA-CCAACTCAACCA
1017029 CGAATGCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.44, G:0.00, T:0.18
Consensus pattern (17 bp):
TCAACCAACTCAACCAT
Found at i:1017864 original size:4 final size:4
Alignment explanation
Indices: 1017855--1017916 Score: 124
Period size: 4 Copynumber: 15.5 Consensus size: 4
1017845 ATAAATGAAA
1017855 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1017903 ATGT ATGT ATGT AT
1 ATGT ATGT ATGT AT
1017917 ACGGGAAGAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 58 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:1020645 original size:16 final size:16
Alignment explanation
Indices: 1020624--1020692 Score: 111
Period size: 16 Copynumber: 4.3 Consensus size: 16
1020614 TTGGTTTGCT
1020624 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
* *
1020640 GTAATGGAATAAAGGT
1 GTAATGGAATAGAGGC
*
1020656 GTAATGGAATAGAGGT
1 GTAATGGAATAGAGGC
1020672 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
1020688 GTAAT
1 GTAAT
1020693 AGCAATTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.39, C:0.03, G:0.35, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:1020736 original size:45 final size:44
Alignment explanation
Indices: 1020671--1020768 Score: 135
Period size: 44 Copynumber: 2.2 Consensus size: 44
1020661 GGAATAGAGG
*
1020671 TGTAATGGAATAGAGGCGTAATAGCAATTCAAT-TGTTTGGTTGAA
1 TGTAATGGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAA
* *
1020716 TGTAATGGAATAGAGACGTAATAGTATTCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAA
*
1020760 TGGAATGGA
1 TGTAATGGA
1020769 GGTGTAATAG
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
43 1 0.02
44 24 0.50
45 23 0.48
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.35
Consensus pattern (44 bp):
TGTAATGGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAA
Found at i:1020946 original size:18 final size:17
Alignment explanation
Indices: 1020925--1020959 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1020915 TTATTATTAA
*
1020925 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1020943 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1020960 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1021031 original size:25 final size:26
Alignment explanation
Indices: 1021003--1021052 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1020993 ATAATAATAT
1021003 ATGA-TACTATAAAATATAATTTAAC
1 ATGATTACTATAAAATATAATTTAAC
* * *
1021028 ATGATTATTATTAAATATATTTTAA
1 ATGATTACTATAAAATATAATTTAA
1021053 TTAAAATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (26 bp):
ATGATTACTATAAAATATAATTTAAC
Found at i:1021063 original size:18 final size:17
Alignment explanation
Indices: 1021040--1021076 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
1021030 GATTATTATT
1021040 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
1021056 AAATATATGATTTAATA
1 AAATATATGATTTAATA
1021073 AAAT
1 AAAT
1021077 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:1021125 original size:61 final size:60
Alignment explanation
Indices: 1020940--1021137 Score: 160
Period size: 60 Copynumber: 3.3 Consensus size: 60
1020930 TTTTAATTAA
* *
1020940 AATATATAATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTT-C-ATATAAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAATAAT
* * * * * * * *
1020998 AATATATGATACT-ATAAAATATAATTTAA-CATGATTATTATTAAAT-ATATTT--TAATTAA-
1 AATATATGAT-TTAATAAAAT-T--CTTAATAATCAATATTCTTATATGA-ATTTACTAAATAAT
* *
1021057 AATATATGATTTAATAAAATTCTTAATAATCAATTTTCTTATATGAATTTACTAAAATCAT
1 AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACT-AAATAAT
**
1021118 AATATATGATACAATAAAAT
1 AATATATGATTTAATAAAAT
1021138 ATAATTTGAA
Statistics
Matches: 105, Mismatches: 22, Indels: 23
0.70 0.15 0.15
Matches are distributed among these distances:
56 4 0.04
57 15 0.14
58 19 0.18
59 21 0.20
60 24 0.23
61 22 0.21
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.43
Consensus pattern (60 bp):
AATATATGATTTAATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTAAATAAT
Found at i:1021183 original size:18 final size:17
Alignment explanation
Indices: 1021160--1021196 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
1021150 AATTATTATT
1021160 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
1021176 AAATATATGATTTAATA
1 AAATATATGATTTAATA
1021193 AAAT
1 AAAT
1021197 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:1021199 original size:28 final size:29
Alignment explanation
Indices: 1021118--1021200 Score: 71
Period size: 28 Copynumber: 2.8 Consensus size: 29
1021108 CTAAAATCAT
* *
1021118 AATATATGA-TACAATAAAATATAATTTGA
1 AATATATGATTA-AATAAAATTTAATTTAA
* * *
1021147 AATAATTATTATTAAATATATTTTAA-TTAA
1 AAT-A-TATGATTAAATAAAATTTAATTTAA
*
1021177 AATATATGATTTAATAAAATTTAA
1 AATATATGATTAAATAAAATTTAA
1021201 AATAATTATT
Statistics
Matches: 42, Mismatches: 9, Indels: 7
0.72 0.16 0.12
Matches are distributed among these distances:
28 16 0.38
29 4 0.10
30 7 0.17
31 13 0.31
32 2 0.05
ACGTcount: A:0.53, C:0.01, G:0.04, T:0.42
Consensus pattern (29 bp):
AATATATGATTAAATAAAATTTAATTTAA
Found at i:1021206 original size:120 final size:117
Alignment explanation
Indices: 1020905--1021197 Score: 489
Period size: 117 Copynumber: 2.5 Consensus size: 117
1020895 TTAATCATAT
*
1020905 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
* *
1020970 CAATATTCTTATATGAATTTCATATAATAATATATGATACTATAAAATATAA
66 CAATATTCTTATATGAATTTCAAATAATAATATATGATACAATAAAATATAA
*
1021022 TTTAACATGATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
* *
1021087 CAATTTTCTTATATGAATTTACTAAAATCATAATATATGATACAATAAAATATAA
66 CAATATTCTTATATGAATTT-C--AAATAATAATATATGATACAATAAAATATAA
1021142 TTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1021198 TAAAATAATT
Statistics
Matches: 165, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
117 82 0.50
118 1 0.01
120 80 0.48
121 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (117 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAAT
CAATATTCTTATATGAATTTCAAATAATAATATATGATACAATAAAATATAA
Found at i:1021247 original size:47 final size:46
Alignment explanation
Indices: 1021179--1021346 Score: 152
Period size: 47 Copynumber: 3.7 Consensus size: 46
1021169 TTAATTAAAA
*
1021179 TATATG-ATTTAATAAAATTTAAAATAATTATTACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATTA-TAATAAATTTTCT
* * * *
1021226 TATTTGAATTTGTATAATTTAAAATTATTATTAT--TAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATTATAATAAAT-T-TTCT
* * *
1021271 TA-AT-AATAATATATAATTTCATAA-AATTCTTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATTATT-ATAATAAATTTTCT
1021317 TATATGAATTTATATAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
1021347 ATATTAAATA
Statistics
Matches: 94, Mismatches: 15, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
43 3 0.03
44 20 0.21
45 10 0.11
46 9 0.10
47 45 0.48
48 7 0.07
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATTATAATAAATTTTCT
Found at i:1021286 original size:44 final size:42
Alignment explanation
Indices: 1021238--1021380 Score: 128
Period size: 44 Copynumber: 3.2 Consensus size: 42
1021228 TTTGAATTTG
1021238 TATAATTTAAAATTATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATTATTA-TATTAAATATAATTTAATAAT-ATA
* * * *
1021282 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAA-TT--TAAAATTATT-ATATTAAATATAAT-TTA-AT-AATATA
*
1021329 TATAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATTATT-ATATTAAATATAATTTAATAAT-ATA
1021373 TATAATTT
1 TATAATTT
1021381 TATAAATTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
43 3 0.04
44 33 0.42
45 7 0.09
46 7 0.09
47 25 0.32
48 4 0.05
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (42 bp):
TATAATTTAAAATTATTATATTAAATATAATTTAATAATATA
Found at i:1021316 original size:91 final size:91
Alignment explanation
Indices: 1021204--1021419 Score: 333
Period size: 91 Copynumber: 2.4 Consensus size: 91
1021194 AATTTAAAAT
* * * * * *
1021204 AATTATTACTAATAAATTTTCTTATTTGAATTTGTATAATTTAAAATTATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1021269 TTTAATAATAATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
1021295 AATTCTTGATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
* *
1021360 TTTAATAATGATATATAATTTTATAA
66 TTTAATAATAATATATAATTTCATAA
* *
1021386 ATTTCTTAATAATAAATATTCTTATATGAATTTA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTA
1021420 CTAAAATCAA
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
91 113 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTATATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:1021402 original size:47 final size:45
Alignment explanation
Indices: 1021238--1021404 Score: 139
Period size: 47 Copynumber: 3.7 Consensus size: 45
1021228 TTTGAATTTG
* * *
1021238 TATAA-TTTA-AAATTATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTTATAAATTCTTAATAATAAATATAATTTAATAAT-ATA
* * * *
1021282 TATAATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTA
1 TATAATTTTAT-AAATTCTTAATAATAAATATAAT-TTA-AT-AATATA
** *
1021329 TATAA-TTTA-AAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTTATAAATTCTTAATAATAAATATAATTTAATAAT-ATA
1021373 TATAATTTTATAAATTTCTTAATAATAAATAT
1 TATAATTTTATAAA-TTCTTAATAATAAATAT
1021405 TCTTATATGA
Statistics
Matches: 94, Mismatches: 17, Indels: 21
0.71 0.13 0.16
Matches are distributed among these distances:
43 3 0.03
44 28 0.30
45 12 0.13
46 11 0.12
47 37 0.39
48 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (45 bp):
TATAATTTTATAAATTCTTAATAATAAATATAATTTAATAATATA
Found at i:1024426 original size:16 final size:16
Alignment explanation
Indices: 1024362--1024429 Score: 82
Period size: 16 Copynumber: 4.2 Consensus size: 16
1024352 TTTGGTTCGC
1024362 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
** * * *
1024378 CATATTGAATTAAAAG
1 TGTATTGGATTAGAGG
*
1024394 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1024410 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
1024426 TGTA
1 TGTA
1024430 ATAGTAAATT
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:1024686 original size:18 final size:17
Alignment explanation
Indices: 1024665--1024699 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
1024655 TTATTATTAA
*
1024665 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
1024683 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
1024700 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:1024753 original size:157 final size:156
Alignment explanation
Indices: 1024563--1024867 Score: 565
Period size: 157 Copynumber: 1.9 Consensus size: 156
1024553 TAATATAAAA
*
1024563 TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAATAAT
1 TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
* *
1024628 AAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
66 AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTA
1024693 ATAAAATTCTTAATAATTAGCAGAAAT
130 ATAAAATTCTTAATAATTAGCAGAAAT
*
1024720 TTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
1 TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
1024785 AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTAA
66 AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTAA
1024850 TAAAATTCTTAATAATTA
131 TAAAATTCTTAATAATTA
1024868 ATATTCTTAT
Statistics
Matches: 144, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
156 22 0.15
157 122 0.85
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (156 bp):
TTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTAATATCAATAAT
AAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTAA
TAAAATTCTTAATAATTAGCAGAAAT
Found at i:1024839 original size:16 final size:16
Alignment explanation
Indices: 1024802--1024843 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
1024792 TTAATCATAT
*
1024802 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
1024818 TT-AAATATATTATAA
1 TTAAAATATATTATAA
1024833 TTAAAATATAT
1 TTAAAATATAT
1024844 AATTAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:1024846 original size:13 final size:15
Alignment explanation
Indices: 1024811--1024849 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1024801 TTTAAACATA
*
1024811 ATTATTATTAAATAT
1 ATTATAATTAAATAT
1024826 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
1024840 A-TATAATTAA
1 ATTATAATTAA
1024850 TAAAATTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.39
14 3 0.13
15 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:1025087 original size:14 final size:15
Alignment explanation
Indices: 1024919--1025089 Score: 60
Period size: 15 Copynumber: 11.6 Consensus size: 15
1024909 TGTAAATATA
1024919 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
1024934 TATTAAATATATTAT
1 AATTAAATATATTAT
*
1024949 AATTAAAATATATAATT
1 AATT-AAATATATTA-T
* *
1024966 AATAAAAT-TCTTAAT
1 AATTAAATATATT-AT
*
1024981 AATT-AATATTCTTAT
1 AATTAAATA-TATTAT
* * *
1024996 -A-TGAATTTACTCA-
1 AATTAAATATA-TTAT
* *
1025009 AATCATAATATATGAT
1 AATTA-AATATATTAT
*
1025025 ACTGTAAA-ATA-TA-
1 AAT-TAAATATATTAT
1025038 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
1025053 TATTAAATATATTAT
1 AATTAAATATATTAT
1025068 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
1025081 AATTTAATA
1 AATTAAATA
1025090 AAATTCTTAA
Statistics
Matches: 116, Mismatches: 21, Indels: 39
0.66 0.12 0.22
Matches are distributed among these distances:
12 3 0.03
13 15 0.13
14 24 0.21
15 42 0.36
16 27 0.23
17 5 0.04
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.43
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:1025169 original size:120 final size:118
Alignment explanation
Indices: 1024805--1025196 Score: 698
Period size: 118 Copynumber: 3.3 Consensus size: 118
1024795 ATCATATTTA
1024805 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTAATAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTAATAAAATTCTTAATAATTAAT
1024870 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATATAAATT
66 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATATAAATT
1024923 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTAATAAAATTCTTAATAATTAAT
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTAATAAAATTCTTAATAATTAAT
1024988 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGT-AAATATAAATT
1025042 AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTATAATTAAAATATATAA-TTAATAAAATTCTTAATAATTAA
*
1025107 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAATGA-AAATTT
65 TATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAT-ATAAA-TT
* *
1025162 GAA-ATAATTAATATTAAATATATTTTAATTAAAAT
1 -AACATAATTATTATTAAATATATTATAATTAAAAT
1025197 TTATTGTTTA
Statistics
Matches: 266, Mismatches: 3, Indels: 8
0.96 0.01 0.03
Matches are distributed among these distances:
118 107 0.40
119 59 0.22
120 98 0.37
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (118 bp):
AACATAATTATTATTAAATATATTATAATTAAAATATATAATTAATAAAATTCTTAATAATTAAT
ATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAATATAAATT
Found at i:1028542 original size:18 final size:18
Alignment explanation
Indices: 1028515--1028549 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
1028505 TTTTCTGTTG
*
1028515 TTTTTGTTTTCTTTTATT
1 TTTTTCTTTTCTTTTATT
*
1028533 TTTTTCTTTTTTTTTAT
1 TTTTTCTTTTCTTTTAT
1028550 GCCAAAAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.06, G:0.03, T:0.86
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTATT
Found at i:1029371 original size:50 final size:50
Alignment explanation
Indices: 1029316--1029450 Score: 150
Period size: 50 Copynumber: 2.7 Consensus size: 50
1029306 TTCTGTTTTT
*
1029316 AATTTTTTTTAT-TTGTTGGTTTTAAACTCTTTTACATATTATCTATATTG
1 AATTTTTTTTATATTGTTGATTTTAAACTCTTTTACATATTATCTAT-TTG
* * ** *
1029366 AATTTTTATATATATTGTTTATTTTTAAA-T-TTTTATTTATTATCTATTTT
1 AATTTTT-TTTATATTGTTGA-TTTTAAACTCTTTTACATATTATCTATTTG
*
1029416 AATTTTTTTATATAATGTTGATTTTAAACTCTTTT
1 AATTTTTTT-TATATTGTTGATTTTAAACTCTTTT
1029451 TATACATCAT
Statistics
Matches: 70, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
49 8 0.11
50 26 0.37
51 23 0.33
52 6 0.09
53 7 0.10
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.63
Consensus pattern (50 bp):
AATTTTTTTTATATTGTTGATTTTAAACTCTTTTACATATTATCTATTTG
Found at i:1029398 original size:26 final size:25
Alignment explanation
Indices: 1029335--1029621 Score: 193
Period size: 26 Copynumber: 11.2 Consensus size: 25
1029325 TATTTGTTGG
* * *
1029335 TTTTAAACTCTTTTACATATTATCTA
1 TTTTAAA-TTTTTTATATATTATTTA
* * *
1029361 TATTGAATTTTTATATATATTGTTTA
1 TTTTAAATTTTT-TATATATTATTTA
* *
1029387 TTTTTAAA-TTTTTATTTATTATCTA
1 -TTTTAAATTTTTTATATATTATTTA
* * * *
1029412 TTTTAATTTTTTTATATAATGTTGA
1 TTTTAAATTTTTTATATATTATTTA
* *
1029437 TTTTAAACTCTTTTTATACATCATTTA
1 TTTTAAA-T-TTTTTATATATTATTTA
* * * *
1029464 CTTTAAAACTTTTTATGTGTTATTTA
1 -TTTTAAATTTTTTATATATTATTTA
*
1029490 TTTTAAATTATTTTACATATTATTTA
1 TTTTAAATT-TTTTATATATTATTTA
* * *
1029516 TTTTAAATATTTGTGTATATTATCTA
1 TTTTAAAT-TTTTTATATATTATTTA
* * *
1029542 TTTTAAAGTTTTATATATATTACTTG
1 TTTTAAA-TTTTTTATATATTATTTA
* *
1029568 GTTTAAATTATTTTATATGTTATTTA
1 TTTTAAATT-TTTTATATATTATTTA
* *
1029594 CTTTAAATTTCTTT-TACATTA-TTA
1 TTTTAAATTT-TTTATATATTATTTA
1029618 TTTT
1 TTTT
1029622 TAAAACTGTT
Statistics
Matches: 198, Mismatches: 52, Indels: 24
0.72 0.19 0.09
Matches are distributed among these distances:
24 12 0.06
25 47 0.24
26 114 0.58
27 19 0.10
28 6 0.03
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (25 bp):
TTTTAAATTTTTTATATATTATTTA
Found at i:1029745 original size:26 final size:26
Alignment explanation
Indices: 1029697--1029761 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
1029687 TTAAACTTTA
*
1029697 TATGTCATTTTAATTTTTTTATAAAT
1 TATGTTATTTTAATTTTTTTATAAAT
*
1029723 TA-GTTATTTTAGATTTTTTTATATAT
1 TATGTTATTTTA-ATTTTTTTATAAAT
*
1029749 TATTTTATTTTAA
1 TATGTTATTTTAA
1029762 ATTGTTTTGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
25 8 0.24
26 18 0.53
27 8 0.24
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.65
Consensus pattern (26 bp):
TATGTTATTTTAATTTTTTTATAAAT
Found at i:1029756 original size:27 final size:26
Alignment explanation
Indices: 1029703--1029782 Score: 90
Period size: 27 Copynumber: 3.0 Consensus size: 26
1029693 TTTATATGTC
* *
1029703 ATTTTAATTTTTTTATAAATTA-GTT
1 ATTTTAATTTTTTTATATATTATTTT
1029728 ATTTTAGATTTTTTTATATATTATTTT
1 ATTTTA-ATTTTTTTATATATTATTTT
* *
1029755 ATTTTAAATTGTTTTGTATATTAATTTT
1 ATTTT-AATTTTTTTATATATT-ATTTT
1029783 TTAAAATTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
25 6 0.13
26 15 0.32
27 20 0.43
28 6 0.13
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (26 bp):
ATTTTAATTTTTTTATATATTATTTT
Found at i:1031397 original size:70 final size:70
Alignment explanation
Indices: 1031288--1031426 Score: 269
Period size: 70 Copynumber: 2.0 Consensus size: 70
1031278 GGATGGCTTG
1031288 AATTAAATTTGTTTATGATTGCTTAAATTAAAATATCATAAATAAATACTTCCTCTTGAAAGAGG
1 AATTAAATTTGTTTATGATTGCTTAAATTAAAATATCATAAATAAATACTTCCTCTTGAAAGAGG
1031353 TATTA
66 TATTA
*
1031358 AATTACATTTGTTTATGATTGCTTAAATTAAAATATCATAAATAAATACTTCCTCTTGAAAGAGG
1 AATTAAATTTGTTTATGATTGCTTAAATTAAAATATCATAAATAAATACTTCCTCTTGAAAGAGG
1031423 TATT
66 TATT
1031427 TAAAATTGAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 68 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.40
Consensus pattern (70 bp):
AATTAAATTTGTTTATGATTGCTTAAATTAAAATATCATAAATAAATACTTCCTCTTGAAAGAGG
TATTA
Found at i:1031634 original size:14 final size:14
Alignment explanation
Indices: 1031615--1031642 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1031605 CTATAACAAC
1031615 ATTATGATGAATTA
1 ATTATGATGAATTA
1031629 ATTATGATGAATTA
1 ATTATGATGAATTA
1031643 GTAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (14 bp):
ATTATGATGAATTA
Found at i:1032084 original size:15 final size:15
Alignment explanation
Indices: 1032064--1032093 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1032054 CATATACAAA
1032064 TAATTATATTTATCC
1 TAATTATATTTATCC
1032079 TAATTATATTTATCC
1 TAATTATATTTATCC
1032094 GGTATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTATATTTATCC
Found at i:1035657 original size:17 final size:17
Alignment explanation
Indices: 1035635--1035668 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1035625 ATCCACTAAT
*
1035635 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1035652 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1035669 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1040295 original size:17 final size:17
Alignment explanation
Indices: 1040273--1040306 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1040263 ATCCACTAAT
*
1040273 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
1040290 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
1040307 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:1044027 original size:25 final size:27
Alignment explanation
Indices: 1043990--1044042 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
1043980 TCAAACATGC
1043990 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
1044016 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
1044042 A
1 A
1044043 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:1045564 original size:26 final size:26
Alignment explanation
Indices: 1045534--1045615 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
1045524 TGAAATTCCC
1045534 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
1045560 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1045586 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1045612 ATCA
1 ATCA
1045616 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1048905 original size:12 final size:12
Alignment explanation
Indices: 1048888--1048918 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1048878 GAGACATGAT
1048888 TTTGGGCGTGAA
1 TTTGGGCGTGAA
*
1048900 TTTGGGCGTGTA
1 TTTGGGCGTGAA
1048912 TTTGGGC
1 TTTGGGC
1048919 ATAATTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.10, G:0.42, T:0.39
Consensus pattern (12 bp):
TTTGGGCGTGAA
Found at i:1051186 original size:17 final size:15
Alignment explanation
Indices: 1051151--1051180 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1051141 GTTCATATAA
1051151 CTTTATGTAAATATT
1 CTTTATGTAAATATT
*
1051166 CTTTATGTATATATT
1 CTTTATGTAAATATT
1051181 TTCTTTTCAA
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:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (15 bp):
CTTTATGTAAATATT
Found at i:1060093 original size:3 final size:3
Alignment explanation
Indices: 1060085--1060132 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
1060075 AACCGTAGGT
* *
1060085 AGA AGA AGA AGA AAA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1060133 TCAAAGCTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1068693 original size:42 final size:42
Alignment explanation
Indices: 1068646--1068730 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
1068636 TTTTGCTCGC
1068646 AAATGTCATAATAAAATTCTTTTTCTTCTTCATCTGAGTTTA
1 AAATGTCATAATAAAATTCTTTTTCTTCTTCATCTGAGTTTA
1068688 AAATGTCATAATAAAATTCTTTTTCTTCTTCATCTGAGTTTA
1 AAATGTCATAATAAAATTCTTTTTCTTCTTCATCTGAGTTTA
1068730 A
1 A
1068731 CTCATATTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.47
Consensus pattern (42 bp):
AAATGTCATAATAAAATTCTTTTTCTTCTTCATCTGAGTTTA
Found at i:1070202 original size:9 final size:9
Alignment explanation
Indices: 1070188--1070220 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1070178 TTCCATCTTT
1070188 AATTAATCA
1 AATTAATCA
1070197 AATTAATCA
1 AATTAATCA
1070206 AATTAAT-A
1 AATTAATCA
1070214 AATTAAT
1 AATTAAT
1070221 TGTTGAAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.33
9 16 0.67
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (9 bp):
AATTAATCA
Found at i:1075223 original size:105 final size:105
Alignment explanation
Indices: 1075078--1075921 Score: 1273
Period size: 105 Copynumber: 8.0 Consensus size: 105
1075068 TACATTTTTA
* * * * *
1075078 AAATAAAATAAAAAATAAAAAGGTTGATACATTAGATCAAGTTGAGATGGCTATGTCAGAAGAAC
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
*
1075143 AAATACTTAGCTTCGTCCAAAGGAATTACATTTGATCATC
66 AAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
* *
1075183 AAATAAAATAAAAAATAAAAATGTTGACACATTGGGTCAAGCT-AGGATGGCTATGTCGGAAGAG
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGA-GATGGCTATGTCGGAAGAA
*
1075247 CAAATACTTAGCTTCGTCCAAAGGAATTACATTTGATCATC
65 CAAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
*
1075288 AAATAAAATAAAAAATAAAAAGGTTGACACATTAGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
* *
1075353 AAATACTTATCTTCGTCCGAAGGGATTACATTTGATCATC
66 AAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
* * *
1075393 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCT-AGGATGGTTATCTCGGAAGAG
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGA-GATGGCTATGTCGGAAGAA
* *
1075457 CAAATACTTAGCTTCGTCCGAAGGGATTACATTTGATCACC
65 CAAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
* * *
1075498 AAATAAAATAAAAAATAAAAAGATTGACACATTAGGTCAAGCT-AGGATGGCTATCTCGGAAGAA
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGA-GATGGCTATGTCGGAAGAA
* * *
1075562 TAAATACTTAGCTTCGTCTGAAGGAATTACATTTGATCACC
65 CAAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
*
1075603 AAATAAAATAAAAAATAAAAAAGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAA-
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
1075667 AAAGTACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
66 AAA-TACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
* * *
1075708 AAATAAAATAAAAAATAATAAGGTTGACACATTGGGTCAAGCTGAGATGGTTATGTGGGAAGAAC
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
* * * * *
1075773 AAGTACTTAGGTTCATCCGAAGGGATTACATTTGACCATC
66 AAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
* *
1075813 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGTTATGTTGGAAGAAC
1 AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
** * **
1075878 AAATACTTAGCTTCACCCGAAGGGATTACATTCAATCATC
66 AAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
1075918 AAAT
1 AAAT
1075922 TGGTCCCGTA
Statistics
Matches: 684, Mismatches: 49, Indels: 12
0.92 0.07 0.02
Matches are distributed among these distances:
104 5 0.01
105 675 0.99
106 4 0.01
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (105 bp):
AAATAAAATAAAAAATAAAAAGGTTGACACATTGGGTCAAGCTGAGATGGCTATGTCGGAAGAAC
AAATACTTAGCTTCGTCCGAAGGAATTACATTTGATCATC
Found at i:1077671 original size:18 final size:19
Alignment explanation
Indices: 1077648--1077684 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1077638 TTATATATTT
1077648 AATAAATA-AATAATTTTA
1 AATAAATATAATAATTTTA
*
1077666 AATAAATATAATAGTTTTA
1 AATAAATATAATAATTTTA
1077685 TTTTTTATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AATAAATATAATAATTTTA
Found at i:1078092 original size:20 final size:20
Alignment explanation
Indices: 1078067--1078116 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1078057 TGGCTTAAAA
1078067 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1078087 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1078104 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1078117 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1082730 original size:20 final size:20
Alignment explanation
Indices: 1082705--1082754 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
1082695 TGGCTTAAAA
1082705 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
1082725 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
1082742 GTGGTAGTGGATT
1 TTGGTAGTGGATT
1082755 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:1083631 original size:4 final size:4
Alignment explanation
Indices: 1083624--1083685 Score: 106
Period size: 4 Copynumber: 15.5 Consensus size: 4
1083614 TATAAAAAAA
* *
1083624 ATGT ATGT ATGT ATGC ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1083672 ATGT ATGT ATGT AT
1 ATGT ATGT ATGT AT
1083686 ACAAGGAGAG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 56 1.00
ACGTcount: A:0.26, C:0.03, G:0.24, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:1084212 original size:19 final size:20
Alignment explanation
Indices: 1084177--1084216 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
1084167 ACTTAAGTGA
1084177 TTTTACACCTTTCAATAATT
1 TTTTACACCTTTCAATAATT
1084197 TTTTACA-CTATT-AATAATT
1 TTTTACACCT-TTCAATAATT
1084216 T
1 T
1084217 AACAATCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.33, C:0.15, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTTACACCTTTCAATAATT
Found at i:1088994 original size:21 final size:21
Alignment explanation
Indices: 1088968--1089008 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1088958 AGACAAGCGA
* *
1088968 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1088989 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1089009 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1096029 original size:25 final size:27
Alignment explanation
Indices: 1095992--1096045 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 27
1095982 TCAAACATGC
1095992 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
* **
1096018 ATTTCGGT-AATTTTGCACCTAGGGGT
1 ATTTAGGTCAATTTAACACCTAGGGGT
1096044 AT
1 AT
1096046 AACAGTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACACCTAGGGGT
Found at i:1096053 original size:26 final size:27
Alignment explanation
Indices: 1096009--1096084 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 27
1095999 TCAATTTAAC
* * *
1096009 CCTAGGGGTATTTCGGTAATTTTGC-A
1 CCTAGGGGTATTACAGTAATTTTCCAA
*
1096035 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATTACAGTAATTTTCCA-A
* *
1096063 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATTACAGTAATTT
1096085 AGCTGCTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (27 bp):
CCTAGGGGTATTACAGTAATTTTCCAA
Found at i:1097590 original size:26 final size:26
Alignment explanation
Indices: 1097534--1097590 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
1097524 ATGAAATTCC
1097534 CATCATGGAACATTTACCTAACCCAT
1 CATCATGGAACATTTACCTAACCCAT
* *
1097560 TATCATGGAACATTTACCTAACCTAT
1 CATCATGGAACATTTACCTAACCCAT
1097586 CATCA
1 CATCA
1097591 ATTTGTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.35, C:0.28, G:0.07, T:0.30
Consensus pattern (26 bp):
CATCATGGAACATTTACCTAACCCAT
Found at i:1098802 original size:16 final size:17
Alignment explanation
Indices: 1098781--1098814 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1098771 TTATATTATA
1098781 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
1098797 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
1098814 T
1 T
1098815 TAATTATATA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:1098923 original size:16 final size:16
Alignment explanation
Indices: 1098883--1098925 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
1098873 TCTTTTATAT
1098883 ATTATTATATTTTCAC
1 ATTATTATATTTTCAC
*
1098899 ATATATTATATTTATTA-
1 AT-TATTATATTT-TCAC
1098916 ATTATTATAT
1 ATTATTATAT
1098926 ATATATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 10 0.42
17 12 0.50
18 2 0.08
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (16 bp):
ATTATTATATTTTCAC
Found at i:1099008 original size:42 final size:41
Alignment explanation
Indices: 1098948--1099040 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 41
1098938 ATGTGTTACT
*
1098948 TTATATTATATCTATTATTTTCTTAT-ATGTTTATATTACATTTTA
1 TTATA-TA-ATCTATTATTATCTT-TCAT-TTTATATTAC-TTTTA
* *
1098993 TTATATAATCT-TTATTATGTTTCATTTTATATTACTTTTT
1 TTATATAATCTATTATTATCTTTCATTTTATATTACTTTTA
1099033 TTATATAA
1 TTATATAA
1099041 ATGTTATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
40 12 0.27
41 11 0.25
42 10 0.23
43 4 0.09
44 2 0.05
45 5 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.62
Consensus pattern (41 bp):
TTATATAATCTATTATTATCTTTCATTTTATATTACTTTTA
Found at i:1099100 original size:21 final size:20
Alignment explanation
Indices: 1099066--1099104 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1099056 TGAATCGCAA
1099066 ATTATATTATTTATGTTTATT
1 ATTATATTATTTAT-TTTATT
1099087 ATTATA-TATATTATTTTA
1 ATTATATTAT-TTATTTTA
1099105 AAAATGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
ATTATATTATTTATTTTATT
Found at i:1111261 original size:119 final size:119
Alignment explanation
Indices: 1111050--1111281 Score: 358
Period size: 119 Copynumber: 1.9 Consensus size: 119
1111040 AATTGAAGAC
* * *
1111050 AGCAGATCTAGACTTCAGACATTTATGCTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTT
1 AGCAGATCTAGACTTCAGACATTTATACTGAAACAGATCCAAGATGATTTGATATTCTTGTGTTT
* *
1111115 ACAAGAAACAAATCGAGGACATAGCAGATTTGACTCTCAGACGTTCTCAAATAT
66 ACAAGAAACAAATCGAGGACATAGCAGATATGACTCTCAAACGTTCTCAAATAT
**
1111169 AGCAGATCTA-ACTTTCAGATGTTTATACTGAAACAGATCCAAGATGATTTGATATTCTTGTGTT
1 AGCAGATCTAGAC-TTCAGACATTTATACTGAAACAGATCCAAGATGATTTGATATTCTTGTGTT
* * *
1111233 TACAAGGAACAAATCGAGGACATTGCAGATATGACTCTCAAATGTTCTC
65 TACAAGAAACAAATCGAGGACATAGCAGATATGACTCTCAAACGTTCTC
1111282 CAACAGACTC
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
118 2 0.02
119 100 0.98
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.31
Consensus pattern (119 bp):
AGCAGATCTAGACTTCAGACATTTATACTGAAACAGATCCAAGATGATTTGATATTCTTGTGTTT
ACAAGAAACAAATCGAGGACATAGCAGATATGACTCTCAAACGTTCTCAAATAT
Found at i:1111313 original size:83 final size:83
Alignment explanation
Indices: 1111199--1111724 Score: 858
Period size: 83 Copynumber: 6.3 Consensus size: 83
1111189 GTTTATACTG
** * *
1111199 AAACAGA-TCCAAGATGATTTGATATTCTTGTGTTTACAAGGAACAAATCGAGGACATTGCAGAT
1 AAACAGACT-CAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGAT
1111263 ATGACTCTCAAATGTTCTC
65 ATGACTCTCAAATGTTCTC
*
1111282 CAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
1 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
1111347 TGACTCTCAAATGTTCTC
66 TGACTCTCAAATGTTCTC
* * *
1111365 AAACAGACTCAATATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGTAGATA
1 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
1111430 TGACTCTCAAATGTTCTC
66 TGACTCTCAAATGTTCTC
* *
1111448 AAACAGACTCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGTAGATA
1 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
*
1111513 TAACTCTCAAATGTTCTC
66 TGACTCTCAAATGTTCTC
1111531 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
1 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
*
1111596 TAACTCTCAAATGTTCTC
66 TGACTCTCAAATGTTCTC
* * *
1111614 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACGTAGTAGATA
1 AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
* *
1111679 TGATTCTCGAATGTTCTC
66 TGACTCTCAAATGTTCTC
1111697 AAAACAGACTCAA-ACTGATTTGGCATCC
1 -AAACAGACTCAAGA-TGATTTGGCATCC
1111725 CCACAAATCG
Statistics
Matches: 421, Mismatches: 19, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
83 395 0.94
84 26 0.06
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (83 bp):
AAACAGACTCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAGGACATTGCAGATA
TGACTCTCAAATGTTCTC
Found at i:1113335 original size:16 final size:17
Alignment explanation
Indices: 1113314--1113347 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1113304 TTATATTATA
1113314 TATTATAA-AATTATTT
1 TATTATAAGAATTATTT
*
1113330 TATTATAAGTATTATTT
1 TATTATAAGAATTATTT
1113347 T
1 T
1113348 TAATTATATA
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:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TATTATAAGAATTATTT
Found at i:1113540 original size:42 final size:42
Alignment explanation
Indices: 1113480--1113573 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
1113470 ATGTGTTACT
*
1113480 TTATATTATATCTATTATTTTCTTAT-ATGTTTATATTACATTTTA
1 TTATA-TA-ATCTATTATTATCTT-TCATGTTTATATTAC-TTTTA
* * *
1113525 TTATATAATCT-TTATTATGTTTCATTTTTATATTACTTTTT
1 TTATATAATCTATTATTATCTTTCATGTTTATATTACTTTTA
1113566 TTATATAA
1 TTATATAA
1113574 ATGTTATGTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
41 13 0.30
42 20 0.45
43 4 0.09
44 2 0.05
45 5 0.11
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.63
Consensus pattern (42 bp):
TTATATAATCTATTATTATCTTTCATGTTTATATTACTTTTA
Found at i:1113637 original size:20 final size:20
Alignment explanation
Indices: 1113599--1113637 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1113589 TGTATCGCAA
*
1113599 ATTATATTATTTATGTTTAT
1 ATTATATTATATATGTTTAT
1113619 ATTATATATATATAT-TTTA
1 ATTATAT-TATATATGTTTA
1113638 AAAATGTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
ATTATATTATATATGTTTAT
Found at i:1115065 original size:26 final size:26
Alignment explanation
Indices: 1115019--1115070 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
1115009 TCAAACATGC
*
1115019 ATTTAGGTCAATTTAACCCTATGGGT
1 ATTTAGGTCAATTTAACCCTAAGGGT
* *
1115045 ATTTCGGT-AATTTATCTCCTAAGGGT
1 ATTTAGGTCAATTTAAC-CCTAAGGGT
1115071 TAAAACTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTAACCCTAAGGGT
Found at i:1116589 original size:26 final size:26
Alignment explanation
Indices: 1116558--1116717 Score: 257
Period size: 26 Copynumber: 6.2 Consensus size: 26
1116548 ATGAAATTCC
*
1116558 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
1116584 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
1116610 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
1116636 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
1116662 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
1116688 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1116714 ATCA
1 ATCA
1116718 ATTTGTATCA
Statistics
Matches: 121, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 121 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1116624 original size:52 final size:52
Alignment explanation
Indices: 1116558--1116717 Score: 293
Period size: 52 Copynumber: 3.1 Consensus size: 52
1116548 ATGAAATTCC
* * *
1116558 ATCATGGAACATTTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1116610 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1116662 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1116714 ATCA
1 ATCA
1116718 ATTTGTATCA
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 105 1.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (52 bp):
ATCATGGAATATTTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
Found at i:1119849 original size:20 final size:18
Alignment explanation
Indices: 1119815--1119851 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
1119805 GCAACTCATA
1119815 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
1119833 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
1119852 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:1122018 original size:26 final size:26
Alignment explanation
Indices: 1121987--1122093 Score: 162
Period size: 26 Copynumber: 4.2 Consensus size: 26
1121977 ATGAAATTCC
*
1121987 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
1122013 ATCATGG-ACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
1122038 ATCATGGAATAATTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
1122064 GTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
1122090 ATCA
1 ATCA
1122094 ATTTGTATCA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
25 24 0.34
26 47 0.66
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:1122063 original size:51 final size:52
Alignment explanation
Indices: 1121987--1122093 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 52
1121977 ATGAAATTCC
*
1121987 ATCATGGAACATTTACCTAAACCATTATCATGG-ACATTTACCTAACCCATT
1 ATCATGGAACAATTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
* * *
1122038 ATCATGGAATAATTACCTAATCCATTGTCATGGAACATTTACCTAACCCATT
1 ATCATGGAACAATTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
1122090 ATCA
1 ATCA
1122094 ATTTGTATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
51 29 0.57
52 22 0.43
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (52 bp):
ATCATGGAACAATTACCTAAACCATTATCATGGAACATTTACCTAACCCATT
Found at i:1122565 original size:197 final size:197
Alignment explanation
Indices: 1122230--1122615 Score: 745
Period size: 197 Copynumber: 2.0 Consensus size: 197
1122220 ATTTATTTGG
1122230 CCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTTCTATTTCATAATTTCACC
1 CCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTTCTATTTCATAATTTCACC
1122295 CCTTTTTCTTATGGAACAAAAATTAACTAAAATTGCCAGGTTCTATCTTAAGCTTGGGCCTTCTA
66 CCTTTTTCTTATGGAACAAAAATTAACTAAAATTGCCAGGTTCTATCTTAAGCTTGGGCCTTCTA
*
1122360 GACGCCCACTAACATAATTAAACCTATGCCAACATTCACAGGATTCTCGAAAATTGGGGTGTTAC
131 GACGCCCACTAACATAATTAAACCTATGCCAACATTCACAGGATTCCCGAAAATTGGGGTGTTAC
1122425 AT
196 AT
1122427 CCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTTCTATTTCATAATTTCACC
1 CCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTTCTATTTCATAATTTCACC
*
1122492 CCTTTTTCTTATGGAACAAAAATTAACTAAAATTGCCGGGTTCTATCTTAAGCTTGGGCCTTCTA
66 CCTTTTTCTTATGGAACAAAAATTAACTAAAATTGCCAGGTTCTATCTTAAGCTTGGGCCTTCTA
*
1122557 GACGCCCACTAACATAATTAAACCTATGCCAACATTCATAGGATTCCCGAAAATTGGGG
131 GACGCCCACTAACATAATTAAACCTATGCCAACATTCACAGGATTCCCGAAAATTGGGG
1122616 AATTACATAT
Statistics
Matches: 186, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
197 186 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (197 bp):
CCACTTCAATTTAGCCTATAGCATTTTCAAACATTTTCACATAGGTTCTATTTCATAATTTCACC
CCTTTTTCTTATGGAACAAAAATTAACTAAAATTGCCAGGTTCTATCTTAAGCTTGGGCCTTCTA
GACGCCCACTAACATAATTAAACCTATGCCAACATTCACAGGATTCCCGAAAATTGGGGTGTTAC
AT
Found at i:1126495 original size:15 final size:14
Alignment explanation
Indices: 1126449--1126501 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
1126439 CCATATAAGT
1126449 AAATTTATTAATTA
1 AAATTTATTAATTA
* * *
1126463 CAATTTATCAAATAA
1 AAATTTAT-TAATTA
1126478 AAATTATATTAATTA
1 AAATT-TATTAATTA
1126493 AAATATTAT
1 AAAT-TTAT
1126502 ATTAATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
14 7 0.23
15 19 0.63
16 4 0.13
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (14 bp):
AAATTTATTAATTA
Done.