Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold36
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: 4808052
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18886 characters in sequence are not A, C, G, or T
File 5 of 28
Found at i:767278 original size:61 final size:61
Alignment explanation
Indices: 767175--767504 Score: 485
Period size: 61 Copynumber: 5.4 Consensus size: 61
767165 CTCTTTTAGC
*
767175 CCTTCAAGTCCTCAAAGAGCAGGACACCTTTT-CTTTTCAAAGCCCACAC-AGGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTT-AAAGCCCACACGA-GTTGGTGGCA
767236 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
*
767297 CCTT-TAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* * * *
767357 -CTTTTCAGTCCTCAAAGAGCAGGACAACTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTCT-AGTCCTCAAAGAGCAGGAC-ACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
* **
767419 CCTT-TAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
767478 -CTTGCTAGTCCTCAAAGAGCAGGACAC
1 CCTT-CTAGTCCTCAAAGAGCAGGACAC
767505 TCTCTCCTTT
Statistics
Matches: 249, Mismatches: 12, Indels: 17
0.90 0.04 0.06
Matches are distributed among these distances:
58 3 0.01
59 27 0.11
60 83 0.33
61 94 0.38
62 39 0.16
63 3 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.26
Consensus pattern (61 bp):
CCTTCTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCA
Found at i:767454 original size:121 final size:120
Alignment explanation
Indices: 767181--767503 Score: 515
Period size: 121 Copynumber: 2.7 Consensus size: 120
767171 TAGCCCTTCA
* *
767181 AGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTCTAGTC
1 AGTCCTCAAAGAGCAGGACACCTCTTCTTTT-AAAGCCCACACA-GTTGGTGGCACTTTCTAGTC
*
767246 CTCAAAGAGCAGGAC-ACCTTTTCCTTTTAAAGCCCACACGAGTTGGTGGCACCTTT
64 CTCAAAGAGCAGGACAACCTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
767302 AGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACGAGTTGGTGGCACTTT-TCAGT
1 AGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACAC-AGTTGGTGGCACTTTCT-AGT
* *
767366 CCTCAAAGAGCAGGACAACTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
63 CCTCAAAGAGCAGGACAACCTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
* *
767424 AGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACATAAGTTGGTGGCACTTGCTAGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACA-CAGTTGGTGGCACTTTCTAGTCC
767489 TCAAAGAGCAGGACA
65 TCAAAGAGCAGGACA
767504 CTCTCTCCTT
Statistics
Matches: 189, Mismatches: 7, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
120 1 0.01
121 117 0.62
122 71 0.38
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (120 bp):
AGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAGTTGGTGGCACTTTCTAGTCCT
CAAAGAGCAGGACAACCTTTTCCTTTTAAAGCCCACACGAGTTAGTGGCACCTTT
Found at i:767590 original size:99 final size:98
Alignment explanation
Indices: 767419--767602 Score: 325
Period size: 99 Copynumber: 1.9 Consensus size: 98
767409 GTTAGTGGCA
*
767419 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACATAAGTTGGTGGCACTTGCT
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTT-CT
767484 AGTCCTCAAAGAGCAGGACACTCTCTCCTTTCAC
65 AGTCCTCAAAGAGCAGGACACTCTCTCCTTTCAC
767518 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-
1 CCTTTAGTCCTCAAAGAGCAGGACACCTCTT-CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTC
767582 TAGTCCTCAAAGAGCAGGACA
64 TAGTCCTCAAAGAGCAGGACA
767603 ACTTTTTCCT
Statistics
Matches: 82, Mismatches: 1, Indels: 4
0.94 0.01 0.05
Matches are distributed among these distances:
99 52 0.63
100 27 0.33
101 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (98 bp):
CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTCTA
GTCCTCAAAGAGCAGGACACTCTCTCCTTTCAC
Found at i:767624 original size:60 final size:60
Alignment explanation
Indices: 767518--768559 Score: 987
Period size: 60 Copynumber: 17.6 Consensus size: 60
767508 CTCCTTTCAC
* *
767518 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
767578 CCTTTAGTCCTCAAAGAGCAGGACAACTTTTTCCTTTTAAAG-CCACACAAGCTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGAC-ACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
767638 CCTTTCAGTCCTCAAAGAGCAGG--AC----GCCTTCTAAAGCCCACACAAGTTAGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
767693 -TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTT--AGTCCTCAAAGAGCAGGACAC---TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
767757 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTCCCATTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCC-TTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
767818 CCTTCAGTCCTTAAAGAGCAGGATGCTTTTT--TTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** ** *
767876 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTT--TTCCAAAGCCCACACAAGCTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
767934 CCTTTCAGTCCTCAAAGAGCAGGACGC--CTTCC----AAAGCCCACACAAGTTAGCGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
767989 -TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTT--AGTCCTCAAAGAGCAGGACAC--TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
768052 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** * *
768112 CCTTCAGTCCTCAAAGAGCAGGATGCTTTCTT--TTTGCAAAGCCCACACAAGCTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTT-TTCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* *
768172 CCTTTCAGTCCTCAAAGAGCAGG--AC----GCC-TTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTT-AGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* ** ** *
768226 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTT--TTCCAAAGCCCACACAAGCTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
768284 CCTTTTAGTCCTCAAAGAGCAGGACGC--CTTCC----AAAGCCCACACAAGTTAGCGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
768339 -TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
1 CCTTT--AGTCCTCAAAGAGCAGGACAC--TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
768402 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * **
768462 CCTTCAGTCCTCAAAGAGCATGATGCTTTCTT--TTTGTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACACTTT-TTCCTTT-TAAAGCCCACACAAGTTGGTGGCA
* *
768522 -CTTCCTAGTCCTCAAAGAGCAAGAC-GTTCTTTCCTTTT
1 CCTT--TAGTCCTCAAAGAGCAGGACACTT-TTTCCTTTT
768560 CTTCCTTTCC
Statistics
Matches: 831, Mismatches: 90, Indels: 121
0.80 0.09 0.12
Matches are distributed among these distances:
53 20 0.02
54 42 0.05
55 118 0.14
57 6 0.01
58 114 0.14
59 58 0.07
60 209 0.25
61 122 0.15
62 45 0.05
63 62 0.07
64 32 0.04
65 3 0.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACACTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:768154 original size:296 final size:293
Alignment explanation
Indices: 767518--768547 Score: 1274
Period size: 296 Copynumber: 3.5 Consensus size: 293
767508 CTCCTTTCAC
* ** *
767518 CCTTTAGTCCTCAAAGAGCAGGACACCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 CCTTCAGTCCTCAAAGAGCAGGA-TGCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
767583 AGTCCTCAAAGAGCAGGACAACTTTTTCCTTTTAAAG-CCACACAAGCTGGTGGCACCTTTCAGT
65 AGTCCTCAAAGAGCAGGA-TGC-TTTT--TTTCAAAGCCCACACAAGCTGGTGGCACCTTTCAGT
*
767647 CCTCAAAGAGCAGGACGCCTTCTAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAG
126 CCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAG
767712 CAGGACACTTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCA
191 CAGGACAC-TTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCA
* * *
767777 GGACGCCTTTCCCATTTCAAAGCCCACACAAGTTGGTGGCA
255 GGACACATTT-CC-TTTTAAAGCCCACACAAGTTGGTGGCA
* *
767818 CCTTCAGTCCTTAAAGAGCAGGATGCT-TT-TTTTTCAAAGCCCACACAAGTTGGTGGCACCTTC
1 CCTTCAGTCCTCAAAGAGCAGGATGCTCTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTC
767881 AGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCT
65 AGTCCTCAAAGAGCAGGATGCTTTTTTT-CAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCT
*
767946 CAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTCAAAGAGCAG
129 CAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAG
768011 GACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGAC
194 GACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGAC
768076 ACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
259 ACAT-TTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
768112 CCTTCAGTCCTCAAAGAGCAGGATGCT-TTCTTTTTGCAAAGCCCACACAAGCTGGTGGCACCTT
1 CCTTCAGTCCTCAAAGAGCAGGATGCTCTTCCTTTT--AAAGCCCACACAAGTTGGTGGCACC-T
* * *
768176 TCAGTCCTCAAAGAGCAGGACGC----CTTCAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCC
63 TCAGTCCTCAAAGAGCAGGATGCTTTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCC
* * * *
768236 TCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCTTTT--AGTCCTCAA
128 TCAAAGAGCAGGACGC----CTTCCAAAGCCCACACAAGTTAGTGGCA--TTTTCCAGTCCTCAA
* ** * * *
768299 AGAGCAGGACGC-------C-TTCCAAAGCCCACACAAGTTAGCGGCA-TTTTCCAGTCCTCAAA
187 AGAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTT--AGTCCTCAAA
* * * *
768355 GAGCAGGACACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCA
250 GAGCAGGACAC---ATTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
768402 CCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 CCTTCAGTCCTCAAAGAGCAGGATGC-TCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * *
768467 AGTCCTCAAAGAGCATGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGT
65 AGTCCTCAAAGAGCAGGATGC-TT-TTTTT-CAAAGCCCACACAAGCTGGTGGCACCTTTC-AGT
*
768531 CCTCAAAGAGCAAGACG
126 CCTCAAAGAGCAGGACG
768548 TTCTTTCCTT
Statistics
Matches: 655, Mismatches: 46, Indels: 61
0.86 0.06 0.08
Matches are distributed among these distances:
286 3 0.00
287 23 0.04
288 22 0.03
289 22 0.03
290 75 0.11
291 25 0.04
292 32 0.05
293 2 0.00
294 57 0.09
295 120 0.18
296 154 0.24
297 50 0.08
298 47 0.07
299 2 0.00
300 21 0.03
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.25
Consensus pattern (293 bp):
CCTTCAGTCCTCAAAGAGCAGGATGCTCTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCA
GTCCTCAAAGAGCAGGATGCTTTTTTTCAAAGCCCACACAAGCTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGTGGCATTTTCCAGTCCTCAAAGAGCAGGA
CACTTTTTTTCTTTTTAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACAC
ATTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:768262 original size:350 final size:351
Alignment explanation
Indices: 767669--768552 Score: 1436
Period size: 350 Copynumber: 2.5 Consensus size: 351
767659 GGACGCCTTC
* * * * *
767669 TAAAGCCCACACAAGTTAGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACACTTTTTTTTCTTTT
1 TAAAGCCCACACGAGTTAGTGGCACCTTT--AGTCCTCAAAGAGCAGGACAC---ATCTTCCTTT
* * * * **
767733 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTCCCATTT-CAA
61 TAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATG-CTTT-CTTTTTGCAA
* * *
767797 AGCCCACACAAGTTGGTGGCACC-TTCAGTCCTTAAAGAGCAGGATGCTTTTTTTTCAAAGCCCA
124 AGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC----TCTTCAAAGCCCA
767861 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGC
185 CACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGC
767926 TGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATT
250 TGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATT
767991 TTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTT
315 TTCCAGTCCTCAAAGAGCAGGACACTTTTTTTCTTTT
768028 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
1 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
768093 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
66 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
*
768158 ACAAGCTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-CTTCAAAGCCCACACAAGTTGGT
131 ACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTCTTCAAAGCCCACACAAGTTGGT
768222 GGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCT
196 GGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCT
*
768287 TTTAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTC
261 TTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTC
768352 AAAGAGCAGGACACTTTTTTTCTTTT
326 AAAGAGCAGGACACTTTTTTTCTTTT
768378 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
1 TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
* *
768443 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCATGATGCTTTCTTTTTGTAAAGCCCAC
66 CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
* * *
768508 ACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAAGACGTTCTT
131 ACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGCTCTT
768553 TCCTTTTCTT
Statistics
Matches: 498, Mismatches: 22, Indels: 18
0.93 0.04 0.03
Matches are distributed among these distances:
349 4 0.01
350 337 0.68
351 3 0.01
353 4 0.01
354 29 0.06
355 74 0.15
358 21 0.04
359 23 0.05
360 3 0.01
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (351 bp):
TAAAGCCCACACGAGTTAGTGGCACCTTTAGTCCTCAAAGAGCAGGACACATCTTCCTTTTAAAG
CCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAGCCCAC
ACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTCTTCAAAGCCCACACAAGTTGGT
GGCACCTTCAGTCCTCAAAGAGCAGGATGCTTTTTTTCCAAAGCCCACACAAGCTGGTGGCACCT
TTCAGTCCTCAAAGAGCAGGACGCCTTCCAAAGCCCACACAAGTTAGCGGCATTTTCCAGTCCTC
AAAGAGCAGGACACTTTTTTTCTTTT
Found at i:768645 original size:103 final size:98
Alignment explanation
Indices: 768464--768739 Score: 364
Period size: 103 Copynumber: 2.8 Consensus size: 98
768454 TGGTGGCACC
* * *
768464 TTCAGTCCTCAAAGAGCATGATGCTTTCTTTTTGTAAAGCCCACACAAGTTGGTGGCACTTCCTA
1 TTCAGTCCTCAAAGAGCAGGACGCTTTC-TTTT-CAAAGCCCACACAAGTTGGTGGCACTTCCTA
*
768529 GTCCTCAAAGAGCAAGACGTTCTTTCCTTTTCTTCCT
64 GTCCTCAAAGAGCAAGACGTTCTTTCC-TTTC-GCCT
768566 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
1 TT-CAGTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT
*
768631 AGTCCTCAAAGAGCAGGACGTTCTTTCCTTTCGCCT
63 AGTCCTCAAAGAGCAAGACGTTCTTTCCTTTCGCCT
** * *
768667 TTTTGTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTT-TTCAG
1 TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCT-AG
768727 TCCTCAAAGAGCA
65 TCCTCAAAGAGCA
768740 GGATGCTTTC
Statistics
Matches: 161, Mismatches: 9, Indels: 16
0.87 0.05 0.09
Matches are distributed among these distances:
93 1 0.01
94 45 0.28
95 1 0.01
99 1 0.01
100 18 0.11
101 5 0.03
102 6 0.04
103 75 0.47
104 5 0.03
105 4 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (98 bp):
TTCAGTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTCCTAGT
CCTCAAAGAGCAAGACGTTCTTTCCTTTCGCCT
Found at i:768846 original size:61 final size:59
Alignment explanation
Indices: 768671--768861 Score: 234
Period size: 57 Copynumber: 3.3 Consensus size: 59
768661 TCGCCTTTTT
*
768671 GTCCTCAAAGAGCAGGACAC---C-TTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
* * * * *
768726 GTCCTCAAAGAGCAGGATGCTTTCTTTT--TATCCCACACTAGTTGGTGGCA-TCTTCCA
1 GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACT-TTTCA
* *
768783 GTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGACCACACGAGTTGGTGGCACTTTTCA
1 GTCCTCAAAGAGCAGGACG-C-TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
768844 GTCCTCAAAGAGCAGGAC
1 GTCCTCAAAGAGCAGGAC
768862 ACACTTCTTT
Statistics
Matches: 114, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
55 18 0.16
56 1 0.01
57 41 0.36
58 2 0.02
59 11 0.10
61 40 0.35
62 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (59 bp):
GTCCTCAAAGAGCAGGACGCTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCA
Found at i:768891 original size:42 final size:41
Alignment explanation
Indices: 768844--768976 Score: 148
Period size: 42 Copynumber: 3.2 Consensus size: 41
768834 GCACTTTTCA
*
768844 GTCCTCAAAGAGCAGGACACACTTCTTTCTCTTTTTCACTTT
1 GTCCTCAAAGAGCAGGACACATTTCTTTCTCTTTTTC-CTTT
*
768886 GTCCTCAAAAAGCAGGACAC-TTTCCTTGTCT-TCTTTTCCTTT
1 GTCCTCAAAGAGCAGGACACATTT-CTT-TCTCT-TTTTCCTTT
* **
768928 GTCCTCAAGGAGCAGGAC-CTATTTCACTCTCTTTTT-CTTT
1 GTCCTCAAAGAGCAGGACAC-ATTTCTTTCTCTTTTTCCTTT
768968 GTCCTCAAA
1 GTCCTCAAA
768977 AAAAAAAAAA
Statistics
Matches: 78, Mismatches: 7, Indels: 14
0.79 0.07 0.14
Matches are distributed among these distances:
40 12 0.15
41 10 0.13
42 45 0.58
43 11 0.14
ACGTcount: A:0.20, C:0.29, G:0.13, T:0.38
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACACATTTCTTTCTCTTTTTCCTTT
Found at i:769649 original size:27 final size:27
Alignment explanation
Indices: 769619--769879 Score: 319
Period size: 27 Copynumber: 9.1 Consensus size: 27
769609 ACACGGGATG
769619 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
769646 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
769672 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
769699 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
769734 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
769761 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
769788 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
769823 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
*
769850 ATGGGCATGGAAT-AAGAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
769876 ATGG
1 ATGG
769880 AATGATTTTC
Statistics
Matches: 208, Mismatches: 9, Indels: 35
0.83 0.04 0.14
Matches are distributed among these distances:
26 42 0.20
27 104 0.50
29 4 0.02
30 6 0.03
31 4 0.02
32 6 0.03
33 4 0.02
35 38 0.18
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.16
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:769746 original size:62 final size:62
Alignment explanation
Indices: 769672--769792 Score: 224
Period size: 62 Copynumber: 2.0 Consensus size: 62
769662 AAATGAAGGC
*
769672 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGGATA
*
769734 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGG
769793 CATGGAATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 57 1.00
ACGTcount: A:0.46, C:0.07, G:0.31, T:0.17
Consensus pattern (62 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGGATA
Found at i:769766 original size:89 final size:89
Alignment explanation
Indices: 769646--769879 Score: 445
Period size: 89 Copynumber: 2.7 Consensus size: 89
769636 AAATGAAGGC
769646 ATGGGCATGGAAT-AAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
769710 ATAAAAAATTGAAGACATGGGATA
66 ATAAAAAATTGAAGACATGGGATA
769734 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
769799 ATAAAAAATTGAAGACATGGGATA
66 ATAAAAAATTGAAGACATGGGATA
*
769823 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAAT-AAGAAATGAAGGCATGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGG
769880 AATGATTTTC
Statistics
Matches: 144, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
88 29 0.20
89 115 0.80
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.17
Consensus pattern (89 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
ATAAAAAATTGAAGACATGGGATA
Found at i:769827 original size:62 final size:61
Alignment explanation
Indices: 769761--769879 Score: 211
Period size: 62 Copynumber: 1.9 Consensus size: 61
769751 AAATGAAGGC
769761 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAA-TGAAGACATGGGATA
* *
769823 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAGAAATGAAGGCATGG
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGACATGG
769880 AATGATTTTC
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 10 0.18
62 45 0.82
ACGTcount: A:0.45, C:0.07, G:0.31, T:0.17
Consensus pattern (61 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGACATGGGATA
Found at i:771221 original size:53 final size:52
Alignment explanation
Indices: 771117--771238 Score: 144
Period size: 53 Copynumber: 2.3 Consensus size: 52
771107 GCTCGTAATC
*
771117 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTTAATCGA
1 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTCAATCGA
* **
771170 GGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCACAATCGA
1 GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--CAATCGA
771223 --GGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
771239 TTATTTTCGA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
51 18 0.29
52 4 0.06
53 40 0.65
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTCAATCGA
Found at i:771387 original size:79 final size:79
Alignment explanation
Indices: 771167--771474 Score: 483
Period size: 79 Copynumber: 3.9 Consensus size: 79
771157 TTCCTTTAAT
* * *
771167 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGAGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
*
771232 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
771246 CGAGGGGATACTCCAA-CCCGGTTTTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
771310 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
771324 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
771389 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* * * **
771403 CGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCCGGGATACTTT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
771468 AACCCCG
66 AACCCCG
771475 ATTTTATTTT
Statistics
Matches: 215, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 75 0.35
79 140 0.65
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:773080 original size:15 final size:15
Alignment explanation
Indices: 773060--773091 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
773050 AATCCAAACA
773060 TAGTGTAAAATAAAG
1 TAGTGTAAAATAAAG
773075 TAGTGTAAAATAAAG
1 TAGTGTAAAATAAAG
773090 TA
1 TA
773092 TCACTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.28
Consensus pattern (15 bp):
TAGTGTAAAATAAAG
Found at i:774788 original size:20 final size:20
Alignment explanation
Indices: 774762--774800 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
774752 CTTTCATTCT
*
774762 TTTTTTTTTTATTTTTTCTCA
1 TTTTTTTCTT-TTTTTTCTCA
774783 TTTTTTTCTTTTTTTTCT
1 TTTTTTTCTTTTTTTTCT
774801 TTTATGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (20 bp):
TTTTTTTCTTTTTTTTCTCA
Found at i:779273 original size:7 final size:7
Alignment explanation
Indices: 779261--779313 Score: 56
Period size: 7 Copynumber: 7.7 Consensus size: 7
779251 TATTTGACAT
779261 TAAAAAA
1 TAAAAAA
779268 TAAAAAA
1 TAAAAAA
** *
779275 TTTATAA
1 TAAAAAA
779282 T-AAAAA
1 TAAAAAA
779288 TAAATAAA
1 TAAA-AAA
779296 TAAAAAA
1 TAAAAAA
779303 T-AAAAA
1 TAAAAAA
779309 TAAAA
1 TAAAA
779314 TTTAGTTAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
6 10 0.26
7 21 0.55
8 7 0.18
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (7 bp):
TAAAAAA
Found at i:779285 original size:21 final size:20
Alignment explanation
Indices: 779263--779313 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
779253 TTTGACATTA
** *
779263 AAAAATAAAAAATTTATAAT
1 AAAAATAAAAAATAAAAAAT
779283 AAAAATAAATAAATAAAAAAT
1 AAAAATAAA-AAATAAAAAAT
779304 AAAAATAAAA
1 AAAAATAAAA
779314 TTTAGTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATAAAAAATAAAAAAT
Found at i:779461 original size:62 final size:62
Alignment explanation
Indices: 779382--779575 Score: 298
Period size: 62 Copynumber: 3.1 Consensus size: 62
779372 CCAAATTTGG
* * *
779382 TGGATTTCATGCATAATTTGCTGCCATCTAAGCATTCTAGGTGTCATTGCATTGCATTGCAT
1 TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGTGTCATTGCATTGCATTGCAT
* * *
779444 TGGATTTCATGCTTAATTTGCTACCACCTAAGCTTTCAAGGTGTCATTGCATTGGATTGCAT
1 TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGTGTCATTGCATTGCATTGCAT
* * *
779506 TGGATTTCATACTCAATTTGCTGCCACCTAAGCTTTCTAGGTGTCATTGTATTGCATTGCAT
1 TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGTGTCATTGCATTGCATTGCAT
*
779568 TGCATTTC
1 TGGATTTC
779576 GTGCATGCTT
Statistics
Matches: 119, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 119 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (62 bp):
TGGATTTCATGCTTAATTTGCTGCCACCTAAGCTTTCTAGGTGTCATTGCATTGCATTGCAT
Found at i:791487 original size:17 final size:19
Alignment explanation
Indices: 791465--791501 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
791455 AGAAAACTAA
791465 TGGAAAG-GTTAT-AAGTT
1 TGGAAAGTGTTATCAAGTT
791482 TGGAAAGTGTTATCAAGTT
1 TGGAAAGTGTTATCAAGTT
791501 T
1 T
791502 TTTTTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 5 0.28
19 6 0.33
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (19 bp):
TGGAAAGTGTTATCAAGTT
Found at i:791556 original size:13 final size:13
Alignment explanation
Indices: 791538--791567 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
791528 AAAATGAAAG
791538 AGAAAGAAAAAAA
1 AGAAAGAAAAAAA
*
791551 AGAAAGAAAAAAT
1 AGAAAGAAAAAAA
791564 AGAA
1 AGAA
791568 CAAAATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (13 bp):
AGAAAGAAAAAAA
Found at i:792261 original size:15 final size:15
Alignment explanation
Indices: 792237--792270 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
792227 GGTCGGGTTG
*
792237 ATTTCGAGTTTGGTC
1 ATTTCAAGTTTGGTC
*
792252 ATTTCAAGTTTGGTT
1 ATTTCAAGTTTGGTC
792267 ATTT
1 ATTT
792271 TGGGTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.09, G:0.21, T:0.53
Consensus pattern (15 bp):
ATTTCAAGTTTGGTC
Found at i:793486 original size:20 final size:20
Alignment explanation
Indices: 793410--793483 Score: 78
Period size: 20 Copynumber: 3.7 Consensus size: 20
793400 AAGTACCCAG
793410 ATGTATCGATACATATTTCA
1 ATGTATCGATACATATTTCA
* * * * *
793430 ATATATCGATATATGTATGA
1 ATGTATCGATACATATTTCA
*
793450 ATGTATCGATACAT-TCTTTA
1 ATGTATCGATACATAT-TTCA
793470 ATGTATCGATACAT
1 ATGTATCGATACAT
793484 TCTATCCTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
19 1 0.02
20 43 0.98
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATATTTCA
Found at i:793508 original size:31 final size:31
Alignment explanation
Indices: 793470--793546 Score: 154
Period size: 31 Copynumber: 2.5 Consensus size: 31
793460 ACATTCTTTA
793470 ATGTATCGATACATTCTATCCTTTTGCCCAG
1 ATGTATCGATACATTCTATCCTTTTGCCCAG
793501 ATGTATCGATACATTCTATCCTTTTGCCCAG
1 ATGTATCGATACATTCTATCCTTTTGCCCAG
793532 ATGTATCGATACATT
1 ATGTATCGATACATT
793547 TTTTAATGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.25, C:0.23, G:0.13, T:0.39
Consensus pattern (31 bp):
ATGTATCGATACATTCTATCCTTTTGCCCAG
Found at i:795922 original size:19 final size:18
Alignment explanation
Indices: 795898--795961 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
795888 CAACGATTTA
795898 TATCGATACATAAGTGTTG
1 TATCGATACATAAGT-TTG
795917 TATCGATAC--AA---TG
1 TATCGATACATAAGTTTG
795930 TATCGATACATAAGTATTG
1 TATCGATACATAAGT-TTG
*
795949 TATTGATACATAA
1 TATCGATACATAA
795962 TTATCTACTG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTTTG
Found at i:795933 original size:13 final size:13
Alignment explanation
Indices: 795915--795939 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
795905 ACATAAGTGT
795915 TGTATCGATACAA
1 TGTATCGATACAA
795928 TGTATCGATACA
1 TGTATCGATACA
795940 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:795934 original size:32 final size:32
Alignment explanation
Indices: 795898--795958 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
795888 CAACGATTTA
*
795898 TATCGATACATAAGTGTTGTATCGATACAATG
1 TATCGATACATAAGTATTGTATCGATACAATG
*
795930 TATCGATACATAAGTATTGTATTGATACA
1 TATCGATACATAAGTATTGTATCGATACA
795959 TAATTATCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (32 bp):
TATCGATACATAAGTATTGTATCGATACAATG
Found at i:803106 original size:27 final size:26
Alignment explanation
Indices: 803045--803108 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
803035 AAGTTAATCC
*
803045 CAATTAATTTTTATTGAAGAATATTG
1 CAATTAATTTTTATTGAAGAATAGTG
* *
803071 CACAATAATTTTTCTTGATAGAACTAGTG
1 CA-ATTAATTTTTATTGA-AGAA-TAGTG
803100 -AATTAATTT
1 CAATTAATTT
803109 ATCGTTATCA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
26 2 0.06
27 20 0.65
28 5 0.16
29 4 0.13
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.44
Consensus pattern (26 bp):
CAATTAATTTTTATTGAAGAATAGTG
Found at i:804257 original size:11 final size:11
Alignment explanation
Indices: 804241--804322 Score: 52
Period size: 11 Copynumber: 8.1 Consensus size: 11
804231 ATAATTGTAA
804241 AATATAAATAT
1 AATATAAATAT
804252 AATAT-AATAT
1 AATATAAATAT
* *
804262 GAGA-AAA-AT
1 AATATAAATAT
* *
804271 AATTTAAATAC
1 AATATAAATAT
804282 AATAT---TAT
1 AATATAAATAT
* *
804290 ATTA-AAAAAT
1 AATATAAATAT
804300 AATATAAATAT
1 AATATAAATAT
*
804311 GATATAAATAT
1 AATATAAATAT
804322 A
1 A
804323 TAAATATTTT
Statistics
Matches: 50, Mismatches: 14, Indels: 14
0.64 0.18 0.18
Matches are distributed among these distances:
8 5 0.10
9 3 0.06
10 17 0.34
11 25 0.50
ACGTcount: A:0.61, C:0.01, G:0.04, T:0.34
Consensus pattern (11 bp):
AATATAAATAT
Found at i:804286 original size:30 final size:29
Alignment explanation
Indices: 804241--804309 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 29
804231 ATAATTGTAA
*
804241 AATATAAATATAATATAATATGAGAAAAAT
1 AATATAAATACAATATAATATGA-AAAAAT
* * *
804271 AATTTAAATACAATATTATATTAAAAAAT
1 AATATAAATACAATATAATATGAAAAAAT
804300 AATATAAATA
1 AATATAAATA
804310 TGATATAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 15 0.44
30 19 0.56
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.33
Consensus pattern (29 bp):
AATATAAATACAATATAATATGAAAAAAT
Found at i:804896 original size:2 final size:2
Alignment explanation
Indices: 804889--804932 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
804879 AACTGAAATA
804889 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
804931 AT
1 AT
804933 TTGGATAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:810619 original size:49 final size:50
Alignment explanation
Indices: 810563--810661 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
810553 TCTACAATTG
* * * *
810563 CATAAAAAA-TGTGGAGTTAATCCTAGAATATTGTTAGGATTTTTGGATT
1 CATAAAAAATTGTGGAGTTAATCATAAAATATTGTTAAGATTTTTAGATT
810612 CATAAAAAATTGTGGAGTTAATCATAAAATATTGTTAAGATTTTTAGATT
1 CATAAAAAATTGTGGAGTTAATCATAAAATATTGTTAAGATTTTTAGATT
810662 TACTCTACAC
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
49 9 0.20
50 36 0.80
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.39
Consensus pattern (50 bp):
CATAAAAAATTGTGGAGTTAATCATAAAATATTGTTAAGATTTTTAGATT
Found at i:811550 original size:18 final size:18
Alignment explanation
Indices: 811527--811561 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
811517 TAGTCTTGAC
*
811527 TTCATATTCATACAGAGT
1 TTCATATTAATACAGAGT
811545 TTCATATTAATACAGAG
1 TTCATATTAATACAGAG
811562 GGCACTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TTCATATTAATACAGAGT
Found at i:813846 original size:2 final size:2
Alignment explanation
Indices: 813839--813865 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
813829 CTATAAAAGA
813839 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
813866 AAACAAATGC
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:817595 original size:3 final size:3
Alignment explanation
Indices: 817589--817618 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
817579 CATCAAAAAA
*
817589 AAT AAT AAA AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
817619 GCATAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:817598 original size:12 final size:12
Alignment explanation
Indices: 817583--817618 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
817573 CAAAACCATC
*
817583 AAAAAAAATAAT
1 AAAAATAATAAT
817595 AAAAATAATAAT
1 AAAAATAATAAT
*
817607 AATAATAATAAT
1 AAAAATAATAAT
817619 GCATAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
AAAAATAATAAT
Found at i:817851 original size:16 final size:16
Alignment explanation
Indices: 817767--817878 Score: 75
Period size: 16 Copynumber: 6.9 Consensus size: 16
817757 TTTTTAAAAT
817767 TTTAAATTATTTTTAAA
1 TTTAAATTA-TTTTAAA
**
817784 TTTGTATTA-TTTAAA
1 TTTAAATTATTTTAAA
* * * *
817799 TTTCAGATCACTTCAAA
1 TTT-AAATTATTTTAAA
* * * *
817816 TTCAAATAATTTTGAT
1 TTTAAATTATTTTAAA
*
817832 TTTAAATTATTTCAAA
1 TTTAAATTATTTTAAA
817848 TTT-AATCTATTTTAAA
1 TTTAAAT-TATTTTAAA
*
817864 TTTGAATTATTTTAA
1 TTTAAATTATTTTAA
817879 TTGCTAACAA
Statistics
Matches: 72, Mismatches: 19, Indels: 9
0.72 0.19 0.09
Matches are distributed among these distances:
15 12 0.17
16 43 0.60
17 17 0.24
ACGTcount: A:0.38, C:0.06, G:0.04, T:0.53
Consensus pattern (16 bp):
TTTAAATTATTTTAAA
Found at i:822044 original size:15 final size:16
Alignment explanation
Indices: 822006--822046 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
821996 AATTTTTCTC
822006 ATTTATTATTTCTTTT
1 ATTTATTATTTCTTTT
822022 A-TTATTATTT-TTTT
1 ATTTATTATTTCTTTT
*
822036 ATTTTTTATTT
1 ATTTATTATTT
822047 ATAATTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
14 5 0.22
15 17 0.74
16 1 0.04
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTATTATTTCTTTT
Found at i:830065 original size:2 final size:2
Alignment explanation
Indices: 830058--830092 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
830048 TGATTATACA
830058 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
830093 GTTTACTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:831183 original size:20 final size:20
Alignment explanation
Indices: 831146--831206 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 20
831136 ATATAACATG
*
831146 TCAAAATTTATATATATAATAC
1 TCAAAATATA-AT-TATAATAC
831168 TCAAAATATAATTATAATA-
1 TCAAAATATAATTATAATAC
*
831187 T-AAAAAAT-ATTATAAATAC
1 TCAAAATATAATTAT-AATAC
831206 T
1 T
831207 GATAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
17 5 0.14
18 10 0.29
19 2 0.06
20 7 0.20
21 2 0.06
22 9 0.26
ACGTcount: A:0.56, C:0.07, G:0.00, T:0.38
Consensus pattern (20 bp):
TCAAAATATAATTATAATAC
Found at i:831261 original size:18 final size:19
Alignment explanation
Indices: 831235--831279 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
831225 AAAAAAAGAT
*
831235 AGCAGTTGCTTGACGA-CA
1 AGCAATTGCTTGACGATCA
* *
831253 AGCAATTGCTTGTCGATGA
1 AGCAATTGCTTGACGATCA
831272 AGCAATTG
1 AGCAATTG
831280 AGGACTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
18 14 0.61
19 9 0.39
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.27
Consensus pattern (19 bp):
AGCAATTGCTTGACGATCA
Found at i:832105 original size:3 final size:3
Alignment explanation
Indices: 832054--832090 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
832044 TCTTGTCTCT
832054 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
832091 GTTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:832107 original size:12 final size:12
Alignment explanation
Indices: 832092--832204 Score: 80
Period size: 12 Copynumber: 9.5 Consensus size: 12
832082 TATTATTATG
832092 TTTTAAATATTA
1 TTTTAAATATTA
*
832104 TTTTAAAT-GTA
1 TTTTAAATATTA
832115 TTATTAAA-ATTA
1 TT-TTAAATATTA
832127 TTTTTAAATA-TA
1 -TTTTAAATATTA
832139 TTATTGAAA-A-TA
1 TT-TT-AAATATTA
832151 TTTTAAAT-TTA
1 TTTTAAATATTA
832162 TTATTAAATATTA
1 TT-TTAAATATTA
* *
832175 -TTAAAATTATTCT
1 TTTTAAA-TATT-A
832188 TTTTAAAT-TTA
1 TTTTAAATATTA
832199 TTTTAA
1 TTTTAA
832205 CTACAAAATA
Statistics
Matches: 82, Mismatches: 6, Indels: 27
0.71 0.05 0.23
Matches are distributed among these distances:
10 3 0.04
11 22 0.27
12 42 0.51
13 10 0.12
14 5 0.06
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (12 bp):
TTTTAAATATTA
Found at i:832182 original size:23 final size:24
Alignment explanation
Indices: 832094--832176 Score: 109
Period size: 24 Copynumber: 3.5 Consensus size: 24
832084 TTATTATGTT
*
832094 TTAAATATTATTTTAAATGTATTA
1 TTAAATATTATTTTAAATTTATTA
*
832118 TTAAA-ATTATTTTTAAATATATTA
1 TTAAATATTA-TTTTAAATTTATTA
832142 TTGAAA-A-TATTTTAAATTTATTA
1 TT-AAATATTATTTTAAATTTATTA
832165 TTAAATATTATT
1 TTAAATATTATT
832177 AAAATTATTC
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
22 3 0.06
23 20 0.38
24 26 0.49
25 4 0.08
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (24 bp):
TTAAATATTATTTTAAATTTATTA
Found at i:832566 original size:13 final size:13
Alignment explanation
Indices: 832550--832626 Score: 52
Period size: 13 Copynumber: 5.8 Consensus size: 13
832540 TTCTAATATG
832550 TTAAAATATTATT
1 TTAAAATATTATT
*
832563 TTAAAATATAATATA
1 TTAAAATAT--TATT
832578 TTAAAATA-T-TT
1 TTAAAATATTATT
*
832589 TT-AATTATTATTT
1 TTAAAATATTA-TT
* *
832602 TTAATATAATATT
1 TTAAAATATTATT
832615 ATTAAATATATT
1 -TTAAA-ATATT
832627 TGAAATATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
10 4 0.08
11 4 0.08
12 1 0.02
13 15 0.31
14 9 0.19
15 15 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAAATATTATT
Found at i:832583 original size:15 final size:15
Alignment explanation
Indices: 832470--832586 Score: 63
Period size: 13 Copynumber: 8.3 Consensus size: 15
832460 TTTATTATTG
*
832470 AATATAAAATATTAA
1 AATATAATATATTAA
*
832485 AATAT-AT-TCTTAA
1 AATATAATATATTAA
**
832498 AATATAAT-T-TTTC
1 AATATAATATATTAA
*
832511 AACATAATATATTAA
1 AATATAATATATTAA
*
832526 AACAGT-ATAT-TT-A
1 AATA-TAATATATTAA
** * *
832539 TTTCTAATATGTTAA
1 AATATAATATATTAA
*
832554 AATAT--TATTTTAA
1 AATATAATATATTAA
832567 AATATAATATATTAA
1 AATATAATATATTAA
832582 AATAT
1 AATAT
832587 TTTTAATTAT
Statistics
Matches: 77, Mismatches: 16, Indels: 18
0.69 0.14 0.16
Matches are distributed among these distances:
12 1 0.01
13 36 0.47
14 9 0.12
15 30 0.39
16 1 0.01
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (15 bp):
AATATAATATATTAA
Found at i:832586 original size:38 final size:37
Alignment explanation
Indices: 832544--832635 Score: 105
Period size: 38 Copynumber: 2.4 Consensus size: 37
832534 ATTTATTTCT
832544 AATATGTTAAAATATTATTTTAAAATATAATA-TATTAA
1 AATAT-TTAAAATATTATTTT-AAATATAATATTATTAA
* * *
832582 AATATTTTTAATTATTATTTTTAATATAATATTATTAA
1 AATA-TTTAAAATATTATTTTAAATATAATATTATTAA
*
832620 ATATATTTGAAATATT
1 A-ATATTTAAAATATT
832636 TTACCAGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
37 9 0.20
38 33 0.72
39 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (37 bp):
AATATTTAAAATATTATTTTAAATATAATATTATTAA
Found at i:832587 original size:28 final size:28
Alignment explanation
Indices: 832481--832587 Score: 85
Period size: 28 Copynumber: 3.9 Consensus size: 28
832471 ATATAAAATA
* *
832481 TTAAAATAT-AT-TCTTAAAATATAATT
1 TTAAAATATAATATATTAAAATATTATT
** * * *
832507 TTTCAACATAATATATTAAAACAGTATAT
1 TTAAAATATAATATATTAAAATATTAT-T
** * *
832536 TT-ATTTCTAATATGTTAAAATATTATT
1 TTAAAATATAATATATTAAAATATTATT
832563 TTAAAATATAATATATTAAAATATT
1 TTAAAATATAATATATTAAAATATT
832588 TTTAATTATT
Statistics
Matches: 58, Mismatches: 19, Indels: 6
0.70 0.23 0.07
Matches are distributed among these distances:
26 6 0.10
27 5 0.09
28 44 0.76
29 3 0.05
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (28 bp):
TTAAAATATAATATATTAAAATATTATT
Found at i:832624 original size:15 final size:14
Alignment explanation
Indices: 832470--832624 Score: 60
Period size: 14 Copynumber: 11.4 Consensus size: 14
832460 TTTATTATTG
* *
832470 AATATAAAATATTA
1 AATATAATATTTTA
832484 AA-AT-ATATTCTTAA
1 AATATAATATT-TT-A
*
832498 AATATAAT-TTTTC
1 AATATAATATTTTA
* *
832511 AACATAATATATTA
1 AATATAATATTTTA
* *
832525 AA-ACAGTATATTTA
1 AATATAATAT-TTTA
** * *
832539 TTTCTAATATGTTA
1 AATATAATATTTTA
*
832553 AA-ATATTATTTTAA
1 AATATAATATTTT-A
*
832567 AATATAATATATTA
1 AATATAATATTTTA
832581 AA-AT-AT-TTTT-
1 AATATAATATTTTA
* *
832591 AAT-TATTATTTTT
1 AATATAATATTTTA
832604 AATATAATATTATTA
1 AATATAATATT-TTA
832619 AATATA
1 AATATA
832625 TTTGAAATAT
Statistics
Matches: 100, Mismatches: 26, Indels: 29
0.65 0.17 0.19
Matches are distributed among these distances:
10 3 0.03
11 4 0.04
12 9 0.09
13 28 0.28
14 30 0.30
15 24 0.24
16 2 0.02
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (14 bp):
AATATAATATTTTA
Found at i:835059 original size:24 final size:26
Alignment explanation
Indices: 835014--835062 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
835004 TTATTAATTA
835014 TAAAAATTGTATAAATAAATAATAAT
1 TAAAAATTGTATAAATAAATAATAAT
*
835040 TAAAAATT-TAT-AATATATAATAA
1 TAAAAATTGTATAAATAAATAATAA
835063 AAGTGATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.50
25 3 0.14
26 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (26 bp):
TAAAAATTGTATAAATAAATAATAAT
Found at i:835599 original size:28 final size:28
Alignment explanation
Indices: 835546--835603 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 28
835536 AAAATTTTGA
835546 TTATTATTTTATTTAAAATAATATTATAT
1 TTATTATTTTATTTAAAATAATATTA-AT
835575 TTATT-TTTTATTTTAATAA-AA-ATTAAT
1 TTATTATTTTA-TTTAA-AATAATATTAAT
835602 TT
1 TT
835604 TTAGTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
27 4 0.15
28 9 0.33
29 12 0.44
30 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
TTATTATTTTATTTAAAATAATATTAAT
Found at i:835691 original size:23 final size:23
Alignment explanation
Indices: 835665--835710 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
835655 TTGAATTTAT
*
835665 TATTTATTA-AAAATTAATTATAA
1 TATTTAATATAAAATT-ATTATAA
*
835688 TATTTAATATAATATTATTATAA
1 TATTTAATATAAAATTATTATAA
835711 ATAATATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (23 bp):
TATTTAATATAAAATTATTATAA
Found at i:837212 original size:67 final size:70
Alignment explanation
Indices: 837131--837265 Score: 206
Period size: 67 Copynumber: 2.0 Consensus size: 70
837121 ATTCTTAATA
*
837131 TATATTTTATTATTTAATAGAAATATTATTTTA-TTA-ATTTAT-TT-TTAAATATAAATATAAT
1 TATATTTTATTATTTAATAGAAATATAATTTTATTTATATTT-TGTTATTAAATATAAATATAAT
837192 TTTATT
65 TTTATT
* *
837198 TATATTTTATTATTTAATATAAATATAATTTTATTTATATTTTGTTATTTAATATAAATATAATT
1 TATATTTTATTATTTAATAGAAATATAATTTTATTTATATTTTGTTATTAAATATAAATATAATT
837263 TTA
66 TTA
837266 ACACTTTTTA
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
67 31 0.51
68 4 0.07
69 6 0.10
70 20 0.33
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (70 bp):
TATATTTTATTATTTAATAGAAATATAATTTTATTTATATTTTGTTATTAAATATAAATATAATT
TTATT
Found at i:837217 original size:35 final size:35
Alignment explanation
Indices: 837131--837265 Score: 206
Period size: 35 Copynumber: 3.9 Consensus size: 35
837121 ATTCTTAATA
* *
837131 TATATTTTATTATTTAATAGAAATATTATTTTA-T
1 TATATTTTATTATTTAATATAAATATAATTTTATT
837165 TA-A-TTTATT-TTTAAATATAAATATAATTTTATT
1 TATATTTTATTATTT-AATATAAATATAATTTTATT
837198 TATATTTTATTATTTAATATAAATATAATTTTATT
1 TATATTTTATTATTTAATATAAATATAATTTTATT
*
837233 TATATTTTGTTATTTAATATAAATATAATTTTA
1 TATATTTTATTATTTAATATAAATATAATTTTA
837266 ACACTTTTTA
Statistics
Matches: 93, Mismatches: 3, Indels: 9
0.89 0.03 0.09
Matches are distributed among these distances:
31 3 0.03
32 22 0.24
33 4 0.04
34 3 0.03
35 58 0.62
36 3 0.03
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (35 bp):
TATATTTTATTATTTAATATAAATATAATTTTATT
Found at i:837231 original size:21 final size:21
Alignment explanation
Indices: 837207--837265 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
837197 TTATATTTTA
837207 TTATTTAATATAAATATAATT
1 TTATTTAATATAAATATAATT
*
837228 TTATTT-ATAT---T-T--TG
1 TTATTTAATATAAATATAATT
837242 TTATTTAATATAAATATAATT
1 TTATTTAATATAAATATAATT
837263 TTA
1 TTA
837266 ACACTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 14
0.64 0.04 0.31
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
16 1 0.03
17 1 0.03
18 1 0.03
19 1 0.03
20 4 0.14
21 10 0.34
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATTTAATATAAATATAATT
Found at i:837280 original size:70 final size:67
Alignment explanation
Indices: 837132--837301 Score: 184
Period size: 70 Copynumber: 2.5 Consensus size: 67
837122 TTCTTAATAT
* *
837132 ATATTTTATTATTTAATAGAAATATTATTTTATTAATTTATTTTTAAATATAAATATAATTTTAT
1 ATATTTTATTATTTAATATAAATATAATTTTATTAATTTATTTTTAAATATAAATATAATTTTAT
**
837197 TT
66 AC
*
837199 ATATTTTATTATTTAATATAAATATAATTTTATTTATATTT-TGTTATTTAATATAAATATAATT
1 ATATTTTATTATTTAATATAAATATAATTTTA-TTA-ATTTAT-TT-TTAAATATAAATATAATT
837263 TTA-AC
62 TTATAC
* * *
837268 ACT-TTTTAATTATTTATTGTATATATACATTTTA
1 A-TATTTT-ATTATTTAATATAAATATA-ATTTTA
837302 ATCAAATATT
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
67 30 0.34
68 4 0.05
69 11 0.12
70 37 0.42
71 6 0.07
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (67 bp):
ATATTTTATTATTTAATATAAATATAATTTTATTAATTTATTTTTAAATATAAATATAATTTTAT
AC
Found at i:837283 original size:35 final size:35
Alignment explanation
Indices: 837066--837265 Score: 195
Period size: 35 Copynumber: 5.8 Consensus size: 35
837056 AATTTATTGA
*
837066 TTTATT-TTTAGTATAAATCAT-ATTTTATA-AT-T
1 TTTATTATTTAATATAAAT-ATAATTTTATATATAT
* *
837098 ATTTA--ATTTAAGTATAATTTTTAATTCTTAATATATAT
1 -TTTATTATTTAA-TATAA-ATATAATT-TT-ATATATAT
* *
837136 TTTATTATTTAATAGAAATATTATTTTAT-TA-A-
1 TTTATTATTTAATATAAATATAATTTTATATATAT
*
837168 TTTATT-TTTAAATATAAATATAATTTTATTTATAT
1 TTTATTATTT-AATATAAATATAATTTTATATATAT
*
837203 TTTATTATTTAATATAAATATAATTTTATTTATAT
1 TTTATTATTTAATATAAATATAATTTTATATATAT
*
837238 TTTGTTATTTAATATAAATATAATTTTA
1 TTTATTATTTAATATAAATATAATTTTA
837266 ACACTTTTTA
Statistics
Matches: 142, Mismatches: 10, Indels: 28
0.79 0.06 0.16
Matches are distributed among these distances:
31 3 0.02
32 27 0.19
33 13 0.09
34 7 0.05
35 62 0.44
36 8 0.06
37 11 0.08
38 5 0.04
39 6 0.04
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (35 bp):
TTTATTATTTAATATAAATATAATTTTATATATAT
Found at i:837681 original size:20 final size:20
Alignment explanation
Indices: 837656--837730 Score: 78
Period size: 20 Copynumber: 3.5 Consensus size: 20
837646 ATAATAAATA
837656 AATAAAAATATATTTATATT
1 AATAAAAATATATTTATATT
*
837676 AATAAAATTATATTTATATT
1 AATAAAAATATATTTATATT
* *
837696 GAATAATAATTATAATTATATCT
1 -AATAA-AAATATATTTATAT-T
837719 ATATTAAAAATA
1 A-A-TAAAAATA
837731 AGTTATTATA
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
20 19 0.40
21 5 0.11
22 14 0.30
23 6 0.13
24 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (20 bp):
AATAAAAATATATTTATATT
Found at i:837706 original size:22 final size:20
Alignment explanation
Indices: 837656--837716 Score: 86
Period size: 20 Copynumber: 3.0 Consensus size: 20
837646 ATAATAAATA
*
837656 AATAAAAATATATTTATATT
1 AATAAAATTATATTTATATT
837676 AATAAAATTATATTTATATT
1 AATAAAATTATATTTATATT
*
837696 GAATAATAATTATAATTATAT
1 -AATAA-AATTATATTTATAT
837717 CTATATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
20 19 0.51
21 5 0.14
22 13 0.35
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AATAAAATTATATTTATATT
Found at i:837742 original size:31 final size:31
Alignment explanation
Indices: 837681--837823 Score: 133
Period size: 28 Copynumber: 4.8 Consensus size: 31
837671 ATATTAATAA
*
837681 AATTATATTTATATTGAATAAT-A--ATTAT
1 AATTATATTTATATTAAATAATAATTATTAT
*
837709 AATTATATCTATATTAAA-AATAAGTTATTAT
1 AATTATATTTATATTAAATAATAA-TTATTAT
* *
837740 AATAATATTTATTTTAAATAATAAAATATATTA-
1 AATTATATTTATATTAAATAAT--AAT-TATTAT
* *
837773 AATTATA-TTATGTTAAATAATAATTA--AA
1 AATTATATTTATATTAAATAATAATTATTAT
837801 AATTATATTTATATTAAA-AATAA
1 AATTATATTTATATTAAATAATAA
837824 ATATAAAAAA
Statistics
Matches: 97, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
27 4 0.04
28 29 0.30
29 11 0.11
30 3 0.03
31 20 0.21
32 16 0.16
33 7 0.07
34 7 0.07
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (31 bp):
AATTATATTTATATTAAATAATAATTATTAT
Found at i:837789 original size:32 final size:33
Alignment explanation
Indices: 837700--837795 Score: 103
Period size: 31 Copynumber: 3.0 Consensus size: 33
837690 TATATTGAAT
837700 AATA-ATTATAATTATATCTATATTAAA-AAT-A
1 AATATATTATAATTATAT-TATATTAAATAATAA
* * *
837731 AGT-TATTATAATAATATTTATTTTAAATAATAA
1 AATATATTATAATTATA-TTATATTAAATAATAA
*
837764 AATATATTA-AATTATATTATGTTAAATAATAA
1 AATATATTATAATTATATTATATTAAATAATAA
837796 TTAAAAATTA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
31 21 0.39
32 19 0.35
33 9 0.17
34 5 0.09
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (33 bp):
AATATATTATAATTATATTATATTAAATAATAA
Found at i:838314 original size:17 final size:17
Alignment explanation
Indices: 838292--838329 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
838282 GAAGAACTTT
838292 ACTCTTATAGTGAACTG
1 ACTCTTATAGTGAACTG
*
838309 ACTCTTATAGTGAGCTG
1 ACTCTTATAGTGAACTG
838326 ACTC
1 ACTC
838330 AGCTCGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.34
Consensus pattern (17 bp):
ACTCTTATAGTGAACTG
Found at i:840979 original size:17 final size:16
Alignment explanation
Indices: 840943--841016 Score: 87
Period size: 16 Copynumber: 4.6 Consensus size: 16
840933 TAATAATTTA
*
840943 AATTTAAATTGATTCG
1 AATTTAAAATGATTCG
840959 -ATTTCAAAATGATTCG
1 AATTT-AAAATGATTCG
840975 AATTTAAAATGATTCG
1 AATTTAAAATGATTCG
* * **
840991 TATTTAAAATAATTTA
1 AATTTAAAATGATTCG
841007 AATTTAAAAT
1 AATTTAAAAT
841017 AATACGAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
15 4 0.08
16 42 0.84
17 4 0.08
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (16 bp):
AATTTAAAATGATTCG
Found at i:840979 original size:32 final size:32
Alignment explanation
Indices: 840934--841016 Score: 105
Period size: 32 Copynumber: 2.6 Consensus size: 32
840924 TAAAAAAATT
* *
840934 AATAATTTAAATTTAAATTGATTCG-ATTTCAA
1 AATAATTCAAATTTAAAATGATTCGTATTT-AA
* *
840966 AATGATTCGAATTTAAAATGATTCGTATTTAA
1 AATAATTCAAATTTAAAATGATTCGTATTTAA
*
840998 AATAATTTAAATTTAAAAT
1 AATAATTCAAATTTAAAAT
841017 AATACGAATA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 39 0.91
33 4 0.09
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (32 bp):
AATAATTCAAATTTAAAATGATTCGTATTTAA
Found at i:841017 original size:16 final size:16
Alignment explanation
Indices: 840934--841019 Score: 57
Period size: 16 Copynumber: 5.4 Consensus size: 16
840924 TAAAAAAATT
840934 AATAATTTAAATTTAA
1 AATAATTTAAATTTAA
* * **
840950 ATTGA-TTCGATTTCAA
1 AATAATTTAAATTT-AA
* **
840966 AATGATTCGAATTTAA
1 AATAATTTAAATTTAA
* ***
840982 AATGATTCGTATTTAA
1 AATAATTTAAATTTAA
840998 AATAATTTAAATTTAA
1 AATAATTTAAATTTAA
841014 AATAAT
1 AATAAT
841020 ACGAATAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
15 6 0.11
16 44 0.80
17 5 0.09
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:841505 original size:17 final size:17
Alignment explanation
Indices: 841475--841510 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
841465 GTATCTATTA
*
841475 TATTAATTTTAATTTTT
1 TATTAATTTAAATTTTT
*
841492 TATTAGTTTAAATTTTT
1 TATTAATTTAAATTTTT
841509 TA
1 TA
841511 AATTGTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTAATTTAAATTTTT
Found at i:841967 original size:32 final size:32
Alignment explanation
Indices: 841931--841997 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
841921 CGATTAACTC
*
841931 GAATCCAGAA-TGACCTAAACCCGAAATGACCT
1 GAATCCA-AAGTGACCTAAACCCAAAATGACCT
* * *
841963 GAATCTAAAGTGACCTGAACCCAAAATGACGT
1 GAATCCAAAGTGACCTAAACCCAAAATGACCT
841995 GAA
1 GAA
841998 CTCAAAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 2 0.07
32 28 0.93
ACGTcount: A:0.42, C:0.24, G:0.18, T:0.16
Consensus pattern (32 bp):
GAATCCAAAGTGACCTAAACCCAAAATGACCT
Found at i:841992 original size:16 final size:16
Alignment explanation
Indices: 841939--842007 Score: 75
Period size: 16 Copynumber: 4.3 Consensus size: 16
841929 TCGAATCCAG
* *
841939 AATGACCTAAACCCGA
1 AATGACCTGAACCCAA
* *
841955 AATGACCTGAATCTAA
1 AATGACCTGAACCCAA
*
841971 AGTGACCTGAACCCAA
1 AATGACCTGAACCCAA
* *
841987 AATGACGTGAACTCAA
1 AATGACCTGAACCCAA
842003 AATGA
1 AATGA
842008 TCCAAACTCG
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 43 1.00
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.17
Consensus pattern (16 bp):
AATGACCTGAACCCAA
Found at i:843912 original size:23 final size:22
Alignment explanation
Indices: 843870--843926 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
843860 CGTATTATAT
*
843870 TTATTTTTATATTATGTTTTAA
1 TTATTTTTATATTATATTTTAA
*
843892 TTATTTTT-TATGTCATATTTTTA
1 TTATTTTTATAT-T-ATATTTTAA
843915 TT-TTTTGTATAT
1 TTATTTT-TATAT
843927 CTAAAGTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 3 0.10
22 13 0.45
23 10 0.34
24 3 0.10
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (22 bp):
TTATTTTTATATTATATTTTAA
Found at i:843920 original size:22 final size:22
Alignment explanation
Indices: 843867--843927 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
843857 ATTCGTATTA
* *
843867 TATTTATTTTTATATTATGTTTT
1 TATTT-TTTTTATATCATATTTT
* *
843890 AATTATTTTTTATGTCATATTTT
1 TATT-TTTTTTATATCATATTTT
*
843913 TATTTTTTGTATATC
1 TATTTTTTTTATATC
843928 TAAAGTAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 9 0.30
23 20 0.67
24 1 0.03
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (22 bp):
TATTTTTTTTATATCATATTTT
Found at i:844145 original size:17 final size:17
Alignment explanation
Indices: 844123--844158 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
844113 TAATTTTCAT
*
844123 TAAAAATATTTAAAAATA
1 TAAAAA-ATTAAAAAATA
844141 TAAAAAATTAAAAAATA
1 TAAAAAATTAAAAAATA
844158 T
1 T
844159 CATTAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TAAAAAATTAAAAAATA
Found at i:844293 original size:8 final size:8
Alignment explanation
Indices: 844282--844320 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
844272 TTATTTAATT
844282 AAAAAAAG
1 AAAAAAAG
*
844290 AAAAAAGG
1 AAAAAAAG
*
844298 AAAGAAAG
1 AAAAAAAG
*
844306 AAAAAGAG
1 AAAAAAAG
844314 AAAAAAA
1 AAAAAAA
844321 ATTTGTATTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:845409 original size:4 final size:4
Alignment explanation
Indices: 845400--845426 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
845390 CCTTTGATTG
845400 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
845427 TTTGCGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:845841 original size:39 final size:39
Alignment explanation
Indices: 845796--845878 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
845786 TGTTTTTGCT
*
845796 TTATTCGTGCTATCAATAATGTTAATAATGTTAATTATA
1 TTATTCGTGCTATCAATAATGTTAATAATATTAATTATA
**
845835 TTATTCGTTTTATCAATAATGTTAATAATATTAATTATA
1 TTATTCGTGCTATCAATAATGTTAATAATATTAATTATA
845874 TTATT
1 TTATT
845879 TATATTAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.36, C:0.06, G:0.07, T:0.51
Consensus pattern (39 bp):
TTATTCGTGCTATCAATAATGTTAATAATATTAATTATA
Found at i:845881 original size:4 final size:5
Alignment explanation
Indices: 845862--845925 Score: 53
Period size: 5 Copynumber: 13.2 Consensus size: 5
845852 AATGTTAATA
* * *
845862 ATATT A-ATT ATATT AT-TT ATATT AAATA ATATT AT-TT ATGTT ATAATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT-ATT
* *
845910 ATATC ATTTT ATATT A
1 ATATT ATATT ATATT A
845926 AAGGTAAACA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
4 12 0.26
5 30 0.65
6 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
ATATT
Found at i:845895 original size:19 final size:19
Alignment explanation
Indices: 845862--845927 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
845852 AATGTTAATA
845862 ATATT-AATTATATTATTT
1 ATATTAAATTATATTATTT
*
845880 ATATTAAATAATATTATTT
1 ATATTAAATTATATTATTT
* *
845899 ATGTTATAATTATATCATTTT
1 ATATTA-AATTATATTA-TTT
845920 ATATTAAA
1 ATATTAAA
845928 GGTAAACAGA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
18 5 0.12
19 17 0.43
20 10 0.25
21 8 0.20
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (19 bp):
ATATTAAATTATATTATTT
Found at i:846311 original size:20 final size:20
Alignment explanation
Indices: 846288--846350 Score: 51
Period size: 20 Copynumber: 3.1 Consensus size: 20
846278 AAAAATAAAA
846288 AATTTAAATATTAAATATGT
1 AATTTAAATATTAAATATGT
* *
846308 AATTTTAAA-AGTAAATAAGT
1 AA-TTTAAATATTAAATATGT
*
846328 -A-TTAAATATAATAAATATTT
1 AATTTAAATAT--TAAATATGT
846348 AAT
1 AAT
846351 AAAAATATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
17 5 0.16
18 1 0.03
19 1 0.03
20 18 0.56
21 7 0.22
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AATTTAAATATTAAATATGT
Found at i:846626 original size:15 final size:16
Alignment explanation
Indices: 846600--846629 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
846590 TTAAAATTTT
846600 TAATTAAATAAAATTA
1 TAATTAAATAAAATTA
846616 TAATT-AATAAAATT
1 TAATTAAATAAAATT
846630 TATTTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TAATTAAATAAAATTA
Found at i:846632 original size:16 final size:17
Alignment explanation
Indices: 846591--846632 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
846581 TTAACATTTT
*
846591 TAAAATTTTTAATTAAA
1 TAAAATTTATAATTAAA
846608 TAAAA-TTATAATT-AA
1 TAAAATTTATAATTAAA
846623 TAAAATTTAT
1 TAAAATTTAT
846633 TTAAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 7 0.30
16 11 0.48
17 5 0.22
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATTTATAATTAAA
Found at i:847084 original size:26 final size:26
Alignment explanation
Indices: 847054--847113 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 26
847044 ATATAAAAAT
*
847054 ATACATAAAATAA-AATA-AATTATTAA
1 ATACATAAAA-AATAATACAAATA-TAA
*
847080 ATACA-AAAAAATAATACAAATATGA
1 ATACATAAAAAATAATACAAATATAA
847105 ATACATAAA
1 ATACATAAA
847114 TTTTTTCTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
24 2 0.07
25 15 0.52
26 12 0.41
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.25
Consensus pattern (26 bp):
ATACATAAAAAATAATACAAATATAA
Found at i:847533 original size:17 final size:19
Alignment explanation
Indices: 847511--847545 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
847501 TACTACTTTA
847511 AATAT-ACA-AAAAATAAG
1 AATATAACATAAAAATAAG
847528 AATATAACATAAAAATAA
1 AATATAACATAAAAATAA
847546 TTAAAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.20
Consensus pattern (19 bp):
AATATAACATAAAAATAAG
Found at i:847938 original size:4 final size:4
Alignment explanation
Indices: 847919--847968 Score: 59
Period size: 4 Copynumber: 12.5 Consensus size: 4
847909 TATAAAATTT
*
847919 TTTC TTATC CTTC TTTC TTTC TTT- TTTC TCTT- TTTC TTTC TTTC TTTC
1 TTTC TT-TC TTTC TTTC TTTC TTTC TTTC T-TTC TTTC TTTC TTTC TTTC
847967 TT
1 TT
847969 ATGTCTCCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
3 5 0.12
4 30 0.75
5 5 0.12
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTC
Found at i:848080 original size:34 final size:36
Alignment explanation
Indices: 848040--848107 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
848030 TTATGTACTT
*
848040 AAAATT-AGATATATACAT-AAATAA-ATAAATATAA
1 AAAATTAAAATATA-ACATAAAATAATATAAATATAA
*
848074 AAAATTAAAATATAATATAAAATAATATAAATAT
1 AAAATTAAAATATAACATAAAATAATATAAATAT
848108 GATACGAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 9 0.31
35 12 0.41
36 8 0.28
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (36 bp):
AAAATTAAAATATAACATAAAATAATATAAATATAA
Found at i:848082 original size:14 final size:15
Alignment explanation
Indices: 848056--848147 Score: 64
Period size: 15 Copynumber: 5.9 Consensus size: 15
848046 AGATATATAC
848056 ATAAATAAAT-AAAT
1 ATAAATAAATAAAAT
848070 ATAAA-AAATTAAAAT
1 ATAAATAAA-TAAAAT
*
848085 ATAATATAAA-ATAAT
1 ATAA-ATAAATAAAAT
*
848100 ATAAATATGATACGAATAT
1 ATAAATA-AATA--AA-AT
*
848119 ATAAATATATCAAAAT
1 ATAAATAAAT-AAAAT
*
848135 ATAGATAAATAAA
1 ATAAATAAATAAA
848148 TAATTAATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 19
0.71 0.07 0.22
Matches are distributed among these distances:
13 3 0.05
14 9 0.15
15 20 0.32
16 12 0.19
17 5 0.08
18 3 0.05
19 10 0.16
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (15 bp):
ATAAATAAATAAAAT
Found at i:848105 original size:21 final size:21
Alignment explanation
Indices: 848056--848107 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
848046 AGATATATAC
848056 ATAA-ATAAATA-AATATAAA
1 ATAATATAAATATAATATAAA
848075 A-AAT-TAAAATATAATATAAA
1 ATAATAT-AAATATAATATAAA
848095 ATAATATAAATAT
1 ATAATATAAATAT
848108 GATACGAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 3 0.11
19 6 0.21
20 9 0.32
21 9 0.32
22 1 0.04
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAATATAAATATAATATAAA
Found at i:848358 original size:21 final size:22
Alignment explanation
Indices: 848313--848360 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
848303 TATGTTAAAA
848313 AAATATAAAAATATAATATTTT
1 AAATATAAAAATATAATATTTT
848335 AAATATACAAAATATAA-A-TTT
1 AAATATA-AAAATATAATATTTT
848356 AAATA
1 AAATA
848361 CATATATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.32
22 8 0.32
23 9 0.36
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
AAATATAAAAATATAATATTTT
Found at i:848950 original size:2 final size:2
Alignment explanation
Indices: 848943--848976 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
848933 ACAGCCTCAT
848943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
848977 AAGAGGGTAT
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):
TA
Found at i:851499 original size:2 final size:2
Alignment explanation
Indices: 851492--851517 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
851482 TCAACTTCAA
851492 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
851518 TTTAAGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:854318 original size:24 final size:24
Alignment explanation
Indices: 854291--854340 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
854281 ATATAAATAT
* *
854291 ATTTATGTAAGAAGTTCATTTTCC
1 ATTTATGTAAAAAGTTCACTTTCC
*
854315 ATTTATGTAAAAATTTCACTTTCC
1 ATTTATGTAAAAAGTTCACTTTCC
854339 AT
1 AT
854341 CGGCTAACAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.32, C:0.14, G:0.08, T:0.46
Consensus pattern (24 bp):
ATTTATGTAAAAAGTTCACTTTCC
Found at i:857872 original size:2 final size:2
Alignment explanation
Indices: 857865--857895 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
857855 TTTTCCCCTT
857865 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
857896 TTTCATTTTT
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:858638 original size:2 final size:2
Alignment explanation
Indices: 858631--858660 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
858621 TTAACTTTTG
858631 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
858661 CATAGGAGCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:858698 original size:5 final size:5
Alignment explanation
Indices: 858688--858717 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
858678 TTAGGATGTA
858688 TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT
858718 GAGGCCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:859169 original size:17 final size:18
Alignment explanation
Indices: 859133--859172 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
859123 ACTTAAATTT
859133 AATATAATTTTATTTTAAA
1 AATATAATTTTA-TTTAAA
*
859152 AATATTATTTTA-TTAAA
1 AATATAATTTTATTTAAA
859169 AATA
1 AATA
859173 ATTGCTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
19 11 0.55
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATAATTTTATTTAAA
Found at i:860815 original size:22 final size:22
Alignment explanation
Indices: 860790--860832 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
860780 TATTCAAACC
860790 TGAATAACTCAAATTTAAAATT
1 TGAATAACTCAAATTTAAAATT
* * *
860812 TGAATAATTTAAATTTGAAAT
1 TGAATAACTCAAATTTAAAAT
860833 GATTCGAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.40
Consensus pattern (22 bp):
TGAATAACTCAAATTTAAAATT
Found at i:860827 original size:15 final size:16
Alignment explanation
Indices: 860801--860858 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
860791 GAATAACTCA
860801 AATTTAAAATTTG-AAT
1 AATTT-AAATTTGAAAT
860817 AATTTAAATTTGAAAT
1 AATTTAAATTTGAAAT
* ** *
860833 GATTCGAACTTGAAAT
1 AATTTAAATTTGAAAT
860849 AATTTAAATT
1 AATTTAAATT
860859 CAAAAATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
15 7 0.21
16 26 0.79
ACGTcount: A:0.47, C:0.03, G:0.09, T:0.41
Consensus pattern (16 bp):
AATTTAAATTTGAAAT
Found at i:864077 original size:13 final size:12
Alignment explanation
Indices: 864028--864078 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
864018 ACCTTCACTG
864028 TTTCAAATTGAA
1 TTTCAAATTGAA
*
864040 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
864055 TTTCAAATTGAA
1 TTTCAAATTGAA
864067 TTTCAAAATTGA
1 TTTC-AAATTGA
864079 CGGCACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:868824 original size:13 final size:12
Alignment explanation
Indices: 868775--868825 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
868765 ACCTTCACTG
868775 TTTCAAATTGAA
1 TTTCAAATTGAA
*
868787 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
868802 TTTCAAATTGAA
1 TTTCAAATTGAA
868814 TTTCAAAATTGA
1 TTTC-AAATTGA
868826 CGGCACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:868845 original size:12 final size:12
Alignment explanation
Indices: 868828--868853 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
868818 AAAATTGACG
868828 GCACAGTTGGCA
1 GCACAGTTGGCA
868840 GCACAGTTGGCA
1 GCACAGTTGGCA
868852 GC
1 GC
868854 CTTTGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.27, G:0.35, T:0.15
Consensus pattern (12 bp):
GCACAGTTGGCA
Found at i:869966 original size:21 final size:21
Alignment explanation
Indices: 869942--869985 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
869932 TCTCTCTACC
869942 CTCTAAAATTCTC-TAACTTCT
1 CTCTAAAATTCTCTTAA-TTCT
*
869963 CTCTAAAATTTTCTTAATTCT
1 CTCTAAAATTCTCTTAATTCT
869984 CT
1 CT
869986 TATTTCTCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.48
Consensus pattern (21 bp):
CTCTAAAATTCTCTTAATTCT
Found at i:870063 original size:21 final size:21
Alignment explanation
Indices: 870010--870063 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
870000 TAACATCTTA
* *
870010 TTAATATTTATTTTTCTTTTT
1 TTAATATTTAATTTTCATTTT
*
870031 TTAATTTTTTAATTTT-ATTTT
1 TTAA-TATTTAATTTTCATTTT
870052 TTAATATGTTAA
1 TTAATAT-TTAA
870064 AATTTTGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
20 2 0.07
21 16 0.59
22 9 0.33
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (21 bp):
TTAATATTTAATTTTCATTTT
Found at i:870186 original size:14 final size:14
Alignment explanation
Indices: 870169--870228 Score: 50
Period size: 14 Copynumber: 4.0 Consensus size: 14
870159 ATTATTTTTG
870169 AGTAATTAGTTTAT
1 AGTAATTAGTTTAT
870183 AGTAATTA-TTTATT
1 AGTAATTAGTTTA-T
*
870197 ATGTTGAATTAGGTTTAG
1 A-G-T-AATTA-GTTTAT
*
870215 GGTAATTAGTTTAT
1 AGTAATTAGTTTAT
870229 GGTATAAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 4 0.11
14 15 0.41
15 6 0.16
16 2 0.05
17 6 0.16
19 4 0.11
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (14 bp):
AGTAATTAGTTTAT
Found at i:875242 original size:27 final size:27
Alignment explanation
Indices: 875211--875270 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
875201 CACCATATTT
**
875211 TCCTACTCAACCTCCACACCTGTCATA
1 TCCTACTCAACCTCCACACCCATCATA
*
875238 TCCTACTCAACCTCCATACCCATCATA
1 TCCTACTCAACCTCCACACCCATCATA
875265 TCCTAC
1 TCCTAC
875271 CACAACCTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.27, C:0.45, G:0.02, T:0.27
Consensus pattern (27 bp):
TCCTACTCAACCTCCACACCCATCATA
Found at i:878697 original size:22 final size:22
Alignment explanation
Indices: 878665--878710 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
878655 CTTTATGGAT
* *
878665 AAAGAGTAAACAAGTATAATAC
1 AAAGAGAAAACAAGTACAATAC
878687 AAAGAGAAAACAAGTACAATAC
1 AAAGAGAAAACAAGTACAATAC
878709 AA
1 AA
878711 TAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.63, C:0.11, G:0.13, T:0.13
Consensus pattern (22 bp):
AAAGAGAAAACAAGTACAATAC
Found at i:879263 original size:14 final size:14
Alignment explanation
Indices: 879244--879270 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
879234 AATTACATTT
879244 AATATAAAATAAAA
1 AATATAAAATAAAA
879258 AATATAAAATAAA
1 AATATAAAATAAA
879271 TTTGAACTCG
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AATATAAAATAAAA
Found at i:879425 original size:10 final size:10
Alignment explanation
Indices: 879410--879435 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
879400 ACCTGAACGA
879410 GCCCAAACTC
1 GCCCAAACTC
879420 GCCCAAACTC
1 GCCCAAACTC
879430 GCCCAA
1 GCCCAA
879436 TCGTCACTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.31, C:0.50, G:0.12, T:0.08
Consensus pattern (10 bp):
GCCCAAACTC
Found at i:882110 original size:9 final size:9
Alignment explanation
Indices: 882092--882136 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
882082 AAATTAATTT
882092 AAAT-TATA
1 AAATATATA
882100 AAATATATAA
1 AAATATAT-A
882110 AATATATATA
1 AA-ATATATA
882120 AAATATATA
1 AAATATATA
882129 AAATATAT
1 AAATATAT
882137 TTTATATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
8 4 0.12
9 18 0.53
10 6 0.18
11 6 0.18
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
AAATATATA
Found at i:882118 original size:11 final size:11
Alignment explanation
Indices: 882102--882136 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
882092 AAATTATAAA
882102 ATATATAAAAT
1 ATATATAAAAT
882113 ATATAT-AAA-
1 ATATATAAAAT
882122 ATATATAAAAT
1 ATATATAAAAT
882133 ATAT
1 ATAT
882137 TTTATATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 6 0.27
10 6 0.27
11 10 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
ATATATAAAAT
Found at i:882121 original size:20 final size:20
Alignment explanation
Indices: 882096--882136 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
882086 TAATTTAAAT
882096 TATAAAATATATAAAATATA
1 TATAAAATATATAAAATATA
882116 TATAAAATATATAAAATATA
1 TATAAAATATATAAAATATA
882136 T
1 T
882137 TTTATATATT
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TATAAAATATATAAAATATA
Found at i:890138 original size:12 final size:12
Alignment explanation
Indices: 890119--890154 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
890109 TTTTTCTAGC
890119 TTTCTCTTTTATT
1 TTTCTCTTTT-TT
890132 TTT-TCTTTTTT
1 TTTCTCTTTTTT
890143 TTTCTCTTTTTT
1 TTTCTCTTTTTT
890155 GGAATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.23
12 14 0.64
13 3 0.14
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTCTCTTTTTT
Found at i:891142 original size:16 final size:16
Alignment explanation
Indices: 891121--891154 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
891111 CATGATGAGG
891121 AACAATAAAATAAATA
1 AACAATAAAATAAATA
* *
891137 AACAATTAAATAATTA
1 AACAATAAAATAAATA
891153 AA
1 AA
891155 TTTAAGATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (16 bp):
AACAATAAAATAAATA
Found at i:891492 original size:3 final size:3
Alignment explanation
Indices: 891486--891517 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
891476 GAAAAACCAA
891486 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AA
891518 TAATAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:891522 original size:3 final size:3
Alignment explanation
Indices: 891516--891656 Score: 122
Period size: 3 Copynumber: 47.0 Consensus size: 3
891506 CAACAACAAC
891516 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * * * * * *
891564 AAG AAA AAA AAG AAG AAG AAA AACC AA- AAC AAC AAC AAC AAC AAC
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
* *
891609 AAC AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
891657 TTATACCTTG
Statistics
Matches: 130, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.02
3 126 0.97
4 2 0.02
ACGTcount: A:0.69, C:0.07, G:0.03, T:0.21
Consensus pattern (3 bp):
AAT
Found at i:896305 original size:19 final size:21
Alignment explanation
Indices: 896281--896321 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
896271 ACTTGTGTTA
*
896281 ATTTTATCTT-TGATT-CTTC
1 ATTTTAGCTTATGATTACTTC
896300 ATTTTAGCTTATGATTACTTC
1 ATTTTAGCTTATGATTACTTC
896321 A
1 A
896322 GCTCGGGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 5 0.26
21 5 0.26
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (21 bp):
ATTTTAGCTTATGATTACTTC
Found at i:896464 original size:19 final size:19
Alignment explanation
Indices: 896442--896502 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
896432 GATTAGTTTG
896442 TATTTATTAGTATAAATGA
1 TATTTATTAGTATAAATGA
* **
896461 TATTCATTAG-ATTAGTTTG-
1 TATTTATTAGTA-TA-AATGA
896480 TATTTATTAGTATAAATGA
1 TATTTATTAGTATAAATGA
896499 TATT
1 TATT
896503 ATCTTCATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
18 3 0.09
19 26 0.81
20 3 0.09
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (19 bp):
TATTTATTAGTATAAATGA
Found at i:896467 original size:38 final size:38
Alignment explanation
Indices: 896420--896502 Score: 157
Period size: 38 Copynumber: 2.2 Consensus size: 38
896410 ATATTTGTGT
*
896420 TGATTTTCATTAGATTAGTTTGTATTTATTAGTATAAA
1 TGATATTCATTAGATTAGTTTGTATTTATTAGTATAAA
896458 TGATATTCATTAGATTAGTTTGTATTTATTAGTATAAA
1 TGATATTCATTAGATTAGTTTGTATTTATTAGTATAAA
896496 TGATATT
1 TGATATT
896503 ATCTTCATGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (38 bp):
TGATATTCATTAGATTAGTTTGTATTTATTAGTATAAA
Found at i:897929 original size:18 final size:19
Alignment explanation
Indices: 897892--897929 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
897882 TTTATTAATA
*
897892 TTTTTAATAAAATTTAAAG
1 TTTTTAATAAAAATTAAAG
*
897911 TTTTTAA-AAAAATTCAAG
1 TTTTTAATAAAAATTAAAG
897929 T
1 T
897930 AATGGCTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTTTAATAAAAATTAAAG
Found at i:900168 original size:28 final size:28
Alignment explanation
Indices: 900136--900192 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
900126 TTTGTTATAC
*
900136 ATATCACGTAATGTTTATCTCAAAACTA
1 ATATCACGCAATGTTTATCTCAAAACTA
*
900164 ATATCACGCAATGTTTATCTCAATACTA
1 ATATCACGCAATGTTTATCTCAAAACTA
900192 A
1 A
900193 AGCATAAACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.39, C:0.19, G:0.07, T:0.35
Consensus pattern (28 bp):
ATATCACGCAATGTTTATCTCAAAACTA
Found at i:901768 original size:21 final size:19
Alignment explanation
Indices: 901744--901806 Score: 72
Period size: 20 Copynumber: 3.2 Consensus size: 19
901734 TCGACATGGT
*
901744 TTAGTATCGGTACATTAAGCC
1 TTAGTATCGATACATTAA--C
* *
901765 TTAGTATCAATACATTCAC
1 TTAGTATCGATACATTAAC
901784 TTATGTATCGATACATTAAC
1 TTA-GTATCGATACATTAAC
901804 TTA
1 TTA
901807 TTGTATCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
19 4 0.11
20 17 0.47
21 15 0.42
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.38
Consensus pattern (19 bp):
TTAGTATCGATACATTAAC
Found at i:901813 original size:21 final size:20
Alignment explanation
Indices: 901754--901819 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
901744 TTAGTATCGG
901754 TACATTAAGCCTTA-GTATCAA
1 TACATTAA--CTTATGTATCAA
* *
901775 TACATTCACTTATGTATCGA
1 TACATTAACTTATGTATCAA
901795 TACATTAACTTATTGTATCAA
1 TACATTAACTTA-TGTATCAA
901816 TACA
1 TACA
901820 AATTGTAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.10
20 17 0.44
21 18 0.46
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (20 bp):
TACATTAACTTATGTATCAA
Done.