Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 ID=Chr09-JGI_221_v2.0
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: 70713020
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1142373 characters in sequence are not A, C, G, or T
File 160 of 226
Found at i:51510967 original size:44 final size:45
Alignment explanation
Indices: 51510855--51510983 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 45
51510845 TCGAAGATGG
* *
51510855 CAAATCTTATCTCCTTGAAGTTGTAGTGGAGTAGATTAAAGCCAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA
* * **
51510900 CAAATCTTATCTCCCTTAAGTTGCAGTGGAGTAGATTGAAG-TTA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA
* * **
51510944 CCAATCCTATCTCCCTGAAGTTGCAGTGGAGGGGATTAAA
1 CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAA
51510984 AAGATGGATC
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
44 35 0.49
45 37 0.51
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (45 bp):
CAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCAA
Found at i:51512101 original size:31 final size:32
Alignment explanation
Indices: 51512036--51512107 Score: 94
Period size: 31 Copynumber: 2.3 Consensus size: 32
51512026 TATACGTACC
* *
51512036 TATATATATTTCATAATTTTTATACATATCTA
1 TATATATATTTCATAAATTTTATACATATATA
*
51512068 TATACATATTTC-TAAATTTTATA-AGTATATA
1 TATATATATTTCATAAATTTTATACA-TATATA
51512099 TATATATAT
1 TATATATAT
51512108 ATATATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.03
31 23 0.66
32 11 0.31
ACGTcount: A:0.40, C:0.07, G:0.01, T:0.51
Consensus pattern (32 bp):
TATATATATTTCATAAATTTTATACATATATA
Found at i:51512179 original size:16 final size:16
Alignment explanation
Indices: 51512158--51512216 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
51512148 AAAGTATACA
*
51512158 TATATATACATACTTT
1 TATATATACATAATTT
**
51512174 TATATATACATGTTTT
1 TATATATACATAATTT
* *
51512190 TACATATTTCATAATTT
1 TATATA-TACATAATTT
51512207 TATATATACA
1 TATATATACA
51512217 CATATATGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
16 22 0.65
17 12 0.35
ACGTcount: A:0.37, C:0.10, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATACATAATTT
Found at i:51512335 original size:35 final size:37
Alignment explanation
Indices: 51512295--51512367 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
51512285 TTAAAATATG
*
51512295 TGTACATACATATGT-TC-TTCATATTTTCATAATTT
1 TGTACATACATATATATCTTTCATATTTTCATAATTT
* *
51512330 TGTACATATATATATATCTTTTATATTTTCATAATTT
1 TGTACATACATATATATCTTTCATATTTTCATAATTT
51512367 T
1 T
51512368 TTGGATCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 13 0.39
36 2 0.06
37 18 0.55
ACGTcount: A:0.30, C:0.11, G:0.04, T:0.55
Consensus pattern (37 bp):
TGTACATACATATATATCTTTCATATTTTCATAATTT
Found at i:51513530 original size:72 final size:72
Alignment explanation
Indices: 51513407--51513540 Score: 191
Period size: 72 Copynumber: 1.9 Consensus size: 72
51513397 TCTCGAATTT
*
51513407 AAAAAAAGGATCACGACCAGTAAGTTAGGACATGTTCTTTTTTCAAATCCCGAGATCGTTTAGAA
1 AAAAAAAGGATCACGACCAGTAAGTTAGGACATGATCTTTTTTCAAATCCCGAGATCGTTTAGAA
51513472 TTTGAGA
66 TTTGAGA
* * * *
51513479 AAAAAAAGGATCA-TACTCGGTAAGTTAGGACATGATCTCTTTTT-AATTCCCGAGATTGTTTA
1 AAAAAAAGGATCACGAC-CAGTAAGTTAGGACATGATCT-TTTTTCAAATCCCGAGATCGTTTA
51513541 AAACTTAAGT
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
71 2 0.04
72 48 0.87
73 5 0.09
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (72 bp):
AAAAAAAGGATCACGACCAGTAAGTTAGGACATGATCTTTTTTCAAATCCCGAGATCGTTTAGAA
TTTGAGA
Found at i:51514141 original size:35 final size:35
Alignment explanation
Indices: 51514099--51514169 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 35
51514089 AATGATCCAA
51514099 AAAATTATGAAAATATAAA-AGACATATATATGTAC
1 AAAATTATGAAAATATAAAGA-ACATATATATGTAC
* *
51514134 AAAATTATGAAAATATGAAGAACATATGTATGTAC
1 AAAATTATGAAAATATAAAGAACATATATATGTAC
51514169 A
1 A
51514170 CATATTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 32 0.97
36 1 0.03
ACGTcount: A:0.55, C:0.06, G:0.11, T:0.28
Consensus pattern (35 bp):
AAAATTATGAAAATATAAAGAACATATATATGTAC
Found at i:51514263 original size:16 final size:16
Alignment explanation
Indices: 51514243--51514304 Score: 79
Period size: 16 Copynumber: 3.8 Consensus size: 16
51514233 TTATACATAT
51514243 ATATGTATATATAAAA
1 ATATGTATATATAAAA
* *
51514259 TTATGAAATATATAAAA
1 ATATG-TATATATAAAA
*
51514276 ACATGTATATATAAAA
1 ATATGTATATATAAAA
*
51514292 GTATGTATATATA
1 ATATGTATATATA
51514305 TGTATACTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
16 25 0.66
17 13 0.34
ACGTcount: A:0.53, C:0.02, G:0.08, T:0.37
Consensus pattern (16 bp):
ATATGTATATATAAAA
Found at i:51514471 original size:2 final size:2
Alignment explanation
Indices: 51514464--51514535 Score: 76
Period size: 2 Copynumber: 36.5 Consensus size: 2
51514454 AAAAATATGC
* * * * *
51514464 AT AT AT AT AT AT AT AT AT AT -T AT A- AA AT CAC AT GT AT GT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT
51514505 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
51514536 AGTAATTAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
1 2 0.03
2 57 0.95
3 1 0.02
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:51514634 original size:3 final size:3
Alignment explanation
Indices: 51514628--51514658 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
51514618 TGATAGTAAC
51514628 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
51514659 GTACTAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:51516769 original size:20 final size:20
Alignment explanation
Indices: 51516744--51516783 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
51516734 ATTTTATTAA
*
51516744 AATTTTATTTTTAATTTTTT
1 AATTTTAATTTTAATTTTTT
*
51516764 AATTTTAATTTTCATTTTTT
1 AATTTTAATTTTAATTTTTT
51516784 CCCAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
AATTTTAATTTTAATTTTTT
Found at i:51516772 original size:14 final size:14
Alignment explanation
Indices: 51516746--51516775 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51516736 TTTATTAAAA
*
51516746 TTTTATTTTTAATT
1 TTTTAATTTTAATT
51516760 TTTTAATTTTAATT
1 TTTTAATTTTAATT
51516774 TT
1 TT
51516776 CATTTTTTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:51519049 original size:37 final size:33
Alignment explanation
Indices: 51519020--51519090 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
51519010 ATTATGGATA
51519020 AAATAATAAGAAATAATATAGT-ATAAAATTATAT
1 AAATAAT-A-AAATAATATAGTAATAAAATTATAT
* *
51519054 AATTAATAATATAATATAGTAATAAAATT-TAT
1 AAATAATAAAATAATATAGTAATAAAATTATAT
51519086 AAATA
1 AAATA
51519091 TCATTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
32 18 0.55
33 9 0.27
34 6 0.18
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (33 bp):
AAATAATAAAATAATATAGTAATAAAATTATAT
Found at i:51519512 original size:31 final size:31
Alignment explanation
Indices: 51519494--51519551 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
51519484 ATTTTATTAT
51519494 AATATTTTTA-TATTTAAAATTTAAATTTAAA
1 AATATTTTTATTATTTAAAA-TTAAATTTAAA
*
51519525 AATATTTTTATTATTT-AAATTGAATTT
1 AATATTTTTATTATTTAAAATTAAATTT
51519552 GAATTGTACC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 7 0.28
31 13 0.52
32 5 0.20
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
AATATTTTTATTATTTAAAATTAAATTTAAA
Found at i:51523744 original size:45 final size:45
Alignment explanation
Indices: 51523680--51523774 Score: 181
Period size: 45 Copynumber: 2.1 Consensus size: 45
51523670 TGAAGTTGGC
51523680 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
1 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
*
51523725 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATATTT
1 AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
51523770 AATAA
1 AATAA
51523775 TGAGTTGCAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.45, C:0.06, G:0.25, T:0.23
Consensus pattern (45 bp):
AATAAAAATAAGAGTTGGGACGGCAGGGTATAAGAATGCATAATT
Found at i:51528824 original size:7 final size:7
Alignment explanation
Indices: 51528783--51528831 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
51528773 ACTATTTAAA
51528783 GGTTTAT
1 GGTTTAT
*
51528790 GGATTAT
1 GGTTTAT
*
51528797 GAGTTTAG
1 G-GTTTAT
*
51528805 GGGTTAT
1 GGTTTAT
51528812 GGTTTAT
1 GGTTTAT
*
51528819 GATTTAT
1 GGTTTAT
51528826 GGTTTA
1 GGTTTA
51528832 AAGGCGGGAG
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
7 28 0.85
8 5 0.15
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (7 bp):
GGTTTAT
Found at i:51531375 original size:29 final size:29
Alignment explanation
Indices: 51531343--51531398 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
51531333 AAAAAGCCCA
51531343 TTTTTTAAAAAATTACCGAAATGGGCCGG
1 TTTTTTAAAAAATTACCGAAATGGGCCGG
** * *
51531372 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAAAAAATTACCGAAATGGGCC
51531399 ATTTTCCGCG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.38
Consensus pattern (29 bp):
TTTTTTAAAAAATTACCGAAATGGGCCGG
Found at i:51531403 original size:28 final size:28
Alignment explanation
Indices: 51531340--51531403 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
51531330 CAAAAAAAGC
51531340 CCATTTTTTAAAAAATTACCGAAATGGG
1 CCATTTTTTAAAAAATTACCGAAATGGG
* ** * *
51531368 CCGGTTTTTTAATTATTTACCGGAATGGG
1 CC-ATTTTTTAAAAAATTACCGAAATGGG
51531397 CCATTTT
1 CCATTTT
51531404 CCGCGAAATC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 6 0.21
29 23 0.79
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.39
Consensus pattern (28 bp):
CCATTTTTTAAAAAATTACCGAAATGGG
Found at i:51531868 original size:124 final size:123
Alignment explanation
Indices: 51531647--51531899 Score: 348
Period size: 124 Copynumber: 2.0 Consensus size: 123
51531637 AAATAGTGGG
** * * * *
51531647 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGAAGCTATATGAGAAGAAATTGTGAAATCGTCGCCTCGTGGACGCGAGT
*
51531712 TCGCTACAGTGATCATGTAAGAAATAATTTTTTTTGACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTGATCATGTAAGAAATAATTTTTTTTGAC-ATTTCTGAGCAAATAGTATA
*
51531771 AAATCGCTGATACCAGGAAGCTATATGAGAAGAAATTGTGAAATCG-CGCCTTCGTGGGCGCGAG
1 AAATCGCTGATACCAGGAAGCTATATGAGAAGAAATTGTGAAATCGTCGCC-TCGTGGACGCGAG
* * * * *
51531835 TTCGCTAGAGTTGGTCATGTAGGAAATAA-TTTTTTTGACATTTCTGAGCAAATAGTGTC
65 TTCGCTACAG-TGATCATGTAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATA
51531894 AAATCG
1 AAATCG
51531900 AGCCCTCGTG
Statistics
Matches: 114, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
123 26 0.23
124 72 0.63
125 16 0.14
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (123 bp):
AAATCGCTGATACCAGGAAGCTATATGAGAAGAAATTGTGAAATCGTCGCCTCGTGGACGCGAGT
TCGCTACAGTGATCATGTAAGAAATAATTTTTTTTGACATTTCTGAGCAAATAGTATA
Found at i:51535271 original size:23 final size:23
Alignment explanation
Indices: 51535229--51535453 Score: 171
Period size: 23 Copynumber: 8.7 Consensus size: 23
51535219 AATAAAATGA
* *
51535229 TAAATTAGGGTAAGGGTTTTCAAT
1 TAAATTA-GGTTAGGGTTTTTAAT
*
51535253 TAAATTAGGTTAGGGTTTTAAAT
1 TAAATTAGGTTAGGGTTTTTAAT
* *
51535276 TAAATTAGGTTAAGGTTAGGGTTTTCAT
1 TAAATTAGGTT-A-G---GGTTTTTAAT
*
51535304 GTAAAATAGGTTAGGGTTTAGGGTTTTTAAC
1 -T-AA--A--TTA-GG-TTAGGGTTTTTAAT
51535335 TAAATTAGGTTAGGGTTTTTAAT
1 TAAATTAGGTTAGGGTTTTTAAT
51535358 TAAATTAAATTGGGTTAGGGTTTTTAAT
1 TAAATT--A---GGTTAGGGTTTTTAAT
51535386 TAAATTAGGTTAGGGTTTTTAATTAAAT
1 TAAATTAGGTTAGGG--TTT--TT-AAT
*
51535414 TAAATTAGGTTAGGATTTTTAAT
1 TAAATTAGGTTAGGGTTTTTAAT
51535437 TAAATTAGGTTAGGGTT
1 TAAATTAGGTTAGGGTT
51535454 AGGGTTTTTA
Statistics
Matches: 167, Mismatches: 11, Indels: 47
0.74 0.05 0.21
Matches are distributed among these distances:
23 71 0.43
24 12 0.07
25 8 0.05
26 4 0.02
27 3 0.02
28 46 0.28
29 3 0.02
30 3 0.02
31 7 0.04
32 1 0.01
34 4 0.02
35 3 0.02
36 2 0.01
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (23 bp):
TAAATTAGGTTAGGGTTTTTAAT
Found at i:51535327 original size:30 final size:29
Alignment explanation
Indices: 51535262--51535470 Score: 148
Period size: 29 Copynumber: 7.6 Consensus size: 29
51535252 TTAAATTAGG
*
51535262 TTAGGGTTTTAAATTAAATTAGGTTAAGG-
1 TTAGGGTTTT-AATTAAATTAGGTTAGGGT
* *
51535291 TTAGGGTTTTCATGTAAAATAGGTTAGGGT
1 TTAGGGTTTTAAT-TAAATTAGGTTAGGGT
*
51535321 TTAGGGTTTTTAACTAAATTAGGTTAGGG-
1 TTAGGG-TTTTAATTAAATTAGGTTAGGGT
**
51535350 -T----TTTTAATTAAATTAAATT-GGG-
1 TTAGGGTTTTAATTAAATTAGGTTAGGGT
51535372 TTAGGGTTTTTAATTAAATTAGGTTAGGG-
1 TTAGGG-TTTTAATTAAATTAGGTTAGGGT
**
51535401 -T----TTTTAATTAAATTAAATTA-GG-
1 TTAGGGTTTTAATTAAATTAGGTTAGGGT
*
51535423 TTAGGATTTTTAATTAAATTAGGTTAGGG-
1 TTAGG-GTTTTAATTAAATTAGGTTAGGGT
*
51535452 TTAGGGTTTTTAATCAAAT
1 TTAGGG-TTTTAATTAAAT
51535471 AATATCAAAA
Statistics
Matches: 145, Mismatches: 17, Indels: 36
0.73 0.09 0.18
Matches are distributed among these distances:
22 5 0.03
23 34 0.23
28 37 0.26
29 44 0.30
30 20 0.14
31 5 0.03
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.44
Consensus pattern (29 bp):
TTAGGGTTTTAATTAAATTAGGTTAGGGT
Found at i:51535375 original size:28 final size:28
Alignment explanation
Indices: 51535250--51535470 Score: 203
Period size: 28 Copynumber: 8.1 Consensus size: 28
51535240 AAGGGTTTTC
*
51535250 AATTAAATTAGGTTAGGGTTTTAAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
** *
51535278 AATTAGGTTAAGGTTAGGG-TTTTCATGTA
1 AATTAAATT-AGGTTAGGGTTTTTAAT-TA
* **
51535307 AAATAGGTTAGGGTTTAGGG--TTT--TT-
1 AATTAAATTA-GG-TTAGGGTTTTTAATTA
*
51535332 AACTAAATTAGGTTAGGGTTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
*
51535360 AATTAAATTGGGTTAGGG--TTT--TT-
1 AATTAAATTAGGTTAGGGTTTTTAATTA
51535383 AATTAAATTAGGTTAGGGTTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
*
51535411 AATTAAATTAGGTTAGGATTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTA
** *
51535439 AATTAGGTTAGGGTTAGGGTTTTTAATCA
1 AATTAAATTA-GGTTAGGGTTTTTAATTA
51535468 AAT
1 AAT
51535471 AATATCAAAA
Statistics
Matches: 162, Mismatches: 16, Indels: 29
0.78 0.08 0.14
Matches are distributed among these distances:
23 23 0.14
24 4 0.02
25 13 0.08
26 4 0.02
27 5 0.03
28 64 0.40
29 43 0.27
30 6 0.04
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.44
Consensus pattern (28 bp):
AATTAAATTAGGTTAGGGTTTTTAATTA
Found at i:51535384 original size:51 final size:51
Alignment explanation
Indices: 51535250--51535453 Score: 255
Period size: 51 Copynumber: 3.8 Consensus size: 51
51535240 AAGGGTTTTC
* * *
51535250 AATTAAATTAGGTTAGGGTTTTAAATTAAATTAGGTTAAGGTTAGGGTTTTCATGTA
1 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTT-A-G---GGTTTTTAAT-TA
* ** *
51535307 AAATAGGTTAGGGTTTAGGGTTTTTAACTAAATTAGGTTAGGGTTTTTAATTA
1 AATTAAATTA-GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTA
*
51535360 AATTAAATTGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTA
1 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTA
*
51535411 AATTAAATTAGGTTAGGATTTTTAATTAAATTAGGTTAGGGTT
1 AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
51535454 AGGGTTTTTA
Statistics
Matches: 131, Mismatches: 14, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
51 79 0.60
52 2 0.02
53 8 0.06
54 8 0.06
57 8 0.06
58 3 0.02
59 23 0.18
ACGTcount: A:0.32, C:0.01, G:0.23, T:0.44
Consensus pattern (51 bp):
AATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAATTA
Found at i:51537633 original size:14 final size:15
Alignment explanation
Indices: 51537616--51537649 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
51537606 AATAAATATC
51537616 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
51537630 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
51537645 TAAAA
1 TAAAA
51537650 TTTAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:51537921 original size:22 final size:22
Alignment explanation
Indices: 51537891--51537932 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
51537881 ATTTGGAGAT
*
51537891 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
51537913 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
51537933 TTTGACAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:51537958 original size:22 final size:22
Alignment explanation
Indices: 51537933--51538003 Score: 99
Period size: 22 Copynumber: 3.2 Consensus size: 22
51537923 AATTTGAGAG
* *
51537933 TTTGACAGAATTTTGGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
51537955 TTTGAGAGAATTTTTGAACGGAA
1 TTTGAGAGAATTTTTGAA-GGAA
51537978 -TTGAGAGAATTTTTGAAGGAA
1 TTTGAGAGAATTTTTGAAGGAA
*
51537999 ATTGA
1 TTTGA
51538004 TATTGAATTT
Statistics
Matches: 45, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.09
22 37 0.82
23 4 0.09
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.34
Consensus pattern (22 bp):
TTTGAGAGAATTTTTGAAGGAA
Found at i:51538434 original size:61 final size:60
Alignment explanation
Indices: 51538317--51538496 Score: 157
Period size: 61 Copynumber: 2.9 Consensus size: 60
51538307 TTGGTCTAGT
* * * *
51538317 AACAAAATTAGCCCTCTAATGTTTAC-ACATTTGATCAATTT-GATCCTAAATATAAAAAATGC
1 AACAAATTTA-CCCTC-AATGTTTACAAAATTTG-TCAATTTAG-TTCTAAATCTAAAAAATGC
* * * *
51538379 AACAAATTTATCCCTCAATGTTTACAAAATTTGTCATTTTAGTTCTAATTCTAAAAATTTC
1 AACAAATTTA-CCCTCAATGTTTACAAAATTTGTCAATTTAGTTCTAAATCTAAAAAATGC
* * ** * * *
51538440 AAAAAATTGGACCCTCAAAATTTACAAAATTTGTGAATTTAATTCTAACTCTAAAAA
1 AACAAATT-TACCCTCAATGTTTACAAAATTTGTCAATTTAGTTCTAAATCTAAAAA
51538497 TTAAACAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
61 76 0.78
62 22 0.22
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (60 bp):
AACAAATTTACCCTCAATGTTTACAAAATTTGTCAATTTAGTTCTAAATCTAAAAAATGC
Found at i:51558637 original size:33 final size:33
Alignment explanation
Indices: 51558595--51558660 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
51558585 TGTGATAGAA
*
51558595 GAAAGAATGTTGTGGGTACAAAGGCAAAAGTAT
1 GAAAGAATGTTGTGGATACAAAGGCAAAAGTAT
51558628 GAAAGAATGTTGTGGATACAAAGGCAAAAGTAT
1 GAAAGAATGTTGTGGATACAAAGGCAAAAGTAT
51558661 TAAGTAAGGA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.44, C:0.06, G:0.29, T:0.21
Consensus pattern (33 bp):
GAAAGAATGTTGTGGATACAAAGGCAAAAGTAT
Found at i:51558908 original size:3 final size:3
Alignment explanation
Indices: 51558902--51558933 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
51558892 ACAACAACAT
51558902 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CA
51558934 TAATAATGGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:51574384 original size:24 final size:24
Alignment explanation
Indices: 51574341--51574387 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
51574331 AAAAATAATA
*
51574341 AAATATTTTTATATTTAAATTTAT
1 AAATATTTTTATATTAAAATTTAT
51574365 AAATATTTTTACT-TTAAAATTTA
1 AAATATTTTTA-TATTAAAATTTA
51574388 AAGCGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 20 0.95
25 1 0.05
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATATTTTTATATTAAAATTTAT
Found at i:51575684 original size:33 final size:33
Alignment explanation
Indices: 51575647--51575713 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
51575637 AGGAGGCATA
* *
51575647 AAAGATGGGCCCAGCTGTAAAGAGGACCTGATG
1 AAAGATGAGCCCACCTGTAAAGAGGACCTGATG
* *
51575680 AAAGATGAGCCCACCTGTAAAGAGTACTTGATG
1 AAAGATGAGCCCACCTGTAAAGAGGACCTGATG
51575713 A
1 A
51575714 GATTTTTCTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (33 bp):
AAAGATGAGCCCACCTGTAAAGAGGACCTGATG
Found at i:51583554 original size:21 final size:21
Alignment explanation
Indices: 51583529--51583571 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51583519 ATGATTTCAA
51583529 ACTACTAATCAATCAAATAAT
1 ACTACTAATCAATCAAATAAT
51583550 ACTACTAATCAATCAAATAAT
1 ACTACTAATCAATCAAATAAT
51583571 A
1 A
51583572 TAAGAAATAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (21 bp):
ACTACTAATCAATCAAATAAT
Found at i:51583877 original size:16 final size:16
Alignment explanation
Indices: 51583856--51583887 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
51583846 TAAATTTAGC
51583856 GAATTTTTTTCTATAT
1 GAATTTTTTTCTATAT
51583872 GAATTTTTTTCTATAT
1 GAATTTTTTTCTATAT
51583888 TATAGATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (16 bp):
GAATTTTTTTCTATAT
Found at i:51586637 original size:67 final size:65
Alignment explanation
Indices: 51586485--51586639 Score: 152
Period size: 66 Copynumber: 2.3 Consensus size: 65
51586475 CTACTGTCGT
* * * * * *
51586485 TTTTTGGAGATATGCTTCATCTCTATGGAGAGTGATTAAACGGTTTATGGGGGGCTTGATTGTGA
1 TTTTTGGAGATATGC-TCACCTCTATGGAGAGTGATTAAACAGTTCATGAGGGCCTTGACTGTGA
51586550 A
65 A
* * **
51586551 TTTTTGGTGTTATGCCTCACCTCTATGGAGAGCTG-TTGGACAGTTCATGAAGGGCCTTGACTGC
1 TTTTTGGAGATATG-CTCACCTCTATGGAGAG-TGATTAAACAGTTCATG-AGGGCCTTGACTG-
51586615 T-AA
62 TGAA
51586618 TTTTTGGAGATATGTCTCACCT
1 TTTTTGGAGATATG-CTCACCT
51586640 TCGTAGAAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
66 37 0.51
67 34 0.47
68 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.27, T:0.37
Consensus pattern (65 bp):
TTTTTGGAGATATGCTCACCTCTATGGAGAGTGATTAAACAGTTCATGAGGGCCTTGACTGTGAA
Found at i:51593979 original size:14 final size:14
Alignment explanation
Indices: 51593953--51593982 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
51593943 TTTATTAAAA
*
51593953 TTTTATTTTTAATT
1 TTTTAATTTTAATT
51593967 TTTTAATTTTAATT
1 TTTTAATTTTAATT
51593981 TT
1 TT
51593983 ATTCTTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTAATTTTAATT
Found at i:51596245 original size:27 final size:25
Alignment explanation
Indices: 51596208--51596271 Score: 74
Period size: 27 Copynumber: 2.5 Consensus size: 25
51596198 TAAATTATGG
*
51596208 ATAAAATAATAAGAAATAATATAGT
1 ATAAAATAATAAGAAATAATATAAT
**
51596233 ATAAAATTAAATAATTAATAATATAAT
1 ATAAAA-T-AATAAGAAATAATATAAT
*
51596260 ATAATATAATAA
1 ATAAAATAATAA
51596272 TAAAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 11 0.33
26 2 0.06
27 20 0.61
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (25 bp):
ATAAAATAATAAGAAATAATATAAT
Found at i:51601475 original size:2 final size:2
Alignment explanation
Indices: 51601468--51601501 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
51601458 TTTAAAAGGA
51601468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51601502 TAAGAGCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51607497 original size:68 final size:68
Alignment explanation
Indices: 51607388--51607516 Score: 213
Period size: 68 Copynumber: 1.9 Consensus size: 68
51607378 GCTTTTTTAG
*
51607388 TAGCTCTTTTCGTATTAATTTTTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAA
1 TAGCTCTTTTCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAA
51607453 GCA
66 GCA
* * * *
51607456 TAGCTGTTTTCGTATTAATTTGTATCTATAGTAGATTATGTCTGCTGATCATCCTGTCTTA
1 TAGCTCTTTTCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTA
51607517 AAATCTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (68 bp):
TAGCTCTTTTCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAA
GCA
Found at i:51607531 original size:68 final size:68
Alignment explanation
Indices: 51607394--51607531 Score: 197
Period size: 68 Copynumber: 2.0 Consensus size: 68
51607384 TTAGTAGCTC
* * *
51607394 TTTTCGTATTAATTTTTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAAGCATAG
1 TTTTCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAAGCAAAA
51607459 CTG
66 CTG
* * * *
51607462 TTTTCGTATTAATTTGTATCTATAGTAGATTATGTCTGCTGATCATCCTGTCTTA-AAATCTAAA
1 TTTTCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAAGC-AAA
51607526 ACTG
65 ACTG
51607530 TT
1 TT
51607532 GAGGAAACCA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 4 0.06
68 58 0.94
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (68 bp):
TTTTCGTATTAATTTGTATCTATAGTAGACTATGTCTGCTGAACATACTGTCTTACAAAGCAAAA
CTG
Found at i:51611054 original size:14 final size:14
Alignment explanation
Indices: 51611035--51611066 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
51611025 TATAAAAAAC
*
51611035 TATAAAATTCTGAA
1 TATAAAATTCCGAA
51611049 TATAAAATTCCGAA
1 TATAAAATTCCGAA
51611063 TATA
1 TATA
51611067 GTTTACGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.50, C:0.09, G:0.06, T:0.34
Consensus pattern (14 bp):
TATAAAATTCCGAA
Found at i:51612932 original size:58 final size:58
Alignment explanation
Indices: 51612829--51612941 Score: 149
Period size: 58 Copynumber: 1.9 Consensus size: 58
51612819 GAAGGGGCCG
* * *
51612829 AATGTAGAAGATATGCCTCACCTCCGTCGAGAGCCCAAGGAGTTCACTA-AAGGGCTGA
1 AATGTAGAAGATATACCTCACCTCCATCGAGAGCCCAAAGAGTTCA-TAGAAGGGCTGA
* *
51612887 AATGTAGAAGATATATCTTACCTCCATCGAGAGCCCAAA-AGGTTCATAGAAGGGC
1 AATGTAGAAGATATACCTCACCTCCATCGAGAGCCCAAAGA-GTTCATAGAAGGGC
51612942 CCTAATGTCC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
57 3 0.06
58 45 0.94
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (58 bp):
AATGTAGAAGATATACCTCACCTCCATCGAGAGCCCAAAGAGTTCATAGAAGGGCTGA
Found at i:51612949 original size:58 final size:59
Alignment explanation
Indices: 51612819--51612949 Score: 142
Period size: 58 Copynumber: 2.3 Consensus size: 59
51612809 AGGGTTCACG
* * * * *
51612819 GAAGGGGCCGAATGTAGAAGATATGCCTCACCTCCGTCGAGAGCCCAAGGAGTTCACTA
1 GAAGGGCCCAAATGTAGAAGATATACCTCACCTCCATCGAGAGCCCAAAGAGTTCACTA
** * *
51612878 -AAGGGCTGAAATGTAGAAGATATATCTTACCTCCATCGAGAGCCCAAA-AGGTTCA-TA
1 GAAGGGCCCAAATGTAGAAGATATACCTCACCTCCATCGAGAGCCCAAAGA-GTTCACTA
*
51612935 GAAGGGCCCTAATGT
1 GAAGGGCCCAAATGT
51612950 CCTACTCCAA
Statistics
Matches: 58, Mismatches: 12, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
57 3 0.05
58 55 0.95
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (59 bp):
GAAGGGCCCAAATGTAGAAGATATACCTCACCTCCATCGAGAGCCCAAAGAGTTCACTA
Found at i:51616066 original size:61 final size:60
Alignment explanation
Indices: 51615949--51616128 Score: 166
Period size: 61 Copynumber: 2.9 Consensus size: 60
51615939 TTGGTCTAGT
* * * *
51615949 AACAAAATTAGCCCTCTAATGTTTAC-ACATTTGATCAATTT-GATCCTAAATATAAAAAAATC
1 AACAAATTTA-CCCTC-AATGTTTACAAAATTTG-TCAATTTAG-TTCTAAATCTAAAAAAATC
* * **
51616011 AACAAATTTATCCCTCAATGTTTACAAAATTTGTCATTTTAGTTCTAATTCTAAAAATTTC
1 AACAAATTTA-CCCTCAATGTTTACAAAATTTGTCAATTTAGTTCTAAATCTAAAAAAATC
* ** * * *
51616072 AAAAAATTTGACCCTCAAAATTTACAAAATTTGTGAATTTAATTCTAACTCTAAAAA
1 AACAAATTT-ACCCTCAATGTTTACAAAATTTGTCAATTTAGTTCTAAATCTAAAAA
51616129 TTAAACATAT
Statistics
Matches: 99, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
61 77 0.78
62 22 0.22
ACGTcount: A:0.42, C:0.16, G:0.06, T:0.36
Consensus pattern (60 bp):
AACAAATTTACCCTCAATGTTTACAAAATTTGTCAATTTAGTTCTAAATCTAAAAAAATC
Found at i:51644570 original size:12 final size:12
Alignment explanation
Indices: 51644553--51644577 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51644543 AGACTAAAAC
51644553 TATTACTGTAAG
1 TATTACTGTAAG
51644565 TATTACTGTAAG
1 TATTACTGTAAG
51644577 T
1 T
51644578 GTTCTAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TATTACTGTAAG
Found at i:51650113 original size:26 final size:28
Alignment explanation
Indices: 51650079--51650131 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 28
51650069 AACAATCATT
51650079 GCATAGTCATGAACTAAGC-AATGAAAA
1 GCATAGTCATGAACTAAGCAAATGAAAA
* *
51650106 GCAT-GTCATGGATTAAGCAAATGAAA
1 GCATAGTCATGAACTAAGCAAATGAAA
51650132 GAAAATTACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.45, C:0.13, G:0.21, T:0.21
Consensus pattern (28 bp):
GCATAGTCATGAACTAAGCAAATGAAAA
Found at i:51653232 original size:40 final size:40
Alignment explanation
Indices: 51653172--51653247 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
51653162 TCTTCGGGGC
*
51653172 TTTAGCGGCGTTTTTCAAAAACCTCCGCGAATGCTCTATT
1 TTTAGCGGCGTTTTTCAAAAACCGCCGCGAATGCTCTATT
* *
51653212 TTTAGCGGCG-TTTTCTAAAAAGCGCCGCTAATGCTC
1 TTTAGCGGCGTTTTTC-AAAAACCGCCGCGAATGCTC
51653248 CGACTGCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 5 0.16
40 27 0.84
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTCAAAAACCGCCGCGAATGCTCTATT
Found at i:51659363 original size:11 final size:11
Alignment explanation
Indices: 51659347--51659394 Score: 51
Period size: 11 Copynumber: 4.1 Consensus size: 11
51659337 TTTACTGTGC
51659347 AAAAATATTTT
1 AAAAATATTTT
51659358 AAAAATACTTATT
1 AAAAATA-TT-TT
**
51659371 AAATTTAATTTT
1 AAAAAT-ATTTT
51659383 AAAAATATTTT
1 AAAAATATTTT
51659394 A
1 A
51659395 TATTATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 13 0.43
12 8 0.27
13 8 0.27
14 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:51667507 original size:22 final size:22
Alignment explanation
Indices: 51667477--51667519 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
51667467 ACACCAAAAC
*
51667477 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
51667499 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
51667520 AGCGCCGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:51667722 original size:42 final size:43
Alignment explanation
Indices: 51667657--51667964 Score: 167
Period size: 43 Copynumber: 7.2 Consensus size: 43
51667647 CTATCATAAA
* * * *
51667657 CGCCGCTGAAGAGTAAGAGCTTTAGTGGCG-CTTTAGTAGAAG
1 CGCCGCTAAAGACTAAGACCTTTAGCGGCGTCTTTAGTAGAAG
* * *
51667699 CGCCGCTAAAGACTAATACCTTTAGCGGCGTTTTTAGTATAAG
1 CGCCGCTAAAGACTAAGACCTTTAGCGGCGTCTTTAGTAGAAG
* ** ** * *
51667742 CGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTAAAAG
1 CGCCGCTAAAGACTAAGACCTTTAGCGGCGTCTTTAGTAGAAG
* * ** * * **
51667785 CGCCGCTATAGA-TCAGGGTCTTTAGTGGCGTTTTTAGTATTAG
1 CGCCGCTAAAGACT-AAGACCTTTAGCGGCGTCTTTAGTAGAAG
* ** ** *
51667828 CGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTA-AAG
1 CGCCGCTAAAGACTAAGACCTTTAGCGGCGTCTTTAG-TAGAAG
* * ** * * **
51667871 CGCCGCTATAGA-TCAGGGTCTTTAGTGGCGTTTTTAGTATTAG
1 CGCCGCTAAAGACT-AAGACCTTTAGCGGCGTCTTTAGTAGAAG
* ** ** *
51667914 CGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTA-AAG
1 CGCCGCTAAAGACTAAGACCTTTAGCGGCGTCTTTAG-TAGAAG
51667957 CGCCGCTA
1 CGCCGCTA
51667965 TAGATCAGGG
Statistics
Matches: 231, Mismatches: 27, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
42 29 0.13
43 196 0.85
44 6 0.03
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (43 bp):
CGCCGCTAAAGACTAAGACCTTTAGCGGCGTCTTTAGTAGAAG
Found at i:51667744 original size:43 final size:43
Alignment explanation
Indices: 51667688--51668034 Score: 422
Period size: 43 Copynumber: 8.1 Consensus size: 43
51667678 TTAGTGGCGC
* * ****
51667688 TTTAGTAGAAGCGCCGCTAAAGACTAATACCTTTAGCGGCGTT
1 TTTAGTATAAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTT
*
51667731 TTTAGTATAAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTT
1 TTTAGTATAAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTT
* *
51667774 TTTAGTAAAAGCGCCGCTATAGA-TCAGGGTCTTTAGTGGCGTT
1 TTTAGTATAAGCGCCGCTATAGACT-AGGGTCTTTAGCGGCGTT
* *
51667817 TTTAGTATTAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTT
1 TTTAGTATAAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTT
*
51667860 TTTAGT-TAAAGCGCCGCTATAGA-TCAGGGTCTTTAGTGGCGTT
1 TTTAGTAT-AAGCGCCGCTATAGACT-AGGGTCTTTAGCGGCGTT
* *
51667903 TTTAGTATTAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTT
1 TTTAGTATAAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTT
*
51667946 TTTAGT-TAAAGCGCCGCTATAGA-TCAGGGTCTTTAGTGGCGTT
1 TTTAGTAT-AAGCGCCGCTATAGACT-AGGGTCTTTAGCGGCGTT
*
51667989 TTT-GCTCA-AAGCGCCGCTATAGA-TCAGGGTCTTTAGCGGCGCT
1 TTTAG-T-ATAAGCGCCGCTATAGACT-AGGGTCTTTAGCGGCGTT
51668032 TTT
1 TTT
51668035 CCCAAAAACG
Statistics
Matches: 268, Mismatches: 25, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
42 6 0.02
43 259 0.97
44 3 0.01
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (43 bp):
TTTAGTATAAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTT
Found at i:51667808 original size:86 final size:86
Alignment explanation
Indices: 51667718--51668034 Score: 532
Period size: 86 Copynumber: 3.7 Consensus size: 86
51667708 AGACTAATAC
* *
51667718 CTTTAGCGGCGTTTTTAGTATAAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTAAA
1 CTTTAGTGGCGTTTTTAGTATAAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAA
51667783 AGCGCCGCTATAGATCAGGGT
66 AGCGCCGCTATAGATCAGGGT
*
51667804 CTTTAGTGGCGTTTTTAGTATTAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAA
1 CTTTAGTGGCGTTTTTAGTATAAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAA
51667869 AGCGCCGCTATAGATCAGGGT
66 AGCGCCGCTATAGATCAGGGT
*
51667890 CTTTAGTGGCGTTTTTAGTATTAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAA
1 CTTTAGTGGCGTTTTTAGTATAAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAA
51667955 AGCGCCGCTATAGATCAGGGT
66 AGCGCCGCTATAGATCAGGGT
* *
51667976 CTTTAGTGGCGTTTTT-GCTCA-AAGCGCCGCTATAGA-TCAGGGTCTTTAGCGGCGCTTTT
1 CTTTAGTGGCGTTTTTAG-T-ATAAGCGCCGCTATAGACT-GGGGTCTTTAGCGGCGTTTTT
51668035 CCCAAAAACG
Statistics
Matches: 222, Mismatches: 6, Indels: 6
0.95 0.03 0.03
Matches are distributed among these distances:
85 2 0.01
86 219 0.99
87 1 0.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.34
Consensus pattern (86 bp):
CTTTAGTGGCGTTTTTAGTATAAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAA
AGCGCCGCTATAGATCAGGGT
Found at i:51668054 original size:43 final size:43
Alignment explanation
Indices: 51667964--51668089 Score: 128
Period size: 43 Copynumber: 2.9 Consensus size: 43
51667954 AAGCGCCGCT
* * * * * *
51667964 ATAGATCAGGGTCTTTAGTGGCGTTTTTGCTC-AAAGCGCCGCT
1 ATAGATCAGGGTCTTTAGCGGCGCTTTT-CCCAAAAACGCCACA
51668007 ATAGATCAGGGTCTTTAGCGGCGCTTTTCCCAAAAACGCCACA
1 ATAGATCAGGGTCTTTAGCGGCGCTTTTCCCAAAAACGCCACA
* ** * * *
51668050 ATAGACCCTGATCTATAGCGGCGCTTTTACCAAAAACGCC
1 ATAGATCAGGGTCTTTAGCGGCGCTTTTCCCAAAAACGCC
51668090 GCTAAAGACC
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
42 2 0.03
43 68 0.97
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.26
Consensus pattern (43 bp):
ATAGATCAGGGTCTTTAGCGGCGCTTTTCCCAAAAACGCCACA
Found at i:51668078 original size:129 final size:129
Alignment explanation
Indices: 51667683--51668078 Score: 347
Period size: 129 Copynumber: 3.1 Consensus size: 129
51667673 GAGCTTTAGT
* ****
51667683 GGCGC-TTTAG-TAGAAGCGCCGCTAAAGACTAATACCTTTAGCGGCGTTTTTAGT-ATAAGCGC
1 GGCGCTTTTAGTTA-AAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTTTTTAGTCA-AAGCGC
* * ** * * * * * * *
51667745 CGCTATAGA-CTGGGGTCTTTAGCGGCGTTTTTAGTAAAAGCGCCGCTATAGATCAGGGTCTTTA
64 CGCTATAGATC-AGGGTCTTTAGCGGCGCTTTTACCAAAAACGCCACAATAGACCCGGATCTATA
*
51667809 GT
128 GC
* * * *
51667811 GGCGTTTTTAG-TATTAGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAAAGCGCC
1 GGCGCTTTTAGTTA-AAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTTTTTAGTCAAAGCGCC
* * ** ** * * * ** * *
51667875 GCTATAGATCAGGGTCTTTAGTGGCGTTTTTAGTATTAGCGCCGCTATAGACTGGGGTCTTTAGC
65 GCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCAAAAACGCCACAATAGACCCGGATCTATAGC
* *
51667940 GGCGTTTTTAGTTAAAGCGCCGCTATAGA-TCAGGGTCTTTAGTGGCGTTTTT-GCTCAAAGCGC
1 GGCGCTTTTAGTTAAAGCGCCGCTATAGACT-AGGGTCTTTAGCGGCGTTTTTAG-TCAAAGCGC
* *
51668003 CGCTATAGATCAGGGTCTTTAGCGGCGCTTTTCCCAAAAACGCCACAATAGACCCTGATCTATAG
64 CGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCAAAAACGCCACAATAGACCCGGATCTATAG
51668068 C
129 C
51668069 GGCGCTTTTA
1 GGCGCTTTTA
51668079 CCAAAAACGC
Statistics
Matches: 225, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
128 6 0.03
129 215 0.96
130 4 0.02
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.31
Consensus pattern (129 bp):
GGCGCTTTTAGTTAAAGCGCCGCTATAGACTAGGGTCTTTAGCGGCGTTTTTAGTCAAAGCGCCG
CTATAGATCAGGGTCTTTAGCGGCGCTTTTACCAAAAACGCCACAATAGACCCGGATCTATAGC
Found at i:51668090 original size:129 final size:128
Alignment explanation
Indices: 51667718--51668121 Score: 310
Period size: 129 Copynumber: 3.1 Consensus size: 128
51667708 AGACTAATAC
* * * **
51667718 CTTTAGCGGCGTTTTTAGT-ATAAGCGCCGCTATAGA-CTGGGGTCTTTAGCGGCGTTTTTAGTA
1 CTTTAGTGGCGTTTTTAGTCA-AAGCGCCGCTATAGATC-AGGGTCTTTAGCGGCGCTTTTACCA
* * * * * * * * * ** ** * *
51667781 AAAGCGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTTTAGTATTAGCGCCGCTATAGACTGGGG
64 AAAACGCCACAATAGACCCGGATCTATAGCGGCGCTTTTACCAAAAACGCCGCTATAGAC-AGGG
51667846 T
128 T
* * * * ** **
51667847 CTTTAGCGGCGTTTTTAGTTAAAGCGCCGCTATAGATCAGGGTCTTTAGTGGCGTTTTTAGTATT
1 CTTTAGTGGCGTTTTTAGTCAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCAAA
* * * ** * * * *** *
51667912 AGCGCCGCTATAGACTGGGGTCTTTAGCGGCGTTTTTAGTTAAAGCGCCGCTATAGATCAGGGT
66 AACGCCACAATAGACCCGGATCTATAGCGGCGCTTTTACCAAAAACGCCGCTATAGA-CAGGGT
*
51667976 CTTTAGTGGCGTTTTT-GCTCAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTCCCAA
1 CTTTAGTGGCGTTTTTAG-TCAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCAA
* * ****
51668040 AAACGCCACAATAGACCCTGATCTATAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCAACAC
65 AAACGCCACAATAGACCCGGATCTATAGCGGCGCTTTTACCAAAAACGCCGCTATAGA-CAGGGT
51668105 CTTTAGTGGCGTTTTTA
1 CTTTAGTGGCGTTTTTA
51668122 AAAAATGCCA
Statistics
Matches: 230, Mismatches: 40, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
128 1 0.00
129 226 0.98
130 3 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (128 bp):
CTTTAGTGGCGTTTTTAGTCAAAGCGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCAAA
AACGCCACAATAGACCCGGATCTATAGCGGCGCTTTTACCAAAAACGCCGCTATAGACAGGGT
Found at i:51674158 original size:16 final size:16
Alignment explanation
Indices: 51674137--51674169 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
51674127 ACTAAGCTAC
51674137 GTAAGTTATGTATTAT
1 GTAAGTTATGTATTAT
*
51674153 GTAAGTTATTTATTAT
1 GTAAGTTATGTATTAT
51674169 G
1 G
51674170 GCAATTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (16 bp):
GTAAGTTATGTATTAT
Found at i:51674217 original size:9 final size:9
Alignment explanation
Indices: 51674205--51674590 Score: 118
Period size: 9 Copynumber: 44.8 Consensus size: 9
51674195 CAAATTATGC
51674205 TATGTAAGT
1 TATGTAAGT
*
51674214 TATGTATGT
1 TATGTAAGT
** *
51674223 CGTATAAGT
1 TATGTAAGT
51674232 TATGTAAG-
1 TATGTAAGT
51674240 T-TGTAAGT
1 TATGTAAGT
51674248 TATGTAAGT
1 TATGTAAGT
*
51674257 TAT-TTA-T
1 TATGTAAGT
* *
51674264 TATGAAAAT
1 TATGTAAGT
*
51674273 TAAGTAAGT
1 TATGTAAGT
51674282 TATGTAAG-
1 TATGTAAGT
51674290 T-TGTAAGT
1 TATGTAAGT
*
51674298 TATGTATA-A
1 TATGTA-AGT
*
51674307 CAT-TAA-T
1 TATGTAAGT
**
51674314 TAACTAAGT
1 TATGTAAGT
*
51674323 TATGTAATT
1 TATGTAAGT
*
51674332 TATGTATA-A
1 TATGTA-AGT
51674341 TACTGATTAA-T
1 TA-TG--TAAGT
**
51674352 TAACTAAGT
1 TATGTAAGT
*
51674361 TATGTAATT
1 TATGTAAGT
51674370 TATGT-A--
1 TATGTAAGT
*
51674376 TAT-TAACT
1 TATGTAAGT
*
51674384 AAT-TAAGT
1 TATGTAAGT
51674392 TATGT--GT
1 TATGTAAGT
51674399 GT-TGTAAG-
1 -TATGTAAGT
51674407 T-TGTAAGT
1 TATGTAAGT
51674415 TATGTAAGT
1 TATGTAAGT
51674424 TA--TAAGT
1 TATGTAAGT
51674431 TATGTAAGT
1 TATGTAAGT
51674440 TA--TAAGT
1 TATGTAAGT
51674447 TATGTAAG-
1 TATGTAAGT
51674455 T-TGTAAGT
1 TATGTAAGT
*
51674463 TATGTATA-A
1 TATGTA-AGT
51674472 TAT-TAA-T
1 TATGTAAGT
**
51674479 TAACTAAGT
1 TATGTAAGT
*
51674488 TATGTAATT
1 TATGTAAGT
*
51674497 TATGTATCACAT
1 TATGTA--A-GT
51674509 TAATGTAAGT
1 T-ATGTAAGT
**
51674519 TATGTAACA
1 TATGTAAGT
*
51674528 TATGTATA-A
1 TATGTA-AGT
51674537 TAT-TAA-T
1 TATGTAAGT
**
51674544 TAACTAAGT
1 TATGTAAGT
*
51674553 TATGTAATT
1 TATGTAAGT
*
51674562 TATGTATCATAT
1 TATGTA--A-GT
51674574 TAATGTAAGT
1 T-ATGTAAGT
51674584 TATGTAA
1 TATGTAA
51674591 CTTACGCATC
Statistics
Matches: 284, Mismatches: 50, Indels: 86
0.68 0.12 0.20
Matches are distributed among these distances:
5 1 0.00
6 4 0.01
7 56 0.20
8 38 0.13
9 152 0.54
10 10 0.04
11 7 0.02
12 6 0.02
13 10 0.04
ACGTcount: A:0.37, C:0.03, G:0.15, T:0.45
Consensus pattern (9 bp):
TATGTAAGT
Found at i:51674248 original size:16 final size:16
Alignment explanation
Indices: 51674207--51674303 Score: 88
Period size: 16 Copynumber: 5.8 Consensus size: 16
51674197 AATTATGCTA
*
51674207 TGTAAGTTATGTATGT
1 TGTAAGTTATGTAAGT
*
51674223 CGTATAAGTTATGTAAGT
1 --TGTAAGTTATGTAAGT
51674241 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
* * * *
51674257 TATTTA-TTATGAAAAT
1 T-GTAAGTTATGTAAGT
51674273 TAAGTAAGTTATGTAAGT
1 T--GTAAGTTATGTAAGT
51674291 TGTAAGTTATGTA
1 TGTAAGTTATGTA
51674304 TAACATTAAT
Statistics
Matches: 65, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
16 37 0.57
17 5 0.08
18 23 0.35
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.44
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:51674301 original size:34 final size:32
Alignment explanation
Indices: 51674207--51674301 Score: 93
Period size: 34 Copynumber: 2.8 Consensus size: 32
51674197 AATTATGCTA
* * *
51674207 TGTAAGTTATGTATGTCGTATAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT--TATAAGTTATGAAAAT
*
51674241 TGTAAGTTATGTAAGTTATTTA-TTATGAAAAT
1 TGTAAGTTATGTAAGTTA-TAAGTTATGAAAAT
*
51674273 TAAGTAAGTTATGTAAGTTGTAAGTTATG
1 T--GTAAGTTATGTAAGTTATAAGTTATG
51674302 TATAACATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
32 11 0.22
33 4 0.08
34 36 0.71
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.44
Consensus pattern (32 bp):
TGTAAGTTATGTAAGTTATAAGTTATGAAAAT
Found at i:51674335 original size:50 final size:50
Alignment explanation
Indices: 51674227--51674337 Score: 125
Period size: 50 Copynumber: 2.2 Consensus size: 50
51674217 GTATGTCGTA
** * **
51674227 TAAGTTATGTAAGTTGTAAGTTATGTAAGTTATTTATTATGAAAATTAAG
1 TAAGTTATGTAAGTTGTAAGTTATGTAAGACATTAATTAACAAAATTAAG
* * *
51674277 TAAGTTATGTAAGTTGTAAGTTATGTATA-ACATTAATTAACTAAGTTATG
1 TAAGTTATGTAAGTTGTAAGTTATGTA-AGACATTAATTAACAAAATTAAG
*
51674327 TAATTTATGTA
1 TAAGTTATGTA
51674338 TAATACTGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
50 50 0.98
51 1 0.02
ACGTcount: A:0.38, C:0.02, G:0.16, T:0.44
Consensus pattern (50 bp):
TAAGTTATGTAAGTTGTAAGTTATGTAAGACATTAATTAACAAAATTAAG
Found at i:51674408 original size:16 final size:16
Alignment explanation
Indices: 51674401--51674468 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
51674391 TTATGTGTGT
*
51674401 TGTAAGTTGTAAGTTA
1 TGTAAGTTATAAGTTA
51674417 TGTAAGTTATAAGTTA
1 TGTAAGTTATAAGTTA
51674433 TGTAAGTTATAAGTTA
1 TGTAAGTTATAAGTTA
*
51674449 TGTAAGTTGTAAGTTA
1 TGTAAGTTATAAGTTA
51674465 TGTA
1 TGTA
51674469 TAATATTAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.22, T:0.44
Consensus pattern (16 bp):
TGTAAGTTATAAGTTA
Found at i:51674411 original size:7 final size:7
Alignment explanation
Indices: 51674399--51674463 Score: 58
Period size: 7 Copynumber: 8.4 Consensus size: 7
51674389 AGTTATGTGT
51674399 GTTGTAA
1 GTTGTAA
51674406 GTTGTAA
1 GTTGTAA
51674413 GTTATGTAA
1 G-T-TGTAA
*
51674422 GTTATAA
1 GTTGTAA
51674429 GTTATGTAA
1 G-T-TGTAA
*
51674438 GTTATAA
1 GTTGTAA
51674445 GTTATGTAA
1 G-T-TGTAA
51674454 GTTGTAA
1 GTTGTAA
51674461 GTT
1 GTT
51674464 ATGTATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
7 26 0.54
8 6 0.12
9 16 0.33
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (7 bp):
GTTGTAA
Found at i:51674415 original size:23 final size:23
Alignment explanation
Indices: 51674387--51674467 Score: 83
Period size: 23 Copynumber: 3.4 Consensus size: 23
51674377 ATTAACTAAT
51674387 TAAGTTATGTGTGTTGTAAGTTG
1 TAAGTTATGTGTGTTGTAAGTTG
** *
51674410 TAAGTTATGTAAGTTATAAGTTATG
1 TAAGTTATGTGTGTTGTAAG-T-TG
**
51674435 TAAGTTATAAGT-TATGTAAGTTG
1 TAAGTTATGTGTGT-TGTAAGTTG
51674458 TAAGTTATGT
1 TAAGTTATGT
51674468 ATAATATTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
23 27 0.60
24 3 0.07
25 15 0.33
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (23 bp):
TAAGTTATGTGTGTTGTAAGTTG
Found at i:51674487 original size:48 final size:47
Alignment explanation
Indices: 51674363--51674490 Score: 120
Period size: 48 Copynumber: 2.7 Consensus size: 47
51674353 AACTAAGTTA
* * * **
51674363 TGTAATTTATGT--ATATTAACTAATTAAGTTATGTGTGTTGTAAGT
1 TGTAAGTTATGTAAATATTAATTAACTAAGTTATAAGTGTTGTAAGT
* **
51674408 TGTAAGTTATGTAAGT-TATAAGTTATGTAAGTTATAAGT-TATGTAAGT
1 TGTAAGTTATGTAAATAT-TAA-TTAACTAAGTTATAAGTGT-TGTAAGT
51674456 TGTAAGTTATGTATAATATTAATTAACTAAGTTAT
1 TGTAAGTTATGTA-AATATTAATTAACTAAGTTAT
51674491 GTAATTTATG
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
45 11 0.17
46 1 0.02
47 5 0.08
48 43 0.65
49 5 0.08
50 1 0.02
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (47 bp):
TGTAAGTTATGTAAATATTAATTAACTAAGTTATAAGTGTTGTAAGT
Found at i:51674519 original size:31 final size:31
Alignment explanation
Indices: 51674448--51674590 Score: 146
Period size: 34 Copynumber: 4.5 Consensus size: 31
51674438 GTTATAAGTT
* *
51674448 ATGTAAG-T-TGTAAGTTATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATCATATTA
* *
51674477 ATTAACTAAGTTATGTAATTTATGTATCACATTA
1 A-T--GTAAGTTATGTAATTTATGTATCATATTA
** *
51674511 ATGTAAGTTATGTAACATATGTATAATATTA
1 ATGTAAGTTATGTAATTTATGTATCATATTA
*
51674542 ATTAACTAAGTTATGTAATTTATGTATCATATTA
1 A-T--GTAAGTTATGTAATTTATGTATCATATTA
51674576 ATGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
51674591 CTTACGCATC
Statistics
Matches: 92, Mismatches: 14, Indels: 14
0.77 0.12 0.12
Matches are distributed among these distances:
29 1 0.01
30 1 0.01
31 37 0.40
32 5 0.05
33 3 0.03
34 45 0.49
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.44
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATCATATTA
Found at i:51674532 original size:65 final size:65
Alignment explanation
Indices: 51674463--51674591 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 65
51674453 AGTTGTAAGT
51674463 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
1 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
*
51674528 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTATGTAAC
1 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAAC
51674592 TTACGCATCG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.44
Consensus pattern (65 bp):
TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
Found at i:51674548 original size:165 final size:167
Alignment explanation
Indices: 51674234--51674550 Score: 439
Period size: 165 Copynumber: 1.9 Consensus size: 167
51674224 GTATAAGTTA
*
51674234 TGTAAGTTGTAAGTTATGTAAGTTATTTATTATGAAAATTAAGTAAGTTATGTAAGTTGTAAGTT
1 TGTAAGTTGTAAGTTATGTAAGTTATTAATTATGAAAATTAAGTAAGTTATGTAAGTTGTAAGTT
* * **
51674299 ATGTATAACATTAATTAACTAAGTTATGTAATTTATGTATAATACTGATTAATTAACTAAGTTAT
66 ATGTATAACATTAATTAACTAAGTTATGTAATTTATGTATAACACTAATTAATTAACTAACATAT
*
51674364 GTAATTTATGTATATTAACTAATTAAGTTATGTGTGT
131 GTAATATATGTATATTAACTAATTAAGTTATGTGTGT
* *
51674401 TGTAAGTTGTAAGTTATGTAAGTTA-TAAGTTATGTAAGTT-A-TAAGTTATGTAAGTTGTAAGT
1 TGTAAGTTGTAAGTTATGTAAGTTATTAA-TTATGAAAATTAAGTAAGTTATGTAAGTTGTAAGT
* * * **
51674463 TATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCACATTAATGTAAGTTATGTAACA
65 TATGTATAACATTAATTAACTAAGTTATGTAATTTATGTATAACACTAAT-TAA-TTAACTAACA
51674528 TATGT-ATAATAT-TA-ATTAACTAA
128 TATGTAAT-ATATGTATATTAACTAA
51674551 GTTATGTAAT
Statistics
Matches: 133, Mismatches: 13, Indels: 10
0.85 0.08 0.06
Matches are distributed among these distances:
165 75 0.56
166 10 0.08
167 48 0.36
ACGTcount: A:0.38, C:0.03, G:0.15, T:0.44
Consensus pattern (167 bp):
TGTAAGTTGTAAGTTATGTAAGTTATTAATTATGAAAATTAAGTAAGTTATGTAAGTTGTAAGTT
ATGTATAACATTAATTAACTAAGTTATGTAATTTATGTATAACACTAATTAATTAACTAACATAT
GTAATATATGTATATTAACTAATTAAGTTATGTGTGT
Found at i:51678994 original size:41 final size:41
Alignment explanation
Indices: 51678948--51679228 Score: 321
Period size: 41 Copynumber: 6.8 Consensus size: 41
51678938 AAGGTCAATA
* * * **
51678948 CATTAGCGGCGCTTAGATACAAACGCTGCTGAAGACAAGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCCGAG
* * * * * *
51678989 AATTAGTGGCGCTCAGTTAGAAACGCCGCTAAAGATCCGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCCGAG
* *
51679030 CATTGGCGGCGCTT-GTATAAAAACGCCGCTAAAGACCCCAAG
1 CATTAGCGGCGCTTAG-ATAAAAACGCCGCTAAAGA-CCCGAG
* *
51679072 CATTAGCGGCGCATAGAAAAAAACGCCGCTAAAGACCCGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCCGAG
* * * * *
51679113 CATTAGCGGCGCATAGAAAAAAACGCCGCTAAATATCTGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCCGAG
* * *
51679154 CATTAGCGGCGCATAGACAAAAACGCCGCTAAAGACTCGAG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCCGAG
*
51679195 CATTAGCGGCGCTTAGACAAAAACGCCGCTAAAG
1 CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG
51679229 GTTTAAAAAA
Statistics
Matches: 206, Mismatches: 31, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 170 0.83
42 34 0.17
43 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.15
Consensus pattern (41 bp):
CATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGACCCGAG
Found at i:51679383 original size:40 final size:39
Alignment explanation
Indices: 51679287--51679384 Score: 90
Period size: 40 Copynumber: 2.5 Consensus size: 39
51679277 GCGCTTTATA
* * **
51679287 TAAAACGCCGCTAATTC-CTATTTTTAGCGGCGCTTCGG
1 TAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGG
* * * * *
51679325 GATAATCGTCACTGATGCTCTACCTTTAGCGGCGCTTTGG
1 TA-AATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGG
51679365 CTAAATCGCCGCTAATGCTC
1 -TAAATCGCCGCTAATGCTC
51679385 GATTTGTTGT
Statistics
Matches: 44, Mismatches: 13, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
38 1 0.02
39 10 0.23
40 32 0.73
41 1 0.02
ACGTcount: A:0.20, C:0.28, G:0.21, T:0.31
Consensus pattern (39 bp):
TAAATCGCCGCTAATGCTCTACCTTTAGCGGCGCTTCGG
Found at i:51681201 original size:68 final size:66
Alignment explanation
Indices: 51681129--51681280 Score: 144
Period size: 67 Copynumber: 2.2 Consensus size: 66
51681119 TGCTGAACAA
* * * *
51681129 TTCATAGAGGGTCCCAACTATCAATTTTTTGGAGATATGTCTCA-CATCTGTGGAGAGCCATTAA
1 TTCATAGAGGG-CCCAACTATCAA-TTTTTGGACATATGTCTCATC-TCCGTGAAGAGCCACTAA
51681193 ATGG
63 ATGG
* *** * * *
51681197 TTCATGGAAGGGCTTGAGTATCAATTTTTGGACATATGTCTCATCTCCGTGAATAGCCACTGAAT
1 TTCATAG-AGGGCCCAACTATCAATTTTTGGACATATGTCTCATCTCCGTGAAGAGCCACTAAAT
51681262 GG
65 GG
*
51681264 TTCATAGAATGGCCCAA
1 TTCATAG-AGGGCCCAA
51681281 AGGTGACACC
Statistics
Matches: 66, Mismatches: 16, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
67 47 0.71
68 15 0.23
69 4 0.06
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (66 bp):
TTCATAGAGGGCCCAACTATCAATTTTTGGACATATGTCTCATCTCCGTGAAGAGCCACTAAATG
G
Found at i:51681990 original size:92 final size:91
Alignment explanation
Indices: 51681885--51682081 Score: 213
Period size: 90 Copynumber: 2.2 Consensus size: 91
51681875 CTCAAACTTA
** * * * *
51681885 AAAAAAAACAATTAAACCCT-TGCTTTTATTTTGCATTCACTTGGATATA-TAAAAACTTTTAAA
1 AAAAAAAGTAATTAAACCCTCTGCTTTTATTTTGCACTCAATT--AAATACT-AAAACTTTCAAA
*
51681948 ATGCATCAAAAAGGCCCTC-AAATATTTTC
63 ATACATCAAAAAGGCCCTCAAAAT-TTTTC
* * * **
51681977 AAAAAAAGTAATT-AAGCCTCTGGTTTTATTTTTCACTCAATTAAATACTTGAACTTTCAAAATA
1 AAAAAAAGTAATTAAACCCTCTGCTTTTATTTTGCACTCAATTAAATACTAAAACTTTCAAAATA
*
51682041 CATCGAAAAGGCCCTCAAAATTTTTC
66 CATCAAAAAGGCCCTCAAAATTTTTC
51682067 AAAAAAAGTAATTAA
1 AAAAAAAGTAATTAA
51682082 GCCCCTGATT
Statistics
Matches: 88, Mismatches: 13, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
90 48 0.55
91 11 0.12
92 29 0.33
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (91 bp):
AAAAAAAGTAATTAAACCCTCTGCTTTTATTTTGCACTCAATTAAATACTAAAACTTTCAAAATA
CATCAAAAAGGCCCTCAAAATTTTTC
Found at i:51682182 original size:20 final size:21
Alignment explanation
Indices: 51682153--51682199 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
51682143 AAAAGACCAT
51682153 TTGACCGTT-AACTTTAACAG
1 TTGACCGTTAAACTTTAACAG
*
51682173 TTGACTGTTAAACTTTAACAG
1 TTGACCGTTAAACTTTAACAG
51682194 TTGACC
1 TTGACC
51682200 ATTCAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (21 bp):
TTGACCGTTAAACTTTAACAG
Found at i:51682368 original size:89 final size:89
Alignment explanation
Indices: 51682201--51682444 Score: 289
Period size: 89 Copynumber: 2.7 Consensus size: 89
51682191 CAGTTGACCA
* * *
51682201 TTCAAATACCCAATTGAGTGCAAAAA-AAAATTCGGGGGCTTAATT--TTTTTTAAAAAAGTTTG
1 TTCAAGTACCCAATTGAGTG-AAAAATAAAA-TCAGGGGCTTAATTGCTTTTTTGAAAAAGTTTG
*
51682263 AAGGCCTTTTTTATACAATTTGAAAG
64 AAGGCCTTTTTGATACAATTTGAAAG
* * * *
51682289 TTCAAGTACCCAATTGAGTGAAAAATAAAAGCTGGGGCTTAATTGCATTTTTGAAAAAGTTTGAG
1 TTCAAGTACCCAATTGAGTGAAAAATAAAATCAGGGGCTTAATTGCTTTTTTGAAAAAGTTTGAA
*
51682354 GGTCC-TTTTGATACATTTTGAAAG
66 GG-CCTTTTTGATACAATTTGAAAG
* * * * * *
51682378 TTCAAGTACCAAAGTGAGTGCAAAATAAAATCAAGGGCTTAATGGCTTTTTTTGAAAAATTTTGA
1 TTCAAGTACCCAATTGAGTGAAAAATAAAATCAGGGGCTTAATTGC-TTTTTTGAAAAAGTTTGA
51682443 AG
65 AG
51682445 ACTTTTTACA
Statistics
Matches: 133, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
87 17 0.13
88 23 0.17
89 74 0.56
90 19 0.14
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (89 bp):
TTCAAGTACCCAATTGAGTGAAAAATAAAATCAGGGGCTTAATTGCTTTTTTGAAAAAGTTTGAA
GGCCTTTTTGATACAATTTGAAAG
Found at i:51683944 original size:33 final size:33
Alignment explanation
Indices: 51683902--51683966 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
51683892 GAAAATAATA
51683902 AAATTTTAAAAAATATATTTT-TTAATTAAATTT
1 AAATTTT-AAAAATATATTTTATTAATTAAATTT
* *
51683935 AAATTTTAAAAATATCTTTTATTATTTAAATT
1 AAATTTTAAAAATATATTTTATTAATTAAATT
51683967 GAATTCAAGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 17 0.59
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (33 bp):
AAATTTTAAAAATATATTTTATTAATTAAATTT
Found at i:51686629 original size:26 final size:28
Alignment explanation
Indices: 51686595--51686647 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
51686585 AACAATCATT
51686595 GCATAGTCATGAATTAAGC-AATGAAAA
1 GCATAGTCATGAATTAAGCAAATGAAAA
*
51686622 GCAT-GTCATGGATTAAGCAAATGAAA
1 GCATAGTCATGAATTAAGCAAATGAAA
51686648 GAAAATTACC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 13 0.54
27 11 0.46
ACGTcount: A:0.45, C:0.11, G:0.21, T:0.23
Consensus pattern (28 bp):
GCATAGTCATGAATTAAGCAAATGAAAA
Found at i:51688415 original size:13 final size:13
Alignment explanation
Indices: 51688397--51688422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51688387 ATATTAATGT
51688397 TTTCAAAATTGTA
1 TTTCAAAATTGTA
51688410 TTTCAAAATTGTA
1 TTTCAAAATTGTA
51688423 ATGAGGGATA
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:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
TTTCAAAATTGTA
Found at i:51688605 original size:22 final size:22
Alignment explanation
Indices: 51688578--51688622 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
51688568 ATTTTGATTA
51688578 ATATATGTTTAT-ATTAATATTT
1 ATATATGTTTATAATTAA-ATTT
*
51688600 ATATATTTTTATAATTAAATTT
1 ATATATGTTTATAATTAAATTT
51688622 A
1 A
51688623 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (22 bp):
ATATATGTTTATAATTAAATTT
Found at i:51696873 original size:41 final size:41
Alignment explanation
Indices: 51696816--51697093 Score: 210
Period size: 41 Copynumber: 6.8 Consensus size: 41
51696806 GATTTTTAAA
*
51696816 CCTTTAGCGGCGTTTTTATCTGAGCGCCACTAATGTTCTGG
1 CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGTTCTGG
* * * *
51696857 CCTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTC-GTA
1 CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGTTCTG-G
* * * * * * * *
51696898 TCATTAGTGGCGTTATTGTCTGAGCGCCACTAAT-TCTTTGT
1 CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGT-TCTGG
* * * *
51696939 TCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGTTC-GTG
1 CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGTTCTG-G
** * * **
51696980 TTTTTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGG
1 CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGTTCTGG
* * *
51697021 CCTTTAGCGGCGTTTTATATGTAAGCGCCGCTAATG--CT-A
1 CCTTTAGCGGCGTTTT-TATCTGAGCGCCGCTAATGTTCTGG
* *
51697060 CATTTAGCGGCGTTTTT-TCCGAAGCGCCGCTAAT
1 CCTTTAGCGGCGTTTTTATCTG-AGCGCCGCTAAT
51697094 AGTAACAAAA
Statistics
Matches: 186, Mismatches: 43, Indels: 19
0.75 0.17 0.08
Matches are distributed among these distances:
37 1 0.01
38 13 0.07
39 15 0.08
40 4 0.02
41 135 0.73
42 18 0.10
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (41 bp):
CCTTTAGCGGCGTTTTTATCTGAGCGCCGCTAATGTTCTGG
Found at i:51696961 original size:82 final size:82
Alignment explanation
Indices: 51696819--51697058 Score: 320
Period size: 82 Copynumber: 2.9 Consensus size: 82
51696809 TTTTAAACCT
* *
51696819 TTAGCGGCGTTTTTATCTGAGCGCCACTAATGT-TCTGGCCTTTAGCGGCGTTTTTGTCTAAGCG
1 TTAGTGGCGTTTTTATCTGAGCGCCACTAAT-TCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCG
51696883 CCGCTAATGCTCGTATCA
65 CCGCTAATGCTCGTATCA
* * * ** *
51696901 TTAGTGGCGTTATTGTCTGAGCGCCACTAATTCTTTGTTCTTTAGCGGCGTTTTTTTCTAAGCGC
1 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGC
* * * **
51696966 CGCTAAAGTTCGTGTTT
66 CGCTAATGCTCGTATCA
* *
51696983 TTAGTGGCGTTTTTATCTGAGCGCCACTAATACTCTGGCCTTTAGCGGCGTTTTATATGTAAGCG
1 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTT-TATCTAAGCG
51697048 CCGCTAATGCT
65 CCGCTAATGCT
51697059 ACATTTAGCG
Statistics
Matches: 134, Mismatches: 22, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
81 1 0.01
82 116 0.87
83 17 0.13
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (82 bp):
TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTCTGGCCTTTAGCGGCGTTTTTATCTAAGCGC
CGCTAATGCTCGTATCA
Found at i:51697234 original size:2 final size:2
Alignment explanation
Indices: 51697227--51697254 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
51697217 ATAGAAGTCG
51697227 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
51697255 ACAGCTAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51699386 original size:8 final size:10
Alignment explanation
Indices: 51699364--51699400 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
51699354 TATTTTTACT
51699364 TATATATGGA
1 TATATATGGA
*
51699374 TATATATGAA
1 TATATATGGA
51699384 TATATATGGA
1 TATATATGGA
51699394 TATATAT
1 TATATAT
51699401 ATATATAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:51713009 original size:66 final size:66
Alignment explanation
Indices: 51712884--51713030 Score: 190
Period size: 66 Copynumber: 2.2 Consensus size: 66
51712874 GAGGCAACAT
*
51712884 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGAAGATGTAGCA
1 CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGAAGATGCAGCA
51712949 G
66 G
* * * * *
51712950 CGAGAGAAGCTGAGGTTCAACGAAAG-TATGAAGAACTCCAGC-AGCAGCTTAAAGTAGATGCGG
1 CGAGAGAAGCTGAGGTTCAA-AAAAGATATGAAGAACTCCAGCTA-CAACTGAAAGAAGATGCAG
51713013 CAG
64 CAG
* *
51713016 CAAGAGAAGCAGAGG
1 CGAGAGAAGCTGAGG
51713031 CGGCAGCTAG
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
65 1 0.01
66 66 0.93
67 4 0.06
ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14
Consensus pattern (66 bp):
CGAGAGAAGCTGAGGTTCAAAAAAGATATGAAGAACTCCAGCTACAACTGAAAGAAGATGCAGCA
G
Found at i:51713035 original size:21 final size:21
Alignment explanation
Indices: 51713012--51713113 Score: 123
Period size: 21 Copynumber: 4.9 Consensus size: 21
51713002 AGTAGATGCG
* * *
51713012 GCAGCAAGAGAAGCAGAGGCG
1 GCAGCGAGGGAAGCAGAGGCT
* * * *
51713033 GCAGCTAGAGAAGTACAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
51713054 GCAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
**
51713075 AAAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGGCT
51713096 GCAGCGAGGGAAGCAGAG
1 GCAGCGAGGGAAGCAGAG
51713114 CAGCGTCAAA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 69 1.00
ACGTcount: A:0.34, C:0.18, G:0.43, T:0.05
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGGCT
Found at i:51713487 original size:43 final size:43
Alignment explanation
Indices: 51713421--51713730 Score: 225
Period size: 43 Copynumber: 7.2 Consensus size: 43
51713411 ATCTGCCAAA
* * **
51713421 TTTAGTGGCGTTTTTGGTCAAAGCGCCGCTAAAGATAAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* * * *
51713464 TTTAGCAGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* ** * *
51713507 TTTAGCGACGTTTGTGG-GGAAGCGCCGCTAAAGATTAGGTTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* * ** *
51713549 TTTAGTGGCGTTTGAGGGGAAAGCGCCGCTAAAGA-ATAGGTTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATA-AGGGTC
* * * * * *
51713592 TTTAGTGGCGTTTGTGGTAGAAGCGCCACTATAGATCAGGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
* **** *
51713635 TATT-GCGGCGTTTGAGAGAAAAA-CGCCGCTAAAGACCCTGATC
1 T-TTAGCGGCGTTTGTG-GAAAAAGCGCCGCTAAAGATAAGGGTC
* * ** * *
51713678 TTTAGCGGCGCTTCTCCTAAAAA-TGCCGCTAAAGATCAGGGTC
1 TTTAGCGGCGTTTGT-GGAAAAAGCGCCGCTAAAGATAAGGGTC
51713721 TTTAGCGGCG
1 TTTAGCGGCG
51713731 CTTCCACTAA
Statistics
Matches: 211, Mismatches: 49, Indels: 14
0.77 0.18 0.05
Matches are distributed among these distances:
42 35 0.17
43 170 0.81
44 6 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCGCCGCTAAAGATAAGGGTC
Found at i:51713680 original size:86 final size:85
Alignment explanation
Indices: 51713421--51713730 Score: 275
Period size: 86 Copynumber: 3.6 Consensus size: 85
51713411 ATCTGCCAAA
* * * *
51713421 TTTAGTGGCGTTTTTGGTCA-AAGCGCCGCTAAAGATAAGGGTCTTTAGCAGCGTTTGTGGAAAA
1 TTTAGCGGCGTTTGTGGT-AGAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
* * *
51713485 AGCGCCACTAAAGATCATGGTC
65 A-CGCCGCTAAAGAACATGATC
* * * * * *
51713507 TTTAGCGACGTTTGTGG-GGAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGAGGGGAAA
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGA-GGAAAA
* * * *
51713571 GCGCCGCTAAAGAATAGGTTC
65 ACGCCGCTAAAGAACATGATC
* * * *
51713592 TTTAGTGGCGTTTGTGGTAGAAGCGCCACTATAGATCAGGGTCTATT-GCGGCGTTTGAGAGAAA
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGAG-GAAA
* *
51713656 AACGCCGCTAAAGACCCTGATC
64 AACGCCGCTAAAGAACATGATC
* * ** * ** *
51713678 TTTAGCGGCGCTTCTCCTAAAAATGCCGCTAAAGATCAGGGTCTTTAGCGGCG
1 TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCG
51713731 CTTCCACTAA
Statistics
Matches: 177, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
85 66 0.37
86 109 0.62
87 2 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.27
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGTAGAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAAA
CGCCGCTAAAGAACATGATC
Found at i:51713731 original size:43 final size:43
Alignment explanation
Indices: 51713653--51713753 Score: 125
Period size: 43 Copynumber: 2.4 Consensus size: 43
51713643 CGTTTGAGAG
**
51713653 AAAAACGCCGCTAAAGACCCTGATCTTTAGCGGCGCTTCTCCT
1 AAAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTCTCCT
* * *
51713696 AAAAATGCCGCTAAAGATCAGGGTCTTTAGCGGCGCTTC-CACT
1 AAAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTCTC-CT
*
51713739 -AAAGCGCCGCTAAAG
1 AAAAACGCCGCTAAAG
51713754 GTCTTAGCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 14 0.28
43 36 0.72
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCAGGATCTTTAGCGGCGCTTCTCCT
Found at i:51713891 original size:15 final size:15
Alignment explanation
Indices: 51713871--51713908 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
51713861 GGCGTCTGTT
51713871 GCGGCGCTTTTCAAA
1 GCGGCGCTTTTCAAA
51713886 GCGGCGCTTTTCAAA
1 GCGGCGCTTTTCAAA
*
51713901 GCGCCGCT
1 GCGGCGCT
51713909 AAAAGCCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.16, C:0.32, G:0.29, T:0.24
Consensus pattern (15 bp):
GCGGCGCTTTTCAAA
Found at i:51713953 original size:22 final size:22
Alignment explanation
Indices: 51713925--51713967 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
51713915 CTGCGGCGCT
* *
51713925 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
51713947 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
51713968 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:51715439 original size:33 final size:32
Alignment explanation
Indices: 51715396--51715507 Score: 145
Period size: 27 Copynumber: 3.8 Consensus size: 32
51715386 ATTTAATGCC
51715396 TTACTGGTGTGTTTGGGAGGATTATGATATAT
1 TTACTGGTGTGTTTGGGAGGATTATGATATAT
51715428 TATACTGGTGTGTTTGGGAGGA-TAT-AT-TAT
1 T-TACTGGTGTGTTTGGGAGGATTATGATATAT
51715458 TT--TGGTGTGTTTGGGAGGATTATGATATA-
1 TTACTGGTGTGTTTGGGAGGATTATGATATAT
51715487 -T--TGGTGTGTTT-GGAGGATTAT
1 TTACTGGTGTGTTTGGGAGGATTAT
51715508 ATTATTCTAG
Statistics
Matches: 76, Mismatches: 0, Indels: 13
0.85 0.00 0.15
Matches are distributed among these distances:
27 27 0.36
28 14 0.18
29 3 0.04
30 6 0.08
31 2 0.03
32 4 0.05
33 20 0.26
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.45
Consensus pattern (32 bp):
TTACTGGTGTGTTTGGGAGGATTATGATATAT
Found at i:51715830 original size:21 final size:21
Alignment explanation
Indices: 51715804--51715844 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
51715794 GAAAATTCGT
*
51715804 ATAAGAATGAAA-AATTTGAAC
1 ATAAG-ATGAAATAATATGAAC
51715825 ATAAGATGAAATAATATGAA
1 ATAAGATGAAATAATATGAA
51715845 AAGTATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.59, C:0.02, G:0.15, T:0.24
Consensus pattern (21 bp):
ATAAGATGAAATAATATGAAC
Found at i:51720884 original size:28 final size:28
Alignment explanation
Indices: 51720825--51720889 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
51720815 AATCTTTTCC
* *
51720825 TTTACATTTGAACTAAAGCAATTTTTAAT
1 TTTA-ATTTCAACTAAAACAATTTTTAAT
*
51720854 TTTTATTTCAACTAAAACAATTTTTAAT
1 TTTAATTTCAACTAAAACAATTTTTAAT
51720882 TTTAATTT
1 TTTAATTT
51720890 TTAATAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
28 29 0.91
29 3 0.09
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (28 bp):
TTTAATTTCAACTAAAACAATTTTTAAT
Found at i:51721641 original size:18 final size:20
Alignment explanation
Indices: 51721620--51721667 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 20
51721610 AAAAGATGTT
51721620 TTTACATATATT-AA-TAAA
1 TTTACATATATTAAATTAAA
* *
51721638 TTT--ATATTTTAAATTATA
1 TTTACATATATTAAATTAAA
51721656 TTTACATATATT
1 TTTACATATATT
51721668 GCAATGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
16 6 0.26
17 2 0.09
18 9 0.39
20 6 0.26
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
TTTACATATATTAAATTAAA
Found at i:51723051 original size:30 final size:32
Alignment explanation
Indices: 51722991--51723053 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
51722981 AAAACCAATT
*
51722991 AAATCTCCATCTAACATATCCATAAGAAAAAA
1 AAATCTCCATCTAACATATCCATAACAAAAAA
* *
51723023 AAATCTCCATCT-A-ATATCTATACCAAAAAA
1 AAATCTCCATCTAACATATCCATAACAAAAAA
51723053 A
1 A
51723054 TATAAAATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 15 0.54
31 1 0.04
32 12 0.43
ACGTcount: A:0.52, C:0.22, G:0.02, T:0.24
Consensus pattern (32 bp):
AAATCTCCATCTAACATATCCATAACAAAAAA
Found at i:51726103 original size:21 final size:22
Alignment explanation
Indices: 51726077--51726123 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
51726067 CTCTGCTCAA
*
51726077 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
51726098 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
51726120 ACTC
1 ACTC
51726124 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:51732859 original size:8 final size:8
Alignment explanation
Indices: 51732824--51732870 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
51732814 GGTATGTTCA
51732824 TTTCTTCT
1 TTTCTTCT
51732832 TCTTCTTCT
1 T-TTCTTCT
*
51732841 TTTCTCCCT
1 TTTCT-TCT
*
51732850 TTTTTTCT
1 TTTCTTCT
51732858 TTTCTTCT
1 TTTCTTCT
51732866 TTTCT
1 TTTCT
51732871 GCTGCCCTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 19 0.58
9 14 0.42
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTCTTCT
Found at i:51734654 original size:6 final size:6
Alignment explanation
Indices: 51734645--51734756 Score: 107
Period size: 6 Copynumber: 18.7 Consensus size: 6
51734635 TGAAAATTTT
* * * * * * *
51734645 AGATAC AGATGC AGTTAT AGATAT AAATAC ATATAC ATATAC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
* * * * *
51734693 AGATAC AGATAC AGGTGC AGATAC AGATGC AAATAT AGATAC AGATAC
1 AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC AGATAC
*
51734741 AGATAT AGATAC AGAT
1 AGATAC AGATAC AGAT
51734757 GTAGATATAG
Statistics
Matches: 85, Mismatches: 21, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 85 1.00
ACGTcount: A:0.47, C:0.12, G:0.17, T:0.23
Consensus pattern (6 bp):
AGATAC
Found at i:51734667 original size:18 final size:18
Alignment explanation
Indices: 51734620--51734768 Score: 94
Period size: 18 Copynumber: 8.6 Consensus size: 18
51734610 AGAAGAAGAA
* *
51734620 AGATATAGATACAAATGA
1 AGATATAGATACAGATGC
* *
51734638 AAATTTTAGATACAGATGC
1 AGA-TATAGATACAGATGC
* * * *
51734657 AGTTATAGATATAAATAC
1 AGATATAGATACAGATGC
* * * *
51734675 ATATACATATACAGATAC
1 AGATATAGATACAGATGC
* *
51734693 AGATACAGATACAGGTGC
1 AGATATAGATACAGATGC
51734711 ------AGATACAGATGC
1 AGATATAGATACAGATGC
* *
51734723 AAATATAGATACAGATAC
1 AGATATAGATACAGATGC
*
51734741 AGATATAGATACAGATGT
1 AGATATAGATACAGATGC
51734759 AGATATAGAT
1 AGATATAGAT
51734769 CCTACCATCA
Statistics
Matches: 99, Mismatches: 25, Indels: 14
0.72 0.18 0.10
Matches are distributed among these distances:
12 11 0.11
18 75 0.76
19 13 0.13
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.26
Consensus pattern (18 bp):
AGATATAGATACAGATGC
Found at i:51734762 original size:6 final size:6
Alignment explanation
Indices: 51734725--51734768 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
51734715 ACAGATGCAA
* * * *
51734725 ATATAG ATACAG ATACAG ATATAG ATACAG ATGTAG ATATAG AT
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG AT
51734769 CCTACCATCA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (6 bp):
ATATAG
Found at i:51738662 original size:43 final size:44
Alignment explanation
Indices: 51738596--51738712 Score: 132
Period size: 44 Copynumber: 2.7 Consensus size: 44
51738586 AGCTGATACA
* * * *
51738596 ATGCCAACGTCCCAGAC-GTGGTCTTACATGT-AATTACATATCG
1 ATGCGAACGTCCCAGACAG-GGTCTTACACGTAAATCACAAATCG
* *
51738639 ATGC-CACTGTCCCAGATAGGGTCTTACACGTAAATCACAAATCG
1 ATGCGAAC-GTCCCAGACAGGGTCTTACACGTAAATCACAAATCG
*
51738683 ATGCGAACGTCCCAGACATGGTCTTACACG
1 ATGCGAACGTCCCAGACAGGGTCTTACACG
51738713 ATAACACACA
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 2 0.03
43 23 0.37
44 35 0.56
45 2 0.03
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (44 bp):
ATGCGAACGTCCCAGACAGGGTCTTACACGTAAATCACAAATCG
Found at i:51739660 original size:15 final size:14
Alignment explanation
Indices: 51739623--51739666 Score: 54
Period size: 15 Copynumber: 3.1 Consensus size: 14
51739613 TTTTATTATA
51739623 ATAACTTTATAATAT
1 ATAACTTTATAAT-T
*
51739638 ATAA-TTTATTATT
1 ATAACTTTATAATT
51739651 ATAACCTTTATAATT
1 ATAA-CTTTATAATT
51739666 A
1 A
51739667 ATATAAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAACTTTATAATT
Found at i:51741878 original size:14 final size:13
Alignment explanation
Indices: 51741847--51741887 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
51741837 TGAATTTTTT
*
51741847 TATTTATAAAATA
1 TATTTATAAAAAA
51741860 TATTTATAAATAAA
1 TATTTATAAA-AAA
*
51741874 TATTTAAAAAAAA
1 TATTTATAAAAAA
51741887 T
1 T
51741888 CAAATGTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:51742682 original size:20 final size:20
Alignment explanation
Indices: 51742657--51742718 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
51742647 CGAAAAATGA
51742657 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51742677 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
*
51742697 GTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
51742716 TTT
1 TTT
51742719 TTGATGTTTG
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
19 14 0.35
20 26 0.65
ACGTcount: A:0.27, C:0.10, G:0.16, T:0.47
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:51744090 original size:32 final size:32
Alignment explanation
Indices: 51744041--51744133 Score: 150
Period size: 32 Copynumber: 2.9 Consensus size: 32
51744031 TGTCAATCAT
51744041 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
51744073 TTCAATATCGAATAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
51744105 TTCAACATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
51744134 CAATATCTAA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.27
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:51744152 original size:16 final size:16
Alignment explanation
Indices: 51744133--51744189 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
51744123 TAAAACATAA
51744133 TCAATATCTAACAAAT
1 TCAATATCTAACAAAT
* * *
51744149 TCAAGA-CATAATAATT
1 TCAATATC-TAACAAAT
*
51744165 TCAAAATCTAACAAATT
1 TCAATATCTAACAAA-T
51744182 TCAATATC
1 TCAATATC
51744190 ATTATCAAAC
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.03
16 21 0.68
17 9 0.29
ACGTcount: A:0.49, C:0.18, G:0.02, T:0.32
Consensus pattern (16 bp):
TCAATATCTAACAAAT
Found at i:51744957 original size:14 final size:14
Alignment explanation
Indices: 51744938--51744966 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51744928 CAATACATTT
51744938 TGTATCGTCCCCCC
1 TGTATCGTCCCCCC
51744952 TGTATCGTCCCCCC
1 TGTATCGTCCCCCC
51744966 T
1 T
51744967 TTACGGTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.48, G:0.14, T:0.31
Consensus pattern (14 bp):
TGTATCGTCCCCCC
Found at i:51749992 original size:22 final size:21
Alignment explanation
Indices: 51749964--51750021 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
51749954 ACTTACCAAG
*
51749964 CAAGTCTCAAGACATCATGAC
1 CAAGTCTCAAGACATAATGAC
51749985 TCAAGTCTTC-AGACATAATGAC
1 -CAAGTC-TCAAGACATAATGAC
51750007 CTAAGTCTCAAGACA
1 C-AAGTCTCAAGACA
51750022 ACAAAACATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 3 0.09
22 27 0.84
23 2 0.06
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (21 bp):
CAAGTCTCAAGACATAATGAC
Found at i:51753398 original size:11 final size:11
Alignment explanation
Indices: 51753382--51753406 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
51753372 TTAAGTATGT
51753382 ATGTACGGTTC
1 ATGTACGGTTC
51753393 ATGTACGGTTC
1 ATGTACGGTTC
51753404 ATG
1 ATG
51753407 GGTGAAGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.36
Consensus pattern (11 bp):
ATGTACGGTTC
Found at i:51765401 original size:20 final size:21
Alignment explanation
Indices: 51765363--51765401 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
51765353 AATATTTTTA
* *
51765363 AAAACAATTATAATTAGATGG
1 AAAACAATTAAAATCAGATGG
51765384 AAAA-AATTAAAATCAGAT
1 AAAACAATTAAAATCAGAT
51765402 AAAATAAACG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (21 bp):
AAAACAATTAAAATCAGATGG
Found at i:51765544 original size:22 final size:21
Alignment explanation
Indices: 51765513--51765565 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
51765503 GACGTTGATG
* *
51765513 TTTATTAAAATTTAATATATA
1 TTTATAAAAATTTAAAATATA
51765534 TTTTATAAAAAATTTAAAATATA
1 -TTTAT-AAAAATTTAAAATATA
*
51765557 TATATAAAA
1 TTTATAAAA
51765566 TTAACTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.15
22 9 0.33
23 14 0.52
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTATAAAAATTTAAAATATA
Found at i:51765549 original size:23 final size:22
Alignment explanation
Indices: 51765519--51765565 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
51765509 GATGTTTATT
* *
51765519 AAAATTTAATATATATTTTATAA
1 AAAATTTAAAATATA-TATATAA
51765542 AAAATTTAAAATATATATATAA
1 AAAATTTAAAATATATATATAA
51765564 AA
1 AA
51765566 TTAACTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTTAAAATATATATATAA
Found at i:51765654 original size:16 final size:16
Alignment explanation
Indices: 51765623--51765655 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
51765613 AAATTTAATG
51765623 ATTTAATTAAATATTT
1 ATTTAATTAAATATTT
51765639 ATTTATATTAAA-ATTT
1 ATTTA-ATTAAATATTT
51765655 A
1 A
51765656 AGCACGTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTAATTAAATATTT
Found at i:51768433 original size:23 final size:24
Alignment explanation
Indices: 51768407--51768461 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
51768397 GTGTTTATAA
*
51768407 TTTTAT-TAGGATTTTA-TTTAATT
1 TTTTATATAGG-TTTTAGCTTAATT
*
51768430 TTTT-TATATGTTTTAGCTTAATT
1 TTTTATATAGGTTTTAGCTTAATT
51768453 TTTTATATA
1 TTTTATATA
51768462 TGAACATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 6 0.22
23 17 0.63
24 4 0.15
ACGTcount: A:0.25, C:0.02, G:0.07, T:0.65
Consensus pattern (24 bp):
TTTTATATAGGTTTTAGCTTAATT
Found at i:51777684 original size:21 final size:21
Alignment explanation
Indices: 51777654--51777695 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
51777644 GCATGCCCAT
51777654 ATTATTTTATAT-TTTTTAAA
1 ATTATTTTATATATTTTTAAA
51777674 ATTATATTTATATGATTTTTAA
1 ATTAT-TTTATAT-ATTTTTAA
51777696 TTTAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
23 7 0.37
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
ATTATTTTATATATTTTTAAA
Found at i:51777716 original size:23 final size:22
Alignment explanation
Indices: 51777656--51777722 Score: 57
Period size: 23 Copynumber: 3.0 Consensus size: 22
51777646 ATGCCCATAT
* *
51777656 TATTTTATATTTTTTAAAATTA
1 TATTTAATATTTTTTAAATTTA
51777678 TATTT-ATATGATTTTT-AATTTAA
1 TATTTAATAT--TTTTTAAATTT-A
*
51777701 TATTTAATAATTTTTTGAATTT
1 TATTTAAT-ATTTTTTAAATTT
51777723 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
21 4 0.11
22 9 0.24
23 16 0.42
24 7 0.18
25 2 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (22 bp):
TATTTAATATTTTTTAAATTTA
Found at i:51780370 original size:9 final size:9
Alignment explanation
Indices: 51780347--51780378 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
51780337 AGAATAGTAT
51780347 TAATAATGA
1 TAATAATGA
51780356 -AA-AATGA
1 TAATAATGA
51780363 TAATAATGA
1 TAATAATGA
51780372 TAATAAT
1 TAATAAT
51780379 AATGAAGGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 5 0.24
8 4 0.19
9 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (9 bp):
TAATAATGA
Found at i:51781744 original size:17 final size:17
Alignment explanation
Indices: 51781724--51781756 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51781714 TATTTGGACT
*
51781724 TTTTATTTATTTTTTGG
1 TTTTATTTATTATTTGG
51781741 TTTTATTTATTATTTG
1 TTTTATTTATTATTTG
51781757 TATTTGGTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTTATTTATTATTTGG
Found at i:51782840 original size:20 final size:20
Alignment explanation
Indices: 51782790--51782840 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
51782780 TAAATAAATT
*
51782790 TATAATTTATAATTTATAAC
1 TATAATTTTTAATTTATAAC
* * * *
51782810 TAAAATATTTAATTTTTTAC
1 TATAATTTTTAATTTATAAC
51782830 TATAATTTTTA
1 TATAATTTTTA
51782841 TTCTTAATTA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
TATAATTTTTAATTTATAAC
Found at i:51783265 original size:16 final size:16
Alignment explanation
Indices: 51783244--51783296 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
51783234 AAATTATACA
51783244 AAAAATAATTAATTAC
1 AAAAATAATTAATTAC
*
51783260 AAAAATAA-T-A-T-G
1 AAAAATAATTAATTAC
51783272 AAAAATAAATTAATTAC
1 AAAAAT-AATTAATTAC
*
51783289 AACAATAA
1 AAAAATAA
51783297 ACATTTGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
12 6 0.21
13 3 0.10
14 2 0.07
15 2 0.07
16 11 0.38
17 5 0.17
ACGTcount: A:0.66, C:0.06, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAATAATTAATTAC
Found at i:51783405 original size:24 final size:24
Alignment explanation
Indices: 51783378--51783425 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
51783368 AATATTCAAA
51783378 GACTTGATATATAAATTTTTCATT
1 GACTTGATATATAAATTTTTCATT
*
51783402 GACTTGATATGTAAATTTTTCATT
1 GACTTGATATATAAATTTTTCATT
51783426 TTGATTAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.08, G:0.10, T:0.50
Consensus pattern (24 bp):
GACTTGATATATAAATTTTTCATT
Found at i:51788312 original size:26 final size:28
Alignment explanation
Indices: 51788277--51788329 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
51788267 GGTAATTTTC
51788277 TTTCATTTGCTTAATCCATGAC-ATGCT
1 TTTCATTTGCTTAATCCATGACTATGCT
*
51788304 TTTCA-TTGCTTAATTCATGACTATGC
1 TTTCATTTGCTTAATCCATGACTATGC
51788330 AATGATTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.23, C:0.21, G:0.11, T:0.45
Consensus pattern (28 bp):
TTTCATTTGCTTAATCCATGACTATGCT
Found at i:51790573 original size:14 final size:14
Alignment explanation
Indices: 51790554--51790582 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
51790544 CCGTTCCGAG
51790554 TATGTCTGTAAGCA
1 TATGTCTGTAAGCA
51790568 TATGTCTGTAAGCA
1 TATGTCTGTAAGCA
51790582 T
1 T
51790583 GTTTGTAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.38
Consensus pattern (14 bp):
TATGTCTGTAAGCA
Found at i:51792822 original size:10 final size:10
Alignment explanation
Indices: 51792807--51792834 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
51792797 TCTTTGGCTC
51792807 ATATATAAAT
1 ATATATAAAT
51792817 ATATATAAAT
1 ATATATAAAT
51792827 ATATATAA
1 ATATATAA
51792835 TAAATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATATAAAT
Done.