Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 48 of 175
Found at i:13825669 original size:13 final size:13
Alignment explanation
Indices: 13825651--13825675 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13825641 TATTTAGCTA
13825651 GTATTTGACTAGG
1 GTATTTGACTAGG
13825664 GTATTTGACTAG
1 GTATTTGACTAG
13825676 TTAGGCTCGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.08, G:0.28, T:0.40
Consensus pattern (13 bp):
GTATTTGACTAGG
Found at i:13832413 original size:41 final size:41
Alignment explanation
Indices: 13832353--13832460 Score: 112
Period size: 41 Copynumber: 2.6 Consensus size: 41
13832343 ATTCAAGCTC
* * ***
13832353 TATGCCTAGCAGGCCTTATG-TCGGTGAATTTTATCAGGCTT
1 TATGCCTAGCAAGCTTTATGCT-GGTGAATCAGATCAGGCTT
* *
13832394 TATGCCTAGCAAGCTTTATGCTGGTGTATCAGATCCGGCTT
1 TATGCCTAGCAAGCTTTATGCTGGTGAATCAGATCAGGCTT
*
13832435 TATGCCTAGTAAGCTTCT-TGCTGGTG
1 TATGCCTAGCAAGCTT-TATGCTGGTG
13832461 TATAATATCT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
41 55 0.96
42 2 0.04
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
TATGCCTAGCAAGCTTTATGCTGGTGAATCAGATCAGGCTT
Found at i:13832498 original size:41 final size:41
Alignment explanation
Indices: 13832392--13832498 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 41
13832382 TTTATCAGGC
* * * *
13832392 TTTATGCCTAGCAAGCTTTATGCTGGTGTATCAGATCCGGC
1 TTTATGACTAGTAAGCTTTATGCTGGTGTATAAGATCCGGA
* * *
13832433 TTTATGCCTAGTAAGCTTCT-TGCTGGTGTATAATATCTGGA
1 TTTATGACTAGTAAGCTT-TATGCTGGTGTATAAGATCCGGA
* * *
13832474 TTTGTGATTAGTAGGCTTTATGCTG
1 TTTATGACTAGTAAGCTTTATGCTG
13832499 ATGTGGTATC
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 53 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.16, G:0.24, T:0.40
Consensus pattern (41 bp):
TTTATGACTAGTAAGCTTTATGCTGGTGTATAAGATCCGGA
Found at i:13834963 original size:24 final size:24
Alignment explanation
Indices: 13834936--13834986 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
13834926 GAGGATGGGG
13834936 GTAGGATTATGTATATATGTATCT
1 GTAGGATTATGTATATATGTATCT
13834960 GTAGGATTATGTATATATGTATCT
1 GTAGGATTATGTATATATGTATCT
13834984 GTA
1 GTA
13834987 TGATCCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (24 bp):
GTAGGATTATGTATATATGTATCT
Found at i:13840775 original size:27 final size:27
Alignment explanation
Indices: 13840735--13840958 Score: 202
Period size: 27 Copynumber: 8.3 Consensus size: 27
13840725 AATGGGCCTT
* * **
13840735 TAAAATTATCGAAATACTTTCGATGGG
1 TAAAATGATTGAAATACCCTCGATGGG
13840762 TAAAATGATTGAAATACCCTCGATGGG
1 TAAAATGATTGAAATACCCTCGATGGG
**
13840789 TAAAATGACCGAAATACCCTCGATGGG
1 TAAAATGATTGAAATACCCTCGATGGG
* *
13840816 TAAAA-AAATGAAATACCCTCGATGGG
1 TAAAATGATTGAAATACCCTCGATGGG
* * *
13840842 TAAAATTATTGAAATACCCCCGAAGGG
1 TAAAATGATTGAAATACCCTCGATGGG
* * * **
13840869 TAAAGTGACTAAAATACCCTTTATGGG
1 TAAAATGATTGAAATACCCTCGATGGG
* * *
13840896 TAAAATTACTGAAATACCC-CCATAGGG
1 TAAAATGATTGAAATACCCTCGAT-GGG
* * * *
13840923 TAAAATTAATGAAATACCC-CTATAAGG
1 TAAAATGATTGAAATACCCTCGAT-GGG
13840950 TAAAATGAT
1 TAAAATGAT
13840959 CGTTATACCC
Statistics
Matches: 164, Mismatches: 31, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
26 25 0.15
27 139 0.85
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (27 bp):
TAAAATGATTGAAATACCCTCGATGGG
Found at i:13840812 original size:54 final size:54
Alignment explanation
Indices: 13840735--13840941 Score: 229
Period size: 54 Copynumber: 3.9 Consensus size: 54
13840725 AATGGGCCTT
* ** *
13840735 TAAAATTATCGAAATACTTTCGATGGGTAAAATGATTGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGGTAAAATGAATGAAATACCCTCGATGGG
* *
13840789 TAAAATGACCGAAATACCCTCGATGGGTAAAA-AAATGAAATACCCTCGATGGG
1 TAAAATTACCGAAATACCCTCGATGGGTAAAATGAATGAAATACCCTCGATGGG
** * * * * * **
13840842 TAAAATTATTGAAATACCCCCGAAGGGTAAAGTGACTAAAATACCCTTTATGGG
1 TAAAATTACCGAAATACCCTCGATGGGTAAAATGAATGAAATACCCTCGATGGG
* * *
13840896 TAAAATTACTGAAATACCC-CCATAGGGTAAAATTAATGAAATACCC
1 TAAAATTACCGAAATACCCTCGAT-GGGTAAAATGAATGAAATACCC
13840942 CTATAAGGTA
Statistics
Matches: 127, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
53 47 0.37
54 80 0.63
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (54 bp):
TAAAATTACCGAAATACCCTCGATGGGTAAAATGAATGAAATACCCTCGATGGG
Found at i:13840884 original size:80 final size:81
Alignment explanation
Indices: 13840745--13840942 Score: 247
Period size: 80 Copynumber: 2.5 Consensus size: 81
13840735 TAAAATTATC
** * * * *
13840745 GAAATACTTTCGATGGGTAAAATGATTGAAATACCCTCGATGGGTAAAATGACCGAAATACCCTC
1 GAAATACCCTCGATGGGTAAAATTATTGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCTC
13840810 GATGGGTAAAA-AAAT
66 GATGGGTAAAATAAAT
* * *
13840825 GAAATACCCTCGATGGGTAAAATTATTGAAATACCCCCGAAGGGTAAAGTGACTAAAATACCCTT
1 GAAATACCCTCGATGGGTAAAATTATTGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCTC
* * *
13840890 TATGGGTAAAATTACT
66 GATGGGTAAAATAAAT
* *
13840906 GAAATACCC-CCATAGGGTAAAATTAATGAAATACCCC
1 GAAATACCCTCGAT-GGGTAAAATTATTGAAATACCCC
13840943 TATAAGGTAA
Statistics
Matches: 102, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
80 69 0.68
81 33 0.32
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.24
Consensus pattern (81 bp):
GAAATACCCTCGATGGGTAAAATTATTGAAATACCCCCGAAGGGTAAAATGACCAAAATACCCTC
GATGGGTAAAATAAAT
Found at i:13841229 original size:26 final size:26
Alignment explanation
Indices: 13841125--13841252 Score: 96
Period size: 26 Copynumber: 4.9 Consensus size: 26
13841115 AGGGGAAGTA
* * *
13841125 TACTG-TACTGGTGGCTTTGCTACAAA
1 TACTGTTACTGGTAGCTTTGCTGC-AT
* ** * *
13841151 TACTATTACTGACAGTTTTGCTGCGT
1 TACTGTTACTGGTAGCTTTGCTGCAT
* * *
13841177 TACTGATACTGGTAGCTCTGCTACAT
1 TACTGTTACTGGTAGCTTTGCTGCAT
*
13841203 TACTGTTACTGGTAGCTTTGTTGCAT
1 TACTGTTACTGGTAGCTTTGCTGCAT
* * * *
13841229 TACTATTACAGGCATCTTTGCTGC
1 TACTGTTACTGGTAGCTTTGCTGC
13841253 GATATTAGTG
Statistics
Matches: 76, Mismatches: 25, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
26 63 0.83
27 13 0.17
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (26 bp):
TACTGTTACTGGTAGCTTTGCTGCAT
Found at i:13841232 original size:52 final size:52
Alignment explanation
Indices: 13841125--13841232 Score: 119
Period size: 52 Copynumber: 2.1 Consensus size: 52
13841115 AGGGGAAGTA
* * * *
13841125 TACTGTACTGGTGGCTTTGCTACAAATACTATTACTGACAGTTTTGCTGCGT
1 TACTGTACTGGTAGCTCTGCTACAAATACTATTACTGACAGCTTTGCTGCAT
* * ** *
13841177 TACTGATACTGGTAGCTCTGCTAC-ATTACTGTTACTGGTAGCTTTGTTGCAT
1 TACTG-TACTGGTAGCTCTGCTACAAATACTATTACTGACAGCTTTGCTGCAT
13841229 TACT
1 TACT
13841233 ATTACAGGCA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
52 30 0.65
53 16 0.35
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.40
Consensus pattern (52 bp):
TACTGTACTGGTAGCTCTGCTACAAATACTATTACTGACAGCTTTGCTGCAT
Found at i:13841405 original size:30 final size:30
Alignment explanation
Indices: 13841359--13841446 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
13841349 ACTGCATTTG
*
13841359 CACTATTACTGAATTGGGCTAAGGCCCACA
1 CACTATTACTGTATTGGGCTAAGGCCCACA
* * * * * *
13841389 CTCTGTTATTGTATTGGGTTATGACCCACA
1 CACTATTACTGTATTGGGCTAAGGCCCACA
* *
13841419 CACTATTACTGTATAGGGCTCAGGCCCA
1 CACTATTACTGTATTGGGCTAAGGCCCA
13841447 GACTGATTCT
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (30 bp):
CACTATTACTGTATTGGGCTAAGGCCCACA
Found at i:13843404 original size:25 final size:26
Alignment explanation
Indices: 13843351--13843410 Score: 77
Period size: 25 Copynumber: 2.3 Consensus size: 26
13843341 TATTTTCTCG
* *
13843351 AAATTTTACTAAGGGCAAAATCGTTA
1 AAATTTTACTAAGAGCAAAATCGTCA
* *
13843377 AAATTTTACTAA-AGTAAAATGGTCA
1 AAATTTTACTAAGAGCAAAATCGTCA
13843402 AAATTTTAC
1 AAATTTTAC
13843411 GAGGGGTAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 18 0.60
26 12 0.40
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (26 bp):
AAATTTTACTAAGAGCAAAATCGTCA
Found at i:13852321 original size:7 final size:7
Alignment explanation
Indices: 13852309--13852534 Score: 62
Period size: 7 Copynumber: 31.7 Consensus size: 7
13852299 CTAATTAATA
13852309 TAAACCC
1 TAAACCC
13852316 TAAACCCC
1 TAAA-CCC
*
13852324 T-ATCCC
1 TAAACCC
* *
13852330 TTATCCCC
1 TAAAC-CC
13852338 TAAACCC
1 TAAACCC
* *
13852345 TAAATCA
1 TAAACCC
* *
13852352 TAAAACA
1 TAAACCC
*
13852359 TAAACCT
1 TAAACCC
*
13852366 TGAACCC
1 TAAACCC
**
13852373 TTACCCCC
1 -TAAACCC
*
13852381 TAAGCCC
1 TAAACCC
*
13852388 TAAACCT
1 TAAACCC
13852395 TAAACCC
1 TAAACCC
*
13852402 -CAACCC
1 TAAACCC
*
13852408 ATAAACCA
1 -TAAACCC
*
13852416 TAAACCA
1 TAAACCC
*
13852423 TAAACCA
1 TAAACCC
*
13852430 TAAACCA
1 TAAACCC
*
13852437 TAATCCC
1 TAAACCC
*
13852444 TAAATCCA
1 TAAA-CCC
* *
13852452 TAATCCA
1 TAAACCC
* *
13852459 TAATCCA
1 TAAACCC
*
13852466 TAAACCT
1 TAAACCC
***
13852473 TAAGATAG
1 TAA-ACCC
13852481 T-AACTCC
1 TAAAC-CC
*
13852488 TAAACCT
1 TAAACCC
13852495 TAAACCC
1 TAAACCC
* *
13852502 TATACCA
1 TAAACCC
* *
13852509 TATACTC
1 TAAACCC
*
13852516 TAAACCA
1 TAAACCC
13852523 TAAACCC
1 TAAACCC
13852530 TAAAC
1 TAAAC
13852535 TATAATAATT
Statistics
Matches: 165, Mismatches: 44, Indels: 20
0.72 0.19 0.09
Matches are distributed among these distances:
6 10 0.06
7 128 0.78
8 27 0.16
ACGTcount: A:0.42, C:0.35, G:0.02, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:13852412 original size:21 final size:21
Alignment explanation
Indices: 13852388--13852471 Score: 71
Period size: 21 Copynumber: 4.0 Consensus size: 21
13852378 CCCTAAGCCC
* * *
13852388 TAAACCTTAAACCCCAACCCA
1 TAAACCATAAACCACAAACCA
*
13852409 TAAACCATAAACCATAAACCA
1 TAAACCATAAACCACAAACCA
*
13852430 TAAACCATAATCC-CTAAATCCA
1 TAAACCATAAACCAC-AAA-CCA
* * *
13852452 TAATCCATAATCCATAAACC
1 TAAACCATAAACCACAAACC
13852472 TTAAGATAGT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
21 34 0.65
22 18 0.35
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCATAAACCACAAACCA
Found at i:13852522 original size:14 final size:14
Alignment explanation
Indices: 13852338--13852539 Score: 120
Period size: 14 Copynumber: 14.2 Consensus size: 14
13852328 CCTTATCCCC
*
13852338 TAAACCCTAAATCA
1 TAAACCCTAAACCA
* * *
13852352 TAAAACATAAACCT
1 TAAACCCTAAACCA
* ** *
13852366 TGAACCCTTACCCCC
1 TAAACCC-TAAACCA
* *
13852381 TAAGCCCTAAACCT
1 TAAACCCTAAACCA
* *
13852395 TAAACCCCAACCCA
1 TAAACCCTAAACCA
*
13852409 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
13852423 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
13852437 TAATCCCTAAATCCA
1 TAAACCCTAAA-CCA
* * *
13852452 TAATCCATAATCCA
1 TAAACCCTAAACCA
* *
13852466 TAAA-CCTTAA-GA
1 TAAACCCTAAACCA
*
13852478 TAGTAACTCCTAAACCT
1 TA--AAC-CCTAAACCA
*
13852495 TAAACCCTATACCA
1 TAAACCCTAAACCA
* *
13852509 TATACTCTAAACCA
1 TAAACCCTAAACCA
*
13852523 TAAACCCTAAACTA
1 TAAACCCTAAACCA
13852537 TAA
1 TAA
13852540 TAATTAATTC
Statistics
Matches: 139, Mismatches: 42, Indels: 14
0.71 0.22 0.07
Matches are distributed among these distances:
12 3 0.02
13 3 0.02
14 102 0.73
15 24 0.17
16 5 0.04
17 2 0.01
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.22
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:13852593 original size:7 final size:7
Alignment explanation
Indices: 13852581--13852616 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
13852571 ACTAGTTAAT
13852581 CTAAACC
1 CTAAACC
13852588 CTAAACC
1 CTAAACC
*
13852595 ATAAA-C
1 CTAAACC
13852601 CTAAACC
1 CTAAACC
13852608 CTAAACC
1 CTAAACC
13852615 CT
1 CT
13852617 TAACAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.44, C:0.39, G:0.00, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:13852601 original size:14 final size:14
Alignment explanation
Indices: 13852582--13852644 Score: 58
Period size: 13 Copynumber: 4.5 Consensus size: 14
13852572 CTAGTTAATC
13852582 TAAACCCTAAACCA
1 TAAACCCTAAACCA
*
13852596 TAAA-CCTAAACCC
1 TAAACCCTAAACCA
*
13852609 TAAACCCTTAA-CA
1 TAAACCCTAAACCA
* *
13852622 AATAACCTCTAAACCT
1 TA-AACC-CTAAACCA
13852638 TAAACCC
1 TAAACCC
13852645 CAGCCTTTAA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
13 14 0.37
14 14 0.37
15 8 0.21
16 2 0.05
ACGTcount: A:0.46, C:0.35, G:0.00, T:0.19
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:13853081 original size:40 final size:39
Alignment explanation
Indices: 13853037--13853169 Score: 108
Period size: 42 Copynumber: 3.3 Consensus size: 39
13853027 TTTTGTGACA
*
13853037 CTTTTTCAAAAGCGTCGCTAAAAATAGAGCATTAGCGGTG
1 CTTTTTGAAAAGCG-CGCTAAAAATAGAGCATTAGCGGTG
* *** *
13853077 CTTTTTAAAAAATGC-CGCTAAAGCCCCAGAGCATTAGCGGCG
1 CTTTTT-GAAAA-GCGCGCTAAA--AATAGAGCATTAGCGGTG
* *
13853119 GTTATTGGAAAATGC-CGCTAAAAATAGAGCATTAGCGGTG
1 CTT-TTTGAAAA-GCGCGCTAAAAATAGAGCATTAGCGGTG
*
13853159 CTATTTGAAAA
1 CTTTTTGAAAA
13853170 ACGCCACTAA
Statistics
Matches: 73, Mismatches: 15, Indels: 11
0.74 0.15 0.11
Matches are distributed among these distances:
39 7 0.10
40 28 0.38
41 4 0.05
42 32 0.44
43 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.26
Consensus pattern (39 bp):
CTTTTTGAAAAGCGCGCTAAAAATAGAGCATTAGCGGTG
Found at i:13853196 original size:41 final size:40
Alignment explanation
Indices: 13853063--13853347 Score: 306
Period size: 41 Copynumber: 7.0 Consensus size: 40
13853053 GCTAAAAATA
* * *
13853063 GAGCATTAGCGGTGCTTTTTAAAAAATGCCGCTAAAGCCCCA
1 GAGCATTAGCGGCGCTTTTT-AAAAACGCCGCTAAAG-CCCT
* ** * **
13853105 GAGCATTAGCGGCGGTTATTGGAAAATGCCGCTAAA--AAT
1 GAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAGCCCT
* * *
13853144 AGAGCATTAGCGGTGCTATTTGAAAAACGCCACTAAAGCCCT
1 -GAGCATTAGCGGCGCT-TTTTAAAAACGCCGCTAAAGCCCT
*
13853186 GAGCATTAGCGGCGCTATTCTAAAAACGCCGCTAAAG-CCT
1 GAGCATTAGCGGCGCT-TTTTAAAAACGCCGCTAAAGCCCT
*
13853226 AGAGCATTAGCGGCGCTTTTTAAGAAACGCCGCTAAAGCCCC
1 -GAGCATTAGCGGCGCTTTTTAA-AAACGCCGCTAAAGCCCT
* *
13853268 AAGCATTAGTGGCGCCTTTTTAAAAACGCCGCTAAAGCCCT
1 GAGCATTAGCGGCG-CTTTTTAAAAACGCCGCTAAAGCCCT
*
13853309 GAGGATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCC
1 GAGCATTAGCGGCGC-TTTTTAAAAACGCCGCTAAAGCC
13853348 TAGAAAGCTC
Statistics
Matches: 207, Mismatches: 26, Indels: 21
0.81 0.10 0.08
Matches are distributed among these distances:
40 38 0.18
41 127 0.61
42 40 0.19
43 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (40 bp):
GAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCCT
Found at i:13853273 original size:123 final size:121
Alignment explanation
Indices: 13853063--13853351 Score: 341
Period size: 123 Copynumber: 2.3 Consensus size: 121
13853053 GCTAAAAATA
* * * * *
13853063 GAGCATTAGCGGTGCTTTTTAAAAAATGCCGCTAAAGCCCCAGAGCATTAGCGGCGGTTATTGGA
1 GAGCATTAGCGGCGCTTTTT-AAAAACGCCGCTAAAG-CCTAGAGCATTAGCGGCGCTTATTAGA
* * *
13853128 AAATGCCGCTAAAAATAGAGCATTAGCGGTG-CTATTTGAAAAACGCCACTAAAGCCCT
64 AAACGCCGCTAAAAACAGAGCATTAGCGGCGCCT-TTTGAAAAACGCCACTAAAGCCCT
* *
13853186 GAGCATTAGCGGCGCTATTCTAAAAACGCCGCTAAAGCCTAGAGCATTAGCGGCGCTTTTTA-AG
1 GAGCATTAGCGGCGCT-TTTTAAAAACGCCGCTAAAGCCTAGAGCATTAGCGGCGCTTATTAGA-
** * * *
13853250 AAACGCCGCTAAAGCCCCA-AGCATTAGTGGCGCCTTTTTAAAAACGCCGCTAAAGCCCT
64 AAACGCCGCTAAA--AACAGAGCATTAGCGGCGCCTTTTGAAAAACGCCACTAAAGCCCT
*
13853309 GAGGATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGCCTAGA
1 GAGCATTAGCGGCGC-TTTTTAAAAACGCCGCTAAAGCCTAGA
13853352 AAGCTCAGAA
Statistics
Matches: 143, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
121 1 0.01
122 33 0.23
123 102 0.71
124 7 0.05
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.22
Consensus pattern (121 bp):
GAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGCCTAGAGCATTAGCGGCGCTTATTAGAAA
ACGCCGCTAAAAACAGAGCATTAGCGGCGCCTTTTGAAAAACGCCACTAAAGCCCT
Found at i:13853761 original size:25 final size:25
Alignment explanation
Indices: 13853733--13853782 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13853723 TTCAACATAC
*
13853733 TTAAAAATTCATGTGAAATGCCTTA
1 TTAAAAATTCATGCGAAATGCCTTA
* *
13853758 TTAAAAATTCTTGCGAAATGTCTTA
1 TTAAAAATTCATGCGAAATGCCTTA
13853783 CCGCCCCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (25 bp):
TTAAAAATTCATGCGAAATGCCTTA
Found at i:13856033 original size:6 final size:6
Alignment explanation
Indices: 13856019--13856049 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
13856009 AAACATAAAC
13856019 AAATT- AAATTG AAATTG AAATTG AAATTG AA
1 AAATTG AAATTG AAATTG AAATTG AAATTG AA
13856050 GGTAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (6 bp):
AAATTG
Found at i:13857719 original size:13 final size:13
Alignment explanation
Indices: 13857701--13857727 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
13857691 ATCATTACTA
13857701 TTATTATTATATT
1 TTATTATTATATT
13857714 TTATTATTATATT
1 TTATTATTATATT
13857727 T
1 T
13857728 ATTTACAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATATT
Found at i:13857732 original size:16 final size:16
Alignment explanation
Indices: 13857685--13857723 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
13857675 GGCCTAAATG
*
13857685 ATTATTATCATTACTATT
1 ATTATTAT-ATT-TTATT
13857703 ATTATTATATTTTATT
1 ATTATTATATTTTATT
13857719 ATTAT
1 ATTAT
13857724 ATTTATTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 3 0.15
18 8 0.40
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTATATTTTATT
Found at i:13858303 original size:146 final size:142
Alignment explanation
Indices: 13858038--13858471 Score: 510
Period size: 144 Copynumber: 3.0 Consensus size: 142
13858028 AAGTTTTTAT
* * *
13858038 TTTTTATTTTAAAAAGAG-AGTTTATATTTTTTAAAAATACATATATATTTTAGTCATATTAAAG
1 TTTTT-TTTTAAAAAGAGAAGTTTATA-TTTTT-AAAATA-A-AAATTTTTTAGTCATTTTAAAG
* * *
13858102 GAAGATATTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGTTTTGA-
61 GAAAATTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTTGAT
13858166 TTTAAGAAAAATAGTGA
126 TTTAAGAAAAATAGTGA
*
13858183 TTTTTTTTTAAAAAGAGAAAGTTTAGATTTTTAAAATAAAAATGTCTTTTAGTCATTTTAAAGGA
1 TTTTTTTTTAAAAAGAG-AAGTTTATATTTTTAAAATAAAAAT-T-TTTTAGTCATTTTAAAGGA
** * *
13858248 AAATTTTAAATTTTTTAAAACAATTTTTTTTATCTTTTTTAACTATTTTGAAATAAAGCTTTGAT
63 AAATTTTAAA-TTTTTAAAACAA-AGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTTGA-
13858313 TTTTAAGAAAAATAGTGA
125 TTTTAAGAAAAATAGTGA
* **
13858331 --TTTTTTAAAAAAGAG-AGTTTATATTTTTTTAA-AAAAA----TTAGTCATTTTAAAGGAAAA
1 TTTTTTTTTAAAAAGAGAAGTTTATATTTTTAAAATAAAAATTTTTTAGTCATTTTAAAGGAAAA
* * * *
13858388 GTTTAAAATTTTAAAACAAAGTTTTGATATTTTTCAACTATTTCGAAATAAAGCTTTGATTTTTA
66 TTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTTGA-TTTTA
* *
13858453 AGGAAAGTAGTGA
130 AGAAAAATAGTGA
13858466 TTTTTT
1 TTTTTT
13858472 AAAGAAAATT
Statistics
Matches: 254, Mismatches: 25, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
135 51 0.20
136 11 0.04
137 30 0.12
142 3 0.01
143 6 0.02
144 58 0.23
145 22 0.09
146 56 0.22
148 17 0.07
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.45
Consensus pattern (142 bp):
TTTTTTTTTAAAAAGAGAAGTTTATATTTTTAAAATAAAAATTTTTTAGTCATTTTAAAGGAAAA
TTTTAAATTTTTAAAACAAAGTTTTGATCTTTTTCAACTATTTTGAAATAAAGCTTTGATTTTAA
GAAAAATAGTGA
Found at i:13858489 original size:19 final size:19
Alignment explanation
Indices: 13858442--13858489 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
13858432 GAAATAAAGC
* *
13858442 TTTGATTTTTAAGGAAAGT
1 TTTGATTTTTAAAGAAAAT
**
13858461 AGTGATTTTTTAAAGAAAAT
1 TTTGA-TTTTTAAAGAAAAT
13858481 TTTGATTTT
1 TTTGATTTT
13858490 GCAAAAAAAC
Statistics
Matches: 22, Mismatches: 6, Indels: 2
0.73 0.20 0.07
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (19 bp):
TTTGATTTTTAAAGAAAAT
Found at i:13865700 original size:18 final size:18
Alignment explanation
Indices: 13865677--13865712 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
13865667 ATTTAGAACA
13865677 ATTATAGTAATATTTTTC
1 ATTATAGTAATATTTTTC
13865695 ATTATAGTAATATTTTTC
1 ATTATAGTAATATTTTTC
13865713 TGAAAATATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (18 bp):
ATTATAGTAATATTTTTC
Found at i:13868434 original size:134 final size:134
Alignment explanation
Indices: 13868194--13868452 Score: 473
Period size: 134 Copynumber: 1.9 Consensus size: 134
13868184 TACTTATAAC
*
13868194 AAAATGACTCAACCTAAGTACATGTCATACTTAAACAAAATGAGATATATACAAATATTTCTGAG
1 AAAATGACTCAACCTAAGTACATGCCATACTTAAACAAAATGAGATATATACAAATATTTCTGAG
* *
13868259 TCGAGGGTCCACTTCCTGGACGCTAGAACTATTGCTTGAACTCTTATGAATCTATTATACATATG
66 TCGAGGGTCCACTTCCTGGACGCTAGAACTATTGCTTGAACTCTTAGGAACCTATTATACATATG
13868324 CCTA
131 CCTA
*
13868328 AAAATGACTTAACCTAAGTACATGCCATACTTAAACAAAATGAGATATATACAAATATTTCTGAG
1 AAAATGACTCAACCTAAGTACATGCCATACTTAAACAAAATGAGATATATACAAATATTTCTGAG
*
13868393 TCGAGGGTCCACTTCCTGGATGCTAGAACTATTGCTTGAACTCTTAGGAACCTATTATAC
66 TCGAGGGTCCACTTCCTGGACGCTAGAACTATTGCTTGAACTCTTAGGAACCTATTATAC
13868453 TTGCGCATGG
Statistics
Matches: 120, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 120 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (134 bp):
AAAATGACTCAACCTAAGTACATGCCATACTTAAACAAAATGAGATATATACAAATATTTCTGAG
TCGAGGGTCCACTTCCTGGACGCTAGAACTATTGCTTGAACTCTTAGGAACCTATTATACATATG
CCTA
Found at i:13874375 original size:49 final size:48
Alignment explanation
Indices: 13874301--13874487 Score: 189
Period size: 49 Copynumber: 3.8 Consensus size: 48
13874291 CGGTATCTGT
13874301 ATAAGATGGGCCACT-AGTAGCGCATGTTAGTTGCTAACCAGATGGGCGA
1 ATAAGATGGGCCACTGA-TAG-GCATGTTAGTTGCTAACCAGATGGGCGA
* * *
13874350 ATAAGGTGGGCCACTGATAAGGCATGTTAGTTTCTAACCAGATTGGC-A
1 ATAAGATGGGCCACTGAT-AGGCATGTTAGTTGCTAACCAGATGGGCGA
** * * * * *
13874398 GATGTGATAGACCATTGGTAGGGCATGTTAGTTGCTAACCAGATGGGTGA
1 -ATAAGATGGGCCACTGATA-GGCATGTTAGTTGCTAACCAGATGGGCGA
* * *
13874448 ATAAGGTGGGCCACTGATTGGACATGTTAGTTGGTAACCA
1 ATAAGATGGGCCACTGATAGG-CATGTTAGTTGCTAACCA
13874488 TATTGGCTTG
Statistics
Matches: 110, Mismatches: 22, Indels: 12
0.76 0.15 0.08
Matches are distributed among these distances:
48 4 0.04
49 102 0.93
50 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (48 bp):
ATAAGATGGGCCACTGATAGGCATGTTAGTTGCTAACCAGATGGGCGA
Found at i:13874493 original size:98 final size:98
Alignment explanation
Indices: 13874317--13874536 Score: 293
Period size: 98 Copynumber: 2.2 Consensus size: 98
13874307 TGGGCCACTA
*
13874317 GTAGCGCATGTTAGTTGCTAACCAGATGGGCGAATAAGGTGGGCCACTGATAAGGCATGTTAGTT
1 GTAGGGCATGTTAGTTGCTAACCAGATGGGCGAATAAGGTGGGCCACTGATAAGGCATGTTAGTT
*
13874382 TCTAACCAGATTGGC-AGATGTGATAGACCAT-TG
66 GCTAACCAGATTGGCTAGA-GTGATAG-CCATCTG
* *
13874415 GTAGGGCATGTTAGTTGCTAACCAGATGGGTGAATAAGGTGGGCCACTGAT-TGGACATGTTAGT
1 GTAGGGCATGTTAGTTGCTAACCAGATGGGCGAATAAGGTGGGCCACTGATAAGG-CATGTTAGT
* * * * ***
13874479 TGGTAACCATATTGGCTTGAGTGCTAGGTTTCTG
65 TGCTAACCAGATTGGCTAGAGTGATAGCCATCTG
13874513 GTAGGGCATGTTAGTTGCTAACCA
1 GTAGGGCATGTTAGTTGCTAACCA
13874537 TGGCAAAGAG
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
97 3 0.03
98 103 0.95
99 2 0.02
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.29
Consensus pattern (98 bp):
GTAGGGCATGTTAGTTGCTAACCAGATGGGCGAATAAGGTGGGCCACTGATAAGGCATGTTAGTT
GCTAACCAGATTGGCTAGAGTGATAGCCATCTG
Found at i:13888903 original size:40 final size:40
Alignment explanation
Indices: 13888840--13888928 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
13888830 GAAGTGCTCT
* * * * * *
13888840 TGTTTGCACAGCTGTGCCTCTGAATACACTTCGGTGTTCC
1 TGTTTGCACAACTATGCCCCTGAATAAAATTCGGTGTCCC
*
13888880 TGTTTGCACAACTATGCCCCTGAATAAAATTTGGTGTCCC
1 TGTTTGCACAACTATGCCCCTGAATAAAATTCGGTGTCCC
13888920 TGTTTGCAC
1 TGTTTGCAC
13888929 TTCGGTGCCC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.19, C:0.26, G:0.20, T:0.35
Consensus pattern (40 bp):
TGTTTGCACAACTATGCCCCTGAATAAAATTCGGTGTCCC
Found at i:13888938 original size:40 final size:40
Alignment explanation
Indices: 13888840--13888942 Score: 107
Period size: 40 Copynumber: 2.6 Consensus size: 40
13888830 GAAGTGCTCT
* * * * * *
13888840 TGTTTGCACAGCTGTGCCTCTGAATACACTTCGGTGTTCC
1 TGTTTGCACAACGGTGCCCCTGAATAAAATTCGGTGTCCC
** *
13888880 TGTTTGCACAACTATGCCCCTGAATAAAATTTGGTGTCCC
1 TGTTTGCACAACGGTGCCCCTGAATAAAATTCGGTGTCCC
**
13888920 TGTTTGCACTTCGGTGCCCCTGA
1 TGTTTGCACAACGGTGCCCCTGA
13888943 CTACACGTAT
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.34
Consensus pattern (40 bp):
TGTTTGCACAACGGTGCCCCTGAATAAAATTCGGTGTCCC
Found at i:13901392 original size:41 final size:42
Alignment explanation
Indices: 13901347--13901499 Score: 188
Period size: 41 Copynumber: 3.7 Consensus size: 42
13901337 ACTTAATTAT
* *
13901347 TCCCTAAATTACACATATGTGCCCCTATTTGTACTTC-G-ATC
1 TCCCTAAATTGCACATATGTGCCCCTGTTTGTACTTCAGTA-C
13901388 TCCCTAAATTGCACATATGTGCCCCTGTTTGTACTTCAGTAC
1 TCCCTAAATTGCACATATGTGCCCCTGTTTGTACTTCAGTAC
* * *
13901430 -CCCTGAATTGCACATTTATGCCCCTGTTTGTACTTCAGTAC
1 TCCCTAAATTGCACATATGTGCCCCTGTTTGTACTTCAGTAC
* * * *
13901471 -CCCTAAATAGTACTTACGTGCCCCTGTTT
1 TCCCTAAATTGCACATATGTGCCCCTGTTT
13901500 ACACTCCGAT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
41 95 0.97
42 2 0.02
43 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.36
Consensus pattern (42 bp):
TCCCTAAATTGCACATATGTGCCCCTGTTTGTACTTCAGTAC
Found at i:13901434 original size:20 final size:20
Alignment explanation
Indices: 13901409--13901474 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
13901399 CACATATGTG
13901409 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
* * * *
13901429 CCCCTGAATTGCACATTTA-TG
1 CCCCTG-TTTGTAC-TTCAGTA
13901450 CCCCTGTTTGTACTTCAGTA
1 CCCCTGTTTGTACTTCAGTA
13901470 CCCCT
1 CCCCT
13901475 AAATAGTACT
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 3 0.09
20 17 0.49
21 12 0.34
22 3 0.09
ACGTcount: A:0.17, C:0.33, G:0.14, T:0.36
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCAGTA
Found at i:13912801 original size:35 final size:35
Alignment explanation
Indices: 13912716--13912836 Score: 125
Period size: 35 Copynumber: 3.5 Consensus size: 35
13912706 GTCGACTGGC
* *
13912716 CCTTCGGGGCAACACCGTGTAAATGGCATATAGGT
1 CCTTCGAGGCAACACCGTGTAAATGGTATATAGGT
* * ** * *
13912751 CATTTGAGGTGACACCGTATAAATGGTATATAAGT
1 CCTTCGAGGCAACACCGTGTAAATGGTATATAGGT
* * *
13912786 CCTTCGAGGCAACACCGTGCAAACGGTATACAGGT
1 CCTTCGAGGCAACACCGTGTAAATGGTATATAGGT
* *
13912821 CTTTCGGGGCAACACC
1 CCTTCGAGGCAACACC
13912837 TCAAAAGAGG
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 67 1.00
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (35 bp):
CCTTCGAGGCAACACCGTGTAAATGGTATATAGGT
Found at i:13928468 original size:25 final size:25
Alignment explanation
Indices: 13928427--13928500 Score: 96
Period size: 25 Copynumber: 2.9 Consensus size: 25
13928417 TCTCATCCCT
*
13928427 ATTTT-ACCCAGTAAAAATTTTGACG
1 ATTTTAACCCGGT-AAAATTTTGACG
*
13928452 ATTTTAACCCGGTAAAATTTTGATG
1 ATTTTAACCCGGTAAAATTTTGACG
*
13928477 ATTTTACCCCTGGTAAAATTTTGA
1 ATTTTAACCC-GGTAAAATTTTGA
13928501 GAAAATATAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
25 25 0.57
26 19 0.43
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (25 bp):
ATTTTAACCCGGTAAAATTTTGACG
Found at i:13930656 original size:18 final size:17
Alignment explanation
Indices: 13930629--13930667 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
13930619 TATCTTTGCA
* *
13930629 TTTTTCTTTTCTATTTCT
1 TTTTTATTTTCT-TTTAT
13930647 TTTTTATTTTCTTTTAT
1 TTTTTATTTTCTTTTAT
13930664 TTTT
1 TTTT
13930668 ATCCATTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTCTTTTAT
Found at i:13939413 original size:26 final size:26
Alignment explanation
Indices: 13939363--13939414 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
13939353 AATCTAAAAT
*
13939363 TTAGAAATATTTATTTTTTTGTGATA
1 TTAGAAATATTTATTTTATTGTGATA
13939389 TTAGAAATATTTATTTTGATT-TGATA
1 TTAGAAATATTTATTTT-ATTGTGATA
13939415 GTTAAGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.56
Consensus pattern (26 bp):
TTAGAAATATTTATTTTATTGTGATA
Found at i:13940274 original size:18 final size:18
Alignment explanation
Indices: 13940240--13940275 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
13940230 ACTAAAGTTT
*
13940240 TATTTTAATATTCTTATA
1 TATTTTAATATTATTATA
*
13940258 TATTTTAATTTTATTATA
1 TATTTTAATATTATTATA
13940276 CACATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTTAATATTATTATA
Found at i:13941649 original size:25 final size:25
Alignment explanation
Indices: 13941613--13941664 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
13941603 TAAAAATGAA
13941613 ATTTATTATTATAT-TTTTTGAAATT
1 ATTTATTATTATATATTTTT-AAATT
*
13941638 ATTTATTTTTATATATTTTTAAATT
1 ATTTATTATTATATATTTTTAAATT
13941663 AT
1 AT
13941665 ATATATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 20 0.80
26 5 0.20
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (25 bp):
ATTTATTATTATATATTTTTAAATT
Found at i:13947983 original size:26 final size:27
Alignment explanation
Indices: 13947948--13947998 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
13947938 AACCACCACA
13947948 CTTTATCTTTTCTCCTCCACCCTTTCT
1 CTTTATCTTTTCTCCTCCACCCTTTCT
*
13947975 CTTT-TCTTTTCTTCTCCACCCTTT
1 CTTTATCTTTTCTCCTCCACCCTTT
13947999 GTTAGTGTCC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (27 bp):
CTTTATCTTTTCTCCTCCACCCTTTCT
Found at i:13962641 original size:33 final size:33
Alignment explanation
Indices: 13962584--13962711 Score: 141
Period size: 33 Copynumber: 3.9 Consensus size: 33
13962574 GACTTACCTC
* * *
13962584 GTGTTTACTGT-CTAGACAGGCTATCTCTATTTT
1 GTGTTTACTGTCCCAG-CAGACTATCTCTGTTTT
* *
13962617 GTGCTTACTGTCCCAGCAGACTATCTTTGTTTT
1 GTGTTTACTGTCCCAGCAGACTATCTCTGTTTT
* * * * *
13962650 GTGTTTATTGTCCCAACGGACTATCTTTGTTCT
1 GTGTTTACTGTCCCAGCAGACTATCTCTGTTTT
*
13962683 GTGTTTACTGTCTCAGCAGACTATCTCTG
1 GTGTTTACTGTCCCAGCAGACTATCTCTG
13962712 AGGATGCCAT
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 76 0.96
34 3 0.04
ACGTcount: A:0.16, C:0.22, G:0.19, T:0.43
Consensus pattern (33 bp):
GTGTTTACTGTCCCAGCAGACTATCTCTGTTTT
Found at i:13962829 original size:57 final size:57
Alignment explanation
Indices: 13962762--13962874 Score: 163
Period size: 57 Copynumber: 2.0 Consensus size: 57
13962752 TATCTGACCG
* *
13962762 CCATAGCGTCTTTCATCCATGGTCTTACACCGTATACCTTATACCTTATACCATGCA
1 CCATAACGTCTTTCATCCATGGTCTTACACCATATACCTTATACCTTATACCATGCA
* * * * *
13962819 CCATAACGTCTTTCATCCATGGTTTTACTCTATATACCTTTTACCTTGTACCATGC
1 CCATAACGTCTTTCATCCATGGTCTTACACCATATACCTTATACCTTATACCATGC
13962875 TGCCATGGTG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.23, C:0.30, G:0.10, T:0.37
Consensus pattern (57 bp):
CCATAACGTCTTTCATCCATGGTCTTACACCATATACCTTATACCTTATACCATGCA
Found at i:13966495 original size:22 final size:23
Alignment explanation
Indices: 13966467--13966538 Score: 73
Period size: 21 Copynumber: 3.3 Consensus size: 23
13966457 AGGTCGTGCT
*
13966467 CGTGTGAGATAGGCCACAT-GTC
1 CGTGTGAGATAGGTCACATAGTC
* * *
13966489 CGTGTGAG-TGGGTCAGATGGT-
1 CGTGTGAGATAGGTCACATAGTC
13966510 CGTGTG-GATAGGTCACATAG-C
1 CGTGTGAGATAGGTCACATAGTC
13966531 CGTGTGAG
1 CGTGTGAG
13966539 CAAACCATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
20 1 0.03
21 28 0.70
22 11 0.28
ACGTcount: A:0.19, C:0.17, G:0.39, T:0.25
Consensus pattern (23 bp):
CGTGTGAGATAGGTCACATAGTC
Found at i:13969004 original size:24 final size:24
Alignment explanation
Indices: 13968930--13969006 Score: 63
Period size: 23 Copynumber: 3.3 Consensus size: 24
13968920 ACTTTCTTTT
* * * *
13968930 TGTTTTA-TTATAGTTTTGGTTAG
1 TGTTTTATTTATAATTTAGATTAA
*
13968953 TGTTTTA-TTATAATTTAGTTTAA
1 TGTTTTATTTATAATTTAGATTAA
*
13968976 -CTTTTATTTTATAATTTA-ATTAA
1 TGTTTTA-TTTATAATTTAGATTAA
13968999 TGTTTTAT
1 TGTTTTAT
13969007 AATATAAAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
22 5 0.11
23 24 0.55
24 15 0.34
ACGTcount: A:0.26, C:0.01, G:0.10, T:0.62
Consensus pattern (24 bp):
TGTTTTATTTATAATTTAGATTAA
Found at i:13973311 original size:25 final size:25
Alignment explanation
Indices: 13973281--13973391 Score: 82
Period size: 25 Copynumber: 4.5 Consensus size: 25
13973271 AGCCCTCCCT
13973281 TGAGCCATATAACAGGAAGCTCATG
1 TGAGCCATATAACAGGAAGCTCATG
** ** * *
13973306 TGAGCCATGGAATGGGAAGCTTATC
1 TGAGCCATATAACAGGAAGCTCATG
* * * * *
13973331 CGGGCTATATAACAAGAAGCTCATA
1 TGAGCCATATAACAGGAAGCTCATG
* **
13973356 AGAGCCATA-ATTAGGAAGCTCATG
1 TGAGCCATATAACAGGAAGCTCATG
13973380 TGAGCCA-ATAAC
1 TGAGCCATATAAC
13973392 GAATAGCTCT
Statistics
Matches: 59, Mismatches: 26, Indels: 3
0.67 0.30 0.03
Matches are distributed among these distances:
23 1 0.02
24 18 0.31
25 40 0.68
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (25 bp):
TGAGCCATATAACAGGAAGCTCATG
Found at i:13973481 original size:23 final size:23
Alignment explanation
Indices: 13973396--13973484 Score: 61
Period size: 25 Copynumber: 3.7 Consensus size: 23
13973386 AATAACGAAT
* *
13973396 AGCTCTGAAGAGCCATTAATCGAGA
1 AGCTCTGGAGAGCCA-T-ATCGGGA
* * *
13973421 AGCTCCGGATAGCCATATATGGGGA
1 AGCTCTGGAGAGCC--ATATCGGGA
* ** *
13973446 AGTTCAAGTGAGCCATATCGGGA
1 AGCTCTGGAGAGCCATATCGGGA
13973469 AGCTCTGGAGAGCCAT
1 AGCTCTGGAGAGCCAT
13973485 TAATCAGGAA
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
23 20 0.43
25 25 0.53
26 1 0.02
27 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.20
Consensus pattern (23 bp):
AGCTCTGGAGAGCCATATCGGGA
Found at i:13973507 original size:26 final size:26
Alignment explanation
Indices: 13973477--13973536 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
13973467 GAAGCTCTGG
*
13973477 AGAGCCATTAATC-AGGAAGTTCACAA
1 AGAGCCATTAATCGA-GAAGCTCACAA
*
13973503 AGAGCCTTTAATCGAGAAGCTCACAA
1 AGAGCCATTAATCGAGAAGCTCACAA
*
13973529 AGAACCAT
1 AGAGCCAT
13973537 ATAACAAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.97
27 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (26 bp):
AGAGCCATTAATCGAGAAGCTCACAA
Found at i:13979861 original size:17 final size:17
Alignment explanation
Indices: 13979839--13979872 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
13979829 GTTCGTTTAT
*
13979839 TTTTAAAAATTTAATTA
1 TTTTAAAAAATTAATTA
13979856 TTTTAAAAAATTAATTA
1 TTTTAAAAAATTAATTA
13979873 AAATTAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTTAAAAAATTAATTA
Found at i:13988615 original size:31 final size:31
Alignment explanation
Indices: 13988568--13988634 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
13988558 ATTACAAAAT
13988568 AGTTATTGAACAATTCAAAAAATTTCATTTA
1 AGTTATTGAACAATTCAAAAAATTTCATTTA
* * ** *
13988599 AGTTGTTGAACTATTCAAAAGTTTTTATTTA
1 AGTTATTGAACAATTCAAAAAATTTCATTTA
13988630 AGTTA
1 AGTTA
13988635 CTAGATTGTT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.43
Consensus pattern (31 bp):
AGTTATTGAACAATTCAAAAAATTTCATTTA
Found at i:13995746 original size:50 final size:52
Alignment explanation
Indices: 13995667--13995771 Score: 169
Period size: 50 Copynumber: 2.1 Consensus size: 52
13995657 ACAAATACAA
*
13995667 AAAATTAAATACACAAGTATAATTTATTGATAAAAGAATAAGCGTTAGTATG
1 AAAATTAAATACACAAGTATAATTCATTGATAAAAGAATAAGCGTTAGTATG
* *
13995719 AAAATTATATACA-AA-TATAATTCATTGATAAAAGAATAAGTGTTAGTATG
1 AAAATTAAATACACAAGTATAATTCATTGATAAAAGAATAAGCGTTAGTATG
13995769 AAA
1 AAA
13995772 TAAACATGTG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
50 36 0.72
51 2 0.04
52 12 0.24
ACGTcount: A:0.51, C:0.05, G:0.12, T:0.31
Consensus pattern (52 bp):
AAAATTAAATACACAAGTATAATTCATTGATAAAAGAATAAGCGTTAGTATG
Found at i:13995852 original size:17 final size:18
Alignment explanation
Indices: 13995830--13995868 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13995820 AGTGATTCCT
* *
13995830 ATAATT-AATTTATTAAA
1 ATAATTAAATTCATAAAA
13995847 ATAATTAAATTCATAAAA
1 ATAATTAAATTCATAAAA
13995865 ATAA
1 ATAA
13995869 AATATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATAATTAAATTCATAAAA
Found at i:13998463 original size:42 final size:42
Alignment explanation
Indices: 13998416--13998512 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
13998406 TTATATTGAA
* *
13998416 GAATAAAGCCTAGAATTAG-AAAACAAAAGTAATATGTTTAAT
1 GAATAAAACCTAGAA-GAGTAAAACAAAAGTAATATGTTTAAT
* * *
13998458 GAATAAAAACTTAGCAGAGTTAAACAAAAGTAATATGTTTAAT
1 GAAT-AAAACCTAGAAGAGTAAAACAAAAGTAATATGTTTAAT
* *
13998501 AAATAAACCCTA
1 GAATAAAACCTA
13998513 ATTTTTTTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
42 12 0.27
43 33 0.73
ACGTcount: A:0.53, C:0.09, G:0.12, T:0.26
Consensus pattern (42 bp):
GAATAAAACCTAGAAGAGTAAAACAAAAGTAATATGTTTAAT
Found at i:13999985 original size:26 final size:26
Alignment explanation
Indices: 13999949--14000007 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
13999939 CTAGTGAGCT
13999949 TGAGTTTAAGTGGGTCAAAGGACCCC
1 TGAGTTTAAGTGGGTCAAAGGACCCC
* * * *
13999975 TGAGTTTAAGTGGTTCAGAGGACTCT
1 TGAGTTTAAGTGGGTCAAAGGACCCC
14000001 TGAGTTT
1 TGAGTTT
14000008 GTGTAACATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.32
Consensus pattern (26 bp):
TGAGTTTAAGTGGGTCAAAGGACCCC
Found at i:14006143 original size:41 final size:41
Alignment explanation
Indices: 14006064--14006183 Score: 132
Period size: 41 Copynumber: 2.9 Consensus size: 41
14006054 TGATCGAATG
* *
14006064 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
** *
14006105 TAATTCAGACTTTACGTCTAGCAGGCTTAATGTTGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * * * *
14006146 CATTTCGGACTATAGGTCTAGCAGGCTAAAAGCCGGTG
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG
14006184 TACTGAATCA
Statistics
Matches: 65, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 65 1.00
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:14006550 original size:22 final size:22
Alignment explanation
Indices: 14006525--14006600 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
14006515 ATATGATGAA
*
14006525 TATGTATATATCTATTCGAATG
1 TATGTATATATATATTCGAATG
* *
14006547 TATGTATTAGCTATGTATTCGAATA
1 TATGTA-TA--TATATATTCGAATG
* * *
14006572 TGTATATATATATATTCGGATG
1 TATGTATATATATATTCGAATG
*
14006594 TAGGTAT
1 TATGTAT
14006601 TAGCTATGTA
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
22 21 0.51
23 2 0.05
24 2 0.05
25 16 0.39
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.45
Consensus pattern (22 bp):
TATGTATATATATATTCGAATG
Found at i:14006568 original size:25 final size:25
Alignment explanation
Indices: 14006537--14006613 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 25
14006527 TGTATATATC
14006537 TATTCGAATGTATGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
*
14006562 TATTCGAA--TATGTATATA--TATA
1 TATTCGAATGTATGTAT-TAGCTATG
* *
14006584 TATTCGGATGTAGGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
14006609 TATTC
1 TATTC
14006614 AGGTATAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 10 0.23
23 9 0.21
24 8 0.19
25 16 0.37
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (25 bp):
TATTCGAATGTATGTATTAGCTATG
Found at i:14006582 original size:47 final size:45
Alignment explanation
Indices: 14006522--14006613 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 45
14006512 TGTATATGAT
* *
14006522 GAATATGTATATATCTATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
*
14006567 GAATATGTATATATATATATTCGGATGTAGGTATTAGCTATGTATTC
1 GAATATG--TATATATATATTCGAATGTAGGTATTAGCTATGTATTC
14006614 AGGTATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
45 7 0.17
47 35 0.83
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (45 bp):
GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
Found at i:14013104 original size:2 final size:2
Alignment explanation
Indices: 14013097--14013122 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14013087 GTGTAGATTT
14013097 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14013123 ATAATCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14013807 original size:41 final size:41
Alignment explanation
Indices: 14013745--14013864 Score: 150
Period size: 41 Copynumber: 2.9 Consensus size: 41
14013735 TGATCGAATG
* *
14013745 TAATACAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
*
14013786 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGATA
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
* * * * * * *
14013827 CATTTCGGACTATAGGTCTAGCAGGCTAAAAGCCGGTG
1 TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTG
14013865 TACTGAATCA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.28
Consensus pattern (41 bp):
TAATTCAGACTTTACGTCTAGCAGGCTTAATGCCGGTGAAA
Found at i:14014249 original size:25 final size:25
Alignment explanation
Indices: 14014218--14014292 Score: 97
Period size: 25 Copynumber: 3.2 Consensus size: 25
14014208 TGTATATATC
14014218 TATTCGAATGTATGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
*
14014243 TATTCGAA--TATGTA-TA--TATA
1 TATTCGAATGTATGTATTAGCTATG
*
14014263 TATTCGAATGTAGGTATTAGCTATG
1 TATTCGAATGTATGTATTAGCTATG
14014288 TATTC
1 TATTC
14014293 AGGTATAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
20 11 0.26
22 7 0.17
23 8 0.19
25 16 0.38
ACGTcount: A:0.31, C:0.08, G:0.17, T:0.44
Consensus pattern (25 bp):
TATTCGAATGTATGTATTAGCTATG
Found at i:14014252 original size:45 final size:45
Alignment explanation
Indices: 14014203--14014292 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
14014193 TGTATATGAT
* *
14014203 GAATATGTATATATCTATTCGAATGTATGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
14014248 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
1 GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
14014293 AGGTATAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (45 bp):
GAATATGTATATATATATTCGAATGTAGGTATTAGCTATGTATTC
Found at i:14014268 original size:20 final size:20
Alignment explanation
Indices: 14014203--14014271 Score: 75
Period size: 20 Copynumber: 3.2 Consensus size: 20
14014193 TGTATATGAT
*
14014203 GAATATGTATATATCTATTC
1 GAATATGTATATATATATTC
*
14014223 GAATGTATGTATTAGCTATGTATTC
1 GAA--TATGTA-TA--TATATATTC
14014248 GAATATGTATATATATATTC
1 GAATATGTATATATATATTC
14014268 GAAT
1 GAAT
14014272 GTAGGTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
20 15 0.36
22 8 0.19
23 8 0.19
25 11 0.26
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.43
Consensus pattern (20 bp):
GAATATGTATATATATATTC
Found at i:14021140 original size:22 final size:22
Alignment explanation
Indices: 14021115--14021158 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
14021105 AACATAACAC
14021115 ATCATGTTCTCTAGTATGCATA
1 ATCATGTTCTCTAGTATGCATA
14021137 ATCATGTTCTCTAGTATGCATA
1 ATCATGTTCTCTAGTATGCATA
14021159 CATATATCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (22 bp):
ATCATGTTCTCTAGTATGCATA
Found at i:14044994 original size:40 final size:40
Alignment explanation
Indices: 14044950--14045025 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
14044940 AATGTGAAAC
* * *
14044950 CAGGGGCATCGTAGTGCGAACA-AGGACACCGAAGTGTGTA
1 CAGGGGCACCGAAGTGCAAACAGAGG-CACCGAAGTGTGTA
*
14044990 CAGGGGCACCGAAGTGCAAATAGAGGCACCGAAGTG
1 CAGGGGCACCGAAGTGCAAACAGAGGCACCGAAGTG
14045026 CAAATCCTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 28 0.90
41 3 0.10
ACGTcount: A:0.32, C:0.21, G:0.36, T:0.12
Consensus pattern (40 bp):
CAGGGGCACCGAAGTGCAAACAGAGGCACCGAAGTGTGTA
Found at i:14050929 original size:27 final size:27
Alignment explanation
Indices: 14050896--14051051 Score: 190
Period size: 27 Copynumber: 5.7 Consensus size: 27
14050886 TACCTTTTAG
14050896 GGGTATTTCGGTAATTTTACCCTTCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
* * **
14050923 GGATATTTCAGTAATTATTA-CCTTTTA
1 GGGTATTTCGGTAATT-TTACCCTTCGA
*
14050950 GAGGTATTTTGGTAATTTTTACCCTTC-A
1 G-GGTATTTCGGTAA-TTTTACCCTTCGA
* *
14050978 GGGTATTTCGATAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
14051005 GGGTATTTCGGTAATTTTACCCATCGA
1 GGGTATTTCGGTAATTTTACCCTTCGA
*
14051032 GGGTATTTTGGTAATTTTAC
1 GGGTATTTCGGTAATTTTAC
14051052 GGCTTAAGCC
Statistics
Matches: 111, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.09
27 77 0.69
28 18 0.16
29 6 0.05
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTAATTTTACCCTTCGA
Found at i:14051012 original size:82 final size:81
Alignment explanation
Indices: 14050896--14051049 Score: 220
Period size: 82 Copynumber: 1.9 Consensus size: 81
14050886 TACCTTTTAG
* * **
14050896 GGGTATTTCGGTAATTTTACCCTTCGAGGATATTTCAGTAATTATTACCTTTTAGA-GGTATTTT
1 GGGTATTTCGATAATTTTACCCATCGAGGATATTTCAGTAATT-TTACC-CATAGAGGGTATTTT
14050960 GGTAATTTTTACCCTTCA
64 GGTAATTTTTACCCTTCA
* * *
14050978 GGGTATTTCGATAATTTTACCCATCGAGGGTATTTCGGTAATTTTACCCATCGAGGGTATTTTGG
1 GGGTATTTCGATAATTTTACCCATCGAGGATATTTCAGTAATTTTACCCATAGAGGGTATTTTGG
14051043 TAATTTT
66 TAATTTT
14051050 ACGGCTTAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
80 3 0.05
81 22 0.34
82 39 0.61
ACGTcount: A:0.23, C:0.14, G:0.19, T:0.44
Consensus pattern (81 bp):
GGGTATTTCGATAATTTTACCCATCGAGGATATTTCAGTAATTTTACCCATAGAGGGTATTTTGG
TAATTTTTACCCTTCA
Found at i:14055636 original size:17 final size:17
Alignment explanation
Indices: 14055614--14055648 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14055604 GAAATATAAC
*
14055614 TGGTGTAGGCAAAGAAA
1 TGGTGTAGGCAAAAAAA
14055631 TGGTGTAGGCAAAAAAA
1 TGGTGTAGGCAAAAAAA
14055648 T
1 T
14055649 TTTATTGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.31, T:0.20
Consensus pattern (17 bp):
TGGTGTAGGCAAAAAAA
Found at i:14059025 original size:26 final size:26
Alignment explanation
Indices: 14058990--14059052 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
14058980 TTCATACTCA
* *
14058990 ATAATAGTCATATAAACGTCATAAAG-C
1 ATAACAGTCATACAAA-G-CATAAAGCC
*
14059017 AT-ACAGTCATACATAGCATAAAGCC
1 ATAACAGTCATACAAAGCATAAAGCC
14059042 ATAACAGTCAT
1 ATAACAGTCAT
14059053 TTATTCTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 7 0.23
25 4 0.13
26 18 0.58
27 2 0.06
ACGTcount: A:0.46, C:0.19, G:0.11, T:0.24
Consensus pattern (26 bp):
ATAACAGTCATACAAAGCATAAAGCC
Found at i:14059108 original size:27 final size:27
Alignment explanation
Indices: 14059078--14059382 Score: 357
Period size: 27 Copynumber: 11.3 Consensus size: 27
14059068 TATAACGGTC
**
14059078 ATTTTACCCTTCGAGGGTATTTTAATA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
** *
14059105 ATTTTACCCTTTAAGGGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
14059132 ATTTTTACCCTTTTG-GGGTATTTTGGTA
1 A-TTTTACCC-TTCGAGGGTATTTTGGTA
* * *
14059160 ATATTACCCATCGAGGGTATGTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
14059187 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
*
14059214 ATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * * *
14059241 ATTTTACCCATCAAGAGTATTTTAGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
* * * *
14059268 ATTTTATCCATCGAGGGCATCTTGGTA
1 ATTTTACCCTTCGAGGGTATTTTGGTA
14059295 ATTTTACCCATT-GAGGGTATTTTGGTA
1 ATTTTACCC-TTCGAGGGTATTTTGGTA
14059322 ATTTTA-CCTATCGAGGGTATTTTGGTA
1 ATTTTACCCT-TCGAGGGTATTTTGGTA
*
14059349 ATTTTA-CCTATCGAGGGTATTTTGGAA
1 ATTTTACCCT-TCGAGGGTATTTTGGTA
14059376 ATTTTAC
1 ATTTTAC
14059383 GGCCTAAGCC
Statistics
Matches: 246, Mismatches: 25, Indels: 13
0.87 0.09 0.05
Matches are distributed among these distances:
25 1 0.00
26 5 0.02
27 215 0.87
28 22 0.09
29 3 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTTCGAGGGTATTTTGGTA
Found at i:14059213 original size:54 final size:54
Alignment explanation
Indices: 14059078--14059382 Score: 396
Period size: 54 Copynumber: 5.6 Consensus size: 54
14059068 TATAACGGTC
* ** * ** *
14059078 ATTTTACCCTTCGAGGGTATTTTAATAATTTTACCCTTTAAGGGTATTTTAGTA
1 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
* * * *
14059132 ATTTTTACCCTTTTG-GGGTATTTTGGTAATATTACCCATCGAGGGTATGTTGGTA
1 A-TTTTACCC-ATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
14059187 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
* * * * * *
14059241 ATTTTACCCATCAAGAGTATTTTAGTAATTTTATCCATCGAGGGCATCTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
* *
14059295 ATTTTACCCATTGAGGGTATTTTGGTAATTTTACCTATCGAGGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
* *
14059349 ATTTTACCTATCGAGGGTATTTTGGAAATTTTAC
1 ATTTTACCCATCGAGGGTATTTTGGTAATTTTAC
14059383 GGCCTAAGCC
Statistics
Matches: 218, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 172 0.79
55 41 0.19
56 3 0.01
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (54 bp):
ATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTGGTA
Found at i:14059269 original size:81 final size:81
Alignment explanation
Indices: 14059078--14059382 Score: 405
Period size: 81 Copynumber: 3.8 Consensus size: 81
14059068 TATAACGGTC
* * * ** *
14059078 ATTTTACCCTTCGAGGGTATTTTAATAATTTTACCCTTTAAGGGTATTTTAGTAATTTTTACCCT
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTGGTAA-TTTTACCC-
*
14059143 TTTG-GGGTATTTTGGTA
64 ATTGAGGGTATTTTGGTA
* * *
14059160 ATATTACCCATCGAGGGTATGTTGGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCAT
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCAT
*
14059225 CGAGGGTATTTTGGTA
66 TGAGGGTATTTTGGTA
* * * * *
14059241 ATTTTACCCATCAAGAGTATTTTAGTAATTTTATCCATCGAGGGCATCTTGGTAATTTTACCCAT
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCAT
14059306 TGAGGGTATTTTGGTA
66 TGAGGGTATTTTGGTA
* * * *
14059322 ATTTTACCTATCGAGGGTATTTTGGTAATTTTACCTATCGAGGGTATTTTGGAAATTTTAC
1 ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTAC
14059383 GGCCTAAGCC
Statistics
Matches: 193, Mismatches: 29, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 2 0.01
81 145 0.75
82 46 0.24
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (81 bp):
ATTTTACCCATCGAGGGTATTTTAGTAATTTTACCCATCGAGGGTATTTTGGTAATTTTACCCAT
TGAGGGTATTTTGGTA
Found at i:14062163 original size:3 final size:3
Alignment explanation
Indices: 14062155--14062180 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
14062145 TATTTGATCC
14062155 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
14062181 TTATCACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14070981 original size:48 final size:47
Alignment explanation
Indices: 14070906--14071053 Score: 181
Period size: 48 Copynumber: 3.1 Consensus size: 47
14070896 GAATAAAAAT
* *
14070906 AGATTTCTCGGTGGCCTGCACACAGTCCGTACCACCTTAGTGTAATAAC
1 AGATTT-TCGGTGGCCTGCACACAGTCCGTGCCACCTT-GTGTCATAAC
* * * *
14070955 AGATTTTCGGTGGCCTACACATAGTCCGTGCCAGCCTTGTATCTTAAC
1 AGATTTTCGGTGGCCTGCACACAGTCCGTGCCA-CCTTGTGTCATAAC
*
14071003 AGATTATT-GGTGGCCTGCACACAGTCCGTGCCACTCTTGTGTCATGAC
1 AGATT-TTCGGTGGCCTGCACACAGTCCGTGCCAC-CTTGTGTCATAAC
14071051 AGA
1 AGA
14071054 ATATCGGTAC
Statistics
Matches: 85, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
47 1 0.01
48 72 0.85
49 12 0.14
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (47 bp):
AGATTTTCGGTGGCCTGCACACAGTCCGTGCCACCTTGTGTCATAAC
Found at i:14074049 original size:20 final size:20
Alignment explanation
Indices: 14074013--14074051 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
14074003 CATTCCATAG
*
14074013 CTCAAGATAACATAGAAATA
1 CTCAAGATAAAATAGAAATA
14074033 CTCAA-ATAAAATCAGAAAT
1 CTCAAGATAAAAT-AGAAAT
14074052 CATACTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.56, C:0.15, G:0.08, T:0.21
Consensus pattern (20 bp):
CTCAAGATAAAATAGAAATA
Found at i:14077845 original size:11 final size:11
Alignment explanation
Indices: 14077829--14077859 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
14077819 TCATCTAGAA
14077829 ATGATCGGCAG
1 ATGATCGGCAG
*
14077840 ATGATCGACAG
1 ATGATCGGCAG
14077851 ATGATCGGC
1 ATGATCGGC
14077860 TACTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.29, C:0.19, G:0.32, T:0.19
Consensus pattern (11 bp):
ATGATCGGCAG
Found at i:14095255 original size:26 final size:26
Alignment explanation
Indices: 14095226--14095275 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
14095216 TGAGTAGGCC
14095226 TATTTCATAGCTCGTGTGAGCATACT
1 TATTTCATAGCTCGTGTGAGCATACT
*
14095252 TATTTCATAGCTTGTGTGAGCATA
1 TATTTCATAGCTCGTGTGAGCATA
14095276 TATGTAAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (26 bp):
TATTTCATAGCTCGTGTGAGCATACT
Found at i:14096525 original size:53 final size:54
Alignment explanation
Indices: 14096400--14096528 Score: 188
Period size: 53 Copynumber: 2.4 Consensus size: 54
14096390 AAAGTCAGGC
* * *
14096400 AGTTACATGGCTTAGCACAAGGCTTGGCACATGGGCGTGTGAGGCAATTTCGAG
1 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGCGTGTGAGGCAATTTCGAG
* * *
14096454 AGTTACACGACCTAGCACAAGGCCTGGCACATGGG-GTGTGAGGCCATTTTGAG
1 AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGCGTGTGAGGCAATTTCGAG
*
14096507 AGTTACACGGCCTGGCACAAGG
1 AGTTACACGGCCTAGCACAAGG
14096529 GCGTGTGGCT
Statistics
Matches: 67, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 36 0.54
54 31 0.46
ACGTcount: A:0.25, C:0.22, G:0.33, T:0.21
Consensus pattern (54 bp):
AGTTACACGGCCTAGCACAAGGCCTGGCACATGGGCGTGTGAGGCAATTTCGAG
Found at i:14104015 original size:13 final size:13
Alignment explanation
Indices: 14103997--14104025 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
14103987 AGGCCAAAAG
14103997 AAACCTGCTTGCA
1 AAACCTGCTTGCA
14104010 AAACCTGCTTGCA
1 AAACCTGCTTGCA
14104023 AAA
1 AAA
14104026 TCTTTGCTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (13 bp):
AAACCTGCTTGCA
Found at i:14111468 original size:18 final size:18
Alignment explanation
Indices: 14111445--14111491 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
14111435 TAAGTGCACT
14111445 TTAATTATTTTGTAAAAA
1 TTAATTATTTTGTAAAAA
14111463 TTAATTATTTTGTAAAAA
1 TTAATTATTTTGTAAAAA
14111481 TTAATTATTTT
1 TTAATTATTTT
14111492 TTCGACAAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.55
Consensus pattern (18 bp):
TTAATTATTTTGTAAAAA
Found at i:14111605 original size:11 final size:11
Alignment explanation
Indices: 14111589--14111630 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
14111579 TGAGAATGAA
14111589 TGAGGGATGCC
1 TGAGGGATGCC
*
14111600 TGAGGGATGCT
1 TGAGGGATGCC
14111611 TGAGGGATGCC
1 TGAGGGATGCC
*
14111622 TAAGGGATG
1 TGAGGGATG
14111631 ATGAATGAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.21, C:0.12, G:0.45, T:0.21
Consensus pattern (11 bp):
TGAGGGATGCC
Found at i:14111614 original size:22 final size:22
Alignment explanation
Indices: 14111589--14111630 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
14111579 TGAGAATGAA
*
14111589 TGAGGGATGCCTGAGGGATGCT
1 TGAGGGATGCCTAAGGGATGCT
14111611 TGAGGGATGCCTAAGGGATG
1 TGAGGGATGCCTAAGGGATG
14111631 ATGAATGAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.12, G:0.45, T:0.21
Consensus pattern (22 bp):
TGAGGGATGCCTAAGGGATGCT
Found at i:14115755 original size:30 final size:29
Alignment explanation
Indices: 14115716--14115783 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
14115706 ACCAATAAAA
*
14115716 GCCGTTTTTTTTCAAAATTTACCGAAATGG
1 GCCGATTTTTTT-AAAATTTACCGAAATGG
** *
14115746 GCCGATTTTTTTATTATTTACCGGAATGG
1 GCCGATTTTTTTAAAATTTACCGAAATGG
14115775 GCC-ATTTTT
1 GCCGATTTTT
14115784 CGCGAAATCG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 6 0.18
29 17 0.50
30 11 0.32
ACGTcount: A:0.22, C:0.16, G:0.18, T:0.44
Consensus pattern (29 bp):
GCCGATTTTTTTAAAATTTACCGAAATGG
Found at i:14116777 original size:26 final size:31
Alignment explanation
Indices: 14116745--14116809 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
14116735 GTTAGTGATT
14116745 TAATATAAGT-ATATAATTA-TTATT-TAAA
1 TAATATAAGTAATATAATTATTTATTATAAA
*
14116773 -ATATATAATTAATATAATTATTTATTAT-AA
1 TA-ATATAAGTAATATAATTATTTATTATAAA
14116803 TAATATA
1 TAATATA
14116810 TTCGGGTCAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 1 0.03
28 7 0.23
29 9 0.29
30 12 0.39
31 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
TAATATAAGTAATATAATTATTTATTATAAA
Found at i:14116789 original size:29 final size:31
Alignment explanation
Indices: 14116747--14116810 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 31
14116737 TAGTGATTTA
14116747 ATATAAGTATATAATTA-TTATT-TAA-AAT
1 ATATAAGTATATAATTATTTATTATAATAAT
*
14116775 ATATAATTAATATAATTATTTATTATAATAAT
1 ATATAAGT-ATATAATTATTTATTATAATAAT
14116807 ATAT
1 ATAT
14116811 TCGGGTCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 7 0.23
29 9 0.29
30 5 0.16
31 3 0.10
32 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (31 bp):
ATATAAGTATATAATTATTTATTATAATAAT
Found at i:14129996 original size:29 final size:29
Alignment explanation
Indices: 14129928--14129998 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
14129918 TATAAGAAAA
* * * *
14129928 CCTTTGTGGCGATCTCTGTCAAAAGGATT
1 CCTTTGTGGCTATATCTGTCAAAACGATG
*
14129957 CCTTTGTGGCTATATTTGTCAAAACGATG
1 CCTTTGTGGCTATATCTGTCAAAACGATG
14129986 CCTTTGTGGCTAT
1 CCTTTGTGGCTAT
14129999 CGCTATTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.38
Consensus pattern (29 bp):
CCTTTGTGGCTATATCTGTCAAAACGATG
Found at i:14132923 original size:26 final size:26
Alignment explanation
Indices: 14132839--14132929 Score: 94
Period size: 26 Copynumber: 3.5 Consensus size: 26
14132829 TGACAAGCTA
* * * *
14132839 GGGTTCGCCAGGTAAGCTGCGAACTG
1 GGGTTCGCCAGTTGAGTTGTGAACTG
*
14132865 GGGTTCGCCAGTCTG-TTTGGTGAACTG
1 GGGTTCGCCAGT-TGAGTT-GTGAACTG
* *
14132892 GTGTTCGCCAGTTGAGTTGTGAATTG
1 GGGTTCGCCAGTTGAGTTGTGAACTG
14132918 GGGTTCGCCAGT
1 GGGTTCGCCAGT
14132930 CAAAGATTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
26 32 0.60
27 21 0.40
ACGTcount: A:0.14, C:0.19, G:0.37, T:0.30
Consensus pattern (26 bp):
GGGTTCGCCAGTTGAGTTGTGAACTG
Found at i:14134703 original size:49 final size:51
Alignment explanation
Indices: 14134595--14134707 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
14134585 CGGATACCTC
* *
14134595 GTGGCCTGCACATAGTACCACCCTTGTAGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTCTTCACAAA
* * *
14134646 GTGGCCTTCACATAGTACCACACTTGT-GATCAAA-CTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTACCTTCTTCACAAA
14134695 GTGGCCTTCACAT
1 GTGGCCTTCACAT
14134708 CCACACTTGA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
49 22 0.39
50 5 0.09
51 29 0.52
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTACCTTCTTCACAAA
Found at i:14137765 original size:45 final size:45
Alignment explanation
Indices: 14137709--14137803 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
14137699 TACTACGTGA
* *
14137709 ACCGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
* *
14137754 ACCGGACATCATTGATTAATAAGGTGGTTGCTATGTGTTGAATCC
1 ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
14137799 ACCGA
1 ACCGA
14137804 GTATCTGTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCC
Found at i:14143396 original size:25 final size:25
Alignment explanation
Indices: 14143348--14143396 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14143338 CAATCTGTGA
* * *
14143348 TTATTCTGCGAACTCATGTTTTATG
1 TTATACTGCGAACTCATATGTTATG
*
14143373 TTATACTGCGAGCTCATATGTTAT
1 TTATACTGCGAACTCATATGTTAT
14143397 TGTGTTGAGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATACTGCGAACTCATATGTTATG
Found at i:14152840 original size:32 final size:32
Alignment explanation
Indices: 14152804--14152865 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
14152794 TAAGTTTACG
14152804 AAATAAAAACT-TAGAATTTTATTTACTAAGTC
1 AAATAAAAACTCTA-AATTTTATTTACTAAGTC
* *
14152836 AAATAAACAGTGCTAAATTTTATTTACTAA
1 AAATAAAAACT-CTAAATTTTATTTACTAA
14152866 ATGAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 9 0.35
33 15 0.58
34 2 0.08
ACGTcount: A:0.47, C:0.10, G:0.06, T:0.37
Consensus pattern (32 bp):
AAATAAAAACTCTAAATTTTATTTACTAAGTC
Found at i:14160998 original size:82 final size:81
Alignment explanation
Indices: 14160861--14161028 Score: 230
Period size: 82 Copynumber: 2.1 Consensus size: 81
14160851 AAGTGCATTC
* *
14160861 AGGGGTATCGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACTAAAGTACAAATAG-G
1 AGGGGCATCGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAA-AGAG
14160925 AGCATGTATGAGCAATTT
65 -GCATGTATGAGCAATTT
* * ** * *
14160943 AGGGGCATTGAAGTACAAATAGGGGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAAAGAGG
1 AGGGGCATCGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAAAGAGG
*
14161008 CATGTATGTGCAATTT
66 CATGTATGAGCAATTT
14161024 AGGGG
1 AGGGG
14161029 TATTCTTCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
81 23 0.30
82 53 0.70
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.20
Consensus pattern (81 bp):
AGGGGCATCGAAGTACAAAGAAAGGCACGTATGTGCAATACAGGGGCACCAAAGTACAAAAGAGG
CATGTATGAGCAATTT
Found at i:14161028 original size:40 final size:41
Alignment explanation
Indices: 14160853--14161030 Score: 173
Period size: 41 Copynumber: 4.4 Consensus size: 41
14160843 GGGTACAAAA
* * * *
14160853 GTGC-ATTCAGGGGTATCGAAGTACAAAGAAAGGCACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGAGGCACGTAT
* * * *
14160893 GTGCAATACAGGGGCACTAAAGTACAAATAG-GAGCATGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGAG-GCACGTAT
* * * *** *
14160934 GAGCAATTTAGGGGCATTGAAGTACAAATAGGGGCACGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGAGGCACGTAT
*
14160975 GTGCAATTCAGGGGTACCAAAGTACAAA-AGAGGCATGTAT
1 GTGCAATTCAGGGGTACCAAAGTACAAATAGAGGCACGTAT
*
14161015 GTGCAATTTAGGGGTA
1 GTGCAATTCAGGGGTA
14161031 TTCTTCTAAA
Statistics
Matches: 112, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
40 30 0.27
41 81 0.72
42 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.21
Consensus pattern (41 bp):
GTGCAATTCAGGGGTACCAAAGTACAAATAGAGGCACGTAT
Found at i:14162449 original size:14 final size:14
Alignment explanation
Indices: 14162430--14162476 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
14162420 AATTCAAAAT
*
14162430 GTTTCAGTTCTAAA
1 GTTTCAGTTCTATA
14162444 GTTTCA-TTACTATA
1 GTTTCAGTT-CTATA
*
14162458 GTATCAGTATCTATA
1 GTTTCAGT-TCTATA
14162473 GTTT
1 GTTT
14162477 TCAGAATCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
13 2 0.07
14 15 0.56
15 9 0.33
16 1 0.04
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.47
Consensus pattern (14 bp):
GTTTCAGTTCTATA
Found at i:14162485 original size:16 final size:16
Alignment explanation
Indices: 14162461--14162542 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 16
14162451 TACTATAGTA
*
14162461 TCAGTATCTATAGTTT
1 TCAGAATCTATAGTTT
14162477 TCAGAATCTA-AG-TT
1 TCAGAATCTATAGTTT
* *
14162491 TCA-CA-GTATAGTTT
1 TCAGAATCTATAGTTT
*
14162505 CCAGAATCTA-AG-TT
1 TCAGAATCTATAGTTT
* *
14162519 TCA-CA-GTATAGTTT
1 TCAGAATCTATAGTTT
14162533 TCAGAATCTA
1 TCAGAATCTA
14162543 AATTTTTGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 16
0.64 0.15 0.22
Matches are distributed among these distances:
12 4 0.09
13 6 0.13
14 18 0.38
15 6 0.13
16 13 0.28
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (16 bp):
TCAGAATCTATAGTTT
Found at i:14162501 original size:28 final size:28
Alignment explanation
Indices: 14162469--14162543 Score: 141
Period size: 28 Copynumber: 2.7 Consensus size: 28
14162459 TATCAGTATC
14162469 TATAGTTTTCAGAATCTAAGTTTCACAG
1 TATAGTTTTCAGAATCTAAGTTTCACAG
*
14162497 TATAGTTTCCAGAATCTAAGTTTCACAG
1 TATAGTTTTCAGAATCTAAGTTTCACAG
14162525 TATAGTTTTCAGAATCTAA
1 TATAGTTTTCAGAATCTAA
14162544 ATTTTTGTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (28 bp):
TATAGTTTTCAGAATCTAAGTTTCACAG
Found at i:14163841 original size:36 final size:36
Alignment explanation
Indices: 14163801--14163894 Score: 161
Period size: 36 Copynumber: 2.6 Consensus size: 36
14163791 TTATCACTAC
14163801 GGCATGCTTAACATGCGAATCAGAATAAAAAATTAG
1 GGCATGCTTAACATGCGAATCAGAATAAAAAATTAG
* *
14163837 GGCATGCTTAACATGCGAATCAGAATCAGAAATTAG
1 GGCATGCTTAACATGCGAATCAGAATAAAAAATTAG
*
14163873 GGCATGCTTAACATGGGAATCA
1 GGCATGCTTAACATGCGAATCA
14163895 TACATACAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.22
Consensus pattern (36 bp):
GGCATGCTTAACATGCGAATCAGAATAAAAAATTAG
Found at i:14174033 original size:45 final size:45
Alignment explanation
Indices: 14173969--14174133 Score: 233
Period size: 45 Copynumber: 3.7 Consensus size: 45
14173959 GTGTACCAAG
* * *
14173969 TATCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCATCGGA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
** * *
14174014 TATCATTGAAAATAAAGGTGGTTGCCATGTGCTGACTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
* *
14174059 AATCATTTATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
*
14174104 TATAATTGATTATAAAGGTGG-TGCTATGTG
1 TATCATTGATTATAAAGGTGGTTGCTATGTG
14174134 TTGACCCACC
Statistics
Matches: 104, Mismatches: 16, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 9 0.09
45 95 0.91
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (45 bp):
TATCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGAA
Found at i:14188272 original size:18 final size:18
Alignment explanation
Indices: 14188251--14188289 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14188241 AAAGGAAGAC
14188251 AGAAAAAGA-AATCGAAAA
1 AGAAAAAGAGAAT-GAAAA
14188269 AGAAAAAGAGAATGAAAA
1 AGAAAAAGAGAATGAAAA
14188287 AGA
1 AGA
14188290 GCAAAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.05
Consensus pattern (18 bp):
AGAAAAAGAGAATGAAAA
Found at i:14190081 original size:33 final size:34
Alignment explanation
Indices: 14190044--14190115 Score: 119
Period size: 33 Copynumber: 2.1 Consensus size: 34
14190034 GAGTTAGTTT
14190044 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAG-A
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
* *
14190077 ATTAATTTTAGTTCAGCTTAAATAAGTGTTAGTA
1 ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
14190111 ATTAA
1 ATTAA
14190116 TTTGTTTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 30 0.83
34 6 0.17
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (34 bp):
ATTAAATTTAGTTCAGCTCAAATAAGTGTTAGTA
Found at i:14193215 original size:25 final size:27
Alignment explanation
Indices: 14193187--14193240 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
14193177 TAATTTTTTT
*
14193187 TAAAACAAACAAT-TTTTTTAAAA-AA
1 TAAAACAAAAAATATTTTTTAAAATAA
**
14193212 TAAATTAAAAAATATTTTTTAAAATAA
1 TAAAACAAAAAATATTTTTTAAAATAA
14193239 TA
1 TA
14193241 TGTTGAAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.42
26 10 0.42
27 4 0.17
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (27 bp):
TAAAACAAAAAATATTTTTTAAAATAA
Found at i:14195712 original size:4 final size:4
Alignment explanation
Indices: 14195703--14195731 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
14195693 CAAACACCAA
14195703 AGCC AGCC AGCC AGCC AGCC AGCC AGCC A
1 AGCC AGCC AGCC AGCC AGCC AGCC AGCC A
14195732 TCTCTTTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.28, C:0.48, G:0.24, T:0.00
Consensus pattern (4 bp):
AGCC
Found at i:14201177 original size:15 final size:15
Alignment explanation
Indices: 14201159--14201197 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
14201149 ATACAATAGC
14201159 AATTAATAATTTTAA
1 AATTAATAATTTTAA
**
14201174 AATTAATTTTTTTAA
1 AATTAATAATTTTAA
14201189 AATTAATAA
1 AATTAATAA
14201198 AATTAAATGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTAATAATTTTAA
Found at i:14214651 original size:23 final size:21
Alignment explanation
Indices: 14214612--14214653 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
14214602 TACTTAAGTA
14214612 ACATTTTGTTGCATTTTTAGG
1 ACATTTTGTTGCATTTTTAGG
14214633 ACATTTTAGTTAGCATTTTTA
1 ACATTTT-GTT-GCATTTTTA
14214654 ATATTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 7 0.37
22 3 0.16
23 9 0.47
ACGTcount: A:0.24, C:0.10, G:0.14, T:0.52
Consensus pattern (21 bp):
ACATTTTGTTGCATTTTTAGG
Found at i:14217203 original size:20 final size:20
Alignment explanation
Indices: 14217170--14217256 Score: 59
Period size: 20 Copynumber: 4.3 Consensus size: 20
14217160 GCATCATAGA
* *
14217170 TGCATAACAGGGGCACCGAAG
1 TGCA-AACAAGGGCACCAAAG
*
14217191 TGCAAACAAGGGCA-CAAATA
1 TGCAAACAAGGGCACCAAA-G
* *
14217211 TGCAAGCAAGGGCAACAAAG
1 TGCAAACAAGGGCACCAAAG
* * * *
14217231 TGTATACAAAGGCACCGAAG
1 TGCAAACAAGGGCACCAAAG
*
14217251 TTCAAA
1 TGCAAA
14217257 TCCTGTACAA
Statistics
Matches: 50, Mismatches: 14, Indels: 5
0.72 0.20 0.07
Matches are distributed among these distances:
19 3 0.06
20 39 0.78
21 8 0.16
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (20 bp):
TGCAAACAAGGGCACCAAAG
Found at i:14226614 original size:22 final size:23
Alignment explanation
Indices: 14226584--14226635 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
14226574 TAGACAAGTC
* *
14226584 ACCATATAATTACGGATAAAC-G
1 ACCACATAATTACAGATAAACTG
*
14226606 ACCACATAATTGCAGATAAACTG
1 ACCACATAATTACAGATAAACTG
14226629 -CCACATA
1 ACCACATA
14226636 TCTTCCTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 25 0.96
23 1 0.04
ACGTcount: A:0.44, C:0.23, G:0.12, T:0.21
Consensus pattern (23 bp):
ACCACATAATTACAGATAAACTG
Found at i:14226906 original size:18 final size:19
Alignment explanation
Indices: 14226876--14226912 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
14226866 TTTGCACAAA
14226876 CATCACAATCACATAATAT
1 CATCACAATCACATAATAT
14226895 CATCAC-ATCACATAATAT
1 CATCACAATCACATAATAT
14226913 AATTTTCGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (19 bp):
CATCACAATCACATAATAT
Found at i:14240557 original size:17 final size:17
Alignment explanation
Indices: 14240535--14240588 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
14240525 AAATTAACTA
14240535 AATGCAAGATGATCCCT
1 AATGCAAGATGATCCCT
* *
14240552 AATGCAA-TTTATCCCT
1 AATGCAAGATGATCCCT
* *
14240568 AATGCTAGAAGATCCCT
1 AATGCAAGATGATCCCT
14240585 AATG
1 AATG
14240589 ATTAATTAGA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 13 0.43
17 17 0.57
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (17 bp):
AATGCAAGATGATCCCT
Found at i:14257811 original size:102 final size:102
Alignment explanation
Indices: 14257647--14257836 Score: 328
Period size: 102 Copynumber: 1.9 Consensus size: 102
14257637 CCAATAATAA
* *
14257647 AATAACATAGGTTAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
1 AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
14257712 GAACTTTAATTTGATCATTTTCATTCCCATACCCAAT
66 GAACTTTAATTTGATCATTTTCATTCCCATACCCAAT
* *
14257749 AATAAAATAGGTCAATTTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTTG-ATTTAGTACT
1 AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTG-TGAATTTAGTACC
14257813 TGAACTTTAATTTGATCATTTTCA
65 TGAACTTTAATTTGATCATTTTCA
14257837 GTCCTTTATT
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
102 81 0.98
103 2 0.02
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.44
Consensus pattern (102 bp):
AATAAAATAGGTCAAATTTTGCTATTAGACCTTGTATTTTTGCATAAGTTGTGAATTTAGTACCT
GAACTTTAATTTGATCATTTTCATTCCCATACCCAAT
Found at i:14260583 original size:138 final size:135
Alignment explanation
Indices: 14260315--14260729 Score: 638
Period size: 138 Copynumber: 3.0 Consensus size: 135
14260305 TAGAAAAAGG
* * *
14260315 AATTGTATTCTTTCTAAAAGAATATTAATTTTCATTTCTTTTATATATTGACTGAAATTAATTAA
1 AATTATATTCTTTCTAAAAGAATATTAATTTTAATGTCTTTTATAT-TTGACTGAAATTAATTAA
14260380 TATAA-TTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
65 TATAATTTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCA
14260444 TATATT
130 TATATT
* *
14260450 AATTATATTCTTTCTAAAAGAATATTAATTTCT-ATGCCTTTTATAGTTTGACTGAAAGTAATTA
1 AATTATATTCTTTCTAAAAGAATATTAATTT-TAATGTCTTTTATA-TTTGACTGAAATTAATTA
*
14260514 ATTTAATTGTTTATATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
64 ATATAATT-TTT-TATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAAT
14260579 TCATATATT
127 TCATATATT
* * *
14260588 AATTATATCCTTTCCAAAAGAATATTAATTTTAATGTCTTTTATATTTTGACCGAAATTAATTAA
1 AATTATATTCTTTCTAAAAGAATATTAATTTTAATGTCTTTTATA-TTTGACTGAAATTAATTAA
*
14260653 TATAATTATTTTTATTAATAAATT-TAGTAAAATATATACAATTAATATTTTGTATGAATCAAAT
65 TATAA-T-TTTTTATTAATAAATTCGA-TAAAATATATACAATTAATATTTTGTATGAATCAAAT
14260717 TCATATATT
127 TCATATATT
14260726 AATT
1 AATT
14260730 TTATCTATGT
Statistics
Matches: 258, Mismatches: 13, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
135 61 0.24
136 3 0.01
137 5 0.02
138 184 0.71
139 4 0.02
140 1 0.00
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (135 bp):
AATTATATTCTTTCTAAAAGAATATTAATTTTAATGTCTTTTATATTTGACTGAAATTAATTAAT
ATAATTTTTTATTAATAAATTCGATAAAATATATACAATTAATATTTTGTATGAATCAAATTCAT
ATATT
Found at i:14266952 original size:2 final size:2
Alignment explanation
Indices: 14266947--14267006 Score: 50
Period size: 2 Copynumber: 30.5 Consensus size: 2
14266937 TTTTATAATC
* * * * *
14266947 TA TA TA TA TA TG TA TA TA TC TA T- TT TT TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
14266988 TG TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
14267007 TTTTTCTAAC
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
1 1 0.02
2 45 0.98
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.57
Consensus pattern (2 bp):
TA
Found at i:14266982 original size:31 final size:31
Alignment explanation
Indices: 14266905--14266996 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 31
14266895 AATTATTATT
*
14266905 TCTA-TTTTTATA-ATTTATATATGTA-ATTA
1 TCTATTTTTTATATATATATATATGTATA-TA
*
14266934 T-T-TTTTTATAATCTATATATATATGTATATA
1 TCTATTTTT-T-ATATATATATATATGTATATA
*
14266965 TCTATTTTTTATATATATGTATATGTATATA
1 TCTATTTTTTATATATATATATATGTATATA
14266996 T
1 T
14266997 ATTTATATAT
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
28 5 0.10
29 2 0.04
30 2 0.04
31 35 0.67
32 3 0.06
33 5 0.10
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.59
Consensus pattern (31 bp):
TCTATTTTTTATATATATATATATGTATATA
Found at i:14266988 original size:37 final size:35
Alignment explanation
Indices: 14266920--14267011 Score: 98
Period size: 37 Copynumber: 2.6 Consensus size: 35
14266910 TTTTATAATT
*
14266920 TATATATGTA-AT-TATTTTTTTATAATCTATATA
1 TATATATATATATATATTTTTTTATAATCTATATA
* * * *
14266953 TATATGTATATATCTATTTTTTATATATATGTATATG
1 TATATATATATATATATTTTTT-TATA-ATCTATATA
*
14266990 TATATATATTTATATATTTTTT
1 TATATATATATATATATTTTTT
14267012 CTAACGAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
33 8 0.17
34 2 0.04
35 8 0.17
36 4 0.08
37 26 0.54
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (35 bp):
TATATATATATATATATTTTTTTATAATCTATATA
Found at i:14267335 original size:27 final size:23
Alignment explanation
Indices: 14267274--14267336 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 23
14267264 ATACCTTCTA
14267274 TTCTTTATATTTT-TTGTTTATT
1 TTCTTTATATTTTATTGTTTATT
* *
14267296 TTCTTCATTTTTTATTGATTTATGTT
1 TTCTTTATATTTTATTG-TTTA--TT
14267322 TTCATTTATATTTTA
1 TTC-TTTATATTTTA
14267337 AAAGAATGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
22 11 0.34
23 3 0.09
24 4 0.12
26 5 0.16
27 9 0.28
ACGTcount: A:0.17, C:0.06, G:0.05, T:0.71
Consensus pattern (23 bp):
TTCTTTATATTTTATTGTTTATT
Found at i:14290780 original size:48 final size:48
Alignment explanation
Indices: 14290709--14290803 Score: 163
Period size: 48 Copynumber: 2.0 Consensus size: 48
14290699 TTCTTTGCTT
14290709 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
1 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
** *
14290757 AAAAATGCCTAAGTTGGCCTAACTTGCAATGATAAAGGATTCAACAG
1 AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
14290804 AATTCTCTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (48 bp):
AAAAATGCCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAGC
Found at i:14295925 original size:46 final size:48
Alignment explanation
Indices: 14295845--14295938 Score: 156
Period size: 46 Copynumber: 2.0 Consensus size: 48
14295835 TTTCTTTGCT
14295845 TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
* *
14295893 TAAAAACACCTAAGT-TG-CTAACTTGCAATGATAAAGGATTCAACAG
1 TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
14295939 AATTTCCTCA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
46 28 0.64
47 1 0.02
48 15 0.34
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (48 bp):
TAAAAACACCTAAGTCAGCCTAACTCGCAATGATAAAGGATTCAACAG
Found at i:14316096 original size:84 final size:84
Alignment explanation
Indices: 14315973--14316218 Score: 402
Period size: 84 Copynumber: 2.9 Consensus size: 84
14315963 CTCATGTTCA
* *
14315973 AAGGATCCTGGTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACA
1 AAGGATAC-GGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACA
* *
14316038 TAGCAACCTCTTTCACAATC
65 TAGCAACCCCTTTCACAACC
* *
14316058 AAGGATACGGTGAAATCAGCACTTAGCGACCACCTTATAATCAATGATACGGGGAATCAGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
*
14316123 AGCAACCCCTTTCCCAACC
66 AGCAACCCCTTTCACAACC
* *
14316142 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATACTCAATGATACGGGGAATCCGCACAT
1 AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
14316207 AGCAACCCCTTT
66 AGCAACCCCTTT
14316219 TTGATCAATG
Statistics
Matches: 150, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
84 143 0.95
85 7 0.05
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.21
Consensus pattern (84 bp):
AAGGATACGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAGCACAT
AGCAACCCCTTTCACAACC
Found at i:14316100 original size:42 final size:42
Alignment explanation
Indices: 14315939--14316259 Score: 289
Period size: 41 Copynumber: 7.7 Consensus size: 42
14315929 CCGTTACACA
* * ** *
14315939 GTGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGATCCTG
1 GTGGAATCAGCACTTAGCAACCACCTTATAATC-AAGGATAC-G
* *
14315983 GTGGAATTAGCACTTAGCAACCACCTTATAATCAATGATACG
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACG
* * * *
14316025 G-GGAATCAGCACATAGCAACCTCTTTCACAATCAAGGATACG
1 GTGGAATCAGCACTTAGCAACCACCTT-ATAATCAAGGATACG
* * *
14316067 GTGAAATCAGCACTTAGCGACCACCTTATAATCAATGATACG
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACG
* *
14316109 G-GGAATCAGCACATAGCAACC-CCTT-TCCCAACCAAGGATACG
1 GTGGAATCAGCACTTAGCAACCACCTTAT---AATCAAGGATACG
* *
14316151 GTGGAATCAGCACTTAGCAACCACCTTATACTCAATGATACG
1 GTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACG
* * * * * * *
14316193 G-GGAATCCGCACATAGCAACC-CCTTTTTGATCAATGATTCT
1 GTGGAATCAGCACTTAGCAACCACC-TTATAATCAAGGATACG
*
14316234 G-GGAATCTGCACTTAGCAACC-CCTTA
1 GTGGAATCAGCACTTAGCAACCACCTTA
14316260 CATTCAAAGA
Statistics
Matches: 229, Mismatches: 39, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
39 1 0.00
40 8 0.03
41 89 0.39
42 53 0.23
43 45 0.20
44 32 0.14
45 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
GTGGAATCAGCACTTAGCAACCACCTTATAATCAAGGATACG
Found at i:14316226 original size:125 final size:126
Alignment explanation
Indices: 14316019--14316258 Score: 297
Period size: 125 Copynumber: 1.9 Consensus size: 126
14316009 TATAATCAAT
* * *
14316019 GATACGGGGAATCAGCACATAGCAACCTCTTTCACAATCAAGGATACGGTGAAATCAGCACTTAG
1 GATACGGGGAATCAGCACATAGCAACCACCTTCACAATCAAGGATACGGTGAAATCAGCACATAG
*
14316084 CGACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCCCAACCAAG
66 CAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCCCAACCAAG
* * * * * *
14316145 GATACGGTGGAATCAGCACTTAGCAACCACCTT-ATACTCAATGATACGG-GGAATCCGCACATA
1 GATACGG-GGAATCAGCACATAGCAACCACCTTCACAATCAAGGATACGGTGAAATCAGCACATA
* * * * * *
14316208 GCAACC-CCTTTTTGATCAATGATTCTGGGAATCTGCACTTAGCAACCCCTT
65 GCAACCACC-TTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTT
14316259 ACATTCAAAG
Statistics
Matches: 96, Mismatches: 16, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
124 2 0.02
125 52 0.54
126 20 0.21
127 22 0.23
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (126 bp):
GATACGGGGAATCAGCACATAGCAACCACCTTCACAATCAAGGATACGGTGAAATCAGCACATAG
CAACCACCTTATAATCAATGATACGGGGAATCAGCACATAGCAACCCCTTTCCCAACCAAG
Found at i:14319564 original size:32 final size:32
Alignment explanation
Indices: 14319518--14319600 Score: 148
Period size: 32 Copynumber: 2.6 Consensus size: 32
14319508 GCATAAATAT
*
14319518 GAAATTTCCATTTAATTCAAATCATATCACTA
1 GAAACTTCCATTTAATTCAAATCATATCACTA
*
14319550 GAAACTTCCATTTAATTGAAATCATATCACTA
1 GAAACTTCCATTTAATTCAAATCATATCACTA
14319582 GAAACTTCCATTTAATTCA
1 GAAACTTCCATTTAATTCA
14319601 TGTACACTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.36
Consensus pattern (32 bp):
GAAACTTCCATTTAATTCAAATCATATCACTA
Found at i:14321841 original size:46 final size:46
Alignment explanation
Indices: 14321774--14321862 Score: 178
Period size: 46 Copynumber: 1.9 Consensus size: 46
14321764 TGGATGCAAC
14321774 AGGACTCTTAGGAGGGGAGCGACTGTTGCAGTGCAGTAAAGGTTAA
1 AGGACTCTTAGGAGGGGAGCGACTGTTGCAGTGCAGTAAAGGTTAA
14321820 AGGACTCTTAGGAGGGGAGCGACTGTTGCAGTGCAGTAAAGGT
1 AGGACTCTTAGGAGGGGAGCGACTGTTGCAGTGCAGTAAAGGT
14321863 GATGCTCCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.27, C:0.13, G:0.38, T:0.21
Consensus pattern (46 bp):
AGGACTCTTAGGAGGGGAGCGACTGTTGCAGTGCAGTAAAGGTTAA
Done.