Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 84 of 345
Found at i:23049009 original size:20 final size:20
Alignment explanation
Indices: 23048971--23049009 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23048961 CTTTGATAAA
* *
23048971 AATTAATTGTTAATATTATT
1 AATTAATTATAAATATTATT
*
23048991 AATTAATTATAAATTTTAT
1 AATTAATTATAAATATTAT
23049010 CAAATCAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTAATTATAAATATTATT
Found at i:23049443 original size:6 final size:6
Alignment explanation
Indices: 23049432--23049485 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
23049422 ATTCATTATC
* *
23049432 AAATAA AAATAA AAATAA AAATATA GAATCAA AACT-A AAATAA ATAATAA
1 AAATAA AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA A-AATAA
23049482 AAAT
1 AAAT
23049486 TAGATTAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 22 0.55
7 13 0.32
8 1 0.03
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:23049509 original size:31 final size:31
Alignment explanation
Indices: 23049432--23049509 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 31
23049422 ATTCATTATC
23049432 AAATAAAAATAAA-AATAAAAATATAGAATCA
1 AAAT-AAAATAAATAATAAAAATATAGAATCA
*
23049463 AAACTAAAATAAATAATAAAAAT-TAG-ATTA
1 AAA-TAAAATAAATAATAAAAATATAGAATCA
23049493 AATATAAATATAAATAA
1 AA-ATAAA-ATAAATAA
23049510 AATACAGCAA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 9 0.21
31 23 0.55
32 10 0.24
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.24
Consensus pattern (31 bp):
AAATAAAATAAATAATAAAAATATAGAATCA
Found at i:23054428 original size:14 final size:14
Alignment explanation
Indices: 23054404--23054455 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
23054394 GTAAAACAAA
*
23054404 AAACCACAAACTCT
1 AAACCAAAAACTCT
* * *
23054418 AAATCATAAACCCT
1 AAACCAAAAACTCT
23054432 AAACCAAAAACTCT
1 AAACCAAAAACTCT
23054446 AAACCAAAAA
1 AAACCAAAAA
23054456 TAATAAACAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.58, C:0.29, G:0.00, T:0.13
Consensus pattern (14 bp):
AAACCAAAAACTCT
Found at i:23054462 original size:28 final size:28
Alignment explanation
Indices: 23054396--23054463 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
23054386 TCCTAACTGT
* * *
23054396 AAAACAAAAAACCACAAACTCTAAATCA
1 AAAACAATAAACCAAAAACTCTAAACCA
* **
23054424 TAAACCCTAAACCAAAAACTCTAAACCA
1 AAAACAATAAACCAAAAACTCTAAACCA
*
23054452 AAAATAATAAAC
1 AAAACAATAAAC
23054464 ATTATATCAT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.13
Consensus pattern (28 bp):
AAAACAATAAACCAAAAACTCTAAACCA
Found at i:23054493 original size:43 final size:42
Alignment explanation
Indices: 23054431--23054560 Score: 116
Period size: 43 Copynumber: 3.0 Consensus size: 42
23054421 TCATAAACCC
* *
23054431 TAAACCAAAAACTCTAAACCAAAAATAATAAACATTATATCA
1 TAAACCATAAACCCTAAACCAAAAATAATAAACATTATATCA
* *** * * * * *
23054473 TAAACCCTAAACCCTTAAACCATGGACATTAAACCTTAAATCT
1 TAAACCATAAACCC-TAAACCAAAAATAATAAACATTATATCA
* * *
23054516 TAAATCATAAATCCTAAACCCCAAAATAATAAACATTATATCA
1 TAAACCATAAACCCTAAA-CCAAAAATAATAAACATTATATCA
23054559 TA
1 TA
23054561 GCCTCTATCC
Statistics
Matches: 63, Mismatches: 23, Indels: 3
0.71 0.26 0.03
Matches are distributed among these distances:
42 15 0.24
43 48 0.76
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.25
Consensus pattern (42 bp):
TAAACCATAAACCCTAAACCAAAAATAATAAACATTATATCA
Found at i:23055290 original size:41 final size:41
Alignment explanation
Indices: 23055230--23055386 Score: 233
Period size: 41 Copynumber: 3.8 Consensus size: 41
23055220 AAACCTCGAT
* * *
23055230 AAACGCCACTATTGTTCAGTTTTTAGCGGTGCTTGGACCAA
1 AAACGCCGCTATTGCTCAGTTTTTAGCGGTGTTTGGACCAA
*
23055271 AAACGCCGCTATTGCTCAGTTTTTAACGGTGTTTGGACCAA
1 AAACGCCGCTATTGCTCAGTTTTTAGCGGTGTTTGGACCAA
23055312 AAACGCCGCTATTGCTCAGTTTTTAGCGGTGTTTGGACCAA
1 AAACGCCGCTATTGCTCAGTTTTTAGCGGTGTTTGGACCAA
* * * * *
23055353 AAACGCTGATATTGCTTAGTTTTTTGCGGCGTTT
1 AAACGCCGCTATTGCTCAGTTTTTAGCGGTGTTT
23055387 TATTGCAAAC
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 106 1.00
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (41 bp):
AAACGCCGCTATTGCTCAGTTTTTAGCGGTGTTTGGACCAA
Found at i:23061244 original size:59 final size:62
Alignment explanation
Indices: 23061131--23061249 Score: 190
Period size: 59 Copynumber: 2.0 Consensus size: 62
23061121 GGATTTCCAA
*
23061131 TTTGCTTTGTTTTGTTTTGTCTTTTTGGAACTTTTTTATATCCGTTTCACGGTCTATATTGT
1 TTTGCTTTGTTTTGTTTTGTCTTTTTGGAACTTCTTTATATCCGTTTCACGGTCTATATTGT
* *
23061193 TTTG-TTT-TTTTTTTTTGTCTTTTTGGAAC-TCTTTATATCCGTTTCATGGTCTATATT
1 TTTGCTTTGTTTTGTTTTGTCTTTTTGGAACTTCTTTATATCCGTTTCACGGTCTATATT
23061250 CGGGGTTTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
59 26 0.48
60 21 0.39
61 3 0.06
62 4 0.07
ACGTcount: A:0.12, C:0.13, G:0.14, T:0.61
Consensus pattern (62 bp):
TTTGCTTTGTTTTGTTTTGTCTTTTTGGAACTTCTTTATATCCGTTTCACGGTCTATATTGT
Found at i:23061479 original size:2 final size:2
Alignment explanation
Indices: 23061472--23061508 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
23061462 CACTGAGCAC
23061472 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23061509 TTATGTGGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:23068018 original size:2 final size:2
Alignment explanation
Indices: 23068011--23068037 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23068001 CAGTTTGAAT
23068011 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
23068038 TAATTAACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23072568 original size:23 final size:24
Alignment explanation
Indices: 23072541--23072593 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 24
23072531 TTATCAATTC
* *
23072541 AAATATTATAA-TAGAATATTTTT
1 AAATATTATAATTAAAACATTTTT
23072564 AAATA--ATAATTAAAACATTTTT
1 AAATATTATAATTAAAACATTTTT
23072586 AACATATT
1 AA-ATATT
23072594 CAAGGGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 4 0.17
22 12 0.50
23 8 0.33
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATTATAATTAAAACATTTTT
Found at i:23075890 original size:25 final size:24
Alignment explanation
Indices: 23075862--23075922 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
23075852 TTTAAGTATC
23075862 AAATTAGAAAAAAAACTTAAATACA
1 AAATTAGAAAAAAAA-TTAAATACA
* * *
23075887 AAATTGGTTAAAAAAATTAAATACC
1 AAATTAG-AAAAAAAATTAAATACA
23075912 AAATTA-AAAAA
1 AAATTAGAAAAA
23075923 GAGGGTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
23 4 0.13
25 19 0.63
26 7 0.23
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.23
Consensus pattern (24 bp):
AAATTAGAAAAAAAATTAAATACA
Found at i:23079355 original size:11 final size:10
Alignment explanation
Indices: 23079341--23079405 Score: 58
Period size: 12 Copynumber: 5.9 Consensus size: 10
23079331 TAATATAACC
23079341 AATATATAGTT
1 AATATATA-TT
*
23079352 AATATAATCTT
1 AATAT-ATATT
*
23079363 AATATATATA
1 AATATATATT
23079373 AATATATATAT
1 AATATATAT-T
23079384 ATATATATATAT
1 A-ATATATAT-T
23079396 ATATATATAT
1 A-ATATATAT
23079406 ATATGTAAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
10 12 0.26
11 13 0.28
12 22 0.47
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (10 bp):
AATATATATT
Found at i:23079371 original size:2 final size:2
Alignment explanation
Indices: 23079364--23079409 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
23079354 TATAATCTTA
*
23079364 AT AT AT AT AA 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 AT AT
23079406 AT AT
1 AT AT
23079410 GTAAGACATC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23081344 original size:35 final size:35
Alignment explanation
Indices: 23081295--23081432 Score: 168
Period size: 35 Copynumber: 3.9 Consensus size: 35
23081285 GACGTATCAT
* *
23081295 CCATACTGATTTGTGAAACGTAGGTATGGTAATAA
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
*
23081330 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* ** ** **
23081365 CCATATTGAGTTAAGAAACGTAGGTATGACATTTC
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
* *
23081400 CCATACCGAGTTGTGAAATGTAGGTATGGTATT
1 CCATACTGAGTTGTGAAACGTAGGTATGGTATT
23081433 TCAATAAGAA
Statistics
Matches: 86, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 86 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (35 bp):
CCATACTGAGTTGTGAAACGTAGGTATGGTATTAA
Found at i:23082638 original size:40 final size:40
Alignment explanation
Indices: 23082583--23082662 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
23082573 AGGAATGTCG
* *
23082583 TGCAAGATTTTCAAAGAATGGATTTAACTAACTTGCCTCA
1 TGCAAGATTTTCAAAGAATAGATTCAACTAACTTGCCTCA
23082623 TGCAAGATTTTCAAAGAATAGATTCAACTAACTTGCCTCA
1 TGCAAGATTTTCAAAGAATAGATTCAACTAACTTGCCTCA
23082663 AAATTATTCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (40 bp):
TGCAAGATTTTCAAAGAATAGATTCAACTAACTTGCCTCA
Found at i:23087011 original size:17 final size:17
Alignment explanation
Indices: 23086989--23087032 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
23086979 AATCAAAACA
23086989 CGTTGAGCAAAAAGTAG
1 CGTTGAGCAAAAAGTAG
23087006 CGTTGAGCAAAAAGTAG
1 CGTTGAGCAAAAAGTAG
23087023 CGTTGAGCAA
1 CGTTGAGCAA
23087033 GAAAAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.30, T:0.18
Consensus pattern (17 bp):
CGTTGAGCAAAAAGTAG
Found at i:23087171 original size:9 final size:9
Alignment explanation
Indices: 23087157--23087190 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
23087147 AATTTTAAAA
23087157 AAATTACAT
1 AAATTACAT
23087166 AAATTACAT
1 AAATTACAT
*
23087175 AAATTAAAT
1 AAATTACAT
23087184 ATAATTA
1 A-AATTA
23087191 ATTATTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTACAT
Found at i:23087972 original size:27 final size:27
Alignment explanation
Indices: 23087930--23087996 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 27
23087920 ATTATAAAAT
23087930 AAATAGAAAAAATAGAAAAAGG-ATAAA
1 AAATA-AAAAAATAGAAAAAGGAATAAA
*
23087957 CAAATAAAAAAGTAGAAAAAGGAAATAAA
1 -AAATAAAAAAATAGAAAAAGG-AATAAA
23087986 AAATAAAAAAA
1 AAATAAAAAAA
23087997 AGCATAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 15 0.43
28 15 0.43
29 5 0.14
ACGTcount: A:0.76, C:0.01, G:0.12, T:0.10
Consensus pattern (27 bp):
AAATAAAAAAATAGAAAAAGGAATAAA
Found at i:23087998 original size:21 final size:21
Alignment explanation
Indices: 23087958--23087996 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23087948 AAGGATAAAC
*
23087958 AAATAAAAAAGTAGAAAAAGG
1 AAATAAAAAAGTAAAAAAAGG
23087979 AAATAAAAAA-TAAAAAAA
1 AAATAAAAAAGTAAAAAAA
23087997 AGCATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.79, C:0.00, G:0.10, T:0.10
Consensus pattern (21 bp):
AAATAAAAAAGTAAAAAAAGG
Found at i:23089251 original size:16 final size:16
Alignment explanation
Indices: 23089230--23089260 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23089220 AATTTAATTT
*
23089230 TATAAAGTAATTTTCC
1 TATAAAGTAAGTTTCC
23089246 TATAAAGTAAGTTTC
1 TATAAAGTAAGTTTC
23089261 TTTTATAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (16 bp):
TATAAAGTAAGTTTCC
Found at i:23089328 original size:17 final size:19
Alignment explanation
Indices: 23089301--23089340 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
23089291 TAAATTTAAT
23089301 TTAACAATAA-TGTGAATA
1 TTAACAATAATTGTGAATA
*
23089319 TTAA-AATAATTGTGCATA
1 TTAACAATAATTGTGAATA
23089337 TTAA
1 TTAA
23089341 TTTAATTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (19 bp):
TTAACAATAATTGTGAATA
Found at i:23089346 original size:18 final size:18
Alignment explanation
Indices: 23089311--23089364 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
23089301 TTAACAATAA
* **
23089311 TGTGAATATTAAAATAAT
1 TGTGCATATTAATTTAAT
23089329 TGTGCATATTAATTTAAT
1 TGTGCATATTAATTTAAT
* *
23089347 TATGCTTATTAAATTTAA
1 TGTGCATATT-AATTTAA
23089365 ATTAATTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 23 0.77
19 7 0.23
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (18 bp):
TGTGCATATTAATTTAAT
Found at i:23090763 original size:23 final size:23
Alignment explanation
Indices: 23090674--23090763 Score: 123
Period size: 23 Copynumber: 4.0 Consensus size: 23
23090664 ACCTGATCAG
23090674 TATACGACACAT-AAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
** *
23090696 -A-ACGACACACGAGGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
*
23090717 AATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
23090740 TATACGACACATAAAGTGCCTGA
1 TATACGACACATAAAGTGCCTGA
23090763 T
1 T
23090764 CGGCAAAGCC
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
20 8 0.14
21 10 0.17
22 1 0.02
23 40 0.68
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (23 bp):
TATACGACACATAAAGTGCCTGA
Found at i:23091495 original size:18 final size:18
Alignment explanation
Indices: 23091443--23091500 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
23091433 TTCTTCTATC
*
23091443 TTTATTTAAATTAAATTT
1 TTTAATTAAATTAAATTT
* **
23091461 ATTCCTTAATATT-AATTT
1 TTTAATTAA-ATTAAATTT
*
23091479 TTTAATTAAATTAAATTG
1 TTTAATTAAATTAAATTT
23091497 TTTA
1 TTTA
23091501 TTTTTTAAAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
17 3 0.10
18 25 0.81
19 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTAATTAAATTAAATTT
Found at i:23091511 original size:17 final size:18
Alignment explanation
Indices: 23091491--23091527 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
23091481 TAATTAAATT
23091491 AAATTGTTTATTT-TTTA
1 AAATTGTTTATTTCTTTA
*
23091508 AAATTTTTTATTTCTTTA
1 AAATTGTTTATTTCTTTA
23091526 AA
1 AA
23091528 TATTTCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (18 bp):
AAATTGTTTATTTCTTTA
Found at i:23091552 original size:17 final size:17
Alignment explanation
Indices: 23091530--23091566 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
23091520 TCTTTAAATA
*
23091530 TTTCTTTATTTAGCTTT
1 TTTCTTTAATTAGCTTT
*
23091547 TTTCTTTAATTATCTTT
1 TTTCTTTAATTAGCTTT
23091564 TTT
1 TTT
23091567 AATTAAATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTCTTTAATTAGCTTT
Found at i:23091600 original size:20 final size:21
Alignment explanation
Indices: 23091570--23091609 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
23091560 CTTTTTTAAT
*
23091570 TAAATTCTATTCTTTTAAATG
1 TAAATTCTATTCATTTAAATG
23091591 TAAATT-TATTCATTTAAAT
1 TAAATTCTATTCATTTAAAT
23091610 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TAAATTCTATTCATTTAAATG
Found at i:23092089 original size:23 final size:23
Alignment explanation
Indices: 23092063--23092106 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23092053 ATCATTTTGA
23092063 TAAAATAAT-TATTTATATTATCT
1 TAAAA-AATATATTTATATTATCT
*
23092086 TAAAAAATATATTTATTTTAT
1 TAAAAAATATATTTATATTAT
23092107 TTTGGTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TAAAAAATATATTTATATTATCT
Found at i:23097798 original size:12 final size:11
Alignment explanation
Indices: 23097765--23097811 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
23097755 ACAAATTGTA
23097765 TATATATTATTTT
1 TATATATTA--TT
23097778 TATATATTATT
1 TATATATTATT
23097789 TATCATATTATT
1 TAT-ATATTATT
23097801 TATATTATTAT
1 TATA-TATTAT
23097812 ACATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATATTATT
Found at i:23097806 original size:21 final size:20
Alignment explanation
Indices: 23097780--23097825 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
23097770 ATTATTTTTA
23097780 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTA-T
*
23097801 TATATTATTATACATTTTAT
1 TATATTATTATACATATTAT
23097821 TATAT
1 TATAT
23097826 GTTATATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 15 0.65
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (20 bp):
TATATTATTATACATATTAT
Found at i:23098459 original size:71 final size:69
Alignment explanation
Indices: 23098345--23098500 Score: 221
Period size: 71 Copynumber: 2.3 Consensus size: 69
23098335 GTTATTTTAA
* *
23098345 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGTAATTTATATTGTTAT-ATTCATTGTTTT
1 GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATTGTTATGA-TCATTGTTTT
23098407 CTAT-
65 CTATG
*
23098411 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTATATTGTTATGATCATTGTT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGTAATCTATATTGTTATGATCATTGTT
23098476 TTCTATG
63 TTCTATG
23098483 GTTATATTTGCATGAAAT
1 GTTATATTTGCATGAAAT
23098501 GATGATGCAT
Statistics
Matches: 80, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
66 6 0.08
67 7 0.09
68 3 0.04
69 1 0.01
70 5 0.06
71 51 0.64
72 7 0.09
ACGTcount: A:0.29, C:0.05, G:0.12, T:0.53
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATTGTTATGATCATTGTTTTC
TATG
Found at i:23101725 original size:318 final size:318
Alignment explanation
Indices: 23101148--23101779 Score: 1147
Period size: 318 Copynumber: 2.0 Consensus size: 318
23101138 TGTAACTAAG
23101148 CTTAGACGTCGACATTCATAGAATTGAGGTCGAAAAAGAGAGGAAAGAAAAGAGAAAGATTGAGG
1 CTTAGACGTCGACATTCATAGAATTGAGGTCGAAAAAGAGAGGAAAGAAAAGAGAAAGATTGAGG
23101213 AAGACCGAAAGGACTTGAAGACGCAATATAAGAGGATACAACTATCAATGAAGAGAGCTGGATTG
66 AAGACCGAAAGGACTTGAAGACGCAATATAAGAGGATACAACTATCAATGAAGAGAGCTGGATTG
* *
23101278 GGGAAGTCTTCAGAACAGTGGCAATAAAAGGTTCAAGAAGAAAGAGCCAAAGCTGAGTATTAGGA
131 GGGAAGTCTTCAGAACAGTGGCAATAAAAGGTTCAAGAAGAAAGAGCCAAAACCGAGTATTAGGA
23101343 GAAGAAGTTCCAAGAGATGCAAACGCATAATCAGGCCCTAAAGAAAGAGAATTAAGGATTAAAAA
196 GAAGAAGTTCCAAGAGATGCAAACGCATAATCAGGCCCTAAAGAAAGAGAATTAAGGATTAAAAA
* *
23101408 CTAAGGTGACTGTGCTTGGACGATCTCTTTATCATCACCGAAGTCGTAACTCCGTAGT
261 CTAAGGTGACTATGCTTGGACGATATCTTTATCATCACCGAAGTCGTAACTCCGTAGT
* *
23101466 CTTAGACGTCGACGTTCATAGAATTGAGGTCGAAAAAGAGAGGAAAGAAAAGAGGAAGATTGAGG
1 CTTAGACGTCGACATTCATAGAATTGAGGTCGAAAAAGAGAGGAAAGAAAAGAGAAAGATTGAGG
* * * **
23101531 AAGACCGAGATGACTTGAAGATGCAATATAAGAGGATACAGTTATCAATGAAGAGAGCTGGATTG
66 AAGACCGAAAGGACTTGAAGACGCAATATAAGAGGATACAACTATCAATGAAGAGAGCTGGATTG
*
23101596 GGGAAGTCTTCAGAACAGTGGCAATAAGAGGTTCAAGAAGAAAGAGCCAAAACCGAGTATTAGGA
131 GGGAAGTCTTCAGAACAGTGGCAATAAAAGGTTCAAGAAGAAAGAGCCAAAACCGAGTATTAGGA
*
23101661 GAAGAAGTTCCAAGGGATGCAAACGCATAATCAGGCCCTAAAGAAAGAGAATTAAGGATTAAAAA
196 GAAGAAGTTCCAAGAGATGCAAACGCATAATCAGGCCCTAAAGAAAGAGAATTAAGGATTAAAAA
23101726 CTAAGGTGACTATGCTTGGACGATATCTTTATCATCACCGAAGTCGTAACTCCG
261 CTAAGGTGACTATGCTTGGACGATATCTTTATCATCACCGAAGTCGTAACTCCG
23101780 CGGTCGAGTT
Statistics
Matches: 301, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
318 301 1.00
ACGTcount: A:0.40, C:0.14, G:0.26, T:0.19
Consensus pattern (318 bp):
CTTAGACGTCGACATTCATAGAATTGAGGTCGAAAAAGAGAGGAAAGAAAAGAGAAAGATTGAGG
AAGACCGAAAGGACTTGAAGACGCAATATAAGAGGATACAACTATCAATGAAGAGAGCTGGATTG
GGGAAGTCTTCAGAACAGTGGCAATAAAAGGTTCAAGAAGAAAGAGCCAAAACCGAGTATTAGGA
GAAGAAGTTCCAAGAGATGCAAACGCATAATCAGGCCCTAAAGAAAGAGAATTAAGGATTAAAAA
CTAAGGTGACTATGCTTGGACGATATCTTTATCATCACCGAAGTCGTAACTCCGTAGT
Found at i:23110224 original size:44 final size:44
Alignment explanation
Indices: 23110172--23110489 Score: 469
Period size: 44 Copynumber: 7.2 Consensus size: 44
23110162 TCACCGATAG
* * * *
23110172 CAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGACCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
* *
23110216 CAGATTTGGCGTCCCTGTATTGACAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
* * *
23110260 TAGATTTGGCGTCTCTGTATTGATAGAGAGCAGATCGAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
*
23110304 CAGATTTGGCGTCTCTGTATTGACAGAGAGCATATCAAAGATGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
* *
23110348 CAGATTTGGCGTATCTGTATTGACA-ATGAGCAGATCAAAAATGA
1 CAGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCAAAGATGA
*
23110392 CAGATTTGGCGTCTCTGTATTGACA-ATGAGCAGATCAAAAATGA
1 CAGATTTGGCGTCTCTGTATTGACAGA-GAGCAGATCAAAGATGA
* *
23110436 CAGATTTGGCGTCTCTGTATTGACAGAGAACAGATCAAAGCTGA
1 CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
23110480 CAGATTTGGC
1 CAGATTTGGC
23110490 AGATCAAAGG
Statistics
Matches: 254, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
43 1 0.00
44 252 0.99
45 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGACAGAGAGCAGATCAAAGATGA
Found at i:23110495 original size:23 final size:23
Alignment explanation
Indices: 23110466--23110512 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
23110456 TGACAGAGAA
23110466 CAGATCAAAGCTGACAGATTTGG
1 CAGATCAAAGCTGACAGATTTGG
*
23110489 CAGATCAAAGGTGACAGATTTGG
1 CAGATCAAAGCTGACAGATTTGG
23110512 C
1 C
23110513 GTCTCTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (23 bp):
CAGATCAAAGCTGACAGATTTGG
Found at i:23110573 original size:67 final size:67
Alignment explanation
Indices: 23110421--23110556 Score: 209
Period size: 67 Copynumber: 2.0 Consensus size: 67
23110411 TTGACAATGA
** * * *
23110421 GCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAGAGAACAGATCAAAGCTGACAGATT
1 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGAACAGATCAAAGATAACAGATT
23110486 TG
66 TG
* *
23110488 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGAACAGATCAAAGATAACAGATT
23110553 TG
66 TG
23110555 GC
1 GC
23110557 GTCTCTATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.24
Consensus pattern (67 bp):
GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGAACAGATCAAAGATAACAGATT
TG
Found at i:23110594 original size:155 final size:155
Alignment explanation
Indices: 23110337--23110643 Score: 420
Period size: 155 Copynumber: 2.0 Consensus size: 155
23110327 CAGAGAGCAT
* *
23110337 ATCAAAGATGACAGATTTGGCGTATCTGTATTGACAATGAGCAGATCAAAAATGACAGATTTGGC
1 ATCAAAGATGACAGATTTGGCGTATCTATATTGACAATGAGCAGATCAAAAATAACAGATTTGGC
* * *
23110402 GTCTCTGTATTGACAATGAGCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAGAGAAC
66 GTCTCTATATTGACAATGAGCAGATCAAAAATAACAGATTTGGCATCTCTGTATTGACAGAGAAC
*
23110467 AGATCAAAGCTGACAGATTTGGCAG
131 AGATCAAAGATGACAGATTTGGCAG
* * * *
23110492 ATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGA-GAGCAGATCGAAGATAACAGATTTGG
1 ATCAAAGATGACAGATTTGGCGTATCTATATTGACA-ATGAGCAGATCAAAAATAACAGATTTGG
* * * * *
23110556 CGTCTCTATATTGACAGA-GAGTAGATCGAAGATAACAGATTTGGCATCTCTGTATTGACAGTGG
65 CGTCTCTATATTGACA-ATGAGCAGATCAAAAATAACAGATTTGGCATCTCTGTATTGACAGAGA
* * *
23110620 GCAGGTCGAAGATGACAGATTTGG
129 ACAGATCAAAGATGACAGATTTGG
23110644 TTTCTCTGTA
Statistics
Matches: 132, Mismatches: 18, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
155 130 0.98
156 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (155 bp):
ATCAAAGATGACAGATTTGGCGTATCTATATTGACAATGAGCAGATCAAAAATAACAGATTTGGC
GTCTCTATATTGACAATGAGCAGATCAAAAATAACAGATTTGGCATCTCTGTATTGACAGAGAAC
AGATCAAAGATGACAGATTTGGCAG
Found at i:23110616 original size:111 final size:111
Alignment explanation
Indices: 23110377--23110601 Score: 326
Period size: 111 Copynumber: 2.0 Consensus size: 111
23110367 TTGACAATGA
** * *
23110377 GCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAATGAGCAGATCAAAAATGACAGATT
1 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAATGAGCAGATCAAAAATAACAGATT
* * *
23110442 TGGCGTCTCTGTATTGACAGAGAACAGATCAAAGCTGACAGATTTG
66 TGGCGTCTCTATATTGACAGAGAACAGATCAAAGATAACAGATTTG
* *
23110488 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGA-GAGCAGATCGAAGATAACAGAT
1 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACA-ATGAGCAGATCAAAAATAACAGAT
** *
23110552 TTGGCGTCTCTATATTGACAGAGAGTAGATCGAAGATAACAGATTTG
65 TTGGCGTCTCTATATTGACAGAGAACAGATCAAAGATAACAGATTTG
23110599 GCA
1 GCA
23110602 TCTCTGTATT
Statistics
Matches: 101, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 100 0.99
112 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (111 bp):
GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAATGAGCAGATCAAAAATAACAGATT
TGGCGTCTCTATATTGACAGAGAACAGATCAAAGATAACAGATTTG
Found at i:23110637 original size:199 final size:199
Alignment explanation
Indices: 23110289--23110655 Score: 538
Period size: 199 Copynumber: 1.8 Consensus size: 199
23110279 TTGATAGAGA
* * * *
23110289 GCAGATCGAAGATGACAGATTTGGCGTCTCTGTATTGACAGAGAGCATATCAAAGATGACAGATT
1 GCAGATCAAAGATGACAGATTTGGCGTCTCTATATTGACAGAGAGCAGATCAAAGATAACAGATT
* * *
23110354 TGGCGTATCTGTATTGACAATGAGCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAAT
66 TGGCGTATCTATATTGACAATGAGCAGATCAAAAATAACAGATTTGGCATCTCTGTATTGACAAT
23110419 GAGCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAGAGAACAGATCAAAGCTGACAGA
131 GAGCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAGAGAACAGATCAAAGCTGACAGA
23110484 TTTG
196 TTTG
* *
23110488 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAACAGATT
1 GCAGATCAAAGATGACAGATTTGGCGTCTCTATATTGACAGAGAGCAGATCAAAGATAACAGATT
* * * * *
23110553 TGGCGTCTCTATATTGACAGA-GAGTAGATCGAAGATAACAGATTTGGCATCTCTGTATTGACAG
66 TGGCGTATCTATATTGACA-ATGAGCAGATCAAAAATAACAGATTTGGCATCTCTGTATTGACAA
* * * * **
23110617 TGGGCAGGTCGAAGATGACAGATTTGGTTTCTCTGTATT
130 TGAGCAGATCAAAAATGACAGATTTGGCGTCTCTGTATT
23110656 AGGCAAGGAG
Statistics
Matches: 147, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
199 146 0.99
200 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (199 bp):
GCAGATCAAAGATGACAGATTTGGCGTCTCTATATTGACAGAGAGCAGATCAAAGATAACAGATT
TGGCGTATCTATATTGACAATGAGCAGATCAAAAATAACAGATTTGGCATCTCTGTATTGACAAT
GAGCAGATCAAAAATGACAGATTTGGCGTCTCTGTATTGACAGAGAACAGATCAAAGCTGACAGA
TTTG
Found at i:23110650 original size:88 final size:89
Alignment explanation
Indices: 23110490--23110690 Score: 237
Period size: 88 Copynumber: 2.3 Consensus size: 89
23110480 CAGATTTGGC
* * *
23110490 AGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGAGCAGATCGAAGATAACAGATTTG
1 AGATCAAAGATAACAGATTTGGCATCTCTATATTGACAGAGAGCAGATCGAAGATAACAGATTTG
23110555 GCGTCTCTATATT-GAC-AGAGAGT
66 GCGTCTCTATATTAGACAAG-GAGT
* * * * * *
23110578 AGATCGAAGATAACAGATTTGGCATCTCTGTATTGACAGTGGGCAGGTCGAAGATGACAGATTTG
1 AGATCAAAGATAACAGATTTGGCATCTCTATATTGACAGAGAGCAGATCGAAGATAACAGATTTG
** * *
23110643 GTTTCTCTGTATTAGGCAAGGAGT
66 GCGTCTCTATATTAGACAAGGAGT
**
23110667 AGATCAAAGATTTCAGA-TTGGCAT
1 AGATCAAAGATAACAGATTTGGCAT
23110691 TCCTGAGTTT
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
88 73 0.77
89 20 0.21
90 2 0.02
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (89 bp):
AGATCAAAGATAACAGATTTGGCATCTCTATATTGACAGAGAGCAGATCGAAGATAACAGATTTG
GCGTCTCTATATTAGACAAGGAGT
Found at i:23110655 original size:44 final size:44
Alignment explanation
Indices: 23110488--23110643 Score: 222
Period size: 44 Copynumber: 3.5 Consensus size: 44
23110478 GACAGATTTG
* * *
23110488 GCAGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAGA
23110532 GCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAGA
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAGA
* * * * *
23110576 GTAGATCGAAGATAACAGATTTGGCATCTCTGTATTGACAGTGG
1 GCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAGA
* *
23110620 GCAGGTCGAAGATGACAGATTTGG
1 GCAGATCGAAGATAACAGATTTGG
23110644 TTTCTCTGTA
Statistics
Matches: 101, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 101 1.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (44 bp):
GCAGATCGAAGATAACAGATTTGGCGTCTCTATATTGACAGAGA
Found at i:23110712 original size:88 final size:88
Alignment explanation
Indices: 23110490--23110730 Score: 228
Period size: 88 Copynumber: 2.7 Consensus size: 88
23110480 CAGATTTGGC
* * * * * *
23110490 AGATCAAAGGTGACAGATTTGGCGTCTCTATATTGACAG-AGAGCAGATCGAAGATAACAGATTT
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAGTGGAGCAGGTCGAAGAT-ACAGATTT
23110554 GGCGTCTCTATATTGACAGAGAGT
65 GGCGTCTCTATATTGACAGAGAGT
*
23110578 AGATCGAAGATAACAGATTTGGCATCTCTGTATTGACAGTGG-GCAGGTCGAAGATGACAGATTT
1 AGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAGTGGAGCAGGTCGAAGAT-ACAGATTT
** * *
23110642 GGTTTCTCTGTATTAGGCA-AGGAGT
65 GGCGTCTCTATATT-GACAGA-GAGT
** *
23110667 AGATCAAAGATTTCAGA-TTGGCAT-TCCTG-AGTTTG-CAG-GGAGCAGGTTGAAGATAGCAGA
1 AGATCAAAGATAACAGATTTGGCATCT-CTGTA--TTGACAGTGGAGCAGGTCGAAGATA-CAGA
23110727 TTTG
62 TTTG
23110731 ACATTCCTGA
Statistics
Matches: 129, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
87 5 0.04
88 99 0.77
89 25 0.19
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (88 bp):
AGATCAAAGATAACAGATTTGGCATCTCTGTATTGACAGTGGAGCAGGTCGAAGATACAGATTTG
GCGTCTCTATATTGACAGAGAGT
Found at i:23112252 original size:12 final size:11
Alignment explanation
Indices: 23112219--23112265 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
23112209 ACAAATTGTA
23112219 TATATATTATTTT
1 TATATATTA--TT
23112232 TATATATTATT
1 TATATATTATT
23112243 TATCATATTATT
1 TAT-ATATTATT
23112255 TATATTATTAT
1 TATA-TATTAT
23112266 ACATTTTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 6 0.19
12 17 0.53
13 9 0.28
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (11 bp):
TATATATTATT
Found at i:23112260 original size:21 final size:21
Alignment explanation
Indices: 23112234--23112279 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
23112224 ATTATTTTTA
23112234 TATATTATT-TATCATATTATT
1 TATATTATTATA-CATATTATT
*
23112255 TATATTATTATACATTTTATT
1 TATATTATTATACATATTATT
23112276 TATA
1 TATA
23112280 AATTTTATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (21 bp):
TATATTATTATACATATTATT
Found at i:23112918 original size:71 final size:69
Alignment explanation
Indices: 23112802--23112957 Score: 203
Period size: 71 Copynumber: 2.3 Consensus size: 69
23112792 GTTATTTTAA
* *
23112802 GTTATATTTGCAT-AAA-ATATTGTTATATATTATGTAATTTATATTGTTAT-ATTCATTGTTTT
1 GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATTGTTATGA-TCATTGTTTT
23112864 CTAT-
65 CTATG
* *
23112868 GTTATATTTTGCATGAAATATTATTATGTATGTATTATGTAATCTGTATTGTTATGATCATTGTT
1 GTTATA-TTTGCATGAAATA-TATTAT-TATATATTATGTAATCTATATTGTTATGATCATTGTT
23112933 TTCTATG
63 TTCTATG
*
23112940 GTTATATCTGCATGAAAT
1 GTTATATTTGCATGAAAT
23112958 GATGATGCAT
Statistics
Matches: 78, Mismatches: 5, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
66 6 0.08
67 7 0.09
68 3 0.04
69 1 0.01
70 5 0.06
71 49 0.63
72 7 0.09
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.53
Consensus pattern (69 bp):
GTTATATTTGCATGAAATATATTATTATATATTATGTAATCTATATTGTTATGATCATTGTTTTC
TATG
Found at i:23125439 original size:42 final size:42
Alignment explanation
Indices: 23125365--23125576 Score: 230
Period size: 42 Copynumber: 5.0 Consensus size: 42
23125355 GTTGTCACAG
* *
23125365 TATCGATGCCA-ATGGCCCAGCTATGGTTTTACACGAAATCTTA
1 TATCGATGCCATAT--CCCAGATATGGTCTTACACGAAATCTTA
* ** * * **
23125408 TATTGATGCCATATCCTGGATATGGTCTTACATGTAATCTCG
1 TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCTTA
* *
23125450 TATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTTA
1 TATCGATGCC-ATATCCCAGATATGGTCTTACACGAAATCTTA
* * *
23125493 TATTGATGCCATATCCTAGATATGGTCTTACACGAAATCTCA
1 TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCTTA
* *
23125535 TATCGATGCCATACCCCAGATATGGT-TTCACACGTAATCTTA
1 TATCGATGCCATATCCCAGATATGGTCTT-ACACGAAATCTTA
23125577 GTAACCCTAA
Statistics
Matches: 138, Mismatches: 28, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
41 2 0.01
42 91 0.66
43 43 0.31
44 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (42 bp):
TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCTTA
Found at i:23125507 original size:85 final size:84
Alignment explanation
Indices: 23125364--23125576 Score: 320
Period size: 85 Copynumber: 2.5 Consensus size: 84
23125354 GGTTGTCACA
* *
23125364 GTATCGATGCCAATGGCCCAGCTATGGTTTTACACGAAATCTTATATTGATGCCATATCCTGGAT
1 GTATCGATGCCAATAGCCCAGCTATGG-TTTACACGAAATCTTATATTGATGCCATATCCTAGAT
* *
23125429 ATGGTCTTACATGTAATCTC
65 ATGGTCTTACACGAAATCTC
23125449 GTATCGATGCCAATAGCCCAGCTATGGTCTTACACGAAATCTTATATTGATGCCATATCCTAGAT
1 GTATCGATGCCAATAGCCCAGCTATGGT-TTACACGAAATCTTATATTGATGCCATATCCTAGAT
23125514 ATGGTCTTACACGAAATCTC
65 ATGGTCTTACACGAAATCTC
* * * *
23125534 ATATCGATGCC-ATACCCCAGATATGGTTTCACACGTAATCTTA
1 GTATCGATGCCAATAGCCCAGCTATGGTTT-ACACGAAATCTTA
23125577 GTAACCCTAA
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
83 2 0.02
84 27 0.23
85 89 0.75
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (84 bp):
GTATCGATGCCAATAGCCCAGCTATGGTTTACACGAAATCTTATATTGATGCCATATCCTAGATA
TGGTCTTACACGAAATCTC
Found at i:23128743 original size:51 final size:51
Alignment explanation
Indices: 23128660--23128846 Score: 297
Period size: 51 Copynumber: 3.7 Consensus size: 51
23128650 AGATACACGA
* * *
23128660 TGGCCTTTACATAGTACCAC-CTT-TGTAACCAAAGTTATTTTATTCATAAAG
1 TGGCCTTCACATAGTACCACACTTGTGT--CCAAAGCTATTATATTCATAAAG
*
23128711 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCATAAAG
*
23128762 TAGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCATAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCATAAAG
23128813 TGGCCTTCACATAGTACCACACTTGTGTCCAAAG
1 TGGCCTTCACATAGTACCACACTTGTGTCCAAAG
23128847 TTTTTATTCC
Statistics
Matches: 127, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
51 121 0.95
52 3 0.02
53 3 0.02
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.32
Consensus pattern (51 bp):
TGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCATAAAG
Found at i:23128931 original size:24 final size:24
Alignment explanation
Indices: 23128894--23129042 Score: 181
Period size: 24 Copynumber: 5.9 Consensus size: 24
23128884 TAGCACCATA
*
23128894 CCATAGACTTATTTCACTTAGATG
1 CCATGGACTTATTTCACTTAGATG
*
23128918 TCATGGACTTATTTCACTTAGCATATTG
1 CCATGGACTTATTTCACTTAG---A-TG
23128946 CCATGGACTTATTTCACTTAGATG
1 CCATGGACTTATTTCACTTAGATG
* *
23128970 CCACGGTCTTATTTCACTTAGCACATTG
1 CCATGGACTTATTTCACTTAG---A-TG
23128998 CCATGGACTTATTTCACTTAGATG
1 CCATGGACTTATTTCACTTAGATG
*
23129022 CCATGGTCTTATTTCACTTAG
1 CCATGGACTTATTTCACTTAG
23129043 CACAATGCCA
Statistics
Matches: 109, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
24 62 0.57
25 2 0.02
27 2 0.02
28 43 0.39
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (24 bp):
CCATGGACTTATTTCACTTAGATG
Found at i:23128936 original size:52 final size:52
Alignment explanation
Indices: 23128879--23129054 Score: 264
Period size: 52 Copynumber: 3.4 Consensus size: 52
23128869 GGGAAATTTC
* * *
23128879 TCACTTAGCACCA-TACCATAGACTTATTTCACTTAGATGTCATGGACTTATT
1 TCACTTAGCA-CATTGCCATAGACTTATTTCACTTAGATGCCATGGTCTTATT
* * *
23128931 TCACTTAGCATATTGCCATGGACTTATTTCACTTAGATGCCACGGTCTTATT
1 TCACTTAGCACATTGCCATAGACTTATTTCACTTAGATGCCATGGTCTTATT
*
23128983 TCACTTAGCACATTGCCATGGACTTATTTCACTTAGATGCCATGGTCTTATT
1 TCACTTAGCACATTGCCATAGACTTATTTCACTTAGATGCCATGGTCTTATT
*
23129035 TCACTTAGCACAATGCCATA
1 TCACTTAGCACATTGCCATA
23129055 TCCTAGATAT
Statistics
Matches: 113, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 1 0.01
52 112 0.99
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (52 bp):
TCACTTAGCACATTGCCATAGACTTATTTCACTTAGATGCCATGGTCTTATT
Found at i:23132417 original size:44 final size:44
Alignment explanation
Indices: 23132313--23132417 Score: 165
Period size: 44 Copynumber: 2.4 Consensus size: 44
23132303 CAATCAGATC
* *
23132313 CATTGCAACTTCAAGGCTATAGGAGTTATAGCTTCATCTTACTT
1 CATTGCAACTTCAGGGATATAGGAGTTATAGCTTCATCTTACTT
* *
23132357 CACTGCAACTTTAGGGATATAGGAGTTATAGCTTCATCTTACTT
1 CATTGCAACTTCAGGGATATAGGAGTTATAGCTTCATCTTACTT
*
23132401 CATTACAACTTCAGGGA
1 CATTGCAACTTCAGGGA
23132418 GATAAGATTC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 54 1.00
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (44 bp):
CATTGCAACTTCAGGGATATAGGAGTTATAGCTTCATCTTACTT
Found at i:23132554 original size:94 final size:94
Alignment explanation
Indices: 23132357--23132557 Score: 213
Period size: 94 Copynumber: 2.1 Consensus size: 94
23132347 CATCTTACTT
* * * * *
23132357 CACTGCAACTTTAGGGATATAGGAGTTATAGCTTCATCTTACTTCATTACAACTTCAGGGAGATA
1 CACTACAACTTCAGGGATATAGAAGTTATAGCTTCATCTTACTCCACTACAACTTCAGGGAGATA
* *
23132422 AGATTCACTACAATAAATTCAATCTGATC
66 AGATTCACTACAACAAATTCAATCTGACC
* * * * ** *
23132451 TACTGCAACTTCAGGGATATAGAAGTTGTAGCTTCATTTTACTCCACTGTAACTTTAGGGAGATA
1 CACTACAACTTCAGGGATATAGAAGTTATAGCTTCATCTTACTCCACTACAACTTCAGGGAGATA
* *** * *
23132516 AGATTCGCTATGGCATATTTAATCTGACC
66 AGATTCACTACAACAAATTCAATCTGACC
*
23132545 CATTACAACTTCA
1 CACTACAACTTCA
23132558 AGGGTATGGG
Statistics
Matches: 86, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (94 bp):
CACTACAACTTCAGGGATATAGAAGTTATAGCTTCATCTTACTCCACTACAACTTCAGGGAGATA
AGATTCACTACAACAAATTCAATCTGACC
Found at i:23132631 original size:44 final size:43
Alignment explanation
Indices: 23132576--23132724 Score: 156
Period size: 44 Copynumber: 3.3 Consensus size: 43
23132566 GGATTTATAG
*
23132576 TTGTAGCTTCATTCCAACCCACTGCAACTTCAGGGGTATAGGAA
1 TTGTAGCTTCA-TCCAACCCACTGCAACTTCAGGGGTATAAGAA
*
23132620 TTGTAGCTTCATCCTACTCCACTGCAACTTCAGGGAG-ATAAGATCCA
1 TTGTAGCTTCATCCAAC-CCACTGCAACTTCAGGG-GTATAAGA---A
* * *
23132667 CTATGGTAACTTCCATCCGACCCACTGCAACTTCAGGGGTATAAGAT
1 -T-T-GTAGCTT-CATCCAACCCACTGCAACTTCAGGGGTATAAGAA
23132714 TTGTAGCTTCA
1 TTGTAGCTTCA
23132725 ATCTGCTCCA
Statistics
Matches: 89, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
43 7 0.08
44 39 0.44
45 2 0.02
46 1 0.01
47 1 0.01
48 1 0.01
49 2 0.02
50 29 0.33
51 7 0.08
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
TTGTAGCTTCATCCAACCCACTGCAACTTCAGGGGTATAAGAA
Found at i:23132657 original size:238 final size:238
Alignment explanation
Indices: 23132357--23132811 Score: 590
Period size: 238 Copynumber: 1.9 Consensus size: 238
23132347 CATCTTACTT
* * * * *
23132357 CACTGCAACTTTAGGGATATAGGAGTTATAGCTTCATCTTACTTCATTACAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGATATAGGAATTATAGCTTCATCCTACTCCACTACAACTTCAGGGAGATA
* * * *
23132422 AGATTCACTACAATAAATTCAATCTGATCTACTGCAACTTCAGGGATAT-AGAAGTTGTAGCTTC
66 AGATCCACTACAATAAATTCAATCCGACCCACTGCAACTTCAGGGATATAAG-AGTTGTAGCTTC
* * * * * * * *
23132486 ATTTTACTCCACTGTAACTTTAGGGAGATAAGATTCGCTATGGCATATTTAA-TCTGACCCATTA
130 AATCTACTCCACCGCAACTTTAGGGAGATAAGATTCACTATGGCAGATTCAATTC-GACCCACTA
*
23132550 CAACTTCAAGGGTATGGGATTTATAGTTGTAGCTTCATTCCAACC
194 CAACTTCAAGGGTATAGGATTTATAGTTGTAGCTTCATTCCAACC
* * *
23132595 CACTGCAACTTCAGGGGTATAGGAATTGTAGCTTCATCCTACTCCACTGCAACTTCAGGGAGATA
1 CACTGCAACTTCAGGGATATAGGAATTATAGCTTCATCCTACTCCACTACAACTTCAGGGAGATA
*** * * * *
23132660 AGATCCACTATGGTAACTTCCATCCGACCCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCA
66 AGATCCACTACAATAAATTCAATCCGACCCACTGCAACTTCAGGGATATAAGAGTTGTAGCTTCA
* * *
23132725 ATCTGCTCCACCGCAACTTTAGGGAGATAAGATTCACTATGGTAGATTCAATTCGACCCACTGCA
131 ATCTACTCCACCGCAACTTTAGGGAGATAAGATTCACTATGGCAGATTCAATTCGACCCACTACA
*
23132790 ACTTTAAGGGTATAGGATTTAT
196 ACTTCAAGGGTATAGGATTTAT
23132812 GGTTTCACTG
Statistics
Matches: 183, Mismatches: 32, Indels: 4
0.84 0.15 0.02
Matches are distributed among these distances:
238 179 0.98
239 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (238 bp):
CACTGCAACTTCAGGGATATAGGAATTATAGCTTCATCCTACTCCACTACAACTTCAGGGAGATA
AGATCCACTACAATAAATTCAATCCGACCCACTGCAACTTCAGGGATATAAGAGTTGTAGCTTCA
ATCTACTCCACCGCAACTTTAGGGAGATAAGATTCACTATGGCAGATTCAATTCGACCCACTACA
ACTTCAAGGGTATAGGATTTATAGTTGTAGCTTCATTCCAACC
Found at i:23132711 original size:50 final size:50
Alignment explanation
Indices: 23132626--23132793 Score: 160
Period size: 50 Copynumber: 3.5 Consensus size: 50
23132616 GGAATTGTAG
*
23132626 CTTC-ATCCTACTCCACTGCAACTTCAGGGAGATAAGATCCACTATGGTAA
1 CTTCAATCCGACTCCACTGCAACTTCAGGGAGATAAGAT-CACTATGGTAA
* *
23132676 CTTCCATCCGAC-CCACTGCAACTTCAGGG-GTATAAGAT---T-T-GTAG
1 CTTCAATCCGACTCCACTGCAACTTCAGGGAG-ATAAGATCACTATGGTAA
* * *
23132720 CTTCAATCTG-CTCCACCGCAACTTTAGGGAGATAAGATTCACTATGGTAGA
1 CTTCAATCCGACTCCACTGCAACTTCAGGGAGATAAGA-TCACTATGGTA-A
*
23132771 -TTCAATTCGAC-CCACTGCAACTT
1 CTTCAATCCGACTCCACTGCAACTT
23132794 TAAGGGTATA
Statistics
Matches: 96, Mismatches: 10, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
43 1 0.01
44 32 0.33
45 3 0.03
46 1 0.01
48 1 0.01
49 2 0.02
50 49 0.51
51 7 0.07
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
CTTCAATCCGACTCCACTGCAACTTCAGGGAGATAAGATCACTATGGTAA
Found at i:23132715 original size:144 final size:144
Alignment explanation
Indices: 23132452--23132715 Score: 352
Period size: 144 Copynumber: 1.8 Consensus size: 144
23132442 AATCTGATCT
** * *
23132452 ACTGCAACTTCAGGGATATAGAAGTTGTAGCTTCATTTTACTCCACTGTAACTTTAGGGAGATAA
1 ACTGCAACTTCAGGGATATAGAAGTTGTAGCTTCATCCTACTCCACTGCAACTTCAGGGAGATAA
* * * * * **
23132517 GATTCGCTATGGCATATTTAATCTGACCCATTACAACTTCAAGGGTATGGGATTTATAGTTGTAG
66 GATCCACTATGGCATATTCAATCCGACCCACTACAACTTCAAGGGTATAAGATTTATAGTTGTAG
23132582 CTTCATTCCAACCC
131 CTTCATTCCAACCC
*
23132596 ACTGCAACTTCAGGGGTATAGGAA-TTGTAGCTTCATCCTACTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGATATA-GAAGTTGTAGCTTCATCCTACTCCACTGCAACTTCAGGGAGATA
* * * *
23132660 AGATCCACTATGGTA-ACTTCCATCCGACCCACTGCAACTTCAGGGGTATAAGATTT
65 AGATCCACTATGGCATA-TTCAATCCGACCCACTACAACTTCAAGGGTATAAGATTT
23132716 GTAGCTTCAA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
143 1 0.01
144 98 0.96
145 3 0.03
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (144 bp):
ACTGCAACTTCAGGGATATAGAAGTTGTAGCTTCATCCTACTCCACTGCAACTTCAGGGAGATAA
GATCCACTATGGCATATTCAATCCGACCCACTACAACTTCAAGGGTATAAGATTTATAGTTGTAG
CTTCATTCCAACCC
Found at i:23132718 original size:94 final size:94
Alignment explanation
Indices: 23132578--23132809 Score: 315
Period size: 94 Copynumber: 2.5 Consensus size: 94
23132568 ATTTATAGTT
* * * *
23132578 GTAGCTTCATTCCAACCCACTGCAACTTCAGGGGTATAGGAATTGTAGCTTC-ATCCTACTCCAC
1 GTAGATTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAAT-CTACTCCAC
*
23132642 TGCAACTTCAGGGAGATAAGATCCACTATG
65 CGCAACTTCAGGGAGATAAGATCCACTATG
* * *
23132672 GTA-ACTTCCATCCGACCCACTGCAACTTCAGGGGTATAAGATTTGTAGCTTCAATCTGCTCCAC
1 GTAGA-TTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCAC
* *
23132736 CGCAACTTTAGGGAGATAAGATTCACTATG
65 CGCAACTTCAGGGAGATAAGATCCACTATG
* * *
23132766 GTAGATTCAATTCGACCCACTGCAACTTTAAGGGTATAGGATTT
1 GTAGATTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTT
23132810 ATGGTTTCAC
Statistics
Matches: 120, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
94 117 0.98
95 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (94 bp):
GTAGATTCAATCCGACCCACTGCAACTTCAGGGGTATAGGATTTGTAGCTTCAATCTACTCCACC
GCAACTTCAGGGAGATAAGATCCACTATG
Found at i:23134388 original size:32 final size:33
Alignment explanation
Indices: 23134342--23134469 Score: 109
Period size: 32 Copynumber: 3.9 Consensus size: 33
23134332 CCCGAGGTGC
* * * *
23134342 ACATTCCCCTTTCAAGTGGT-TACACGAAGTGT
1 ACATACCCTTTTCAAGTGGTACACACAAAGTGT
* *
23134374 ACATACCCTTTTCAATTTGTACACACAAAGTGT
1 ACATACCCTTTTCAAGTGGTACACACAAAGTGT
* *
23134407 ACATAACCTTTTCAAGT-GTACACATATAA-TGT
1 ACATACCCTTTTCAAGTGGTACACACA-AAGTGT
* ** * *
23134439 ACTTTTCCTTTCCAAGTGGTATACACAAAGT
1 ACATACCCTTTTCAAGTGGTACACACAAAGT
23134470 ATACCTTTCC
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
32 42 0.55
33 35 0.45
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (33 bp):
ACATACCCTTTTCAAGTGGTACACACAAAGTGT
Found at i:23134410 original size:33 final size:32
Alignment explanation
Indices: 23134363--23134430 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
23134353 TCAAGTGGTT
* * *
23134363 ACACGAAGTGTACATACCCTTTTCAATTTGTAC
1 ACACAAAGTGTACATAACCTTTTCAA-GTGTAC
23134396 ACACAAAGTGTACATAACCTTTTCAAGTGTAC
1 ACACAAAGTGTACATAACCTTTTCAAGTGTAC
23134428 ACA
1 ACA
23134431 TATAATGTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 8 0.25
33 24 0.75
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (32 bp):
ACACAAAGTGTACATAACCTTTTCAAGTGTAC
Found at i:23147220 original size:2 final size:2
Alignment explanation
Indices: 23147213--23147259 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
23147203 TAAATTAAAG
23147213 AT AT 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 AT AT
23147255 AT AT A
1 AT AT A
23147260 AACTGTATAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:23149416 original size:67 final size:67
Alignment explanation
Indices: 23149337--23149473 Score: 247
Period size: 67 Copynumber: 2.0 Consensus size: 67
23149327 ATAGCCATCA
* *
23149337 AACCCACATACCCATACATATTTTTACTTTACACAATAAGCATATATCAAATATACCTCATATAA
1 AACCCACATACCCATACATATTTTTACTTTACACAATAAGCAAATACCAAATATACCTCATATAA
23149402 AT
66 AT
*
23149404 AACCCACATACCCATACATATTTTTACTTTACATAATAAGCAAATACCAAATATACCTCATATAA
1 AACCCACATACCCATACATATTTTTACTTTACACAATAAGCAAATACCAAATATACCTCATATAA
23149469 AT
66 AT
23149471 AAC
1 AAC
23149474 ATGCAATTTA
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.45, C:0.24, G:0.01, T:0.30
Consensus pattern (67 bp):
AACCCACATACCCATACATATTTTTACTTTACACAATAAGCAAATACCAAATATACCTCATATAA
AT
Found at i:23151080 original size:2 final size:2
Alignment explanation
Indices: 23151073--23151108 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
23151063 CAGTTATTAC
23151073 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
23151109 TCACATATTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23152440 original size:22 final size:23
Alignment explanation
Indices: 23152415--23152465 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
23152405 AGGAGGATGG
23152415 TTATAGGTA-TTACTAAAAATGA
1 TTATAGGTACTTACTAAAAATGA
** *
23152437 TTATATTTACTTTACTAAAGATGA
1 TTATAGGTAC-TTACTAAAAATGA
23152461 TTATA
1 TTATA
23152466 TTTACTTATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
24 17 0.71
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.43
Consensus pattern (23 bp):
TTATAGGTACTTACTAAAAATGA
Found at i:23152452 original size:24 final size:24
Alignment explanation
Indices: 23152424--23152472 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
23152414 GTTATAGGTA
23152424 TTACTAAAAATGATTATATTTACT
1 TTACTAAAAATGATTATATTTACT
*
23152448 TTACTAAAGATGATTATATTTACT
1 TTACTAAAAATGATTATATTTACT
23152472 T
1 T
23152473 ATGTATATAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (24 bp):
TTACTAAAAATGATTATATTTACT
Found at i:23156162 original size:31 final size:30
Alignment explanation
Indices: 23156119--23156202 Score: 86
Period size: 32 Copynumber: 2.8 Consensus size: 30
23156109 TCGAAATTTT
23156119 AGAAT-TTCTTTT-TAATTTTTGAATTTTAAA
1 AGAATATT-TTTTATAATTTTT-AATTTTAAA
23156149 GAGAATATTTTTTTATAATTTTTAATTTTAAA
1 -AGAATA-TTTTTTATAATTTTTAATTTTAAA
*
23156181 A-AATGATTTTTTAT-CTTTTTAA
1 AGAAT-ATTTTTTATAATTTTTAA
23156203 AATATATAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
29 7 0.15
30 11 0.23
31 7 0.15
32 13 0.27
33 10 0.21
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (30 bp):
AGAATATTTTTTATAATTTTTAATTTTAAA
Found at i:23156192 original size:32 final size:33
Alignment explanation
Indices: 23156122--23156192 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
23156112 AAATTTTAGA
*
23156122 ATTTCTTTTTAATTTTTGAATTTTAAAGAGAAT
1 ATTTTTTTTTAATTTTTGAATTTTAAAGAGAAT
*
23156155 ATTTTTTTATAATTTTT-AATTTTAAA-A-AAT
1 ATTTTTTTTTAATTTTTGAATTTTAAAGAGAAT
23156185 GATTTTTT
1 -ATTTTTT
23156193 ATCTTTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 3 0.09
31 8 0.23
32 9 0.26
33 15 0.43
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (33 bp):
ATTTTTTTTTAATTTTTGAATTTTAAAGAGAAT
Found at i:23156194 original size:30 final size:32
Alignment explanation
Indices: 23156122--23156192 Score: 94
Period size: 32 Copynumber: 2.2 Consensus size: 32
23156112 AAATTTTAGA
23156122 ATTTCTTTT-TAATTTTTGAATTTTAAAGAGAAT
1 ATTT-TTTTATAATTTTT-AATTTTAAAGAGAAT
23156155 ATTTTTTTATAATTTTTAATTTTAAA-A-AAT
1 ATTTTTTTATAATTTTTAATTTTAAAGAGAAT
23156185 GATTTTTT
1 -ATTTTTT
23156193 ATCTTTTTAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
30 3 0.08
31 8 0.22
32 13 0.36
33 12 0.33
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (32 bp):
ATTTTTTTATAATTTTTAATTTTAAAGAGAAT
Found at i:23156950 original size:2 final size:2
Alignment explanation
Indices: 23156943--23156967 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23156933 GTAGTTGACA
23156943 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
23156968 TTACCAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23157095 original size:44 final size:43
Alignment explanation
Indices: 23157032--23157121 Score: 119
Period size: 44 Copynumber: 2.1 Consensus size: 43
23157022 ACTATGTACG
*
23157032 AATATGGTAGGAAGTTTACAGT-GGGAACAAAATCATTAATTACT
1 AATATGGTAGGAAGTTTACAATAGGG-A-AAAATCATTAATTACT
* * *
23157076 AATATGGTAGGAATTTTACAATAGGGAAGAATCGTTAATTACT
1 AATATGGTAGGAAGTTTACAATAGGGAAAAATCATTAATTACT
23157119 AAT
1 AAT
23157122 GTGCAACTGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 17 0.41
44 21 0.51
45 3 0.07
ACGTcount: A:0.41, C:0.08, G:0.20, T:0.31
Consensus pattern (43 bp):
AATATGGTAGGAAGTTTACAATAGGGAAAAATCATTAATTACT
Found at i:23157889 original size:26 final size:26
Alignment explanation
Indices: 23157853--23157904 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
23157843 ATAAGAATGT
23157853 AAAGGATGATTGAATTCATTAACCAA
1 AAAGGATGATTGAATTCATTAACCAA
23157879 AAAGGATGATTGAATTCATTAACCAA
1 AAAGGATGATTGAATTCATTAACCAA
23157905 GCAGCCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.46, C:0.12, G:0.15, T:0.27
Consensus pattern (26 bp):
AAAGGATGATTGAATTCATTAACCAA
Found at i:23165093 original size:23 final size:23
Alignment explanation
Indices: 23165063--23165107 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
23165053 TAATCTTGAA
23165063 CCCCTTGTTACATAGAATACTTT
1 CCCCTTGTTACATAGAATACTTT
23165086 CCCCTTGTTACATAGAATACTT
1 CCCCTTGTTACATAGAATACTT
23165108 ACGGACACTA
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:0.27, C:0.27, G:0.09, T:0.38
Consensus pattern (23 bp):
CCCCTTGTTACATAGAATACTTT
Found at i:23168916 original size:29 final size:29
Alignment explanation
Indices: 23168874--23168933 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
23168864 TATTTTTGAC
23168874 ACCAATGAGACTCTCAATTTAGTGTTCTA
1 ACCAATGAGACTCTCAATTTAGTGTTCTA
23168903 ACCAATGAGACTCTCAATTTAGTGTTCTA
1 ACCAATGAGACTCTCAATTTAGTGTTCTA
23168932 AC
1 AC
23168934 TCTTTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.32, C:0.22, G:0.13, T:0.33
Consensus pattern (29 bp):
ACCAATGAGACTCTCAATTTAGTGTTCTA
Found at i:23169869 original size:14 final size:15
Alignment explanation
Indices: 23169850--23169905 Score: 60
Period size: 18 Copynumber: 3.5 Consensus size: 15
23169840 AATCTTCAAT
23169850 GATATG-CAATCTTA
1 GATATGACAATCTTA
23169864 GATATGATACAATCTTA
1 GATATG--ACAATCTTA
23169881 GATATGATTGCAATCTTA
1 GATATGA---CAATCTTA
23169899 GATATGA
1 GATATGA
23169906 TATGCAATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
14 6 0.17
15 1 0.03
17 14 0.39
18 15 0.42
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (15 bp):
GATATGACAATCTTA
Found at i:23169894 original size:35 final size:37
Alignment explanation
Indices: 23169848--23169926 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
23169838 ATAATCTTCA
23169848 ATGATATGCAATCTTAGATATGATA-CAATCTTAGAT
1 ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
23169884 ATGAT-TGCAATCTTAGATATGATATGCAATCTTAGA-
1 ATGATATGCAATCTTAGATATGATA-GCAATCTTAGAT
23169920 A-GATATG
1 ATGATATG
23169927 ATTTTGTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.35
Consensus pattern (37 bp):
ATGATATGCAATCTTAGATATGATAGCAATCTTAGAT
Found at i:23169926 original size:17 final size:19
Alignment explanation
Indices: 23169848--23169919 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
23169838 ATAATCTTCA
23169848 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23169867 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23169884 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
23169902 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
23169920 AGATATGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:23169945 original size:22 final size:23
Alignment explanation
Indices: 23169898--23169956 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
23169888 TTGCAATCTT
* *
23169898 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTTTGTAATCTTAGA
*
23169920 AGATATGATTTTGTAATCTTTG-
1 AGATATGATTTTGTAATCTTAGA
* *
23169942 AGATTTAATTTTGTA
1 AGATATGATTTTGTA
23169957 GATACCTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 21 0.68
23 10 0.32
ACGTcount: A:0.34, C:0.05, G:0.17, T:0.44
Consensus pattern (23 bp):
AGATATGATTTTGTAATCTTAGA
Found at i:23170235 original size:17 final size:17
Alignment explanation
Indices: 23170211--23170245 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
23170201 TGTTTCCCTG
*
23170211 ATTTTTTTATATATTTTA
1 ATTTTTTAATA-ATTTTA
23170229 ATTTTTTAATAATTTTA
1 ATTTTTTAATAATTTTA
23170246 GTATCATATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
ATTTTTTAATAATTTTA
Found at i:23185100 original size:3 final size:3
Alignment explanation
Indices: 23185092--23185161 Score: 68
Period size: 3 Copynumber: 23.3 Consensus size: 3
23185082 AGCCAAGTCA
* * * * * *
23185092 ATG ATG ATG ATG ATG ACG ATG AGG ATG ATG GTG GTG GTG GTG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
* *
23185140 ATG ATG ATG TTG ATG AAG ATG A
1 ATG ATG ATG ATG ATG ATG ATG A
23185162 CCCAGAAGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.29, C:0.01, G:0.40, T:0.30
Consensus pattern (3 bp):
ATG
Found at i:23188306 original size:12 final size:12
Alignment explanation
Indices: 23188199--23188309 Score: 50
Period size: 12 Copynumber: 8.9 Consensus size: 12
23188189 ATATATATTT
23188199 TATAATAAAATAA
1 TATAATAAAAT-A
* *
23188212 TGTAA-GAAATAA
1 TATAATAAAAT-A
*
23188224 TATAGTAAAATA
1 TATAATAAAATA
* *
23188236 TAGAATATAACT-
1 TATAATA-AAATA
*
23188248 TATAACCAAAATA
1 TATAA-TAAAATA
*
23188261 TATAATAATATA
1 TATAATAAAATA
*
23188273 TACCATATGATAAATA
1 TA-TA-AT-A-AAATA
23188289 -AT-ATAAAATA
1 TATAATAAAATA
23188299 TATAATAAAAT
1 TATAATAAAAT
23188310 GTAATATGTA
Statistics
Matches: 72, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
10 5 0.07
11 3 0.04
12 38 0.53
13 18 0.25
14 2 0.03
15 2 0.03
16 4 0.06
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (12 bp):
TATAATAAAATA
Found at i:23188315 original size:17 final size:17
Alignment explanation
Indices: 23188257--23188331 Score: 69
Period size: 17 Copynumber: 4.2 Consensus size: 17
23188247 TTATAACCAA
*
23188257 AATATATAATAATATAT
1 AATATATAATAAAATAT
* *
23188274 ACCATATGATAAATAATATAA
1 A--ATAT-AT-AATAAAATAT
*
23188295 AATATATAATAAAATGT
1 AATATATAATAAAATAT
*
23188312 AATATGTAATAAAATAT
1 AATATATAATAAAATAT
23188329 AAT
1 AAT
23188332 GAAATATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 26 0.54
18 2 0.04
19 8 0.17
20 2 0.04
21 10 0.21
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.35
Consensus pattern (17 bp):
AATATATAATAAAATAT
Found at i:23188483 original size:27 final size:27
Alignment explanation
Indices: 23188427--23188498 Score: 74
Period size: 27 Copynumber: 2.6 Consensus size: 27
23188417 GTAATAATAC
*
23188427 ATAATAAAAAATAATAATATTATATAT
1 ATAATAAAAAATAATAACATTATATAT
* * *
23188454 ATAATAAAATATGATAACATGTA-ATTT
1 ATAATAAAAAATAATAACAT-TATATAT
*
23188481 ATAAATAAATAATAATAA
1 AT-AATAAAAAATAATAA
23188499 TAAAATAATA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (27 bp):
ATAATAAAAAATAATAACATTATATAT
Found at i:23188573 original size:19 final size:19
Alignment explanation
Indices: 23188533--23188579 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
23188523 TTACATAAAT
*
23188533 ATATTATTTTATACAATTA
1 ATATTATTTTATAAAATTA
*
23188552 ATATTTTTTTA-AAAATTGA
1 ATATTATTTTATAAAATT-A
*
23188571 ATAGTATTT
1 ATATTATTT
23188580 AAAATAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATTATTTTATAAAATTA
Found at i:23190301 original size:44 final size:44
Alignment explanation
Indices: 23190253--23190834 Score: 275
Period size: 44 Copynumber: 13.3 Consensus size: 44
23190243 CCTGACAAAG
* * *
23190253 CAGAGACGCCAAATCTGCTATTTTTTATCTGCTCTCCGTCAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * * *
23190297 CAGAGACACCAAA--T-C-ATCTTAGATTTACT-TCAACG-TAA-A
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTC--CGCCAATA
* * * * * *
23190336 CACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCTCTGCCAATA
1 CA-GAG-ACGCCAAATCTGCTA--TCTTTGATCTGCTCTCCGCCAATA
* * * *
23190384 CAGAGATGCTAAATCTGTTATCTTTGATCTGCTCTCTGCCAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * * *
23190428 CAGAAATGCCAAATTTGGTATCTTCGATCTGCTCTCCGCCAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * * *
23190472 CAGAGACGCCAAA--T-C-ATCTTAGATTTGCTTTAACG-TAA-A
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCT-CCGCCAATA
* * * * * * **
23190511 CACGTGAAAGCCAAATCAGTTGTCTTCGATCTGCTCTCTACCAATA
1 CA-GAG-ACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * * * * *
23190557 CAGAGATGCCAAAACTGTTATCTTCGATCTGCTTTCTGCTAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * *
23190601 CAGAGATGCCAAATCTGGTATCTTTGATCTGCTCACCGTCAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * * * *
23190645 CAGAAACGCCAAA--T-C-ATCTTAGATTTGCTTTAACG--AAAA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCT-CCGCCAATA
* * * * * * *
23190684 CACGTGAAAGCTAAATCAGCCATGTCTTCGATCTGCTCTCTGCCAATA
1 CA-GAG-ACGCCAAATCTG-C-TATCTTTGATCTGCTCTCCGCCAATA
* * * *
23190732 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGCCAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* * * *
23190776 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCACCAATA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
* *
23190820 CAGAAACTCCAAATC
1 CAGAGACGCCAAATC
23190835 ATCTTAGATT
Statistics
Matches: 409, Mismatches: 96, Indels: 66
0.72 0.17 0.12
Matches are distributed among these distances:
39 13 0.03
40 43 0.11
41 26 0.06
42 3 0.01
44 242 0.59
45 18 0.04
46 25 0.06
47 29 0.07
48 10 0.02
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCTCCGCCAATA
Found at i:23190522 original size:175 final size:175
Alignment explanation
Indices: 23190253--23190956 Score: 1097
Period size: 175 Copynumber: 4.0 Consensus size: 175
23190243 CCTGACAAAG
* * * ** * * *
23190253 CAGAGACGCCAAATCTGCTATTTTTTATCTGCTCTCCGTCAATACAGAGACACCAAATCATCTTA
1 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATCATCTTA
* * *
23190318 GATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCTCTGCCAAT
66 GATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAAT
* *
23190383 ACAGAGATGCTAAATCTGTTATCTTTGATCTGCTCTCTGCCAATA
131 ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATA
* * *
23190428 CAGAAATGCCAAATTTGGTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCATCTTA
1 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATCATCTTA
*
23190493 GATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAG-T-TGTCTTCGATCTGCTCTCTACCAAT
66 GATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAAT
* * *
23190556 ACAGAGATGCCAAAACTGTTATCTTCGATCTGCTTTCTGCTAATA
131 ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATA
* * *
23190601 CAGAGATGCCAAATCTGGTATCTTTGATCTGCTCACCGTCAATACAGAAACGCCAAATCATCTTA
1 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATCATCTTA
* * *
23190666 GATTTGCTTTAACGAAAACACGTGAAAGCTAAATCAGCCATGTCTTCGATCTGCTCTCTGCCAAT
66 GATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAAT
*
23190731 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGCCAATA
131 ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATA
* *
23190776 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCACCAATACAGAAACTCCAAATCATCTTA
1 CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATCATCTTA
* *
23190841 GATTTGTTTTAACGTAAACACGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCTCTGCCAAT
66 GATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAAT
* *
23190906 ACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTACCAATA
131 ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATA
23190951 CAGAGA
1 CAGAGA
23190957 CACTAAATCA
Statistics
Matches: 482, Mismatches: 45, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
173 157 0.33
174 1 0.00
175 324 0.67
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (175 bp):
CAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCGCCAATACAGAAACGCCAAATCATCTTA
GATTTGCTTTAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTGCTCTCTGCCAAT
ACAGAGATGCCAAATCTGTTATCTTCGATCTGCTCTCTGCCAATA
Found at i:23190787 original size:348 final size:350
Alignment explanation
Indices: 23190253--23190957 Score: 1144
Period size: 348 Copynumber: 2.0 Consensus size: 350
23190243 CCTGACAAAG
* * * *
23190253 CAGAGACGCCAAATCTGCTATTTTTTATCTGCTCTCCGTCAATACAGAGACACCAAATCATCTTA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCACCGTCAATACAGAAACACCAAATCATCTTA
* *
23190318 GATTTACTTCAACGTAAACACGTGAAAGCCAAATCAGCTATGTCTTCGATCTACTCTCTGCCAAT
66 GATTTACTTCAACGAAAACACGTGAAAGCCAAATCAGCCATGTCTTCGATCTACTCTCTGCCAAT
* * * *
23190383 ACAGAGATGCTAAATCTGTTATCTTTGATCTGCTCTCTGCCAATACAGAAATGCCAAATTTGGTA
131 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGCCAATACAGAAATGCCAAATCTGGTA
* *
23190448 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTTAACGTAAACA
196 TCTTCGATCTGCTCTCCACCAATACAGAAACGCCAAATCATCTTAGATTTGCTTTAACGTAAACA
*
23190513 CGTGAAAGCCAAATCAG-T-TGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAAACTGTT
261 CGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAAACTATT
* * *
23190576 ATCTTCGATCTGCTTTCTGCTAATA
326 ATCTTCGATCTGCTCTCTACCAATA
* * *
23190601 CAGAGATGCCAAATCTGGTATCTTTGATCTGCTCACCGTCAATACAGAAACGCCAAATCATCTTA
1 CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCACCGTCAATACAGAAACACCAAATCATCTTA
* * * *
23190666 GATTTGCTTTAACGAAAACACGTGAAAGCTAAATCAGCCATGTCTTCGATCTGCTCTCTGCCAAT
66 GATTTACTTCAACGAAAACACGTGAAAGCCAAATCAGCCATGTCTTCGATCTACTCTCTGCCAAT
*
23190731 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGGTA
131 ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGCCAATACAGAAATGCCAAATCTGGTA
* *
23190796 TCTTCGATCTGCTCTCCACCAATACAGAAACTCCAAATCATCTTAGATTTGTTTTAACGTAAACA
196 TCTTCGATCTGCTCTCCACCAATACAGAAACGCCAAATCATCTTAGATTTGCTTTAACGTAAACA
* *
23190861 CGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATT
261 CGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAAACTATT
23190926 ATCTTCGATCTGCTCTCTACCAATA
326 ATCTTCGATCTGCTCTCTACCAATA
23190951 CAGAGAC
1 CAGAGAC
23190958 ACTAAATCAT
Statistics
Matches: 326, Mismatches: 29, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
348 255 0.78
349 1 0.00
350 70 0.21
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.30
Consensus pattern (350 bp):
CAGAGACGCCAAATCTGCTATCTTTGATCTGCTCACCGTCAATACAGAAACACCAAATCATCTTA
GATTTACTTCAACGAAAACACGTGAAAGCCAAATCAGCCATGTCTTCGATCTACTCTCTGCCAAT
ACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCTGCCAATACAGAAATGCCAAATCTGGTA
TCTTCGATCTGCTCTCCACCAATACAGAAACGCCAAATCATCTTAGATTTGCTTTAACGTAAACA
CGTGAAAGCCAAATCAGTTATGTCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAAACTATT
ATCTTCGATCTGCTCTCTACCAATA
Found at i:23190891 original size:131 final size:131
Alignment explanation
Indices: 23190752--23191052 Score: 478
Period size: 131 Copynumber: 2.3 Consensus size: 131
23190742 AAATCTGGTA
*
23190752 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGGTATCTTCGATCTGCTCTCCACCA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTAGTATCTTCGATCTGCTCTCCACCA
* * * *
23190817 ATACAGAAACTCCAAATCATCTTAGATTTG-TTTTAACGTAAACACGTGAAAGCCAAATCAGTTA
66 ATACAGAAACACCAAATCATCTTAGATTTGCTTTT-ACGTAAACACGTAAAAACCAAATCAGCTA
23190881 TG
130 TG
* *
23190883 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTATCTTCGATCTGCTCTCTACCA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTAGTATCTTCGATCTGCTCTCCACCA
* *
23190948 ATACAGAGACACTAAATCATCTTAGATTTGCTTTTACGTAAACACGTAAAAACCAAATCAGCTAT
66 ATACAGAAACACCAAATCATCTTAGATTTGCTTTTACGTAAACACGTAAAAACCAAATCAGCTAT
23191013 G
131 G
* * *
23191014 TCTTCGATCTACTCCCTGCCAATACAGAGACGCCAAATC
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATC
23191053 ATCTTAGATT
Statistics
Matches: 157, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
131 153 0.97
132 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (131 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTAGTATCTTCGATCTGCTCTCCACCA
ATACAGAAACACCAAATCATCTTAGATTTGCTTTTACGTAAACACGTAAAAACCAAATCAGCTAT
G
Found at i:23190965 original size:44 final size:44
Alignment explanation
Indices: 23190360--23190956 Score: 426
Period size: 44 Copynumber: 13.7 Consensus size: 44
23190350 ATCAGCTATG
* *
23190360 TCTTCGATCTACTCTCTGCCAATACAGAGATGCTAAATCTGTTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * * *
23190404 TCTTTGATCTGCTCTCTGCCAATACAGAAATGCCAAATTTGGTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* *
23190448 TCTTCGATCTGCTCTCCGCCAATACAGAGACGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * * * * * * *
23190488 TCTTAGATTTGCT-T-TAACGTAA-ACACGTGAAAGCCAAATCAGTTG
1 TCTTCGATCTGCTCTCT-GC-CAATACA-GAG-ATGCCAAATCTGTTA
* *
23190533 TCTTCGATCTGCTCTCTACCAATACAGAGATGCCAAAACTGTTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * *
23190577 TCTTCGATCTGCTTTCTGCTAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * * * * *
23190621 TCTTTGATCTGCTCACCGTCAATACAGAAACGCCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
* * * * * * * * * * *
23190661 TCTTAGATTTGCT-T-TAACGAAAACACGTGAAAGCTAAATCAGCCATG
1 TCTTCGATCTGCTCTCT-GCCAATACA-GAG-ATGCCAAATCTG--TTA
*
23190708 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
*
23190752 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGGTA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
** *
23190796 TCTTCGATCTGCTCTCCACCAATACAGAAACT-CCAAATC----A
1 TCTTCGATCTGCTCTCTGCCAATACAGAGA-TGCCAAATCTGTTA
* * * * * * * *
23190836 TCTTAGATTTG-T-TTTAACGTAA-ACACGTGAAAGCCAAATCAGTTA
1 TCTTCGATCTGCTCTCT-GC-CAATACA-GAG-ATGCCAAATCTGTTA
*
23190881 TGTCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTATTA
1 --TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
*
23190927 TCTTCGATCTGCTCTCTACCAATACAGAGA
1 TCTTCGATCTGCTCTCTGCCAATACAGAGA
23190957 CACTAAATCA
Statistics
Matches: 431, Mismatches: 85, Indels: 74
0.73 0.14 0.13
Matches are distributed among these distances:
38 1 0.00
39 16 0.04
40 42 0.10
41 25 0.06
44 261 0.61
45 17 0.04
46 27 0.06
47 27 0.06
48 12 0.03
49 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.30
Consensus pattern (44 bp):
TCTTCGATCTGCTCTCTGCCAATACAGAGATGCCAAATCTGTTA
Found at i:23191040 original size:87 final size:87
Alignment explanation
Indices: 23190927--23191139 Score: 318
Period size: 87 Copynumber: 2.4 Consensus size: 87
23190917 AAATCTATTA
* * * **
23190927 TCTTCGATCTGCTCTCTACCAATACAGAGACACTAAATCATCTTAGATTTGCTTTTACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACA
*
23190992 CGTAAAAACCAAATCAGCTATG
66 CGTAAAAACCAAACCAGCTATG
* *
23191014 TCTTCGATCTACTCCCTGCCAATACAGAGACGCCAAATCATCTTAGATTTGCTTCAACGTAAACA
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACA
* *
23191079 CGTGAAAGCCAAACCAGCTATG
66 CGTAAAAACCAAACCAGCTATG
**
23191101 TCTTCGATCTGCTCCCTGCCAATACAGAGATGCCAAATC
1 TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATC
23191140 TGTTGTCTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
87 114 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.27
Consensus pattern (87 bp):
TCTTCGATCTGCTCCCTGCCAATACAGAGACACCAAATCATCTTAGATTTGCTTCAACGTAAACA
CGTAAAAACCAAACCAGCTATG
Found at i:23192114 original size:8 final size:8
Alignment explanation
Indices: 23192101--23192140 Score: 53
Period size: 8 Copynumber: 4.6 Consensus size: 8
23192091 GCCTCTCCAC
23192101 TTTTTCTT
1 TTTTTCTT
23192109 TTTTTCTTTT
1 TTTTTC--TT
23192119 TTTTTCTT
1 TTTTTCTT
23192127 TTTTTCTCT
1 TTTTTCT-T
23192136 TTTTT
1 TTTTT
23192141 TTTGAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 15 0.52
9 6 0.21
10 8 0.28
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTCTT
Found at i:23192122 original size:10 final size:10
Alignment explanation
Indices: 23192107--23192143 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
23192097 CCACTTTTTC
23192107 TTTTTTTCTT
1 TTTTTTTCTT
23192117 TTTTTTTCTT
1 TTTTTTTCTT
*
23192127 TTTTTCTCTT
1 TTTTTTTCTT
23192137 TTTTTTT
1 TTTTTTT
23192144 GAAATAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTCTT
Found at i:23192124 original size:18 final size:19
Alignment explanation
Indices: 23192101--23192142 Score: 77
Period size: 18 Copynumber: 2.3 Consensus size: 19
23192091 GCCTCTCCAC
23192101 TTTTTCTTTTTTTCT-TTT
1 TTTTTCTTTTTTTCTCTTT
23192119 TTTTTCTTTTTTTCTCTTT
1 TTTTTCTTTTTTTCTCTTT
23192138 TTTTT
1 TTTTT
23192143 TGAAATAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (19 bp):
TTTTTCTTTTTTTCTCTTT
Found at i:23198579 original size:47 final size:47
Alignment explanation
Indices: 23198470--23198580 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
23198460 CCGGGATAAG
** *
23198470 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCAAAACTTTAACAGTATAGTA
* * *
23198517 CACAAAGTACTTCATCGGAACAAATCCAAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCAAAACTTTAACAGTA-TAGTA
23198564 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
23198581 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCAAAACTTTAACAGTATAGTA
Found at i:23199395 original size:4 final size:4
Alignment explanation
Indices: 23199378--23199418 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
23199368 TCTCTGTAAC
*
23199378 TCTT TCTA TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT TCTT T
23199419 TTAACTTACT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.73
Consensus pattern (4 bp):
TCTT
Found at i:23205753 original size:10 final size:10
Alignment explanation
Indices: 23205738--23205835 Score: 52
Period size: 10 Copynumber: 10.2 Consensus size: 10
23205728 TTATAACCAA
23205738 AATATATAAT
1 AATATATAAT
23205748 AATATATACCAT
1 AATATATA--AT
23205760 -ATGATA-AAT
1 AAT-ATATAAT
23205769 AATATA-AA-
1 AATATATAAT
23205777 AATATATAAT
1 AATATATAAT
*
23205787 AA-A-AT-GT
1 AATATATAAT
*
23205794 AATATGTAAT
1 AATATATAAT
*
23205804 AAAATATAAT
1 AATATATAAT
23205814 GAA-ATATGAAT
1 -AATATAT-AAT
*
23205825 ACTATA-AAT
1 AATATATAAT
23205834 AA
1 AA
23205836 GGATAATATA
Statistics
Matches: 69, Mismatches: 7, Indels: 25
0.68 0.07 0.25
Matches are distributed among these distances:
7 3 0.04
8 9 0.13
9 15 0.22
10 26 0.38
11 11 0.16
12 5 0.07
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.33
Consensus pattern (10 bp):
AATATATAAT
Found at i:23205803 original size:17 final size:17
Alignment explanation
Indices: 23205738--23205813 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
23205728 TTATAACCAA
*
23205738 AATATATAATAATATAT
1 AATATATAATAAAATAT
* *
23205755 ACCATATGATAAATAATATAAA
1 A--ATAT-AT-AATAAAAT-AT
*
23205777 AATATATAATAAAATGT
1 AATATATAATAAAATAT
*
23205794 AATATGTAATAAAATAT
1 AATATATAATAAAATAT
23205811 AAT
1 AAT
23205814 GAAATATGAA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
17 19 0.40
18 7 0.15
19 6 0.12
20 6 0.12
21 8 0.17
22 2 0.04
ACGTcount: A:0.59, C:0.03, G:0.04, T:0.34
Consensus pattern (17 bp):
AATATATAATAAAATAT
Found at i:23205820 original size:39 final size:38
Alignment explanation
Indices: 23205736--23205812 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 38
23205726 ACTTATAACC
* *
23205736 AAAATATATAATAATATATACCATATGATAAATAATATA
1 AAAATATATAATAAAATATA-CATATGATAAAAAATATA
*
23205775 AAAATATATAATAAAATGTA-ATATG-TAATAAAATATA
1 AAAATATATAATAAAATATACATATGATAA-AAAATATA
23205812 A
1 A
23205813 TGAAATATGA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 3 0.09
37 13 0.38
39 18 0.53
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (38 bp):
AAAATATATAATAAAATATACATATGATAAAAAATATA
Found at i:23205945 original size:27 final size:26
Alignment explanation
Indices: 23205899--23205994 Score: 81
Period size: 27 Copynumber: 3.7 Consensus size: 26
23205889 AATCAATGAG
23205899 TAATAATATATA-ATAAAAAATATAA
1 TAATAATATATATATAAAAAATATAA
* *
23205924 TAATATTATATATATAATAAAATATGA
1 TAATAATATATATATAA-AAAATATAA
* * *
23205951 TAA-CATGTAATTTATAAATAAATAATAA
1 TAATAATAT-ATATATAAA-AAAT-ATAA
*
23205979 TAAAAATATA-ATATAA
1 TAATAATATATATATAA
23205995 TATAATGAAT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
25 11 0.20
26 7 0.13
27 27 0.49
28 7 0.13
29 3 0.05
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (26 bp):
TAATAATATATATATAAAAAATATAA
Found at i:23206051 original size:18 final size:19
Alignment explanation
Indices: 23206016--23206066 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
23206006 TTACATAAAT
* *
23206016 ATATTATTTTATACAATTA
1 ATATTATTTTAAAAAATTA
23206035 ATATT-TTTTAAAAAATTAA
1 ATATTATTTTAAAAAATT-A
*
23206054 ATAGTA-TTTAAAA
1 ATATTATTTTAAAA
23206067 TAAACTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 17 0.63
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (19 bp):
ATATTATTTTAAAAAATTA
Found at i:23211058 original size:118 final size:118
Alignment explanation
Indices: 23210850--23211087 Score: 458
Period size: 118 Copynumber: 2.0 Consensus size: 118
23210840 GGTTTAGGCA
23210850 CTTGAGAGGGTTGTTGGAACCCATTTAGGATCAAGAAGTCGAGGGTCGATTATTGAACAACTTCG
1 CTTGAGAGGGTTGTTGGAACCCATTTAGGATCAAGAAGTCGAGGGTCGATTATTGAACAACTTCG
*
23210915 TTCAAATGGGGTTGAACTGTTTAGGGGAGTCATTGGAGTTGCTCCTACTGTTG
66 TTCAAATAGGGTTGAACTGTTTAGGGGAGTCATTGGAGTTGCTCCTACTGTTG
*
23210968 CTTGAGAGGGTTGTTGGAACCCATTTAGGATCAGGAAGTCGAGGGTCGATTATTGAACAACTTCG
1 CTTGAGAGGGTTGTTGGAACCCATTTAGGATCAAGAAGTCGAGGGTCGATTATTGAACAACTTCG
23211033 TTCAAATAGGGTTGAACTGTTTAGGGGAGTCATTGGAGTTGCTCCTACTGTTG
66 TTCAAATAGGGTTGAACTGTTTAGGGGAGTCATTGGAGTTGCTCCTACTGTTG
23211086 CT
1 CT
23211088 GAGTATTGGC
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
118 118 1.00
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.32
Consensus pattern (118 bp):
CTTGAGAGGGTTGTTGGAACCCATTTAGGATCAAGAAGTCGAGGGTCGATTATTGAACAACTTCG
TTCAAATAGGGTTGAACTGTTTAGGGGAGTCATTGGAGTTGCTCCTACTGTTG
Found at i:23214239 original size:17 final size:16
Alignment explanation
Indices: 23214217--23214261 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
23214207 CGTACTTTTA
23214217 TCATACATTCAATCATT
1 TCATACATTCAATCA-T
*
23214234 TCATACAATC-ATCAT
1 TCATACATTCAATCAT
23214249 TCA-A-ATTCAATCA
1 TCATACATTCAATCA
23214262 ATTTATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
13 3 0.12
14 5 0.20
15 4 0.16
16 4 0.16
17 9 0.36
ACGTcount: A:0.40, C:0.24, G:0.00, T:0.36
Consensus pattern (16 bp):
TCATACATTCAATCAT
Found at i:23218841 original size:2 final size:2
Alignment explanation
Indices: 23218834--23218860 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23218824 TGCTAAAGTG
23218834 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
23218861 GCATGATATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23218914 original size:13 final size:14
Alignment explanation
Indices: 23218896--23218926 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
23218886 GAGAAAGCAT
23218896 ATACACATATAA-A
1 ATACACATATAATA
23218909 ATACACATATAATA
1 ATACACATATAATA
23218923 ATAC
1 ATAC
23218927 TCGAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.26
Consensus pattern (14 bp):
ATACACATATAATA
Found at i:23219149 original size:21 final size:21
Alignment explanation
Indices: 23219125--23219186 Score: 54
Period size: 21 Copynumber: 3.0 Consensus size: 21
23219115 AGGAATAATG
* *
23219125 AAACATGTATGACATGTATAT
1 AAACATATATGACATATATAT
* *
23219146 AAACCTATATGATATATATAT
1 AAACATATATGACATATATAT
* * *
23219167 ATATATATAT-ATATATATAT
1 AAACATATATGACATATATAT
23219187 TTATATTGAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
20 10 0.29
21 24 0.71
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (21 bp):
AAACATATATGACATATATAT
Found at i:23219162 original size:2 final size:2
Alignment explanation
Indices: 23219151--23219192 Score: 66
Period size: 2 Copynumber: 20.5 Consensus size: 2
23219141 TATATAAACC
*
23219151 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
23219193 TGAAAATGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 35 0.95
3 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23219541 original size:26 final size:25
Alignment explanation
Indices: 23219478--23219549 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
23219468 ATATTACATA
* *
23219478 AATATGTTATAAAAACT-TAATAAT
1 AATATATTATAATAACTATAATAAT
*
23219502 ACATATATGATAATAACTATAATAAT
1 A-ATATATTATAATAACTATAATAAT
*
23219528 AATATATTAGTAATAAATATAA
1 AATATATTA-TAATAACTATAA
23219550 GAAGAATAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.03
25 20 0.50
26 19 0.47
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.36
Consensus pattern (25 bp):
AATATATTATAATAACTATAATAAT
Found at i:23219557 original size:26 final size:25
Alignment explanation
Indices: 23219504--23219557 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
23219494 TTAATAATAC
* * *
23219504 ATATATGATAATAACTATAATAATA
1 ATATATGATAATAAATATAAGAAGA
*
23219529 ATATATTAGTAATAAATATAAGAAGA
1 ATATATGA-TAATAAATATAAGAAGA
23219555 ATA
1 ATA
23219558 AAAATAACAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.33
Consensus pattern (25 bp):
ATATATGATAATAAATATAAGAAGA
Found at i:23220734 original size:24 final size:24
Alignment explanation
Indices: 23220707--23220752 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
23220697 GAGATGGGTA
23220707 TGGGTTTT-GAGTAGGTTTAGTTAT
1 TGGGTTTTGGAGTAGG-TTAGTTAT
*
23220731 TGGGTTTTGGGGTAGGTTAGTT
1 TGGGTTTTGGAGTAGGTTAGTT
23220753 GGGTTTTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.13, C:0.00, G:0.39, T:0.48
Consensus pattern (24 bp):
TGGGTTTTGGAGTAGGTTAGTTAT
Found at i:23220756 original size:21 final size:20
Alignment explanation
Indices: 23220726--23220764 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
23220716 AGTAGGTTTA
23220726 GTTATTGGGTTTTGGGGTAG
1 GTTATTGGGTTTTGGGGTAG
23220746 GTTAGTTGGGTTTTGGGGT
1 GTTA-TTGGGTTTTGGGGT
23220765 TTAATGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.08, C:0.00, G:0.46, T:0.46
Consensus pattern (20 bp):
GTTATTGGGTTTTGGGGTAG
Found at i:23220790 original size:87 final size:87
Alignment explanation
Indices: 23220685--23220864 Score: 342
Period size: 87 Copynumber: 2.1 Consensus size: 87
23220675 TTGTTTAGGC
23220685 TTAGTTTAGGATGAGATGGGTATGGGTTTTGAGTAGGTTTAGTTATTGGGTTTTGGGGTAGGTTA
1 TTAG-TTAGGATGAGATGGGTATGGGTTTTGAGTAGGTTTAGTTATTGGGTTTTGGGGTAGGTTA
23220750 GTTGGGTTTTGGGGTTTAATGGG
65 GTTGGGTTTTGGGGTTTAATGGG
*
23220773 TTAGTTAGGATGAGATGGGTATGGGTTTTGAGTAGGTTTAGTTATTGGGTTTTGGGGTGGGTTAG
1 TTAGTTAGGATGAGATGGGTATGGGTTTTGAGTAGGTTTAGTTATTGGGTTTTGGGGTAGGTTAG
23220838 TTGGGTTTTGGGGTTTAATGGG
66 TTGGGTTTTGGGGTTTAATGGG
23220860 TTAGT
1 TTAGT
23220865 GATTTAATGG
Statistics
Matches: 91, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 87 0.96
88 4 0.04
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.43
Consensus pattern (87 bp):
TTAGTTAGGATGAGATGGGTATGGGTTTTGAGTAGGTTTAGTTATTGGGTTTTGGGGTAGGTTAG
TTGGGTTTTGGGGTTTAATGGG
Found at i:23220843 original size:21 final size:20
Alignment explanation
Indices: 23220813--23220851 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
23220803 AGTAGGTTTA
23220813 GTTATTGGGTTTTGGGGTGG
1 GTTATTGGGTTTTGGGGTGG
23220833 GTTAGTTGGGTTTTGGGGT
1 GTTA-TTGGGTTTTGGGGT
23220852 TTAATGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.05, C:0.00, G:0.49, T:0.46
Consensus pattern (20 bp):
GTTATTGGGTTTTGGGGTGG
Found at i:23220854 original size:42 final size:42
Alignment explanation
Indices: 23220720--23220854 Score: 125
Period size: 42 Copynumber: 3.1 Consensus size: 42
23220710 GTTTTGAGTA
*
23220720 GGTTTAGTTATTGGGTTTTGGGGTAGGTTAGTTGGGTTTTGG
1 GGTTTAGTTATTGGGTTTTGGGGTGGGTTAGTTGGGTTTTGG
* * * **
23220762 GGTTTA---A-TGGGTTAGTTAGGATGAGATGGGTATGGGTTTTGAG
1 GGTTTAGTTATTGGGTT--TTGGGGTG-GGTTAGT-TGGGTTTTG-G
23220805 TAGGTTTAGTTATTGGGTTTTGGGGTGGGTTAGTTGGGTTTTGG
1 --GGTTTAGTTATTGGGTTTTGGGGTGGGTTAGTTGGGTTTTGG
23220849 GGTTTA
1 GGTTTA
23220855 ATGGGTTAGT
Statistics
Matches: 71, Mismatches: 11, Indels: 22
0.68 0.11 0.21
Matches are distributed among these distances:
38 6 0.08
39 1 0.01
40 5 0.07
41 4 0.06
42 21 0.30
43 1 0.01
44 1 0.01
45 15 0.21
46 4 0.06
47 6 0.08
48 1 0.01
49 6 0.08
ACGTcount: A:0.13, C:0.00, G:0.42, T:0.44
Consensus pattern (42 bp):
GGTTTAGTTATTGGGTTTTGGGGTGGGTTAGTTGGGTTTTGG
Found at i:23225709 original size:17 final size:16
Alignment explanation
Indices: 23225687--23225738 Score: 56
Period size: 17 Copynumber: 3.3 Consensus size: 16
23225677 ATCCTACTTG
23225687 CCACTAACTCCATCACC
1 CCACTAACTCCAT-ACC
*
23225704 CCACTAA--AC-TACC
1 CCACTAACTCCATACC
23225717 CCACTAACTCCATTACC
1 CCACTAACTCCA-TACC
23225734 CCACT
1 CCACT
23225739 TGCCACCATG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 10 0.34
14 1 0.03
15 2 0.07
17 16 0.55
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (16 bp):
CCACTAACTCCATACC
Found at i:23226215 original size:10 final size:10
Alignment explanation
Indices: 23226195--23226231 Score: 56
Period size: 10 Copynumber: 3.6 Consensus size: 10
23226185 TTTTTTTGTA
23226195 TATTTTCATTC
1 TATTTT-ATTC
23226206 TATTTTATTC
1 TATTTTATTC
*
23226216 TATTTTATTA
1 TATTTTATTC
23226226 TATTTT
1 TATTTT
23226232 CTCTTTTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 19 0.76
11 6 0.24
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTTATTC
Found at i:23226372 original size:21 final size:20
Alignment explanation
Indices: 23226335--23226373 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
23226325 TATATATATA
*
23226335 TATATATATATATTGTTTTG
1 TATATATATATACTGTTTTG
*
23226355 TATATCATTTATACTGTTT
1 TATAT-ATATATACTGTTT
23226374 CGTTACAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.28, C:0.05, G:0.08, T:0.59
Consensus pattern (20 bp):
TATATATATATACTGTTTTG
Found at i:23227062 original size:35 final size:34
Alignment explanation
Indices: 23227023--23227104 Score: 128
Period size: 35 Copynumber: 2.4 Consensus size: 34
23227013 ACTTGCCTCT
*
23227023 TCCCACTCTCCCATGCTGTCTGCCACCAGCACCA
1 TCCCACTCTCCCATGCTGTCTACCACCAGCACCA
23227057 CTCCCACTCTCCCATGCTGTCTACCACCAGCACCA
1 -TCCCACTCTCCCATGCTGTCTACCACCAGCACCA
* *
23227092 TCACACACTCCCA
1 TCCCACTCTCCCA
23227105 CCGCACCTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
34 11 0.25
35 33 0.75
ACGTcount: A:0.21, C:0.51, G:0.09, T:0.20
Consensus pattern (34 bp):
TCCCACTCTCCCATGCTGTCTACCACCAGCACCA
Found at i:23227639 original size:18 final size:18
Alignment explanation
Indices: 23227613--23227651 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
23227603 CTCCCTTCTC
*
23227613 TCTCCCTTCTCTCTCCCT
1 TCTCCCTTCCCTCTCCCT
* *
23227631 TCTCTCTTCCCTCTCTCT
1 TCTCCCTTCCCTCTCCCT
23227649 TCT
1 TCT
23227652 TTTTTTTCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (18 bp):
TCTCCCTTCCCTCTCCCT
Found at i:23227650 original size:11 final size:11
Alignment explanation
Indices: 23227603--23227648 Score: 76
Period size: 11 Copynumber: 4.2 Consensus size: 11
23227593 CCAGATTCCC
23227603 CTCCCTTCTCT
1 CTCCCTTCTCT
23227614 CTCCCTTCTCT
1 CTCCCTTCTCT
23227625 CTCCCTTCTCT
1 CTCCCTTCTCT
23227636 CTTCCC-TCTCT
1 C-TCCCTTCTCT
23227647 CT
1 CT
23227649 TCTTTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 1 0.03
11 29 0.85
12 4 0.12
ACGTcount: A:0.00, C:0.54, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCCCTTCTCT
Found at i:23228132 original size:3 final size:3
Alignment explanation
Indices: 23228124--23228393 Score: 189
Period size: 3 Copynumber: 88.0 Consensus size: 3
23228114 TGCATTTCAA
23228124 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23228171 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
23228218 TAT TAT TGT TGT TGT TAT TGA- AAT ACAT TAGT GTAT ATCT TCAT GTAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT -TAT TA-T -TAT -TAT T-AT -TAT
* * * * *
23228266 GTA- TAT ATAT ATAT GTAG TAA TGT T-T CTAT TAC T-T TAT T-T TAA
1 -TAT TAT -TAT -TAT -TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT
* * ** * *
23228309 TAT TTT TAT TAT AAT GGCT T-T TGT GT-T TCAA TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT -TAT TAT TAT -TAT T-AT TAT TAT TAT TAT TAT
23228355 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
23228394 ATATCCTTGT
Statistics
Matches: 222, Mismatches: 25, Indels: 40
0.77 0.09 0.14
Matches are distributed among these distances:
2 14 0.06
3 179 0.81
4 26 0.12
5 3 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:23228667 original size:33 final size:30
Alignment explanation
Indices: 23228609--23228678 Score: 86
Period size: 33 Copynumber: 2.2 Consensus size: 30
23228599 TAATATTATG
*
23228609 TATATATTTTAATATTATCAGTTATATATA
1 TATATATTTTAATACTATCAGTTATATATA
* *
23228639 CTATATGATTTCTAATACTATTATTTATATATA
1 -TATAT-ATTT-TAATACTATCAGTTATATATA
23228672 TATATAT
1 TATATAT
23228679 ATATTTTCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
31 7 0.21
32 9 0.26
33 18 0.53
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (30 bp):
TATATATTTTAATACTATCAGTTATATATA
Found at i:23232616 original size:40 final size:40
Alignment explanation
Indices: 23232561--23232637 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
23232551 ATCATGGAAC
23232561 ATTTACCTAAACCATTATCATGGAACATTTACCTAACAAT
1 ATTTACCTAAACCATTATCATGGAACATTTACCTAACAAT
*
23232601 ATTTACCTAATCCATTATCATGGAACATTTACCTAAC
1 ATTTACCTAAACCATTATCATGGAACATTTACCTAAC
23232638 CCATTATCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (40 bp):
ATTTACCTAAACCATTATCATGGAACATTTACCTAACAAT
Done.