Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 61 of 62
Found at i:14630582 original size:8 final size:8
Alignment explanation
Indices: 14630569--14630593 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14630559 TTAGGAATTA
14630569 TTTGGAGC
1 TTTGGAGC
14630577 TTTGGAGC
1 TTTGGAGC
14630585 TTTGGAGC
1 TTTGGAGC
14630593 T
1 T
14630594 GGAGGGGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.12, G:0.36, T:0.40
Consensus pattern (8 bp):
TTTGGAGC
Found at i:14632526 original size:2 final size:2
Alignment explanation
Indices: 14632519--14632549 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14632509 ATAAACTATG
14632519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14632550 ACAAATCTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14634106 original size:32 final size:32
Alignment explanation
Indices: 14634065--14634134 Score: 140
Period size: 32 Copynumber: 2.2 Consensus size: 32
14634055 AAGGTTGATT
14634065 TTGCACATCCAAGTAGACCAAAGACACTAGTG
1 TTGCACATCCAAGTAGACCAAAGACACTAGTG
14634097 TTGCACATCCAAGTAGACCAAAGACACTAGTG
1 TTGCACATCCAAGTAGACCAAAGACACTAGTG
14634129 TTGCAC
1 TTGCAC
14634135 CAGTTTAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.20
Consensus pattern (32 bp):
TTGCACATCCAAGTAGACCAAAGACACTAGTG
Found at i:14635217 original size:87 final size:88
Alignment explanation
Indices: 14635045--14635219 Score: 253
Period size: 87 Copynumber: 2.0 Consensus size: 88
14635035 AAAAGATGAC
* * *
14635045 AACATAGATACTAAGCTCAATGCATCGGACATGGAATAATCATTGACGCATATCAGTTGGCTTGT
1 AACATAGATACTAAGCTCAATGCATCAGACATGGAATAATCATCGACGCATATCAGTTGGATTGT
* *
14635110 CATGGATTGAAGAATTAATACCA
66 CATCGATTGAAGAATCAATACCA
* * * *
14635133 AACATATATACTAAGCTCAATGCATCAGCCATGGAAT-ATCATCGATGCGTATCAGTTGGATTGT
1 AACATAGATACTAAGCTCAATGCATCAGACATGGAATAATCATCGACGCATATCAGTTGGATTGT
*
14635197 CATCGATTGGAGAATCAATACCA
66 CATCGATTGAAGAATCAATACCA
14635220 TGGCTGCTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
87 43 0.56
88 34 0.44
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (88 bp):
AACATAGATACTAAGCTCAATGCATCAGACATGGAATAATCATCGACGCATATCAGTTGGATTGT
CATCGATTGAAGAATCAATACCA
Found at i:14646994 original size:22 final size:22
Alignment explanation
Indices: 14646966--14647009 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14646956 AATCATTATC
*
14646966 TTCTTCCTCACTTTCTCAATCA
1 TTCTTCCTCACTCTCTCAATCA
14646988 TTCTTCCTCACTCTCTCAATCA
1 TTCTTCCTCACTCTCTCAATCA
14647010 CACTTATTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (22 bp):
TTCTTCCTCACTCTCTCAATCA
Found at i:14655473 original size:54 final size:55
Alignment explanation
Indices: 14655381--14655820 Score: 500
Period size: 54 Copynumber: 8.1 Consensus size: 55
14655371 GTACCTATAT
* * * * * * * * *
14655381 GGAAATTCACAAGCTCATTTTGAAATCCTTGGGG-TGCACATATAGTGCCGATAT
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
** * * * *
14655435 GGTCATTCACAAACTCATTATGAATTACGT-AGGTTGCACACATAGTGCTAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
*** * * * ** *
14655489 ATTAATTCACAAACTCATTATGTATTAC-TTAGGTTGCAAACATAGTGCCAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
* * *
14655543 GGAAATTCATAAACTCATTATGAATTTTGTGAGGTTGCACA-AAAGTGCCAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
* *
14655597 GTAAATTCATAAACTCATTATGAATTTCGTGGGGTTGTACACATAGTGCCAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
* * * *
14655652 GAAAATTCAT--ACTCATTATGAATTTCGTGGGGCTGCACATATAGTGCTAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
* *
14655705 AGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGAACACATAGTGCCAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
*
14655760 GAAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACAC--AGTGCCAATAC
1 GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
14655813 GGAAATTC
1 GGAAATTC
14655821 CAATATATAC
Statistics
Matches: 332, Mismatches: 48, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
53 68 0.20
54 155 0.47
55 109 0.33
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.30
Consensus pattern (55 bp):
GGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATAC
Found at i:14658802 original size:23 final size:23
Alignment explanation
Indices: 14658772--14658816 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
14658762 AAAATTCTCT
14658772 TTAGCAATTCAAAACTCTCTTGG
1 TTAGCAATTCAAAACTCTCTTGG
14658795 TTAGCAATTCAAAACTCTCTTG
1 TTAGCAATTCAAAACTCTCTTG
14658817 CTTCCCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (23 bp):
TTAGCAATTCAAAACTCTCTTGG
Found at i:14660824 original size:2 final size:2
Alignment explanation
Indices: 14660817--14660848 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
14660807 ACATTCTTCA
14660817 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14660849 TAAACACGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14661608 original size:55 final size:55
Alignment explanation
Indices: 14661451--14661892 Score: 532
Period size: 55 Copynumber: 8.1 Consensus size: 55
14661441 CGATATAGTC
* * * * * *
14661451 ATTCACAAACTCATTGTGAATTACGT-AGGTTACACACATAGTGCCAATACGATA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * ** *
14661505 ATTCACAAACTCATTATGAATTAC-TTAGGTTGTACACATAGTGCCAATAAC-AAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAAT-ACGAAA
* * * * *
14661559 ATTCCTAAACTCATTACGAATTTCGTGGGGTTGAACACATAGGGCCAATACGGAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * *
14661614 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCGAAAACGGAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * * * *
14661669 ATTCATAAACTCATTATGAATTCCATGGGGTAGCACACATAGTGCCAATATGGAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * * * * *
14661724 TTTCATAAATTCATTATGAATTTCGTTGGGTTACACATATAGTGCCAATACGTAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* * *
14661779 ATTTATAAACTCATTATAAATTTTGTGGGGTTGCACACAT-GTGCCAATACGAAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
* *
14661833 ATTCAAAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATACGAAA
1 ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
14661888 ATTCA
1 ATTCA
14661893 AACATATACA
Statistics
Matches: 336, Mismatches: 47, Indels: 9
0.86 0.12 0.02
Matches are distributed among these distances:
53 1 0.00
54 117 0.35
55 218 0.65
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (55 bp):
ATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCCAATACGAAA
Found at i:14661627 original size:109 final size:110
Alignment explanation
Indices: 14661386--14661892 Score: 535
Period size: 110 Copynumber: 4.6 Consensus size: 110
14661376 TACCTAAGTA
* * * ** * * *
14661386 CCAATATGGAAATTCACAAACTCATT-TTAAAATCCTTGGGATGCACATATAGTGCCGATATA-G
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTTGGGTTGCACACATAGTGCC-A-ATACG
** * * * * *
14661449 -TCATTCACAAACTCATTGTGAATTACGT-AGGTTACACACATAGTG
64 AAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* * * *
14661494 CCAATAC-GATAATTCACAAACTCATTATGAATTAC-TTAGGTTGTACACATAGTGCCAATAAC-
1 CCAATACGGA-AATTCATAAACTCATTATGAATTTCGTTGGGTTGCACACATAGTGCCAAT-ACG
* * * *
14661556 AAAATTCCTAAACTCATTACGAATTTCGTGGGGTTGAACACATAGGG
64 AAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* * * *
14661603 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTGCGAAAACGGA
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTTGGGTTGCACACATAGTGCCAATACGAA
* * *
14661668 AATTCATAAACTCATTATGAATTCCATGGGGTAGCACACATAGTG
66 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* * * * * *
14661713 CCAATATGGAATTTCATAAATTCATTATGAATTTCGTTGGGTTACACATATAGTGCCAATACGTA
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTTGGGTTGCACACATAGTGCCAATACGAA
* * *
14661778 AATTTATAAACTCATTATAAATTTTGTGGGGTTGCACACAT-GTG
66 AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
* * * *
14661822 CCAATACGAAAATTCAAAAACTCATTATGAATTTTGTGGGGTTGCACACATAGTGCCAATACGAA
1 CCAATACGGAAATTCATAAACTCATTATGAATTTCGTTGGGTTGCACACATAGTGCCAATACGAA
14661887 AATTCA
66 AATTCA
14661893 AACATATACA
Statistics
Matches: 329, Mismatches: 61, Indels: 17
0.81 0.15 0.04
Matches are distributed among these distances:
106 2 0.01
107 4 0.01
108 60 0.18
109 112 0.34
110 151 0.46
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (110 bp):
CCAATACGGAAATTCATAAACTCATTATGAATTTCGTTGGGTTGCACACATAGTGCCAATACGAA
AATTCATAAACTCATTATGAATTTCGTGGGGTTGCACACATAGTG
Found at i:14679348 original size:44 final size:44
Alignment explanation
Indices: 14679282--14679627 Score: 485
Period size: 44 Copynumber: 7.9 Consensus size: 44
14679272 GAGTGGCATC
* **
14679282 TTTCTGCCAATAATGCACCGTTATACATTTTCATTTATATCACA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* * *
14679326 TTTCTGCCAATAATGCATCGTTATGCATTTTTATTTATGGCACG
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* * * *
14679370 TTTATGCCAATAATGCACTGTTATGCATTTTCATTTATCGTACA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* * *
14679414 TTTCTGCTAATAATGCACCATTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* * *
14679458 TTTCTGCCAATAATGAACCATTATGCATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* *
14679502 TTTCTGCCAATAATGCACCGTTATACATTTTCATTTATGGCACC
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* * *
14679546 TTTCTGCTAATAATGCACTGCTATGCATTTTCATTTATGGCACA
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
* *
14679590 TTTTTGCCAATAATGCACAGTTATGCATTTTCATTTAT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
14679628 TTTGGTAACA
Statistics
Matches: 268, Mismatches: 34, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 268 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (44 bp):
TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACA
Found at i:14679457 original size:25 final size:25
Alignment explanation
Indices: 14679428--14679501 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
14679418 TGCTAATAAT
14679428 GCACCATTATGCATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
** * *
14679453 GCACC-TT-T-C--TGCCAATAAT-
1 GCACCATTATGCATTTTCATTTATG
*
14679472 GAACCATTATGCATTTTCATTTATG
1 GCACCATTATGCATTTTCATTTATG
14679497 GCACC
1 GCACC
14679502 TTTCTGCCAA
Statistics
Matches: 33, Mismatches: 10, Indels: 12
0.60 0.18 0.22
Matches are distributed among these distances:
19 4 0.12
20 8 0.24
21 1 0.03
22 2 0.06
23 1 0.03
24 8 0.24
25 9 0.27
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (25 bp):
GCACCATTATGCATTTTCATTTATG
Found at i:14680048 original size:18 final size:18
Alignment explanation
Indices: 14680014--14680048 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14680004 TCAATTTCTA
*
14680014 TTACAATTTCAGCCTATC
1 TTACAATTCCAGCCTATC
*
14680032 TTACAATTCCAGGCTAT
1 TTACAATTCCAGCCTAT
14680049 ATAGTATCGG
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:0.29, C:0.26, G:0.09, T:0.37
Consensus pattern (18 bp):
TTACAATTCCAGCCTATC
Found at i:14680184 original size:21 final size:19
Alignment explanation
Indices: 14680160--14680204 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 19
14680150 TCGATACCCA
*
14680160 CATCAATATCTATACTAATT
1 CATCAATATCGATACT-ATT
14680180 GCATCAATATCGATACTATT
1 -CATCAATATCGATACTATT
14680200 CATCA
1 CATCA
14680205 TAATTCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 3 0.13
21 15 0.65
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (19 bp):
CATCAATATCGATACTATT
Found at i:14686384 original size:44 final size:44
Alignment explanation
Indices: 14686329--14686593 Score: 395
Period size: 44 Copynumber: 6.0 Consensus size: 44
14686319 ATACCATTAG
14686329 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * *
14686373 AGGCACATTTCTGCCAATAATGCATCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * **
14686417 TGGAACCTTTCTGCCAAAAATATACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* * * *
14686461 TGACACATTTCTGCTAATAATACACCGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
14686505 TGGCACCTTTCTGCCAAGAATGCACAGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
* *
14686549 TGGCACCTTTCTACCAATAATGCACAGTTATGCATTTTCATTTA
1 TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
14686593 T
1 T
14686594 TTCGGTAACA
Statistics
Matches: 197, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 197 1.00
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (44 bp):
TGGCACCTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTA
Found at i:14701138 original size:20 final size:20
Alignment explanation
Indices: 14701113--14701152 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14701103 ATATACCATA
*
14701113 AAAGGAAAGTGATAGGTGAT
1 AAAGGAAAGTGATAAGTGAT
*
14701133 AAAGGAATGTGATAAGTGAT
1 AAAGGAAAGTGATAAGTGAT
14701153 GTTTCCGTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.23
Consensus pattern (20 bp):
AAAGGAAAGTGATAAGTGAT
Found at i:14701176 original size:29 final size:29
Alignment explanation
Indices: 14701133--14701247 Score: 178
Period size: 29 Copynumber: 4.0 Consensus size: 29
14701123 GATAGGTGAT
* * *
14701133 AAAGGAATGTGATAAGTGATGTTTCCGTAA
1 AAAGGAAAGTGATAAGTAATGTTTCCAT-A
*
14701163 AAAGG-AAGTGATAAGTGATGTTTCCATA
1 AAAGGAAAGTGATAAGTAATGTTTCCATA
14701191 AAAGGAAAGTGATAAGTAATGTTTCCATA
1 AAAGGAAAGTGATAAGTAATGTTTCCATA
14701220 AAAGGAAAGTGATAAGTAATGTTTCCAT
1 AAAGGAAAGTGATAAGTAATGTTTCCAT
14701248 GATATAATTA
Statistics
Matches: 81, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
28 6 0.07
29 70 0.86
30 5 0.06
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.29
Consensus pattern (29 bp):
AAAGGAAAGTGATAAGTAATGTTTCCATA
Found at i:14701502 original size:24 final size:24
Alignment explanation
Indices: 14701475--14701574 Score: 101
Period size: 24 Copynumber: 4.2 Consensus size: 24
14701465 TAATTCGTTG
* ** *
14701475 ACTCCTGAATTAGTGTTTTTATGC
1 ACTCCGGAATTAGTGCATTCATGC
* * *
14701499 ACTCCTGTATTAGTGCATTCGTGC
1 ACTCCGGAATTAGTGCATTCATGC
* *
14701523 ACTCCGGAATTAGTGTATTCGTGC
1 ACTCCGGAATTAGTGCATTCATGC
* *
14701547 ACTCCGGAATTAGTGCTTTTATGC
1 ACTCCGGAATTAGTGCATTCATGC
14701571 ACTC
1 ACTC
14701575 TTGTCTTTGT
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (24 bp):
ACTCCGGAATTAGTGCATTCATGC
Found at i:14701548 original size:48 final size:48
Alignment explanation
Indices: 14701448--14701562 Score: 133
Period size: 48 Copynumber: 2.4 Consensus size: 48
14701438 TTACCTTTGT
* ** * * *
14701448 TGCACTCTTGTATTAGTTAATTCGTTGACTCCTGAATTAGTGTTTTTA
1 TGCACTCCTGTATTAGTGCATTCGTTGACTCCGGAATTAGTGTATTCA
*
14701496 TGCACTCCTGTATTAGTGCATTCG-TGCACTCCGGAATTAGTGTATTCG
1 TGCACTCCTGTATTAGTGCATTCGTTG-ACTCCGGAATTAGTGTATTCA
* *
14701544 TGCACTCCGGAATTAGTGC
1 TGCACTCCTGTATTAGTGC
14701563 TTTTATGCAC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
47 2 0.04
48 55 0.96
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (48 bp):
TGCACTCCTGTATTAGTGCATTCGTTGACTCCGGAATTAGTGTATTCA
Found at i:14701572 original size:48 final size:48
Alignment explanation
Indices: 14701475--14701574 Score: 119
Period size: 48 Copynumber: 2.1 Consensus size: 48
14701465 TAATTCGTTG
* * * * * *
14701475 ACTCCTGAATTAGTGTTTTTATGCACTCCTGTATTAGTGCATTCGTGC
1 ACTCCGGAATTAGTGTATTCATGCACTCCGGAATTAGTGCATTCATGC
* * *
14701523 ACTCCGGAATTAGTGTATTCGTGCACTCCGGAATTAGTGCTTTTATGC
1 ACTCCGGAATTAGTGTATTCATGCACTCCGGAATTAGTGCATTCATGC
14701571 ACTC
1 ACTC
14701575 TTGTCTTTGT
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (48 bp):
ACTCCGGAATTAGTGTATTCATGCACTCCGGAATTAGTGCATTCATGC
Found at i:14701609 original size:72 final size:72
Alignment explanation
Indices: 14701467--14701622 Score: 172
Period size: 72 Copynumber: 2.2 Consensus size: 72
14701457 GTATTAGTTA
* * * *
14701467 ATTCGTTG-ACTCCTGAATTAGTGTTTTTATGCACTCCTGTATTAGTGCATTCGTGCACTCCGGA
1 ATTCG-TGCACTCCGGAATTAGTGCTTTTATGCACTCCTGTATTAGTACATTCATGCACTCCGGA
*
14701531 ATTAGTGT
65 ATTAGTGC
* * * * * *
14701539 ATTCGTGCACTCCGGAATTAGTGCTTTTATGCACTCTTGTCTTTGTACATTTATGCGCTCCCGTA
1 ATTCGTGCACTCCGGAATTAGTGCTTTTATGCACTCCTGTATTAGTACATTCATGCACT-CCGGA
14701604 A-TAGTGC
65 ATTAGTGC
*
14701611 ATTTGTGCACTC
1 ATTCGTGCACTC
14701623 ATGTATTAAT
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
71 2 0.03
72 63 0.90
73 5 0.07
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.40
Consensus pattern (72 bp):
ATTCGTGCACTCCGGAATTAGTGCTTTTATGCACTCCTGTATTAGTACATTCATGCACTCCGGAA
TTAGTGC
Found at i:14701668 original size:24 final size:24
Alignment explanation
Indices: 14701492--14701670 Score: 81
Period size: 24 Copynumber: 7.5 Consensus size: 24
14701482 AATTAGTGTT
* *
14701492 TTTATGCACTCCTGTATTAGTGCA
1 TTTATGCACTCATGTATTAGTACA
** ** * **
14701516 TTCGTGCACTCCGGAATTAGTGTA
1 TTTATGCACTCATGTATTAGTACA
** ** * * *
14701540 TTCGTGCACTCCGGAATTAGTGCT
1 TTTATGCACTCATGTATTAGTACA
* * *
14701564 TTTATGCACTCTTGTCTTTGTACA
1 TTTATGCACTCATGTATTAGTACA
* ** * *
14701588 TTTATGCGCTCCCGTAATAGTGCA
1 TTTATGCACTCATGTATTAGTACA
* * *
14701612 TTTGTGCACTCATGTATTAATACC
1 TTTATGCACTCATGTATTAGTACA
*
14701636 TTTGA-GTACTCATGTATTAGTACA
1 TTT-ATGCACTCATGTATTAGTACA
*
14701660 TTTATGTACTC
1 TTTATGCACTC
14701671 CTCGCATTAT
Statistics
Matches: 118, Mismatches: 35, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
23 1 0.01
24 117 0.99
ACGTcount: A:0.21, C:0.21, G:0.18, T:0.40
Consensus pattern (24 bp):
TTTATGCACTCATGTATTAGTACA
Found at i:14702016 original size:14 final size:14
Alignment explanation
Indices: 14701997--14702026 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14701987 TAGAAATGAC
14701997 TTAATAAGTATCCT
1 TTAATAAGTATCCT
*
14702011 TTAATAAGTATGCT
1 TTAATAAGTATCCT
14702025 TT
1 TT
14702027 TCACGTTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (14 bp):
TTAATAAGTATCCT
Found at i:14705152 original size:13 final size:13
Alignment explanation
Indices: 14705142--14705185 Score: 61
Period size: 13 Copynumber: 3.4 Consensus size: 13
14705132 TCTATGACGA
14705142 GCATTTATGACAC
1 GCATTTATGACAC
*
14705155 GCATTTATAACAC
1 GCATTTATGACAC
* *
14705168 ACATTTATGACGC
1 GCATTTATGACAC
14705181 GCATT
1 GCATT
14705186 GAGCGTCATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.32
Consensus pattern (13 bp):
GCATTTATGACAC
Found at i:14723796 original size:9 final size:9
Alignment explanation
Indices: 14723782--14723806 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14723772 ACACATTATT
14723782 TTATTTTTA
1 TTATTTTTA
14723791 TTATTTTTA
1 TTATTTTTA
14723800 TTATTTT
1 TTATTTT
14723807 CCTCGTTTGT
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:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTATTTTTA
Found at i:14728048 original size:19 final size:19
Alignment explanation
Indices: 14728005--14728049 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
14727995 CTACCACATC
*
14728005 ACCATCACATTTCCACAAT
1 ACCATTACATTTCCACAAT
*
14728024 ACCATTACATTTCCATAAT
1 ACCATTACATTTCCACAAT
14728043 ACCATTA
1 ACCATTA
14728050 AACCTACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (19 bp):
ACCATTACATTTCCACAAT
Found at i:14728088 original size:18 final size:20
Alignment explanation
Indices: 14728058--14728094 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14728048 TAAACCTACA
14728058 TCCACACACATTC-CATTTT
1 TCCACACACATTCTCATTTT
14728077 TCCACA-ACATTCTCATTT
1 TCCACACACATTCTCATTT
14728095 GTTCATACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.27, C:0.35, G:0.00, T:0.38
Consensus pattern (20 bp):
TCCACACACATTCTCATTTT
Found at i:14736715 original size:27 final size:27
Alignment explanation
Indices: 14736677--14736729 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
14736667 AGAACACTTC
14736677 TTAAGCCTATAAATCTTTGAAAATGGG
1 TTAAGCCTATAAATCTTTGAAAATGGG
14736704 TTAAGCCTATAAATCTTTGAAAATGG
1 TTAAGCCTATAAATCTTTGAAAATGG
14736730 ACTAAACCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (27 bp):
TTAAGCCTATAAATCTTTGAAAATGGG
Found at i:14736918 original size:2 final size:2
Alignment explanation
Indices: 14736911--14736948 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14736901 CTCATATCCC
14736911 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14736949 CGATATCGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14737159 original size:2 final size:2
Alignment explanation
Indices: 14737152--14737189 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
14737142 AGAGTTGATC
14737152 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14737190 CACTGACTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14741922 original size:4 final size:4
Alignment explanation
Indices: 14741913--14742611 Score: 1205
Period size: 4 Copynumber: 178.8 Consensus size: 4
14741903 GTGCTTCCTA
14741913 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA--
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
*
14741959 TATA TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
14742005 TATA TGTA TATG TATG TATG TATG TATG TATA TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742053 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742099 TA-- TATG TATG TATG TATG TATG TA-- TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742143 TATG TATG TATG TA-- TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742189 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742237 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742285 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742333 TATG TATG TATG TATG TATG TATG TATG TATG TA-- TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742379 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742427 --TG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742473 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
* * * *
14742521 TATG TATG TATG TATA TATA TATG TATG TATG TATG TATG TATA TATA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
14742569 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
14742612 TTCTTATCCT
Statistics
Matches: 668, Mismatches: 11, Indels: 32
0.94 0.02 0.05
Matches are distributed among these distances:
2 16 0.02
4 652 0.98
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:14745821 original size:112 final size:112
Alignment explanation
Indices: 14745404--14746150 Score: 568
Period size: 112 Copynumber: 6.5 Consensus size: 112
14745394 CCACTGTTTG
* *
14745404 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAATGCACCA-TTAGGCATTTAACTTTTCAG
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCC-AAATGCA-CAGTTAGGC-TTTAAC-TTTCAT
* * * * *
14745468 CTAACTTGCATTAGTGGCACCTTTATGCCAAAAATGCATC-GTTAGGCATTTAACTTT
62 CTAACTTGCATTATTGACACCTTTCTGCC-AATATGCA-CAGTTAGGC-----ACATT
* *
14745525 TCATCTAACTTGCATTAGTGGCACCTTTTTGCCAAAAATGCATCA-TTAGGCATTTAACTTTTCA
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCC--AAATGCA-CAGTTAGGC-TTTAAC-TTTCA
* * * * * * * * *
14745589 -CATATA-TGGAATTAGTG-GACCTTTCTACCAA-ATGTAGAGTTAGACATTTAACTTT
61 TC-TA-ACTTGCATTATTGACACCTTTCTGCCAATATGCACAGTTAGGC-----ACATT
* * ** *
14745644 TCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAATGCACAATTATGAATTTAAGATTTCATCT
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTA-GGCTTTAA-CTTTCATCT
* * *
14745709 ATCTTGCATTATTGGCACCTTTCTGCCAA-ATGCACGGTTAGGC-C-TT
64 AACTTGCATTATTGACACCTTTCTGCCAATATGCACAGTTAGGCACATT
* * * * *
14745755 TCATCTAACTTGCGTTATTGACACCTTTATACCAATATGCACTGTTAGGCATTTAACATTTCATC
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCCAA-ATGCACAGTTAGGC-TTTAAC-TTTCATC
* * * * *
14745820 TAACTTGCATTATTGGCACCTTTATTCCAA-ATGCACAATTAGG-TC-TT
63 TAACTTGCATTATTGACACCTTTCTGCCAATATGCACAGTTAGGCACATT
*
14745867 TCATCTAACTTACATTATTGGCACCTTTCTGCCAATATGCACAGTTAGGC-----CTTTCATCTA
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCCAA-ATGCACAGTTAGGCTTTAACTTTCATCTA
* * *
14745927 ACTTGCATTATTGATACCTTTCTACCAATATACACAGTTAGGCATTTAACATT
65 ACTTGCATTATTGACACCTTTCTGCCAATATGCACAGTTAGGC-----ACATT
* * *
14745980 TCATCTAACTTGCATTATTGGCACTTTTCTGCTAAATGCACATTTAGGC-----CTTTCATCTAA
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCTTTAACTTTCATCTAA
*
14746040 CTTGCATTATTGACACCTTTCTGCTAATATGCACAGTTAGGCATTTAACATT
66 CTTGCATTATTGACACCTTTCTGCCAATATGCACAGTTAGGC-----ACATT
*
14746092 TCATCTAACTTGCATTATTGGCACCTTTATGCCAAATGCACAGTTAGGCCTTTAACTTT
1 TCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGG-CTTTAACTTT
14746151 TCTTCATTCA
Statistics
Matches: 534, Mismatches: 64, Indels: 59
0.81 0.10 0.09
Matches are distributed among these distances:
105 33 0.06
106 12 0.02
111 33 0.06
112 224 0.42
113 35 0.07
116 2 0.00
117 30 0.06
118 28 0.05
119 52 0.10
120 2 0.00
121 42 0.08
122 40 0.07
123 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.37
Consensus pattern (112 bp):
TCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCTTTAACTTTCATCTAA
CTTGCATTATTGACACCTTTCTGCCAATATGCACAGTTAGGCACATT
Found at i:14746066 original size:27 final size:27
Alignment explanation
Indices: 14745984--14746066 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
14745974 AACATTTCAT
* *
14745984 CTAACTTGCATTATTGGCACTTTTCTG
1 CTAACTTGCATTATTGACACCTTTCTG
* * * **
14746011 CTAA-ATGCA-CATTTAGGCCTTTCAT-
1 CTAACTTGCATTATTGACACCTTTC-TG
14746036 CTAACTTGCATTATTGACACCTTTCTG
1 CTAACTTGCATTATTGACACCTTTCTG
14746063 CTAA
1 CTAA
14746067 TATGCACAGT
Statistics
Matches: 40, Mismatches: 12, Indels: 8
0.67 0.20 0.13
Matches are distributed among these distances:
25 12 0.30
26 10 0.25
27 18 0.45
ACGTcount: A:0.24, C:0.24, G:0.12, T:0.40
Consensus pattern (27 bp):
CTAACTTGCATTATTGACACCTTTCTG
Found at i:14751305 original size:59 final size:58
Alignment explanation
Indices: 14751049--14751580 Score: 549
Period size: 59 Copynumber: 9.1 Consensus size: 58
14751039 ATGCACCGTT
* * * *
14751049 TTTCATCTAACTTGCATTAGTGGCACATTTCTACCAAAATGCATC-GTTAGACATTTAAC
1 TTTCATCTAACTTGCATTAGTGGTACCTTTCTGCC-AAATGCA-CAGTTAGGCATTTAAC
*
14751108 GTTTCATCTAACTTGCATTAGTGGCACCTTTCTGCCAAAAATGCATC-GTTAGGCATTTAAC
1 -TTTCATCTAACTTGCATTAGTGGTACCTTTCTGCC--AAATGCA-CAGTTAGGCATTTAAC
* * * ** *
14751169 TTTTCATTTAACTTGCATTAGTGATACCTTTCTGCCAAAAATACATTGTTAGGTATTTAAC
1 -TTTCATCTAACTTGCATTAGTGGTACCTTTCTGCC--AAATGCACAGTTAGGCATTTAAC
* *
14751230 TTTTCATCTAATTTGCATTAGTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
1 -TTTCATCTAACTTGCATTAGTGGTACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
* *
14751289 TTCTCATCTAACTTGCATTAGTTGTACCTTTCTTCCAAATGCACAGTTAGGCATTTAAC
1 TT-TCATCTAACTTGCATTAGTGGTACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
* * * * *
14751348 TTCTCATCTAACTTGCATTAGTTGTACCTCTCTTCCAAATGTATAGTTAGGCATTTAAC
1 TT-TCATCTAACTTGCATTAGTGGTACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
* **
14751407 TTCTCATCTAACTTGCATTAGTTGTACCTTTCTTTCAAATGCACAGTTAGGC------C
1 TT-TCATCTAACTTGCATTAGTGGTACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
* * ** * * *
14751460 TTTCATCTAACTTCCATTATTGACACCTTTTTGTCGATATGCACAGTTAGGCATTTAAC
1 TTTCATCTAACTTGCATTAGTGGTACCTTTCTG-CCAAATGCACAGTTAGGCATTTAAC
* * * * * *
14751519 ATTTCACCTAACTTGCATTATTGGTATCTTTATGCCAAATGTACAGTTAGGCCTTTAAC
1 -TTTCATCTAACTTGCATTAGTGGTACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
14751578 TTT
1 TTT
14751581 TCTTCATTCA
Statistics
Matches: 412, Mismatches: 49, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
52 24 0.06
53 18 0.04
58 5 0.01
59 197 0.48
60 60 0.15
61 108 0.26
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (58 bp):
TTTCATCTAACTTGCATTAGTGGTACCTTTCTGCCAAATGCACAGTTAGGCATTTAAC
Found at i:14751488 original size:52 final size:53
Alignment explanation
Indices: 14751410--14751511 Score: 138
Period size: 52 Copynumber: 1.9 Consensus size: 53
14751400 ATTTAACTTC
* *
14751410 TCATCTAACTTGCATTAGTTGTACCTTTCTT-TC-AAATGCACAGTTAGGCCTT
1 TCATCTAACTTCCATTAGTTGCACCTTT-TTGTCGAAATGCACAGTTAGGCCTT
*
14751462 TCATCTAACTTCCATTA-TTGACACCTTTTTGTCGATATGCACAGTTAGGC
1 TCATCTAACTTCCATTAGTTG-CACCTTTTTGTCGAAATGCACAGTTAGGC
14751512 ATTTAACATT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
51 5 0.11
52 24 0.55
53 15 0.34
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.39
Consensus pattern (53 bp):
TCATCTAACTTCCATTAGTTGCACCTTTTTGTCGAAATGCACAGTTAGGCCTT
Found at i:14755018 original size:20 final size:20
Alignment explanation
Indices: 14754982--14755032 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
14754972 AAAATAATCA
* *
14754982 AATTTCA-CATTCTAACATC
1 AATTTCAGCACTCAAACATC
*
14755001 AATTTCAGCACTCAAACATT
1 AATTTCAGCACTCAAACATC
14755021 AATTTCCAGCAC
1 AATTT-CAGCAC
14755033 AACATATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 7 0.26
20 14 0.52
21 6 0.22
ACGTcount: A:0.37, C:0.27, G:0.04, T:0.31
Consensus pattern (20 bp):
AATTTCAGCACTCAAACATC
Found at i:14760598 original size:30 final size:30
Alignment explanation
Indices: 14760539--14760605 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 30
14760529 ATCAACCCAT
* * *
14760539 AACTTTTCCATAATTTTCAAATAGGTCCCCC
1 AACTTTTCAAAAAATTTCAAATAGGT-CCCC
14760570 AACTTTTCAAAAAATTTCAAAT-GGTCCCC
1 AACTTTTCAAAAAATTTCAAATAGGTCCCC
14760599 AACTTTT
1 AACTTTT
14760606 TCTAAGGCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
29 11 0.33
30 3 0.09
31 19 0.58
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.36
Consensus pattern (30 bp):
AACTTTTCAAAAAATTTCAAATAGGTCCCC
Found at i:14766269 original size:24 final size:25
Alignment explanation
Indices: 14766223--14766277 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
14766213 ATACTTATGC
*
14766223 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
14766247 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
14766272 CA-TTGA
1 CACTTGA
14766278 GGATCCAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:14770261 original size:18 final size:18
Alignment explanation
Indices: 14770236--14770282 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
14770226 CCGCGAAATC
14770236 ACGGGCGCTATCGCAATA
1 ACGGGCGCTATCGCAATA
*
14770254 ATGGGCGCTATCGCAATA
1 ACGGGCGCTATCGCAATA
14770272 ACGGGCGCTAT
1 ACGGGCGCTAT
14770283 TTGAAACCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.26, C:0.26, G:0.30, T:0.19
Consensus pattern (18 bp):
ACGGGCGCTATCGCAATA
Found at i:14770946 original size:10 final size:10
Alignment explanation
Indices: 14770894--14770949 Score: 67
Period size: 10 Copynumber: 5.6 Consensus size: 10
14770884 TAGCAGGGGA
14770894 AAAGGAAGGG
1 AAAGGAAGGG
*
14770904 AAGGGAAGGG
1 AAAGGAAGGG
*
14770914 AAGGGAAGGG
1 AAAGGAAGGG
* *
14770924 AAGGGAAAGG
1 AAAGGAAGGG
*
14770934 AAAGGAAAGG
1 AAAGGAAGGG
14770944 AAAGGA
1 AAAGGA
14770950 TGGATGGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 43 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (10 bp):
AAAGGAAGGG
Found at i:14770946 original size:15 final size:15
Alignment explanation
Indices: 14770894--14770949 Score: 67
Period size: 15 Copynumber: 3.7 Consensus size: 15
14770884 TAGCAGGGGA
*
14770894 AAAGGAAGGGAAGGG
1 AAAGGAAAGGAAGGG
* *
14770909 AAGGGAAGGGAAGGG
1 AAAGGAAAGGAAGGG
* *
14770924 AAGGGAAAGGAAAGG
1 AAAGGAAAGGAAGGG
14770939 AAAGGAAAGGA
1 AAAGGAAAGGA
14770950 TGGATGGTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (15 bp):
AAAGGAAAGGAAGGG
Found at i:14770949 original size:5 final size:5
Alignment explanation
Indices: 14770897--14770945 Score: 71
Period size: 5 Copynumber: 9.8 Consensus size: 5
14770887 CAGGGGAAAA
* * *
14770897 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAA GGAAA GGAAA GGAA
1 GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAAG GGAA
14770946 AGGATGGATG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (5 bp):
GGAAG
Found at i:14771550 original size:20 final size:20
Alignment explanation
Indices: 14771525--14771566 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
14771515 TTAAAGCCGC
14771525 AACACGACTAAATTGAATAG
1 AACACGACTAAATTGAATAG
14771545 AACACGACTAAATTGAATAG
1 AACACGACTAAATTGAATAG
14771565 AA
1 AA
14771567 TTAAAATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.19
Consensus pattern (20 bp):
AACACGACTAAATTGAATAG
Found at i:14773872 original size:43 final size:43
Alignment explanation
Indices: 14773821--14773937 Score: 182
Period size: 43 Copynumber: 2.7 Consensus size: 43
14773811 ACAAAAAATG
*
14773821 CCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCATAAAAACA
1 CCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAACA
* *
14773864 CCGTAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAACG
1 CCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAACA
*
14773907 CCGCAATAGGT-TATGATGTTTAGCGGCGTTT
1 CCGCAATAGGTGT-TGATATTTAGCGGCGTTT
14773938 TTCTCTAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
42 1 0.01
43 67 0.99
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (43 bp):
CCGCAATAGGTGTTGATATTTAGCGGCGTTTGTCATAAAAACA
Found at i:14773960 original size:43 final size:43
Alignment explanation
Indices: 14773814--14773970 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
14773804 TTTTTTAACA
* * * *
14773814 AAAAATGCCGCAATAGGTGTTGCTATTTAGCGGCGTTTGTCAT
1 AAAAACGCCACAATAGGTGTTGATGTTTAGCGGCGTTTGTCAT
* ** *
14773857 AAAAACACCGTAATAGGTGTTGATATTTAGCGGCGTTTGTCAT
1 AAAAACGCCACAATAGGTGTTGATGTTTAGCGGCGTTTGTCAT
* *
14773900 AAAAACGCCGCAATAGGT-TATGATGTTTAGCGGCGTTTTTC-T
1 AAAAACGCCACAATAGGTGT-TGATGTTTAGCGGCGTTTGTCAT
* * *
14773942 CTAAAATGCCACAGTAGGTGTTGATGTTT
1 -AAAAACGCCACAATAGGTGTTGATGTTT
14773971 GATGTTTTGC
Statistics
Matches: 99, Mismatches: 12, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
42 2 0.02
43 96 0.97
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.33
Consensus pattern (43 bp):
AAAAACGCCACAATAGGTGTTGATGTTTAGCGGCGTTTGTCAT
Found at i:14774825 original size:22 final size:22
Alignment explanation
Indices: 14774800--14774842 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
14774790 TAATTAATTA
14774800 AAATA-AAAAAAAGTCATGGTAC
1 AAATATAAAAAAAGTCA-GGTAC
*
14774822 AAATATAAATAAAGTCAGGTA
1 AAATATAAAAAAAGTCAGGTA
14774843 AATTTAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.58, C:0.07, G:0.14, T:0.21
Consensus pattern (22 bp):
AAATATAAAAAAAGTCAGGTAC
Found at i:14783993 original size:188 final size:188
Alignment explanation
Indices: 14783657--14784118 Score: 574
Period size: 188 Copynumber: 2.5 Consensus size: 188
14783647 CAACTAATGT
* * *
14783657 TAAAAACATTTGCGGCGTTTTTTGTCAAAACGCCA-TAAATGTATCG-TTAATTTACGGCGTTTG
1 TAAAAACATTTGCAGCGTTTTTTGTCAAAACGCCACT-AATGTA-CGAATAATTTGCGGCGTTTG
* * * * * *
14783720 TTACTACAACGCCGCTATATGTGCAACCTATTGCGGCATTTTTTTCAAAACACTGCTAAAGTACT
64 TTACCAAAACGCCACTATATGTGCAACCTATTACGGCATTTTTGTCAAAACACAGCTAAAGTACT
* *
14783785 AATTTATTGATGCGTTTATT-AAAAAC-GCGCTATATGTCTAAAGTTAATGACGTTTAAA
129 AATTTATTGAGGCATTTATTAAAAAACGGCGCTATATGTCTAAAGTTAATGACGTTTAAA
* * *
14783843 TAAAATACATTTGCAGCGTTTTTTTGTCTAAACGCCACTAATGTACGAATGATTTGTGGCGTTTG
1 TAAAA-ACATTTGCAGCG-TTTTTTGTCAAAACGCCACTAATGTACGAATAATTTGCGGCGTTTG
* * *
14783908 CTACCAAAATGCCACTATATGTG-AACCCTATTACGGCATTTTTGTCAAAACGCAGCTAAAGTAC
64 TTACCAAAACGCCACTATATGTGCAA-CCTATTACGGCATTTTTGTCAAAACACAGCTAAAGTAC
* * *
14783972 TAATTTTTTGCGGCATTTATTAAAAAACGGCGCTATATGTCTAAAGTTAATGATGTTTAAA
128 TAATTTATTGAGGCATTTATTAAAAAACGGCGCTATATGTCTAAAGTTAATGACGTTTAAA
*** * * *
14784033 TAAAAAACATTTATTGCGTTTTTTGTCAAAACGCCACTAATGTACTAATCATTTGCAGCGTTTGT
1 T-AAAAACATTTGCAGCGTTTTTTGTCAAAACGCCACTAATGTACGAATAATTTGCGGCGTTTGT
* * *
14784098 TATCAAAACGTCGCTATATGT
65 TACCAAAACGCCACTATATGT
14784119 CTAAAGTTAA
Statistics
Matches: 235, Mismatches: 33, Indels: 13
0.84 0.12 0.05
Matches are distributed among these distances:
186 5 0.02
187 15 0.06
188 105 0.45
189 65 0.28
190 41 0.17
191 4 0.02
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (188 bp):
TAAAAACATTTGCAGCGTTTTTTGTCAAAACGCCACTAATGTACGAATAATTTGCGGCGTTTGTT
ACCAAAACGCCACTATATGTGCAACCTATTACGGCATTTTTGTCAAAACACAGCTAAAGTACTAA
TTTATTGAGGCATTTATTAAAAAACGGCGCTATATGTCTAAAGTTAATGACGTTTAAA
Found at i:14784131 original size:107 final size:108
Alignment explanation
Indices: 14783938--14784227 Score: 345
Period size: 109 Copynumber: 2.7 Consensus size: 108
14783928 GTGAACCCTA
** * * *
14783938 TTACGGCA-TTTTTGTCAAAACG-CAGCTAAAGTACTAATTTTTTGCGGCATTTATTAAAAAACG
1 TTACGGCATTTTTTGTCAAAACGCCA-CTAAAGTACTAATCATTTGCGGCGTTTGTTACAAAACG
* *
14784001 GCGCTATATGTCTAAAGTTAATGATGTTTAAAT-AAAAAACA-T
65 CCGCTATATGTCTAAAGTTAATGACGTTTAAATAAAAAAACATT
** * * *
14784043 TTATTGCGTTTTTTGTCAAAACGCCACTAATGTACTAATCATTTGCAGCGTTTGTTATCAAAACG
1 TTACGGCATTTTTTGTCAAAACGCCACTAAAGTACTAATCATTTGCGGCGTTTGTTA-CAAAACG
*
14784108 TCGCTATATGTCTAAAGTTAATGACGTTTAAATAAAAAAACATT
65 CCGCTATATGTCTAAAGTTAATGACGTTTAAATAAAAAAACATT
* * * * * * *
14784152 TTACGGCATTTTCTATCAAAACGCCACTAAAGTCCGAATCATTTGCGGTGGTTGATACCAAAACG
1 TTACGGCATTTTTTGTCAAAACGCCACTAAAGTACTAATCATTTGCGGCGTTTGTTA-CAAAACG
14784217 CCGCTATATGT
65 CCGCTATATGT
14784228 TAACCCTATT
Statistics
Matches: 154, Mismatches: 26, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
105 5 0.03
106 39 0.25
107 39 0.25
108 8 0.05
109 63 0.41
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (108 bp):
TTACGGCATTTTTTGTCAAAACGCCACTAAAGTACTAATCATTTGCGGCGTTTGTTACAAAACGC
CGCTATATGTCTAAAGTTAATGACGTTTAAATAAAAAAACATT
Found at i:14788893 original size:17 final size:20
Alignment explanation
Indices: 14788871--14788908 Score: 55
Period size: 17 Copynumber: 2.0 Consensus size: 20
14788861 TTTTATGGGT
14788871 TGAATAA-C-TTTT-TTAAA
1 TGAATAAGCATTTTGTTAAA
14788888 TGAATAAGCATTTTGTTAAA
1 TGAATAAGCATTTTGTTAAA
14788908 T
1 T
14788909 TTTTTATGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 1 0.06
19 4 0.22
20 6 0.33
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (20 bp):
TGAATAAGCATTTTGTTAAA
Found at i:14791093 original size:17 final size:16
Alignment explanation
Indices: 14791067--14791115 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
14791057 AGATAAAAAT
14791067 TAATAT-AATATAATAA
1 TAATATAAATA-AATAA
14791083 TAATATAAATACAATAA
1 TAATATAAATA-AATAA
*
14791100 TAAATACAAATAAATA
1 T-AATATAAATAAATA
14791116 GTATTTATGT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 6 0.21
17 14 0.48
18 9 0.31
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATATAAATAAATAA
Found at i:14791181 original size:17 final size:17
Alignment explanation
Indices: 14791161--14791193 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14791151 TAATATTATA
14791161 TTTTCAAAAATAATATG
1 TTTTCAAAAATAATATG
*
14791178 TTTTCAAAAATTATAT
1 TTTTCAAAAATAATAT
14791194 ATTATATATG
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:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTCAAAAATAATATG
Found at i:14791271 original size:37 final size:36
Alignment explanation
Indices: 14791230--14791508 Score: 171
Period size: 36 Copynumber: 7.4 Consensus size: 36
14791220 AAATATATAT
14791230 ATATATATATATATGTTTTCAAAACAAGTTTTCAAAA
1 ATATATATATATATGTTTTCAAAA-AAGTTTTCAAAA
* *
14791267 ATATAT-TATATACGTTTTCAAAAATCA-TTTTTAAAA
1 ATATATATATATATGTTTTCAAAAA--AGTTTTCAAAA
* *
14791303 CTATATATATTATATGTTTTCAAAAATGTGTTTTCAAAA
1 ATATATATA-TATATGTTTTCAAAAA--AGTTTTCAAAA
* * *
14791342 CTATATA-ATATATGATTTCAAAAACGTATTTTC-AAA
1 ATATATATATATATGTTTTCAAAAAAG--TTTTCAAAA
* *
14791378 ATCATAT-TATATA--TTTTCAAAAATCAATTTTTAAAA
1 AT-ATATATATATATGTTTTCAAAAA--AGTTTTCAAAA
* * *
14791414 ACTATATAT-TATATGCTTTCAAAAAACATTTTTTTTTAAAA
1 A-TATATATATATATGTTTTC-AAAAA-A---GTTTTCAAAA
*
14791455 ACTATATAT-TATATGTTTTCAAAAAAATATTTTCAAAA
1 A-TATATATATATATGTTTTC-AAAAAA-GTTTTCAAAA
*
14791493 ACTACATTATATATAT
1 A-TATA-TATATATAT
14791509 ATATTAAATA
Statistics
Matches: 200, Mismatches: 20, Indels: 41
0.77 0.08 0.16
Matches are distributed among these distances:
35 15 0.08
36 45 0.22
37 40 0.20
38 37 0.19
39 23 0.12
40 6 0.03
41 34 0.17
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (36 bp):
ATATATATATATATGTTTTCAAAAAAGTTTTCAAAA
Found at i:14791290 original size:77 final size:73
Alignment explanation
Indices: 14791190--14791506 Score: 222
Period size: 75 Copynumber: 4.2 Consensus size: 73
14791180 TTCAAAAATT
14791190 ATATATTATATATGTTTCTAAAAATCA-TTTAAATATATATATATATATATATATGTTTTCAAAA
1 ATATATTATATATGTTTC-AAAAATCATTTTAAA-A-A-ATATATATAT-TATATGTTTTCAAAA
14791254 CA-AGTTTTCAAAA
61 -AGAGTTTTCAAAA
* * * *
14791267 ATATATTATATACGTTTTCAAAAATCATTTTTAAAACTATATATATTATATGTTTTCAAAAATGT
1 ATATATTATATATG-TTTCAAAAATCATTTTAAAAAATATATATATTATATGTTTTCAAAAA-GA
14791332 GTTTTCAAAA
64 GTTTTCAAAA
* * *
14791342 CTATATAATATATGATTTCAAAAA-CGTATTTT-CAAAATCATAT-TA-TATA--TTTTCAAAAA
1 ATATATTATATATG-TTTCAAAAATC--ATTTTAAAAAAT-ATATATATTATATGTTTTCAAAAA
* * *
14791401 TCAATTTTTAAAA
62 -GAGTTTTCAAAA
* * *
14791414 ACTATA-TATTATATGCTTTCAAAAAACATTTTTTTTTAAAAA-CTATATATTATATGTTTTCAA
1 A-TATATTA-TATATG-TTTCAAAAATCA----TTTTAAAAAATATATATATTATATGTTTTCAA
* *
14791477 AAAAATATTTTCAAAA
59 AAAGA-GTTTTCAAAA
*
14791493 ACTACATTATATAT
1 A-TATATTATATAT
14791507 ATATATTAAA
Statistics
Matches: 197, Mismatches: 22, Indels: 40
0.76 0.08 0.15
Matches are distributed among these distances:
72 21 0.11
73 20 0.10
74 21 0.11
75 48 0.24
76 16 0.08
77 30 0.15
78 10 0.05
79 29 0.15
80 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.03, T:0.44
Consensus pattern (73 bp):
ATATATTATATATGTTTCAAAAATCATTTTAAAAAATATATATATTATATGTTTTCAAAAAGAGT
TTTCAAAA
Found at i:14791506 original size:38 final size:38
Alignment explanation
Indices: 14791231--14791506 Score: 218
Period size: 38 Copynumber: 7.3 Consensus size: 38
14791221 AATATATATA
* *
14791231 TATATATATATATGTTTTCAAAACAA-GTTTTCAAAAA-
1 TATAT-TATATATGTTTTCAAAAAAATATTTTCAAAAAC
* *
14791268 TATATTATATACGTTTTC--AAAAATCATTTT-TAAAAC
1 TATATTATATATGTTTTCAAAAAAAT-ATTTTCAAAAAC
** *
14791304 TATATATATTATATGTTTTCAAAAATGTGTTTTC-AAAAC
1 TATAT-TA-TATATGTTTTCAAAAAAATATTTTCAAAAAC
* * ** *
14791343 TATATAATATATGATTTCAAAAACGTATTTTCAAAATC
1 TATATTATATATGTTTTCAAAAAAATATTTTCAAAAAC
14791381 -ATATTATATA--TTTTCAAAAATCAAT-TTTT-AAAAAC
1 TATATTATATATGTTTTCAAAAA--AATATTTTCAAAAAC
* * *
14791416 TATA-TATTATATGCTTTCAAAAAACATTTTTTTTTAAAAAC
1 TATATTA-TATATGTTTTCAAAAAA-A--TATTTTCAAAAAC
14791457 TATA-TATTATATGTTTTCAAAAAAATATTTTCAAAAAC
1 TATATTA-TATATGTTTTCAAAAAAATATTTTCAAAAAC
*
14791495 TACATTATATAT
1 TATATTATATAT
14791507 ATATATTAAA
Statistics
Matches: 195, Mismatches: 23, Indels: 41
0.75 0.09 0.16
Matches are distributed among these distances:
34 4 0.02
35 20 0.10
36 33 0.17
37 40 0.21
38 43 0.22
39 17 0.09
40 9 0.05
41 29 0.15
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.43
Consensus pattern (38 bp):
TATATTATATATGTTTTCAAAAAAATATTTTCAAAAAC
Found at i:14792213 original size:73 final size:74
Alignment explanation
Indices: 14792094--14792259 Score: 223
Period size: 73 Copynumber: 2.3 Consensus size: 74
14792084 ATGTTTTAGA
* * * * *
14792094 TGACTCATT-TGCTGTGAATTTAAGTCGATACTTTTGGGCACGATATCCTTCGTTTTGTAA-TTG
1 TGACTCATTCTGCTGTGAAGTTAAGTCGAAACTTTTGGGCACGATATCATTCGTTATG-AAGTTA
14792157 AAATCGTGGG
65 AAATCGTGGG
* *
14792167 TGACTCATTCTTC-GTGAAGTTAAGTCGAAACTTTTGGGCATGATATCATTCGTTATGAAGTTAA
1 TGACTCATTCTGCTGTGAAGTTAAGTCGAAACTTTTGGGCACGATATCATTCGTTATGAAGTTAA
14792231 AATCGTGGG
66 AATCGTGGG
*
14792240 TGACTCATTC-GGTGTGAAGT
1 TGACTCATTCTGCTGTGAAGT
14792260 CGAGTCCCAA
Statistics
Matches: 81, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
72 2 0.02
73 77 0.95
74 2 0.02
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.37
Consensus pattern (74 bp):
TGACTCATTCTGCTGTGAAGTTAAGTCGAAACTTTTGGGCACGATATCATTCGTTATGAAGTTAA
AATCGTGGG
Found at i:14803637 original size:15 final size:15
Alignment explanation
Indices: 14803617--14803650 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14803607 AGAGAAAAAA
*
14803617 TAAATTGAAAAATGT
1 TAAATTGAAAAATAT
*
14803632 TAAATTTAAAAATAT
1 TAAATTGAAAAATAT
14803647 TAAA
1 TAAA
14803651 AGAGAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (15 bp):
TAAATTGAAAAATAT
Found at i:14805214 original size:5 final size:5
Alignment explanation
Indices: 14805204--14805290 Score: 76
Period size: 5 Copynumber: 17.4 Consensus size: 5
14805194 AGATAAAAAT
*
14805204 TAATA TAATA TAATA TAATAA TAATA T-A-A TAATA TAAATA CAATAA
1 TAATA TAATA TAATA TAAT-A TAATA TAATA TAATA T-AATA TAAT-A
*
14805250 TAA-A TAATA -AATAA TAA-A TAATA TTAATG TAATA TAATA TA
1 TAATA TAATA TAAT-A TAATA TAATA -TAATA TAATA TAATA TA
14805291 TAATAAAAAC
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
3 2 0.03
4 13 0.19
5 35 0.51
6 18 0.26
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (5 bp):
TAATA
Found at i:14805226 original size:3 final size:3
Alignment explanation
Indices: 14805204--14805296 Score: 58
Period size: 3 Copynumber: 32.0 Consensus size: 3
14805194 AGATAAAAAT
14805204 TAA T-A TAA T-A TAA T-A TAA TAA TAA T-A TAA TAA T-A TAA -ATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * *
14805244 CAA TAA TAAA TAA TAAA TAA TAAA TAA TAT TAA T-G TAA T-A TAA TATA
1 TAA TAA T-AA TAA T-AA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A
14805291 TAA TAA
1 TAA TAA
14805297 AAACTATATA
Statistics
Matches: 72, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
2 14 0.19
3 45 0.62
4 13 0.18
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:14805237 original size:14 final size:14
Alignment explanation
Indices: 14805204--14805296 Score: 72
Period size: 14 Copynumber: 6.6 Consensus size: 14
14805194 AGATAAAAAT
14805204 TAAT-ATAATATAATA
1 TAATAATAATAT-A-A
14805219 TAATAATAATATAA
1 TAATAATAATATAA
*
14805233 TAAT-ATAAATACAA
1 TAATAAT-AATATAA
14805247 TAATAAATAATA-AA
1 TAAT-AATAATATAA
14805261 TAATAAATAATAT--
1 TAAT-AATAATATAA
*
14805274 TAAT-GTAATATAA
1 TAATAATAATATAA
14805287 TATATAATAA
1 TA-ATAATAA
14805297 AAACTATATA
Statistics
Matches: 66, Mismatches: 3, Indels: 18
0.76 0.03 0.21
Matches are distributed among these distances:
11 6 0.09
13 8 0.12
14 31 0.47
15 12 0.18
16 9 0.14
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:14805270 original size:35 final size:37
Alignment explanation
Indices: 14805187--14805315 Score: 125
Period size: 37 Copynumber: 3.6 Consensus size: 37
14805177 GACCTAAAGC
14805187 AATAAATAGATAAA-AAT-TAATATAATATAATATAAT
1 AATAAATA-ATAAATAATATAATATAATATAATATAAT
14805223 AAT-AAT-AT-AATAATATAA-ATACA-ATAATA-AAT
1 AATAAATAATAAATAATATAATATA-ATATAATATAAT
*
14805255 AATAAATAATAAATAATATTAATGTAATATAATAT-AT
1 AATAAATAATAAATAATA-TAATATAATATAATATAAT
* *
14805292 AATAAA-AACTATATAATATTATAT
1 AATAAATAA-TAAATAATATAATAT
14805316 TTTCAAAAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 22
0.75 0.04 0.21
Matches are distributed among these distances:
32 8 0.10
33 17 0.22
34 6 0.08
35 10 0.13
36 13 0.17
37 24 0.31
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (37 bp):
AATAAATAATAAATAATATAATATAATATAATATAAT
Found at i:14805335 original size:17 final size:17
Alignment explanation
Indices: 14805315--14805347 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
14805305 TAATATTATA
14805315 TTTTCAAAAATAATATG
1 TTTTCAAAAATAATATG
*
14805332 TTTTCAAAAATTATAT
1 TTTTCAAAAATAATAT
14805348 ATTATATATG
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:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (17 bp):
TTTTCAAAAATAATATG
Found at i:14805374 original size:56 final size:55
Alignment explanation
Indices: 14805314--14805424 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 55
14805304 ATAATATTAT
* *
14805314 ATTTTCAAAA-ATA-ATATGTTTTCAAAAATTATATATTATATATGTTTCCAAAAATC
1 ATTTTAAAAACATATATATGTTTTC-AAAACTATATA--ATATATGTTTCCAAAAATC
*
14805370 ATTTTAAAAACTATATATATGTTTTCAAAACTATATAATATATGTTTTCAAAAAT
1 ATTTTAAAAAC-ATATATATGTTTTCAAAACTATATAATATATGTTTCCAAAAAT
14805425 GTATTGTCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
56 26 0.53
58 13 0.27
59 10 0.20
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (55 bp):
ATTTTAAAAACATATATATGTTTTCAAAACTATATAATATATGTTTCCAAAAATC
Found at i:14805399 original size:20 final size:22
Alignment explanation
Indices: 14805371--14805422 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
14805361 CCAAAAATCA
*
14805371 TTTTAAAAAC-TAT-ATATATG
1 TTTTCAAAACATATAATATATG
14805391 TTTTCAAAACTATATAATATATG
1 TTTTCAAAAC-ATATAATATATG
14805414 TTTTCAAAA
1 TTTTCAAAA
14805423 ATGTATTGTC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 9 0.32
22 3 0.11
23 16 0.57
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (22 bp):
TTTTCAAAACATATAATATATG
Found at i:14805453 original size:58 final size:56
Alignment explanation
Indices: 14805345--14805455 Score: 141
Period size: 56 Copynumber: 1.9 Consensus size: 56
14805335 TCAAAAATTA
* * * *
14805345 TATATTATATATGTTTCCAAAAATCATTTTAAAAACTATATATATGTTTTCAAAAC
1 TATATAATATATGTTTCCAAAAATCATTGTAAAAACCATATATATATTTTCAAAAC
* * *
14805401 TATATAATATATGTTTTCAAAAATGTATTGTCAAAACCATATTATATATTTTCAA
1 TATATAATATATGTTTCCAAAAAT-CATTGTAAAAACCATA-TATATATTTTCAA
14805456 CAAAGTCCAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
56 22 0.48
57 12 0.26
58 12 0.26
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (56 bp):
TATATAATATATGTTTCCAAAAATCATTGTAAAAACCATATATATATTTTCAAAAC
Found at i:14807557 original size:2 final size:2
Alignment explanation
Indices: 14807544--14807599 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
14807534 GGGTTGATGT
* *
14807544 TA TA TA TC TA TA TA TA T- TA TA TA TA TC TA T- TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14807583 -A TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
14807600 AAAAAAAAGG
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
1 4 0.09
2 42 0.91
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14807574 original size:13 final size:13
Alignment explanation
Indices: 14807552--14807598 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
14807542 GTTATATATC
14807552 TATATATATTATA
1 TATATATATTATA
*
14807565 TATATCTATTATA
1 TATATATATTATA
14807578 TA-ATA-ATATATA
1 TATATATAT-TATA
14807590 TATATATAT
1 TATATATAT
14807599 AAAAAAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 2 0.07
12 8 0.28
13 17 0.59
14 2 0.07
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (13 bp):
TATATATATTATA
Found at i:14809540 original size:21 final size:21
Alignment explanation
Indices: 14809479--14809533 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
14809469 TTAGGTTGGG
14809479 AGTATCGATACTAGGATTTAC
1 AGTATCGATACTAGGATTTAC
*
14809500 AGTATCGATACTAGGGTTTAC
1 AGTATCGATACTAGGATTTAC
*
14809521 AGTATTGATACTA
1 AGTATCGATACTA
14809534 CTATTTAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (21 bp):
AGTATCGATACTAGGATTTAC
Found at i:14811289 original size:18 final size:18
Alignment explanation
Indices: 14811266--14811313 Score: 96
Period size: 18 Copynumber: 2.7 Consensus size: 18
14811256 GTTGGCTACT
14811266 TCATCTTCATCATTTGAG
1 TCATCTTCATCATTTGAG
14811284 TCATCTTCATCATTTGAG
1 TCATCTTCATCATTTGAG
14811302 TCATCTTCATCA
1 TCATCTTCATCA
14811314 CTCCAAGCCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.08, T:0.44
Consensus pattern (18 bp):
TCATCTTCATCATTTGAG
Found at i:14815079 original size:48 final size:47
Alignment explanation
Indices: 14815009--14815102 Score: 118
Period size: 48 Copynumber: 2.0 Consensus size: 47
14814999 ACCAACTGTG
* *
14815009 CTGAACATTAGTACAAGGATGTAGCAAAGCTGAACTGATAATTGATAA
1 CTGAACATTAGTACAAGAATGTAGCAAAGCTGAACTGA-AACTGATAA
* * *
14815057 CTGAACATT-GATACACGAATGTATCAAAGTTGAACTGAAACTGATA
1 CTGAACATTAG-TACAAGAATGTAGCAAAGCTGAACTGAAACTGATA
14815103 GATACTTACT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
47 8 0.20
48 32 0.80
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (47 bp):
CTGAACATTAGTACAAGAATGTAGCAAAGCTGAACTGAAACTGATAA
Found at i:14815246 original size:17 final size:17
Alignment explanation
Indices: 14815198--14815248 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
14815188 TATTAATATG
14815198 TATCTGATAATTGTAAAC
1 TATCTGATAATTGT-AAC
* * *
14815216 TATATGATATTTGTAAT
1 TATCTGATAATTGTAAC
14815233 TATCTGATAATTGTAA
1 TATCTGATAATTGTAA
14815249 ATCATCTAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 16 0.57
18 12 0.43
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TATCTGATAATTGTAAC
Found at i:14815260 original size:18 final size:18
Alignment explanation
Indices: 14815199--14815260 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 18
14815189 ATTAATATGT
14815199 ATCTGATAATTGTAAA-C
1 ATCTGATAATTGTAAATC
* * *
14815216 TATATGATATTTGT-AATT
1 -ATCTGATAATTGTAAATC
14815234 ATCTGATAATTGTAAATC
1 ATCTGATAATTGTAAATC
*
14815252 ATCTAATAA
1 ATCTGATAA
14815261 CTATAAAATA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
17 13 0.37
18 22 0.63
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (18 bp):
ATCTGATAATTGTAAATC
Found at i:14817066 original size:23 final size:24
Alignment explanation
Indices: 14817023--14817068 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
14817013 ATGTTAATAT
14817023 GTGTGATATGATTATTATGTATGG
1 GTGTGATATGATTATTATGTATGG
* *
14817047 GTGTTATATG-TTATTTTGTATG
1 GTGTGATATGATTATTATGTATG
14817069 CTAAGGGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.52
Consensus pattern (24 bp):
GTGTGATATGATTATTATGTATGG
Found at i:14817629 original size:13 final size:13
Alignment explanation
Indices: 14817613--14817649 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
14817603 TATAAATTAG
14817613 TGATATAAGAATA
1 TGATATAAGAATA
14817626 TGATATAAG-ATA
1 TGATATAAGAATA
14817638 TGCA-ATAAGAAT
1 TG-ATATAAGAAT
14817650 CGACGTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (13 bp):
TGATATAAGAATA
Found at i:14818961 original size:16 final size:15
Alignment explanation
Indices: 14818924--14818962 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
14818914 CACTTGGCTT
*
14818924 AATAATAAAAATTTC
1 AATAATAAAAATCTC
14818939 AATTAATGAAAAATCTC
1 AA-TAAT-AAAAATCTC
14818956 AATAATA
1 AATAATA
14818963 CCATTAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 3 0.14
16 8 0.38
17 10 0.48
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (15 bp):
AATAATAAAAATCTC
Found at i:14823964 original size:15 final size:15
Alignment explanation
Indices: 14823944--14823979 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
14823934 GTTTATTTTC
14823944 TGTTTAGTCATTATA
1 TGTTTAGTCATTATA
14823959 TGTTTAGTCATTATA
1 TGTTTAGTCATTATA
14823974 TGTTTA
1 TGTTTA
14823980 TTGTGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.56
Consensus pattern (15 bp):
TGTTTAGTCATTATA
Found at i:14828708 original size:11 final size:11
Alignment explanation
Indices: 14828692--14828725 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14828682 CAACACTATG
14828692 CATTGCATTTA
1 CATTGCATTTA
**
14828703 CATTGCATCCA
1 CATTGCATTTA
14828714 CATTGCATTTA
1 CATTGCATTTA
14828725 C
1 C
14828726 CTTTTTTTTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (11 bp):
CATTGCATTTA
Found at i:14833080 original size:42 final size:42
Alignment explanation
Indices: 14833007--14833108 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
14832997 TCCAAAATTG
* *
14833007 GTAAGTCCTTCGGGCCATCAGTAAGGTTTTCGAGCATGATGA
1 GTAAATCCTTCGGGCCATCAGTAAGGTTTTCGAGCAAGATGA
* * *
14833049 GTAAATCCTTTGGGTCATCTGTAA-GTCTTTCGAGCAAGATGA
1 GTAAATCCTTCGGGCCATCAGTAAGGT-TTTCGAGCAAGATGA
* *
14833091 -TAAGTCCATCGGGCCATC
1 GTAAATCCTTCGGGCCATC
14833109 CATAAGACCT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
41 16 0.32
42 34 0.68
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (42 bp):
GTAAATCCTTCGGGCCATCAGTAAGGTTTTCGAGCAAGATGA
Found at i:14833323 original size:233 final size:232
Alignment explanation
Indices: 14832939--14833826 Score: 1094
Period size: 233 Copynumber: 3.9 Consensus size: 232
14832929 ATTCTAATTC
* * *
14832939 AAATATGAAAATGGAAATTGTTGAAAAATAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
1 AAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
14833004 TTGGTAAGTCCTTCGGGCCATCAGTAAGGT-TTTCGAGCATGATGAGTAAATCCTTTGGGTCATC
66 TTGGTAAGTCCTTCGGGCCATCAGTAA-GTCTTTCGAGCATGATG-GTAAATCCTTTGGGTCATC
* * * *
14833068 TGTAAGTCTTTCGAGCAAGATGATAAGTCCATCGGGCCATCCATAAGACCTTTGGGTAGGATGTT
129 TATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTT
* *
14833133 TTCACATGTCTCTCAAAAAATGATAAAGGTTTGTCATTT
194 TTCACATGTCTCTCAAAAAATGAGAAAGGTTTATCATTT
* *
14833172 AAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACAATTTCCAAAG
1 AAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
* * * *
14833237 TTGGTAAGTCCTTCGGGCCATTAGTAAGTCTTTTGAGCTTGATGCTTAAATCCTTTGGGTCATCT
66 TTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATG-GTAAATCCTTTGGGTCATCT
* * * * * * *
14833302 GTAAGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTTGGGTATGATGGTT
130 ATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTT
* ** *
14833367 TCACATGTCTCTCAAAAAATGAGAAAGATTCCTCGTTT
195 TCACATGTCTCTCAAAAAATGAGAAAGGTTTATCATTT
* * *
14833405 AAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAAATTTCTTACCTAGTAAACTATTTCCAAAA
1 AAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
* * * *
14833470 GTAGTAAGTTCTTCGGGCCATCAGTAAGGCTTTCGAGC---AT-G---A-----T--GTCATCTA
66 TTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGTAAATCCTTTGGGTCATCTA
* * ** *
14833521 TAAGCCTTTCGAGCAAGATGGTAAGTCCTTCGGGACATCCATAAGACCTTCGGACAGTATGTTTT
131 TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTT
* * *
14833586 CACCAAT-T-TCT-GAAAAATGAGAAAAGTTTATAATTT
196 CA-C-ATGTCTCTCAAAAAATGAGAAAGGTTTATCATTT
* * * *
14833622 AAATCTGAAAATTGAAATTTTTTGAAAAGTAGGGAAAGTTTCTTACCTAGTAAATTATTTCCAAA
1 AAATATGAAAATTGAAA-TTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAA
* * *
14833687 ATTTGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGGTAAATCCTTTGGTTCATT
65 ATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGAT-GGTAAATCCTTTGGGTCATC
* * * * * *
14833752 TATAAGCCTTTCGAGCACGAGGATAAGTCTTTCGGGTCATCCATAAGACCTTCGGGAAGGGTGTT
129 TATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTT
14833817 TT-ACATGTCT
194 TTCACATGTCT
14833827 TTTTGAAAAA
Statistics
Matches: 563, Mismatches: 71, Indels: 43
0.83 0.10 0.06
Matches are distributed among these distances:
217 34 0.06
218 144 0.26
219 2 0.00
220 3 0.01
221 2 0.00
223 1 0.00
225 1 0.00
226 1 0.00
230 4 0.01
231 3 0.01
232 4 0.01
233 364 0.65
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (232 bp):
AAATATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAAAA
TTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGTAAATCCTTTGGGTCATCTA
TAAGCCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAGACCTTCGGGTAGGATGTTTT
CACATGTCTCTCAAAAAATGAGAAAGGTTTATCATTT
Found at i:14833673 original size:218 final size:218
Alignment explanation
Indices: 14833295--14833731 Score: 578
Period size: 218 Copynumber: 2.0 Consensus size: 218
14833285 AATCCTTTGG
* * * * * **
14833295 GTCATCTGTAAGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTTGGGTAT
1 GTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCATAAGACCTTCGGACAT
* **
14833360 GATGGTTTCACATGTCTCTCAAAAAATGAGAAAGATTCCTCGTTTAAATCTAAAAATTGAAATTT
66 GATGGTTTCACATGTCTCTCAAAAAATGAGAAAGATTCATAATTTAAATCTAAAAATTGAAATTT
*
14833425 TTGAAAAGTAAGAAAAATTTCTTACCTAGTAAACTATTTCCAAAAGTAGTAAGTTCTTCGGGCCA
131 TTGAAAAGTAAGAAAAATTTCTTACCTAGTAAACTATTTCCAAAAGTAGTAAGTCCTTCGGGCCA
14833490 TCAGTAAGGCTTTCGAGCATGAT
196 TCAGTAAGGCTTTCGAGCATGAT
* *
14833513 GTCATCTATAAGCCTTTCGAGCAAGATGGTAAGTCCTTCGGGACATCCATAAGACCTTCGGACA-
1 GTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCATAAGACCTTCGGACAT
* * * *
14833577 GTATGTTTTCACCAAT-T-TCT-GAAAAATGAGAAA-AGTTTATAATTTAAATCTGAAAATTGAA
66 G-ATGGTTTCA-C-ATGTCTCTCAAAAAATGAGAAAGA-TTCATAATTTAAATCTAAAAATTGAA
* * * * * *
14833638 ATTTTTTGAAAAGTAGGGAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTTGTAAGTCCTTCG
127 A-TTTTTGAAAAGTAAGAAAAATTTCTTACCTAGTAAACTATTTCCAAAAGTAGTAAGTCCTTCG
*
14833703 GGCCATCAGTAAGTCTTTCGAGCATGAT
191 GGCCATCAGTAAGGCTTTCGAGCATGAT
14833731 G
1 G
14833732 GGTAAATCCT
Statistics
Matches: 190, Mismatches: 24, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
216 1 0.01
217 35 0.18
218 150 0.79
219 2 0.01
220 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (218 bp):
GTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCTTCGAGACATCCATAAGACCTTCGGACAT
GATGGTTTCACATGTCTCTCAAAAAATGAGAAAGATTCATAATTTAAATCTAAAAATTGAAATTT
TTGAAAAGTAAGAAAAATTTCTTACCTAGTAAACTATTTCCAAAAGTAGTAAGTCCTTCGGGCCA
TCAGTAAGGCTTTCGAGCATGAT
Found at i:14833838 original size:451 final size:456
Alignment explanation
Indices: 14832915--14833861 Score: 1149
Period size: 451 Copynumber: 2.1 Consensus size: 456
14832905 TTTATAAGTT
* ** * * * *
14832915 AAAAATGAGAAAAAATTCTAATTCAAATATGAAAATGGAAATTGTTGAAAAATAAGAAAAGTTTC
1 AAAAATGAGAAAAATTTCCCATTTAAATCTAAAAATGGAAATTGTTGAAAAATAAGAAAAATTTC
* * *
14832980 TTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGGTTTTCGAGCATG
66 TTACCTAGTAAACTATTTCCAAAAGTAGTAAGTCCTTCGGGCCATCAGTAAGGCTTTCGAGCA--
* * *
14833045 ATGAGTAAATCCTTTGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCATCGGGCCATCC
129 AT-AG--AA----TT-GGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCATCGGGACATCC
* ** * * * *
14833110 ATAAGACCTTTGGGTAGGATGTTTTCACATGTCTCTCAAAAAATGATAAAGGTTTGTCATTTAAA
186 ATAAGACCTTCGGACAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAAGTTTATAATTTAAA
*
14833175 TATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACAATTTCCAAAGTTG
251 TATGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACAATTTCCAAAATTG
* * * * *
14833240 GTAAGTCCTTCGGGCCATTAGTAAGTCTTTTGAGCTTGATGCTTAAATCCTTTGGGTCATCTGTA
316 GTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTTGGGTCATCTATA
* * * * * *
14833305 AGTCTTTCGAGTAAGATGATAAGTCCTTCGAGCCATCCATAAGACCTTTGGGTATGATGGTTTCA
381 AGCCTTTCGAGCAAGAGGATAAGTCCTTCGAGCCATCCATAAGACCTTCGGGAAGGATGGTTTCA
14833370 CATGTCTCTCA
446 CATGTCTCTCA
* * * * *
14833381 AAAAATGAGAAAGA-TTCCTCGTTTAAATCTAAAAATTGAAATTTTTGAAAAGTAAGAAAAATTT
1 AAAAATGAGAAAAATTTCC-CATTTAAATCTAAAAATGGAAATTGTTGAAAAATAAGAAAAATTT
*
14833445 CTTACCTAGTAAACTATTTCCAAAAGTAGTAAGTTCTTCGGGCCATCAGTAAGGCTTTCGAGC-A
65 CTTACCTAGTAAACTATTTCCAAAAGTAGTAAGTCCTTCGGGCCATCAGTAAGGCTTTCGAGCAA
* *
14833509 T-G-A-T-GTCATCTATAAGCCTTTCGAGCAAGATGGTAAGTCCTTCGGGACATCCATAAGACCT
130 TAGAATTGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCATCGGGACATCCATAAGACCT
* * *
14833570 TCGGACAGTATGTTTTCACCAAT-T-TCT-GAAAAATGAGAAAAGTTTATAATTTAAATCTGAAA
195 TCGGACAGGATGTTTTCA-C-ATGTCTCTCAAAAAATGAGAAAAGTTTATAATTTAAATATGAAA
* * ** *
14833632 ATTGAAATTTTTTGAAAAGTAGGGAAAGTTTCTTACCTAGTAAATTATTTCCAAAATTTGTAAGT
258 ATTGAAA-TTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACAATTTCCAAAATTGGTAAGT
* * *
14833697 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGGGTAAATCCTTTGGTTCATTTATAAGCCTT
322 CCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTTGGGTCATCTATAAGCCTT
* * * * * *
14833762 TCGAGCACGAGGATAAGTCTTTCGGGTCATCCATAAGACCTTCGGGAAGGGT-GTTTTACATGTC
387 TCGAGCAAGAGGATAAGTCCTTCGAGCCATCCATAAGACCTTCGGGAAGGATGGTTTCACATGTC
* **
14833826 TTTTTG
452 -TCTCA
14833832 AAAAATGAGAAAAATTTCCCATTTAAATCT
1 AAAAATGAGAAAAATTTCCCATTTAAATCT
14833862 TTTTGAAAAG
Statistics
Matches: 414, Mismatches: 61, Indels: 27
0.82 0.12 0.05
Matches are distributed among these distances:
450 47 0.11
451 243 0.59
452 6 0.01
453 3 0.01
458 1 0.00
461 1 0.00
463 2 0.00
465 3 0.01
466 108 0.26
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (456 bp):
AAAAATGAGAAAAATTTCCCATTTAAATCTAAAAATGGAAATTGTTGAAAAATAAGAAAAATTTC
TTACCTAGTAAACTATTTCCAAAAGTAGTAAGTCCTTCGGGCCATCAGTAAGGCTTTCGAGCAAT
AGAATTGGTCATCTATAAGCCTTTCGAGCAAGATGATAAGTCCATCGGGACATCCATAAGACCTT
CGGACAGGATGTTTTCACATGTCTCTCAAAAAATGAGAAAAGTTTATAATTTAAATATGAAAATT
GAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACAATTTCCAAAATTGGTAAGTCCTT
CGGGCCATCAGTAAGTCTTTCGAGCATGATGCGTAAATCCTTTGGGTCATCTATAAGCCTTTCGA
GCAAGAGGATAAGTCCTTCGAGCCATCCATAAGACCTTCGGGAAGGATGGTTTCACATGTCTCTC
A
Found at i:14834263 original size:133 final size:132
Alignment explanation
Indices: 14834106--14834539 Score: 513
Period size: 133 Copynumber: 3.3 Consensus size: 132
14834096 GATCGAACTT
14834106 GATTCAATCTTCCCTGAAG-AACAGTGGAATAAATCAATGTCCTTAGATCTGATTTTCCCTTAAG
1 GATTCAATCTTCCCTGAAGTAACAGTGGAATAAATCAATGTCC-TAGATCTGATTTTCCCTTAAG
* * * *
14834170 AAGAAGCGGAACATATCCTTTTTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTCTT
65 AAGAAGTGGAACA-ATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTATT
14834235 CCTC
129 CCTC
* * * * *
14834239 GATTCAATCTTCCCT-AAGTGACAGTGGAATGAATCAACGTCCCTAGATATGATTTTCCCTCAAG
1 GATTCAATCTTCCCTGAAGTAACAGTGGAATAAATCAATGT-CCTAGATCTGATTTTCCCTTAAG
* * * *
14834303 AAGAAGTGGAACAATCCTCTCTTTCAAGATTTGATATTCTCTGAATGACAGTAGAACAAGTATGT
65 AAGAAGTGGAACAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTAT-T
14834368 -CTC
129 CCTC
* * * * * *
14834371 AATTCAATCTT-CCT-AAGTAATAGTGGAATGAATCAACAT-TCCCAGATCTTATTTTCCCTTAG
1 GATTCAATCTTCCCTGAAGTAACAGTGGAATAAATC-A-ATGTCCTAGATCTGATTTTCCCTTAA
* *
14834433 GAAGAAGTGGAATAGATCTCTCTCTTTCAAGATTTGATATTCCCAGAGTAACAGTGGAACAAGTA
64 GAAGAAGTGGAACA-ATC-CTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTA
*
14834498 TGCCTC
127 TTCCTC
* * *
14834504 GA-TCTAATCTACCCTGAAGAAACAGTGGAGTAAATC
1 GATTC-AATCTTCCCTGAAGTAACAGTGGAATAAATC
14834540 CCTTATCAGA
Statistics
Matches: 255, Mismatches: 35, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
131 51 0.20
132 66 0.26
133 117 0.46
134 5 0.02
135 16 0.06
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (132 bp):
GATTCAATCTTCCCTGAAGTAACAGTGGAATAAATCAATGTCCTAGATCTGATTTTCCCTTAAGA
AGAAGTGGAACAATCCTCTCTTTCAAGATTTGATATTCCCTGAGTAACAGTGGAACAAGTATTCC
TC
Found at i:14835578 original size:20 final size:20
Alignment explanation
Indices: 14835553--14835591 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14835543 TCTCTATTTT
*
14835553 AAAAAAAAGAGAGAAAAAGG
1 AAAAAAAAAAGAGAAAAAGG
14835573 AAAAAAAAAAGAGAAAAAG
1 AAAAAAAAAAGAGAAAAAG
14835592 TTGGTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAAGAGAAAAAGG
Found at i:14837724 original size:47 final size:48
Alignment explanation
Indices: 14837654--14837748 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 48
14837644 ACCAACTGCG
* * *
14837654 TTGAACATTGGTACACAAATGTACCAAAGCTGAACTGATAATTGATAA
1 TTGAACATTGATACACAAATGTACCAAAGCTGAACTGAAAACTGATAA
*
14837702 TTGAACATT-ATACACGAATGTACCAAAGCTGAACTGAAAACTGATAA
1 TTGAACATTGATACACAAATGTACCAAAGCTGAACTGAAAACTGATAA
14837749 CTATCACTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
47 34 0.79
48 9 0.21
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (48 bp):
TTGAACATTGATACACAAATGTACCAAAGCTGAACTGAAAACTGATAA
Found at i:14837869 original size:17 final size:17
Alignment explanation
Indices: 14837842--14837916 Score: 78
Period size: 17 Copynumber: 4.3 Consensus size: 17
14837832 AATATGTATA
14837842 TGATAACTGTAAATATC
1 TGATAACTGTAAATATC
** **
14837859 TGATATTTGTATTTATC
1 TGATAACTGTAAATATC
*
14837876 AGATAACTGTAAATCATC
1 TGATAACTGTAAAT-ATC
14837894 TGATAACTGTAAAATATC
1 TGATAACTGT-AAATATC
*
14837912 CGATA
1 TGATA
14837917 TTGTAAACAT
Statistics
Matches: 45, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
17 22 0.49
18 19 0.42
19 4 0.09
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (17 bp):
TGATAACTGTAAATATC
Found at i:14845296 original size:78 final size:75
Alignment explanation
Indices: 14845166--14845318 Score: 191
Period size: 78 Copynumber: 2.0 Consensus size: 75
14845156 AGTCTCTCTC
* *
14845166 TTGAAAAGAATATTTTGTATGATTTTATGAAGTAGTATACAAACTCACAACGTAGTC-ATGGATC
1 TTGAAAAGAAAATTTTGTATGATTTTATGAAGTAGTATACAAACCCACAACGTAGTCAATGGATC
*
14845230 TCATTAAAAA
66 TCATGAAAAA
* * * *
14845240 TTGAAAAGAAAAGGTTTTGTATGCTTTTTATTAAGGTAGTATATAAACCCATAACGTAGTCAATG
1 TTGAAAAGAAAA--TTTTGTATG-ATTTTATGAA-GTAGTATACAAACCCACAACGTAGTCAATG
*
14845305 GATCTTATGAAAAA
62 GATCTCATGAAAAA
14845319 ATTCTTAAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
74 11 0.17
76 9 0.14
77 8 0.12
78 23 0.35
79 15 0.23
ACGTcount: A:0.40, C:0.10, G:0.16, T:0.34
Consensus pattern (75 bp):
TTGAAAAGAAAATTTTGTATGATTTTATGAAGTAGTATACAAACCCACAACGTAGTCAATGGATC
TCATGAAAAA
Found at i:14847746 original size:33 final size:33
Alignment explanation
Indices: 14847709--14847777 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
14847699 AAAAAATGTA
*
14847709 ATAATTTTTCATAAAAATT-ATTTAAATAAAAAT
1 ATAATTTTT-ATAAAAATTAATTTAAACAAAAAT
* * *
14847742 ATAATTTTTATAATATTTAATTTAAACAAATAT
1 ATAATTTTTATAAAAATTAATTTAAACAAAAAT
14847775 ATA
1 ATA
14847778 TATAATATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.23
33 24 0.77
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (33 bp):
ATAATTTTTATAAAAATTAATTTAAACAAAAAT
Found at i:14847754 original size:17 final size:17
Alignment explanation
Indices: 14847709--14847754 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
14847699 AAAAAATGTA
14847709 ATAATTTTTCATAAAAAT
1 ATAATTTTT-ATAAAAAT
**
14847727 -T-ATTTAAATAAAAAT
1 ATAATTTTTATAAAAAT
14847742 ATAATTTTTATAA
1 ATAATTTTTATAA
14847755 TATTTAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 5
0.71 0.13 0.16
Matches are distributed among these distances:
15 8 0.36
16 5 0.23
17 9 0.41
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
ATAATTTTTATAAAAAT
Found at i:14847917 original size:20 final size:20
Alignment explanation
Indices: 14847883--14847931 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14847873 TGATCAAAAT
*
14847883 AAAAGAAAT-TAAAAT-TATA
1 AAAATAAATATAAAATAT-TA
*
14847902 AAACTAAATATAAAATATTA
1 AAAATAAATATAAAATATTA
14847922 AAAATAAATA
1 AAAATAAATA
14847932 ATAATTCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 7 0.28
20 17 0.68
21 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAATAAATATAAAATATTA
Found at i:14849134 original size:61 final size:62
Alignment explanation
Indices: 14849039--14849164 Score: 245
Period size: 61 Copynumber: 2.0 Consensus size: 62
14849029 CTAAAACCTA
14849039 AATCAGTTTAGGGTTTCCATTTGGGTCTGGGCCGGTTCTGGTTGGGTC-GGGATTTGAATGT
1 AATCAGTTTAGGGTTTCCATTTGGGTCTGGGCCGGTTCTGGTTGGGTCTGGGATTTGAATGT
14849100 AATCAGTTTAGGGTTTCCATTTGGGTCTGGGCCGGTTCTGGTTGGGTCTGGGATTTGAATGT
1 AATCAGTTTAGGGTTTCCATTTGGGTCTGGGCCGGTTCTGGTTGGGTCTGGGATTTGAATGT
14849162 AAT
1 AAT
14849165 TGGGCTGTGA
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
61 48 0.75
62 16 0.25
ACGTcount: A:0.14, C:0.13, G:0.35, T:0.38
Consensus pattern (62 bp):
AATCAGTTTAGGGTTTCCATTTGGGTCTGGGCCGGTTCTGGTTGGGTCTGGGATTTGAATGT
Found at i:14849212 original size:3 final size:3
Alignment explanation
Indices: 14849193--14849253 Score: 86
Period size: 3 Copynumber: 20.0 Consensus size: 3
14849183 TTGTAATATT
* **
14849193 TAA TAAA TAA TAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TTT
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
14849239 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
14849254 ATTTAAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:14849215 original size:12 final size:12
Alignment explanation
Indices: 14849186--14849249 Score: 71
Period size: 12 Copynumber: 5.4 Consensus size: 12
14849176 TTGGGCTTTG
14849186 TAATATTTAATAAA
1 TAATA-TTAAT-AA
14849200 TAATATTAATAA
1 TAATATTAATAA
14849212 T-A-A-TAATAA
1 TAATATTAATAA
*
14849221 TAATAATAATAA
1 TAATATTAATAA
*
14849233 TAATTTTAATAA
1 TAATATTAATAA
14849245 TAATA
1 TAATA
14849250 ATAAATTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
9 7 0.16
10 2 0.05
11 2 0.05
12 23 0.52
13 5 0.11
14 5 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAATATTAATAA
Found at i:14857031 original size:22 final size:23
Alignment explanation
Indices: 14857005--14857058 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
14856995 CCTCGTAGAT
*
14857005 CTCGTAG-TGCACTTGAAAATGC
1 CTCGTAGTTGCACTCGAAAATGC
*
14857027 CTCGTAGTATTGCACTCGAAAGTGC
1 CTCGTAG--TTGCACTCGAAAATGC
14857052 CTCGTAG
1 CTCGTAG
14857059 GATTGCACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 7 0.26
25 20 0.74
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (23 bp):
CTCGTAGTTGCACTCGAAAATGC
Found at i:14857047 original size:25 final size:25
Alignment explanation
Indices: 14857012--14857066 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
14857002 GATCTCGTAG
* *
14857012 TGCACTTGAAAATGCCTCGTAGTAT
1 TGCACTCGAAAATGCCTCGTAGGAT
*
14857037 TGCACTCGAAAGTGCCTCGTAGGAT
1 TGCACTCGAAAATGCCTCGTAGGAT
14857062 TGCAC
1 TGCAC
14857067 CATAGGTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.27
Consensus pattern (25 bp):
TGCACTCGAAAATGCCTCGTAGGAT
Found at i:14857167 original size:13 final size:13
Alignment explanation
Indices: 14857149--14857173 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14857139 CATTAGTCCA
14857149 CATAATCAATATT
1 CATAATCAATATT
14857162 CATAATCAATAT
1 CATAATCAATAT
14857174 GCAATAGGGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
CATAATCAATATT
Found at i:14857280 original size:14 final size:16
Alignment explanation
Indices: 14857247--14857283 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
14857237 TTCAATAAAG
14857247 TTCAAAATAAAAATCA
1 TTCAAAATAAAAATCA
*
14857263 TTCAAAAT-CAAA-CA
1 TTCAAAATAAAAATCA
14857277 TTCAAAA
1 TTCAAAA
14857284 CACAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 9 0.45
15 3 0.15
16 8 0.40
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.24
Consensus pattern (16 bp):
TTCAAAATAAAAATCA
Found at i:14859827 original size:22 final size:19
Alignment explanation
Indices: 14859781--14859857 Score: 77
Period size: 18 Copynumber: 3.8 Consensus size: 19
14859771 AGAATGCTCG
14859781 GATGGTACCGATACCCCCA
1 GATGGTACCGATACCCCCA
*
14859800 GA-GGTATCGATACCCCCA
1 GATGGTACCGATACCCCCA
14859818 TGCAATGGTACCGATACCCCCTCA
1 -G--ATGGTACCGATA-CCCC-CA
14859842 GGA-GGTACCGATACCC
1 -GATGGTACCGATACCC
14859858 TCAGGCATAT
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
18 15 0.31
19 3 0.06
20 3 0.06
21 11 0.22
22 10 0.20
23 4 0.08
24 3 0.06
ACGTcount: A:0.26, C:0.35, G:0.22, T:0.17
Consensus pattern (19 bp):
GATGGTACCGATACCCCCA
Found at i:14859848 original size:21 final size:20
Alignment explanation
Indices: 14859784--14859857 Score: 82
Period size: 22 Copynumber: 3.6 Consensus size: 20
14859774 ATGCTCGGAT
14859784 GGTACCGATA-CCCC-CAGA
1 GGTACCGATACCCCCTCAGA
*
14859802 GGTATCGATACCCCCATGCA-A
1 GGTACCGATACCCCC-T-CAGA
14859823 TGGTACCGATACCCCCTCAGGA
1 -GGTACCGATACCCCCTCA-GA
14859845 GGTACCGATACCC
1 GGTACCGATACCC
14859858 TCAGGCATAT
Statistics
Matches: 47, Mismatches: 2, Indels: 11
0.78 0.03 0.18
Matches are distributed among these distances:
18 9 0.19
19 4 0.09
20 2 0.04
21 15 0.32
22 17 0.36
ACGTcount: A:0.26, C:0.36, G:0.22, T:0.16
Consensus pattern (20 bp):
GGTACCGATACCCCCTCAGA
Found at i:14860097 original size:12 final size:12
Alignment explanation
Indices: 14860074--14860113 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 12
14860064 ATCATCAACA
14860074 AGAATC-AAGAG
1 AGAATCAAAGAG
14860085 AGAATCAAAGAGAG
1 AGAATC-AA-AGAG
14860099 AGAATCAAAGAG
1 AGAATCAAAGAG
14860111 AGA
1 AGA
14860114 GAATCAAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 6 0.23
12 7 0.27
13 3 0.12
14 10 0.38
ACGTcount: A:0.57, C:0.07, G:0.28, T:0.07
Consensus pattern (12 bp):
AGAATCAAAGAG
Found at i:14860100 original size:14 final size:14
Alignment explanation
Indices: 14860081--14860121 Score: 82
Period size: 14 Copynumber: 2.9 Consensus size: 14
14860071 ACAAGAATCA
14860081 AGAGAGAATCAAAG
1 AGAGAGAATCAAAG
14860095 AGAGAGAATCAAAG
1 AGAGAGAATCAAAG
14860109 AGAGAGAATCAAA
1 AGAGAGAATCAAA
14860122 CCTCAAGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.59, C:0.07, G:0.27, T:0.07
Consensus pattern (14 bp):
AGAGAGAATCAAAG
Found at i:14861796 original size:20 final size:21
Alignment explanation
Indices: 14861757--14861796 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14861747 TATGAGAAAT
*
14861757 TATTTTAAAATATAAAAATGA
1 TATTTCAAAATATAAAAATGA
*
14861778 TATTTCAAAAT-TGAAAATG
1 TATTTCAAAATATAAAAATG
14861797 TTAATAATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.38
Consensus pattern (21 bp):
TATTTCAAAATATAAAAATGA
Found at i:14864676 original size:38 final size:39
Alignment explanation
Indices: 14864634--14864707 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
14864624 AACTTATTCT
14864634 CCCTTGTCGGATGAGTT-TTCTCATTATGAACTCTCTCC
1 CCCTTGTCGGATGAGTTCTTCTCATTATGAACTCTCTCC
*
14864672 CCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTC
1 CCCTTGTCGGATGAGTTCTTCTCATTATGAACTCTC
14864708 CACTGGAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 16 0.47
39 18 0.53
ACGTcount: A:0.16, C:0.27, G:0.16, T:0.41
Consensus pattern (39 bp):
CCCTTGTCGGATGAGTTCTTCTCATTATGAACTCTCTCC
Found at i:14864806 original size:91 final size:92
Alignment explanation
Indices: 14864647--14864847 Score: 311
Period size: 91 Copynumber: 2.2 Consensus size: 92
14864637 TTGTCGGATG
*
14864647 AGTT-TTCTCATTATGAAC-TCTCTCCCCCTTGTTGGATGAGTTCTTCTCATTATGAACTCTCCA
1 AGTTCTTCTCATTATGAACTTCTCTCCCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCA
*
14864710 CTGGAAATGCTAG-GCCAAGGTTGAACA
66 CTGGAAAT-CTAGAACCAAGGTTGAACA
* *
14864737 AGTTCTTCTCATTATGAACTTCT-TCTCCCTCGTTGGATGAGTTCTTCTCGTTATGAACTCTCCA
1 AGTTCTTCTCATTATGAACTTCTCTCCCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCA
* *
14864801 CTGGAAATCTTGAACCAAGGTTGAATA
66 CTGGAAATCTAGAACCAAGGTTGAACA
14864828 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
14864848 CTCCACTGGA
Statistics
Matches: 102, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
90 7 0.07
91 92 0.90
92 3 0.03
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.37
Consensus pattern (92 bp):
AGTTCTTCTCATTATGAACTTCTCTCCCCCTCGTTGGATGAGTTCTTCTCATTATGAACTCTCCA
CTGGAAATCTAGAACCAAGGTTGAACA
Found at i:14864854 original size:52 final size:52
Alignment explanation
Indices: 14864776--14864899 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 52
14864766 TCGTTGGATG
* *
14864776 AGTTCTTCTCGTTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAATA
1 AGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACA
*
14864828 AGTTCTTCTCATTATGAACTCTCCACTGGAAATTTTGAACCAAGGTTGAACA
1 AGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACA
14864880 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
14864900 TCTGCTCCCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (52 bp):
AGTTCTTCTCATTATGAACTCTCCACTGGAAATCTTGAACCAAGGTTGAACA
Found at i:14864986 original size:88 final size:89
Alignment explanation
Indices: 14864828--14865044 Score: 337
Period size: 88 Copynumber: 2.4 Consensus size: 89
14864818 AGGTTGAATA
*
14864828 AGTTCTTCTCATTATGAACTCTCCACTGGAAATTTTGAACCAAGGTTGAACAAGTTCTTCTCATT
1 AGTTCTTCTCATTATGAA--CTCCACTGGAAATGTTGAACCAAGGTTGAACAAGTTCTTCTCATT
14864893 ATGAACTTCTGCTCCCTCGTTGGATG
64 ATGAACTTCTGCTCCCTCGTTGGATG
* *
14864919 AGTTCTTCTCATTATGAACTCCATTGGAAATGTTGAGCCAAGGTTG-ACAAGTTCTTCTCATTAT
1 AGTTCTTCTCATTATGAACTCCACTGGAAATGTTGAACCAAGGTTGAACAAGTTCTTCTCATTAT
* *
14864983 GAACTTCTTCTCTCTCGTTGGATG
66 GAACTTCTGCTCCCTCGTTGGATG
*
14865007 AGTTCTTCTCATTATGAACTCTCCACTGGCAATGTTGA
1 AGTTCTTCTCATTATGAA--CTCCACTGGAAATGTTGA
14865045 TCGGTTTATC
Statistics
Matches: 117, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
88 58 0.50
89 25 0.21
90 16 0.14
91 18 0.15
ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (89 bp):
AGTTCTTCTCATTATGAACTCCACTGGAAATGTTGAACCAAGGTTGAACAAGTTCTTCTCATTAT
GAACTTCTGCTCCCTCGTTGGATG
Found at i:14865515 original size:66 final size:66
Alignment explanation
Indices: 14865437--14865614 Score: 193
Period size: 66 Copynumber: 2.7 Consensus size: 66
14865427 GTTGTTGAGC
* * * *
14865437 TTCAAGAGAAACTGTCTCTAGGGAGA-TAAATTCAG-TTCAAGGGAAACGAT-CTCAAAGATCGG
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATT-AGTTTCAAGAGAAAC-ATACTCAAAGATCGG
14865499 TGT
64 TGT
* * * **
14865502 TTCAAGGGAAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACATATTCAAAGATTTGT
1 TTCAAGAG-AAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGAGAAACATACTCAAAGATCGGT
14865567 GT
65 GT
* * *
14865569 TTCAAGAGAAACTGTCTCAAGCGAGACAAACTT-GTTTCAAGGGAAA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGAGAAA
14865615 TTTTTTCAAG
Statistics
Matches: 96, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
65 19 0.20
66 42 0.44
67 35 0.36
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.25
Consensus pattern (66 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTTCAAGAGAAACATACTCAAAGATCGGTG
T
Found at i:14865660 original size:36 final size:36
Alignment explanation
Indices: 14865566--14865914 Score: 315
Period size: 36 Copynumber: 9.4 Consensus size: 36
14865556 CAAAGATTTG
* * *
14865566 TGTTTCAAGAGAAACTGTCTCAAGCGAGAC-AAACT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
14865601 TGTTTCAAGGGAAATTTTTTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
14865637 TGGTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
14865673 TGTTCCAATGGAAACCGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
14865709 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
* * *
14865745 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-T
* * * * * **
14865782 TCAGTTTCGAGGAAAACTATCTCAAGCGATACAATTCTTT
1 T--GTTTCAAGGGAAACTGTCTCAAGAGAGACAA--AATT
* * * *
14865822 TGTTTCGAGGGAAACTATCTCAAGCGAGAGATAAATCTTT
1 TGTTTCAAGGGAAACTGTCTCAA--GAGAGACAAA--ATT
* * * * *
14865862 TGTTTCAAGGGAAACTATCTC-AGCGATATAAATCTCT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA-AT-T
14865899 TGTTTCAAGGGAAACT
1 TGTTTCAAGGGAAACT
14865915 ACCTCAAACG
Statistics
Matches: 265, Mismatches: 38, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
35 25 0.09
36 132 0.50
37 27 0.10
38 21 0.08
39 28 0.11
40 31 0.12
41 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:14865833 original size:77 final size:75
Alignment explanation
Indices: 14865566--14866005 Score: 320
Period size: 77 Copynumber: 5.9 Consensus size: 75
14865556 CAAAGATTTG
* * * * * *
14865566 TGTTTCAAGAGAAACTGTCTCAAGCGAGACAAA-C--TTGTTTCAAGGGAAATTTTTTCAAGAGA
1 TGTTTCAAG-GAAACTATCTCAAGCGATA-AAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGA
*
14865628 GACAAAA--TT-
64 GATAAAATCTTC
* * * * * * * ** *
14865637 TGGTTCAAGGGAAACTGTCTCAAGAGAGACAAA--ATTTGTTCCAATGGAAACCGTCTCAAGAGA
1 TGTTTCAA-GGAAACTATCTCAAGCGATA-AAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGA
*
14865700 GACAAAA--TT-
64 GATAAAATCTTC
* * * * *
14865709 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAA--ATTTGTTTCAAGGGAAACTATCTCAAGCGA
1 TGTTTCAA-GGAAACTATCTCAAGCGATA-AAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGA
14865772 GATAAAATCTTC
64 GATAAAATCTTC
* * * *
14865784 AGTTTCGAGGAAAACTATCTCAAGCGATACAATTCTTTTGTTTCGAGGGAAACTATCTCAAGCGA
1 TGTTTCAAGG-AAACTATCTCAAGCGATA-AAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGA
* *
14865849 GAGATAAATCTTT
64 GATA-AAATCTTC
* * *
14865862 TGTTTCAAGGGAAACTATCTC-AGCGATATAAATCTCTTGTTTCAAGGGAAACTACCTCAAACGA
1 TGTTTCAA-GGAAACTATCTCAAGCGATA-AAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGA
14865926 GATAAAAATCTTC
64 GAT-AAAATCTTC
* * * *
14865939 TGTTTCAAGTGAAACTATC-AAAG-GATAAAATC-TCTGTTTCGAGTGAAACTATCTCAAGCGAG
1 TGTTTCAAG-GAAACTATCTCAAGCGATAAAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAG
14866001 ATAAA
65 ATAAA
14866006 TTTCTTTAAA
Statistics
Matches: 311, Mismatches: 44, Indels: 26
0.82 0.12 0.07
Matches are distributed among these distances:
71 29 0.09
72 94 0.30
73 3 0.01
74 30 0.10
75 28 0.09
76 5 0.02
77 96 0.31
78 24 0.08
79 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (75 bp):
TGTTTCAAGGAAACTATCTCAAGCGATAAAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAGA
TAAAATCTTC
Found at i:14865943 original size:117 final size:113
Alignment explanation
Indices: 14865601--14866005 Score: 345
Period size: 108 Copynumber: 3.6 Consensus size: 113
14865591 GAGACAAACT
* * * * * *
14865601 TGTTTCAAGGGAAATTTTTTCAAGAGAGACAAAATTTGGTTCAAGGGAAACTGTCTCAAGAGAGA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
* * * *
14865666 CAAAAT-TT--GTTCCAATGGAAACCGT--CTCAAGAGAGACAAAA--TT-
66 TAAAATCTTCAGTTTCAA-GGAAAAC-TACCTCAAGAGATA-AAAATCTTC
* *
14865709 TATTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
* * * * * *
14865774 TAAAATCTTCAGTTTCGAGGAAAACTATCTCAAGCGATACAATTCTTT
66 TAAAATCTTCAGTTTCAAGGAAAACTACCTCAAGAGATAAAAATCTTC
* * *
14865822 TGTTTCGAGGGAAACTATCTCAAGCGAGAGATAAATCTTTTGTTTCAAGGGAAACTATCTC-AGC
1 TGTTTCAAGGGAAACTATCTCAA--GAGAGACAAA--ATTTGTTTCAAGGGAAACTATCTCAAGC
* * *
14865886 GATAT-AAATC-TCTTGTTTCAAGGGAAACTACCTCAAACGAGATAAAAATCTTC
62 GAGATAAAATCTTC-AGTTTCAAGGAAAACTACCTC-AA-GAGATAAAAATCTTC
* * * *
14865939 TGTTTCAAGTGAAACTA--TCAA-AG-GATAAAATCTCTGTTTCGAGTGAAACTATCTCAAGCGA
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT-T-TGTTTCAAGGGAAACTATCTCAAGCGA
14866000 GATAAA
64 GATAAA
14866006 TTTCTTTAAA
Statistics
Matches: 243, Mismatches: 35, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
108 63 0.26
109 4 0.02
110 9 0.04
111 39 0.16
112 11 0.05
113 22 0.09
114 2 0.01
115 35 0.14
116 9 0.04
117 49 0.20
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (113 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTATCTCAAGCGAGA
TAAAATCTTCAGTTTCAAGGAAAACTACCTCAAGAGATAAAAATCTTC
Found at i:14865977 original size:34 final size:35
Alignment explanation
Indices: 14865711--14865991 Score: 165
Period size: 40 Copynumber: 7.5 Consensus size: 35
14865701 ACAAAATTTA
* *
14865711 TTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT-T-TG
1 TTTCAAGGGAAAC--TATCAA-AGAGATAAAATCTCTG
* *
14865747 TTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTCAG
1 TTTCAAGGGAAACTA--TCAA-AGAGATAAAATC-TCTG
* * * * * *
14865786 TTTCGAGGAAAACTATCTCAAGCGATACAATTCTTTTG
1 TTTCAAGGGAAACTATC-AAAGAGATA-AAATC-TCTG
* *
14865824 TTTCGAGGGAAACTATCTCAAGCGAGAGAT-AAATCTTTTG
1 TTTCAAGGGAAACTA--TCAA---AGAGATAAAATC-TCTG
** *
14865864 TTTCAAGGGAAACTATCTCAGCGATATAAATCTCTTG
1 TTTCAAGGGAAACTATCAAAGAGATA-AAATCTC-TG
14865901 TTTCAAGGGAAACTACCTCAAACGAGATAAAAATCTTCTG
1 TTTCAAGGGAAACTA--TCAAA-GAGAT-AAAATC-TCTG
*
14865941 TTTCAAGTGAAACTATCAAAG-GATAAAATCTCTG
1 TTTCAAGGGAAACTATCAAAGAGATAAAATCTCTG
* *
14865975 TTTCGAGTGAAACTATC
1 TTTCAAGGGAAACTATC
14865992 TCAAGCGAGA
Statistics
Matches: 199, Mismatches: 26, Indels: 42
0.75 0.10 0.16
Matches are distributed among these distances:
34 21 0.11
35 11 0.06
36 31 0.16
37 30 0.15
38 30 0.15
39 18 0.09
40 50 0.25
41 3 0.02
42 5 0.03
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (35 bp):
TTTCAAGGGAAACTATCAAAGAGATAAAATCTCTG
Found at i:14867809 original size:142 final size:143
Alignment explanation
Indices: 14867551--14867837 Score: 526
Period size: 142 Copynumber: 2.0 Consensus size: 143
14867541 TCTGATTCTT
14867551 AAAAGAGCTTTTAATCCAGTGGATATTTAAAGAGTTTCGAGTCTGAAAATTATTCTTTTCTATAA
1 AAAAGAGCTTTTAATCCAGTGGATATTTAAAGAGTTTCGAGTCTGAAAA-TATTCTTTTCTATAA
14867616 CTCATAAGGTAGCATTTACTTAAAATGTTCGATTGTCAAGTGACTTACAAACTTTTTCACTAAAA
65 CTCATAAGGTAGCATTTACTTAAAATGTTCGATTGTCAAGTGACTTACAAACTTTTTCACTAAAA
14867681 GAGAAAGAAAAGAA
130 GAGAAAGAAAAGAA
14867695 AAAAGAGCTTTTAATCCAGTGGATATTTAAAGAG-TTCGAGTCTG-AAA-ATTCTTTTCTCATAA
1 AAAAGAGCTTTTAATCCAGTGGATATTTAAAGAGTTTCGAGTCTGAAAATATTCTTTTCT-ATAA
14867757 CCTCATAAGGTAGCATTTACTTAAAATGTTCGATTGTCAAGTGACTTACAAACTTTTTCACTAAA
65 -CTCATAAGGTAGCATTTACTTAAAATGTTCGATTGTCAAGTGACTTACAAACTTTTTCACTAAA
14867822 AGAGAAAGAAAAGAA
129 AGAGAAAGAAAAGAA
14867837 A
1 A
14867838 TTCAAACAAG
Statistics
Matches: 141, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
140 10 0.07
141 4 0.03
142 83 0.59
143 10 0.07
144 34 0.24
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (143 bp):
AAAAGAGCTTTTAATCCAGTGGATATTTAAAGAGTTTCGAGTCTGAAAATATTCTTTTCTATAAC
TCATAAGGTAGCATTTACTTAAAATGTTCGATTGTCAAGTGACTTACAAACTTTTTCACTAAAAG
AGAAAGAAAAGAA
Found at i:14870220 original size:69 final size:67
Alignment explanation
Indices: 14870107--14870243 Score: 256
Period size: 69 Copynumber: 2.0 Consensus size: 67
14870097 AGACTTGCGA
14870107 ATCGAGTTCGGCTCAGGGGATACACACTAAAATCGTACCTCAGATTCGATATCCGGATAGGCAAC
1 ATCGAGTTCGGCTCAGGGGATACACACTAAAATCGTACCTCAGATTCGATATCCGGATAGGCAAC
14870172 TT
66 TT
14870174 ATCGAGTTCGGCTCAGGGGATCACACCACTAAAATCGTACCTCAGATTCGATATCCGGATAGGCA
1 ATCGAGTTCGGCTCAGGGGAT-ACA-CACTAAAATCGTACCTCAGATTCGATATCCGGATAGGCA
14870239 ACTT
64 ACTT
14870243 A
1 A
14870244 GGGTGCTTTC
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
67 21 0.31
68 3 0.04
69 44 0.65
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (67 bp):
ATCGAGTTCGGCTCAGGGGATACACACTAAAATCGTACCTCAGATTCGATATCCGGATAGGCAAC
TT
Found at i:14876253 original size:23 final size:22
Alignment explanation
Indices: 14876226--14876327 Score: 97
Period size: 23 Copynumber: 4.7 Consensus size: 22
14876216 TCCTTATTAC
14876226 TGGTATCGATACCCCCTTTGAA
1 TGGTATCGATACCCCCTTTGAA
*
14876248 TAGGTATCGATA-CCCCTAT-AA
1 T-GGTATCGATACCCCCTTTGAA
**
14876269 TAGGTATCGATACCAACTTTGAA
1 T-GGTATCGATACCCCCTTTGAA
*
14876292 TGAGTATCGATACACTCC--TG-A
1 TG-GTATCGATAC-CCCCTTTGAA
14876313 TGGTATCGATACCCC
1 TGGTATCGATACCCC
14876328 ATGTCGGGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
19 2 0.03
20 10 0.15
21 17 0.25
22 14 0.21
23 23 0.34
24 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (22 bp):
TGGTATCGATACCCCCTTTGAA
Found at i:14880275 original size:32 final size:32
Alignment explanation
Indices: 14880229--14880446 Score: 273
Period size: 32 Copynumber: 6.9 Consensus size: 32
14880219 AAGAGTCAAG
* **
14880229 GATTACCTACGTCTTTCAAGACATATGGACAT
1 GATTACCTATGTCTTTCGGGACATATGGACAT
* *
14880261 GATTACCTATGTCTTTCGGGACATAGGGACAA
1 GATTACCTATGTCTTTCGGGACATATGGACAT
* *
14880293 GATTACCTATATCTTTCGTGACATATGGACAT
1 GATTACCTATGTCTTTCGGGACATATGGACAT
* *
14880325 GATTATCTATGTCTTTCGGAACATATGGACAT
1 GATTACCTATGTCTTTCGGGACATATGGACAT
*
14880357 GATTACCTATGTCTTT-GGGACATATGGACAG
1 GATTACCTATGTCTTTCGGGACATATGGACAT
* * *
14880388 GATTACCTATGTCTTTTGAGACTTATGGACA-
1 GATTACCTATGTCTTTCGGGACATATGGACAT
*
14880419 G-TTACCTATGTTCTTT-GGAACATATGGA
1 GATTACCTATG-TCTTTCGGGACATATGGA
14880447 TAGGTTCTTC
Statistics
Matches: 163, Mismatches: 21, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
30 18 0.11
31 35 0.21
32 110 0.67
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (32 bp):
GATTACCTATGTCTTTCGGGACATATGGACAT
Found at i:14888435 original size:18 final size:18
Alignment explanation
Indices: 14888418--14888451 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14888408 TATTTGAATA
*
14888418 ATTT-AATCGAATATAAT
1 ATTTGAATCAAATATAAT
14888435 ATTTGAATCAAATATAA
1 ATTTGAATCAAATATAA
14888452 AATCTTAAAA
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:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
ATTTGAATCAAATATAAT
Found at i:14889964 original size:29 final size:29
Alignment explanation
Indices: 14889902--14889965 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
14889892 CTTTTGAAAT
* * * *
14889902 TTTACATTTTTGTCCTTAAACTTTTACAA
1 TTTACACTTTAGTCCTTAAACTTTAAAAA
* *
14889931 CTTACACTTTAGTCTTTAAACTTTAAAAA
1 TTTACACTTTAGTCCTTAAACTTTAAAAA
14889960 TTTACA
1 TTTACA
14889966 TTCCAATCAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.33, C:0.17, G:0.03, T:0.47
Consensus pattern (29 bp):
TTTACACTTTAGTCCTTAAACTTTAAAAA
Found at i:14895462 original size:25 final size:25
Alignment explanation
Indices: 14895428--14895483 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
14895418 GATATCGTAG
* *
14895428 TGCACTCGAAAGTGCCTCGTAGTAT
1 TGCACCCGAAAGTGCCTCGTAGGAT
14895453 TGCACCCGAAAGTGCCTCGTAGGAT
1 TGCACCCGAAAGTGCCTCGTAGGAT
14895478 TGCACC
1 TGCACC
14895484 ATAGGTGCCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.23, C:0.29, G:0.25, T:0.23
Consensus pattern (25 bp):
TGCACCCGAAAGTGCCTCGTAGGAT
Found at i:14897499 original size:29 final size:30
Alignment explanation
Indices: 14897432--14897501 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
14897422 TTAACTTTTG
* *
14897432 AAAATTTACATTTTTAGTCCTAAAACTTTT
1 AAAATTTACATCTTTAGTCCTAAAACTTTA
* *
14897462 ATAACTTACA-CTTTAGTCTCT-AAACTTTA
1 AAAATTTACATCTTTAGTC-CTAAAACTTTA
14897491 AAAATTTACAT
1 AAAATTTACAT
14897502 TCCAGTCACC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.39, C:0.16, G:0.03, T:0.43
Consensus pattern (30 bp):
AAAATTTACATCTTTAGTCCTAAAACTTTA
Found at i:14898527 original size:21 final size:21
Alignment explanation
Indices: 14898474--14898528 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
14898464 CTCTACTTGT
* *
14898474 AGTATCGATACACTAGGGTCC
1 AGTATTGATACCCTAGGGTCC
14898495 AGTATTGATACCCTAGGGTCC
1 AGTATTGATACCCTAGGGTCC
14898516 AGTATTGATACCC
1 AGTATTGATACCC
14898529 CTTATGAGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (21 bp):
AGTATTGATACCCTAGGGTCC
Found at i:14899374 original size:20 final size:20
Alignment explanation
Indices: 14899349--14899407 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
14899339 CATGGTAAGA
*
14899349 AAGTTTTGCCAAGAGTGTTC
1 AAGTTTTGCCAAGAGCGTTC
*
14899369 AAGTTTTGCCACGAGCGTTC
1 AAGTTTTGCCAAGAGCGTTC
* *
14899389 AAGTTTTTCCACGAGCGTT
1 AAGTTTTGCCAAGAGCGTT
14899408 TCACGAAGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (20 bp):
AAGTTTTGCCAAGAGCGTTC
Found at i:14899794 original size:130 final size:127
Alignment explanation
Indices: 14899607--14899851 Score: 330
Period size: 130 Copynumber: 1.9 Consensus size: 127
14899597 TGCCTAAAGA
* *
14899607 AAAAAAAGAGAAAAGAAAAAAATAAAAATAAAAATAAAAGGGGGTTAAAGATGAAAATCTATAAA
1 AAAAAAAGAAAAAAGAAAAAAATAAAAATAAAAATAAAAGGGGGTTAAAGATAAAAATCTATAAA
* * * * *
14899672 TGGCGTCTTGAAACCAAATGATGTCTTAATTTAAAAACCCGAAAGGGACGTATTTTGCCTGG
66 AGGCGTCTTGAAACCAAATGAGGTCTCAAGTTAAAAACCCAAAAGGGACGTATTTTGCCTGG
* * *
14899734 AAAAAATGAAAAAAGAGAAAAAATGTAAAAATAAAAATAAAATGGGGTTTAAA-ATAAAAATCTG
1 AAAAAAAGAAAAAAGA-AAAAAA--TAAAAATAAAAATAAAA-GGGGGTTAAAGATAAAAATCTA
* * *
14899798 TAAAAGGTGTCTTGAAACCAAATGAGGTCTCAAGTTGAAAACCCAAAATGGACG
62 TAAAAGGCGTCTTGAAACCAAATGAGGTCTCAAGTTAAAAACCCAAAAGGGACG
14899852 ACTTGAGTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
127 14 0.14
128 6 0.06
130 72 0.71
131 9 0.09
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.20
Consensus pattern (127 bp):
AAAAAAAGAAAAAAGAAAAAAATAAAAATAAAAATAAAAGGGGGTTAAAGATAAAAATCTATAAA
AGGCGTCTTGAAACCAAATGAGGTCTCAAGTTAAAAACCCAAAAGGGACGTATTTTGCCTGG
Done.