Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 206 of 292
Found at i:61123265 original size:15 final size:15
Alignment explanation
Indices: 61123212--61123502 Score: 139
Period size: 15 Copynumber: 18.9 Consensus size: 15
61123202 ATAATGTGAC
* *
61123212 AATAATAATAACAAT
1 AATAATAATAATAAA
*
61123227 AGTAATAAATAAATAAATA
1 AATAAT-AAT-AAT-AA-A
*
61123246 AATAATGATAATAAA
1 AATAATAATAATAAA
*
61123261 AATAATAGTAA-AGAA
1 AATAATAATAATA-AA
*
61123276 AAT-A-AAT-ATAGA
1 AATAATAATAATAAA
* * *
61123288 ATTAATAATGATACTA
1 AATAATAATAATA-AA
** *
61123304 ACGAAT-ATAAGTAAT
1 AATAATAATAA-TAAA
* *
61123319 AATAGTAAAAATAAA
1 AATAATAATAATAAA
*
61123334 AATAATAATAATAAT
1 AATAATAATAATAAA
*
61123349 AATAATAATAATAAT
1 AATAATAATAATAAA
*
61123364 AATAATAATAATAAT
1 AATAATAATAATAAA
*
61123379 AATAATAATAATAAT
1 AATAATAATAATAAA
*
61123394 AATAATAATAATAAT
1 AATAATAATAATAAA
** *
61123409 AATGCTAAATTAATTAA
1 AATAAT-AA-TAATAAA
61123426 AATAA-AATAATAAGCA
1 AATAATAATAATAA--A
61123442 AATAAACTCAA-AATAAA
1 AAT-AA-T-AATAATAAA
* *
61123459 ATATAATCATAACAAA
1 A-ATAATAATAATAAA
* * *
61123475 AATAGTCATAATAAT
1 AATAATAATAATAAA
61123490 AATAGA-AATAATA
1 AATA-ATAATAATA
61123503 GTAATAACAC
Statistics
Matches: 215, Mismatches: 38, Indels: 46
0.72 0.13 0.15
Matches are distributed among these distances:
12 4 0.02
13 4 0.02
14 10 0.05
15 132 0.61
16 28 0.13
17 19 0.09
18 6 0.03
19 10 0.05
20 2 0.01
ACGTcount: A:0.64, C:0.03, G:0.04, T:0.28
Consensus pattern (15 bp):
AATAATAATAATAAA
Found at i:61123458 original size:27 final size:28
Alignment explanation
Indices: 61123397--61123465 Score: 81
Period size: 27 Copynumber: 2.5 Consensus size: 28
61123387 TAATAATAAT
* *
61123397 AATAATAATAATAATGCTAAATTAATTAA
1 AATAA-AATAATAATGCTAAATAAATCAA
61123426 AATAAAATAATAA-GC-AAATAAACTCAA
1 AATAAAATAATAATGCTAAATAAA-TCAA
61123453 AATAAAAT-ATAAT
1 AATAAAATAATAAT
61123466 CATAACAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
26 10 0.28
27 13 0.36
28 8 0.22
29 5 0.14
ACGTcount: A:0.64, C:0.06, G:0.03, T:0.28
Consensus pattern (28 bp):
AATAAAATAATAATGCTAAATAAATCAA
Found at i:61125284 original size:182 final size:182
Alignment explanation
Indices: 61124936--61125362 Score: 635
Period size: 182 Copynumber: 2.3 Consensus size: 182
61124926 CGCTCCATCT
*
61124936 ACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATA
1 ACTACAACTTCAGGGAAATAAGTTTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATA
*
61125001 AAACTAGTAACTTCAACCAGCTCTGCTGCAACTTCAGGGAGATAAGGTTTGTTTTAATCTGCTCT
66 AAACTAGTAACTTCAACCAGCTCCGCTGCAACTTCAGGGAGATAAGGTTTGTTTTAATCTGCTCT
* *
61125066 ACTACAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCC
131 ACTACAACTTCAGAGAGATAAGATCTGTTGATTTATAGCTTCAATCTGTTCC
* * * * *
61125118 ACTACAACTTCAAGGAAATAAGTTTCGCTATCTTTAGTCTGCTCCACTCCAACTTCAGAGAGATA
1 ACTACAACTTCAGGGAAATAAGTTTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATA
* * * *
61125183 ATACT-TTAACTTCAACCTGCTCCGCTGCAACTTCAGGGAGATAAGGTTGTGTTTTGATCTTGCT
66 AAACTAGTAACTTCAACCAGCTCCGCTGCAACTTCAGGGAGATAAGGTT-TGTTTTAATC-TGCT
* * *
61125247 CTACTGCAACTTCAGGGAGATAAGATCTG-TGATTTATAGGTTCAATCTGTTCC
129 CTACTACAACTTCAGAGAGATAAGATCTGTTGATTTATAGCTTCAATCTGTTCC
* * *
61125300 ACTGCAACTTCAGGGAAATAAGATTT-GCTATCTTCAATCTACTCCACTGCAACTTCAGGGAGA
1 ACTACAACTTCAGGGAAATAAG-TTTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGA
61125363 CAAGATCTAC
Statistics
Matches: 219, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
181 40 0.18
182 146 0.67
183 33 0.15
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (182 bp):
ACTACAACTTCAGGGAAATAAGTTTCGCTATCTTCAGTCTACTCCACTACAACTTCAGGGAGATA
AAACTAGTAACTTCAACCAGCTCCGCTGCAACTTCAGGGAGATAAGGTTTGTTTTAATCTGCTCT
ACTACAACTTCAGAGAGATAAGATCTGTTGATTTATAGCTTCAATCTGTTCC
Found at i:61125346 original size:45 final size:45
Alignment explanation
Indices: 61124940--61126153 Score: 426
Period size: 45 Copynumber: 27.3 Consensus size: 45
61124930 CCATCTACTA
* * * * *
61124940 CAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * * * **
61124985 CAACTTCAGGGAGATAAAACTAG-TAACTTCAACCAGCTCTGCTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * *
61125029 CAACTTCAGGGAGATAAGGTTTG-T-T-TT-AATCTGCTCTACTA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * ** * *
61125070 CAACTTTAGAGAGATAAGATCTGTTTATTTATAGCTTCAATCTGTTCCACTA
1 CAACTTCAGGGAGATAAGA----TTT-GCTAT--CTTCAATCTGCTCCACTG
* * * * *
61125122 CAACTTCAAGGAAATAAG-TTTCGCTATCTTTAGTCTGCTCCACTC
1 CAACTTCAGGGAGATAAGATTT-GCTATCTTCAATCTGCTCCACTG
* * * * * *
61125167 CAACTTCAGAGAGATAATACTT--TAACTTCAACCTGCTCCGCTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * *
61125210 CAACTTCAGGGAGATAAGGTTGTG-T-T-TT-GATCTTGCTCTACTG
1 CAACTTCAGGGAGATAAGATT-TGCTATCTTCAATC-TGCTCCACTG
* * *
61125253 CAACTTCAGGGAGATAAGATCTGTGATTTATAGGTTCAATCTGTTCCACTG
1 CAACTTCAGGGAGATAAGAT-T-TG--CTAT--CTTCAATCTGCTCCACTG
* *
61125304 CAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * ** * *
61125349 CAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
** * * * ** * *
61125394 C-TGTTTAGGGAGATAGGA--TGGTGGCTTAAATCTGCTTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * *
61125436 TAACTTCAGGAAG-TCAAGATTCGCCATCTTCGATCTGCTCCACTG
1 CAACTTCAGGGAGAT-AAGATTTGCTATCTTCAATCTGCTCCACTG
* * * ** * *
61125481 CAACTTCAGGGAGACAAGATCT-ATAATCTTCAGCCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCT-ATCTTCAATCTGCTCCACTG
** * * ** * *
61125526 CTGCTT-AGGGAGAT-AGAATAG-TGGCTTAAATCTGCTTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * *
61125568 CAACTTCAGGAAG-TCAAGATTCGCCATCTTCGATCTGCTCCACTG
1 CAACTTCAGGGAGAT-AAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * ** * *
61125613 CAACTTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
** * * ** * *
61125658 CTGCTT-AGGGAGATAGGA-TAG-TGGCTTAAATCTGCTTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* ** ** *
61125700 CAACTTCAGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* ** * * * * * * *
61125745 CAAATTCAAAGAGACAAGATCTACAATCTTCAACCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
** * * ** * *
61125790 CTGCTT-AGGGAGATAGGA--TGGTGGCTTAAATCTGCTTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* ** ** * *
61125832 CAACTTCAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * * * **
61125877 CAACTTCAGGGAGACAAGATCTACAATCTTCAACCTACTCCACAA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
** * * ** * *
61125922 CTGCTT-AGGGAGATAGGA--TGGTGGCTTAAAT-TCGCTTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCT-GCTCCACTG
* * * * * * *
61125964 CAACTTCAAGAAGACAAGATTCGCCATCTTCGATCTTCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
** * * * * ** * *
61126009 CAACTTCAGGGAGGCAAGATCTACAATCTTTAGCCTACTCCACTA
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
** * * * * *
61126054 CTGCTT-AGGGAGATAGGA--TGGTAGCTTAAATCTGCTTCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
* * * * * *
61126096 CAACTTCAGGAAGACAAGATTCGCCATCTTCGATCTTCTCCACTG
1 CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
*
61126141 TAACTTCAGGGAG
1 CAACTTCAGGGAG
61126154 GCAAGATCTA
Statistics
Matches: 813, Mismatches: 306, Indels: 100
0.67 0.25 0.08
Matches are distributed among these distances:
41 27 0.03
42 102 0.13
43 117 0.14
44 100 0.12
45 388 0.48
46 3 0.00
47 11 0.01
48 2 0.00
49 2 0.00
50 1 0.00
51 31 0.04
52 29 0.04
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (45 bp):
CAACTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTG
Found at i:61125455 original size:132 final size:132
Alignment explanation
Indices: 61125290--61126249 Score: 1507
Period size: 132 Copynumber: 7.3 Consensus size: 132
61125280 TTATAGGTTC
* * * * *
61125290 AATCTG-TTCCACTGCAACTTCAGGGAAAT-AAGATTTGCTATCTTCAATCTACTCCACTGCAAC
1 AATCTGCTT-CACTGCAACTTCA-GGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAAC
*
61125353 TTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGTTTAGGGAGATAGGATGGTGG
64 TTCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGG
61125418 CTTA
129 CTTA
*
61125422 AATCTGCTTCACTGTAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTT
* * *
61125487 CAGGGAGACAAGATCTATAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGAATAGTGGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
61125552 TA
131 TA
61125554 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTT
*
61125619 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
61125684 TA
131 TA
* * *
61125686 AATCTGCTTCACTGCAACTTCAGGAAGAT-AAGATTCACCGTCTTCGATCTGCTCCACTGCAAAT
1 AATCTGCTTCACTGCAACTTCAGGAAG-TCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACT
** *
61125750 TCAAAGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC
65 TCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC
61125815 TTA
130 TTA
* * *
61125818 AATCTGCTTCACTGCAACTTCAGGAAGAT-AAGATTCACCGTCTTCGATCTACTCCACTGCAACT
1 AATCTGCTTCACTGCAACTTCAGGAAG-TCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACT
* *
61125882 TCAGGGAGACAAGATCTACAATCTTCAACCTACTCCACAACTGCTTAGGGAGATAGGATGGTGGC
65 TCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC
61125947 TTA
130 TTA
* * *
61125950 AAT-TCGCTTCACTGCAACTTCAAGAAGACAAGATTCGCCATCTTCGATCTTCTCCACTGCAACT
1 AATCT-GCTTCACTGCAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACT
* * *
61126014 TCAGGGAGGCAAGATCTACAATCTTTAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTAGC
65 TCAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGC
61126079 TTA
130 TTA
* * *
61126082 AATCTGCTTCACTGCAACTTCAGGAAGACAAGATTCGCCATCTTCGATCTTCTCCACTGTAACTT
1 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTT
* *
61126147 CAGGGAGGCAAGATCTACAATCCTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
66 CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
61126212 TA
131 TA
* * * *
61126214 AATCTGCTTCACTACAACTTTAGAAAGACAAGATTC
1 AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTC
61126250 ACATAATTCG
Statistics
Matches: 779, Mismatches: 43, Indels: 12
0.93 0.05 0.01
Matches are distributed among these distances:
131 6 0.01
132 769 0.99
133 4 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (132 bp):
AATCTGCTTCACTGCAACTTCAGGAAGTCAAGATTCGCCATCTTCGATCTGCTCCACTGCAACTT
CAGGGAGACAAGATCTACAATCTTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATGGTGGCT
TA
Found at i:61126867 original size:15 final size:15
Alignment explanation
Indices: 61126843--61126895 Score: 88
Period size: 15 Copynumber: 3.5 Consensus size: 15
61126833 ATCGTAGCAT
61126843 GAACTTCTCTGCACA
1 GAACTTCTCTGCACA
*
61126858 GAATTTCTCTGCACA
1 GAACTTCTCTGCACA
*
61126873 GAACTTCTCTACACA
1 GAACTTCTCTGCACA
61126888 GAACTTCT
1 GAACTTCT
61126896 TGAGGACCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.30
Consensus pattern (15 bp):
GAACTTCTCTGCACA
Found at i:61138461 original size:24 final size:25
Alignment explanation
Indices: 61138434--61138485 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
61138424 GCCTAGCCTC
*
61138434 TTTTAAT-AACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
**
61138458 TTTTGGTAAACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
61138483 TTT
1 TTT
61138486 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:61138546 original size:21 final size:21
Alignment explanation
Indices: 61138520--61138560 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
61138510 CCCAACCCAT
*
61138520 GCATATAATGAGTATATCATA
1 GCATATAATGAGCATATCATA
* *
61138541 GCATATCATGTGCATATCAT
1 GCATATAATGAGCATATCAT
61138561 GTCATATCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
GCATATAATGAGCATATCATA
Found at i:61138566 original size:21 final size:21
Alignment explanation
Indices: 61138533--61138572 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
61138523 TATAATGAGT
61138533 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
61138554 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
61138573 ATAACAATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:61138572 original size:10 final size:10
Alignment explanation
Indices: 61138533--61138572 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
61138523 TATAATGAGT
61138533 ATATCATAG-C
1 ATATCAT-GTC
61138543 ATATCATGTGC
1 ATATCATGT-C
61138554 ATATCATGTC
1 ATATCATGTC
61138564 ATATCATGT
1 ATATCATGT
61138573 ATAACAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.04
10 17 0.61
11 10 0.36
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (10 bp):
ATATCATGTC
Found at i:61146263 original size:24 final size:25
Alignment explanation
Indices: 61146236--61146287 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
61146226 GCCTAGCCTC
* *
61146236 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAACCCT
**
61146260 TTTTGGTAAACTGGGGCAAAACCCT
1 TTTTAATAAACTGGGGCAAAACCCT
61146285 TTT
1 TTT
61146288 CGCATTTCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAACCCT
Found at i:61146362 original size:21 final size:21
Alignment explanation
Indices: 61146335--61146395 Score: 88
Period size: 21 Copynumber: 2.9 Consensus size: 21
61146325 TATAATGAGT
61146335 ATATCATAGCATATCATGTGC
1 ATATCATAGCATATCATGTGC
* *
61146356 ATCTCATAACATATCATGTGC
1 ATATCATAGCATATCATGTGC
61146377 ATATCAT-GTCATATCATGT
1 ATATCATAG-CATATCATGT
61146396 ATAACAATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
ATATCATAGCATATCATGTGC
Found at i:61146394 original size:10 final size:10
Alignment explanation
Indices: 61146335--61146395 Score: 61
Period size: 10 Copynumber: 5.9 Consensus size: 10
61146325 TATAATGAGT
61146335 ATATCATAG-C
1 ATATCAT-GTC
61146345 ATATCATGTGC
1 ATATCATGT-C
* **
61146356 ATCTCATAAC
1 ATATCATGTC
61146366 ATATCATGTGC
1 ATATCATGT-C
61146377 ATATCATGTC
1 ATATCATGTC
61146387 ATATCATGT
1 ATATCATGT
61146396 ATAACAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
9 1 0.02
10 24 0.57
11 17 0.40
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (10 bp):
ATATCATGTC
Found at i:61146688 original size:33 final size:32
Alignment explanation
Indices: 61146662--61146763 Score: 141
Period size: 32 Copynumber: 3.2 Consensus size: 32
61146652 CTAAGCCCAC
61146662 TTAACCCAAATTTTACAACAGTACTAACCGTG
1 TTAACCCAAATTTTACAACAGTACTAACCGTG
* *
61146694 TTAAACCCAAATTTTACAATAGTACCAACCGTG
1 TT-AACCCAAATTTTACAACAGTACTAACCGTG
*** *
61146727 TTAACATGAATTTTACAACAGTACTAACCGTA
1 TTAACCCAAATTTTACAACAGTACTAACCGTG
61146759 TTAAC
1 TTAAC
61146764 ATGCAACTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
32 31 0.51
33 30 0.49
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.29
Consensus pattern (32 bp):
TTAACCCAAATTTTACAACAGTACTAACCGTG
Found at i:61151751 original size:24 final size:24
Alignment explanation
Indices: 61151700--61151751 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
61151690 AAAATAAAAT
* * *
61151700 ATAATCATAATAAAAATAATTGTC
1 ATAATAATAATAAAAATAATAGTA
*
61151724 ATAATAATAATAGAAATAATAGTA
1 ATAATAATAATAAAAATAATAGTA
61151748 ATAA
1 ATAA
61151752 CACAATAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
ATAATAATAATAAAAATAATAGTA
Found at i:61151763 original size:3 final size:3
Alignment explanation
Indices: 61151514--61151751 Score: 59
Period size: 3 Copynumber: 78.7 Consensus size: 3
61151504 ATAATGTGAC
* * *
61151514 AAT AAT AAT AAC AAT AGT AAT AAAT AAAT AAAT AAAT AAT GAT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT -AAT AAT AAT AAT AAT
* * * * * *
61151562 AAT AAT AGT AA- AGAA AAT AA- AGAT AGA- ATT AAT AAT GAT ACT AACG
1 AAT AAT AAT AAT A-AT AAT AAT A-AT A-AT AAT AAT AAT AAT AAT AA-T
* * * **
61151608 AAT -AT AAGT AAT GAT AGT AAA AAT AAT AAT AAT AAT AAT AAT GCT
1 AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
61151653 AA- ATT AATT AAT AAT AA- AAT AAT AAGC AGAT AA- ACT CAA- AAT AA-
1 AAT AAT AA-T AAT AAT AAT AAT AAT AA-T A-AT AAT AAT -AAT AAT AAT
* * ** *
61151697 AAT -AT AAT CAT AAT AAA AAT AAT TGT CAT AAT AAT AAT AGA- AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
*
61151741 AAT AGT AAT AA
1 AAT AAT AAT AA
61151752 CACAATAATA
Statistics
Matches: 169, Mismatches: 44, Indels: 44
0.66 0.17 0.17
Matches are distributed among these distances:
2 17 0.10
3 120 0.71
4 31 0.18
5 1 0.01
ACGTcount: A:0.61, C:0.04, G:0.07, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:61157722 original size:14 final size:14
Alignment explanation
Indices: 61157703--61157729 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61157693 AGTGATAAGT
61157703 GACAAGCGACAAGC
1 GACAAGCGACAAGC
61157717 GACAAGCGACAAG
1 GACAAGCGACAAG
61157730 TGATAAGTGG
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:0.44, C:0.26, G:0.30, T:0.00
Consensus pattern (14 bp):
GACAAGCGACAAGC
Found at i:61157793 original size:51 final size:51
Alignment explanation
Indices: 61157717--61157830 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
61157707 AGCGACAAGC
* * *
61157717 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
*
61157768 GACAAGTGATAAGTGATAAGTGGTAGTTTTAACTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
61157819 GACAAGTGATAA
1 GACAAGTGATAA
61157831 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAACTACACTTATCTGATCAGT
Found at i:61160654 original size:20 final size:20
Alignment explanation
Indices: 61160629--61160669 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
61160619 TGAGATTATT
61160629 CATAACGTCATTTAAATGGA
1 CATAACGTCATTTAAATGGA
61160649 CATAACGTCATTTAAATGGA
1 CATAACGTCATTTAAATGGA
61160669 C
1 C
61160670 CCTCGAGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (20 bp):
CATAACGTCATTTAAATGGA
Found at i:61169096 original size:17 final size:17
Alignment explanation
Indices: 61169074--61169106 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61169064 TTTTTATCAT
*
61169074 TTATCATTTATCGGGCA
1 TTATCATTAATCGGGCA
61169091 TTATCATTAATCGGGC
1 TTATCATTAATCGGGC
61169107 TTTGTCAGAT
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:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (17 bp):
TTATCATTAATCGGGCA
Found at i:61173111 original size:21 final size:21
Alignment explanation
Indices: 61173068--61173118 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
61173058 TTACCTGCAT
61173068 TTAAACACATTAAATTGAACTTA
1 TTAAACACATTAAA-T-AACTTA
61173091 TTAAACACATTTAAA-AACTTA
1 TTAAACACA-TTAAATAACTTA
*
61173112 TTGAACA
1 TTAAACA
61173119 TGCACTCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 12 0.46
23 9 0.35
24 5 0.19
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (21 bp):
TTAAACACATTAAATAACTTA
Found at i:61179513 original size:227 final size:227
Alignment explanation
Indices: 61179118--61179570 Score: 888
Period size: 227 Copynumber: 2.0 Consensus size: 227
61179108 CCTTCCACTA
61179118 CTAGTTGCAGCTCTTTGAACTGAAGATGAAGCATTGCTCACAGCTTCTTCGGATTTAAATCTAGC
1 CTAGTTGCAGCTCTTTGAACTGAAGATGAAGCATTGCTCACAGCTTCTTCGGATTTAAATCTAGC
61179183 TTGGTTGGATGACATTACTATATGAAAAACACATTTAAAATGGTCAGGAGATATCACACTATCAT
66 TTGGTTGGATGACATTACTATATGAAAAACACATTTAAAATGGTCAGGAGATATCACACTATCAT
61179248 GAATTATATAATGGCATGTACAGCTAAACTCGTACTTGCTACGTTCAATCCGAAAATCGACTAAA
131 GAATTATATAATGGCATGTACAGCTAAACTCGTACTTGCTACGTTCAATCCGAAAATCGACTAAA
* *
61179313 TCGTAGCTCTGATACCAGTGAATGTAACACCT
196 CCGTAGCTCTGATACCAGTAAATGTAACACCT
61179345 CTAGTTGCAGCTCTTTGAACTGAAGATGAAGCATTGCTCACAGCTTCTTCGGATTTAAATCTAGC
1 CTAGTTGCAGCTCTTTGAACTGAAGATGAAGCATTGCTCACAGCTTCTTCGGATTTAAATCTAGC
61179410 TTGGTTGGATGACATTACTATATGAAAAACACATTTAAAATGGTCAGGAGATATCACACTATCAT
66 TTGGTTGGATGACATTACTATATGAAAAACACATTTAAAATGGTCAGGAGATATCACACTATCAT
61179475 GAATTATATAATGGCATGTACAGCTAAACTCGTACTTGCTACGTTCAATCCGAAAATCGACTAAA
131 GAATTATATAATGGCATGTACAGCTAAACTCGTACTTGCTACGTTCAATCCGAAAATCGACTAAA
61179540 CCGTAGCTCTGATACCAGTAAATGTAACACC
196 CCGTAGCTCTGATACCAGTAAATGTAACACC
61179571 CCTAATTCGT
Statistics
Matches: 224, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
227 224 1.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (227 bp):
CTAGTTGCAGCTCTTTGAACTGAAGATGAAGCATTGCTCACAGCTTCTTCGGATTTAAATCTAGC
TTGGTTGGATGACATTACTATATGAAAAACACATTTAAAATGGTCAGGAGATATCACACTATCAT
GAATTATATAATGGCATGTACAGCTAAACTCGTACTTGCTACGTTCAATCCGAAAATCGACTAAA
CCGTAGCTCTGATACCAGTAAATGTAACACCT
Found at i:61183348 original size:2 final size:2
Alignment explanation
Indices: 61183341--61183367 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61183331 TTAATCTAAA
61183341 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 A
61183368 ATTGCAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:61193509 original size:40 final size:40
Alignment explanation
Indices: 61193465--61193544 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
61193455 TCCTACAATC
* *
61193465 TTTGAAAATAAATTATTATAAACTTAATAACTATACCGTA
1 TTTGAAAATAAATCATTATAAACTCAATAACTATACCGTA
*
61193505 TTTGAAAATAAATCATTATGAACTCAATAACTATACCGTA
1 TTTGAAAATAAATCATTATAAACTCAATAACTATACCGTA
61193545 GAATAAGTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.35
Consensus pattern (40 bp):
TTTGAAAATAAATCATTATAAACTCAATAACTATACCGTA
Found at i:61194804 original size:26 final size:26
Alignment explanation
Indices: 61194775--61194884 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
61194765 TGATACAAAT
61194775 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61194801 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61194827 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61194853 TGATAATGGTTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61194879 TGATAA
1 TGATAA
61194885 GAAATTCATG
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 78 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61202302 original size:29 final size:29
Alignment explanation
Indices: 61202255--61202311 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
61202245 TATAATTTTT
*
61202255 AAAAAATTAAATTAAAATTTTATTTTTAA
1 AAAAAATTAAAGTAAAATTTTATTTTTAA
*
61202284 AAAAAATTAAAGTATAATTTTATTTTTA
1 AAAAAATTAAAGTAAAATTTTATTTTTA
61202312 TTAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (29 bp):
AAAAAATTAAAGTAAAATTTTATTTTTAA
Found at i:61202303 original size:24 final size:26
Alignment explanation
Indices: 61202211--61202304 Score: 70
Period size: 24 Copynumber: 3.7 Consensus size: 26
61202201 GGGAGAGTCG
* *
61202211 AAATTAAATTATAATTTTTAATAATAT
1 AAATTAAAATATAATTTTTAA-AAAAT
* **
61202238 ATATT--TTTATAATTTTTAAAAAATT
1 AAATTAAAATATAATTTTTAAAAAA-T
* *
61202263 AAATTAAAATTTTATTTTT-AAAAA-
1 AAATTAAAATATAATTTTTAAAAAAT
*
61202287 AAATTAAAGTATAATTTT
1 AAATTAAAATATAATTTT
61202305 ATTTTTATTA
Statistics
Matches: 53, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
24 18 0.34
25 18 0.34
26 5 0.09
27 12 0.23
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (26 bp):
AAATTAAAATATAATTTTTAAAAAAT
Found at i:61202736 original size:13 final size:13
Alignment explanation
Indices: 61202720--61202744 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61202710 TTATTTTTTT
61202720 AATAAATTTAATG
1 AATAAATTTAATG
61202733 AATAAATTTAAT
1 AATAAATTTAAT
61202745 ATTTCAATCT
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:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
AATAAATTTAATG
Found at i:61204625 original size:21 final size:21
Alignment explanation
Indices: 61204582--61204627 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
61204572 TTTATATTCA
*
61204582 AAAAATAAAAATTAAATTCTT
1 AAAAATAAAAATTAAATTATT
61204603 AAAAATAAAAATTTAAA-TATT
1 AAAAATAAAAA-TTAAATTATT
61204624 AAAA
1 AAAA
61204628 TTTAAATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAAAATTAAATTATT
Found at i:61204636 original size:14 final size:14
Alignment explanation
Indices: 61204587--61204633 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
61204577 ATTCAAAAAA
*
61204587 TAAAAATTAAATTCT
1 TAAAAATTAAAAT-T
*
61204602 TAAAAATAAAAATT
1 TAAAAATTAAAATT
*
61204616 TAAATATTAAAATT
1 TAAAAATTAAAATT
61204630 TAAA
1 TAAA
61204634 TATACGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
TAAAAATTAAAATT
Found at i:61213690 original size:40 final size:40
Alignment explanation
Indices: 61213634--61213714 Score: 126
Period size: 40 Copynumber: 2.0 Consensus size: 40
61213624 CCTAATTGGG
* * *
61213634 AAAATAATTCCCTTATTCTAATAAAATACTAGAAGATAAA
1 AAAATAATTCCATTATTCTAATAAAATACTAAAACATAAA
*
61213674 AAAATAATTCCATTATTCTAATAAACTACTAAAACATAAA
1 AAAATAATTCCATTATTCTAATAAAATACTAAAACATAAA
61213714 A
1 A
61213715 TAAAATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.54, C:0.14, G:0.02, T:0.30
Consensus pattern (40 bp):
AAAATAATTCCATTATTCTAATAAAATACTAAAACATAAA
Found at i:61213774 original size:19 final size:19
Alignment explanation
Indices: 61213750--61213790 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
61213740 TGATTTATTC
61213750 TAAGATTTACCTACCTAAA
1 TAAGATTTACCTACCTAAA
**
61213769 TAAGATTTATTTACCTAAA
1 TAAGATTTACCTACCTAAA
61213788 TAA
1 TAA
61213791 CTTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.05, T:0.37
Consensus pattern (19 bp):
TAAGATTTACCTACCTAAA
Found at i:61214763 original size:30 final size:30
Alignment explanation
Indices: 61214729--61214788 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
61214719 ATCATCAAAG
61214729 GTGAAAGCTTGGTTAGATATGTCACATAAC
1 GTGAAAGCTTGGTTAGATATGTCACATAAC
61214759 GTGAAAGCTTGGTTAGATATGTCACATAAC
1 GTGAAAGCTTGGTTAGATATGTCACATAAC
61214789 TTAACATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (30 bp):
GTGAAAGCTTGGTTAGATATGTCACATAAC
Found at i:61216019 original size:47 final size:47
Alignment explanation
Indices: 61215967--61216060 Score: 136
Period size: 47 Copynumber: 2.0 Consensus size: 47
61215957 AATCTAAAAA
*
61215967 AAAAATTATTTGCATGATAAGTTGCAAC-TAAGTTTGCGACTTGTTAC
1 AAAAATTAGTTGCATGATAAGTTGCAACGT-AGTTTGCGACTTGTTAC
* * *
61216014 AAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTAC
1 AAAAATTAGTTGCATGATAAGTTGCAACGTAGTTTGCGACTTGTTAC
61216061 GACAAAGCCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
47 41 0.98
48 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.36
Consensus pattern (47 bp):
AAAAATTAGTTGCATGATAAGTTGCAACGTAGTTTGCGACTTGTTAC
Found at i:61216133 original size:60 final size:61
Alignment explanation
Indices: 61216010--61216136 Score: 211
Period size: 60 Copynumber: 2.1 Consensus size: 61
61216000 TTGCGACTTG
* *
61216010 TTACAAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTGACTTGTTACGACAAAGCCA
1 TTACTAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTAACTTGTTACGACAAAGCCA
* *
61216071 TTACTAAAATTAGTTGCATGGTGAGTTGCAAC-TTGTTTGTAACTTGTTGCGACAAAGCCA
1 TTACTAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTAACTTGTTACGACAAAGCCA
61216131 TTACTA
1 TTACTA
61216137 TGAGCTGAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
60 31 0.50
61 31 0.50
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (61 bp):
TTACTAAAATTAGTTGCATGGTGAGTTGCAACGTAGTTTGTAACTTGTTACGACAAAGCCA
Found at i:61220264 original size:2 final size:2
Alignment explanation
Indices: 61220257--61220310 Score: 72
Period size: 2 Copynumber: 27.0 Consensus size: 2
61220247 GTTTATACAC
* * *
61220257 AT AT AT AT AC AT AT AT AT AT AT AT AT AC AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
61220299 AT AT AT AC AT AT
1 AT AT AT AT AT AT
61220311 GTAAGTAGGT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:61220267 original size:12 final size:12
Alignment explanation
Indices: 61220250--61220299 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
61220240 TTAATATGTT
61220250 TATACACATATA
1 TATACACATATA
61220262 TAT--ACATATA
1 TATACACATATA
* *
61220272 TATATATATATA
1 TATACACATATA
* *
61220284 CATACATATATA
1 TATACACATATA
61220296 TATA
1 TATA
61220300 TATATACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 10 0.31
12 22 0.69
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (12 bp):
TATACACATATA
Found at i:61220268 original size:10 final size:10
Alignment explanation
Indices: 61220250--61220310 Score: 72
Period size: 10 Copynumber: 6.1 Consensus size: 10
61220240 TTAATATGTT
*
61220250 TATACACATA
1 TATATACATA
61220260 TATATACATA
1 TATATACATA
61220270 TATAT--ATA
1 TATATACATA
61220278 TATATACATACA
1 TATATACAT--A
*
61220290 TATATATATA
1 TATATACATA
61220300 TATATACATA
1 TATATACATA
61220310 T
1 T
61220311 GTAAGTAGGT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
8 8 0.18
10 27 0.61
12 9 0.20
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (10 bp):
TATATACATA
Found at i:61220271 original size:18 final size:18
Alignment explanation
Indices: 61220250--61220310 Score: 81
Period size: 18 Copynumber: 3.5 Consensus size: 18
61220240 TTAATATGTT
*
61220250 TATACACATATATATACA
1 TATACATATATATATACA
*
61220268 TATATATATATATATAC-
1 TATACATATATATATACA
*
61220285 -ATACATATATATATATA
1 TATACATATATATATACA
61220302 TATACATAT
1 TATACATAT
61220311 GTAAGTAGGT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.38
18 23 0.62
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (18 bp):
TATACATATATATATACA
Found at i:61220298 original size:22 final size:22
Alignment explanation
Indices: 61220257--61220309 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
61220247 GTTTATACAC
*
61220257 ATATATATACATATATATATAT
1 ATATACATACATATATATATAT
61220279 ATATACATACATATATATATAT
1 ATATACATACATATATATATAT
61220301 ATATACATA
1 ATATACATA
61220310 TGTAAGTAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATACATACATATATATATAT
Found at i:61232196 original size:14 final size:15
Alignment explanation
Indices: 61232179--61232207 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
61232169 TTAGGGCATT
61232179 TATTTTTAAA-AAAA
1 TATTTTTAAATAAAA
61232193 TATTTTTAAATAAAA
1 TATTTTTAAATAAAA
61232208 ACTAATCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTTTAAATAAAA
Found at i:61234729 original size:25 final size:25
Alignment explanation
Indices: 61234696--61234743 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
61234686 TTAAATTAAC
61234696 TATTATATATTA-CTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
61234721 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
61234744 CCCATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:61238686 original size:19 final size:19
Alignment explanation
Indices: 61238666--61238706 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
61238656 TTGTTTTGCA
*
61238666 TTCATTCATTTGCATTACAT
1 TTCA-TCATGTGCATTACAT
*
61238686 TTCATCATGTGCATTAAAT
1 TTCATCATGTGCATTACAT
61238705 TT
1 TT
61238707 TGTGAAAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (19 bp):
TTCATCATGTGCATTACAT
Found at i:61246749 original size:46 final size:44
Alignment explanation
Indices: 61246695--61246783 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
61246685 AGCATCCTAG
* * *
61246695 TTATTTGACTCATTCATAACACGTTTAATTAAGAGCATTTGATTCA
1 TTATTTGACACATTCAT--CACATCTAATTAAGAGCATTTGATTCA
* *
61246741 TTATTTGACACATTCATCACATCTAGTTAGGAGCATTTGATTC
1 TTATTTGACACATTCATCACATCTAATTAAGAGCATTTGATTC
61246784 GACCATAGCA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
44 22 0.58
46 16 0.42
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (44 bp):
TTATTTGACACATTCATCACATCTAATTAAGAGCATTTGATTCA
Found at i:61247103 original size:133 final size:133
Alignment explanation
Indices: 61246864--61247208 Score: 600
Period size: 133 Copynumber: 2.6 Consensus size: 133
61246854 AATTAGTTCA
* * * * ** *
61246864 CAAGCTTTAATCCCCTAAGCAGTAGGGTAACAAGCTGAATTTTAAAGATCTTATCACCCTAAGCA
1 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-AAACTTACAGATCTTATCACCCTAAGCA
61246929 GTAGGGAAGCAGATAAAAAGACGGTGAATCTTGCCCTCCTGAAGTTGCAGTGAAGCTGATTCAAA
65 GTAGGGAAGCAGATAAAAAGACGGTGAATCTTGCCCTCCTGAAGTTGCAGTGAAGCTGATTCAAA
61246994 CCAC
130 CCAC
61246998 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAAACTTACAGATCTTATCACCCTAAGCAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAAACTTACAGATCTTATCACCCTAAGCAG
61247063 TAGGGAAGCAGATAAAAAGACGGTGAATCTTGCCCTCCTGAAGTTGCAGTGAAGCTGATTCAAAC
66 TAGGGAAGCAGATAAAAAGACGGTGAATCTTGCCCTCCTGAAGTTGCAGTGAAGCTGATTCAAAC
61247128 CAC
131 CAC
61247131 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAAACTTACAGATCTTATCACCCTAAGCAG
1 CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAAACTTACAGATCTTATCACCCTAAGCAG
* *
61247196 TAGGAAAACAGAT
66 TAGGGAAGCAGAT
61247209 CGAGGATAAT
Statistics
Matches: 202, Mismatches: 9, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
133 170 0.84
134 32 0.16
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (133 bp):
CAAGCCTTAACCCCCTAAGCAGTAGGGAAACAGGCTAAACTTACAGATCTTATCACCCTAAGCAG
TAGGGAAGCAGATAAAAAGACGGTGAATCTTGCCCTCCTGAAGTTGCAGTGAAGCTGATTCAAAC
CAC
Found at i:61247285 original size:43 final size:44
Alignment explanation
Indices: 61247135--61247310 Score: 137
Period size: 43 Copynumber: 4.0 Consensus size: 44
61247125 AACCACCAAG
* * * *
61247135 CCTTAACCCCCTAAGCAGTAGGGAAACAGGCT-AAACTTACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATCACAGA
* * * ** * **
61247178 TCTTATCACCCTAAGCAGTAGGAAAAC-AGATCGAGGAT-A-ATGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAAGCT-GAAAATCACA-GA
* *
61247221 GCTTTAACCCCCTAAGCAGTAGGGTAACAAGCT-AAATTCACAGA
1 -CCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATCACAGA
* * *
61247265 CCTTAACCCCCTAAGTAGTAGGGTAATAGGCTGAAAATCACAGA
1 CCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATCACAGA
61247309 CC
1 CC
61247311 GTACCTCCCT
Statistics
Matches: 101, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
42 3 0.03
43 56 0.55
44 38 0.38
45 4 0.04
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.19
Consensus pattern (44 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAAGCTGAAAATCACAGA
Found at i:61247506 original size:87 final size:82
Alignment explanation
Indices: 61247394--61247594 Score: 267
Period size: 87 Copynumber: 2.4 Consensus size: 82
61247384 TCAAACCACC
* *
61247394 AAGCTTTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTTACAGATCTTAACCCCCTAAGCAGT
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTGA-AGATCTTAACCCCCTAAGCAGT
61247459 AGTGGAACAGATCGAAGACG
65 A--GGAACAGATCGAAGACG
* ** * *
61247479 AAGAACCTTAAACCCCTAAGCAGTAGGGTAACAAGGTTAAATTGAAGATCTTATCTCCCTAAGCA
1 AAG--CCTTAACCCCCTAAGCAGTAGGGTAAC-AGACTAAATTGAAGATCTTAACCCCCTAAGCA
*
61247544 GTAGGAGCAGATCGAAGACG
63 GTAGGAACAGATCGAAGACG
*
61247564 AAGCTTTAACCCCCTAAGCAGTAGGGTAACA
1 AAGCCTTAACCCCCTAAGCAGTAGGGTAACA
61247595 AGCTGAAGTT
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
82 1 0.01
83 25 0.24
85 22 0.21
87 46 0.45
88 9 0.09
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (82 bp):
AAGCCTTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTGAAGATCTTAACCCCCTAAGCAGTA
GGAACAGATCGAAGACG
Found at i:61247526 original size:44 final size:42
Alignment explanation
Indices: 61247399--61247594 Score: 161
Period size: 43 Copynumber: 4.6 Consensus size: 42
61247389 CCACCAAGCT
* *
61247399 TTAACCCCCTAAGCAGTAGGGTAACAGACTAAATTTACAGATC
1 TTAACCCCCTAAGCAGTAGGGTAACAGATTAAATTGA-AGATC
* * *
61247442 TTAACCCCCTAAGCAGTAGTGG-AACAGATCGAAGA-CGAAGAACC
1 TTAACCCCCTAAGCAGTAG-GGTAACAGAT-TAA-ATTGAAG-ATC
* *
61247486 TTAAACCCCTAAGCAGTAGGGTAACAAGGTTAAATTGAAGATC
1 TTAACCCCCTAAGCAGTAGGGTAAC-AGATTAAATTGAAGATC
* * * * * *
61247529 TTATCTCCCTAAGCAGTA-GG-AGCAGATCGAAGA-CGAAGCT-
1 TTAACCCCCTAAGCAGTAGGGTAACAGAT-TAA-ATTGAAGATC
61247569 TTAACCCCCTAAGCAGTAGGGTAACA
1 TTAACCCCCTAAGCAGTAGGGTAACA
61247595 AGCTGAAGTT
Statistics
Matches: 121, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
40 19 0.16
41 11 0.09
42 6 0.05
43 47 0.39
44 34 0.28
45 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.20
Consensus pattern (42 bp):
TTAACCCCCTAAGCAGTAGGGTAACAGATTAAATTGAAGATC
Found at i:61247751 original size:21 final size:21
Alignment explanation
Indices: 61247687--61247751 Score: 51
Period size: 21 Copynumber: 3.1 Consensus size: 21
61247677 GAGCAGTTAA
* *
61247687 AAGCCACAGCAAATCTCCTTG
1 AAGCTACAGCAGATCTCCTTG
* * * ** *
61247708 AAGTTTCAGTAGAT-TAATCG
1 AAGCTACAGCAGATCTCCTTG
61247728 AAGCTACAGCAGATCTCCTTG
1 AAGCTACAGCAGATCTCCTTG
61247749 AAG
1 AAG
61247752 TTTCAGTCGC
Statistics
Matches: 29, Mismatches: 14, Indels: 2
0.64 0.31 0.04
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (21 bp):
AAGCTACAGCAGATCTCCTTG
Found at i:61249652 original size:25 final size:25
Alignment explanation
Indices: 61249619--61249666 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
61249609 TTAAATTAAC
61249619 TATTATATATTA-CTTATTTTAAAAT
1 TATTATATA-TACCTTATTTTAAAAT
*
61249644 TATTTTATATACCTTATTTTAAA
1 TATTATATATACCTTATTTTAAA
61249667 CCCATTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTATATATACCTTATTTTAAAAT
Found at i:61252276 original size:16 final size:17
Alignment explanation
Indices: 61252242--61252279 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
61252232 ATGTCAAAGT
61252242 ATTTATACTCTTTATAA
1 ATTTATACTCTTTATAA
61252259 ATTTA-ACT-TTTAATAA
1 ATTTATACTCTTT-ATAA
61252275 ATTTA
1 ATTTA
61252280 GTTTCCTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 3 0.15
16 12 0.60
17 5 0.25
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTTATACTCTTTATAA
Found at i:61265739 original size:23 final size:22
Alignment explanation
Indices: 61265703--61265745 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
61265693 TATCCCTAAA
61265703 AAATTTTTGAAATAATCTCTGG
1 AAATTTTTGAAATAATCTCTGG
61265725 AAATTTTCTGAAATAATCTCT
1 AAATTTT-TGAAATAATCTCT
61265746 TCAGATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATTTTTGAAATAATCTCTGG
Found at i:61265929 original size:20 final size:18
Alignment explanation
Indices: 61265879--61265930 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
61265869 CTACAAGATA
61265879 AATATTAAATTAA-ATTT
1 AATATTAAATTAATATTT
61265896 AATATT-AATATAATCACTTT
1 AATATTAAAT-TAAT-A-TTT
61265916 AATATTAAATTAATA
1 AATATTAAATTAATA
61265931 AAATACTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
16 3 0.10
17 9 0.30
19 2 0.07
20 13 0.43
21 3 0.10
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AATATTAAATTAATATTT
Found at i:61272189 original size:43 final size:43
Alignment explanation
Indices: 61272137--61272254 Score: 123
Period size: 43 Copynumber: 2.7 Consensus size: 43
61272127 ATATATTGAA
* *
61272137 GCCATTGTCCCAAACAGGGACTTACACG-AA-ATCAATTAACAAT
1 GCCAATGTCCCAGACAGGGACTTACACGTAATATCAA-T-ACAAT
* * * *
61272180 GCCAATGTCCTAGATAGGGTCTTACACGTAATCTCAATACAAT
1 GCCAATGTCCCAGACAGGGACTTACACGTAATATCAATACAAT
* * *
61272223 GCCAATGTCCCAGACATGGCCTTACATGTAAT
1 GCCAATGTCCCAGACAGGGACTTACACGTAAT
61272255 CACATCTCGA
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 55 0.89
44 3 0.05
45 4 0.06
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GCCAATGTCCCAGACAGGGACTTACACGTAATATCAATACAAT
Found at i:61281385 original size:44 final size:43
Alignment explanation
Indices: 61281304--61281436 Score: 126
Period size: 42 Copynumber: 3.1 Consensus size: 43
61281294 ACATAGGATT
* * *
61281304 TCGATATGTGATTTCGTGTAAGACCACGTCTGAGACATTGGCA
1 TCGATATGAGATTTCGTGTAAGACTATGTCTGAGACATTGGCA
* * * * *
61281347 TCGATTTGAGATTTACGTGTAAGACTATGTTTGGGACATCGACA
1 TCGATATGAGATTT-CGTGTAAGACTATGTCTGAGACATTGGCA
* * * *
61281391 TCG-TAT-ATGATTTCGTGTAAGACTCTGTGTGTGACAGTGGCA
1 TCGATATGA-GATTTCGTGTAAGACTATGTCTGAGACATTGGCA
61281433 TCGA
1 TCGA
61281437 CATTTGATTA
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
42 27 0.38
43 19 0.26
44 26 0.36
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGATATGAGATTTCGTGTAAGACTATGTCTGAGACATTGGCA
Found at i:61283606 original size:35 final size:35
Alignment explanation
Indices: 61283567--61283654 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
61283557 AAGTAAGTAT
* *
61283567 ATGTAAGCTTATATTGAACTTGTA-TATTCGGTTGC
1 ATGTAAGCTTATATTGAA-TTGTAGTATTCGATTAC
* * *
61283602 ATGTAAGGTTGTATTGAATTTTAGTATTCGATTAC
1 ATGTAAGCTTATATTGAATTGTAGTATTCGATTAC
61283637 ATGTGAA-CTTATATTGAA
1 ATGT-AAGCTTATATTGAA
61283655 AATGTATACT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
34 4 0.09
35 38 0.86
36 2 0.05
ACGTcount: A:0.30, C:0.08, G:0.19, T:0.43
Consensus pattern (35 bp):
ATGTAAGCTTATATTGAATTGTAGTATTCGATTAC
Found at i:61283676 original size:35 final size:35
Alignment explanation
Indices: 61283637--61283712 Score: 91
Period size: 35 Copynumber: 2.2 Consensus size: 35
61283627 ATTCGATTAC
*
61283637 ATGTGAACTTATATTGAAA-ATGTATACTCGGATAT
1 ATGTGAACTTATATT-AAATATGTATACTCGGACAT
* * * *
61283672 ATGTGAAGTTATCTTAAATATGTATATTCGGCCAT
1 ATGTGAACTTATATTAAATATGTATACTCGGACAT
61283707 ATGTGA
1 ATGTGA
61283713 TGTTCTTTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 32 0.91
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (35 bp):
ATGTGAACTTATATTAAATATGTATACTCGGACAT
Found at i:61288985 original size:31 final size:32
Alignment explanation
Indices: 61288933--61289008 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
61288923 CTCCAAAAGA
* * * * *
61288933 TTAAATACCAACTTAA-TAAAAAGTATCAAGT
1 TTAAGTACCAAATTAAGAAAAAAATATCAAAT
61288964 TTAAGTACCAAATTAAGAAAAAAATATCAAAT
1 TTAAGTACCAAATTAAGAAAAAAATATCAAAT
*
61288996 TCAAGTACCAAAT
1 TTAAGTACCAAAT
61289009 ATTATATTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 14 0.37
32 24 0.63
ACGTcount: A:0.54, C:0.13, G:0.07, T:0.26
Consensus pattern (32 bp):
TTAAGTACCAAATTAAGAAAAAAATATCAAAT
Found at i:61298762 original size:3 final size:3
Alignment explanation
Indices: 61298748--61298791 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
61298738 GGAGAGAGTG
*
61298748 TTA TTC TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
61298792 CTATATAGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:61298971 original size:3 final size:3
Alignment explanation
Indices: 61298965--61299077 Score: 52
Period size: 3 Copynumber: 35.7 Consensus size: 3
61298955 TTAGCACGTA
* * *
61298965 TAT TAT TAT TAT TAAT GTAT CAT TGT TAT TTT CTAT T-T TAT TAT TACT
1 TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT TA-T
* * *
61299013 T-T TAT TAC TAT TGT T-T CTAT TAT TAT TACT TCCAT TAT TAT TAT CAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TA-T T--AT TAT TAT TAT TAT
* *
61299060 TAT TTT CTAT TAT CAT TA
1 TAT TAT -TAT TAT TAT TA
61299078 ATAAGTCGTT
Statistics
Matches: 83, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
2 5 0.06
3 61 0.73
4 13 0.16
5 3 0.04
6 1 0.01
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:61299049 original size:15 final size:15
Alignment explanation
Indices: 61299002--61299055 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
61298992 ATTTTCTATT
*
61299002 TTATTATTACTTTTA
1 TTATTATTACTTCTA
* **
61299017 TTACTATTGTTTCTA
1 TTATTATTACTTCTA
*
61299032 TTATTATTACTTCCA
1 TTATTATTACTTCTA
61299047 TTATTATTA
1 TTATTATTA
61299056 TCATTATTTT
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.26, C:0.11, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATTACTTCTA
Found at i:61307138 original size:133 final size:133
Alignment explanation
Indices: 61306896--61307156 Score: 405
Period size: 133 Copynumber: 2.0 Consensus size: 133
61306886 AACATCGGTG
* * *
61306896 AAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTCCA
1 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGACCGTAAATCTTATCTCCA
* * * * * *
61306961 TGTAGTGGCAATGGAGTAGATTTAAGCCACCAGTCTTATTTCTCTAAAGTTGCTGTGGAGCAGAC
66 TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGAC
61307026 TAA
131 TAA
* **
61307029 AAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATTGAAGACCGTAAATCTTATCTCCA
1 AAATTGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGACCGTAAATCTTATCTCCA
*
61307094 TGTAGTGGCAATAGAGCAAATTTAAGCTACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAG
66 TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAG
61307157 GTTCAAGATA
Statistics
Matches: 115, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
133 115 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
AAATTGCAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGACCGTAAATCTTATCTCCA
TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGAC
TAA
Found at i:61307155 original size:44 final size:44
Alignment explanation
Indices: 61307107--61307199 Score: 114
Period size: 44 Copynumber: 2.1 Consensus size: 44
61307097 AGTGGCAATA
* * * *
61307107 GAGCAAATTTAAGCTACCAATCTTATATCTCTAAAGTTGCAGTG
1 GAGCAAATTCAAGATACAAATCTTATATCCCTAAAGTTGCAGTG
** * *
61307151 GAGCAGGTTCAAGATACAAATCTTATCTCCCTGAAGTTGCAGTG
1 GAGCAAATTCAAGATACAAATCTTATATCCCTAAAGTTGCAGTG
61307195 GAGCA
1 GAGCA
61307200 GACTAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.28
Consensus pattern (44 bp):
GAGCAAATTCAAGATACAAATCTTATATCCCTAAAGTTGCAGTG
Found at i:61307199 original size:133 final size:133
Alignment explanation
Indices: 61306896--61307201 Score: 389
Period size: 133 Copynumber: 2.3 Consensus size: 133
61306886 AACATCGGTG
* * *
61306896 AAATTGCAGATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACGGTAAATCTTATCTCCA
1 AAATTACAAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACCGTAAATCTTATCTCCA
* * * * * *
61306961 TGTAGTGGCAATGGAGTAGATTTAAGCCACCAGTCTTATTTCTCTAAAGTTGCTGTGGAGCAGAC
66 TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGAC
61307026 TAA
131 TAA
* * * * * **
61307029 AAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATTGAAGACCGTAAATCTTATCTCCA
1 AAATTACAAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACCGTAAATCTTATCTCCA
* **
61307094 TGTAGTGGCAATAGAGCAAATTTAAGCTACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGGT
66 TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGAC
*
61307159 TCA
131 TAA
* * *
61307162 AGA-TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 AAATTACAAATCTTATCTCCCT-AAGTAGTAGTGGAGCAGA
61307202 CTAAAAATTA
Statistics
Matches: 148, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
132 15 0.10
133 133 0.90
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (133 bp):
AAATTACAAATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCAAAGACCGTAAATCTTATCTCCA
TGTAGTGGCAATAGAGCAAATTTAAGCCACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGAC
TAA
Found at i:61307207 original size:177 final size:176
Alignment explanation
Indices: 61307007--61307509 Score: 702
Period size: 177 Copynumber: 2.8 Consensus size: 176
61306997 TATTTCTCTA
* *
61307007 AAGTTGCTGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATTG
1 AAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATCG
* * * * *
61307072 AAGACCGTAAATCTTATCTCCATGTAGTGGCAATAGAGCAAATTTAAGCTACCAATCTTATATCT
66 AAGA-CGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACCAATCTTATCTCC
61307137 CTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAATCTTATCTCCCTG
130 CTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAATCTTATCTCCCTG
* * * * *
61307184 AAGTTGCAGTGGAGCAGACTAAAAATTACAGATCTTATCTTCTTAAGTAGTAGTGGAGTAGATCG
1 AAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATCG
* * * * *
61307249 AAGACGACAAATTTTATCTCCATGTAGCGACAATGGAACAGATTTAAGCCACC-ATCCTTATCTC
66 AAGACG-CAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACCAAT-CTTATCTC
* *
61307313 CCTAAAGTTGCAGTGGAGCATGTTCAAGATACAAGTCTTATCTCCCTG
129 CCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAATCTTATCTCCCTG
* * * * *
61307361 AAGTTGCAGTGGAGCAGATTGAAAATTGCAAATCTTATCTCCCTAAGCAATAGTAGAGCAGATCG
1 AAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATCG
* * *
61307426 AAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAAAGCAGATTTAAGCCACCAGTCTTATCTCC
66 AAG-ACGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACCAATCTTATCTCC
* *
61307491 CTGAAGTTGCAGTAGAGCA
130 CTAAAGTTGCAGTGGAGCA
61307510 AACTGAAAAT
Statistics
Matches: 283, Mismatches: 39, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
176 4 0.01
177 276 0.98
178 3 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (176 bp):
AAGTTGCAGTGGAGCAGACTAAAAATTGCAGATCTTATCTCCTTAAGCAGTAGTAGAGCAGATCG
AAGACGCAAATCTTATCTCCATGTAGTGGCAATAGAGCAGATTTAAGCCACCAATCTTATCTCCC
TAAAGTTGCAGTGGAGCAGGTTCAAGATACAAATCTTATCTCCCTG
Found at i:61307442 original size:133 final size:133
Alignment explanation
Indices: 61307335--61307636 Score: 374
Period size: 133 Copynumber: 2.3 Consensus size: 133
61307325 GTGGAGCATG
* * * *
61307335 TTCAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTGCAAATCTTATC
1 TTCAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAAATCTTATC
**
61307400 TCCCTAAGCAATAGT-AGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGCAATAAAG
66 TCCCTAAGCAATAGTGA-AGCAGATCGAAGAAGGCAAATCTTATCTCCATAAAGTGGCAATAAAG
61307464 CAGA
130 CAGA
* * * *
61307468 TTTAAGCCACCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAGATCTTATC
1 TTCAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAAATCTTATC
* * ** * ** **
61307533 TCCCTAAGCAATAGTGAAGTAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGAAAATGGAGC
66 TCCCTAAGCAATAGTGAAGCAGATCGAAGAAGGCAAATCTTATCTCCATAAAGTGGCAATAAAGC
61307598 AGA
131 AGA
* * *
61307601 TTTAAGCCATC-AGTCTTATCTTCCTGAAGTTGCAGT
1 TTCAAGACA-CAAGTCTTATCTCCCTGAAGTTGCAGT
61307637 GAAGCGGGTT
Statistics
Matches: 151, Mismatches: 16, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
133 149 0.99
134 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (133 bp):
TTCAAGACACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAAATCTTATC
TCCCTAAGCAATAGTGAAGCAGATCGAAGAAGGCAAATCTTATCTCCATAAAGTGGCAATAAAGC
AGA
Found at i:61307487 original size:310 final size:309
Alignment explanation
Indices: 61307171--61308119 Score: 1247
Period size: 310 Copynumber: 3.1 Consensus size: 309
61307161 AAGATACAAA
*
61307171 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAATTACAGATCTTATCTTCTTAAGTAGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCTTAAGTAGTA
* * *
61307236 GTGGAGTAGATCGAAGACGACAAATTTTATCTCCATGTAGCGACAATGGAACAGATTTAAGCCAC
66 GTGAAGTAGATCGAAGACGACAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCCAC
*
61307301 CATCCTTATCTCCCTAAAGTTGCAGTGGAGCATGTTCAAGATACAAGTCTTATCTCCCTGAAGTT
131 CATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTT
* *
61307366 GCAGTGGAGCAGATTGAAAATTGCAAATCTTATCTCCCTAAGCAATAGTAGAGCAGATCGAAGAA
196 GCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGT-GAGCAGATCGAAGAA
* * ** *
61307431 GGCAAATCTTATCTCCATGTAGTGGCAATAAAGCAGATTTAAGCCACCAG
260 GGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
* * * * * * *
61307481 TCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAGATCTTATCTCCCTAAGCAATA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCTTAAGTAGTA
* * *
61307546 GTGAAGTAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGAAAATGGAGCAGATTTAAGCCAT
66 GTGAAGTAGATCGAAGACGACAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCCAC
* * * * *
61307611 CAGT-CTTATCTTCCTGAAGTTGCAGTGAAGCGGGTTTAAGATACAAGTCTTATCTCCCTGAAGT
131 CA-TCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGT
* * *
61307675 TGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGACCGAAGA
195 TGCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGT-GAGCAGATCGAAGA
* * * * ** *
61307740 CGACAAATCTTATCTTTATATAGCAACAATGGAGTAGATTTAAGCCACCGG
259 AGGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
* *
61307791 TCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATC-TCTCTAAGTAGT
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCT-TAAGTAGT
* * * * * * * *
61307855 AGTAAAGTAGATCGAGGGC-AGCAAATCTTATCTCCATGTAGCGGCAATAGAGCTGACTTAAGCT
65 AGTGAAGTAGATCGAAGACGA-CAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCC
* * * *
61307919 ACCAGCCTTATCTCTCTAAAGTTGCAGTGGAGCAGGTTCAATATACAAGTCTTATCTCCTTGAAG
129 ACCATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAG
* * ** * *
61307984 TTGCAGTGGAGCAAACTGAAGATAACGAATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAT
194 TTGCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGTG-AGCAGATCGAAG
* * * *
61308049 ATGGCGACTCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGTCACCAG
258 AAGGCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
* *
61308101 ATCTTATTTCCTTGAAGTT
1 -TCTTATCTCCCTGAAGTT
61308120 ATAGTGGAAT
Statistics
Matches: 545, Mismatches: 88, Indels: 11
0.85 0.14 0.02
Matches are distributed among these distances:
309 2 0.00
310 526 0.97
311 17 0.03
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.28
Consensus pattern (309 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTACAGATCTTATCTTCTTAAGTAGTA
GTGAAGTAGATCGAAGACGACAAATCTTATCTCCATGTAGCGACAATGGAGCAGATTTAAGCCAC
CATCCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTCAAGATACAAGTCTTATCTCCCTGAAGTT
GCAGTGGAGCAGACTGAAAATTGCAAATCTTATCTCCCTAAGCAGTAGTGAGCAGATCGAAGAAG
GCAAATCTTATCTCTATGTAGCGGCAATGGAGTAGATTTAAGCCACCAG
Found at i:61307571 original size:177 final size:177
Alignment explanation
Indices: 61307038--61307754 Score: 569
Period size: 177 Copynumber: 4.1 Consensus size: 177
61307028 AAAATTGCAG
* * ** *
61307038 ATCTTATCTCCTTAAGCAGTAGTAGAGCAGATTGAAGACCGTAAATCTTATCTCCATGTAGTGGC
1 ATCTTATCTCCTTAAGCAATAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGC
* * * * * * ** *
61307103 AATAGAGCAAATTTAAGCTACCAATCTTATATCTCTAAAGTTGCAGTGGAGCAGGTTCAAGATAC
66 AATAAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAAATAC
* ** * ** *
61307168 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAAATTACAG
131 AGATCTTATCTCCCTGAAGCAGCAGTGGAGCAGATC-GAAAACGACAA
* * * * * * * * * *
61307215 ATCTTATCTTCTTAAGTAGTAGTGGAGTAGATCGAAGACGACAAATTTTATCTCCATGTAGCGAC
1 ATCTTATCTCCTTAAGCAATAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGC
* * *
61307280 AATGGAA-CAGATTTAAGCCACCA-TCCTTATCTCCCTAAAGTTGCAGTGGAGCATG-TTCAAGA
66 AAT-AAAGCAGATTTAAGCCACCAGT-CTTATCTCCCTAAAGTTGCAGTGGAGCA-GACTCAAAA
** * *
61307342 TACA-AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATTG-CAA
128 TACAGA-TCTTATCTCCCTGAAGCAGCAGTGGAGCAGATCGAAAA-CGACAA
*
61307392 ATCTTATCTCCCTAAGCAATAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGC
1 ATCTTATCTCCTTAAGCAATAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGC
* * * * *
61307457 AATAAAGCAGATTTAAGCCACCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTG
66 AATAAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAAA-TA
** * * * *
61307522 CAGATCTTATCTCCCT-AAGCAATAGTGAAGTAGATCGAAGACGGCAA
130 CAGATCTTATCTCCCTGAAGCAGCAGTGGAGCAGATCGAAAACGACAA
* * ** * * * *
61307569 ATCTTATCTCCATGT-AGCGAA-AATGGAGCAGATTTAAGCCA-TC-AGTCTTATCTTCC-TGAA
1 ATCTTATCTCC-T-TAAGC-AATAGTAGAGCAGATCGAAG-AAGGCAAATCTTATC-TCCATGTA
* * * * * ** * * *
61307629 GTTGCAGTGAAGCGGGTTTAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAA
61 GTGGCAATAAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAA
* * * * *
61307694 AATTGCAGATCTTATCT-CCTTAAGCAGTAGTGGAGCAGACCGAAGACGACAA
126 AA-TACAGATCTTATCTCCCTGAAGCAGCAGTGGAGCAGATCGAAAACGACAA
61307746 ATCTTATCT
1 ATCTTATCT
61307755 TTATATAGCA
Statistics
Matches: 449, Mismatches: 73, Indels: 36
0.80 0.13 0.06
Matches are distributed among these distances:
176 8 0.02
177 397 0.88
178 39 0.09
179 5 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (177 bp):
ATCTTATCTCCTTAAGCAATAGTAGAGCAGATCGAAGAAGGCAAATCTTATCTCCATGTAGTGGC
AATAAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAAATAC
AGATCTTATCTCCCTGAAGCAGCAGTGGAGCAGATCGAAAACGACAA
Found at i:61307751 original size:133 final size:133
Alignment explanation
Indices: 61307636--61307953 Score: 320
Period size: 133 Copynumber: 2.4 Consensus size: 133
61307626 GAAGTTGCAG
* * * * *
61307636 TGAAGCGGGTTTAAGATACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCA
1 TGAAGCAGATTTAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTACA
*
61307701 GATCTTATCTC-CTTAAGCAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTTTATATAGCA
66 GATCTTATCTCTC-TAAGCAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTTCATATAGCA
61307765 ACAA
130 ACAA
* * * ** *
61307769 TGGAGTAGATTTAAGCCACCGGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAATTACA
1 TGAAGCAGATTTAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTACA
* ** * * * * * * *
61307834 GATCTTATCTCTCTAAGTAGTAGTAAAGTAGATCGAGGGC-AGCAAATCTTATCTCCATGTAGCG
66 GATCTTATCTCTCTAAGCAGTAGTGGAGCAGACCGAAGACGA-CAAATCTTATCTTCATATAGCA
*
61307898 GCAA
130 ACAA
* * * * *
61307902 T-AGAGCTGACTTAAG-CTACCAGCCTTATCTCTCTAAAGTTGCAGTGGAGCAG
1 TGA-AGCAGATTTAAGAC-ACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAG
61307954 GTTCAATATA
Statistics
Matches: 150, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
132 2 0.01
133 147 0.98
134 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (133 bp):
TGAAGCAGATTTAAGACACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTGAAAATTACA
GATCTTATCTCTCTAAGCAGTAGTGGAGCAGACCGAAGACGACAAATCTTATCTTCATATAGCAA
CAA
Found at i:61307773 original size:177 final size:177
Alignment explanation
Indices: 61307479--61307814 Score: 505
Period size: 177 Copynumber: 1.9 Consensus size: 177
61307469 TTAAGCCACC
61307479 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAGATCTTATCTCCCTAAGCAA
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAGATCTTATCTCCCTAAGCAA
* * * *
61307544 TAGTGAAGTAGATCGAAGACGGCAAATCTTATCTCCATGTAGCGAAAATGGAGCAGATTTAAGCC
66 TAGTGAAGCAGACCGAAGACGACAAATCTTATCTCCATATAGCGAAAATGGAGCAGATTTAAGCC
* *
61307609 ATCAGTCTTATCTTCC-TGAAGTTGCAGTGAAGCGGGTTTAAGATACA
131 ACCAGTCTTATC-TCCTTAAAGTTGCAGTGAAGCGGGTTTAAGATACA
* * * *
61307656 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAAATTGCAGATCTTATCTCCTTAAGCAG
1 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAGATCTTATCTCCCTAAGCAA
* ** *
61307721 TAGTGGAGCAGACCGAAGACGACAAATCTTATCTTTATATAGC-AACAATGGAGTAGATTTAAGC
66 TAGTGAAGCAGACCGAAGACGACAAATCTTATCTCCATATAGCGAA-AATGGAGCAGATTTAAGC
*
61307785 CACCGGTCTTATCTCCTTAAAGTTGCAGTG
130 CACCAGTCTTATCTCCTTAAAGTTGCAGTG
61307815 GAGCAGACTG
Statistics
Matches: 142, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
176 5 0.04
177 137 0.96
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (177 bp):
AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAAACTGAAAATTGCAGATCTTATCTCCCTAAGCAA
TAGTGAAGCAGACCGAAGACGACAAATCTTATCTCCATATAGCGAAAATGGAGCAGATTTAAGCC
ACCAGTCTTATCTCCTTAAAGTTGCAGTGAAGCGGGTTTAAGATACA
Found at i:61308249 original size:45 final size:45
Alignment explanation
Indices: 61308098--61308746 Score: 330
Period size: 45 Copynumber: 14.7 Consensus size: 45
61308088 TTTAAGTCAC
* * ** * * *
61308098 CAGATCTTATTTCCTTGAAGTTATAGTGGAATAGATCGAGGATAA
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * * * * * *
61308143 CAAACCTTATCTCTCTGAAGTTGCAG-AGAGCAGGTTGAAGTTA-
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* ** *
61308186 CAGGTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAG
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * *
61308231 CAGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATAG
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * * * * * *
61308276 TAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAA
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * * *
61308320 CA-AGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAACAT--
1 CAGA-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
** *
61308363 --G-TCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAG
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * *
61308405 CAGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATCAAAGATAG
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * * * * * *
61308450 TAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAG-TAA
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * *
61308494 CA-AGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGACTA-
1 CAGA-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGA-TAG
* * * * * *
61308539 CAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA-
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGA-TAG
* * * * * ** *
61308583 CAAACTCTTACCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGTTA-
1 CAGA-TCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
* * * * * *
61308628 CAAATCTCT-TCTCCCTGAAATTACATTGGAATAGATTGAAGCA-A-
1 CAGATCT-TATCTCCCTGAAGTTGCAGTGGAACAGATCGAAG-ATAG
* * * ** *
61308672 CAAATCTTATCTCCTTGAAGTTGCAGCGGAGTAGA-CTGAAGACAG
1 CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATC-GAAGATAG
* *
61308717 CTA-ATCCTATCTCCCTGAAGTTGCAATGGA
1 C-AGATCTTATCTCCCTGAAGTTGCAGTGGA
61308747 GTGGATTAAG
Statistics
Matches: 459, Mismatches: 122, Indels: 46
0.73 0.19 0.07
Matches are distributed among these distances:
40 31 0.07
43 26 0.06
44 154 0.34
45 244 0.53
46 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (45 bp):
CAGATCTTATCTCCCTGAAGTTGCAGTGGAACAGATCGAAGATAG
Found at i:61308386 original size:174 final size:174
Alignment explanation
Indices: 61308189--61308533 Score: 690
Period size: 174 Copynumber: 2.0 Consensus size: 174
61308179 GAAGTTACAG
61308189 GTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTG
1 GTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTG
61308254 TAGCGGAGCAGATCAAAGATAGTAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTA
66 TAGCGGAGCAGATCAAAGATAGTAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTA
61308319 ACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAACAT
131 ACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAACAT
61308363 GTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTG
1 GTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTG
61308428 TAGCGGAGCAGATCAAAGATAGTAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTA
66 TAGCGGAGCAGATCAAAGATAGTAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTA
61308493 ACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAA
131 ACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAA
61308534 GACTACAAAC
Statistics
Matches: 171, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 171 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (174 bp):
GTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTG
TAGCGGAGCAGATCAAAGATAGTAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTA
ACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAACAT
Found at i:61308417 original size:129 final size:130
Alignment explanation
Indices: 61308138--61308427 Score: 323
Period size: 129 Copynumber: 2.2 Consensus size: 130
61308128 ATAGATCGAG
* * * * * *
61308138 GATAACAAACCTTATCTCTCTGAAGTTGCAGAGAGCAGGTTGAAGTTACAGGTCTTATCTATCTG
1 GATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAACAGGTTGAAGTAACAAGTCTTATCTACCTA
* * * * * *
61308203 AAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATC
66 AAGTTACAGTGGAACAGATCGAACAT---AGATCTTATCTACCTGAAGTTGCAGCGGAACAGATC
61308268 AAA
128 AAA
* *
61308271 GATAGTAAACCTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTAACAAGTCTTATCTCCCT
1 GATAGCAAACCTTATCTCTCTGAAGTTGCAG-AGAACAGGTTGAAGTAACAAGTCTTATCTACCT
* * * * * *
61308336 AAAGTTACAGTGGAGCAGATTGAACAT-G-TCTTATCTATCTGAAGTTGCAGTGGAACATATCGA
65 AAAGTTACAGTGGAACAGATCGAACATAGATCTTATCTACCTGAAGTTGCAGCGGAACAGATCAA
61308399 A
130 A
* * *
61308400 GATAGCAGATCTTATCTCCCTGAAGTTG
1 GATAGCAAACCTTATCTCTCTGAAGTTG
61308428 TAGCGGAGCA
Statistics
Matches: 132, Mismatches: 24, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
129 53 0.40
130 1 0.01
133 29 0.22
134 49 0.37
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (130 bp):
GATAGCAAACCTTATCTCTCTGAAGTTGCAGAGAACAGGTTGAAGTAACAAGTCTTATCTACCTA
AAGTTACAGTGGAACAGATCGAACATAGATCTTATCTACCTGAAGTTGCAGCGGAACAGATCAAA
Found at i:61308603 original size:134 final size:132
Alignment explanation
Indices: 61308115--61308702 Score: 412
Period size: 134 Copynumber: 4.4 Consensus size: 132
61308105 TATTTCCTTG
* * * *
61308115 AAGTTATAGTGGAATAGATCGAGGATAACAAACCTTATCT-CTCTGAAGTTGCAG-AGAGCAGGT
1 AAGTTACAGTGGAACAGATCGAAGAT-ACAAACCTTATCTCCT-TGAAGTTGCAGCGGAGCAGGT
* ** * * *
61308178 TGAAGTTACAGGTCTTATCTATCTGAAGTTGCAGTGGAACATATCGAAGATAGC-AGATCTTATC
64 TGAAATTACAACTCTTATCTCTCTGAAGTTGCAGTGGAACAGATCGAAG-TAACAAG-TCTTATC
*
61308242 TCCCTG
127 TCCCTA
** * * * * ** *
61308248 AAGTTGTAGCGGAGCAGATCAAAGATAGTAAACCTTATCT-CTCTGAAGTTGCAGTAGAACAGGT
1 AAGTTACAGTGGAACAGATCGAAGATA-CAAACCTTATCTCCT-TGAAGTTGCAGCGGAGCAGGT
* * * * * * * * * *
61308312 TGAAGTAACAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGAT---TG-AACATGTCTTATCTA
64 TGAAATTACAACTCTTATCTCTCTGAAGTTGCAGTGGAACAGATCGAAGTAACAAGTCTTATCTC
* *
61308373 TCTG
129 CCTA
* * * * * * * *
61308377 AAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTGTAGCGGAGCAGATC
1 AAGTTACAGTGGAACAGATCGAAGATA-CAAACCTTATCTCCTTGAAGTTGCAGCGGAGCAGGTT
* * * *
61308442 AAAGATAGTA-AAC-CTTATCTCTCTGAAGTTGCAGTAGAACAGGTTGAAGTAACAAGTCTTATC
65 GAA-AT--TACAACTCTTATCTCTCTGAAGTTGCAGTGGAACAGATCGAAGTAACAAGTCTTATC
61308505 TCCCTA
127 TCCCTA
* * *
61308511 AAGTTACAGTGGAGCAGATTGAAGACTACAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTT
1 AAGTTACAGTGGAACAGATCGAAGA-TACAAACCTTATCTCCTTGAAGTTGCAGCGGAGCAGGTT
* * * ** * *
61308576 GAAATTACAAACTCTTACCTC-CTTGAAGTTCCAGCGGAGTAGATCGAAGTTACAAATCTCT-TC
65 GAAATTAC-AACTCTTATCTCTC-TGAAGTTGCAGTGGAACAGATCGAAGTAACAAGTCT-TATC
61308639 TCCCTGA
127 TCCCT-A
* * * *
61308646 AA-TTACATTGGAATAGATTGAAGCA-ACAAATCTTATCTCCTTGAAGTTGCAGCGGAG
1 AAGTTACAGTGGAACAGATCGAAG-ATACAAACCTTATCTCCTTGAAGTTGCAGCGGAG
61308703 TAGACTGAAG
Statistics
Matches: 358, Mismatches: 78, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
129 63 0.18
130 28 0.08
131 5 0.01
132 2 0.01
133 82 0.23
134 171 0.48
135 7 0.02
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (132 bp):
AAGTTACAGTGGAACAGATCGAAGATACAAACCTTATCTCCTTGAAGTTGCAGCGGAGCAGGTTG
AAATTACAACTCTTATCTCTCTGAAGTTGCAGTGGAACAGATCGAAGTAACAAGTCTTATCTCCC
TA
Found at i:61308630 original size:89 final size:88
Alignment explanation
Indices: 61308103--61308746 Score: 430
Period size: 89 Copynumber: 7.3 Consensus size: 88
61308093 GTCACCAGAT
* ** * * * * * *
61308103 CTTATTTCCTTGAAGTTATAGTGGAATAGATCGAGGATAACAAACCTTATCTCTCTGAAGTTGCA
1 CTTATCTCCTTGAAGTTGCAGTGGAACAGGTTGAAG-TAACAAATCTTATCTCCCTGAAGTTGCA
* * * * ***
61308168 G-AGAGCAGGTTGAAGTTACAGGT
65 GCGGAGCAGATCGAAGATACAAAC
* ** * * * *
61308191 CTTATCT-ATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTGT
1 CTTATCTCCT-TGAAGTTGCAGTGGAACAGGTTGAAG-TAACAAATCTTATCTCCCTGAAGTTGC
* *
61308255 AGCGGAGCAGATCAAAGATAGTAAAC
64 AGCGGAGCAGATCGAAGATA-CAAAC
* * * *
61308281 CTTATCT-CTCTGAAGTTGCAGTAGAACAGGTTGAAGTAACAAGTCTTATCTCCCTAAAGTTACA
1 CTTATCTCCT-TGAAGTTGCAGTGGAACAGGTTGAAGTAACAAATCTTATCTCCCTGAAGTTGCA
* * ***
61308345 GTGGAGCAGAT---TGA-ACATGT
65 GCGGAGCAGATCGAAGATACAAAC
* ** * * * *
61308365 CTTATCT-ATCTGAAGTTGCAGTGGAACATATCGAAGATAGCAGATCTTATCTCCCTGAAGTTGT
1 CTTATCTCCT-TGAAGTTGCAGTGGAACAGGTTGAAG-TAACAAATCTTATCTCCCTGAAGTTGC
* *
61308429 AGCGGAGCAGATCAAAGATAGTAAAC
64 AGCGGAGCAGATCGAAGATA-CAAAC
* * * *
61308455 CTTATCT-CTCTGAAGTTGCAGTAGAACAGGTTGAAGTAACAAGTCTTATCTCCCTAAAGTTACA
1 CTTATCTCCT-TGAAGTTGCAGTGGAACAGGTTGAAGTAACAAATCTTATCTCCCTGAAGTTGCA
* *
61308519 GTGGAGCAGATTGAAGACTACAAAC
65 GCGGAGCAGATCGAAGA-TACAAAC
* * * * * *
61308544 CTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAACTCTTACCTCCTTGAAGTTCCA
1 CTTATCTCCTTGAAGTTGCAGTGGAACAGGTTGAAGTAACAAA-TCTTATCTCCCTGAAGTTGCA
* * *
61308609 GCGGAGTAGATCGAAGTTACAAAT
65 GCGGAGCAGATCGAAGATACAAAC
* * * * * * * *
61308633 CTCT-TCTCCCTGAAATTACATTGGAATAGATTGAAGCAACAAATCTTATCTCCTTGAAGTTGCA
1 CT-TATCTCCTTGAAGTTGCAGTGGAACAGGTTGAAGTAACAAATCTTATCTCCCTGAAGTTGCA
* * *
61308697 GCGGAGTAGA-CTGAAGACAGCTAATC
65 GCGGAGCAGATC-GAAGATA-C-AAAC
* *
61308723 C-TATCTCCCTGAAGTTGCAATGGA
1 CTTATCTCCTTGAAGTTGCAGTGGA
61308747 GTGGATTAAG
Statistics
Matches: 436, Mismatches: 103, Indels: 33
0.76 0.18 0.06
Matches are distributed among these distances:
84 32 0.07
85 33 0.08
86 2 0.00
87 2 0.00
88 89 0.20
89 176 0.40
90 102 0.23
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (88 bp):
CTTATCTCCTTGAAGTTGCAGTGGAACAGGTTGAAGTAACAAATCTTATCTCCCTGAAGTTGCAG
CGGAGCAGATCGAAGATACAAAC
Found at i:61309500 original size:3 final size:3
Alignment explanation
Indices: 61309492--61309755 Score: 95
Period size: 3 Copynumber: 87.3 Consensus size: 3
61309482 AAGGGGAGAG
* *
61309492 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAACC TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-A-T TAT
* * * * * *
61309539 TAT TAT TAT TTT TAT TAA TA- TAA TAT TGT T-T TCT T-T TTT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
61309583 TGT TAT TAT TAT TAG CACG TA- TAT TAT TAT TAT TAAT GTAT CAT TGT
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT T-AT -TAT TAT TAT
* * * *
61309630 TAT TTT CTAT T-T TAT TAT TACT T-T TAT TAC TAC TGT T-T CTAT TAT
1 TAT TAT -TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TAT TAT
* *
61309675 TAT TAT T-T TCAT TACT T-C TAT TAT TAT T-T TCAT TAT TTT CTAT TAT
1 TAT TAT TAT T-AT TA-T TAT TAT TAT TAT TAT T-AT TAT TAT -TAT TAT
* * *
61309721 CAT TAA TAT GTCGT T-T GT-T TAT TAT TAT TAT TAT T
1 TAT TAT TAT -T-AT TAT -TAT TAT TAT TAT TAT TAT T
61309756 TTAACACTAT
Statistics
Matches: 203, Mismatches: 31, Indels: 54
0.70 0.11 0.19
Matches are distributed among these distances:
2 22 0.11
3 155 0.76
4 23 0.11
5 3 0.01
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:61309817 original size:21 final size:20
Alignment explanation
Indices: 61309787--61309836 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
61309777 TATTTACTTT
*
61309787 TTTTAATATTATTACCATTA
1 TTTTATTATTATTACCATTA
* *
61309807 TATTTTTTATTATTACTATTA
1 T-TTTATTATTATTACCATTA
61309828 TTTTATTAT
1 TTTTATTAT
61309837 CCGTCCTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTTATTATTATTACCATTA
Found at i:61309827 original size:30 final size:29
Alignment explanation
Indices: 61309772--61309829 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
61309762 CTATTAACAT
61309772 CATTATATTTACTTTTTTTAATATTATTAC
1 CATTATATTTA-TTTTTTTAATATTATTAC
*
61309802 CATTATATTT-TTTATTATTACTATTATT
1 CATTATATTTATTT-TT-TTAATATTATT
61309830 TTATTATCCG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 2 0.08
30 20 0.80
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (29 bp):
CATTATATTTATTTTTTTAATATTATTAC
Found at i:61309833 original size:17 final size:15
Alignment explanation
Indices: 61309803--61309836 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
61309793 TATTATTACC
61309803 ATTATATTTTTTATT
1 ATTATATTTTTTATT
61309818 ATTACTATTATTTTATT
1 ATTA-TATT-TTTTATT
61309835 AT
1 AT
61309837 CCGTCCTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 4 0.24
17 9 0.53
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTATATTTTTTATT
Found at i:61310134 original size:126 final size:128
Alignment explanation
Indices: 61309998--61310259 Score: 331
Period size: 126 Copynumber: 2.1 Consensus size: 128
61309988 TTTTTCAAGT
* *
61309998 AAAGGCAATATTC-GATATTT-GAAAATTCGA-TAAATCGTGTCCTAACATACTGGG-TTCTGGT
1 AAAGGCAATATTCTG-TATTTAG-AAATTCGAGT-AATCGTGCCCTAACATACTGGGTTTC-GAT
* * *
61310059 TTTTCGTTTGATCTAAGTAAT-CGATTATCC-TTTT-AAATTAAAATACATGAGTTTTAAATAAA
62 TTTCCGTTTGATCTAAAT-ATCCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAA
61310121 ATA
126 ATA
* * *
61310124 AAAGGCAATATTCTGTATTTAGAAATTCGAGTAGTCGTGCCCTAACGTATTGGGTTTCGATTTTC
1 AAAGGCAATATTCTGTATTTAGAAATTCGAGTAATCGTGCCCTAACATACTGGGTTTCGATTTTC
* *
61310189 CGTTTGATCTAAATATCCGAATATCCTTTTTAAAATTTAAATACATGAGTTTTAAATGAAATA
66 CGTTTGATCTAAATATCCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAATA
*
61310252 GAAGGCAA
1 AAAGGCAA
61310260 GCTCATACTC
Statistics
Matches: 118, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
125 2 0.02
126 70 0.59
127 10 0.08
128 36 0.31
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (128 bp):
AAAGGCAATATTCTGTATTTAGAAATTCGAGTAATCGTGCCCTAACATACTGGGTTTCGATTTTC
CGTTTGATCTAAATATCCGAATATCCTTTTTAAAATTAAAATACATGAGTTTTAAATAAAATA
Found at i:61342179 original size:16 final size:17
Alignment explanation
Indices: 61342160--61342192 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
61342150 GTATGAAATA
61342160 TTTA-ATGAAATTTATT
1 TTTACATGAAATTTATT
61342176 TTTACATGAAATTTATT
1 TTTACATGAAATTTATT
61342193 ATTGTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.55
Consensus pattern (17 bp):
TTTACATGAAATTTATT
Found at i:61344547 original size:55 final size:55
Alignment explanation
Indices: 61344463--61344571 Score: 173
Period size: 55 Copynumber: 2.0 Consensus size: 55
61344453 TATTCATTGA
* * * *
61344463 ATGATAAATTATCACTTTTAATTTGAATAGTGCTTATGAATAACTAATTTGCAAG
1 ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAACTAATTTGCAAG
*
61344518 ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAATTAATTTGCAA
1 ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAACTAATTTGCAA
61344572 TCTATAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 49 1.00
ACGTcount: A:0.40, C:0.10, G:0.11, T:0.39
Consensus pattern (55 bp):
ATGATAAATCATCACTTTAAATTTGAATAGTGCTCATAAATAACTAATTTGCAAG
Found at i:61345900 original size:41 final size:41
Alignment explanation
Indices: 61345843--61345926 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
61345833 GGAAAAAATT
61345843 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
1 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
61345884 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
1 TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
61345925 TA
1 TA
61345927 GATGGAGTCG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.42, C:0.05, G:0.19, T:0.35
Consensus pattern (41 bp):
TAAGGAATATTTTGTATGAATATGACATGGATATGAATCAA
Found at i:61349257 original size:154 final size:154
Alignment explanation
Indices: 61348980--61349318 Score: 527
Period size: 154 Copynumber: 2.2 Consensus size: 154
61348970 TTGGTTATGG
* *
61348980 TCCTGCATATATTGCGGACACACCACAACTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
1 TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
* ** ** * *
61349045 TCTGATATTTTTCTCTCACGAGCTTCCTGTTATATGGTTCTTGTGAGCTTCCTATTAATAGCTCT
66 CCCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCTATTAATAGCTCT
* * *
61349110 TCGGAGCATCTCTATTGGTTGTAA
131 TCGGAGCACCCCAATTGGTTGTAA
61349134 TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
1 TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
* *
61349199 CCCAATATTTGGCTCTCATGAGCTTCCTATTATATGGTTCTTGCGAGTTTCCCT-TTAATAGCTC
66 CCCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTT-CCTATTAATAGCTC
61349263 TTCGGAGCACCCCAATTGGTTGTAA
130 TTCGGAGCACCCCAATTGGTTGTAA
*
61349288 TCCTGCATGTGTTGCGGACACACCACAGCTC
1 TCCTGCATATGTTGCGGACACACCACAGCTC
61349319 TTATAAGCAT
Statistics
Matches: 169, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
154 166 0.98
155 3 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (154 bp):
TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
CCCAATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCTATTAATAGCTCT
TCGGAGCACCCCAATTGGTTGTAA
Found at i:61349361 original size:154 final size:154
Alignment explanation
Indices: 61348980--61349366 Score: 478
Period size: 154 Copynumber: 2.5 Consensus size: 154
61348970 TTGGTTATGG
* * * * *
61348980 TCCTGCATATATTGCGGACACACCACAACTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
1 TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCATCCCGATATTAGCTCTCAGGAGCAT
* * ** * *
61349045 TCTGATATTTTTCTCTCACGAGCTTCCTGTTATATGGTTCTTGTGAGCTTCCTATTAATAGCTCT
66 CCCGATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCTATTAATAGCTCT
* * *
61349110 TCGGAGCATCTCTATTGGTTGTAA
131 TCGGAGCACCCCAATTGGTTGTAA
* * *
61349134 TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCGTCCCGTTATTAGCTCTCATGAGCAT
1 TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCATCCCGATATTAGCTCTCAGGAGCAT
* * *
61349199 CCCAATATTTGGCTCTCATGAGCTTCCTATTATATGGTTCTTGCGAGTTTCCCT-TTAATAGCTC
66 CCCGATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTT-CCTATTAATAGCTC
61349263 TTCGGAGCACCCCAATTGGTTGTAA
130 TTCGGAGCACCCCAATTGGTTGTAA
* * * *
61349288 TCCTGCATGTGTTGCGGACACACCACAGCTCTTATA-AGCAT-CCGATATATGGCTCTTC-GGAG
1 TCCTGCATATGTTGCGGACACACCACAGCTC-GAAAGAGCATCCCGATAT-TAGCTC-TCAGGAG
*
61349350 CTTCCCGATA-TTGGCTC
63 CATCCCGATATTTGGCTC
61349367 GCTTGAACTT
Statistics
Matches: 206, Mismatches: 23, Indels: 9
0.87 0.10 0.04
Matches are distributed among these distances:
153 13 0.06
154 186 0.90
155 7 0.03
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (154 bp):
TCCTGCATATGTTGCGGACACACCACAGCTCGAAAGAGCATCCCGATATTAGCTCTCAGGAGCAT
CCCGATATTTGGCTCTCACGAGCTTCCTATTATATGGTTCTTGCGAGCTTCCTATTAATAGCTCT
TCGGAGCACCCCAATTGGTTGTAA
Found at i:61351176 original size:43 final size:43
Alignment explanation
Indices: 61351128--61351227 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
61351118 GATTAACGAG
*
61351128 ATGTGATTATGTGTAAGACCATGTCTG-GGACATTGGCATCATT
1 ATGTGATTACGTGTAAGACCATGTC-GAGGACATTGGCATCATT
*
61351171 ATGTGATTACGTGTAAGACCATGTCGAGGACATTGGCATCGTT
1 ATGTGATTACGTGTAAGACCATGTCGAGGACATTGGCATCATT
* *
61351214 ATTTGATTTCGTGT
1 ATGTGATTACGTGT
61351228 GAGATTATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 1 0.02
43 51 0.98
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCGAGGACATTGGCATCATT
Found at i:61352165 original size:14 final size:14
Alignment explanation
Indices: 61352146--61352173 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
61352136 TTATGGTTAT
61352146 GATTTGAGTAGTGA
1 GATTTGAGTAGTGA
61352160 GATTTGAGTAGTGA
1 GATTTGAGTAGTGA
61352174 AATGGTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.36, T:0.36
Consensus pattern (14 bp):
GATTTGAGTAGTGA
Found at i:61352170 original size:68 final size:68
Alignment explanation
Indices: 61352092--61352223 Score: 264
Period size: 68 Copynumber: 1.9 Consensus size: 68
61352082 TTATGGTTAT
61352092 GATTTGAGTAGTGAAATGGTTGAAGACATATTGTTTTGGTATGTTTATGGTTATGATTTGAGTAG
1 GATTTGAGTAGTGAAATGGTTGAAGACATATTGTTTTGGTATGTTTATGGTTATGATTTGAGTAG
61352157 TGA
66 TGA
61352160 GATTTGAGTAGTGAAATGGTTGAAGACATATTGTTTTGGTATGTTTATGGTTATGATTTGAGTA
1 GATTTGAGTAGTGAAATGGTTGAAGACATATTGTTTTGGTATGTTTATGGTTATGATTTGAGTA
61352224 ATGAAATGGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.43
Consensus pattern (68 bp):
GATTTGAGTAGTGAAATGGTTGAAGACATATTGTTTTGGTATGTTTATGGTTATGATTTGAGTAG
TGA
Found at i:61354799 original size:20 final size:21
Alignment explanation
Indices: 61354757--61354800 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
61354747 ATCTTCTACT
* **
61354757 TTTATTTTATTTTTTTGTTTA
1 TTTATTTTATTATTTTGAATA
61354778 TTTA-TTTATTATTTTGAATA
1 TTTATTTTATTATTTTGAATA
61354798 TTT
1 TTT
61354801 CTTAAATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 16 0.80
21 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTATTTTATTATTTTGAATA
Found at i:61358716 original size:2 final size:2
Alignment explanation
Indices: 61358709--61358739 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
61358699 CATCAACATT
61358709 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
61358740 TAAAATTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61363428 original size:20 final size:21
Alignment explanation
Indices: 61363405--61363458 Score: 83
Period size: 22 Copynumber: 2.6 Consensus size: 21
61363395 TGCATATTCA
61363405 TTTTTATCAATATATATCCTTT
1 TTTTTATCAATATATATCC-TT
61363427 TTTTTATCAATATATATCCTT
1 TTTTTATCAATATATATCCTT
*
61363448 TTTCT-TCAATA
1 TTTTTATCAATA
61363459 ATTGGTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 6 0.19
21 6 0.19
22 19 0.61
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTTATCAATATATATCCTT
Found at i:61363433 original size:22 final size:22
Alignment explanation
Indices: 61363405--61363450 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
61363395 TGCATATTCA
61363405 TTTTTATCAATATATATCCTTT
1 TTTTTATCAATATATATCCTTT
61363427 TTTTTATCAATATATATCCTTT
1 TTTTTATCAATATATATCCTTT
61363449 TT
1 TT
61363451 CTTCAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTTATCAATATATATCCTTT
Found at i:61363468 original size:26 final size:24
Alignment explanation
Indices: 61363439--61363486 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
61363429 TTTATCAATA
*
61363439 TATATCCTTTTTCTTCAATAATTGGT
1 TATAT-CTTTTTATT-AATAATTGGT
*
61363465 TATATTTTTTTATTAATAATTG
1 TATATCTTTTTATTAATAATTG
61363487 AATTAGAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 8 0.40
25 7 0.35
26 5 0.25
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.58
Consensus pattern (24 bp):
TATATCTTTTTATTAATAATTGGT
Found at i:61364172 original size:18 final size:18
Alignment explanation
Indices: 61364151--61364196 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
61364141 AATAAAATAA
61364151 AATTTATAAATTCAAAAT
1 AATTTATAAATTCAAAAT
* *
61364169 AATTTTTAAAATTTAAAAT
1 AATTTAT-AAATTCAAAAT
61364188 -ATTTATAAA
1 AATTTATAAA
61364197 AATTTCAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 3 0.12
18 11 0.46
19 10 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.43
Consensus pattern (18 bp):
AATTTATAAATTCAAAAT
Found at i:61364186 original size:19 final size:19
Alignment explanation
Indices: 61364143--61364207 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
61364133 AAAAATAAAA
**
61364143 TAAAATAAAATTTATAAATT
1 TAAAATAATTTTTA-AAATT
*
61364163 CAAAATAATTTTTAAAATT
1 TAAAATAATTTTTAAAATT
*
61364182 TAAAAT-ATTTATAAAAATT
1 TAAAATAATTT-TTAAAATT
61364201 TCAAAAT
1 T-AAAAT
61364208 TTATATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 4 0.11
19 18 0.47
20 16 0.42
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATAATTTTTAAAATT
Found at i:61364197 original size:18 final size:18
Alignment explanation
Indices: 61364152--61364212 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
61364142 ATAAAATAAA
*
61364152 ATTTAT-AAATTCAAAAT
1 ATTTATAAAATTTAAAAT
*
61364169 AATTTTTAAAATTTAAAAT
1 -ATTTATAAAATTTAAAAT
*
61364188 ATTTATAAAAATTTCAAA-
1 ATTTAT-AAAATTTAAAAT
61364206 ATTTATA
1 ATTTATA
61364213 TTTTTAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
17 1 0.03
18 16 0.43
19 20 0.54
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
ATTTATAAAATTTAAAAT
Found at i:61364206 original size:27 final size:27
Alignment explanation
Indices: 61364176--61364267 Score: 82
Period size: 26 Copynumber: 3.4 Consensus size: 27
61364166 AATAATTTTT
*
61364176 AAAATTTAAAATATTTATAAAAATTTC
1 AAAATTTAAAATATTTATAAAAAATTC
* *
61364203 AAAATTT-ATATTTTTA-AGAAAAATTC
1 AAAATTTAAAATATTTATA-AAAAATTC
* * *
61364229 TAAAATTCTAAAAAATATATAAAAAGTT-
1 -AAAATT-TAAAATATTTATAAAAAATTC
61364257 AAAATTTAAAA
1 AAAATTTAAAA
61364268 AAATAATTTG
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
25 1 0.02
26 19 0.37
27 19 0.37
28 1 0.02
29 11 0.21
30 1 0.02
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (27 bp):
AAAATTTAAAATATTTATAAAAAATTC
Found at i:61374652 original size:327 final size:328
Alignment explanation
Indices: 61374058--61374721 Score: 1285
Period size: 327 Copynumber: 2.0 Consensus size: 328
61374048 GGGGTTTGAG
61374058 TCTCACCTCGAGCACAGAAGGCTTGAGTTTTTGCTGCTCACGTGGGGAAGAAGTTGGAGTCTGAT
1 TCTCACCTCGAGCACAGAAGGCTTGAGTTTTTGCTGCTCACGTGGGGAAGAAGTTGGAGTCTGAT
61374123 CCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGATAAGGATGCTGCTAATCGATGG
66 CCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGATAAGGATGCTGCTAATCGATGG
61374188 AGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAGGGAGGAAATTTAGGAGCCTGAT
131 AGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAGGGAGGAAATTTAGGAGCCTGAT
*
61374253 CAAGGACTTGGTGTTGGCCGAATGTTAGACTCTTGAGGGGCAAGAGTTGGCTGGCCAAGGGTCTT
196 CAAGGACTTGGTGTTGGCCGAATGTTAGACTCTTGAGGGGCAAGAGTTGGCCGGCCAAGGGTCTT
61374318 TAGTATAGGCAATTCGGCTAGGTCTAGGTG-TTTTTTTATTTTTACCCTTGTCGAATATTATTTC
261 TAGTATAGGCAATTCGGCTAGGTCTAGGTGTTTTTTTTATTTTTACCCTTGTCGAATATTATTTC
61374382 CCT
326 CCT
*
61374385 TCTCACCTCGAGCACAGAAGGCTTGGGTTTTTGCTGCTCACGTGGGGAAGAAGTTGGAGTCTGAT
1 TCTCACCTCGAGCACAGAAGGCTTGAGTTTTTGCTGCTCACGTGGGGAAGAAGTTGGAGTCTGAT
61374450 CCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGATAAGGATGCTGCTAATCGATGG
66 CCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGATAAGGATGCTGCTAATCGATGG
*
61374515 GGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAGGGAGGAAATTTAGGAGCCTGAT
131 AGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAGGGAGGAAATTTAGGAGCCTGAT
61374580 CAAGGACTTGGTGTTGGCCGAATGTTAGACTCTTGAGGGGCAAGAGTTGGCCGGCCAAGGGTCTT
196 CAAGGACTTGGTGTTGGCCGAATGTTAGACTCTTGAGGGGCAAGAGTTGGCCGGCCAAGGGTCTT
61374645 TAGTATAGGCAATTCGGCTAGGTCTAGGTGTTTTTTTTATTTTTACCCTTGTCGAATATTATTTC
261 TAGTATAGGCAATTCGGCTAGGTCTAGGTGTTTTTTTTATTTTTACCCTTGTCGAATATTATTTC
61374710 CCT
326 CCT
*
61374713 TCTCCCCTC
1 TCTCACCTC
61374722 TCTTTCATTC
Statistics
Matches: 332, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
327 287 0.86
328 45 0.14
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (328 bp):
TCTCACCTCGAGCACAGAAGGCTTGAGTTTTTGCTGCTCACGTGGGGAAGAAGTTGGAGTCTGAT
CCGGACTCTCCTGGCAGCATGCTGAAACGGTGCAAGGGGTGGATAAGGATGCTGCTAATCGATGG
AGGAGTTTGAGCTGATCAGGGGATTAGGTAAGGATGAGATAAGGGAGGAAATTTAGGAGCCTGAT
CAAGGACTTGGTGTTGGCCGAATGTTAGACTCTTGAGGGGCAAGAGTTGGCCGGCCAAGGGTCTT
TAGTATAGGCAATTCGGCTAGGTCTAGGTGTTTTTTTTATTTTTACCCTTGTCGAATATTATTTC
CCT
Found at i:61374754 original size:22 final size:22
Alignment explanation
Indices: 61374724--61374765 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61374714 CTCCCCTCTC
61374724 TTTCATTCATATTTTCTTTTCT
1 TTTCATTCATATTTTCTTTTCT
* *
61374746 TTTCTTTCATCTTTTCTTTT
1 TTTCATTCATATTTTCTTTT
61374766 TCCATCATAG
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:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTCATTCATATTTTCTTTTCT
Found at i:61376178 original size:27 final size:28
Alignment explanation
Indices: 61376126--61376178 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
61376116 ACTTGTAATA
*
61376126 GGGCTACGGCCCAGATTAACATTGATAT
1 GGGCTAAGGCCCAGATTAACATTGATAT
*
61376154 GGGCTAAGGCCCA-ATTAACTTTGAT
1 GGGCTAAGGCCCAGATTAACATTGAT
61376179 TTCTGAATAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 11 0.48
28 12 0.52
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGATTAACATTGATAT
Found at i:61378212 original size:27 final size:27
Alignment explanation
Indices: 61378182--61378233 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
61378172 AAAAAAGATA
* *
61378182 AATTTAAAAGAAATGAGGAAAAAATTT
1 AATTGAAAAGAAATGAGAAAAAAATTT
* *
61378209 AATTGAAATGAAATGATAAAAAAAT
1 AATTGAAAAGAAATGAGAAAAAAAT
61378234 GAAATTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.13, T:0.25
Consensus pattern (27 bp):
AATTGAAAAGAAATGAGAAAAAAATTT
Found at i:61378239 original size:27 final size:26
Alignment explanation
Indices: 61378106--61378243 Score: 90
Period size: 26 Copynumber: 5.3 Consensus size: 26
61378096 AAAATTTGAT
*
61378106 AATTTAAATGAAATGAGAAAAAAATA
1 AATTGAAATGAAATGAGAAAAAAATA
* * * *
61378132 AATTGGAATGAAACGA-TACAAAAT-
1 AATTGAAATGAAATGAGAAAAAAATA
*
61378156 --TT-AAATGAAAATTGAAAAAAAAGATA
1 AATTGAAATG-AAA-TGAGAAAAAA-ATA
* * * *
61378182 AATTTAAAAGAAATGAGGAAAAAATTT
1 AATTGAAATGAAATGA-GAAAAAAATA
*
61378209 AATTGAAATGAAATGATAAAAAAATGA
1 AATTGAAATGAAATGAGAAAAAAAT-A
61378236 AATT-AAAT
1 AATTGAAAT
61378244 TTGAAAGAAA
Statistics
Matches: 84, Mismatches: 18, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
21 4 0.05
22 5 0.06
23 2 0.02
24 4 0.05
25 8 0.10
26 24 0.29
27 22 0.26
28 11 0.13
29 4 0.05
ACGTcount: A:0.62, C:0.01, G:0.13, T:0.24
Consensus pattern (26 bp):
AATTGAAATGAAATGAGAAAAAAATA
Found at i:61378286 original size:76 final size:76
Alignment explanation
Indices: 61378106--61378315 Score: 235
Period size: 76 Copynumber: 2.8 Consensus size: 76
61378096 AAAATTTGAT
* * * * * * *
61378106 AATTTAAATGAAATGAGAAAAAAATAAATTGGAATGAAACGATACAAAATTTAAATGAAAATTGA
1 AATTTAAATGAAATGGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATTAAATGAAAATTGA
61378171 AAAAAAAGATA
66 AAAAAAAGATA
* * * *
61378182 AATTTAAAAGAAATGAGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATGAAATTAAATTTG
1 AATTTAAATGAAATG-GGAAAAAATTTAATTGAAATGAAATGATAAAAAAATTAAATGAAAATTG
*
61378247 -AAAGAAAGATA
65 AAAAAAAAGATA
** * *
61378258 AATTTAAATGAAATGGGAGAAACTTTTAATTTAAAT-AAGATGAGAAAAAAATTAAATG
1 AATTTAAATGAAATGGGA-AAAAATTTAATTGAAATGAA-ATGATAAAAAAATTAAATG
61378316 GAAAGATAGA
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
75 5 0.04
76 68 0.61
77 39 0.35
ACGTcount: A:0.59, C:0.01, G:0.14, T:0.25
Consensus pattern (76 bp):
AATTTAAATGAAATGGGAAAAAATTTAATTGAAATGAAATGATAAAAAAATTAAATGAAAATTGA
AAAAAAAGATA
Found at i:61378452 original size:20 final size:21
Alignment explanation
Indices: 61378429--61378481 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
61378419 AGTATAAATG
61378429 AATTGAAAAAAATA-AATTTA
1 AATTGAAAAAAATATAATTTA
61378449 AATTGAAAAAAA-ATAATTTA
1 AATTGAAAAAAATATAATTTA
61378469 AA-TGAAATAAAAT
1 AATTGAAA-AAAAT
61378482 TAGAATGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.20
20 24 0.80
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (21 bp):
AATTGAAAAAAATATAATTTA
Found at i:61378505 original size:16 final size:17
Alignment explanation
Indices: 61378469--61378517 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
61378459 AAATAATTTA
*
61378469 AATGAAATAAAAT-TAG
1 AATGAAATAAAATGAAG
61378485 AATGAAATAAAATGAAG
1 AATGAAATAAAATGAAG
61378502 -ATGAAATGAAAATGAA
1 AATGAAAT-AAAATGAA
61378518 AAAAAAAGAG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 20 0.67
17 10 0.33
ACGTcount: A:0.63, C:0.00, G:0.16, T:0.20
Consensus pattern (17 bp):
AATGAAATAAAATGAAG
Found at i:61378831 original size:15 final size:17
Alignment explanation
Indices: 61378818--61378882 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 17
61378808 TTAATTAATT
61378818 AAAAAAATATTAATATG
1 AAAAAAATATTAATATG
*
61378835 AAAAAAATAATATAAAATG
1 AAAAAAAT-AT-TAATATG
61378854 AATTGAAAAA-A-TAATATG
1 AA---AAAAATATTAATATG
61378872 AAAAATAATAT
1 AAAAA-AATAT
61378883 GAAAAGAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
15 3 0.08
16 2 0.05
17 9 0.24
18 10 0.26
19 8 0.21
20 1 0.03
22 5 0.13
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (17 bp):
AAAAAAATATTAATATG
Found at i:61378863 original size:12 final size:12
Alignment explanation
Indices: 61378828--61378918 Score: 65
Period size: 12 Copynumber: 7.8 Consensus size: 12
61378818 AAAAAAATAT
61378828 TAATATGAAAAA
1 TAATATGAAAAA
61378840 -AATAAT-ATAAAA
1 TAAT-ATGA-AAAA
61378852 TGAAT-TGAAAAAA
1 T-AATATG-AAAAA
61378865 TAATATGAAAAA
1 TAATATGAAAAA
61378877 TAATATGAAAAGA
1 TAATATGAAAA-A
61378890 -AA-AT----AA
1 TAATATGAAAAA
61378896 TAATATGAAAAAA
1 TAATATG-AAAAA
61378909 TAATATGAAA
1 TAATATGAAA
61378919 TGAATTGAAA
Statistics
Matches: 64, Mismatches: 0, Indels: 30
0.68 0.00 0.32
Matches are distributed among these distances:
6 1 0.02
7 3 0.05
8 2 0.03
11 6 0.09
12 31 0.48
13 17 0.27
14 4 0.06
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (12 bp):
TAATATGAAAAA
Found at i:61378864 original size:13 final size:13
Alignment explanation
Indices: 61378828--61378918 Score: 75
Period size: 13 Copynumber: 6.8 Consensus size: 13
61378818 AAAAAAATAT
61378828 TAATATGAAAAAAA
1 TAATATG-AAAAAA
61378842 TAATAT---AAAA
1 TAATATGAAAAAA
61378852 TGAAT-TGAAAAAA
1 T-AATATGAAAAAA
61378865 TAATATG-AAAAA
1 TAATATGAAAAAA
61378877 TAATATGAAAAGAAAATAA
1 TAATAT-----GAAAA-AA
61378896 TAATATGAAAAAA
1 TAATATGAAAAAA
61378909 TAATATGAAA
1 TAATATGAAA
61378919 TGAATTGAAA
Statistics
Matches: 65, Mismatches: 0, Indels: 25
0.72 0.00 0.28
Matches are distributed among these distances:
10 6 0.09
11 3 0.05
12 14 0.22
13 19 0.29
14 11 0.17
17 1 0.02
18 3 0.05
19 8 0.12
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (13 bp):
TAATATGAAAAAA
Found at i:61378866 original size:23 final size:24
Alignment explanation
Indices: 61378829--61378945 Score: 108
Period size: 23 Copynumber: 5.1 Consensus size: 24
61378819 AAAAAATATT
61378829 AATATGAAAAAAATAATATAAAATG
1 AATATG-AAAAAATAATATAAAATG
61378854 AAT-TGAAAAAATAATATGAAAAAT-
1 AATATGAAAAAATAATAT--AAAATG
*
61378878 AATATGAAAAGA-AA-AT--AAT-
1 AATATGAAAAAATAATATAAAATG
*
61378897 AATATGAAAAAATAATATGAAATG
1 AATATGAAAAAATAATATAAAATG
*
61378921 AAT-TGAAAAAAATAAT-TGAAATG
1 AATATG-AAAAAATAATATAAAATG
61378944 AA
1 AA
61378946 ATAAAATAAA
Statistics
Matches: 81, Mismatches: 2, Indels: 20
0.79 0.02 0.19
Matches are distributed among these distances:
19 14 0.17
20 2 0.02
21 2 0.02
23 28 0.35
24 20 0.25
25 15 0.19
ACGTcount: A:0.66, C:0.00, G:0.10, T:0.24
Consensus pattern (24 bp):
AATATGAAAAAATAATATAAAATG
Found at i:61378872 original size:37 final size:36
Alignment explanation
Indices: 61378828--61378957 Score: 139
Period size: 37 Copynumber: 3.7 Consensus size: 36
61378818 AAAAAAATAT
61378828 TAATATGAAAAAAATAATATAAAATGAATTGAAAAAA
1 TAATATG-AAAAAATAATATAAAATGAATTGAAAAAA
*
61378865 TAATATG-AAAAATAATATGAAAA-G-A---AAATAA
1 TAATATGAAAAAATAATAT-AAAATGAATTGAAAAAA
*
61378896 TAATATGAAAAAATAATATGAAATGAATTGAAAAAAA
1 TAATATGAAAAAATAATATAAAATGAATTG-AAAAAA
*
61378933 TAAT-TGAAATGAAATAAAATAAAAT
1 TAATATGAAA--AAATAATATAAAAT
61378958 TAAAATAAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 19
0.76 0.05 0.19
Matches are distributed among these distances:
31 15 0.19
32 12 0.15
33 1 0.01
34 1 0.01
35 12 0.15
36 9 0.12
37 16 0.21
38 12 0.15
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.25
Consensus pattern (36 bp):
TAATATGAAAAAATAATATAAAATGAATTGAAAAAA
Found at i:61378901 original size:31 final size:31
Alignment explanation
Indices: 61378858--61378918 Score: 106
Period size: 32 Copynumber: 2.0 Consensus size: 31
61378848 AAAATGAATT
61378858 GAAAAAATAATATG-AAAAATAATATGAAAA
1 GAAAAAATAATATGAAAAAATAATATGAAAA
61378888 GAAAATAATAATATGAAAAAATAATATGAAA
1 GAAAA-AATAATATGAAAAAATAATATGAAA
61378919 TGAATTGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 5 0.17
31 9 0.31
32 15 0.52
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (31 bp):
GAAAAAATAATATGAAAAAATAATATGAAAA
Found at i:61378953 original size:19 final size:19
Alignment explanation
Indices: 61378818--61378954 Score: 78
Period size: 19 Copynumber: 7.4 Consensus size: 19
61378808 TTAATTAATT
*
61378818 AAAAA-AATATTAATATGAA
1 AAAAATAATATGAA-ATGAA
*
61378837 AAAAATAATATAAAATGAA
1 AAAAATAATATGAAATGAA
* *
61378856 TTGAAAA-AATA--ATATG--
1 --AAAAATAATATGAAATGAA
*
61378872 AAAAATAATATGAAAAGAA
1 AAAAATAATATGAAATGAA
*
61378891 AATAATAATATGAAA--AA
1 AAAAATAATATGAAATGAA
* *
61378908 ATAATATGAA-ATGAATTGAA
1 A-AAAAT-AATATGAAATGAA
61378928 AAAAATAAT-TGAAATGAA
1 AAAAATAATATGAAATGAA
61378946 ATAAAATAA
1 A-AAAATAA
61378955 AATTAAAATA
Statistics
Matches: 92, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
14 4 0.04
15 4 0.04
17 6 0.07
18 23 0.25
19 37 0.40
20 14 0.15
21 4 0.04
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
AAAAATAATATGAAATGAA
Found at i:61378956 original size:24 final size:24
Alignment explanation
Indices: 61378903--61378957 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
61378893 TAATAATATG
* *
61378903 AAAAAATAATATGAAATGAATTGA
1 AAAAAATAATATGAAATGAAATAA
61378927 AAAAAATAAT-TGAAATGAAATAA
1 AAAAAATAATATGAAATGAAATAA
61378950 AATAAAAT
1 AA-AAAAT
61378958 TAAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 13 0.46
24 15 0.54
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (24 bp):
AAAAAATAATATGAAATGAAATAA
Found at i:61379602 original size:111 final size:107
Alignment explanation
Indices: 61379359--61379651 Score: 406
Period size: 111 Copynumber: 2.7 Consensus size: 107
61379349 TAGGATCTGT
* *
61379359 ATTGACAGGCCAACACCAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTCAAAGGCC
1 ATTGACAGGCCAGCACCAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGCC
61379424 AGCACCAAAAAAATTAATTTTTTTTAATTACTGGTGCCGGCC
66 AGCACCAAAAAAATTAATTTTTTTTAATTACTGGTGCCGGCC
* * * *
61379466 ATTGATAGGCCAGCACCAATTTTTTTTTTTGAAAACTCGTATTCTGGTGCCAGCCATTAAAAGGC
1 ATTGACAGGCCAGCACCAA-TTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
*
61379531 CAGCACCAAAAAAATTTGAATTTTTTTTAAATTATTGGTGCCGGCC
65 CAGCACCAAAAAAA-TT-AATTTTTTTT-AATTACTGGTGCCGGCC
* * * * * * * *
61379577 ATTGACAGGTCAGCACCCAAATTTTTTTTAAAAAATTCATATTCTTGTGCCGGCCTTTGACAGGC
1 ATTGACAGGCCAGCA-CCAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGC
61379642 CAGCACCAAA
65 CAGCACCAAA
61379652 TTACTGGTGC
Statistics
Matches: 162, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
107 17 0.10
108 55 0.34
109 2 0.01
110 10 0.06
111 74 0.46
112 4 0.02
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (107 bp):
ATTGACAGGCCAGCACCAATTTTTTTTTTAAAAACTCGTATTCTGGTGCCGGCCTTTAAAAGGCC
AGCACCAAAAAAATTAATTTTTTTTAATTACTGGTGCCGGCC
Found at i:61385435 original size:50 final size:50
Alignment explanation
Indices: 61385360--61385455 Score: 149
Period size: 50 Copynumber: 1.9 Consensus size: 50
61385350 GATATGAGAG
* *
61385360 TTATTGCCAAATTTAGGCAACTAATAGTGATTTAACCTTCCAACTTAGAA
1 TTATTGCCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
*
61385410 TTATTGCCAAATTT-GGACACCTAATAGTAATTTAACCTTCAAACTT
1 TTATTGCCAAATTTAGG-CAACTAATAGTAATTTAACCTTCAAACTT
61385456 TAAAGTGAGC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
49 2 0.05
50 40 0.95
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (50 bp):
TTATTGCCAAATTTAGGCAACTAATAGTAATTTAACCTTCAAACTTAGAA
Found at i:61386167 original size:2 final size:2
Alignment explanation
Indices: 61386162--61386195 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
61386152 ACACACACAC
61386162 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
61386196 TATGTATTTA
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:61386788 original size:135 final size:136
Alignment explanation
Indices: 61386571--61387059 Score: 417
Period size: 136 Copynumber: 3.6 Consensus size: 136
61386561 CCAATCAACC
** * * * ** *
61386571 ATCTCAACCTATTTGTTTGGATTTTATGTTGGT-TTTTTTGTCACTTATGTCTGTGATTCATTAC
1 ATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTAT-T-AATTATGTCTAAGATTCATTAA
*
61386635 AAGATCAATGTTTATTCATACATTGCTAATCTAAGCGTCCT-TGCAGTGT-AAAAACCAAACCAC
64 AAGATCAATGTTTATTCATACATTGCTAATATAAGCGT-CTGTGCAGTGTAAAAAACCAAACCAC
*
61386698 CTTGCATTA
128 CATGCATTA
* *
61386707 ATCTCAATATATTTGTTTTGATTTTATGTTGATGTTTTATTAATTATGTCTAAGATTCACTAAAA
1 ATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAAGATTCATTAAAA
* * * * * * * *
61386772 GATCAATTTTTGTTCATATATTTCTAGTATAAGTGTCTGTGCAGTGTAAAAAACCAAGCCATCAT
66 GATCAATGTTTATTCATACATTGCTAATATAAGCGTCTGTGCAGTGTAAAAAACCAAACCACCAT
* *
61386837 GTATTT
131 GCATTA
* * * * *
61386843 ATCTCAATATGTTTGTTTGGATTTTTATGTTGATAGTTTTGTCAGTTATGTCTAACATTCATTAA
1 ATCTCAATATATTTGTTTGGA-TTTTATGTTGAT-GTTTTATTAATTATGTCTAAGATTCATT-A
* * * * * * * **
61386908 AAGAGATCAATGCTCATTCATA-TTTGCTAATAT-TGCGT-TTTCGTAATGT-AAAAACCCGACC
63 AA-AGATCAATGTTTATTCATACATTGCTAATATAAGCGTCTGT-GCAGTGTAAAAAACCAAACC
* *
61386969 ACCATGTAATA
126 ACCATGCATTA
* * * *
61386980 ATCTC---A-ATGTGTTTGGATTTTATGTTGATGTTTT-TCTCATTTATGTCTAACATTCATTCA
1 ATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTAT-T-AATTATGTCTAAGATTCATTAA
*
61387040 AAGATCAATGTTCATTCATA
64 AAGATCAATGTTTATTCATA
61387060 TGTGTTTTGT
Statistics
Matches: 290, Mismatches: 53, Indels: 26
0.79 0.14 0.07
Matches are distributed among these distances:
130 19 0.07
131 7 0.02
132 31 0.11
133 9 0.03
134 3 0.01
135 56 0.19
136 67 0.23
137 41 0.14
138 31 0.11
139 11 0.04
140 15 0.05
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.43
Consensus pattern (136 bp):
ATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAAGATTCATTAAAA
GATCAATGTTTATTCATACATTGCTAATATAAGCGTCTGTGCAGTGTAAAAAACCAAACCACCAT
GCATTA
Found at i:61386847 original size:136 final size:135
Alignment explanation
Indices: 61386372--61387059 Score: 488
Period size: 128 Copynumber: 5.2 Consensus size: 135
61386362 GATGTTTTCT
* * * ** * * * *
61386372 TTAAAAGATCAATGCTTACTCATA-TTTGCTAATACT--GCGTTTTTGCAATGTAAACACCAGAT
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATA-TAAGCGTCCTTGCAGTGTAAAAACCAAAC
* * * ** * *
61386434 CACCATGTATTAATCTC-A-ATATTTGTTTGGATTCTATGTTAATGTTTCGTCACTTATGTCTAA
65 CACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAA
61386497 GATTCA
130 GATTCA
** * ** * * *
61386503 TTAAAAGATCAATGTCCATTCGTGTATTGCTAATATAAGTGT-CTGTGCAGTATAAAAACCAATC
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCT-TGCAGTGTAAAAACCAAAC
* * * * *
61386567 AACCAT-C-TCAA-C-C----TATTTGTTTGGATTTTATGTTGGT-TTTTTTGTCACTTATGTCT
65 CACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTAT-T-AATTATGTCT
**
61386623 GTGATTCA
128 AAGATTCA
* *
61386631 TTACAAGATCAATGTTTATTCATACATTGCTAATCTAAGCGTCCTTGCAGTGTAAAAACCAAACC
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAAACC
* *
61386696 ACCTTGCATTAATCTCAATATATTTGTTTTGATTTTATGTTGATGTTTTATTAATTATGTCTAAG
66 ACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAAG
61386761 ATTCA
131 ATTCA
* * * * * * * *
61386766 CTAAAAGATCAATTTTTGTTCATATATTTCTAGTATAAGTGT-CTGTGCAGTGTAAAAAACCAAG
1 TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCT-TGCAGTGT-AAAAACCAAA
* * * * * * *
61386830 CCATCATGTATTTATCTCAATATGTTTGTTTGGATTTTTATGTTGATAGTTTTGTCAGTTATGTC
64 CCACCATGCATTAATCTCAATATATTTGTTTGGA-TTTTATGTTGAT-GTTTTATTAATTATGTC
*
61386895 TAACATTCA
127 TAAGATTCA
* * * * * * * **
61386904 TTAAAAGAGATCAATGCTCATTCATA-TTTGCTAATAT-TGCGT-TTTCGTAATGTAAAAACCCG
1 TT-AAA-AGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTT-GCAGTGTAAAAACCAA
* * * *
61386966 ACCACCATGTAATAATCTC---A-ATGTGTTTGGATTTTATGTTGATGTTTT-TCTCATTTATGT
63 ACCACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTAT-T-AATTATGT
*
61387026 CTAACATTCA
126 CTAAGATTCA
* *
61387036 TTCAAAGATCAATGTTCATTCATA
1 TTAAAAGATCAATGTTTATTCATA
61387060 TGTGTTTTGT
Statistics
Matches: 442, Mismatches: 90, Indels: 51
0.76 0.15 0.09
Matches are distributed among these distances:
126 4 0.01
127 21 0.05
128 71 0.16
129 4 0.01
130 23 0.05
131 30 0.07
132 42 0.10
133 30 0.07
134 3 0.01
135 56 0.13
136 60 0.14
137 40 0.09
138 32 0.07
139 11 0.02
140 15 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (135 bp):
TTAAAAGATCAATGTTTATTCATACATTGCTAATATAAGCGTCCTTGCAGTGTAAAAACCAAACC
ACCATGCATTAATCTCAATATATTTGTTTGGATTTTATGTTGATGTTTTATTAATTATGTCTAAG
ATTCA
Found at i:61402442 original size:27 final size:26
Alignment explanation
Indices: 61402405--61402485 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 26
61402395 AGCATGGCTG
* *
61402405 CCAGAACAGATATTGTGACAGAGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
61402431 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
61402458 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-TTGTGGCAGAGCCA
61402485 C
1 C
61402486 TAGTATACTC
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
26 12 0.24
27 39 0.76
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:61423030 original size:23 final size:22
Alignment explanation
Indices: 61422987--61423030 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
61422977 CAGTTATCCG
* * *
61422987 TTTTTTTTTCTTTTTCTTTTCC
1 TTTTTTTCTCTTTTACGTTTCC
61423009 TTTTGTTTCTCTTTTACGTTTC
1 TTTT-TTTCTCTTTTACGTTTC
61423031 GTTCTCTCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.02, C:0.18, G:0.05, T:0.75
Consensus pattern (22 bp):
TTTTTTTCTCTTTTACGTTTCC
Done.