Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 31 of 171
Found at i:14113360 original size:25 final size:23
Alignment explanation
Indices: 14113331--14113383 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
14113321 TATTTTATTA
*
14113331 ATAAATATATTAAATGAAATCATAT
1 ATAAATAAATT-AAT-AAATCATAT
* *
14113356 ATAAATAAATTCATAACTCATAT
1 ATAAATAAATTAATAAATCATAT
14113379 ATAAA
1 ATAAA
14113384 CAATTGGTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
24 2 0.08
25 10 0.40
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATAAATTAATAAATCATAT
Found at i:14117597 original size:15 final size:14
Alignment explanation
Indices: 14117577--14117606 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
14117567 ATGATCACCT
14117577 CTCTTATTTTCTTTC
1 CTCTTATTTT-TTTC
14117592 CTCTTATTTTTTTC
1 CTCTTATTTTTTTC
14117606 C
1 C
14117607 CTACTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (14 bp):
CTCTTATTTTTTTC
Found at i:14119324 original size:2 final size:2
Alignment explanation
Indices: 14119319--14119344 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14119309 AAAAATATGC
14119319 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
14119345 TTAAGTTTTT
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):
AT
Found at i:14144046 original size:28 final size:28
Alignment explanation
Indices: 14144002--14144069 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
14143992 TTAATAAAAT
* *
14144002 AATTTTAATAATATTAACAAATTAA-ATTA
1 AATTTTAA-AATATTAA-AAAATAAGACTA
*
14144031 AATTTTAAAATTTTAAAAAATAAGACTA
1 AATTTTAAAATATTAAAAAATAAGACTA
14144059 AATTCTTAAAA
1 AATT-TTAAAA
14144070 ATAAAATTAC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
27 6 0.18
28 14 0.41
29 14 0.41
ACGTcount: A:0.56, C:0.04, G:0.01, T:0.38
Consensus pattern (28 bp):
AATTTTAAAATATTAAAAAATAAGACTA
Found at i:14146026 original size:17 final size:19
Alignment explanation
Indices: 14145985--14146029 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
14145975 AGATATCGAT
14145985 TAATTCAATTCGAAATTAGA
1 TAATT-AATTCGAAATTAGA
*
14146005 TAATTAATT-GAACTTA-A
1 TAATTAATTCGAAATTAGA
14146022 TAATTAAT
1 TAATTAAT
14146030 AATACAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 6 0.25
19 4 0.17
20 5 0.21
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (19 bp):
TAATTAATTCGAAATTAGA
Found at i:14147141 original size:11 final size:11
Alignment explanation
Indices: 14147125--14147164 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
14147115 TTTGGCTTGA
*
14147125 TTAAATCTAAT
1 TTAAATTTAAT
14147136 TTAAATTTAAAT
1 TTAAATTT-AAT
*
14147148 TTAAATTTAAA
1 TTAAATTTAAT
14147159 TTAAAT
1 TTAAAT
14147165 GATTTTATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 15 0.58
12 11 0.42
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:14147144 original size:6 final size:6
Alignment explanation
Indices: 14147133--14147164 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
14147123 GATTAAATCT
14147133 AATTTA AATTTA AATTTA AATTTA AA-TTA AAT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AAT
14147165 GATTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
AATTTA
Found at i:14147645 original size:58 final size:55
Alignment explanation
Indices: 14147552--14147683 Score: 144
Period size: 58 Copynumber: 2.3 Consensus size: 55
14147542 ATACGAGATT
* **
14147552 TAAAAAATATTTTTTTAGGTGTTTGTTAAGTCATGGTC-G-GCACCCCCTTTTTCAGA
1 TAAAAAATATTTTTTT-GGTGTTTGTCAACACATGG-CAGAG-ACCCCCTTTTTCAGA
* *
14147608 TACCAAAAATATTTTTTTGGATGTTTGTCAACACATGGCAGAGACTCGCTTTTTCAGA
1 TA--AAAAATATTTTTTTGG-TGTTTGTCAACACATGGCAGAGACCCCCTTTTTCAGA
14147666 TAAAAAA-ATTTTTTTGGT
1 TAAAAAATATTTTTTTGGT
14147684 ATCTGCCAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
54 1 0.02
55 10 0.15
56 7 0.11
57 3 0.05
58 44 0.67
59 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (55 bp):
TAAAAAATATTTTTTTGGTGTTTGTCAACACATGGCAGAGACCCCCTTTTTCAGA
Found at i:14147714 original size:54 final size:57
Alignment explanation
Indices: 14147598--14147714 Score: 125
Period size: 54 Copynumber: 2.1 Consensus size: 57
14147588 TCGGCACCCC
* * * * *
14147598 CTTTTTCAGATACCAAAAATATTTTTTTGGATGTTTGTCAACACATGGCAGAGACTCG
1 CTTTTTCAGATA-CAAAAATATTTTTTTGGATATCTGCCAACACATGGCAGACACTCA
* *
14147656 CTTTTTCAGATA-AAAAA-ATTTTTTTGG-TATCTGCCAAGACATGGCCGACA-TCAA
1 CTTTTTCAGATACAAAAATATTTTTTTGGATATCTGCCAACACATGGCAGACACTC-A
14147710 CTTTT
1 CTTTT
14147715 CCTCGTCTAT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
53 2 0.04
54 22 0.43
55 10 0.20
56 5 0.10
58 12 0.24
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (57 bp):
CTTTTTCAGATACAAAAATATTTTTTTGGATATCTGCCAACACATGGCAGACACTCA
Found at i:14148225 original size:43 final size:43
Alignment explanation
Indices: 14148177--14148258 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
14148167 TAACTAAGAC
*
14148177 GAGTTAGCCAGATATTCAAACAGATATACATTATCTATGAGAG
1 GAGTTAGCCAGATATTCAAACAGATAGACATTATCTATGAGAG
* * * *
14148220 GAGTTAGCCAGATATTGAAATAGATGGGCATTATCTATG
1 GAGTTAGCCAGATATTCAAACAGATAGACATTATCTATG
14148259 TTTGTATTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (43 bp):
GAGTTAGCCAGATATTCAAACAGATAGACATTATCTATGAGAG
Found at i:14148519 original size:18 final size:19
Alignment explanation
Indices: 14148476--14148524 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
14148466 AAATGTAGAG
14148476 AAATAAT-TATTATCGAAA
1 AAATAATATATTATCGAAA
* *
14148494 AATTTAATATA-TATTGAAA
1 AA-ATAATATATTATCGAAA
14148513 AAATAATA-ATTA
1 AAATAATATATTA
14148525 CAAATTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 1 0.04
18 9 0.36
19 13 0.52
20 2 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (19 bp):
AAATAATATATTATCGAAA
Found at i:14157367 original size:90 final size:93
Alignment explanation
Indices: 14157242--14157451 Score: 273
Period size: 94 Copynumber: 2.3 Consensus size: 93
14157232 AGTGCATATT
* * * * * **
14157242 CTCGACAGCTCGTGTGAGCAACATCGTTAGAGAACAG-TTATA-TGC-ACATATACTGTATCGAT
1 CTCGATAGCTCGTGTGAGCAGCATCGTTAGAGAACAGTTTATAGTACAACAGACACCATATCGAT
*
14157304 GGTTGAGGTACCGCATATGTTGCGAGTA
66 GGTTGAGGTACCGCATACGTTGCGAGTA
* *
14157332 CTCGATAGCTCGTGTGAGCAGCATCGTTAGGGAACAGTTTATAGTACAGACAGACACCATATCGG
1 CTCGATAGCTCGTGTGAGCAGCATCGTTAGAGAACAGTTTATAGTACA-ACAGACACCATATCGA
* *
14157397 TGGTTGGGGTACCGCATACGTTGCGAGTC
65 TGGTTGAGGTACCGCATACGTTGCGAGTA
*
14157426 CTCGATAACTCGTGTGAGCAGCATCG
1 CTCGATAGCTCGTGTGAGCAGCATCG
14157452 AGTACTGGTA
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
90 34 0.33
91 5 0.05
92 2 0.02
94 62 0.60
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (93 bp):
CTCGATAGCTCGTGTGAGCAGCATCGTTAGAGAACAGTTTATAGTACAACAGACACCATATCGAT
GGTTGAGGTACCGCATACGTTGCGAGTA
Found at i:14163376 original size:18 final size:18
Alignment explanation
Indices: 14163355--14163390 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
14163345 AAGACTCCGG
14163355 CCAGTCCCACAACGGAGA
1 CCAGTCCCACAACGGAGA
*
14163373 CCAGTCCCGCAACGGAGA
1 CCAGTCCCACAACGGAGA
14163391 AGACACCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.39, G:0.25, T:0.06
Consensus pattern (18 bp):
CCAGTCCCACAACGGAGA
Found at i:14177363 original size:122 final size:121
Alignment explanation
Indices: 14177006--14177434 Score: 668
Period size: 121 Copynumber: 3.5 Consensus size: 121
14176996 CAAAGTCTTC
*
14177006 GTATCTTTATAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAGGCGAACTTT
1 GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAGGCGAACTTT
14177071 TACACCGATGAAGTGGAGTGTAAATTGTAATGGATCAAAGTAAGTCGTTAGTCCTT
66 TACACCGATGAAGTGGAGTGTAAATTGTAATGGATCAAAGTAAGTCGTTAGTCCTT
14177127 GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAGGCGAACTTT
1 GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAGGCGAACTTT
14177192 TACACCGATGAAGTGGAGTGTAAATTGTAATGGATCAAAGTAAGTCGTTAGTCCTT
66 TACACCGATGAAGTGGAGTGTAAATTGTAATGGATCAAAGTAAGTCGTTAGTCCTT
*
14177248 GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAAGCGAACTTT
1 GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAGGCGAAC-TT
* * * *
14177313 TTACACTGATGAAGTGG-GATGTAAATTGTAGTGGATCAAAGTACA-CCGTTAATCCTT
65 TTACACCGATGAAGTGGAG-TGTAAATTGTAATGGATCAAAGTA-AGTCGTTAGTCCTT
* * * * * * * *
14177370 GTATCTTTATAGAAAATGAAATTTAGT-TTT-TATATTTAAAAAAAAAAGTTATTAGGTGAACTT
1 GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAA-TTATTAGGCGAACTT
14177433 TT
65 TT
14177435 TACTCCAATA
Statistics
Matches: 289, Mismatches: 15, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
120 18 0.06
121 196 0.68
122 74 0.26
123 1 0.00
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.37
Consensus pattern (121 bp):
GTATCTTTACAAAAAATAAAATTTAATATTTATATTTTTAAAAGAAGAATTATTAGGCGAACTTT
TACACCGATGAAGTGGAGTGTAAATTGTAATGGATCAAAGTAAGTCGTTAGTCCTT
Found at i:14178611 original size:70 final size:70
Alignment explanation
Indices: 14178524--14178666 Score: 286
Period size: 70 Copynumber: 2.0 Consensus size: 70
14178514 GAAAGATGGT
14178524 AAACTCTTTAAAATGTTTTTAAAAATTAAAAAGTCATAAAAATTGCAAAAAAATATAGAAATTAA
1 AAACTCTTTAAAATGTTTTTAAAAATTAAAAAGTCATAAAAATTGCAAAAAAATATAGAAATTAA
14178589 AGGTC
66 AGGTC
14178594 AAACTCTTTAAAATGTTTTTAAAAATTAAAAAGTCATAAAAATTGCAAAAAAATATAGAAATTAA
1 AAACTCTTTAAAATGTTTTTAAAAATTAAAAAGTCATAAAAATTGCAAAAAAATATAGAAATTAA
14178659 AGGTC
66 AGGTC
14178664 AAA
1 AAA
14178667 TTTATTTTTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 73 1.00
ACGTcount: A:0.55, C:0.07, G:0.08, T:0.29
Consensus pattern (70 bp):
AAACTCTTTAAAATGTTTTTAAAAATTAAAAAGTCATAAAAATTGCAAAAAAATATAGAAATTAA
AGGTC
Found at i:14178777 original size:28 final size:28
Alignment explanation
Indices: 14178746--14178801 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
14178736 TTTATAATTA
*
14178746 TATATATTTATAATTTTCTATTATTTTT
1 TATATATTTATAATTTTCTATGATTTTT
* * *
14178774 TATATTTTTATATTTTTGTATGATTTTT
1 TATATATTTATAATTTTCTATGATTTTT
14178802 CCTAGAATGC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (28 bp):
TATATATTTATAATTTTCTATGATTTTT
Found at i:14178800 original size:10 final size:8
Alignment explanation
Indices: 14178733--14178790 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
14178723 TTTTAAAATA
14178733 ATTTTTAT
1 ATTTTTAT
* *
14178741 AATTATAT
1 ATTTTTAT
*
14178749 ATATTTAT
1 ATTTTTAT
14178757 AATTTTCTATT
1 -ATTTT-TA-T
14178768 ATTTTTTAT
1 A-TTTTTAT
14178777 ATTTTTAT
1 ATTTTTAT
14178785 ATTTTT
1 ATTTTT
14178791 GTATGATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 24 0.60
9 6 0.15
10 5 0.12
11 5 0.12
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (8 bp):
ATTTTTAT
Found at i:14186140 original size:30 final size:29
Alignment explanation
Indices: 14186105--14186180 Score: 89
Period size: 30 Copynumber: 2.6 Consensus size: 29
14186095 TTTAGGAGTT
*
14186105 AATTTAAATAAAAATTACTATCAAAATCAA
1 AATTTAAATAAAAATTACCAT-AAAATCAA
*
14186135 AATTTAATATAAAAATTACCATAAATTCAA
1 AATTTAA-ATAAAAATTACCATAAAATCAA
* * *
14186165 ACTCTAAATAATAATT
1 AATTTAAATAAAAATT
14186181 TAAGCTTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 8 0.20
30 19 0.47
31 13 0.32
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.33
Consensus pattern (29 bp):
AATTTAAATAAAAATTACCATAAAATCAA
Found at i:14191812 original size:45 final size:45
Alignment explanation
Indices: 14191745--14192060 Score: 386
Period size: 45 Copynumber: 7.0 Consensus size: 45
14191735 CCAAGTTCTA
* * * * *
14191745 CGGATCCAAGCTCTAGACCTGCTTCCCTCGATCCTAATTATAGAG
1 CGGATCCGAGCTCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
* * * *
14191790 CGGATCCAAGCTCCAGATCTGCTTCCATTGATCCCAACTATAGAG
1 CGGATCCGAGCTCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
* *
14191835 TGGATCCGAGCTCTAGAGCTGCTCCCATTGATCCCAATTATAGAG
1 CGGATCCGAGCTCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
* * *
14191880 TGGATCCGAGCTCTAGAGTTGCTTCCATTGATCCTAATTATAGAG
1 CGGATCCGAGCTCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
* * * *
14191925 CAGATGCGAGCATC-AGAACTGCTTCCATTGAGCCCAATTATAGAG
1 CGGATCCGAGC-TCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
* *
14191970 CGGATCCGAGCGCTAGAGCTGCTTCCATTGAGCCCAATTATAGAG
1 CGGATCCGAGCTCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
* *
14192015 CGGATCCTG-GCGCTAGAGGTGC-TCCGATTGATCCCAATTATAGAG
1 CGGATCC-GAGCTCTAGAGCTGCTTCC-ATTGATCCCAATTATAGAG
14192060 C
1 C
14192061 TGCACCGGAG
Statistics
Matches: 239, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
44 4 0.02
45 232 0.97
46 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (45 bp):
CGGATCCGAGCTCTAGAGCTGCTTCCATTGATCCCAATTATAGAG
Found at i:14195338 original size:136 final size:136
Alignment explanation
Indices: 14195090--14195361 Score: 481
Period size: 136 Copynumber: 2.0 Consensus size: 136
14195080 CATCTATATT
* *
14195090 GCATGTTGAAGTTACAGCTTTATTCTCATATATGTTCTTTTAAAGTCATTAATCAGATTTTGGCT
1 GCATGTTGAAGTAACAGCTTTATTCTCATATATGATCTTTTAAAGTCATTAATCAGATTTTGGCT
*
14195155 AGTTTACGAGTTTGCTGCAGAAAAATCTGATCACTTTATGTCAATCGTTATTACTGTAACTCTGC
66 AGTTTACCAGTTTGCTGCAGAAAAATCTGATCACTTTATGTCAATCGTTATTACTGTAACTCTGC
14195220 ATGAAA
131 ATGAAA
14195226 GCATGTTGAAGTAACAGCTTTATTCTCATATATGATCTTTTAAAGTCATTAATCAGATTTTGGCT
1 GCATGTTGAAGTAACAGCTTTATTCTCATATATGATCTTTTAAAGTCATTAATCAGATTTTGGCT
* ** *
14195291 AGTTTACCAGTTTGCTGGAGAAAAATCTGATCACTTTATGTGGATCGTTATTACTGTAACTCTTC
66 AGTTTACCAGTTTGCTGCAGAAAAATCTGATCACTTTATGTCAATCGTTATTACTGTAACTCTGC
14195356 ATGAAA
131 ATGAAA
14195362 AATAGTAGTA
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
136 129 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (136 bp):
GCATGTTGAAGTAACAGCTTTATTCTCATATATGATCTTTTAAAGTCATTAATCAGATTTTGGCT
AGTTTACCAGTTTGCTGCAGAAAAATCTGATCACTTTATGTCAATCGTTATTACTGTAACTCTGC
ATGAAA
Found at i:14208309 original size:62 final size:60
Alignment explanation
Indices: 14208115--14208575 Score: 409
Period size: 62 Copynumber: 7.8 Consensus size: 60
14208105 GAAAAAAAAA
*
14208115 TTTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTTATCTGATAAAAA-T--ATTTT
1 TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGATAAAAATTAAATTTT
* * * *
14208172 TTT-GTGTTGGCCATGCATTGGCCGACATCACC-TTTTTATCAGATAAAAAGT-ATTTTT
1 TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGATAAAAATTAAATTTT
** * * *
14208229 TTTGGCATTGGTCATTGC-TTGGCTGACACCACCTTTTTTATCTGACAAAAGATTTAAATTTT
1 TTTGGTGTTGGCCA-TGCATTGGCCGACACCACCTTTTTTATCTGATAAAA-A-TTAAATTTT
* * *
14208291 TTTGGTGTTGGCCATTGC-TTGGTCGACACCACCTTTTTTAT-T--T---GA-CAAATTTT
1 TTTGGTGTTGGCCA-TGCATTGGCCGACACCACCTTTTTTATCTGATAAAAATTAAATTTT
* * ** * *
14208344 TTTGGTGTTGGTCAT-TACTTGATCGACACCACCTTTTTTATCTGACAAAAAATTTAATTTT
1 TTTGGTGTTGGCCATGCA-TTGGCCGACACCACCTTTTTTATCTGA-TAAAAATTAAATTTT
* * * * *
14208405 TTT--TGTTGGTCATACATTTGCCGACACTACCTTTTTTATTTGATAAAAAATTTAAATTTT
1 TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGAT-AAAAA-TTAAATTTT
* * * *
14208465 TTTGGTGTTGGCCATGCATTGACCAACACCATCTTTTTTATCTGATAAAAAAATAAATTTT
1 TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGAT-AAAAATTAAATTTT
* * * *
14208526 TTTGGTGTTGGCCGTGTATTGGCCGACACCAACATTTTTTTATCAGATAA
1 TTTGGTGTTGGCCATGCATTGGCCGACACC-AC-CTTTTTTATCTGATAA
14208576 TTTTTTTTTT
Statistics
Matches: 327, Mismatches: 52, Indels: 45
0.77 0.12 0.11
Matches are distributed among these distances:
52 1 0.00
53 42 0.13
54 1 0.00
55 17 0.05
56 28 0.09
57 10 0.03
58 20 0.06
59 54 0.17
60 14 0.04
61 45 0.14
62 83 0.25
63 12 0.04
ACGTcount: A:0.25, C:0.17, G:0.16, T:0.43
Consensus pattern (60 bp):
TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGATAAAAATTAAATTTT
Found at i:14208342 original size:53 final size:53
Alignment explanation
Indices: 14208284--14208392 Score: 182
Period size: 53 Copynumber: 2.1 Consensus size: 53
14208274 CAAAAGATTT
* * *
14208284 AAATTTTTTTGGTGTTGGCCATTGCTTGGTCGACACCACCTTTTTTATTTGAC
1 AAATTTTTTTGGTGTTGGCCATTACTTGATCGACACCACCTTTTTTATCTGAC
*
14208337 AAATTTTTTTGGTGTTGGTCATTACTTGATCGACACCACCTTTTTTATCTGAC
1 AAATTTTTTTGGTGTTGGCCATTACTTGATCGACACCACCTTTTTTATCTGAC
14208390 AAA
1 AAA
14208393 AAATTTAATT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.21, C:0.18, G:0.17, T:0.44
Consensus pattern (53 bp):
AAATTTTTTTGGTGTTGGCCATTACTTGATCGACACCACCTTTTTTATCTGAC
Found at i:14208375 original size:115 final size:113
Alignment explanation
Indices: 14208115--14208565 Score: 389
Period size: 121 Copynumber: 3.9 Consensus size: 113
14208105 GAAAAAAAAA
*
14208115 TTTGGTGTTGGTCA-TGCATTGGCCGACACCACCTTTTTTATCTGATAAAAA--T-ATTTTTTTG
1 TTTGGTGTTGGTCATTGC-TT-GCCGACACCACCTTTTTTATCTGACAAAAATTTAATTTTTTTG
* ** *
14208176 TGTTGGCCATGCATTGGCCGACATCACCTTTTTATCAGATAAAAAGTATTTTT
64 TGTTGGCCATGCATTGGCCGACACCACCTTTTT-T-ATTTGAAAAG-ATTTTT
** *
14208229 TTTGGCATTGGTCATTGCTTGGCTGACACCACCTTTTTTATCTGACAAAAGATTTAAATTTTTTT
1 TTTGGTGTTGGTCATTGCTT-GCCGACACCACCTTTTTTATCTGACAAAA-ATTT-AATTTTTTT
* *
14208294 GGTGTTGGCCATTGC-TTGGTCGACACCACCTTTTTTATTTGACAA-A-TTTT
63 -GTGTTGGCCA-TGCATTGGCCGACACCACCTTTTTTATTTGAAAAGATTTTT
* *
14208344 TTTGGTGTTGGTCATTACTTGATCGACACCACCTTTTTTATCTGACAAAAAATTTAATTTTTTT-
1 TTTGGTGTTGGTCATTGCTTG-CCGACACCACCTTTTTTATCTGAC-AAAAATTTAATTTTTTTG
* * * * *
14208408 TGTTGGTCATACATTTGCCGACACTACCTTTTTTATTTGATAAAAAATTTAAATTTT
64 TGTTGGCCATGCATTGGCCGACACCACCTTTTTTATTTG--AAAAGA--T---TTTT
* * * * * *
14208465 TTTGGTGTTGGCCA-TGCATTGACCAACACCATCTTTTTTATCTGATAAAAAAATAAATTTTTTT
1 TTTGGTGTTGGTCATTGC-TTG-CCGACACCACCTTTTTTATCTGA-CAAAAATTTAATTTTTTT
* * *
14208529 GGTGTTGGCCGTGTATTGGCCGACACCAACATTTTTT
63 -GTGTTGGCCATGCATTGGCCGACACC-ACCTTTTTT
14208566 TATCAGATAA
Statistics
Matches: 276, Mismatches: 36, Indels: 40
0.78 0.10 0.11
Matches are distributed among these distances:
111 2 0.01
112 31 0.11
114 55 0.20
115 52 0.19
116 5 0.02
117 1 0.00
118 5 0.02
119 9 0.03
120 30 0.11
121 59 0.21
123 19 0.07
124 8 0.03
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (113 bp):
TTTGGTGTTGGTCATTGCTTGCCGACACCACCTTTTTTATCTGACAAAAATTTAATTTTTTTGTG
TTGGCCATGCATTGGCCGACACCACCTTTTTTATTTGAAAAGATTTTT
Found at i:14208412 original size:59 final size:60
Alignment explanation
Indices: 14208338--14208536 Score: 233
Period size: 59 Copynumber: 3.3 Consensus size: 60
14208328 TTATTTGACA
* *
14208338 AATTTTTTTGGTGTTGGTCATTAC-TTGATCGACACCACCTTTTTTATCTGACAAAAAATTT
1 AATTTTTTT-GTGTTGGTCA-TACATTGACCGACACCACCTTTTTTATCTGATAAAAAATTT
* *
14208399 AATTTTTTT-TGTTGGTCATACATTTG-CCGACACTACCTTTTTTATTTGATAAAAAATTT
1 AATTTTTTTGTGTTGGTCATACA-TTGACCGACACCACCTTTTTTATCTGATAAAAAATTT
* * * * * *
14208458 AAATTTTTTTGGTGTTGGCCATGCATTGACCAACACCATCTTTTTTATCTGATAAAAAAATA
1 -AATTTTTTT-GTGTTGGTCATACATTGACCGACACCACCTTTTTTATCTGATAAAAAATTT
14208520 AATTTTTTTGGTGTTGG
1 AATTTTTTT-GTGTTGG
14208537 CCGTGTATTG
Statistics
Matches: 120, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
58 3 0.03
59 38 0.32
60 12 0.10
61 29 0.24
62 38 0.32
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (60 bp):
AATTTTTTTGTGTTGGTCATACATTGACCGACACCACCTTTTTTATCTGATAAAAAATTT
Found at i:14208462 original size:174 final size:174
Alignment explanation
Indices: 14208115--14208556 Score: 457
Period size: 174 Copynumber: 2.5 Consensus size: 174
14208105 GAAAAAAAAA
* *
14208115 TTTGGTGTTGGTCATGCATTGGCCGACACCACCTTTTTTATCTGATAAAAATATTTTTTTGTGTT
1 TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGA-AAAAATATTTTTTGGTGTT
* * * *
14208180 GGCCATGCATTGGCCGACATCACCTTTTTATCAGATAAAAAGTATTTTTTTTGGCATTGGTCATT
65 GGCCATACATTGACCGACACCACCTTTTTATCAGAAAAAAAGTATTTTTTTTGG-ATTGGTCATT
* * *
14208245 GCTTGGCTGACACCACCTTTTTTATCTGACAAAAGATTTAAATTTT
129 ACTTGGCCGACACCACCTTTTTTATCTGACAAAAAATTTAAATTTT
* * *
14208291 TTTGGTGTTGGCCATTGC-TTGGTCGACACCACCTTTTTTATTTG-ACAAAT-TTTTTTGGTGTT
1 TTTGGTGTTGGCCA-TGCATTGGCCGACACCACCTTTTTTATCTGAAAAAATATTTTTTGGTGTT
* * * *
14208353 GGTCATTAC-TTGATCGACACCACCTTTTTTATCTGACAAAAAATTTAATTTTTTTT-G-TTGGT
65 GGCCA-TACATTGACCGACACCACC-TTTTTATCAGA-AAAAAA-GT-ATTTTTTTTGGATTGGT
* * * *
14208415 CA-TACATTTGCCGACACTACCTTTTTTATTTGATAAAAAATTTAAATTTT
125 CATTAC-TTGGCCGACACCACCTTTTTTATCTGACAAAAAATTTAAATTTT
* * *
14208465 TTTGGTGTTGGCCATGCATTGACCAACACCATCTTTTTTATCTGATAAAAAAATAAATTTTTTTG
1 TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTG---AAAAAAT--A-TTTTTTG
* ** *
14208530 GTGTTGGCCGTGTATTGGCCGACACCA
60 GTGTTGGCCATACATTGACCGACACCA
14208557 ACATTTTTTT
Statistics
Matches: 217, Mismatches: 32, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
173 32 0.15
174 97 0.45
175 5 0.02
176 39 0.18
177 12 0.06
178 5 0.02
181 1 0.00
182 26 0.12
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.42
Consensus pattern (174 bp):
TTTGGTGTTGGCCATGCATTGGCCGACACCACCTTTTTTATCTGAAAAAATATTTTTTGGTGTTG
GCCATACATTGACCGACACCACCTTTTTATCAGAAAAAAAGTATTTTTTTTGGATTGGTCATTAC
TTGGCCGACACCACCTTTTTTATCTGACAAAAAATTTAAATTTT
Found at i:14208522 original size:61 final size:62
Alignment explanation
Indices: 14208337--14208575 Score: 247
Period size: 61 Copynumber: 3.9 Consensus size: 62
14208327 TTTATTTGAC
* * * *
14208337 AAATTTTTTTGGTGTTGGTCAT-TACTTGATCGACACCACCTTTTTTATCTGACAAAAAATT
1 AAATTTTTTTGGTGTTGGCCATGCACTTGACCGACACCACCTTTTTTATCTGATAAAAAATT
* * * * * *
14208398 TAATTTTTTT--TGTTGGTCATACATTTG-CCGACACTACCTTTTTTATTTGATAAAAAATTT
1 AAATTTTTTTGGTGTTGGCCATGCACTTGACCGACACCACCTTTTTTATCTGATAAAAAA-TT
* * *
14208458 AAATTTTTTTGGTGTTGGCCATGCA-TTGACCAACACCATCTTTTTTATCTGATAAAAAAAT
1 AAATTTTTTTGGTGTTGGCCATGCACTTGACCGACACCACCTTTTTTATCTGATAAAAAATT
* * * * *
14208519 AAATTTTTTTGGTGTTGGCCGTGTA-TTGGCCGACACCAACATTTTTTTATCAGATAA
1 AAATTTTTTTGGTGTTGGCCATGCACTTGACCGACACC-AC-CTTTTTTATCTGATAA
14208576 TTTTTTTTTT
Statistics
Matches: 149, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
59 36 0.24
60 15 0.10
61 46 0.31
62 38 0.26
63 14 0.09
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (62 bp):
AAATTTTTTTGGTGTTGGCCATGCACTTGACCGACACCACCTTTTTTATCTGATAAAAAATT
Found at i:14209436 original size:18 final size:19
Alignment explanation
Indices: 14209386--14209436 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 19
14209376 AAAATGTTGG
*
14209386 AAAATAA-ATATTATTGAA
1 AAAATAATAAATTATTGAA
14209404 AAAGATAATATAAATT-TTGAA
1 AAA-AT-A-ATAAATTATTGAA
14209425 AAAATAATAAAT
1 AAAATAATAAAT
14209437 AGAAATGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 8
0.76 0.03 0.22
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 3 0.11
21 9 0.32
22 4 0.14
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
AAAATAATAAATTATTGAA
Found at i:14209458 original size:24 final size:24
Alignment explanation
Indices: 14209425--14209482 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 24
14209415 AAATTTTGAA
14209425 AAAATAATAAATAGAAA-T-GAAATTT
1 AAAAT-ATAAAT-GAAATTAGAAA-TT
14209450 AAAATATAAATGAAATTAGAAATT
1 AAAATATAAATGAAATTAGAAATT
14209474 AAAAT-TAAA
1 AAAATATAAA
14209483 ATATACACGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 8 0.26
24 14 0.45
25 9 0.29
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (24 bp):
AAAATATAAATGAAATTAGAAATT
Found at i:14209472 original size:18 final size:17
Alignment explanation
Indices: 14209433--14209537 Score: 61
Period size: 18 Copynumber: 6.6 Consensus size: 17
14209423 AAAAAATAAT
*
14209433 AAATAGAAATGAAATTTA
1 AAATATAAATGAAA-TTA
14209451 AAATATAAATGAAATTA
1 AAATATAAATGAAATTA
14209468 GAAAT-T--A--AAATTA
1 -AAATATAAATGAAATTA
* *
14209481 AAATATACACGAAATTA
1 AAATATAAATGAAATTA
14209498 GAAAT-TAAAT----TTA
1 -AAATATAAATGAAATTA
*
14209511 AAATATAAACGAAATTA
1 AAATATAAATGAAATTA
14209528 CAAAT-TAAAT
1 -AAATATAAAT
14209538 TTAAAAATAA
Statistics
Matches: 69, Mismatches: 5, Indels: 27
0.68 0.05 0.27
Matches are distributed among these distances:
12 8 0.12
13 14 0.20
15 2 0.03
17 20 0.29
18 25 0.36
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.29
Consensus pattern (17 bp):
AAATATAAATGAAATTA
Found at i:14209472 original size:30 final size:30
Alignment explanation
Indices: 14209436--14209549 Score: 176
Period size: 30 Copynumber: 3.8 Consensus size: 30
14209426 AAATAATAAA
* *
14209436 TAGAAATGAAATTTAAAATATAAATGAAAT
1 TAGAAATTAAATTTAAAATATAAACGAAAT
* *
14209466 TAGAAATTAAAATTAAAATATACACGAAAT
1 TAGAAATTAAATTTAAAATATAAACGAAAT
14209496 TAGAAATTAAATTTAAAATATAAACGAAAT
1 TAGAAATTAAATTTAAAATATAAACGAAAT
*
14209526 TACAAATTAAATTTAAAA-ATAAAC
1 TAGAAATTAAATTTAAAATATAAAC
14209550 TAAAAAATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
29 6 0.08
30 71 0.92
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (30 bp):
TAGAAATTAAATTTAAAATATAAACGAAAT
Found at i:14210746 original size:35 final size:34
Alignment explanation
Indices: 14210684--14210750 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
14210674 TATTTTTTAT
*
14210684 ATTTCGAAAATATAAAAAATCTGTAAAAAATTTC
1 ATTTCGAAAATATAAAAAATATGTAAAAAATTTC
* *
14210718 ATTTTGAAAATATAAAAAATAATTTAAAAAATT
1 ATTTCGAAAATATAAAAAAT-ATGTAAAAAATT
14210751 GAAAATCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 19 0.66
35 10 0.34
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (34 bp):
ATTTCGAAAATATAAAAAATATGTAAAAAATTTC
Found at i:14210865 original size:20 final size:18
Alignment explanation
Indices: 14210831--14210875 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 18
14210821 TATTATTTTT
*
14210831 AAAAAATTTGAAAATATA
1 AAAAAATTTGAAAATAGA
14210849 AAAAACATTTCGAAAATAGA
1 AAAAA-ATTT-GAAAATAGA
14210869 AAAAAAT
1 AAAAAAT
14210876 ATTATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 6 0.25
20 13 0.54
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.22
Consensus pattern (18 bp):
AAAAAATTTGAAAATAGA
Found at i:14211901 original size:42 final size:42
Alignment explanation
Indices: 14211849--14211932 Score: 116
Period size: 42 Copynumber: 2.0 Consensus size: 42
14211839 AAAAGGAGTT
* *
14211849 GTTTATGAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTA
1 GTTTAGGAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTA
* *
14211891 GTTTAGGAGTGTTTTTGAAGAATGAAATTATATTTGGGTTTA
1 GTTTAGGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTA
14211933 AAAATATTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
41 3 0.08
42 34 0.92
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (42 bp):
GTTTAGGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTA
Found at i:14213972 original size:27 final size:29
Alignment explanation
Indices: 14213932--14213986 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
14213922 TCGACCATTG
**
14213932 GATGGTAATCACTCAAAAA-T-ATTTTTC
1 GATGGTAAAAACTCAAAAACTAATTTTTC
14213959 GATGGTAAAAACTCAAAAACTAATTTTT
1 GATGGTAAAAACTCAAAAACTAATTTTT
14213987 TATTCTCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.71
28 1 0.04
29 6 0.25
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.35
Consensus pattern (29 bp):
GATGGTAAAAACTCAAAAACTAATTTTTC
Found at i:14214987 original size:60 final size:56
Alignment explanation
Indices: 14214889--14215062 Score: 147
Period size: 56 Copynumber: 3.0 Consensus size: 56
14214879 GAAATGAGAG
* *
14214889 AAAGTTGGTGTCGGCCAATGCATGACCAACACAAAAAAAACTATTTTTTTATCAGATAAA
1 AAAGGTGGTGTCGACCAATGCATGACCAACAC-AAAAAAA-TA--TTTTTATCAGATAAA
* * * *
14214949 AAAGGTGGTGTCGACCAA-GCATTAGTCAACACTAAAAAATATTTTTATCTGATAAAA
1 AAAGGTGGTGTCGACCAATGCATGA-CCAACACAAAAAAATATTTTTATCAGAT-AAA
* * * * * * *
14215006 AAATGTTGGTGTCGGCCAATGCATGGCTAACAC--CAAATTTTTTTTATCAGATAAA
1 AAA-GGTGGTGTCGACCAATGCATGACCAACACAAAAAAATATTTTTATCAGATAAA
14215061 AA
1 AA
14215063 TATTTTTTTA
Statistics
Matches: 94, Mismatches: 16, Indels: 13
0.76 0.13 0.11
Matches are distributed among these distances:
55 5 0.05
56 26 0.28
57 6 0.06
58 20 0.21
59 15 0.16
60 22 0.23
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (56 bp):
AAAGGTGGTGTCGACCAATGCATGACCAACACAAAAAAATATTTTTATCAGATAAA
Found at i:14215038 original size:58 final size:59
Alignment explanation
Indices: 14214889--14215038 Score: 157
Period size: 58 Copynumber: 2.5 Consensus size: 59
14214879 GAAATGAGAG
* *
14214889 AAAGTTGGTGTCGGCCAATGCATGACCAACACAAAAAAAACTATTTTTTTATCAGATAAA
1 AAAGTTGGTGTCGGCCAATGCATGGCTAACACAAAAAAAACTA-TTTTTTATCAGATAAA
* * * * *
14214949 AAAGGTGGTGTCGACCAA-GCATTAG-TCAACAC-TAAAAAA-TA-TTTTTATCTGATAAAA
1 AAAGTTGGTGTCGGCCAATGCA-TGGCT-AACACAAAAAAAACTATTTTTTATCAGAT-AAA
14215006 AAATGTTGGTGTCGGCCAATGCATGGCTAACAC
1 AAA-GTTGGTGTCGGCCAATGCATGGCTAACAC
14215039 CAAATTTTTT
Statistics
Matches: 74, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
56 11 0.15
57 6 0.08
58 22 0.30
59 13 0.18
60 22 0.30
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.27
Consensus pattern (59 bp):
AAAGTTGGTGTCGGCCAATGCATGGCTAACACAAAAAAAACTATTTTTTATCAGATAAA
Found at i:14215184 original size:54 final size:54
Alignment explanation
Indices: 14215125--14215458 Score: 208
Period size: 54 Copynumber: 6.1 Consensus size: 54
14215115 AAAAAAATAG
* *
14215125 TTTTTTTTATCAGATAAAAATGTTGGTGTCGGCCAATGCATGGCTAACACCAAA
1 TTTTTTTTATCAGATAAAAATGGTGGTGTCGACCAATGCATGGCTAACACCAAA
* * * * * **
14215179 TTTTTTTTATCAGATAAAAAAGGTGGTGTCGACTAATGTATGACCAACAAAAAAAA
1 TTTTTTTTATCAGATAAAAATGGTGGTGTCGACCAATGCATGGCTAAC--ACCAAA
* * * * * *
14215235 TTTGAATTTTTTGTCAAATAAAAAAT-ATGGTATCGACCAA-GCAATGGTTAACACAAAAAAAA
1 -TT---TTTTTTATCAGAT-AAAAATGGTGGTGTCGACCAATGC-ATGGCTAACAC----CAAA
* * * * *
14215297 TCATTTTTTATCAGATAAAAA-GGTGATATC-AGCCAATGCAT-G--ACCAACAAA
1 T-TTTTTTTATCAGATAAAAATGGTGGTGTCGA-CCAATGCATGGCTAACACCAAA
* *
14215348 --TTTTTTATCAGAT-AAAA-GGTGATGTCGACCAATGAATGG-TGAACACCAAA
1 TTTTTTTTATCAGATAAAAATGGTGGTGTCGACCAATGCATGGCT-AACACCAAA
** *
14215398 TTTTTTTT-TCAGATAAAAAATACTGGTGTCGGCCAATGCATGGCTAACACCAAA
1 TTTTTTTTATCAGAT-AAAAATGGTGGTGTCGACCAATGCATGGCTAACACCAAA
14215452 TTTTTTT
1 TTTTTTT
14215459 CCAAAATCTC
Statistics
Matches: 217, Mismatches: 37, Indels: 52
0.71 0.12 0.17
Matches are distributed among these distances:
47 20 0.09
48 15 0.07
50 7 0.03
51 9 0.04
52 6 0.03
53 4 0.02
54 74 0.34
55 4 0.02
56 4 0.02
57 4 0.02
58 18 0.08
59 14 0.06
60 28 0.13
61 6 0.03
62 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (54 bp):
TTTTTTTTATCAGATAAAAATGGTGGTGTCGACCAATGCATGGCTAACACCAAA
Found at i:14233823 original size:6 final size:6
Alignment explanation
Indices: 14233812--14233836 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14233802 AACCCCACTC
14233812 TGTCTT TGTCTT TGTCTT TGTCTT T
1 TGTCTT TGTCTT TGTCTT TGTCTT T
14233837 TCCCTCCTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (6 bp):
TGTCTT
Found at i:14240598 original size:13 final size:13
Alignment explanation
Indices: 14240580--14240610 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
14240570 AACAAGTCTT
14240580 AGAATAATAATAA
1 AGAATAATAATAA
14240593 AGAATAATAATAA
1 AGAATAATAATAA
14240606 AGAAT
1 AGAAT
14240611 GAACCGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (13 bp):
AGAATAATAATAA
Found at i:14241832 original size:13 final size:13
Alignment explanation
Indices: 14241814--14241838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14241804 AATGTAAGAC
14241814 TTGATTGTTAAAA
1 TTGATTGTTAAAA
14241827 TTGATTGTTAAA
1 TTGATTGTTAAA
14241839 TTTACTTCTA
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:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (13 bp):
TTGATTGTTAAAA
Found at i:14255030 original size:29 final size:29
Alignment explanation
Indices: 14254975--14255030 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
14254965 AGAATTAATA
* *
14254975 GAAAAAATTTGGTTCGATTAATTATTTTT
1 GAAAAAATTTGATTCGATTAATCATTTTT
14255004 GAAAAAATTTCGATTCGATTAA-CATTT
1 GAAAAAATTT-GATTCGATTAATCATTT
14255031 AAAAATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (29 bp):
GAAAAAATTTGATTCGATTAATCATTTTT
Found at i:14256879 original size:23 final size:20
Alignment explanation
Indices: 14256843--14256891 Score: 55
Period size: 23 Copynumber: 2.3 Consensus size: 20
14256833 CCGGTTAGGA
14256843 TTTTTTTCTATTTCTAATATCTT
1 TTTTTTTCTATTTCT--T-TCTT
14256866 TTTTTTTCCT-TTTCTTTCTT
1 TTTTTTT-CTATTTCTTTCTT
14256886 TTTTTT
1 TTTTTT
14256892 GTTAAGTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 10 0.40
21 1 0.04
23 12 0.48
24 2 0.08
ACGTcount: A:0.08, C:0.14, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTCTATTTCTTTCTT
Found at i:14290828 original size:58 final size:58
Alignment explanation
Indices: 14290738--14290855 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
14290728 ACGGATCGTA
14290738 TTATAACTGGATTCATTCATTTCCGTAAGAAGAAAATCCTGCTAAACCAGACCAACCC
1 TTATAACTGGATTCATTCATTTCCGTAAGAAGAAAATCCTGCTAAACCAGACCAACCC
14290796 TTATAACTGGATTCATTCATTTCCGTAAGAAGAAAATCCTGCTAAACCAGACCAACCC
1 TTATAACTGGATTCATTCATTTCCGTAAGAAGAAAATCCTGCTAAACCAGACCAACCC
14290854 TT
1 TT
14290856 GGCCTTCAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.36, C:0.25, G:0.12, T:0.27
Consensus pattern (58 bp):
TTATAACTGGATTCATTCATTTCCGTAAGAAGAAAATCCTGCTAAACCAGACCAACCC
Found at i:14294786 original size:23 final size:23
Alignment explanation
Indices: 14294698--14294811 Score: 115
Period size: 23 Copynumber: 5.0 Consensus size: 23
14294688 AGTGCTGGGG
* *
14294698 GAAACAGTAAGCACACATAGTGC
1 GAAACAGTAGGCACACAAAGTGC
* * * *
14294721 -AATCAGTAGGCGCACATAGCGC
1 GAAACAGTAGGCACACAAAGTGC
*
14294743 -AAATCAGTAGGCACACGAAGTGC
1 GAAA-CAGTAGGCACACAAAGTGC
*
14294766 GAAACAGTAGGCACACAAAGTAC
1 GAAACAGTAGGCACACAAAGTGC
* *
14294789 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACAAAGTGC
14294812 TGAACGGTAA
Statistics
Matches: 75, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
22 20 0.27
23 52 0.69
24 3 0.04
ACGTcount: A:0.41, C:0.24, G:0.24, T:0.11
Consensus pattern (23 bp):
GAAACAGTAGGCACACAAAGTGC
Found at i:14298682 original size:87 final size:84
Alignment explanation
Indices: 14298525--14298685 Score: 268
Period size: 87 Copynumber: 1.9 Consensus size: 84
14298515 TACATGCATA
*
14298525 AGGTTGAGTTATTACTCTTAATGAGTTCATATCCCAAGTTGGATGGTCCTATTGAGACGGACTTA
1 AGGTTGAGTTATTACTCTTAATGAATTCATATCCCAAGTTGGATGGTCCTATTGAGACGGACTTA
14298590 ATGAATTCATCGACATAAG
66 ATGAATTCATCGACATAAG
*
14298609 AGGTTGAGTTTATTACTCTTAATGAATTCATATCCCAGAGTTTGGGTGGTCCTATTGAGACGGAC
1 AGGTTGAG-TTATTACTCTTAATGAATTCATATCCCA-AG-TTGGATGGTCCTATTGAGACGGAC
*
14298674 TTGATGAATTCA
63 TTAATGAATTCA
14298686 CTGAACTTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
84 8 0.11
85 27 0.38
86 2 0.03
87 34 0.48
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (84 bp):
AGGTTGAGTTATTACTCTTAATGAATTCATATCCCAAGTTGGATGGTCCTATTGAGACGGACTTA
ATGAATTCATCGACATAAG
Found at i:14303225 original size:15 final size:15
Alignment explanation
Indices: 14303207--14303249 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
14303197 CTAATATATT
14303207 AATTATGAATATTAA
1 AATTATGAATATTAA
14303222 AATT-TGAATA-TAA
1 AATTATGAATATTAA
*
14303235 ATTTATTGAATATTA
1 AATTA-TGAATATTA
14303250 TTTTGTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 6 0.25
14 6 0.25
15 10 0.42
16 2 0.08
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (15 bp):
AATTATGAATATTAA
Found at i:14307540 original size:15 final size:14
Alignment explanation
Indices: 14307513--14307539 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14307503 GGGTATAATA
14307513 AAATATTAAAAAAT
1 AAATATTAAAAAAT
14307527 AAATATTAAAAAA
1 AAATATTAAAAAA
14307540 AGAGACACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATATTAAAAAAT
Found at i:14323748 original size:13 final size:13
Alignment explanation
Indices: 14323730--14323757 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14323720 TAAAATTCTT
14323730 AAATTAATATAAA
1 AAATTAATATAAA
14323743 AAATTAATATAAA
1 AAATTAATATAAA
14323756 AA
1 AA
14323758 TAATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAATTAATATAAA
Found at i:14339687 original size:38 final size:37
Alignment explanation
Indices: 14339632--14339757 Score: 130
Period size: 38 Copynumber: 3.3 Consensus size: 37
14339622 TATCGCCTTA
* *
14339632 TATTATATAGTATATAAAGAGTGCTTTTTCC-TTGGGATTT
1 TATTATAT--TATATAAAGAGT-C-CTTTCCTTTAGGATTT
*
14339672 TATTATATTATATAAAGCA-TCCCTTCCATTTAGGATTT
1 TATTATATTATATAAAG-AGTCCTTTCC-TTTAGGATTT
* *
14339710 TATTATATTATATAAATAGTCCCTCTCCTTTAGGATTT
1 TATTATATTATATAAAGAGT-CCTTTCCTTTAGGATTT
14339748 TATTATATTA
1 TATTATATTA
14339758 AGGAATCAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
36 4 0.05
37 2 0.03
38 55 0.73
39 6 0.08
40 8 0.11
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.48
Consensus pattern (37 bp):
TATTATATTATATAAAGAGTCCTTTCCTTTAGGATTT
Found at i:14340092 original size:42 final size:42
Alignment explanation
Indices: 14340035--14340123 Score: 151
Period size: 42 Copynumber: 2.1 Consensus size: 42
14340025 GCGACAGCCT
*
14340035 TGATGACGATCTACTCCAAGGCAGCGACAGCCATAATGACGA
1 TGATGACGATCTACTCCAAAGCAGCGACAGCCATAATGACGA
* *
14340077 TGATGACGATCTACTCCAAAGCAGCGACAGGCATGATGACGA
1 TGATGACGATCTACTCCAAAGCAGCGACAGCCATAATGACGA
14340119 TGATG
1 TGATG
14340124 GTGATGAGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.24, G:0.26, T:0.18
Consensus pattern (42 bp):
TGATGACGATCTACTCCAAAGCAGCGACAGCCATAATGACGA
Found at i:14341631 original size:6 final size:6
Alignment explanation
Indices: 14341620--14341708 Score: 178
Period size: 6 Copynumber: 14.8 Consensus size: 6
14341610 CGATAACTCT
14341620 CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC
1 CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC
14341668 CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCC
1 CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCCC CTGCC
14341709 TCCGCTGTCA
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 83 1.00
ACGTcount: A:0.00, C:0.66, G:0.17, T:0.17
Consensus pattern (6 bp):
CTGCCC
Found at i:14343225 original size:121 final size:122
Alignment explanation
Indices: 14343011--14343245 Score: 339
Period size: 121 Copynumber: 1.9 Consensus size: 122
14343001 TTGATTAAAC
* * * * *
14343011 TTTGATTATCTTCTGTGAATATTGAAAGTGATTAAATTAATGTTTAATTAGATTTTTAATAAATA
1 TTTGATTATCTTCTGCGAAGATTGAAAGTGATTAAATTAATATTCAATTAGATTTTTAATAAACA
* * * *
14343076 TTTATTATTATTGATTTTATAAATTA-TTTTTAAATGAACATATTAATTATTTAACA
66 TTTATAATTATAGATTTTACAAATTATTTTTTAAATAAACATATTAATTATTTAACA
* *
14343132 TTTGATTATC-TCTTGCGAAGATTGAGAGTGATTAAATTGATATTCAATTAGATTTTTAATAAAC
1 TTTGATTATCTTC-TGCGAAGATTGAAAGTGATTAAATTAATATTCAATTAGATTTTTAATAAAC
*
14343196 ATTTATAATTATAGATTTTACAAATTATTTTTTAAATAAATATATTAATT
65 ATTTATAATTATAGATTTTACAAATTATTTTTTAAATAAACATATTAATT
14343246 GAGATTTTAT
Statistics
Matches: 100, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
120 2 0.02
121 78 0.78
122 20 0.20
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (122 bp):
TTTGATTATCTTCTGCGAAGATTGAAAGTGATTAAATTAATATTCAATTAGATTTTTAATAAACA
TTTATAATTATAGATTTTACAAATTATTTTTTAAATAAACATATTAATTATTTAACA
Found at i:14343364 original size:26 final size:26
Alignment explanation
Indices: 14343307--14343364 Score: 64
Period size: 27 Copynumber: 2.2 Consensus size: 26
14343297 AAATATAAAA
*
14343307 CAAAAAGTATTTTATCTAATTAAAGT
1 CAAAAAGTATTTTATCTAATAAAAGT
* *
14343333 CTAAAAA-TAATTTTATTTAATAAAATT
1 C-AAAAAGT-ATTTTATCTAATAAAAGT
14343360 CAAAA
1 CAAAA
14343365 TTAAAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
26 6 0.22
27 21 0.78
ACGTcount: A:0.52, C:0.07, G:0.03, T:0.38
Consensus pattern (26 bp):
CAAAAAGTATTTTATCTAATAAAAGT
Found at i:14348495 original size:2 final size:2
Alignment explanation
Indices: 14348488--14348513 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14348478 GGCTCCTTAA
14348488 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
14348514 TTTTGGGTTA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14353580 original size:2 final size:2
Alignment explanation
Indices: 14353573--14353598 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
14353563 GTAAATGAAT
14353573 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
14353599 GGAAAATTAG
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:14364036 original size:21 final size:21
Alignment explanation
Indices: 14364012--14364051 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
14364002 TGTGAATTTT
* *
14364012 ATCAAGAGTAAAAAATTGAAA
1 ATCAAAAGGAAAAAATTGAAA
14364033 ATCAAAAGGAAAAAATTGA
1 ATCAAAAGGAAAAAATTGA
14364052 TTTGTTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.15, T:0.17
Consensus pattern (21 bp):
ATCAAAAGGAAAAAATTGAAA
Found at i:14374421 original size:29 final size:30
Alignment explanation
Indices: 14374389--14374447 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
14374379 ATTTGTCATT
*
14374389 TTTATTTGA-ATTTAAAAAGTTCAACTAAA
1 TTTATTTAATATTTAAAAAGTTCAACTAAA
* * *
14374418 TTTATTTAATATTTTAAAATTTGAACTAAA
1 TTTATTTAATATTTAAAAAGTTCAACTAAA
14374448 ATGATAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (30 bp):
TTTATTTAATATTTAAAAAGTTCAACTAAA
Found at i:14377730 original size:28 final size:27
Alignment explanation
Indices: 14377680--14377736 Score: 69
Period size: 28 Copynumber: 2.1 Consensus size: 27
14377670 TATAAAAGTT
*
14377680 TTATAAATATTATAAAAAATATAATAA
1 TTATAAATATTATAAAAAATATAAAAA
* **
14377707 TTATCAATAATTATAAAACTTATAAAAA
1 TTATAAAT-ATTATAAAAAATATAAAAA
14377735 TT
1 TT
14377737 CGAAACAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (27 bp):
TTATAAATATTATAAAAAATATAAAAA
Found at i:14377767 original size:9 final size:9
Alignment explanation
Indices: 14377680--14377770 Score: 74
Period size: 9 Copynumber: 9.7 Consensus size: 9
14377670 TATAAAAGTT
*
14377680 TTATAAATA
1 TTATAAAAA
14377689 TTATAAAAA
1 TTATAAAAA
* *
14377698 ATATAATAA
1 TTATAAAAA
*
14377707 TTATCAATAA
1 TTAT-AAAAA
*
14377717 TTATAAAAC
1 TTATAAAAA
14377726 TTATAAAAA
1 TTATAAAAA
**
14377735 TTCGAAACAA
1 TTATAAA-AA
*
14377745 GTTCTAATAAA
1 -TTATAA-AAA
14377756 TTATAAAAA
1 TTATAAAAA
14377765 TTATAA
1 TTATAA
14377771 TTTTTTAAAG
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
9 43 0.64
10 16 0.24
11 7 0.10
12 1 0.01
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14378140 original size:19 final size:19
Alignment explanation
Indices: 14378071--14378159 Score: 60
Period size: 19 Copynumber: 4.8 Consensus size: 19
14378061 GGGTTTAACT
**
14378071 ATTTTTT-TATAATTTCTA
1 ATTTTTTATATAATTTAAA
*
14378089 A-TTTTTA-ATAATTTTATA
1 ATTTTTTATATAA-TTTAAA
* * *
14378107 AGTTCTTATAAAATTTAAA
1 ATTTTTTATATAATTTAAA
* *
14378126 ATCTTTTTAT-TAATTTTAT
1 AT-TTTTTATATAATTTAAA
14378145 ATTTTTTATATAATT
1 ATTTTTTATATAATT
14378160 CAATAAAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
17 9 0.16
18 14 0.25
19 24 0.43
20 9 0.16
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (19 bp):
ATTTTTTATATAATTTAAA
Found at i:14387068 original size:22 final size:23
Alignment explanation
Indices: 14387040--14387094 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
14387030 TATTTATTCT
*
14387040 ATCATTTTAGTT-TTATTTTTTA
1 ATCATTTTAGTTCTTAATTTTTA
14387062 ATCATTTT-GATTCTTAATTTTTA
1 ATCATTTTAG-TTCTTAATTTTTA
14387085 A--ATTTTAGTT
1 ATCATTTTAGTT
14387095 AAATTATTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 8 0.28
22 11 0.38
23 10 0.34
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.64
Consensus pattern (23 bp):
ATCATTTTAGTTCTTAATTTTTA
Found at i:14389526 original size:23 final size:23
Alignment explanation
Indices: 14389493--14389540 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
14389483 AGCGGTCCAT
* * *
14389493 AAGGCAGAGGAAAATCGTGCCAC
1 AAGGCACAGGAAAAGCGTACCAC
14389516 AAGGCACAGGAAAAGCGTACCAC
1 AAGGCACAGGAAAAGCGTACCAC
14389539 AA
1 AA
14389541 AGACAGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.44, C:0.23, G:0.27, T:0.06
Consensus pattern (23 bp):
AAGGCACAGGAAAAGCGTACCAC
Found at i:14391644 original size:74 final size:72
Alignment explanation
Indices: 14391523--14391707 Score: 291
Period size: 74 Copynumber: 2.6 Consensus size: 72
14391513 AATGGTAAAC
* *
14391523 TAGTTTTATCAACAATTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATA
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTA-TT-TA
14391588 TGTGTAATA
64 TGTGTAATA
*
14391597 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATG
*
14391662 TGTAATT
66 TGTAATA
* *
14391669 TAGTTTTATCAATAGTTGTTTATATTT-GATTTTGGATAT
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATAT
14391708 AAAATTTGTT
Statistics
Matches: 105, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 11 0.10
72 36 0.34
73 2 0.02
74 56 0.53
ACGTcount: A:0.25, C:0.04, G:0.15, T:0.56
Consensus pattern (72 bp):
TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATATTCTACTTATTTATG
TGTAATA
Found at i:14393177 original size:27 final size:26
Alignment explanation
Indices: 14393147--14393224 Score: 62
Period size: 27 Copynumber: 3.2 Consensus size: 26
14393137 TAATGAACTC
14393147 ACTTTGAATTGTAAATGCAAATGTGAA
1 ACTTTGAATTGTAAATGC-AATGTGAA
* **
14393174 ACTTT-AGTT-T-AATG--A-GT-TC
1 ACTTTGAATTGTAAATGCAATGTGAA
14393193 ACTTTGAATTGTAAATGCTAATGTGAA
1 ACTTTGAATTGTAAATGC-AATGTGAA
14393220 ACTTT
1 ACTTT
14393225 TGATGATGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
19 5 0.14
20 5 0.14
21 2 0.05
22 4 0.11
24 4 0.11
25 2 0.05
26 5 0.14
27 10 0.27
ACGTcount: A:0.35, C:0.09, G:0.17, T:0.40
Consensus pattern (26 bp):
ACTTTGAATTGTAAATGCAATGTGAA
Found at i:14393182 original size:46 final size:46
Alignment explanation
Indices: 14393132--14393224 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
14393122 TTATAGCTTC
14393132 TAGTTTAATGAACTCACTTTGAATTGTAAATGCAAATGTGAAACTT
1 TAGTTTAATGAACTCACTTTGAATTGTAAATGCAAATGTGAAACTT
** *
14393178 TAGTTTAATGAGTTCACTTTGAATTGTAAATGCTAATGTGAAACTT
1 TAGTTTAATGAACTCACTTTGAATTGTAAATGCAAATGTGAAACTT
14393224 T
1 T
14393225 TGATGATGTA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (46 bp):
TAGTTTAATGAACTCACTTTGAATTGTAAATGCAAATGTGAAACTT
Found at i:14396939 original size:23 final size:23
Alignment explanation
Indices: 14396910--14397029 Score: 110
Period size: 23 Copynumber: 5.4 Consensus size: 23
14396900 AGTGCTGGGT
*
14396910 AACAGAGGGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
14396933 AACAGAGAGTACACAAA--G-T-
1 AACAGAGAGCACACAAAGTGCTA
*
14396952 -AC--TGAGCACACAAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
* *
14396972 ATCAGAGAGCACACGAAGTGCTA
1 AACAGAGAGCACACAAAGTGCTA
*
14396995 ATAGCAGAGAGCACACACAGTGCTA
1 A-A-CAGAGAGCACACAAAGTGCTA
*
14397020 ATCAGAGAGC
1 AACAGAGAGC
14397030 GCGCTAGTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
16 10 0.13
18 3 0.04
19 1 0.01
20 1 0.01
21 2 0.03
23 40 0.52
25 20 0.26
ACGTcount: A:0.42, C:0.22, G:0.24, T:0.12
Consensus pattern (23 bp):
AACAGAGAGCACACAAAGTGCTA
Found at i:14399391 original size:43 final size:42
Alignment explanation
Indices: 14399344--14399458 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
14399334 GAAAAACGTT
* * *
14399344 GCTAAAAAACATTTTCTACAGCGGCGTTTGTGAGAAAAGCGCC
1 GCTAAAGACCATTTT-TATAGCGGCGTTTGTGAGAAAAGCGCC
* * * *
14399387 GCTAAAGACCATGTTTTTTAGTGGTGTTTGTGGGAAAAGCGCC
1 GCTAAAGACCAT-TTTTATAGCGGCGTTTGTGAGAAAAGCGCC
*
14399430 GCTAAAGACCATGTTATATAGCGGCGTTT
1 GCTAAAGACCAT-TTTTATAGCGGCGTTT
14399459 CTCTTTAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 57 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (42 bp):
GCTAAAGACCATTTTTATAGCGGCGTTTGTGAGAAAAGCGCC
Found at i:14400989 original size:13 final size:13
Alignment explanation
Indices: 14400973--14401002 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
14400963 TCTCAAAATA
*
14400973 ACTTTTTCAAAAC
1 ACTTTTTAAAAAC
14400986 ACTTTTTAAAAAC
1 ACTTTTTAAAAAC
14400999 ACTT
1 ACTT
14401003 CTCAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (13 bp):
ACTTTTTAAAAAC
Found at i:14404138 original size:19 final size:20
Alignment explanation
Indices: 14404109--14404148 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
14404099 TTTCTTGGAC
14404109 AAATAAG-AAAATAATAAATA
1 AAATAAGAAAAATAA-AAATA
14404129 AAAT-AGAAAAATAAAAATA
1 AAATAAGAAAAATAAAAATA
14404148 A
1 A
14404149 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (20 bp):
AAATAAGAAAAATAAAAATA
Found at i:14404147 original size:14 final size:14
Alignment explanation
Indices: 14404116--14404161 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
14404106 GACAAATAAG
14404116 AAAATAAT-AAAT-
1 AAAATAATAAAATA
14404128 AAAATAGA-AAAATA
1 AAAATA-ATAAAATA
14404142 AAAATAATAAAATTA
1 AAAATAATAAAA-TA
14404157 AAAAT
1 AAAAT
14404162 TGGGTTGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 6 0.21
13 6 0.21
14 10 0.34
15 7 0.24
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (14 bp):
AAAATAATAAAATA
Found at i:14406922 original size:16 final size:16
Alignment explanation
Indices: 14406901--14406935 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14406891 GATCTGGGGA
14406901 AAAACAAAAATAAAAG
1 AAAACAAAAATAAAAG
* *
14406917 AAAACAGAATTAAAAG
1 AAAACAAAAATAAAAG
14406933 AAA
1 AAA
14406936 TAGAAAATAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAACAAAAATAAAAG
Found at i:14407836 original size:34 final size:34
Alignment explanation
Indices: 14407798--14407866 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
14407788 CTAATAAAAA
14407798 TATATTTTAAAATAAAATAAAGTAAAACCAAGTC
1 TATATTTTAAAATAAAATAAAGTAAAACCAAGTC
14407832 TATATTTTAAAATAAAATAAAGTAAAACCAAGTC
1 TATATTTTAAAATAAAATAAAGTAAAACCAAGTC
14407866 T
1 T
14407867 TTTTGTCCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.55, C:0.09, G:0.06, T:0.30
Consensus pattern (34 bp):
TATATTTTAAAATAAAATAAAGTAAAACCAAGTC
Found at i:14408787 original size:21 final size:21
Alignment explanation
Indices: 14408761--14408830 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
14408751 AACACATATT
*
14408761 TTATTATTATTTTTAATTTCA
1 TTATTATAATTTTTAATTTCA
* *
14408782 TTATTATAATATCTAATTTCA
1 TTATTATAATTTTTAATTTCA
* ** *
14408803 TTACTATAATGATTAATCTCA
1 TTATTATAATTTTTAATTTCA
*
14408824 TCATTAT
1 TTATTAT
14408831 CATTATTTTT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.34, C:0.10, G:0.01, T:0.54
Consensus pattern (21 bp):
TTATTATAATTTTTAATTTCA
Found at i:14410197 original size:29 final size:30
Alignment explanation
Indices: 14410099--14410196 Score: 150
Period size: 28 Copynumber: 3.4 Consensus size: 30
14410089 AAATGATTTG
14410099 AAAATTATTAAAATTA-TTTTTAAAATAA-
1 AAAATTATTAAAATTATTTTTTAAAATAAT
*
14410127 AAAATT-TTTAAATTATTTTTTAAAAT-AT
1 AAAATTATTAAAATTATTTTTTAAAATAAT
*
14410155 AAAATTATTAAAATTATTTTTTGAAATAAT
1 AAAATTATTAAAATTATTTTTTAAAATAAT
14410185 AAAATTATTAAA
1 AAAATTATTAAA
14410197 TAATTTTAAT
Statistics
Matches: 63, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
27 9 0.14
28 22 0.35
29 18 0.29
30 14 0.22
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (30 bp):
AAAATTATTAAAATTATTTTTTAAAATAAT
Found at i:14411131 original size:29 final size:30
Alignment explanation
Indices: 14411085--14411156 Score: 119
Period size: 29 Copynumber: 2.4 Consensus size: 30
14411075 ATTAAAATTA
14411085 TTTAATAATTTTATTATTTCAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAATAAT
*
14411115 TTTAATAATTTTA-TATTTTAAAAAATAAT
1 TTTAATAATTTTATTATTTCAAAAAATAAT
*
14411144 TGTAATAATTTTA
1 TTTAATAATTTTA
14411157 AAATCATTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
29 27 0.68
30 13 0.32
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
TTTAATAATTTTATTATTTCAAAAAATAAT
Found at i:14413884 original size:17 final size:17
Alignment explanation
Indices: 14413862--14413896 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14413852 GTTTCGAGAC
* *
14413862 CTGAGCGGTCTCGGGAG
1 CTGAGCGATCTCAGGAG
14413879 CTGAGCGATCTCAGGAG
1 CTGAGCGATCTCAGGAG
14413896 C
1 C
14413897 CGAGGAGTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.26, G:0.40, T:0.17
Consensus pattern (17 bp):
CTGAGCGATCTCAGGAG
Found at i:14415048 original size:41 final size:38
Alignment explanation
Indices: 14414948--14415051 Score: 93
Period size: 37 Copynumber: 2.7 Consensus size: 38
14414938 TTCGAAGCAA
* *
14414948 TAAAGTGACACCCAGTGTCTCATCG-GCCTAGCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
* ** ** * *
14414985 TAAAGTGGTACCCAGTACCTCATCGAATCTATCCGAAG
1 TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
14415023 TAAAATAATGACACCCAGTGTCTCATCGA
1 T--AA-AATGACACCCAGTGTCTCATCGA
14415052 CTTAAGGTCG
Statistics
Matches: 51, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
37 21 0.41
38 10 0.20
40 2 0.04
41 18 0.35
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (38 bp):
TAAAATGACACCCAGTGTCTCATCGAACCTAGCCGAAG
Found at i:14415822 original size:17 final size:18
Alignment explanation
Indices: 14415788--14415822 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14415778 AATCCTAATT
*
14415788 TTCCCTTTCTCTTTTTCC
1 TTCCCTTTCTCTTCTTCC
14415806 TTCCCTTT-TCTTCTTCC
1 TTCCCTTTCTCTTCTTCC
14415823 CCTGTTTCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCCCTTTCTCTTCTTCC
Found at i:14415941 original size:11 final size:13
Alignment explanation
Indices: 14415911--14415994 Score: 61
Period size: 11 Copynumber: 6.7 Consensus size: 13
14415901 TAGATATTAG
*
14415911 TTAATAATAATAA
1 TTAATAATACTAA
14415924 --AATAATACTAA
1 TTAATAATACTAA
14415935 TTAAATAATACTAA
1 TT-AATAATACTAA
*
14415949 TT-A-AATAATAA
1 TTAATAATACTAA
* * *
14415960 TTTATATTATTATA
1 TTAATAATACTA-A
*
14415974 TT-ATAATATTAA
1 TTAATAATACTAA
14415986 TTAATAATA
1 TTAATAATA
14415995 AATTAAAATC
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
11 19 0.32
12 5 0.08
13 19 0.32
14 16 0.27
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (13 bp):
TTAATAATACTAA
Found at i:14415960 original size:17 final size:14
Alignment explanation
Indices: 14415912--14415958 Score: 76
Period size: 14 Copynumber: 3.4 Consensus size: 14
14415902 AGATATTAGT
* *
14415912 TAATAATAATAAAA
1 TAATACTAATTAAA
14415926 TAATACTAATTAAA
1 TAATACTAATTAAA
14415940 TAATACTAATTAAA
1 TAATACTAATTAAA
14415954 TAATA
1 TAATA
14415959 ATTTATATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (14 bp):
TAATACTAATTAAA
Found at i:14415983 original size:13 final size:12
Alignment explanation
Indices: 14415925--14415994 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 12
14415915 TAATAATAAA
*
14415925 ATAATACTAATT
1 ATAATATTAATT
*
14415937 AAATAATACTAATT
1 --ATAATATTAATT
*
14415951 A-AATAATAATTT
1 ATAATATTAA-TT
*
14415963 ATATTATTATATT
1 ATAATATTA-ATT
14415976 ATAATATTAATT
1 ATAATATTAATT
14415988 AATAATA
1 -ATAATA
14415995 AATTAAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 7 0.15
12 7 0.15
13 21 0.44
14 13 0.27
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (12 bp):
ATAATATTAATT
Found at i:14417645 original size:2 final size:2
Alignment explanation
Indices: 14417638--14417671 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
14417628 AACCATTTAA
* *
14417638 AT AT AT AT AT AT AT AT AA AT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14417672 CTCCAATTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14418972 original size:58 final size:58
Alignment explanation
Indices: 14418903--14419021 Score: 186
Period size: 58 Copynumber: 2.1 Consensus size: 58
14418893 AAAGGAGTTA
*
14418903 TTTATGAGTGTTATTT-AGGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTAG
1 TTTATGAGTGTT-TTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTAG
* * *
14418961 TTTATGAGTGTTTTTGAAGAATGAAATTATATTTGGGTTTAAAAATATTTGGGTTTAG
1 TTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTAG
14419019 TTT
1 TTT
14419022 GTTGATAGGT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
57 3 0.05
58 53 0.95
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (58 bp):
TTTATGAGTGTTTTTGAAGAATAAAATTATATTTGAGTTTAAAAATATTTGAGTTTAG
Found at i:14420357 original size:26 final size:27
Alignment explanation
Indices: 14420310--14420360 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
14420300 ATTTTTTTTC
***
14420310 AAAATTTTATAATTTTTTAAAAAATAT
1 AAAATTTTATAATTTAAAAAAAAATAT
14420337 AAAATTTTA-AATTTAAAAAAAAAT
1 AAAATTTTATAATTTAAAAAAAAAT
14420361 TAGTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
AAAATTTTATAATTTAAAAAAAAATAT
Found at i:14421076 original size:19 final size:19
Alignment explanation
Indices: 14421054--14421099 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
14421044 TTTTTTATGC
*
14421054 TTTTTAAATATTTTTTAAA
1 TTTTTAAATAATTTTTAAA
* *
14421073 TTTTCAAGTAATTTTTAAA
1 TTTTTAAATAATTTTTAAA
*
14421092 ATTTTAAA
1 TTTTTAAA
14421100 ATTAATTAAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTTTAAATAATTTTTAAA
Found at i:14426133 original size:14 final size:13
Alignment explanation
Indices: 14426114--14426156 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
14426104 TTTTAATTTT
14426114 TTAAAATAAAATAA
1 TTAAAATAAAA-AA
*
14426128 TTAAAATTAAAAAG
1 TTAAAA-TAAAAAA
14426142 TTAAAATAAATAAA
1 TTAAAATAAA-AAA
14426156 T
1 T
14426157 AATCTACAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 4 0.16
14 16 0.64
15 5 0.20
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (13 bp):
TTAAAATAAAAAA
Found at i:14426850 original size:2 final size:2
Alignment explanation
Indices: 14426845--14426911 Score: 127
Period size: 2 Copynumber: 34.0 Consensus size: 2
14426835 AAAAAATTGT
14426845 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
14426887 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
14426912 ATAATGAGAA
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 63 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14427466 original size:17 final size:17
Alignment explanation
Indices: 14427446--14427480 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
14427436 AAGTAGAGAA
14427446 AAGATGAAAGATAATTC
1 AAGATGAAAGATAATTC
14427463 AAGATGAAAGATAATTC
1 AAGATGAAAGATAATTC
14427480 A
1 A
14427481 TTTTTCATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (17 bp):
AAGATGAAAGATAATTC
Found at i:14427678 original size:17 final size:18
Alignment explanation
Indices: 14427656--14427691 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14427646 CTTAAATTTT
14427656 AAAATT-TTAAAATAAAA
1 AAAATTCTTAAAATAAAA
14427673 AAAATTCTTAAAATAAAA
1 AAAATTCTTAAAATAAAA
14427691 A
1 A
14427692 TATAATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATTCTTAAAATAAAA
Found at i:14432941 original size:19 final size:18
Alignment explanation
Indices: 14432914--14432949 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
14432904 ATCTGAATTA
*
14432914 TTCGTTATTTAATATTTAT
1 TTCGATATTT-ATATTTAT
14432933 TTCGATATTTATATTTA
1 TTCGATATTTATATTTA
14432950 ATAAGTGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.28, C:0.06, G:0.06, T:0.61
Consensus pattern (18 bp):
TTCGATATTTATATTTAT
Found at i:14440825 original size:86 final size:86
Alignment explanation
Indices: 14440719--14440884 Score: 248
Period size: 87 Copynumber: 1.9 Consensus size: 86
14440709 TACATGCATA
* *
14440719 AGGTTGAGTTCTCACTCTTAATG-ATTCATATCCCA-AGATTTGGGTGGTTCTATTGAGA-GAGA
1 AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAGAGATTT-AGTGGTTCTATTGAGACG-GA
14440781 CTTGATGAATTCACTGACATGAG
64 CTTGATGAATTCACTGACATGAG
* *
14440804 AGGTTGAGTTTATTACTCTTAATGAATTCATATCCCAGAGCTTTAGTGGTTCTATTGAGACGGAC
1 AGGTTGAG-TTATCACTCTTAATGAATTCATATCCCAGAGATTTAGTGGTTCTATTGAGACGGAC
14440869 TTGATGAATTCACTGA
65 TTGATGAATTCACTGA
14440885 ATTTAAATTT
Statistics
Matches: 73, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
85 8 0.11
86 13 0.18
87 46 0.63
88 6 0.08
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (86 bp):
AGGTTGAGTTATCACTCTTAATGAATTCATATCCCAGAGATTTAGTGGTTCTATTGAGACGGACT
TGATGAATTCACTGACATGAG
Found at i:14456688 original size:32 final size:35
Alignment explanation
Indices: 14456626--14456691 Score: 93
Period size: 35 Copynumber: 2.0 Consensus size: 35
14456616 AATTCGGTAA
14456626 AAAAACTTTTCAATAAACAAATATATGAAATATTT
1 AAAAACTTTTCAATAAACAAATATATGAAATATTT
* *
14456661 AAAACCTTTTGAA-AAA-AAATAT-TGAAATATT
1 AAAAACTTTTCAATAAACAAATATATGAAATATT
14456692 AAATTTATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 9 0.31
33 6 0.21
34 3 0.10
35 11 0.38
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.33
Consensus pattern (35 bp):
AAAAACTTTTCAATAAACAAATATATGAAATATTT
Found at i:14456705 original size:13 final size:13
Alignment explanation
Indices: 14456689--14456713 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14456679 ATATTGAAAT
14456689 ATTAAATTTATTC
1 ATTAAATTTATTC
14456702 ATTAAATTTATT
1 ATTAAATTTATT
14456714 AAAAAATAGA
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTAAATTTATTC
Found at i:14465229 original size:2 final size:2
Alignment explanation
Indices: 14465222--14465251 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14465212 CTGTCCTATC
14465222 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14465252 TTTTTATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14469000 original size:110 final size:110
Alignment explanation
Indices: 14468807--14469026 Score: 422
Period size: 110 Copynumber: 2.0 Consensus size: 110
14468797 AGTTTATAAT
14468807 ACTTTATATTATGTTACTTTTACATATTATGTAATTTAGAATACATTAAAAAGATAAATCTATAC
1 ACTTTATATTATGTTACTTTTACATATTATGTAATTTAGAATACATTAAAAAGATAAATCTATAC
14468872 TAAATATATAATACTACTCTAATGTAAACATTAAAATTGTAACAC
66 TAAATATATAATACTACTCTAATGTAAACATTAAAATTGTAACAC
*
14468917 ACTTTATATTATGTTACTTTTACATATTATGTAATTTAGAATACATTAAAAAGATAAATCTATAT
1 ACTTTATATTATGTTACTTTTACATATTATGTAATTTAGAATACATTAAAAAGATAAATCTATAC
*
14468982 TAAATATATAATACTACTCTAATGTAAATATTAAAATTGTAACAC
66 TAAATATATAATACTACTCTAATGTAAACATTAAAATTGTAACAC
14469027 CCCTATACCC
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
110 108 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (110 bp):
ACTTTATATTATGTTACTTTTACATATTATGTAATTTAGAATACATTAAAAAGATAAATCTATAC
TAAATATATAATACTACTCTAATGTAAACATTAAAATTGTAACAC
Found at i:14469611 original size:23 final size:23
Alignment explanation
Indices: 14469568--14469623 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
14469558 AGTGTTGAGT
* *
14469568 AACAGAGGGCACACACAGTGCTG
1 AACAGAGGGCACAAACAGTGCTA
14469591 AACAGAGGGCACGAAAC-GTGCTA
1 AACAGAGGGCAC-AAACAGTGCTA
*
14469614 AACATAGGGC
1 AACAGAGGGC
14469624 GCGCTAGTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 26 0.90
24 3 0.10
ACGTcount: A:0.38, C:0.23, G:0.30, T:0.09
Consensus pattern (23 bp):
AACAGAGGGCACAAACAGTGCTA
Found at i:14471382 original size:43 final size:43
Alignment explanation
Indices: 14471335--14471465 Score: 115
Period size: 43 Copynumber: 3.0 Consensus size: 43
14471325 CTTCGATGTA
*
14471335 CGGGAGCATCGGACACCATCGACAACTTAGGCCGATGGTGGTG
1 CGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTG
* * * * * *
14471378 CGGGACCATCGAGA-AGCATCGGCACCTTGGTGCC-TTGGAT-ATG
1 CGGGAGCATCG-GACACCATCGGCAACTTAG-GCCGATGG-TGGTG
* * * *
14471421 CAGGAGCATCGGACACCATCGGTAACTAAGACCGATGGTGGTG
1 CGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTG
14471464 CG
1 CG
14471466 AGACCATCAG
Statistics
Matches: 64, Mismatches: 18, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
42 5 0.08
43 53 0.83
44 6 0.09
ACGTcount: A:0.24, C:0.25, G:0.34, T:0.18
Consensus pattern (43 bp):
CGGGAGCATCGGACACCATCGGCAACTTAGGCCGATGGTGGTG
Found at i:14471456 original size:86 final size:86
Alignment explanation
Indices: 14471308--14471488 Score: 247
Period size: 86 Copynumber: 2.1 Consensus size: 86
14471298 CATCGGACAC
* * * * *
14471308 CATCAGCACCTTGGTGCCTTCGATGTACGGGAGCATCGGACACCATCGACAACTTAGGCCGATGG
1 CATCGGCACCTTGGTGCCTTCGATATACAGGAGCATCGGACACCATCGACAACTAAGACCGATGG
*
14471373 TGGTGCGGGACCATC-GAGAAG
66 TGGTGCGAGACCATCAG-GAAG
* * **
14471394 CATCGGCACCTTGGTGCCTTGGATATGCAGGAGCATCGGACACCATCGGTAACTAAGACCGATGG
1 CATCGGCACCTTGGTGCCTTCGATATACAGGAGCATCGGACACCATCGACAACTAAGACCGATGG
14471459 TGGTGCGAGACCATCAGGAAG
66 TGGTGCGAGACCATCAGGAAG
*
14471480 TATCGGCAC
1 CATCGGCAC
14471489 TACTGTTCCA
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
86 82 0.99
87 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.31, T:0.19
Consensus pattern (86 bp):
CATCGGCACCTTGGTGCCTTCGATATACAGGAGCATCGGACACCATCGACAACTAAGACCGATGG
TGGTGCGAGACCATCAGGAAG
Found at i:14471593 original size:24 final size:25
Alignment explanation
Indices: 14471549--14471604 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
14471539 AAACGATTAT
*
14471549 ATAAAATTTTCAATAAATAAAA-AA
1 ATAAAATTTTAAATAAATAAAATAA
*
14471573 ATAAAATTATTAAAT-ATTAAAATAA
1 ATAAAATT-TTAAATAAATAAAATAA
*
14471598 AAAAAAT
1 ATAAAAT
14471605 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (25 bp):
ATAAAATTTTAAATAAATAAAATAA
Found at i:14480388 original size:26 final size:26
Alignment explanation
Indices: 14480342--14480391 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
14480332 TTTCATGCTC
*
14480342 AATTCATATTATTCTTATAATTAAAA
1 AATTCATATTATTCTCATAATTAAAA
*
14480368 AATTTATATTATT-TCAGTAATTAA
1 AATTCATATTATTCTCA-TAATTAA
14480392 TTCTTTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (26 bp):
AATTCATATTATTCTCATAATTAAAA
Found at i:14481316 original size:28 final size:28
Alignment explanation
Indices: 14481257--14481347 Score: 96
Period size: 28 Copynumber: 3.2 Consensus size: 28
14481247 AAAAACTTAT
* * *
14481257 AAAAAA-TAAAAATCAATAAAAAGT-GA
1 AAAAAATTAAAATTTAATAAAAATTAGA
*
14481283 TAAAAATTATTAAATTTTAATAAAAATTAGA
1 -AAAAA--ATTAAAATTTAATAAAAATTAGA
*
14481314 AAAAAATTAAAATTTATTAAAAATTAGA
1 AAAAAATTAAAATTTAATAAAAATTAGA
14481342 AAAAAA
1 AAAAAA
14481348 AATTATAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
27 5 0.09
28 27 0.50
29 1 0.02
30 19 0.35
31 2 0.04
ACGTcount: A:0.67, C:0.01, G:0.04, T:0.27
Consensus pattern (28 bp):
AAAAAATTAAAATTTAATAAAAATTAGA
Found at i:14481647 original size:90 final size:89
Alignment explanation
Indices: 14481482--14481654 Score: 213
Period size: 90 Copynumber: 1.9 Consensus size: 89
14481472 ATAATTAGGG
* * * *
14481482 GCTTAATTGCTTTTTGTGAAAAAGTTTAAGGTTTTTTTGATGCATTTTGAAAGCTCAAGTATCCA
1 GCTTAATTGCTTTTTGTGAAAAAGTTTAAGGTCTTTTTAATGCATTTTAAAAGCTCAAATATCCA
* *
14481547 ATTGAATGCAAAATAAAAGTAAAT
66 AATGAATGCAAAACAAAAGTAAAT
* * * * *
14481571 GCTTAATTTCTTTTTTTGAAATAA-TTTGAAGGTCTTTTTAATGCATTTTAAAAGTTTAAATATT
1 GCTTAATTGCTTTTTGTGAAA-AAGTTT-AAGGTCTTTTTAATGCATTTTAAAAGCTCAAATATC
*
14481635 CAAATGAGTGCAAAACAAAA
64 CAAATGAATGCAAAACAAAA
14481655 CATAGAATTA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
89 22 0.31
90 48 0.69
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (89 bp):
GCTTAATTGCTTTTTGTGAAAAAGTTTAAGGTCTTTTTAATGCATTTTAAAAGCTCAAATATCCA
AATGAATGCAAAACAAAAGTAAAT
Found at i:14489233 original size:5 final size:5
Alignment explanation
Indices: 14489218--14489253 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
14489208 AAAACATCTC
*
14489218 TCCCT TTCCT TCCCT TCCCT TCCCT TCCCT TCCCT T
1 TCCCT TCCCT TCCCT TCCCT TCCCT TCCCT TCCCT T
14489254 TTCTCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (5 bp):
TCCCT
Found at i:14494745 original size:93 final size:93
Alignment explanation
Indices: 14494586--14494772 Score: 356
Period size: 93 Copynumber: 2.0 Consensus size: 93
14494576 CCAACAGTAG
*
14494586 GCTATAGTTAACGACAATATACACCAACTCCTACATAAACAACCACACCAAGTTAAACAGTATTC
1 GCTATAGTTAACGACAATATACACCAACTCCTACACAAACAACCACACCAAGTTAAACAGTATTC
14494651 AAATTTTCTTCAATTTGCTTTTATAATT
66 AAATTTTCTTCAATTTGCTTTTATAATT
*
14494679 GCTATAGTTAACGACAATATACCCCAACTCCTACACAAACAACCACACCAAGTTAAACAGTATTC
1 GCTATAGTTAACGACAATATACACCAACTCCTACACAAACAACCACACCAAGTTAAACAGTATTC
14494744 AAATTTTCTTCAATTTGCTTTTATAATT
66 AAATTTTCTTCAATTTGCTTTTATAATT
14494772 G
1 G
14494773 TTGCATTTAC
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.07, T:0.32
Consensus pattern (93 bp):
GCTATAGTTAACGACAATATACACCAACTCCTACACAAACAACCACACCAAGTTAAACAGTATTC
AAATTTTCTTCAATTTGCTTTTATAATT
Found at i:14501975 original size:3 final size:3
Alignment explanation
Indices: 14501967--14501991 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14501957 GGCTAGGGCG
14501967 GCT GCT GCT GCT GCT GCT GCT GCT G
1 GCT GCT GCT GCT GCT GCT GCT GCT G
14501992 TGAAATAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.36, T:0.32
Consensus pattern (3 bp):
GCT
Found at i:14508708 original size:18 final size:18
Alignment explanation
Indices: 14508687--14508721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14508677 GGAAAAACTA
*
14508687 ATTTATCTTTTTCATTTC
1 ATTTATATTTTTCATTTC
*
14508705 ATTTTTATTTTTCATTT
1 ATTTATATTTTTCATTT
14508722 TTAGAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTTATATTTTTCATTTC
Found at i:14518970 original size:20 final size:20
Alignment explanation
Indices: 14518932--14518973 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14518922 CATTTTCGAT
*
14518932 AAAATACATAAAATTTTATA
1 AAAATACATAAAATATTATA
14518952 AAAATACATACAAA-ATTATA
1 AAAATACATA-AAATATTATA
14518972 AA
1 AA
14518974 TAATCCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 17 0.85
21 3 0.15
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAATACATAAAATATTATA
Found at i:14520247 original size:13 final size:14
Alignment explanation
Indices: 14520226--14520254 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
14520216 AATATACATA
14520226 TTTATTTTATATTT
1 TTTATTTTATATTT
14520240 TTTA-TTTATATTT
1 TTTATTTTATATTT
14520253 TT
1 TT
14520255 ATGGTTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTATTTTATATTT
Found at i:14520480 original size:17 final size:18
Alignment explanation
Indices: 14520458--14520492 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14520448 AATTTTTTTG
14520458 CTTA-TTTTAATAAAAAT
1 CTTATTTTTAATAAAAAT
*
14520475 CTTATTTTTTATAAAAAT
1 CTTATTTTTAATAAAAAT
14520493 TATTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
CTTATTTTTAATAAAAAT
Found at i:14520498 original size:19 final size:18
Alignment explanation
Indices: 14520462--14520500 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
14520452 TTTTTGCTTA
*
14520462 TTTTAATAAAAATCTTAT
1 TTTTAATAAAAATATTAT
*
14520480 TTTTTATAAAAATTATTAT
1 TTTTAATAAAAA-TATTAT
14520499 TT
1 TT
14520501 ATCTTTCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAATAAAAATATTAT
Found at i:14521045 original size:13 final size:13
Alignment explanation
Indices: 14521027--14521052 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14521017 ATACTATAAC
14521027 ATGAGATAAAATG
1 ATGAGATAAAATG
14521040 ATGAGATAAAATG
1 ATGAGATAAAATG
14521053 TAAGTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (13 bp):
ATGAGATAAAATG
Found at i:14529615 original size:3 final size:3
Alignment explanation
Indices: 14529607--14529633 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
14529597 AATAACATAG
14529607 GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT
14529634 CCGATTCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:14541526 original size:37 final size:37
Alignment explanation
Indices: 14541485--14541565 Score: 94
Period size: 36 Copynumber: 2.2 Consensus size: 37
14541475 TATTGATTGT
* *
14541485 TTATAAAAATTAAATCAAATCAAAATATTA-TATTATA
1 TTATAAAAATTAAATAAAATCAAAAT-TTAGTATAATA
* *
14541522 TTAT-AAAATTATATAAAATTAAAATTTATGTATAATA
1 TTATAAAAATTAAATAAAATCAAAATTTA-GTATAATA
14541559 TTATAAA
1 TTATAAA
14541566 TTTAATCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 3 0.08
36 18 0.49
37 14 0.38
38 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (37 bp):
TTATAAAAATTAAATAAAATCAAAATTTAGTATAATA
Found at i:14542623 original size:36 final size:36
Alignment explanation
Indices: 14542583--14542660 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
14542573 ACCATGATCC
*
14542583 ATTTAGATTATCATTTTTTTTCTTTCATCCGACATT
1 ATTTAGATTATAATTTTTTTTCTTTCATCCGACATT
14542619 ATTTAGATTATAATTTTTTTTCTTTCATCCGACATT
1 ATTTAGATTATAATTTTTTTTCTTTCATCCGACATT
14542655 ATTTAG
1 ATTTAG
14542661 TATATCTATA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.24, C:0.14, G:0.06, T:0.55
Consensus pattern (36 bp):
ATTTAGATTATAATTTTTTTTCTTTCATCCGACATT
Found at i:14553256 original size:9 final size:9
Alignment explanation
Indices: 14553239--14553367 Score: 50
Period size: 9 Copynumber: 14.0 Consensus size: 9
14553229 AGATATAAAC
14553239 TTATAAAAA
1 TTATAAAAA
14553248 TTATCAAAAA
1 TTAT-AAAAA
14553258 -TATAAAAA
1 TTATAAAAA
* *
14553266 -TCTAATAA
1 TTATAAAAA
** *
14553274 TT-TTTAAT
1 TTATAAAAA
14553282 TTATAAAGTAA
1 TTATAAA--AA
* *
14553293 TAAAAAAAA
1 TTATAAAAA
*
14553302 TT-TAAAATT
1 TTATAAAA-A
14553311 TTATAAAAA
1 TTATAAAAA
14553320 TTATAAAAA
1 TTATAAAAA
* *
14553329 GTATAAAGA
1 TTATAAAAA
* *
14553338 TTGATATACAT
1 TT-ATA-AAAA
14553349 TTATAAAAAA
1 TTAT-AAAAA
*
14553359 TCATAAAAA
1 TTATAAAAA
14553368 GTCTGAATTA
Statistics
Matches: 86, Mismatches: 24, Indels: 20
0.66 0.18 0.15
Matches are distributed among these distances:
8 19 0.22
9 37 0.43
10 20 0.23
11 10 0.12
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14566025 original size:71 final size:71
Alignment explanation
Indices: 14565908--14566050 Score: 268
Period size: 71 Copynumber: 2.0 Consensus size: 71
14565898 ATGAAACTTA
*
14565908 TTGTTGTAAGACTAAGCTATTCAACTAATGGATAACTACTTAAATTGGACTGAGGGAGTTTGGTC
1 TTGTTGTAAGACTAAGCTATTCAACTAATGGATAACTACTTAAATTGGACTCAGGGAGTTTGGTC
14565973 TGGATG
66 TGGATG
*
14565979 TTGTTGTAAGACTAAGCTATTCAACTAATGGATAACTACTTCAATTGGACTCAGGGAGTTTGGTC
1 TTGTTGTAAGACTAAGCTATTCAACTAATGGATAACTACTTAAATTGGACTCAGGGAGTTTGGTC
14566044 TGGATG
66 TGGATG
14566050 T
1 T
14566051 CCATCATCAT
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 70 1.00
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (71 bp):
TTGTTGTAAGACTAAGCTATTCAACTAATGGATAACTACTTAAATTGGACTCAGGGAGTTTGGTC
TGGATG
Found at i:14575260 original size:29 final size:30
Alignment explanation
Indices: 14575188--14575260 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
14575178 AATATTAAAA
14575188 TTATATATAAATTTTGATTTAATATACAAT
1 TTATATATAAATTTTGATTTAATATACAAT
* * **
14575218 TT-TATATGAGTTTTGATTTGGT-T-CAATT
1 TTATATATAAATTTTGATTTAATATACAA-T
14575246 TTATATATAAATTTT
1 TTATATATAAATTTT
14575261 TAATTTGATC
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
27 3 0.09
28 4 0.11
29 26 0.74
30 2 0.06
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (30 bp):
TTATATATAAATTTTGATTTAATATACAAT
Found at i:14578139 original size:21 final size:22
Alignment explanation
Indices: 14578113--14578153 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
14578103 GTGAAATTTC
14578113 ATATGTGAA-ATATT-TTTAATG
1 ATATGT-AATATATTATTTAATG
14578134 ATATGTAATATATTATTTAA
1 ATATGTAATATATTATTTAA
14578154 ATAACCCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 11 0.61
22 5 0.28
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (22 bp):
ATATGTAATATATTATTTAATG
Found at i:14578268 original size:21 final size:22
Alignment explanation
Indices: 14578212--14578268 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
14578202 CATTAAATTT
*
14578212 AAAAAATAACTC--TTAATTTA
1 AAAAAATAACTCAATTAATCTA
* * *
14578232 AAGAAATAAATAAATT-ATCTA
1 AAAAAATAACTCAATTAATCTA
14578253 AAAAAATAACTCAATT
1 AAAAAATAACTCAATT
14578269 GAAAAAATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
20 9 0.32
21 17 0.61
22 2 0.07
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.30
Consensus pattern (22 bp):
AAAAAATAACTCAATTAATCTA
Found at i:14579859 original size:6 final size:6
Alignment explanation
Indices: 14579850--14579874 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
14579840 ATTGTGATTT
14579850 GTGTCG GTGTCG GTGTCG GTGTCG G
1 GTGTCG GTGTCG GTGTCG GTGTCG G
14579875 GATTAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GTGTCG
Done.