Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold166
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: 2719372
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17868 characters in sequence are not A, C, G, or T
File 4 of 18
Found at i:594151 original size:32 final size:32
Alignment explanation
Indices: 594083--594876 Score: 579
Period size: 32 Copynumber: 24.8 Consensus size: 32
594073 GGTGACACTG
* * ****
594083 ACTTGTGTGGGCTTTTAAGGGGGTTGCCTTTG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* *
594115 ACTTGTGTGGGCTTTAAAGATGGTCGCCACCA
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* *
594147 ACTTGTGTAGGCTTTAAA-AGGGGTGCCACCA
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* * * * *
594178 ACTTATGTGGGCTTTGAAAAAAAAGGATGCCAACA
1 ACTTGTGTGGGCTTT---AAAGAGGGTTGCCACCA
* * * ** *
594213 ACTTATGTTGGCTTTAAAAAAAAGATGCCACCA
1 ACTTGTGTGGGCTTT-AAAGAGGGTTGCCACCA
* * *
594246 ACTTGTATGAGCTTTGAAAG-GGGTTGCCACTA
1 ACTTGTGTGGGCTTT-AAAGAGGGTTGCCACCA
* *
594278 ACTTGTGTGGGCTTTAGAGAGGGTTACCACCA
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* **
594310 ACTTGTGTGGGCTTTAAA-AGGGGTGCCACTG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* * * *
594341 ACTTGTGTGGGCTTTGAAAAAAGGATGCCACTA
1 ACTTGTGTGGGCTTT-AAAGAGGGTTGCCACCA
* * * *
594374 ACTTCTGTTGGCTTTGAAA-AGGATTGCCACCG
1 ACTTGTGTGGGCTTT-AAAGAGGGTTGCCACCA
* * * *
594406 ACTTGTGTGAGCTTTGAAGGGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* *
594438 ACTTGTATGGGCTTTAGAA-AGGGTTGCCACCG
1 ACTTGTGTGGGCTTTA-AAGAGGGTTGCCACCA
* * ***
594470 ACTTGTGTAGGCTTTAAA-AGGGGTGCCATTG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* * * * ** *
594501 ACTTATATAGGCTTTGAAAAAAATGATGCCACCA
1 ACTTGTGTGGGCTTT--AAAGAGGGTTGCCACCA
* * *
594535 ACTTGTGTGGGCTTTAAAGGGGGTTGCCATCG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* * * *
594567 ACTTGTGTGGGCTTTAGAGAAGGTTCCCACTA
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* *
594599 ACTTGTGTGGGCTTT-GAGAGGGTTGCCACCG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* *
594630 ACTTGTGTGGGCTTTAAAAAGGGTTGCCACTA
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* * * *
594662 GCTTGTGTGGGC-TTAAA-ATGGG-TGTCATCG
1 ACTTGTGTGGGCTTTAAAGA-GGGTTGCCACCA
* ***
594692 ACTTGTGTGGGCTTTAGAGAGGGTTGCCATTG
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
*
594724 ACTTGTGTGGGCTTTAAA-AGTGG-TGCCACCG
1 ACTTGTGTGGGCTTTAAAGAG-GGTTGCCACCA
* ** *
594755 ACTTGTGTGGGCTTTGGAAAAAAAGATGCCACCA
1 ACTTGTGTGGGCTTT--AAAGAGGGTTGCCACCA
* * * *
594789 ACTTATATGGGCTTTGAAG-GAGGTTGCCACCG
1 ACTTGTGTGGGCTTTAAAGAG-GGTTGCCACCA
* *
594821 ACTTGTGTGGGCTTTAGAGAGGGTTGCCATCA
1 ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
* *
594853 ACTTATGTGGGCTTTAAAAAGGGT
1 ACTTGTGTGGGCTTTAAAGAGGGT
594877 ACCATTGACT
Statistics
Matches: 608, Mismatches: 130, Indels: 48
0.77 0.17 0.06
Matches are distributed among these distances:
30 16 0.03
31 142 0.23
32 316 0.52
33 67 0.11
34 43 0.07
35 24 0.04
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (32 bp):
ACTTGTGTGGGCTTTAAAGAGGGTTGCCACCA
Found at i:594215 original size:35 final size:34
Alignment explanation
Indices: 594170--594264 Score: 129
Period size: 35 Copynumber: 2.8 Consensus size: 34
594160 TTAAAAGGGG
594170 TGCCACCAACTTATGTGGGCTTTGAAAAAAAAGGA
1 TGCCACCAACTTATGTGGGCTTTGAAAAAAAA-GA
* *
594205 TGCCAACAACTTATGTTGGCTTT-AAAAAAAAGA
1 TGCCACCAACTTATGTGGGCTTTGAAAAAAAAGA
* * *
594238 TGCCACCAACTTGTATGAGCTTTGAAA
1 TGCCACCAACTTATGTGGGCTTTGAAA
594265 GGGGTTGCCA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
33 20 0.38
34 11 0.21
35 21 0.40
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (34 bp):
TGCCACCAACTTATGTGGGCTTTGAAAAAAAAGA
Found at i:594485 original size:160 final size:159
Alignment explanation
Indices: 594082--594675 Score: 669
Period size: 160 Copynumber: 3.7 Consensus size: 159
594072 GGGTGACACT
* * ** * * *
594082 GACTTGTGTGGGCTTTTAAGGGGGTTGCCTTTGACTTGTGTGGGCTTTA-AAGATGGTCGCCACC
1 GACTTGTGTGAGCTTTGAAGGGGGTTGCCACTAACTTGTGTGGGCTTTAGAA-AGGGTTGCCACC
**
594146 AACTTGTGTAGGCTTTAAAAGGGGTGCCACCAACTTATGTGGGCTTTGAAAAAAAAGGATGCCAA
65 AACTTGTGTAGGCTTTAAAAGGGGTGCCACTGACTTATGTGGGCTTTG-AAAAAAAGGATGCC-A
*
594211 CAACTTATGTTGGCTTTAAAAAAAAGA-TGCCACC
128 CAACTTATGTTGGCTTT---AAAAGGATTGCCACC
* * * * *
594245 AACTTGTATGAGCTTTGAAAGGGGTTGCCACTAACTTGTGTGGGCTTTAGAGAGGGTTACCACCA
1 GACTTGTGTGAGCTTTGAAGGGGGTTGCCACTAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCA
* *
594310 ACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTG-AAAAAAGGATGCCACTA
66 ACTTGTGTAGGCTTTAAAAGGGGTGCCACTGACTTATGTGGGCTTTGAAAAAAAGGATGCCAC-A
*
594374 ACTTCTGTTGGCTTTGAAAAGGATTGCCACC
130 ACTTATGTTGGCTTT-AAAAGGATTGCCACC
** * *
594405 GACTTGTGTGAGCTTTGAAGGGGGTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTTGCCACCG
1 GACTTGTGTGAGCTTTGAAGGGGGTTGCCACTAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCA
* * * *
594470 ACTTGTGTAGGCTTTAAAAGGGGTGCCATTGACTTATATAGGCTTTGAAAAAAATGATGCCACCA
66 ACTTGTGTAGGCTTTAAAAGGGGTGCCACTGACTTATGTGGGCTTTGAAAAAAAGGATGCCA-CA
* * * * *
594535 ACTTGTGTGGGCTTTAAAGGGGGTTGCCATC
130 ACTTATGTTGGCTTTAAA-AGGATTGCCACC
* ** * *
594566 GACTTGTGTGGGCTTT-AGAGAAGGTTCCCACTAACTTGTGTGGGCTTT-GAGAGGGTTGCCACC
1 GACTTGTGTGAGCTTTGA-AGGGGGTTGCCACTAACTTGTGTGGGCTTTAGAAAGGGTTGCCACC
* * * *
594629 GACTTGTGTGGGCTTTAAAAAGGGTTGCCACT-AGCTTGTGTGGGCTT
65 AACTTGTGTAGGCTTT-AAAAGGGGTGCCACTGA-CTTATGTGGGCTT
594676 AAAATGGGTG
Statistics
Matches: 369, Mismatches: 53, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
159 6 0.02
160 141 0.38
161 126 0.34
162 1 0.00
163 94 0.25
164 1 0.00
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (159 bp):
GACTTGTGTGAGCTTTGAAGGGGGTTGCCACTAACTTGTGTGGGCTTTAGAAAGGGTTGCCACCA
ACTTGTGTAGGCTTTAAAAGGGGTGCCACTGACTTATGTGGGCTTTGAAAAAAAGGATGCCACAA
CTTATGTTGGCTTTAAAAGGATTGCCACC
Found at i:594539 original size:129 final size:129
Alignment explanation
Indices: 594078--595026 Score: 735
Period size: 129 Copynumber: 7.4 Consensus size: 129
594068 TGTGGGGTGA
* * ** * *
594078 CACTGACTTGTGTGGGCTTTTAAGGGGGTTGCCTTTGACTTGTGTGGGCTTT---AAAGATGGTC
1 CACTGACTTGTGTGGGCTTTAAAAGGGG-TGCCACTGACTTGTGTGGGCTTTGAAAAAAATGAT-
* * * * * * *
594140 GCCACCAACTTGTGTAGGCTTTAAAAGGGG-TGCCACCAACTTATGTGGGCTTTGAAAAAAAAGG
64 GCCACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTT---AGAAAGGG
*
594204 ATGC
126 TTGC
* * * ** * ** * * *** *
594208 CAAC-AACTTATGTTGGCTTTAAAAAAAAGATGCCACCAACTTGTATGAGCTTTG--AAAGGGGT
1 C-ACTGACTTGTGTGGGCTTT--AAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAATGA
* * * * *
594270 TGCCACTAACTTGTGTGGGCTTT-AGAGAGGGTTACCACCAACTTGTGTGGGCTTTA-AAAGGGG
63 TGCCACCAACTTGTGTGGGCTTTGA-AGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGGGT
594333 TGC
127 TGC
* * * * * **
594336 CACTGACTTGTGTGGGCTTTGAAAAAAGGATGCCACTAACTTCTGTTGGCTTTGAAAAGGAT--T
1 CACTGACTTGTGTGGGCTTT--AAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAATGAT
* * *
594399 GCCACCGACTTGTGTGAGCTTTGAAGGGGGTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTTG
64 GCCACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTG
594464 C
129 C
* * * * * *
594465 CACCGACTTGTGTAGGCTTTAAAAGGGGTGCCATTGACTTATATAGGCTTTGAAAAAAATGATGC
1 CACTGACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAATGATGC
* * *
594530 CACCAACTTGTGTGGGCTTTAAAGGGGGTTGCCATCGACTTGTGTGGGCTTTAGAGAA-GGTTCC
66 CACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGTTGC
* * * * * ** *
594594 CACTAACTTGTGTGGGCTTTGAGAGGGTTGCCACCGACTTGTGTGGGCTTT--AAAAAGGGTTGC
1 CACTGACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAATGATGC
* * * ** * * *
594657 CACTAGCTTGTGTGGGC-TTAAAATGGG-TGTCATCGACTTGTGTGGGCTTTAGAGAGGGTTGC
66 CACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGC
* * *
594719 CATTGACTTGTGTGGGCTTTAAAAGTGGTGCCACCGACTTGTGTGGGCTTTGGAAAAAAA-GATG
1 CACTGACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTT-GAAAAAAATGATG
* * * *
594783 CCACCAACTTATATGGGCTTTGAAGGAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGC
65 CCACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGC
* * * * * * * * *
594848 CA-TCAACTTATGTGGGCTTTAAAAAGGGTACCATTGACTTTTGTGGACTTAGAAAAAAAAGATG
1 CACT-GACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAATGATG
* * * * * *
594912 -CAGCCAACTTGTGTGGGCTTTGAAGGAGGTTACCGCTGATTTATGTGGGCTTTAGAGAA-GGTT
65 CCA-CCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGTT
594975 GC
128 GC
* *
594977 CACT-A--AGTCGTGGGCTTTAAAA-AGGTGCCACTGAC-T-TGTGGGCTTTGAAA
1 CACTGACTTGT-GTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAA
595027 GAATGCCACT
Statistics
Matches: 666, Mismatches: 127, Indels: 58
0.78 0.15 0.07
Matches are distributed among these distances:
124 13 0.02
125 76 0.11
126 19 0.03
127 87 0.13
128 119 0.18
129 257 0.39
130 22 0.03
131 43 0.06
132 30 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (129 bp):
CACTGACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAATGATGC
CACCAACTTGTGTGGGCTTTGAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAAAGGGTTGC
Found at i:594739 original size:254 final size:257
Alignment explanation
Indices: 594270--594874 Score: 724
Period size: 254 Copynumber: 2.4 Consensus size: 257
594260 TGAAAGGGGT
* * * * * *
594270 TGCCACTAACTTGTGTGGGCTTTAGAGAGGGTTACCACCAACTTGTGTGGGCTTTA-A-AAGGGG
1 TGCCACCAACTTGTGTGGGCTTTAAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAA-GGT
* * * *
594333 TGCCACTGACTTGTGTGGGCTTTGAAAAAAGGATGCCACTAACTTCTGTTGGCTTTGAAAAGGAT
65 TGCCACTAACTTGTGTGGGCTTTG-AAAAAGGATGCCACCAACTTCTGTGGGCTTTAAAAAGGAT
* * *
594398 TGCCACCGACTTGTGTGAGCTTTGAAGGGGGTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTT
129 TGCCACAGACTTGTGTGAGCTTTAAAAGGGGTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTT
**
594463 GCCACCGACTTGTGTAGGCTTTAAAAGGGGTGCCATTGACTTATATAGGCTTT-GAAAAAAATGA
194 GCCACCGACTTGTGTAGGCTTTAAAAGGGGTGCCACCGACTTATATAGGCTTTGGAAAAAAA-GA
*
594527 TGCCACCAACTTGTGTGGGCTTTAAAGGGGGTTGCCATCGACTTGTGTGGGCTTTAGAGAAGGTT
1 TGCCACCAACTTGTGTGGGCTTTAAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
* * * * * * *
594592 CCCACTAACTTGTGTGGGCTTTG-AGAGGGTTGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTG
66 GCCACTAACTTGTGTGGGCTTTGAAAAAGGATGCCACCAACTTCTGTGGGCTTTAAAAAGGATTG
* * * * * *
594656 CCACTAG-CTTGTGTGGGC-TTAAAATGGG-TGTCATCGACTTGTGTGGGCTTTAGAGAGGGTTG
131 CCAC-AGACTTGTGTGAGCTTTAAAAGGGGTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTTG
** * * * * *
594718 CCATTGACTTGTGTGGGCTTTAAAAGTGGTGCCACCGACTTGTGTGGGCTTTGGAAAAAAAGA
195 CCACCGACTTGTGTAGGCTTTAAAAGGGGTGCCACCGACTTATATAGGCTTTGGAAAAAAAGA
* * * * *
594781 TGCCACCAACTTATATGGGCTTTGAAGGAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTT
1 TGCCACCAACTTGTGTGGGCTTTAAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
*
594846 GCCA-TCAACTTATGTGGGCTTT-AAAAAGG
66 GCCACT-AACTTGTGTGGGCTTTGAAAAAGG
594875 GTACCATTGA
Statistics
Matches: 296, Mismatches: 46, Indels: 15
0.83 0.13 0.04
Matches are distributed among these distances:
253 1 0.00
254 156 0.53
255 15 0.05
256 46 0.16
257 51 0.17
258 25 0.08
259 2 0.01
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.30
Consensus pattern (257 bp):
TGCCACCAACTTGTGTGGGCTTTAAAGGGGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGTT
GCCACTAACTTGTGTGGGCTTTGAAAAAGGATGCCACCAACTTCTGTGGGCTTTAAAAAGGATTG
CCACAGACTTGTGTGAGCTTTAAAAGGGGTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTTGC
CACCGACTTGTGTAGGCTTTAAAAGGGGTGCCACCGACTTATATAGGCTTTGGAAAAAAAGA
Found at i:594961 original size:383 final size:383
Alignment explanation
Indices: 594238--594982 Score: 950
Period size: 383 Copynumber: 1.9 Consensus size: 383
594228 AAAAAAAAGA
* * *
594238 TGCCACCAACTTGTATGAGCTTTGAAAGGGGTTGCCACTAACTTGTGTGGGCTTTAGAGAGGGTT
1 TGCCACCAACTTGTATGAGCTTTAAAAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAAGGGTT
594303 ACCACCAACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAGGATG
66 A-CACCAACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAGGATG
* * * * * * *
594368 CCACTAACTTCTGTTGGCTTTGAAAAGGATTGCCACCGACTTGTGTGAGCTTTGAAGGGGGTTGC
130 CCACCAACTTCTGTGGGCTTTGAAAAAGATTGCCACCAACTTATATGAGCTTTGAAGGAGGTTGC
* * * *
594433 CACCGACTTGTATGGGCTTTAGAAAGGGTTGCCACCGACTTGTGTAGGCTTTAAAAGGGGTGCCA
195 CACCGACTTGTATGGGCTTTAGAAAGGGTTGCCACCAACTTATGTAGGCTTTAAAAAGGGTACCA
* * * *
594498 TTGACTTATATAGGCTTTGAAAAAAATGATGCCACCAACTTGTGTGGGCTTTAAAGGGGGTTGCC
260 TTGACTTATATAGGCTTAGAAAAAAAAGATGCCACCAACTTGTGTGGGCTTTAAAGGAGGTTACC
*
594563 ATCGACTTGTGTGGGCTTTAGAGAAGGTTCCCACTAACTTGTGTGGGCTTTGAGAGGGT
325 ATCGACTTATGTGGGCTTTAGAGAAGGTTCCCACTAACTTGTGTGGGCTTTGAGAGGGT
* * * *
594622 TGCCACCGACTTGTGTGGGCTTTAAAAAGGGTTGCCACTAGCTTGTGTGGGC-TTA-AAATGGGT
1 TGCCACCAACTTGTATGAGCTTTAAAAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAA-GGGT
* * * * * **
594685 GT-CATCGACTTGTGTGGGCTTTAGAGAGGGTTGCCATTGACTTGTGTGGGCTTT-AAAAGTGG-
65 -TACACCAACTTGTGTGGGCTTTA-AAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAGGA
* * *
594747 TGCCACCGACTTGTGTGGGCTTTGGAAAAAAAGA-TGCCACCAACTTATATGGGCTTTGAAGGAG
128 TGCCACCAACTTCTGTGGGCTTT-G--AAAAAGATTGCCACCAACTTATATGAGCTTTGAAGGAG
* * * *
594811 GTTGCCACCGACTTGTGTGGGCTTTAGAGAGGGTTGCCATCAACTTATGTGGGCTTTAAAAAGGG
190 GTTGCCACCGACTTGTATGGGCTTTAGAAAGGGTTGCCACCAACTTATGTAGGCTTTAAAAAGGG
* * *
594876 TACCATTGACTTTTGT-GGACTTAGAAAAAAAAGATG-CAGCCAACTTGTGTGGGCTTTGAAGGA
255 TACCATTGACTTATATAGG-CTTAGAAAAAAAAGATGCCA-CCAACTTGTGTGGGCTTTAAAGGA
* * *
594939 GGTTACC-GCTGATTTATGTGGGCTTTAGAGAAGGTTGCCACTAA
318 GGTTACCATC-GACTTATGTGGGCTTTAGAGAAGGTTCCCACTAA
594983 GTCGTGGGCT
Statistics
Matches: 309, Mismatches: 43, Indels: 19
0.83 0.12 0.05
Matches are distributed among these distances:
381 19 0.06
382 33 0.11
383 204 0.66
384 53 0.17
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (383 bp):
TGCCACCAACTTGTATGAGCTTTAAAAAGGGTTGCCACTAACTTGTGTGGGCTTTAGAAAGGGTT
ACACCAACTTGTGTGGGCTTTAAAAGGGGTGCCACTGACTTGTGTGGGCTTTGAAAAAAGGATGC
CACCAACTTCTGTGGGCTTTGAAAAAGATTGCCACCAACTTATATGAGCTTTGAAGGAGGTTGCC
ACCGACTTGTATGGGCTTTAGAAAGGGTTGCCACCAACTTATGTAGGCTTTAAAAAGGGTACCAT
TGACTTATATAGGCTTAGAAAAAAAAGATGCCACCAACTTGTGTGGGCTTTAAAGGAGGTTACCA
TCGACTTATGTGGGCTTTAGAGAAGGTTCCCACTAACTTGTGTGGGCTTTGAGAGGGT
Found at i:595017 original size:28 final size:28
Alignment explanation
Indices: 594955--595248 Score: 186
Period size: 28 Copynumber: 10.4 Consensus size: 28
594945 CGCTGATTTA
* * *
594955 TGTGGGCTTTAGAGAAGGTTGCCACTAAGT
1 TGTGGGCTTTA-AAAAGG-TGCCACTGACT
*
594985 CGTGGGCTTTAAAAAGGTGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
595013 TGTGGGCTTTGAAAGAA--TGCCACTGACT
1 TGTGGGCTTT-AAA-AAGGTGCCACTGACT
** * *
595041 CAT-GGCTTT-GAAAGGATGCCACTCACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
* * * *
595068 TATTGGCTTTGAAAGGGTGCCACT-AGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGA-CT
** * * *
595096 CATGGGCTTTGAAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
*** * * *
595124 TACAGGTTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTAAAAAGGTGCCACTGACT
*
595152 TGTGGGCTTTAAAAGGGTGCCACT-AGCT
1 TGTGGGCTTTAAAAAGGTGCCACTGA-CT
* ** *
595180 TATGGGCTTTTGAAAGGATGCCATTGACT
1 TGTGGGCTTTAAAAAGG-TGCCACTGACT
*
595209 TGTAGGCTTTAAGAAAGGATGCCACTGACT
1 TGTGGGCTTTAA-AAAGG-TGCCACTGACT
*
595239 CGTGGGCTTT
1 TGTGGGCTTT
595249 TGGAAAATGA
Statistics
Matches: 215, Mismatches: 36, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
24 2 0.01
25 1 0.00
27 20 0.09
28 126 0.59
29 29 0.13
30 37 0.17
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTAAAAAGGTGCCACTGACT
Found at i:595135 original size:56 final size:56
Alignment explanation
Indices: 594957--595208 Score: 256
Period size: 56 Copynumber: 4.5 Consensus size: 56
594947 CTGATTTATG
* * * * * * *
594957 TGGGCTTTAGAGAAGGTTGCCACTAAGTCGTGGGCTTTAAAAAGGTGCCACTGACTTG
1 TGGGCTTT-GA-AAGGATGCCACTGACTCATGGGCTTTAAAAGGGTGCCACTAACTTA
* * * *
595015 TGGGCTTTGAAAGAATGCCACTGACTCAT-GGCTTTGAAAGGATGCCACTCACTTA
1 TGGGCTTTGAAAGGATGCCACTGACTCATGGGCTTTAAAAGGGTGCCACTAACTTA
* * *
595070 TTGGCTTTGAAAGGGTGCCACT-AGCTCATGGGCTTTGAAAGGGTGCCACTAACTTA
1 TGGGCTTTGAAAGGATGCCACTGA-CTCATGGGCTTTAAAAGGGTGCCACTAACTTA
** * * ** *
595126 CAGGTTTTGAAAGGGTGCCACTGACTTGTGGGCTTTAAAAGGGTGCCACTAGCTTA
1 TGGGCTTTGAAAGGATGCCACTGACTCATGGGCTTTAAAAGGGTGCCACTAACTTA
*
595182 TGGGCTTTTGAAAGGATGCCATTGACT
1 TGGGC-TTTGAAAGGATGCCACTGACT
595209 TGTAGGCTTT
Statistics
Matches: 163, Mismatches: 27, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
54 1 0.01
55 45 0.28
56 87 0.53
57 22 0.13
58 8 0.05
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (56 bp):
TGGGCTTTGAAAGGATGCCACTGACTCATGGGCTTTAAAAGGGTGCCACTAACTTA
Found at i:595169 original size:84 final size:83
Alignment explanation
Indices: 594986--595248 Score: 305
Period size: 84 Copynumber: 3.1 Consensus size: 83
594976 CCACTAAGTC
* * * *
594986 GTGGGCTTTAAAAAGGTGCCACT-GACTTGTGGGCTTTGAAAGAATGCCACTGAC-TCATGGCTT
1 GTGGGCTTTAAAAGGGTGCCACTAG-CTTATGGGCTTTGAAAGGATGCCACTGACTTCA-GGTTT
*
595049 TGAAAGGATGCCACTCACTT
64 TGAAAGGATGCCACTGACTT
* * * * * *
595069 ATTGGCTTTGAAAGGGTGCCACTAGCTCATGGGCTTTGAAAGGGTGCCACTAACTTACAGGTTTT
1 GTGGGCTTTAAAAGGGTGCCACTAGCTTATGGGCTTTGAAAGGATGCCACTGACTT-CAGGTTTT
*
595134 GAAAGGGTGCCACTGACTT
65 GAAAGGATGCCACTGACTT
* *
595153 GTGGGCTTTAAAAGGGTGCCACTAGCTTATGGGCTTTTGAAAGGATGCCATTGACTTGTAGGCTT
1 GTGGGCTTTAAAAGGGTGCCACTAGCTTATGGGC-TTTGAAAGGATGCCACTGACTT-CAGG-TT
* *
595218 TAAGAAAGGATGCCACTGACTC
63 T-TGAAAGGATGCCACTGACTT
595240 GTGGGCTTT
1 GTGGGCTTT
595249 TGGAAAATGA
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
83 43 0.29
84 54 0.36
85 24 0.16
86 3 0.02
87 26 0.17
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (83 bp):
GTGGGCTTTAAAAGGGTGCCACTAGCTTATGGGCTTTGAAAGGATGCCACTGACTTCAGGTTTTG
AAAGGATGCCACTGACTT
Found at i:596494 original size:24 final size:24
Alignment explanation
Indices: 596462--596531 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 24
596452 CATGTCCTTG
*
596462 TTTTTTTGTTGTTCCATTTTTTTA
1 TTTTTTTGTTTTTCCATTTTTTTA
* * *
596486 TTTTTTTGTTTTTGCACTTTTTTG
1 TTTTTTTGTTTTTCCATTTTTTTA
* *
596510 TTTTGTTTTTTTTTTCATTTTT
1 TTTT-TTTGTTTTTCCATTTTT
596532 CGTACTTTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 24 0.63
25 14 0.37
ACGTcount: A:0.06, C:0.07, G:0.09, T:0.79
Consensus pattern (24 bp):
TTTTTTTGTTTTTCCATTTTTTTA
Found at i:596497 original size:16 final size:16
Alignment explanation
Indices: 596478--596524 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
596468 TGTTGTTCCA
596478 TTTTTTTATTTTTTTG
1 TTTTTTTATTTTTTTG
** *
596494 TTTTTGCACTTTTTTG
1 TTTTTTTATTTTTTTG
596510 TTTTGTTT-TTTTTTT
1 TTTT-TTTATTTTTTT
596525 CATTTTTCGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 23 0.96
17 1 0.04
ACGTcount: A:0.04, C:0.04, G:0.09, T:0.83
Consensus pattern (16 bp):
TTTTTTTATTTTTTTG
Found at i:596914 original size:20 final size:19
Alignment explanation
Indices: 596859--596914 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
596849 AAAACCCTTA
*
596859 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
596879 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
596899 AATGTATCGATACATG
1 AAAGTATCGATACATG
596915 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:596990 original size:19 final size:19
Alignment explanation
Indices: 596966--597030 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
596956 TAGCCAAACT
596966 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
596985 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
596998 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
597019 TGTATCGATACA
1 TGTATCGATACA
597031 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:597002 original size:13 final size:13
Alignment explanation
Indices: 596984--597009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
596974 TACACAAAAT
596984 ATGTATCGATACA
1 ATGTATCGATACA
596997 ATGTATCGATACA
1 ATGTATCGATACA
597010 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:597007 original size:32 final size:33
Alignment explanation
Indices: 596966--597030 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
596956 TAGCCAAACT
596966 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
596998 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
597031 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:604511 original size:19 final size:20
Alignment explanation
Indices: 604487--604539 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 20
604477 AATGATACAT
604487 TGTATCGATACAATACT-TA
1 TGTATCGATACAATACTATA
* * *
604506 TGTATCAATACATTTACTATT
1 TGTATCGATACA-ATACTATA
604527 TGTATCGATACAA
1 TGTATCGATACAA
604540 ATTGTTGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 11 0.41
20 4 0.15
21 12 0.44
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTATA
Found at i:605460 original size:49 final size:48
Alignment explanation
Indices: 605299--605886 Score: 327
Period size: 49 Copynumber: 12.8 Consensus size: 48
605289 CGAAGAATGA
* ** * *
605299 CAATGTGATGATTCTTGGCCAGCGACATTAGACTTAAAG--AAGAATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAG-GTGC
** * * *
605346 CAATGTGCTGAGACAAGGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GAT-AAGGTGC
* * *
605398 CAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGGTGC
* * *
605447 CAATGTGCTGATTCAAGGCTAGAGACATTGGTCTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA----TAAGGTGC
* * * * * *
605499 CAATGTGTTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAAGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGGTGC
* * * * *
605548 CAATATGTTGATTCAAAGCCAACGATATT-GAGC-T-----T-A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGA-CTTAAAGATAAGGTGC
* * *
605587 CAATGTGCTGATTCAAGGCCAGTGATATTGGGC-T-----T---GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGGTGC
*
605626 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGGTGC
* * * * *
605675 CAATATGCTAATTCAAGGCCAACAATATTGGAC-T-----T---GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGGTGC
* *
605714 TAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGGTGC
* * *
605763 CGATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGGTGC
* * * * *
605802 CAATATGCTAATTCAAGGTCAGCGACATTGGTCTTGAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-AAGGTGC
* * *
605851 CAATATGCTAATTCAAGGCCAGCGATATTGGACTTA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA
605887 GAAAAAGATG
Statistics
Matches: 426, Mismatches: 71, Indels: 86
0.73 0.12 0.15
Matches are distributed among these distances:
39 125 0.29
40 4 0.01
41 1 0.00
43 3 0.01
45 3 0.01
47 29 0.07
48 5 0.01
49 174 0.41
50 3 0.01
52 75 0.18
53 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (48 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAGGTGC
Found at i:605656 original size:39 final size:39
Alignment explanation
Indices: 605544--605837 Score: 203
Period size: 39 Copynumber: 7.0 Consensus size: 39
605534 AAAGATGAAA
* * *
605544 GTGCCAATATGTTGATTCAAAGCCAACGATATTGAG-CTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTG-GTCTT
* * * *
605583 ATGCCAATGTGCTGATTCAAGGCCAGTGATATTGGGCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
* *
605622 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTC-T-----T
* * * *
605667 AAAGGTGCCAATATGCTAATTCAAGGCCAACAATATTGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
* * *
605710 GTGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTC-T-----T
* *
605755 AAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
* * *
605798 GTGCCAATATGCTAATTCAAGGTCAGCGACATTGGTCTT
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
605837 G
1 G
605838 AAGATAAAGG
Statistics
Matches: 201, Mismatches: 33, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
38 1 0.00
39 129 0.64
40 2 0.01
43 2 0.01
45 2 0.01
48 2 0.01
49 63 0.31
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (39 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGTCTT
Found at i:605721 original size:127 final size:127
Alignment explanation
Indices: 605495--605744 Score: 360
Period size: 127 Copynumber: 2.0 Consensus size: 127
605485 GATGGTTAAG
* * * *
605495 GTGCCAATGTGTTGATTTAAGGCCAACGACATCGGTCTTAAAGATGAAAGTGCCAATATGTTGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAAGTGCCAATATGCTAAT
* * *
605560 TCAAAGCCAACGATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGTGATATTGGGCTT
66 TCAAAGCCAACAATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
* *
605622 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-AAAGGTGCCAATATGCTAA
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAA-GTGCCAATATGCTAA
* * *
605686 TTCAAGGCCAACAATATTG-GACTTGTGCTAATGTGCTGATTCAAGGCCAGCGACATTGG
65 TTCAAAGCCAACAATATTGAG-CTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGG
605745 TCTTAAAGAT
Statistics
Matches: 109, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
126 4 0.04
127 105 0.96
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (127 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAAGTGCCAATATGCTAAT
TCAAAGCCAACAATATTGAGCTTATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT
Found at i:605733 original size:88 final size:88
Alignment explanation
Indices: 605584--605885 Score: 487
Period size: 88 Copynumber: 3.4 Consensus size: 88
605574 ATTGAGCTTA
* * * *
605584 TGCCAATGTGCTGATTCAAGGCCAGTGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGC
605649 GACATTGGTCTTAAAGATAAAGG
66 GACATTGGTCTTAAAGATAAAGG
* * *
605672 TGCCAATATGCTAATTCAAGGCCAACAATATTGGACTTGTGCTAATGTGCTGATTCAAGGCCAGC
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGC
605737 GACATTGGTCTTAAAGATAAAGG
66 GACATTGGTCTTAAAGATAAAGG
* * * * *
605760 TGCCGATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATATGCTAATTCAAGGTCAGC
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGC
*
605825 GACATTGGTCTTGAAGATAAAGG
66 GACATTGGTCTTAAAGATAAAGG
605848 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT
1 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT
605886 AGAAAAAGAT
Statistics
Matches: 196, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 196 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAGC
GACATTGGTCTTAAAGATAAAGG
Found at i:606008 original size:30 final size:30
Alignment explanation
Indices: 605903--606030 Score: 131
Period size: 30 Copynumber: 4.3 Consensus size: 30
605893 GATGCCACCA
* **
605903 ACTTGTGTAGGCTTTTGAAAGGGTTG-CACCA
1 ACTTGTG--GGCTTTTGAAAGGGGTGCCACTG
* * *
605934 ACTTATGTGCTTTTG-AA-GGTTGCCACTG
1 ACTTGTGGGCTTTTGAAAGGGGTGCCACTG
605962 ACTTGTGGGC-TTTGAAAGGGGTGCCA-TCG
1 ACTTGTGGGCTTTTGAAAGGGGTGCCACT-G
*
605991 ACTTGTGGGCTTTTGAAATGGGTGCCACTG
1 ACTTGTGGGCTTTTGAAAGGGGTGCCACTG
606021 ACTTGTGGGC
1 ACTTGTGGGC
606031 CTAAAAGGAG
Statistics
Matches: 83, Mismatches: 8, Indels: 13
0.80 0.08 0.12
Matches are distributed among these distances:
27 9 0.11
28 16 0.19
29 25 0.30
30 26 0.31
31 7 0.08
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.33
Consensus pattern (30 bp):
ACTTGTGGGCTTTTGAAAGGGGTGCCACTG
Found at i:606017 original size:59 final size:56
Alignment explanation
Indices: 605916--606030 Score: 149
Period size: 59 Copynumber: 2.0 Consensus size: 56
605906 TGTGTAGGCT
* * *
605916 TTTGAAAGGGTTGCACCAACTTATGTGCTTTTGAAGGTTGCCACTGACTTGTGGGC
1 TTTGAAAGGGGTGCACCAACTTATGGGCTTTTGAAGGGTGCCACTGACTTGTGGGC
* * *
605972 TTTGAAAGGGGTGCCATCGACTTGTGGGCTTTTGAAATGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGGTG-CACCAACTTATGGGCTTTTG-AA-GGGTGCCACTGACTTGTGGGC
606031 CTAAAAGGAG
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
56 12 0.24
57 16 0.32
58 2 0.04
59 20 0.40
ACGTcount: A:0.18, C:0.17, G:0.32, T:0.32
Consensus pattern (56 bp):
TTTGAAAGGGGTGCACCAACTTATGGGCTTTTGAAGGGTGCCACTGACTTGTGGGC
Found at i:606084 original size:27 final size:27
Alignment explanation
Indices: 606054--606214 Score: 142
Period size: 27 Copynumber: 5.4 Consensus size: 27
606044 GATACCATGA
*
606054 AGTTGTTGACTTAAAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGGTGCCACGG
606081 AGTTGTGGACTTAAAAGGAAAAAGAATGCCACGG
1 AGTTGTGGACTTAAAAGG-----G--TGCCACGG
** *
606115 AGTTGTGGGGTTAAAAGGGTGCCACGA
1 AGTTGTGGACTTAAAAGGGTGCCACGG
*
606142 AGTTGTGGACTTAAAAGGAAAAAGCGTGCCACAG
1 AGTTGTGGACTTAAAA-G-----G-GTGCCACGG
*
606176 AGTTGTGGGCTTAAAAGGGTGCCACGG
1 AGTTGTGGACTTAAAAGGGTGCCACGG
606203 AGTTGTGGACTT
1 AGTTGTGGACTT
606215 TGAAAAGAAA
Statistics
Matches: 109, Mismatches: 11, Indels: 28
0.74 0.07 0.19
Matches are distributed among these distances:
27 57 0.52
28 2 0.02
29 1 0.01
32 1 0.01
33 2 0.02
34 46 0.42
ACGTcount: A:0.30, C:0.13, G:0.34, T:0.22
Consensus pattern (27 bp):
AGTTGTGGACTTAAAAGGGTGCCACGG
Found at i:606111 original size:34 final size:33
Alignment explanation
Indices: 606066--606711 Score: 519
Period size: 34 Copynumber: 20.0 Consensus size: 33
606056 TTGTTGACTT
*
606066 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* **
606099 AAAAAGAATGCCACGGAGTTGTGGGGTTAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
*
606132 -----GGTGCCACGAAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
606160 AAAAAGCGTGCCACAGAGTTGTGGGCTTAAAA-G
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
606193 -----GGTGCCACGGAGTTGTGGACTTTGAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
* *
606222 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
606257 AAAAATGTGCCACGGAGTTGTGTACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * **
606290 AACAAGGTGCCACAGAGTTATGGACTT-TTAGTAG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAG--G
* * * *
606324 AAAAAGAGTGCCACAGAGTCGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGG
* * *
606359 AAAAATGTGCCATGGAGTTGTGTACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* **
606392 AATAAGGTGCCACGGAGTTGTGGTTTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
606425 ----A--TGCCACAGAGTTGTGAACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
606452 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGG
*
606487 AACAAGGTGCCACGGAGTTGTGGACTT---A--
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * * * *
606515 AAAAAGATACCACAGTGTTGTGGACTTAAATGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
606548 AAAAATAGTGCCACGGAGTTGTGGGCTTTAAAAGG
1 AAAAA-GGTGCCACGGAGTTGTGGAC-TTAAAAGG
* *
606583 AACAAGGTGCCATGGAGTTGTGGACTT------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
606610 AAAAAGGATGCCACAGTGTTGTGGACTTAAAAGG
1 AAAAAGG-TGCCACGGAGTTGTGGACTTAAAAGG
* *
606644 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-A
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGG
606678 AGAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 A-AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
606712 GTGCCATAGA
Statistics
Matches: 484, Mismatches: 81, Indels: 95
0.73 0.12 0.14
Matches are distributed among these distances:
27 66 0.14
28 44 0.09
29 6 0.01
30 1 0.00
31 1 0.00
32 2 0.00
33 86 0.18
34 190 0.39
35 85 0.18
36 2 0.00
37 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:606138 original size:61 final size:60
Alignment explanation
Indices: 606010--606717 Score: 364
Period size: 61 Copynumber: 11.1 Consensus size: 60
606000 CTTTTGAAAT
* * * * * * * * * * *
606010 GGGTGCCACTGACTTGTGGGCCTAAAAGGAGAAAGATACCATGAAGTTGTTGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA
* *
606070 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGGTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTAAAA
* *
606131 GGGTGCCACGAAGTTGTGGACTTAAAAGGAAAAAGCGTGCCACAGAGTTGTGGGCTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTAAAA
606192 GGGTGCCACGGAGTTGTGGACTTTGAAAA-GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA
1 GGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAG-GTGCCACGGAGTTGTGGGC-TT-AAAA
* * * * * *
606256 GAAAAATGTGCCACGGAGTTGTGTACTTAAAAGGAACAAGGTGCCACAGAGTTATGGACTTTTAG
1 G-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGC---T--
606321 TAGAAAAA
56 T---AAAA
* * * * * * * **
606329 GAGTGCCACAGAGTCGTGGGCTTTAAAAAGAAAAATGTGCCATGGAGTTGTGTACTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA
** * **
606390 GGAATAAGGTGCCACGGAGTTGTGGTTTTAAAAGG----A--TGCCACAGAGTTGTGAACTTAAA
1 -G-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAA
606449 A
60 A
* * *
606450 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTA
1 -G-----G-GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTT-
606515 AAAA
57 AAAA
* * * * * * *
606519 AGATACCACAGTGTTGTGGACTTAAATGGAAAAATAGTGCCACGGAGTTGTGGGCTTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAA-GGTGCCACGGAGTTGTGGGC-TTAAAA
* * * *
606581 GGAACAAGGTGCCATGGAGTTGTGGACTT------AAAAAGGATGCCACAGTGTTGTGGACTTAA
1 -G-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG-TGCCACGGAGTTGTGGGCTTAA
606640 AA
59 AA
* * *
606642 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-AAGAAAAGGTGCCACGGAGTTGTGGACTT
1 -G-----G-GTGCCACGGAGTTGTGGAC-TTAAAAGGA-AAAAGGTGCCACGGAGTTGTGGGCTT
606706 AAAA
57 AAAA
606710 GGGTGCCA
1 GGGTGCCA
606718 TAGAGTCGTG
Statistics
Matches: 522, Mismatches: 76, Indels: 99
0.75 0.11 0.14
Matches are distributed among these distances:
60 58 0.11
61 147 0.28
62 111 0.21
63 11 0.02
64 6 0.01
66 9 0.02
67 36 0.07
68 81 0.16
69 56 0.11
71 1 0.00
73 6 0.01
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (60 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA
Found at i:606447 original size:27 final size:27
Alignment explanation
Indices: 606395--606452 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
606385 TAAAAGGAAT
* ***
606395 AAGG-TGCCACGGAGTTGTGGTTTTAA
1 AAGGATGCCACAGAGTTGTGAACTTAA
606421 AAGGATGCCACAGAGTTGTGAACTTAA
1 AAGGATGCCACAGAGTTGTGAACTTAA
606448 AAGGA
1 AAGGA
606453 AAAAGAGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (27 bp):
AAGGATGCCACAGAGTTGTGAACTTAA
Found at i:606542 original size:96 final size:95
Alignment explanation
Indices: 606066--606709 Score: 664
Period size: 96 Copynumber: 6.7 Consensus size: 95
606056 TTGTTGACTT
* * * * **
606066 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAATGCCACGGAGTTGTGGGGTT-AAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAACAAG-GTGCCACGGAGTTGTGGACTTAAAA
* *
606130 AGGGTGCCAC-GAAGTTGTGGACTTAAAAGGA
65 AAGATGCCACAG-AGTTGTGGACTTAAAAGGA
* *
606161 AAAAGCGTGCCACAGAGTTGTGGGCTTAAAA-G-----GGTGCCACGGAGTTGTGGACTTTGAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC-TT----
* * *
606220 AGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGA
61 A-AAAAAGA-TGCCACAGAGTTGTGGAC-TTAAAAGGA
* ** * *
606258 AAAA-TGTGCCACGGAGTTGTGTACTTAAAAGGAACAAGGTGCCACAGAGTTATGGACTTTTAGT
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAC---T--T
* * *
606322 AGAAAAAGAGTGCCACAGAGTCGTGGGCTTTAAAAAGA
61 A-AAAAAGA-TGCCACAGAGTTGTGGAC-TTAAAAGGA
* * ** * * *
606360 AAAA-TGTGCCATGGAGTTGTGTACTTAAAAGGAATAAGGTGCCACGGAGTTGTGG-TTTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
* *
606423 GGATGCCACAGAGTTGTGAACTTAAAAGGA
66 AGATGCCACAGAGTTGTGGACTTAAAAGGA
606453 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
* * *
606518 AAGATACCACAGTGTTGTGGACTTAAATGGA
65 AAGATGCCACAGAGTTGTGGACTTAAAAGGA
* *
606549 AAAATAGTGCCACGGAGTTGTGGGCTTTAAAAGGAACAAGGTGCCATGGAGTTGTGGACTTAAAA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAA
* *
606614 AGGATGCCACAGTGTTGTGGACTTAAAAGGA
65 AAGATGCCACAGAGTTGTGGACTTAAAAGGA
*
606645 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAAGAA-AAGGTGCCACGGAGTTGTGGACTTAAA
1 AAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAA
606709 A
64 A
606710 GGGTGCCATA
Statistics
Matches: 476, Mismatches: 49, Indels: 47
0.83 0.09 0.08
Matches are distributed among these distances:
88 16 0.03
89 3 0.01
93 12 0.03
94 32 0.07
95 69 0.14
96 214 0.45
97 21 0.04
98 1 0.00
102 105 0.22
104 2 0.00
106 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.22
Consensus pattern (95 bp):
AAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTAAAAA
AGATGCCACAGAGTTGTGGACTTAAAAGGA
Found at i:606723 original size:27 final size:26
Alignment explanation
Indices: 606680--606730 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
606670 TTTAAAAAAG
* *
606680 AAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGTGCCACAGAGTCGTGGACTT
*
606706 AAAAGGGTGCCATAGAGTCGTGGAC
1 AAAA-GGTGCCACAGAGTCGTGGAC
606731 ATTGAGAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 4 0.19
27 17 0.81
ACGTcount: A:0.29, C:0.16, G:0.35, T:0.20
Consensus pattern (26 bp):
AAAAGGTGCCACAGAGTCGTGGACTT
Found at i:606828 original size:32 final size:31
Alignment explanation
Indices: 606763--606845 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
606753 GTCGTGTACT
* * *
606763 TTGAAGAAAAAAGATACCACTAAATCATGGAC
1 TTGAAG-AAAAGGATGCCACTAAATCATAGAC
*
606795 TTGGAAGAAAAGGATGCCACTAAGTCATAGAC
1 TT-GAAGAAAAGGATGCCACTAAATCATAGAC
606827 TT--AGAAAAGAGATGCCACT
1 TTGAAGAAAAG-GATGCCACT
606846 GAGTTGTGGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
29 7 0.16
30 9 0.20
32 25 0.56
33 4 0.09
ACGTcount: A:0.45, C:0.16, G:0.20, T:0.19
Consensus pattern (31 bp):
TTGAAGAAAAGGATGCCACTAAATCATAGAC
Found at i:606843 original size:30 final size:32
Alignment explanation
Indices: 606760--607112 Score: 277
Period size: 30 Copynumber: 11.3 Consensus size: 32
606750 TAAGTCGTGT
* * * *
606760 ACTTTGAAGAAAAAAGATACCACTAAATCATGG
1 ACTTTG-AGAAAAGAGATGCCACTGAGTCATGG
* * *
606793 ACTTGGAAGAAAAG-GATGCCACTAAGTCATAG
1 ACTTTG-AGAAAAGAGATGCCACTGAGTCATGG
**
606825 AC-TT-AGAAAAGAGATGCCACTGAGTTGTGG
1 ACTTTGAGAAAAGAGATGCCACTGAGTCATGG
**
606855 ACTTT--GAAAAGAGATTGCCACTGAGTTGTGG
1 ACTTTGAGAAAAGAGA-TGCCACTGAGTCATGG
606886 ACTTTGGAGAAAA-A-ATGCCACTGAGTCATGG
1 ACTTT-GAGAAAAGAGATGCCACTGAGTCATGG
* * * *
606917 ACTTTG-GGACA-AGATGGCACTGAGTCGTGG
1 ACTTTGAGAAAAGAGATGCCACTGAGTCATGG
*
606947 GCTTTGAG--AAGAGATGCCACTGAGTCATGG
1 ACTTTGAGAAAAGAGATGCCACTGAGTCATGG
* **
606977 ACTTTGAAGAAAAAAGATGCCACTGAGTTGTGG
1 ACTTTG-AGAAAAGAGATGCCACTGAGTCATGG
* * **
607010 ACTTTGAGAAAAAAGATGCCACTAAGTTGTGG
1 ACTTTGAGAAAAGAGATGCCACTGAGTCATGG
* * **
607042 ACTTTG-GGAAA-AGATGCCACTGCGTTGTGG
1 ACTTTGAGAAAAGAGATGCCACTGAGTCATGG
* *
607072 ACTTTGAGAAGAA-A-TTGCCACTGAGTCGTGG
1 ACTTTGAGAA-AAGAGATGCCACTGAGTCATGG
*
607103 ACTTTAAGAA
1 ACTTTGAGAA
607113 GATATTTGAA
Statistics
Matches: 273, Mismatches: 33, Indels: 30
0.81 0.10 0.09
Matches are distributed among these distances:
29 12 0.04
30 91 0.33
31 75 0.27
32 52 0.19
33 38 0.14
34 5 0.02
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (32 bp):
ACTTTGAGAAAAGAGATGCCACTGAGTCATGG
Found at i:606877 original size:31 final size:31
Alignment explanation
Indices: 606830--607107 Score: 289
Period size: 30 Copynumber: 9.0 Consensus size: 31
606820 CATAGACTTA
606830 GAAAAGAGATGCCACTGAGTTGTGGACTTT-
1 GAAAAGAGATGCCACTGAGTTGTGGACTTTG
606860 GAAAAGAGATTGCCACTGAGTTGTGGACTTTG
1 GAAAAGAGA-TGCCACTGAGTTGTGGACTTTG
* **
606892 GAGAAA-AAATGCCACTGAGTCATGGACTTTG
1 GA-AAAGAGATGCCACTGAGTTGTGGACTTTG
* * * * *
606923 GGACA-AGATGGCACTGAGTCGTGGGCTTT-
1 GAAAAGAGATGCCACTGAGTTGTGGACTTTG
* **
606952 GAGAAGAGATGCCACTGAGTCATGGACTTTG
1 GAAAAGAGATGCCACTGAGTTGTGGACTTTG
*
606983 AAGAAAAAAGATGCCACTGAGTTGTGGACTTTG
1 --GAAAAGAGATGCCACTGAGTTGTGGACTTTG
* *
607016 AGAAAAAAGATGCCACTAAGTTGTGGACTTTG
1 -GAAAAGAGATGCCACTGAGTTGTGGACTTTG
* *
607048 GGAAA-AGATGCCACTGCGTTGTGGACTTT-
1 GAAAAGAGATGCCACTGAGTTGTGGACTTTG
* * *
607077 GAGAAGAAATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGA-TGCCACTGAGTTGTGGACTTT
607108 AAGAAGATAT
Statistics
Matches: 211, Mismatches: 28, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.02
30 76 0.36
31 65 0.31
32 35 0.17
33 30 0.14
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (31 bp):
GAAAAGAGATGCCACTGAGTTGTGGACTTTG
Found at i:607069 original size:62 final size:62
Alignment explanation
Indices: 606760--607107 Score: 327
Period size: 62 Copynumber: 5.6 Consensus size: 62
606750 TAAGTCGTGT
* * * * ** *
606760 ACTTTGAAGAAAAAAGATACCACTAAATCATGGAC-TTGGAAGAAAAGGATGCCACTAAGTCATA
1 ACTTTG-AGAAAAAAGATGCCACTGAGTCATGGACTTTGG--GAAAA-GATGCCACTGAGTTGTG
606824 G
62 G
* ** *
606825 AC-TT-AGAAAAGAGATGCCACTGAGTTGTGGACTTT-GAAAAGAGATTGCCACTGAGTTGTGG
1 ACTTTGAGAAAAAAGATGCCACTGAGTCATGGACTTTGGGAAA-AGA-TGCCACTGAGTTGTGG
* * *
606886 ACTTTG-GAGAAAAA-ATGCCACTGAGTCATGGACTTTGGGACAAGATGGCACTGAGTCGTGG
1 ACTTTGAGA-AAAAAGATGCCACTGAGTCATGGACTTTGGGAAAAGATGCCACTGAGTTGTGG
* * *
606947 GCTTTGAG--AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTTGTGG
1 ACTTTGAGAAAAAAGATGCCACTGAGTCATGGACTTTG--G-GAAAAGATGCCACTGAGTTGTGG
* ** *
607010 ACTTTGAGAAAAAAGATGCCACTAAGTTGTGGACTTTGGGAAAAGATGCCACTGCGTTGTGG
1 ACTTTGAGAAAAAAGATGCCACTGAGTCATGGACTTTGGGAAAAGATGCCACTGAGTTGTGG
* * *
607072 ACTTTGAGAAGAAA-TTGCCACTGAGTCGTGGACTTT
1 ACTTTGAGAAAAAAGATGCCACTGAGTCATGGACTTT
607108 AAGAAGATAT
Statistics
Matches: 234, Mismatches: 35, Indels: 32
0.78 0.12 0.11
Matches are distributed among these distances:
59 3 0.01
60 28 0.12
61 53 0.23
62 86 0.37
63 36 0.15
64 2 0.01
65 26 0.11
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (62 bp):
ACTTTGAGAAAAAAGATGCCACTGAGTCATGGACTTTGGGAAAAGATGCCACTGAGTTGTGG
Found at i:608403 original size:14 final size:13
Alignment explanation
Indices: 608384--608438 Score: 62
Period size: 13 Copynumber: 4.3 Consensus size: 13
608374 TTGGACTCTC
608384 TTTTTTTTTGTGT
1 TTTTTTTTTGTGT
*
608397 GTTTTTTTTGT-T
1 TTTTTTTTTGTGT
608409 TTTGTTTTTT-TGT
1 TTT-TTTTTTGTGT
608422 TTTTTTGTTTGT-T
1 TTTTTT-TTTGTGT
608435 TTTT
1 TTTT
608439 CTTTCTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 7 0.19
13 28 0.78
14 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (13 bp):
TTTTTTTTTGTGT
Found at i:608418 original size:8 final size:8
Alignment explanation
Indices: 608396--608436 Score: 57
Period size: 8 Copynumber: 5.1 Consensus size: 8
608386 TTTTTTTGTG
608396 TGTTTTTT
1 TGTTTTTT
*
608404 T-TGTTTT
1 TGTTTTTT
608411 TGTTTTTT
1 TGTTTTTT
608419 TGTTTTTT
1 TGTTTTTT
608427 TGTTTGTTT
1 TGTTT-TTT
608436 T
1 T
608437 TTCTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 6 0.21
8 19 0.66
9 4 0.14
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (8 bp):
TGTTTTTT
Found at i:608425 original size:35 final size:35
Alignment explanation
Indices: 608380--608471 Score: 100
Period size: 35 Copynumber: 2.6 Consensus size: 35
608370 GCCTTTGGAC
*
608380 TCTCTTTTTTTTTGTGTGTTTTTT-TTGT-TTTTGTT
1 TCTC-TTTTTTTTGTGTGTTTTTTCTT-TCTTTTCTT
* * *
608415 TTTTTGTTTTTTTGTTTGTTTTTTCTTTCTTTTCTT
1 TCTCT-TTTTTTTGTGTGTTTTTTCTTTCTTTTCTT
608451 TCTCTTTTTTTT-TGTGTTTTT
1 TCTCTTTTTTTTGTGTGTTTTT
608472 ACTTGTGACT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
34 9 0.19
35 27 0.57
36 11 0.23
ACGTcount: A:0.00, C:0.08, G:0.11, T:0.82
Consensus pattern (35 bp):
TCTCTTTTTTTTGTGTGTTTTTTCTTTCTTTTCTT
Found at i:608427 original size:26 final size:27
Alignment explanation
Indices: 608386--608437 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
608376 GGACTCTCTT
*
608386 TTTTTTTGTGTGTTTTTTTTGTTTTTG
1 TTTTTTTGTGTGTTTTGTTTGTTTTTG
*
608413 TTTTTTTGT-TTTTTTGTTTGTTTTT
1 TTTTTTTGTGTGTTTTGTTTGTTTTT
608438 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (27 bp):
TTTTTTTGTGTGTTTTGTTTGTTTTTG
Found at i:608438 original size:27 final size:27
Alignment explanation
Indices: 608386--608447 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 27
608376 GGACTCTCTT
* *
608386 TTTTTTTGTGTGTTTTTTTTGTTTTTG
1 TTTTTTTGTGTGTTTTGTTTGTTTTTC
*
608413 TTTTTTTGT-TTTTTTGTTTGTTTTTTC
1 TTTTTTTGTGTGTTTTGTTTG-TTTTTC
608440 TTTCTTTT
1 TTT-TTTT
608448 CTTTCTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
26 9 0.30
27 17 0.57
28 4 0.13
ACGTcount: A:0.00, C:0.03, G:0.13, T:0.84
Consensus pattern (27 bp):
TTTTTTTGTGTGTTTTGTTTGTTTTTC
Found at i:608447 original size:20 final size:20
Alignment explanation
Indices: 608409--608447 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
608399 TTTTTTTGTT
*
608409 TTTGTTTTTTTGTTTTTTTG
1 TTTGTTTTTTTGTTCTTTTG
608429 TTTGTTTTTTCT-TTCTTTT
1 TTTGTTTTTT-TGTTCTTTT
608448 CTTTCTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.85
Consensus pattern (20 bp):
TTTGTTTTTTTGTTCTTTTG
Found at i:608470 original size:11 final size:11
Alignment explanation
Indices: 608386--608471 Score: 59
Period size: 12 Copynumber: 7.5 Consensus size: 11
608376 GGACTCTCTT
608386 TTTTTTTGTGTG
1 TTTTTTT-TGTG
*
608398 TTTTTTTTGTT
1 TTTTTTTTGTG
*
608409 TTTGTTTTTTTG
1 TTT-TTTTTGTG
*
608421 TTTTTTTGTTTG
1 TTTTTTT-TGTG
*
608433 TTTTTTCTT-TC
1 TTTTTT-TTGTG
*
608444 TTTTCTTTCTCT-
1 TTTT-TTT-TGTG
608456 TTTTTTTTGTG
1 TTTTTTTTGTG
608467 TTTTT
1 TTTTT
608472 ACTTGTGACT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
10 2 0.03
11 24 0.39
12 34 0.55
13 2 0.03
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.83
Consensus pattern (11 bp):
TTTTTTTTGTG
Found at i:615468 original size:19 final size:21
Alignment explanation
Indices: 615441--615490 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 21
615431 AGTGATACAT
*
615441 TGTACCGATACA-ATACT-TA
1 TGTATCGATACATATACTATA
* *
615460 TGTATCGATACATTTACTATT
1 TGTATCGATACATATACTATA
615481 TGTATCGATA
1 TGTATCGATA
615491 TAAATTGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 11 0.42
20 4 0.15
21 11 0.42
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (21 bp):
TGTATCGATACATATACTATA
Found at i:616361 original size:49 final size:49
Alignment explanation
Indices: 616297--616975 Score: 501
Period size: 49 Copynumber: 14.8 Consensus size: 49
616287 ATGTTAAAGA
* *
616297 TGCCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * * *
616346 TGCCAATGTGTTGATTCAAGGCC-AGGACATTAGTCTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-G--AAGG
* *
616397 TGCCAATGTGCTGATTCAAGGCCAACGACA-TCGATCTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGA-CTTAAAGATGAAGG
* * *
616446 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
616485 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * *
616534 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGAT-G--AAGG
* * * * * *
616586 TGTCAATGTGCTGATTCAAGGCCAAGGACATCGGTCTTAAAGATGAACG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* *
616635 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T--A--
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * *
616674 TGCCAATGTGTTGATTCATGGCCAGCGATATTGGGC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * *
616713 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
*
616762 TGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-------T----G
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * *
616800 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * *
616849 TGCCGATATGCTGATTCAATGCCAGCGATATTGGAC-T-----T----G
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * * * *
616888 TGCCAATGTGCTAATTCAAGGCCAACGACATTGGTCTTGAAGATAAAGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
* * *
616937 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTA
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
616976 GAAAAAGACA
Statistics
Matches: 513, Mismatches: 66, Indels: 102
0.75 0.10 0.15
Matches are distributed among these distances:
38 34 0.07
39 129 0.25
40 3 0.01
41 2 0.00
42 1 0.00
43 3 0.01
45 4 0.01
47 1 0.00
48 19 0.04
49 226 0.44
50 3 0.01
51 30 0.06
52 58 0.11
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (49 bp):
TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGG
Found at i:616405 original size:51 final size:49
Alignment explanation
Indices: 616201--616960 Score: 415
Period size: 49 Copynumber: 16.4 Consensus size: 49
616191 CGAAGAATGA
** * * * * *
616201 CAATGTGCTGATTCTTGGCCAGCAACATTAGACTTGAAGAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
** * * * * * * *
616248 CAATGTGCTGAGACAAAGCCAGCGACATTGGGCTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTA--AA-GATGAAGGTGC
* * * * *
616300 CAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* *
616349 CAATGTGTTGATTCAAGGCC-AGGACATTAGTCTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGAT-G--AAGGTGC
*
616400 CAATGTGCTGATTCAAGGCCAACGACA-TCGATCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAG-TCTTAAAGATGAAGGTGC
* * * * *
616449 CAATATGCTGATTCAAGGCCAGCGATATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * *
616488 CAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * *
616537 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGT
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGAT-G--AAGGTGC
* ** *
616589 CAATGTGCTGATTCAAGGCCAAGGACATCGGTCTTAAAGATGAACGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * * *
616638 CAATATGCTGATTCAAGGCCAACGATATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * * * * *
616677 CAATGTGTTGATTCATGGCCAGCGATATTGGGC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * *
616716 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* **
616765 CAATATGCTGATTCAAGGCCAACG--A-TA---TT---G--GACTGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* *
616803 CAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * * * * * *
616852 CGATATGCTGATTCAATGCCAGCGATATTGGAC-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* * * *
616891 CAATGTGCTAATTCAAGGCCAACGACATTGGTCTTGAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
* *
616940 CAATATGCTAATTCAAGGCCA
1 CAATGTGCTGATTCAAGGCCA
616961 GCGATATTGG
Statistics
Matches: 569, Mismatches: 88, Indels: 110
0.74 0.11 0.14
Matches are distributed among these distances:
38 28 0.05
39 129 0.23
40 5 0.01
41 3 0.01
43 5 0.01
44 2 0.00
45 3 0.01
46 1 0.00
47 30 0.05
48 19 0.03
49 216 0.38
50 8 0.01
51 30 0.05
52 90 0.16
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAACGACATTAGTCTTAAAGATGAAGGTGC
Found at i:616500 original size:39 final size:39
Alignment explanation
Indices: 616446--616523 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
616436 AAGATGAAGG
* *
616446 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
*
616485 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
1 TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
616524 AAGATGAAGG
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTA
Found at i:616546 original size:88 final size:88
Alignment explanation
Indices: 616397--616572 Score: 291
Period size: 88 Copynumber: 2.0 Consensus size: 88
616387 ATGGTTAAGG
616397 TGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGATT
*
616462 CAAGGCCAGCGATATTGGGCTTA
66 CAAGGCCAGCGACATTGGGCTTA
* * *
616485 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGA-CTTAAAGATGAAGGTGCCAATGTGCTGAT
1 TGCCAATGTGCTGATTCAAGGCCAACGACA-TCGATCTTAAAGATGAAGGTGCCAATATGCTGAT
*
616549 TCAAGGCCAGCGACATTGGTCTTA
65 TCAAGGCCAGCGACATTGGGCTTA
616573 AAGATGGTTA
Statistics
Matches: 82, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
88 79 0.96
89 3 0.04
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.26
Consensus pattern (88 bp):
TGCCAATGTGCTGATTCAAGGCCAACGACATCGATCTTAAAGATGAAGGTGCCAATATGCTGATT
CAAGGCCAGCGACATTGGGCTTA
Found at i:616641 original size:189 final size:189
Alignment explanation
Indices: 616296--616789 Score: 755
Period size: 189 Copynumber: 2.7 Consensus size: 189
616286 AATGTTAAAG
* * *
616296 ATGCCAATATACTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGTTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
*
616361 TCAAGGCCAG-GACATTAGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGA
66 TCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGA
* *
616425 CATCGATCTTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
131 CATCGATCTTAAAGATGAACGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
616484 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
* *
616549 TCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGTCAATGTGCTGATTCAAGGCCAAGGA
66 TCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGA
*
616614 CATCGGTCTTAAAGATGAACGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
131 CATCGATCTTAAAGATGAACGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
* * * *
616673 ATGCCAATGTGTTGATTCATGGCCAGCGATATTGGGC-T-----T----GTGCCAATGTGCTGAT
1 ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
* *
616728 TCAAGGCCAGCGACATTGGTCTTAAAGA---TAAAGGTGCCAATATGCTGATTCAAGGCCAACGA
66 TCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGA
616790 TATTGGACTG
Statistics
Matches: 288, Mismatches: 17, Indels: 14
0.90 0.05 0.04
Matches are distributed among these distances:
176 30 0.10
179 44 0.15
183 1 0.00
188 73 0.25
189 140 0.49
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (189 bp):
ATGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAT
TCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGA
CATCGATCTTAAAGATGAACGTGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTT
Found at i:616668 original size:101 final size:101
Alignment explanation
Indices: 616488--616673 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
616478 GGGCTTATGC
* * * *
616488 CAATGTGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAACGTGCCAATATGCTGATTCAA
* *
616553 GGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGT
66 GGCCAACGACATTGGGCTTAAAGATGGTTAAGGTGT
* *
616589 CAATGTGCTGATTCAAGGCCAAGGACATCGGTCTTAAAGATGAACGTGCCAATATGCTGATTCAA
1 CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAACGTGCCAATATGCTGATTCAA
*
616654 GGCCAACGATATTGGGCTTA
66 GGCCAACGACATTGGGCTTA
616674 TGCCAATGTG
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
101 76 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (101 bp):
CAATGTGCTGATTCAAGGCCAACGACATCGGACTTAAAGATGAACGTGCCAATATGCTGATTCAA
GGCCAACGACATTGGGCTTAAAGATGGTTAAGGTGT
Found at i:616678 original size:39 final size:39
Alignment explanation
Indices: 616635--616921 Score: 198
Period size: 39 Copynumber: 6.9 Consensus size: 39
616625 AAGATGAACG
* *
616635 TGCCAATATGCTGATTCAAGGCCAACGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
* * * * *
616674 TGCCAATGTGTTGATTCATGGCCAGCGATATTGGGCTTG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
* * *
616713 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATAAA
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGAC-T-----T--A
* *
616760 GGTGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-TG
1 --TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
* *
616800 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATAAA
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGGAC-T-----T--A
* * * * *
616847 GGTGCCGATATGCTGATTCAATGCCAGCGATATTGGACTTG
1 --TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
* *
616888 TGCCAATGTGCTAATTCAAGGCCAACGACATTGG
1 TGCCAATGTGCTGATTCAAGGCCAACGATATTGG
616922 TCTTGAAGAT
Statistics
Matches: 195, Mismatches: 32, Indels: 42
0.72 0.12 0.16
Matches are distributed among these distances:
38 33 0.17
39 94 0.48
40 1 0.01
42 1 0.01
43 1 0.01
45 2 0.01
48 1 0.01
49 62 0.32
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (39 bp):
TGCCAATGTGCTGATTCAAGGCCAACGATATTGGACTTA
Found at i:616812 original size:38 final size:38
Alignment explanation
Indices: 616761--616921 Score: 133
Period size: 38 Copynumber: 3.9 Consensus size: 38
616751 AAAGATAAAG
*
616761 GTGCCAATATGCTGATTCAAGGCCAACGATATTGGACT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACT
* *
616799 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGAT
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGG------A-CT
* * * *
616844 AAAGGTGCCGATATGCTGATTCAATGCCAGCGATATTGGACTT
1 ----GTGCCAATATGCTGATTCAAGGCCAACGACATTGGAC-T
* *
616887 GTGCCAATGTGCTAATTCAAGGCCAACGACATTGG
1 GTGCCAATATGCTGATTCAAGGCCAACGACATTGG
616922 TCTTGAAGAT
Statistics
Matches: 96, Mismatches: 15, Indels: 23
0.72 0.11 0.17
Matches are distributed among these distances:
38 33 0.34
39 29 0.30
43 2 0.02
44 1 0.01
45 1 0.01
49 30 0.31
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (38 bp):
GTGCCAATATGCTGATTCAAGGCCAACGACATTGGACT
Found at i:616939 original size:88 final size:88
Alignment explanation
Indices: 616674--616974 Score: 496
Period size: 88 Copynumber: 3.4 Consensus size: 88
616664 ATTGGGCTTA
* * * * *
616674 TGCCAATGTGTTGATTCATGGCCAGCGATATTGGGCTTGTGCCAATGTGCTGATTCAAGGCCAGC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAAC
616739 GACATTGGTCTTAAAGATAAAGG
66 GACATTGGTCTTAAAGATAAAGG
*
616762 TGCCAATATGCTGATTCAAGGCCAACGATATTGGAC-TGTGCCAATGTGCTGATTCAAGGCCAAC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAAC
616826 GACATTGGTCTTAAAGATAAAGG
66 GACATTGGTCTTAAAGATAAAGG
* * *
616849 TGCCGATATGCTGATTCAATGCCAGCGATATTGGACTTGTGCCAATGTGCTAATTCAAGGCCAAC
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAAC
*
616914 GACATTGGTCTTGAAGATAAAGG
66 GACATTGGTCTTAAAGATAAAGG
*
616937 TGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTT
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
616975 AGAAAAAGAC
Statistics
Matches: 198, Mismatches: 14, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
87 83 0.42
88 115 0.58
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (88 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGTGCCAATGTGCTGATTCAAGGCCAAC
GACATTGGTCTTAAAGATAAAGG
Found at i:617082 original size:57 final size:58
Alignment explanation
Indices: 617005--617119 Score: 180
Period size: 59 Copynumber: 2.0 Consensus size: 58
616995 TGTGTAGGCT
* * *
617005 TTTGAAAGGGTTGCACCAACTTGTGTGCTTTTG-AA-GGTTGCCACTGACTTGTGGGC
1 TTTGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAATGGGTGCCACTGACTTGTGGGC
617061 TTTGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAATGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGGTG-CACCAACTTGTGGGCTTTTGAAATGGGTGCCACTGACTTGTGGGC
617120 CTAAAGGGAG
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
56 12 0.23
57 19 0.36
58 2 0.04
59 20 0.38
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.31
Consensus pattern (58 bp):
TTTGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAATGGGTGCCACTGACTTGTGGGC
Found at i:617085 original size:29 final size:30
Alignment explanation
Indices: 616986--617119 Score: 150
Period size: 30 Copynumber: 4.5 Consensus size: 30
616976 GAAAAAGACA
*
616986 CCACCAACTTGTGTAGGCTTTTGAAAGGGTTG
1 CCACCAACTTGTG--GGCTTTTGAAAGGGGTG
* *
617018 -CACCAACTTGTGTGCTTTTG-AA-GGTTG
1 CCACCAACTTGTGGGCTTTTGAAAGGGGTG
**
617045 CCACTGACTTGTGGGC-TTTGAAAGGGGTG
1 CCACCAACTTGTGGGCTTTTGAAAGGGGTG
*
617074 CCACCAACTTGTGGGCTTTTGAAATGGGTG
1 CCACCAACTTGTGGGCTTTTGAAAGGGGTG
**
617104 CCACTGACTTGTGGGC
1 CCACCAACTTGTGGGC
617120 CTAAAGGGAG
Statistics
Matches: 88, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
27 9 0.10
28 16 0.18
29 25 0.28
30 26 0.30
31 12 0.14
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (30 bp):
CCACCAACTTGTGGGCTTTTGAAAGGGGTG
Found at i:617126 original size:57 final size:56
Alignment explanation
Indices: 617007--617127 Score: 165
Period size: 57 Copynumber: 2.1 Consensus size: 56
616997 TGTAGGCTTT
* * * *
617007 TGAAAGGGTTGCACCAACTTGTGTGCTTTTGAAGGTTGCCACTGACTTGTGGGCTT
1 TGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAGGGTGCCACTGACTTGTGGGCTC
617063 TGAAAGGGGTGCCACCAACTTGTGGGCTTTTGAAATGGGTGCCACTGACTTGTGGGC-C
1 TGAAAGGGGTG-CACCAACTTGTGGGCTTTTG-AA-GGGTGCCACTGACTTGTGGGCTC
617121 T-AAAGGG
1 TGAAAGGG
617128 AGAAAGATAC
Statistics
Matches: 58, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
56 10 0.17
57 25 0.43
58 3 0.05
59 20 0.34
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (56 bp):
TGAAAGGGGTGCACCAACTTGTGGGCTTTTGAAGGGTGCCACTGACTTGTGGGCTC
Found at i:617230 original size:114 final size:113
Alignment explanation
Indices: 617099--617794 Score: 349
Period size: 114 Copynumber: 5.7 Consensus size: 113
617089 CTTTTGAAAT
* * * * *
617099 GGGTGCCACTGACTTGTGGGCCTAAAGGGAGAAAGATACCATAAAGTTGTGGACTTAAAAGGGTG
1 GGGTGCCACGGAGTTGTGGGCCTAAAAGGA-AAAGATGCCACAAAGTTGTGGACTTAAAAGGGTG
* * * *
617164 CCACGGAGTTGTCGACTTAAAAGGGTGCCGCAGAGTTGTAGACTTAAAA
65 CCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAAAA
* * * *
617213 GGGTGCCACGGAGTTGT-GGACTGAAAAGGAACAAGGTGCCACAGAGTTATGGACTTAAAAGGAA
1 GGGTGCCACGGAGTTGTGGGCCT-AAAAGGAA-AAGATGCCACAAAGTTGTGGACTTAAAA-G--
* * * *
617277 AAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAGAAAGATACCACAGAGTTATGGGCTTAAAA
61 ---G-GTGCCACGGAGTTGTGGACTTAAAA-G-G---G-TGCCACAGAGTTGTGGGCTTAAAA
* * * * *
617340 GGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCACGAAGTTGTGGGCTTAAAAGGGT
1 GGGTGCCACGGAGTTGTGGGCCTAAAAG-GAAAAG-ATGCCACAAAGTTGTGGACTTAAAAGGGT
** *
617405 GCCACGGAGTTAAGGACTT-AAAGCGTGCCACAGAGTTGTGGGCTTAAAA
64 GCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAAAA
* * * * **
617454 GGGTGCCACAGAGTTGTGGACTTTGAAAAGAAAAAGAGTGCCACGGAGTTGTAGG-CTTTAAAAA
1 GGGTGCCACGGAGTTGTGGGC-CT-AAAAGGAAAAGA-TGCCACAAAGTTGT-GGAC-TT-AAAA
* * * * * **
617518 GAAAAATGTGCCACGGAGTTGTGGACTTACAAGGAACAAGGTGTCACGGAGTTATGGATTTAAAA
60 G-----GGTGCCACGGAGTTGTGGACTT---A--AA-AGGGTGCCACAGAGTTGTGGGCTTAAAA
* * * * * ** *
617583 GGATGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGGAA-TTGTGGGCTTTAAAAGG
1 GGGTGCCACGGAGTTGTGGGCCTAAAAGG-AAAAGA-TGCCA-CAAAGTTGTGGAC-TTAAAA-G
* * * **
617647 AACAAGGTGCCAC-GAGTTGTGGACTTACAAAGGATGCTACAGTGTTGTGAACTTAAAA
61 -----GGTGCCACGGAGTTGTGGACTTA-AAAGGGTGCCACAGAGTTGTGGGCTTAAAA
* * **
617705 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAGGTGCCACGGAGTTGTGGACTTAA
1 G-----G-GTGCCACGGAGTTGTGGGC-CT-AAAAGGAAAAGATGCCACAAAGTTGTGGACTTAA
* * *
617770 AAGAGTGCCACAGAGTCGTGGACTT
58 AAGGGTGCCACGGAGTTGTGGACTT
617795 TAATAAGAGA
Statistics
Matches: 460, Mismatches: 72, Indels: 92
0.74 0.12 0.15
Matches are distributed among these distances:
113 5 0.01
114 87 0.19
115 24 0.05
116 9 0.02
117 5 0.01
119 1 0.00
120 4 0.01
121 46 0.10
122 53 0.12
123 3 0.01
124 1 0.00
126 2 0.00
127 78 0.17
128 87 0.19
129 49 0.11
130 6 0.01
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (113 bp):
GGGTGCCACGGAGTTGTGGGCCTAAAAGGAAAAGATGCCACAAAGTTGTGGACTTAAAAGGGTGC
CACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGGCTTAAAA
Found at i:617260 original size:33 final size:32
Alignment explanation
Indices: 617155--617772 Score: 359
Period size: 27 Copynumber: 20.0 Consensus size: 32
617145 TTGTGGACTT
*
617155 AAAAGGGTGCCACGGAGTTGTCGACTTAAAA-G
1 AAAA-GGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
617187 ----GGTGCCGCAGAGTTGTAGACTTAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
617214 ----GGTGCCACGGAGTTGTGGACTGAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
617242 AACAAGGTGCCACAGAGTTATGGACTTAAAAGG
1 AA-AAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
617275 AAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGG
1 -AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
* * * * *
617309 AGAAAGATACCACAGAGTTATGGGCTTAAAA-G
1 A-AAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
617341 ----GGTGCCACGGAGTTGTGGACTTAAAAGAA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAG-G
* * *
617370 AAAAGAATGCCACGAAGTTGTGGGCTTAAAA-G
1 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAGG
**
617402 ----GGTGCCACGGAGTTAAGGACTT-AAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
617428 ----CGTGCCACAGAGTTGTGGGCTTAAAA-G
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
617455 ----GGTGCCACAGAGTTGTGGACTTTGAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGAC-TT-AAAAGG
*
617485 AAAAGAGTGCCACGGAGTTGTAGG-CTTTAAAAAGA
1 AAAAG-GTGCCACGGAGTTGT-GGAC-TT-AAAAGG
* *
617520 AAAATGTGCCACGGAGTTGTGGACTTACAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
617552 AACAAGGTGTCACGGAGTTATGGATTTAAAAGG
1 AA-AAGGTGCCACGGAGTTGTGGACTTAAAAGG
* *
617585 ---A--TGCCACAGAGTTATGGACTTAAAAGG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
* * *
617612 AAAAAGAGTGCCATGGAATTGTGGGCTTTAAAAGG
1 -AAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAGG
617647 AACAAGGTGCCAC-GAGTTGTGGACTTACAAAGG
1 AA-AAGGTGCCACGGAGTTGTGGACTTA-AAAGG
* * * * *
617680 ---A--TGCTACAGTGTTGTGAACTTAAAAGA
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
*
617707 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGG
1 AAAAG-GTGCCACGGAGTTGTGGAC-TT-AAAAGG
617742 AAAAGGTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGGTGCCACGGAGTTGTGGACTTAAAAG
617773 AGTGCCACAG
Statistics
Matches: 465, Mismatches: 74, Indels: 94
0.73 0.12 0.15
Matches are distributed among these distances:
26 21 0.05
27 137 0.29
28 16 0.03
29 6 0.01
30 1 0.00
31 1 0.00
32 15 0.03
33 108 0.23
34 109 0.23
35 49 0.11
36 2 0.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (32 bp):
AAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:617304 original size:34 final size:34
Alignment explanation
Indices: 617209--617772 Score: 215
Period size: 34 Copynumber: 17.9 Consensus size: 34
617199 TTGTAGACTT
* * *
617209 AAAAGGGTGCCACGGAGTTGTGGACTGAAAAGGA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
* *
617243 ACAAG-GTGCCAC-AGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAAAAGGA
*
617276 AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
* * * *
617310 GAAAGA-TACCAC-AGAGTTATGGGCTTAAAA-G-
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAAAAGGA
* *
617341 ----G-GTGCCACGGAGTTGTGGACTTAAAAGAA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
* *
617370 AAAAGAATGCCACGAAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
* **
617402 ----G-GTGCCACGGAGTTAAGGACTT-------
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
* *
617424 -AAAGCGTGCCAC-AGAGTTGTGGGCTTAAAA-G-
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAAAAGGA
617455 ----G-GTGCCAC-AGAGTTGTGGACTTTGAAAA-GA
1 AAAAGAGTGCCACGA-AGTTGTGGAC-TT-AAAAGGA
* *
617485 AAAAGAGTGCCACGGAGTTGTAGG-CTTTAAAAAGA
1 AAAAGAGTGCCACGAAGTTGT-GGAC-TTAAAAGGA
* * *
617520 AAAA-TGTGCCACGGAGTTGTGGACTTACAAGGA
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
* * * * *
617553 ACAAG-GTGTCACGGAGTTATGGATTTAAAA-G-
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
*
617584 ----GA-TGCCAC-AGAGTTATGGACTTAAAAGGA
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAAAAGGA
* *
617613 AAAAGAGTGCCATGGAA-TTGTGGGCTTTAAAAGGA
1 AAAAGAGTGCCA-CGAAGTTGTGGAC-TTAAAAGGA
*
617648 ACAAG-GTGCCACG-AGTTGTGGACTTACAAA-G-
1 AAAAGAGTGCCACGAAGTTGTGGACTTA-AAAGGA
* * *
617679 ----GA-TGCTAC-AGTGTTGTGAACTTAAAA-GA
1 AAAAGAGTGCCACGA-AGTTGTGGACTTAAAAGGA
* *
617707 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGG-
1 AAAAGAGTGCCACGAAGTTGTGGAC-TT-AAAAGGA
*
617742 AAAAG-GTGCCACGGAGTTGTGGACTTAAAAG
1 AAAAGAGTGCCACGAAGTTGTGGACTTAAAAG
617773 AGTGCCACAG
Statistics
Matches: 411, Mismatches: 56, Indels: 128
0.69 0.09 0.22
Matches are distributed among these distances:
25 1 0.00
26 16 0.04
27 85 0.21
28 16 0.04
29 5 0.01
32 15 0.04
33 109 0.27
34 113 0.27
35 47 0.11
36 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (34 bp):
AAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGA
Found at i:617322 original size:67 final size:67
Alignment explanation
Indices: 617209--617341 Score: 187
Period size: 67 Copynumber: 2.0 Consensus size: 67
617199 TTGTAGACTT
* * * *
617209 AAAAGGGTGCCACGGAGTTGTGGACTGAAAAGGAACAAGGTGCCACAGAGTTATGGACTTAAAAG
1 AAAAGAGTGCCACGAAGTTGTGGACTGAAAAGGAACAAGATACCACAGAGTTATGGACTTAAAAG
617274 GA
66 GA
* * *
617276 AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAGA-AAGATACCACAGAGTTATGGGCTTAAAA
1 AAAAGAGTGCCACGAAGTTGTGGACTGAAAAGGA-ACAAGATACCACAGAGTTATGGACTTAAAA
617340 GG
65 GG
617342 GTGCCACGGA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
67 57 0.98
68 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.32, T:0.17
Consensus pattern (67 bp):
AAAAGAGTGCCACGAAGTTGTGGACTGAAAAGGAACAAGATACCACAGAGTTATGGACTTAAAAG
GA
Found at i:617375 original size:60 final size:60
Alignment explanation
Indices: 617276--617794 Score: 307
Period size: 61 Copynumber: 8.4 Consensus size: 60
617266 CTTAAAAGGA
* * * * * *
617276 AAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAGAAAGATACCACAGAGTTATGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTT
*
617336 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCAC-GAAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAG-ATGCCACAG-AGTTGTGGGCTT
** *
617397 AAAAGGGTGCCACGGAGTTAAGGACTT-AAA-G----CG-TGCCACAGAGTTGTGGGCTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTT
* * *
617450 AAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGAGTGCCACGGAGTTGTAGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGA-TGCCACAGAGTTGTGGGC-TT
* * * * * * * **
617513 AAAAAGAAAAATGTGCCACGGAGTTGTGGACTTACAAGGAACAAGGTGTCACGGAGTTATGGATT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGGCT
617578 T
60 T
* * * ** *
617579 AAAAGGATGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGGAATTGTGGGCTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCACAGAGTTGTGGGC-TT
* * **
617641 AAAAGGAACAAGGTGCCAC-GAGTTGTGGACTTACAAA-G-----GATGCTACAGTGTTGTGAAC
1 AAAA-G-----GGTGCCACGGAGTTGTGGACTTA-AAAGGAAAAAGATGCCACAGAGTTGTGGGC
617699 TT
59 TT
* * * *
617701 AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGG-AAAAGGTGCCACGGAGTTGTGGA
1 AAAAG-----G-GTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGATGCCACAGAGTTGTGGG
617765 CTT
58 CTT
* * *
617768 AAAAGAGTGCCACAGAGTCGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
617795 TAATAAGAGA
Statistics
Matches: 361, Mismatches: 60, Indels: 76
0.73 0.12 0.15
Matches are distributed among these distances:
53 40 0.11
54 3 0.01
55 1 0.00
56 4 0.01
59 6 0.02
60 82 0.23
61 91 0.25
62 29 0.08
63 5 0.01
64 5 0.01
65 5 0.01
66 2 0.01
67 52 0.14
68 18 0.05
69 18 0.05
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (60 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGATGCCACAGAGTTGTGGGCTT
Found at i:617427 original size:26 final size:27
Alignment explanation
Indices: 617394--617468 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 27
617384 AAGTTGTGGG
*
617394 CTTAAAAGGGTGCCACGGAGTTAAGGA
1 CTTAAAAGGGTGCCACAGAGTTAAGGA
* ** *
617421 CTT-AAAGCGTGCCACAGAGTTGTGGG
1 CTTAAAAGGGTGCCACAGAGTTAAGGA
617447 CTTAAAAGGGTGCCACAGAGTT
1 CTTAAAAGGGTGCCACAGAGTT
617469 GTGGACTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.51
27 20 0.49
ACGTcount: A:0.29, C:0.17, G:0.32, T:0.21
Consensus pattern (27 bp):
CTTAAAAGGGTGCCACAGAGTTAAGGA
Found at i:617435 original size:181 final size:178
Alignment explanation
Indices: 617112--617455 Score: 410
Period size: 181 Copynumber: 1.9 Consensus size: 178
617102 TGCCACTGAC
* * *
617112 TTGTGGGCCTAAAGGGAGAAAGATACCATAAAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTC
1 TTGTGGGCCTAAAAGGAGAAAGATACCACAAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTC
* * **
617177 GACTTAAAAGGGTGCCGCAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTGTGGACTGAAAAGG
66 GACTTAAAAGGATGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTAAGGACTGAAAAGG
617242 AACAAGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGAAG
131 -AC-A-GTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGAAG
* * * *
617293 TTGTGGGCTTAAAAGGAGAAAGATACCACAGAGTTATGGGCTTAAAAGGGTGCCACGGAGTTGTG
1 TTGTGGGCCTAAAAGGAGAAAGATACCACAAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTC
* *
617358 GACTTAAAAGAAAAAAGAATGCCAC-GAAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTAAGGAC
66 GACTTAAAAG------G-ATGCCACAG-AGTTGTAGACTTAAAAGGGTGCCACGGAGTTAAGGAC
* * *
617422 T-TAAA-G-C-GTGCCACAGAGTTGTGGGCTTAAAAGG
123 TGAAAAGGACAGTGCCACAGAGTTATGGACTTAAAAGG
617456 GTGCCACAGA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
181 93 0.67
184 1 0.01
186 1 0.01
187 5 0.04
188 39 0.28
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.20
Consensus pattern (178 bp):
TTGTGGGCCTAAAAGGAGAAAGATACCACAAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTC
GACTTAAAAGGATGCCACAGAGTTGTAGACTTAAAAGGGTGCCACGGAGTTAAGGACTGAAAAGG
ACAGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCACGAAG
Found at i:617583 original size:243 final size:243
Alignment explanation
Indices: 617142--617646 Score: 637
Period size: 243 Copynumber: 2.1 Consensus size: 243
617132 AGATACCATA
* ** * *
617142 AAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTCGACTTAAAAGGGTGCCGCAGAGTTGTAGAC
1 AAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTAACGACTTAAAAGCGTGCCACAGAGTTGTAGAC
* *
617207 TTAAAAGGGTGCCACGGAGTTGTGGACTGAAAAGGAACAAGGTGCCACAGAGTTATGGACTTAAA
66 TTAAAAGGGTGCCACAGAGTTGTGGACTGAAAAGGAAAAAGGTGCCACAGAGTTATGGACTTAAA
* * *
617272 AGGAAAAAGAGTGCCACGAAGTTGTGGGCTTAAAAGGAGAAAGATACCACAGAGTTATGGGCTTA
131 AAGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAGAAAGATACCACAGAGTTATGGACTTA
* * *
617337 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGAAAAAAGAATGCCA-CG
196 AAAGGATGCCACAGAGTTATGGACTTAAAAGAAAAAAGAATGCCATCG
* * *
617384 AAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTAAGGACTT-AAAGCGTGCCACAGAGTTGTGGGC
1 AAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTAACGACTTAAAAGCGTGCCACAGAGTTGTAGAC
* *
617448 TTAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGAGTGCCACGGAGTTGTAGG-CT
66 TTAAAAGGGTGCCACAGAGTTGTGGAC--TGAAAAGGAAAAAG-GTGCCACAGAGTTAT-GGAC-
* * * * ** *
617511 TTAAAAAGAAAAA-TGTGCCACGGAGTTGTGGACTTACAAGGA-ACAAGGTGTCACGGAGTTATG
126 TTAAAAAGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAGA-AAGATACCACAGAGTTATG
* * * *
617574 GATTTAAAAGGATGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGG
190 GACTTAAAAGGATGCCACAGAGTTATGGACTTAAAAGAAAAAAGAATGCCATCG
617628 AA-TTGTGGGCTTTAAAAGG
1 AAGTTGTGGGC-TTAAAAGG
617647 AACAAGGTGC
Statistics
Matches: 226, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
241 46 0.20
242 43 0.19
243 112 0.50
244 25 0.11
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.21
Consensus pattern (243 bp):
AAGTTGTGGGCTTAAAAGGGTGCCACGGAGTTAACGACTTAAAAGCGTGCCACAGAGTTGTAGAC
TTAAAAGGGTGCCACAGAGTTGTGGACTGAAAAGGAAAAAGGTGCCACAGAGTTATGGACTTAAA
AAGAAAAAGAGTGCCACGAAGTTGTGGACTTAAAAGGAGAAAGATACCACAGAGTTATGGACTTA
AAAGGATGCCACAGAGTTATGGACTTAAAAGAAAAAAGAATGCCATCG
Found at i:617597 original size:94 final size:95
Alignment explanation
Indices: 617492--617794 Score: 377
Period size: 94 Copynumber: 3.2 Consensus size: 95
617482 AGAAAAAGAG
* * * *
617492 TGCCACGGAGTTGTAGG-CTTTAAAAAGAAAAA-TGTGCCACGGAGTTGTGGAC-TTACAAGGAA
1 TGCCACAGAGTTGT-GGAC-TTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAA
* * *
617554 CAAGGTGTCACGGAGTTATGGATTTAAAAGGA
64 CAAGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * * *
617586 TGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGCCATGGAATTGTGGGCTTTAAAAGGAACA
1 TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAACA
617651 AGGTGCCAC-GAGTTGTGGACTTACAAAGGA
66 AGGTGCCACGGAGTTGTGGACTTA-AAAGGA
* * *
617681 TGCTACAGTGTTGTGAACTT-AAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAA-
1 TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGGAAC
617744 AAGGTGCCACGGAGTTGTGGACTTAAAA-GA
65 AAGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
617774 GTGCCACAGAGTCGTGGACTT
1 -TGCCACAGAGTTGTGGACTT
617795 TAATAAGAGA
Statistics
Matches: 180, Mismatches: 22, Indels: 14
0.83 0.10 0.06
Matches are distributed among these distances:
93 16 0.09
94 101 0.56
95 63 0.35
ACGTcount: A:0.34, C:0.14, G:0.30, T:0.22
Consensus pattern (95 bp):
TGCCACAGAGTTGTGGACTTAAAAAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAACA
AGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:617711 original size:128 final size:128
Alignment explanation
Indices: 617449--617772 Score: 326
Period size: 128 Copynumber: 2.5 Consensus size: 128
617439 GTTGTGGGCT
* * *
617449 TAAAAGGGTGCCACAGAGTTGTGGACTTTGAAAA-GAAAAAGAGTGCCACGGAGTTGTAGGCTTT
1 TAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
* * * * **
617513 AAAAAGAAAAATGTGCCACGGAGTTGTGGACTTACAAGGAACAAGGTGTCACGGAGTTATGGA
66 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTACAAGGAACAAGGTGTCACGAACTTAAAGA
* * *
617576 TTTAAAAGGATGCCACAGAGTTATGGAC-TT-AAAAGGAAAAAGAGTGCCATGGAATTGTGGGCT
1 --TAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCT
* * ***
617639 TTAAAAGGAACAAGGTGCCAC-GAGTTGTGGACTTACAAAGGATGCTACA-GTGTTGTGAACTTA
64 TTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAC-AAGGA-AC-A-AGGTGTCACGAACTT-
617702 AAAGA
124 AAAGA
* * *
617707 -AAAA-GAGTGCCACGGAGTTGTGGGCTTTAAAAAGG-AAAAG-GTGCCACGGAGTTGTGGAC-T
1 TAAAAGGA-TGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
617767 TAAAAG
65 TAAAAG
617773 AGTGCCACAG
Statistics
Matches: 164, Mismatches: 22, Indels: 20
0.80 0.11 0.10
Matches are distributed among these distances:
127 28 0.17
128 85 0.52
129 32 0.20
130 15 0.09
131 4 0.02
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (128 bp):
TAAAAGGATGCCACAGAGTTGTGGACTTTAAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTACAAGGAACAAGGTGTCACGAACTTAAAGA
Found at i:617817 original size:31 final size:30
Alignment explanation
Indices: 617748--618177 Score: 314
Period size: 31 Copynumber: 13.9 Consensus size: 30
617738 AAGGAAAAGG
* *
617748 TGCCACGGAGTTGTGGAC-TTAA-AAGAG-
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGA
* *
617775 TGCCACAGAGTCGTGGACTTTAATAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGA
* * *
617805 TTGCCATTGAGTCGTGTACTTTGAAGGAAAAAGA
1 -TGCCACTGAGTCGTGGACTTT-AA-G-AAGAGA
* * * *
617839 TGCCTCTGAGTCGTCGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTT-TAAGAAGA-GA
** * *
617871 TGCCACCAAGTCGTGGAC-TTAGAAAAGAGG
1 TGCCACTGAGTCGTGGACTTTA-AGAAGAGA
* *
617901 TGCCACGGAGTTGTGGACTTTGAA-AAGAGA
1 TGCCACTGAGTCGTGGACTTT-AAGAAGAGA
* * *
617931 TTGCCACTGAGTCGTGGACTTTGGAGAAAAAA
1 -TGCCACTGAGTCGTGGACTTT-AAGAAGAGA
* * **
617963 TGCCACTGAGTCATGGGCTTTGGGACA-AGA
1 TGCCACTGAGTCGTGGACTTTAAGA-AGAGA
* *
617993 TGCCACTGAGTCGTGGGCTTTGAGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGA
* *
618023 TTGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 -TGCCACTGAGTCGTGGACTTT-AAG--AAGAGA
* * *
618057 TGCAACTGAGTTGTGGACTTTGAGAAAAGAGA
1 TGCCACTGAGTCGTGGACTTT-A-AGAAGAGA
* **
618089 TGCCACTGAGTTGTGGACTTTGGGAAGAGA
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGA
* * * *
618119 TGCCATTGAGTTGTGGACTTTGAGAAGAAA
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGA
618149 TTGCCACTGAGTCGTGGACTTTAAGAAGA
1 -TGCCACTGAGTCGTGGACTTTAAGAAGA
618178 TATTTGAAGA
Statistics
Matches: 327, Mismatches: 54, Indels: 40
0.78 0.13 0.10
Matches are distributed among these distances:
27 16 0.05
28 4 0.01
29 6 0.02
30 86 0.26
31 115 0.35
32 51 0.16
33 38 0.12
34 11 0.03
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.24
Consensus pattern (30 bp):
TGCCACTGAGTCGTGGACTTTAAGAAGAGA
Found at i:617873 original size:32 final size:33
Alignment explanation
Indices: 617812--617874 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
617802 AGATTGCCAT
*
617812 TGAGTCGTGTACTTTGAAGGAAAAAGATGCCTC
1 TGAGTCGTGTACTTGGAAGGAAAAAGATGCCTC
*
617845 TGAGTCGTCG-ACTTGGAA-GAAAAGGATGCC
1 TGAGTCGT-GTACTTGGAAGGAAAAAGATGCC
617875 ACCAAGTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 11 0.41
33 15 0.56
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.24
Consensus pattern (33 bp):
TGAGTCGTGTACTTGGAAGGAAAAAGATGCCTC
Found at i:617883 original size:32 final size:30
Alignment explanation
Indices: 617847--617906 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
617837 GATGCCTCTG
*
617847 AGTCGTCGACTTGGAAGAAAAGGATGCCACCA
1 AGTCGTCGACTTAGAA-AAAAGG-TGCCACCA
* *
617879 AGTCGTGGACTTAGAAAAGAGGTGCCAC
1 AGTCGTCGACTTAGAAAAAAGGTGCCAC
617907 GGAGTTGTGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 6 0.24
31 5 0.20
32 14 0.56
ACGTcount: A:0.33, C:0.20, G:0.30, T:0.17
Consensus pattern (30 bp):
AGTCGTCGACTTAGAAAAAAGGTGCCACCA
Found at i:617944 original size:61 final size:60
Alignment explanation
Indices: 617741--618170 Score: 313
Period size: 61 Copynumber: 7.0 Consensus size: 60
617731 CTTTAAAAAG
* * *
617741 GAAAAG-G-TGCCACGGAGTTGTGGACTT--AAAAGAG-TGCCACAGAGTCGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTT
* * * *
617796 -AATAAGAGATTGCCATTGAGTCGTGTACTTTGAAGGAAAA-AGATGCCTCTGAGTCGTCGACTT
1 GAA-AAGAGA-TGCCACTGAGTCGTGGAC-TT--A-GAAAAGAGATGCCACTGAGTCGTGGACTT
*
617859 G
60 T
* ** * * *
617860 GAAGAAAAGGATGCCACCAAGTCGTGGACTTAGAAAAGAGGTGCCACGGAGTTGTGGACTTT
1 GAA-AAGA-GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTT
* *
617922 GAAAAGAGATTGCCACTGAGTCGTGGACTTTGGAGAAAA-A-ATGCCACTGAGTCATGGGCTTT
1 GAAAAGAGA-TGCCACTGAGTCGTGGAC-TT--AGAAAAGAGATGCCACTGAGTCGTGGACTTT
* * * * * *
617984 GGGACA-AGATGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCATGGACTTT
1 -GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACTGAGTCGTGGACTTT
* * * *
618045 GAAGAAAAAAGATGCAACTGAGTTGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTT
1 ---GAAAAGAGATGCCACTGAGTCGTGGAC-TT-AGAAAAGAGATGCCACTGAGTCGTGGACTTT
** * * * * *
618110 GGGAAGAGATGCCATTGAGTTGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTT
1 GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAGAGA-TGCCACTGAGTCGTGGACTTT
618171 AAGAAGATAT
Statistics
Matches: 294, Mismatches: 53, Indels: 50
0.74 0.13 0.13
Matches are distributed among these distances:
54 2 0.01
55 3 0.01
56 1 0.00
58 18 0.06
59 3 0.01
60 12 0.04
61 83 0.28
62 66 0.22
63 9 0.03
64 47 0.16
65 40 0.14
66 10 0.03
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (60 bp):
GAAAAGAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTT
Found at i:618048 original size:218 final size:219
Alignment explanation
Indices: 617770--618170 Score: 563
Period size: 218 Copynumber: 1.8 Consensus size: 219
617760 GTGGACTTAA
* * * * *
617770 AAGAGTGCCACAGAGTCGTGGACTTTAATAAGAGATTGCCATTGAGTCGTGTACTTTGAAGGAAA
1 AAGAGTGCCACAGAGTCGTGGACTTTAAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAA
**
617835 AAGATGCCTCTGAGTCGTCGACTTGGAAGAAAAG-GATGCCACCAAGTCGTGGACTTAGAAAAGA
66 AAGATGCAACTGAGTCGTCGACTTGG-AGAAAAGAGATGCCACCAAGTCGTGGACTTAGAAAAGA
* *
617899 GGTGCCACGGAGTTGTGGACTTTGAAAAGAGATTGCCACTGAGTCGTGGACTTTGGAGAAAAAAT
130 GATGCCACGGAGTTGTGGACTTTGAAAAGAAATTGCCACTGAGTCGTGGACTTTGGAGAAAAAAT
617964 GCCACTGAGTCATGGGCTTTGGGAC
195 GCCACTGAGTCATGGGCTTTGGGAC
* * *
617989 AAGA-TGCCACTGAGTCGTGGGCTTTGAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAA
1 AAGAGTGCCACAGAGTCGTGGACTTTAAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAA
* * * ** * * **
618053 AAGATGCAACTGAGTTGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTGGGAAGAG
66 AAGATGCAACTGAGTCGTCGACTTGGAGAAAAGAGATGCCACCAAGTCGTGGACTTAGAAAAGAG
** *
618118 ATGCCATTGAGTTGTGGACTTTGAGAAGAAATTGCCACTGAGTCGTGGACTTT
131 ATGCCACGGAGTTGTGGACTTTGAAAAGAAATTGCCACTGAGTCGTGGACTTT
618171 AAGAAGATAT
Statistics
Matches: 157, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
217 7 0.04
218 146 0.93
219 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (219 bp):
AAGAGTGCCACAGAGTCGTGGACTTTAAGAAGAGATTGCCACTGAGTCATGGACTTTGAAGAAAA
AAGATGCAACTGAGTCGTCGACTTGGAGAAAAGAGATGCCACCAAGTCGTGGACTTAGAAAAGAG
ATGCCACGGAGTTGTGGACTTTGAAAAGAAATTGCCACTGAGTCGTGGACTTTGGAGAAAAAATG
CCACTGAGTCATGGGCTTTGGGAC
Found at i:618110 original size:126 final size:125
Alignment explanation
Indices: 617775--618175 Score: 370
Period size: 126 Copynumber: 3.2 Consensus size: 125
617765 CTTAAAAGAG
* * * * * * * *
617775 TGCCACAGAGTCGTGGACTTT-A-ATAAGAGATTGCCATTGAGTCGTGTACTTTGAAGGAAAAAG
1 TGCCACTGAGTCATGGACTTTAAGAAAAAAGATTGCAACTGAGTCGTGGACTTTGGA-GAAAAA-
* * * * ** * * **
617838 ATGCCTCTGAGTCGTCGAC-TTGGAAGAAAAGGATGCCACCAAGTCGTGGACTTAGAAAAG-AGG
64 ATGCCACTGAGTCATGGACTTTGG--GAAGA-GATGCCACTGAGTCGTGGACTTTGAGAAGAAAT
* ** * *
617901 TGCCACGGAGTTGTGGACTTT--GAAAAGAGATTGCCACTGAGTCGTGGACTTTGGAGAAAAAAT
1 TGCCACTGAGTCATGGACTTTAAGAAAAAAGATTGCAACTGAGTCGTGGACTTTGGAGAAAAAAT
* * *
617964 GCCACTGAGTCATGGGCTTTGGGACA-AGATGCCACTGAGTCGTGGGCTTTGAGAAGAGAT
66 GCCACTGAGTCATGGACTTTGGGA-AGAGATGCCACTGAGTCGTGGACTTTGAGAAGAAAT
*
618024 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA-TGCAACTGAGTTGTGGACTTT-GAGAAAAGA
1 TGCCACTGAGTCATGGACTTT-AAGAAAAAAGATTGCAACTGAGTCGTGGACTTTGGAGAAAA-A
** * *
618087 GATGCCACTGAGTTGTGGACTTTGGGAAGAGATGCCATTGAGTTGTGGACTTTGAGAAGAAAT
64 -ATGCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAAAT
*
618150 TGCCACTGAGTCGTGGACTTTAAGAA
1 TGCCACTGAGTCATGGACTTTAAGAA
618176 GATATTTGAA
Statistics
Matches: 233, Mismatches: 32, Indels: 21
0.81 0.11 0.07
Matches are distributed among these distances:
122 24 0.10
123 21 0.09
124 23 0.10
125 36 0.15
126 129 0.55
ACGTcount: A:0.30, C:0.15, G:0.30, T:0.25
Consensus pattern (125 bp):
TGCCACTGAGTCATGGACTTTAAGAAAAAAGATTGCAACTGAGTCGTGGACTTTGGAGAAAAAAT
GCCACTGAGTCATGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAGAAGAAAT
Found at i:618151 original size:25 final size:27
Alignment explanation
Indices: 618063--618146 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 27
618053 AAGATGCAAC
*
618063 TGAGTTGTGGACTTTGAGAAAAGAGATGCCAC
1 TGAGTTGTGGACTTTGAG--AAGAGA---CAT
*
618095 TGAGTTGTGGACTTTGGGAAGAGATGCCAT
1 TGAGTTGTGGACTTTGAGAAGAGA---CAT
618125 TGAGTTGTGGACTTTGAGAAGA
1 TGAGTTGTGGACTTTGAGAAGA
618147 AATTGCCACT
Statistics
Matches: 49, Mismatches: 3, Indels: 2
0.91 0.06 0.04
Matches are distributed among these distances:
30 32 0.65
32 17 0.35
ACGTcount: A:0.27, C:0.10, G:0.35, T:0.29
Consensus pattern (27 bp):
TGAGTTGTGGACTTTGAGAAGAGACAT
Found at i:619455 original size:14 final size:14
Alignment explanation
Indices: 619428--619473 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
619418 TTGCACTCTC
*
619428 TTTTTTTGTGTGTT
1 TTTTTTTGTTTGTT
619442 TTTTTGTT-TTTGTT
1 TTTTT-TTGTTTGTT
619456 TTTTTTTGTTTGTCT
1 TTTTTTTGTTTGT-T
619471 TTT
1 TTT
619474 CTTTCTTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
13 2 0.07
14 20 0.71
15 6 0.21
ACGTcount: A:0.00, C:0.02, G:0.15, T:0.83
Consensus pattern (14 bp):
TTTTTTTGTTTGTT
Found at i:619461 original size:10 final size:10
Alignment explanation
Indices: 619428--619506 Score: 61
Period size: 10 Copynumber: 7.6 Consensus size: 10
619418 TTGCACTCTC
*
619428 TTTTTTTGTG
1 TTTTTTTTTG
*
619438 TGTTTTTTTG
1 TTTTTTTTTG
619448 TTTTTGTTTT-
1 TTTTT-TTTTG
*
619458 TTTTTGTTTG
1 TTTTTTTTTG
* *
619468 TCTTTTCTTTC
1 T-TTTTTTTTG
*
619479 TTTTCTTTTTC
1 TTTT-TTTTTG
619490 TTTTTTTTTG
1 TTTTTTTTTG
619500 TGTTTTT
1 T-TTTTT
619507 ACTTGTGACT
Statistics
Matches: 56, Mismatches: 8, Indels: 9
0.77 0.11 0.12
Matches are distributed among these distances:
9 3 0.05
10 27 0.48
11 26 0.46
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.82
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:619461 original size:16 final size:17
Alignment explanation
Indices: 619430--619505 Score: 57
Period size: 16 Copynumber: 4.3 Consensus size: 17
619420 GCACTCTCTT
*
619430 TTTTTGTGTGTTTTTTTG
1 TTTTTGT-TCTTTTTTTG
619448 TTTTTGTT-TTTTTTTG
1 TTTTTGTTCTTTTTTTG
* *
619464 TTTGTCTTTTCTTTCTTTTC
1 TTT-T-TGTTCTTT-TTTTG
*
619484 TTTTTCTT-TTTTTTTG
1 TTTTTGTTCTTTTTTTG
619500 TGTTTT
1 T-TTTT
619506 TACTTGTGAC
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
16 16 0.33
17 9 0.18
18 13 0.27
19 4 0.08
20 7 0.14
ACGTcount: A:0.00, C:0.07, G:0.12, T:0.82
Consensus pattern (17 bp):
TTTTTGTTCTTTTTTTG
Found at i:619487 original size:28 final size:27
Alignment explanation
Indices: 619428--619488 Score: 61
Period size: 28 Copynumber: 2.1 Consensus size: 27
619418 TTGCACTCTC
*
619428 TTTTTTTGTGTGTTTTTTTGTTTTTGTT
1 TTTTTTTGTGTGTTTTTTTGTTTTT-CT
*
619456 TTTTTTTGTTTGTCTTTTCTT-TCTTTTCT
1 TTTTTTTGTGTGT-TTTT-TTGT-TTTTCT
619485 TTTT
1 TTTT
619489 CTTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
28 12 0.43
29 10 0.36
30 6 0.21
ACGTcount: A:0.00, C:0.07, G:0.11, T:0.82
Consensus pattern (27 bp):
TTTTTTTGTGTGTTTTTTTGTTTTTCT
Found at i:621596 original size:21 final size:21
Alignment explanation
Indices: 621572--621613 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
621562 CATGCCCGAC
*
621572 TTAATATCCCTCGTGATTAGG
1 TTAATATCCCTCATGATTAGG
621593 TTAATATCCCTCATGATTAGG
1 TTAATATCCCTCATGATTAGG
621614 GATTTTTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.38
Consensus pattern (21 bp):
TTAATATCCCTCATGATTAGG
Found at i:625198 original size:60 final size:60
Alignment explanation
Indices: 625132--625339 Score: 310
Period size: 60 Copynumber: 3.5 Consensus size: 60
625122 TTAGCTATTC
* *
625132 TGGTTTCACCTAAGTCATTGTTTAGGTCTCTAGTTTTATCCAAGCCATTTAGTTAAGTCT
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTTTAGTTTTATCCAAGCCATTTAGTTAAGTCT
* * * * *
625192 TGGTTTCACCTATGCCGTTGTTTAGGTTTTTAGTTTTATCCAAACCGTTTAGTTAAGTCT
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTTTAGTTTTATCCAAGCCATTTAGTTAAGTCT
* ** *
625252 TGGTTTCACCTAAGTCATTGTTTAGGTTTTTGGTTCCATCCAAGCTATTTAGTTAAGTC-
1 TGGTTTCACCTAAGTCATTGTTTAGGTTTTTAGTTTTATCCAAGCCATTTAGTTAAGTCT
625311 TGGTTTCACCTAAGTCATTGTTTAGGTTT
1 TGGTTTCACCTAAGTCATTGTTTAGGTTT
625340 CTTTAGGTTT
Statistics
Matches: 132, Mismatches: 16, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
59 29 0.22
60 103 0.78
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.45
Consensus pattern (60 bp):
TGGTTTCACCTAAGTCATTGTTTAGGTTTTTAGTTTTATCCAAGCCATTTAGTTAAGTCT
Found at i:625286 original size:30 final size:30
Alignment explanation
Indices: 625251--625339 Score: 80
Period size: 30 Copynumber: 3.0 Consensus size: 30
625241 TAGTTAAGTC
625251 TTGGTTTCACCTAAGTCATTGTTTAGGTTT
1 TTGGTTTCACCTAAGTCATTGTTTAGGTTT
* *
625281 TTGGTTCCATCC-AAG-C--TATTTA-GTTAAGT
1 TTGGTTTCA-CCTAAGTCATTGTTTAGGTT---T
*
625310 CTGGTTTCACCTAAGTCATTGTTTAGGTTT
1 TTGGTTTCACCTAAGTCATTGTTTAGGTTT
625340 CTTTAGGTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 18
0.66 0.07 0.26
Matches are distributed among these distances:
26 3 0.07
27 5 0.11
28 2 0.04
29 12 0.27
30 13 0.29
31 2 0.04
32 5 0.11
33 3 0.07
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (30 bp):
TTGGTTTCACCTAAGTCATTGTTTAGGTTT
Found at i:626178 original size:20 final size:20
Alignment explanation
Indices: 626136--626189 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
626126 ATAAATAGTG
*
626136 AATGTATCGATACATGAGTA
1 AATGTATCGATACATGACTA
*
626156 AATGTATCGATACAT-TCTAA
1 AATGTATCGATACATGACT-A
*
626176 AATGTATCAATACA
1 AATGTATCGATACA
626190 GGACCATGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.43, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATGACTA
Found at i:626309 original size:32 final size:32
Alignment explanation
Indices: 626249--626359 Score: 197
Period size: 32 Copynumber: 3.5 Consensus size: 32
626239 TATTTTTCAT
*
626249 TGTATCGATACATTCTAGG-TTTTGACCTAAA
1 TGTATCGATACATTCTGGGTTTTTGACCTAAA
626280 TGTATCGATACATTCTGGGTTTTTGACCTAAA
1 TGTATCGATACATTCTGGGTTTTTGACCTAAA
*
626312 TGTATCGATACATTCCGGGTTTTTGACCTAAA
1 TGTATCGATACATTCTGGGTTTTTGACCTAAA
626344 TGTATCGATACATTCT
1 TGTATCGATACATTCT
626360 TCAATGTATT
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
31 18 0.24
32 58 0.76
ACGTcount: A:0.26, C:0.17, G:0.17, T:0.40
Consensus pattern (32 bp):
TGTATCGATACATTCTGGGTTTTTGACCTAAA
Found at i:626379 original size:64 final size:63
Alignment explanation
Indices: 626249--626372 Score: 167
Period size: 64 Copynumber: 1.9 Consensus size: 63
626239 TATTTTTCAT
* *** *
626249 TGTATCGATACATTCTAGGTTTTGACCTAAATGTATCGATACATTCTGGGTTTTTGACCTAAA
1 TGTATCGATACATTCCAGGTTTTGACCTAAATGTATCGATACATTCTCAATTATTGACCTAAA
*
626312 TGTATCGATACATTCCGGGTTTTTGACCTAAATGTATCGATACATTCTTCAATGTATTGAC
1 TGTATCGATACATTCCAGG-TTTTGACCTAAATGTATCGATACATTC-TCAAT-TATTGAC
626373 ACATGTAGGC
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
63 17 0.33
64 27 0.52
65 2 0.04
66 6 0.12
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.40
Consensus pattern (63 bp):
TGTATCGATACATTCCAGGTTTTGACCTAAATGTATCGATACATTCTCAATTATTGACCTAAA
Found at i:628837 original size:80 final size:80
Alignment explanation
Indices: 628667--628825 Score: 189
Period size: 80 Copynumber: 2.0 Consensus size: 80
628657 ATGAAAAATT
* * * **
628667 TATC-AAATTTTATCCATCGGAGATACCCCAACCCGATCATTTCTGAGAGGATACTCTAACCTTG
1 TATCAAAATTTTAACCATCGGAGATACCCCAACCCCATCATTTCTGAGAGGATACTCCAACCCCG
* *
628731 TTTTTATTTCCAAAA
66 TCTTTATCTCCAAAA
* * *
628746 TATCAAAATTTTAACCATCGGGGATACTCCAACCCCATCATTTTTGA-AGGGATACTCCAACCCC
1 TATCAAAATTTTAACCATCGGAGATACCCCAACCCCATCATTTCTGAGA-GGATACTCCAACCCC
628810 GTCTTTA-CTCCTAAAA
65 GTCTTTATCTCC-AAAA
628826 ATATTAAATT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 8 0.12
80 59 0.88
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.31
Consensus pattern (80 bp):
TATCAAAATTTTAACCATCGGAGATACCCCAACCCCATCATTTCTGAGAGGATACTCCAACCCCG
TCTTTATCTCCAAAA
Found at i:628935 original size:79 final size:78
Alignment explanation
Indices: 628688--628942 Score: 219
Period size: 80 Copynumber: 3.2 Consensus size: 78
628678 ATCCATCGGA
* * * *** *
628688 GATACCCCAACC-CGATCATTTCTG-AGAGGATACTCTAACCTTGTTTTTATTTCCAAAATATCA
1 GATACTCCAACCTC-ATCATTTTTGAAG-GGATACTCAAACCCCATTTTTATTTCTAAAATAT-A
* * *
628751 AAATTTTAACCATCGGG
63 AAATTTTCATC-TCGAG
* * * * * *
628768 GATACTCCAACCCCATCATTTTTGAAGGGATACTCCAACCCCGTCTTTACTCCTAAAAATATTAA
1 GATACTCCAACCTCATCATTTTTGAAGGGATACTCAAACCCCATTTTTATTTCT-AAAATA-TAA
* *
628833 ATTTTTCATCTCGAA
64 AATTTTCATCTCGAG
* * *
628848 GATACTCCAACCTCGTTATTTTT-AAGGGAATACTTAAACCCCATTTTTATTTCTAAAATACTAA
1 GATACTCCAACCTCATCATTTTTGAAGGG-ATACTCAAACCCCATTTTTATTTCTAAAATA-TAA
628912 AATTTTCATCTCGAG
64 AATTTTCATCTCGAG
*
628927 GATGCTCCAACCTCAT
1 GATACTCCAACCTCAT
628943 TTTTATTTCC
Statistics
Matches: 142, Mismatches: 28, Indels: 11
0.78 0.15 0.06
Matches are distributed among these distances:
79 41 0.29
80 82 0.58
81 18 0.13
82 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCTCATCATTTTTGAAGGGATACTCAAACCCCATTTTTATTTCTAAAATATAAAA
TTTTCATCTCGAG
Found at i:628949 original size:51 final size:51
Alignment explanation
Indices: 628884--629091 Score: 267
Period size: 51 Copynumber: 4.1 Consensus size: 51
628874 GGAATACTTA
* * * *
628884 AACCCCATTTTTATTTCTAAAATACTAAAATTTTCATCTCGAGGATGCTCC
1 AACCTCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTCC
* *
628935 AACCTCATTTTTATTTCCAAAATATAAAAATTTTCATCTCGGGGATACTCC
1 AACCTCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTCC
** * * *
628986 AACCTTGTTTTTATTTCTAAAATATTAAAATTCTCATCTCGGGGATACTCC
1 AACCTCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTCC
* *
629037 AATCCT-ACTTTTATTTCCAAAATATTAAAATTTTCATCAT-GAGGATACTCT
1 AA-CCTCATTTTTATTTCCAAAATATTAAAATTTTCATC-TCGAGGATACTCC
629088 AACC
1 AACC
629092 CCGTTATTTT
Statistics
Matches: 138, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
50 2 0.01
51 132 0.96
52 4 0.03
ACGTcount: A:0.33, C:0.21, G:0.08, T:0.38
Consensus pattern (51 bp):
AACCTCATTTTTATTTCCAAAATATTAAAATTTTCATCTCGAGGATACTCC
Found at i:629053 original size:102 final size:102
Alignment explanation
Indices: 628891--629091 Score: 298
Period size: 102 Copynumber: 2.0 Consensus size: 102
628881 TTAAACCCCA
* * *
628891 TTTTTATTTCTAAAATACTAAAATTTTCATCTCGAGGATGCTCCAACCTCATTTTTATTTCCAAA
1 TTTTTATTTCTAAAATACTAAAATTCTCATCTCGAGGATACTCCAACCTCACTTTTATTTCCAAA
*
628956 ATATAAAAATTTTCATC-TCGGGGATACTCCAACCTTG
66 ATATAAAAATTTTCATCAT-GAGGATACTCCAACCTTG
* *
628993 TTTTTATTTCTAAAATATTAAAATTCTCATCTCGGGGATACTCCAATCCT-ACTTTTATTTCCAA
1 TTTTTATTTCTAAAATACTAAAATTCTCATCTCGAGGATACTCCAA-CCTCACTTTTATTTCCAA
* *
629057 AATATTAAAATTTTCATCATGAGGATACTCTAACC
65 AATATAAAAATTTTCATCATGAGGATACTCCAACC
629092 CCGTTATTTT
Statistics
Matches: 89, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
102 85 0.96
103 4 0.04
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (102 bp):
TTTTTATTTCTAAAATACTAAAATTCTCATCTCGAGGATACTCCAACCTCACTTTTATTTCCAAA
ATATAAAAATTTTCATCATGAGGATACTCCAACCTTG
Found at i:629192 original size:79 final size:78
Alignment explanation
Indices: 629026--629193 Score: 203
Period size: 79 Copynumber: 2.1 Consensus size: 78
629016 TTCTCATCTC
* * *
629026 GGGGATACTCCAATCCTACTTTTATTTCCAAAATATTAAAATTTTCATCATGAGGATACTCTAAC
1 GGGGATACTCCAAACCTACTTTTATTTCCAAAATATT-AAATTTTCACCATGAGGATACTCCAAC
* * **
629091 CCCGTTATTTTTTA
65 CCCATCATTTTCGA
* * * *
629105 GGGAATACTCCAAACCTATTTTTATTTCCAAAATATT-GATTTTGCACCATCGGGGATACTCCAA
1 GGGGATACTCCAAACCTACTTTTATTTCCAAAATATTAAATTTT-CACCAT-GAGGATACTCCAA
629169 CCCCATCATTTTCGA
64 CCCCATCATTTTCGA
629184 GGGGATACTC
1 GGGGATACTC
629194 TAACCCTGTT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
77 5 0.07
78 5 0.07
79 65 0.87
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (78 bp):
GGGGATACTCCAAACCTACTTTTATTTCCAAAATATTAAATTTTCACCATGAGGATACTCCAACC
CCATCATTTTCGA
Found at i:631087 original size:41 final size:41
Alignment explanation
Indices: 631042--631288 Score: 126
Period size: 41 Copynumber: 6.2 Consensus size: 41
631032 TCGTTGGTTC
* *
631042 GTATGGTTTCGTCTTGATCAACACCTTTCCTTTGTTGACTT
1 GTATGGTTTCATCTCGATCAACACCTTTCCTTTGTTGACTT
* *
631083 GTATGGTTTCATCTCGATC-A-A-CTTTCCTTCGTTG-GTT
1 GTATGGTTTCATCTCGATCAACACCTTTCCTTTGTTGACTT
* * * *
631120 CGTATGGTTGTC-T-TAG-CCAACACCCTTCCCTTGTTGGTAC--
1 -GTATGGTT-TCATCTCGATCAACACCTTTCCTTTGTT-G-ACTT
* * ** * *
631160 ATATGGTTTCGTCTCGGCCAACACCTTT-CTTTCATTAACTT
1 GTATGGTTTCATCTCGATCAACACCTTTCCTTT-GTTGACTT
* * **
631201 GTATGGTTTCATC-CTGATC-A-A-TTTTTCTTTGTTGGTTT
1 GTATGGTTTCATCTC-GATCAACACCTTTCCTTTGTTGACTT
* * * * *
631239 ATATGGTTTCATCTCGGTGAGCACCTTTTCTTTGTTGACTT
1 GTATGGTTTCATCTCGATCAACACCTTTCCTTTGTTGACTT
*
631280 ATATGGTTT
1 GTATGGTTT
631289 TGTCCCAACC
Statistics
Matches: 154, Mismatches: 32, Indels: 40
0.68 0.14 0.18
Matches are distributed among these distances:
36 1 0.01
37 5 0.03
38 45 0.29
39 28 0.18
40 10 0.06
41 65 0.42
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.45
Consensus pattern (41 bp):
GTATGGTTTCATCTCGATCAACACCTTTCCTTTGTTGACTT
Found at i:631125 original size:38 final size:41
Alignment explanation
Indices: 631026--631188 Score: 128
Period size: 41 Copynumber: 4.1 Consensus size: 41
631016 ACTTAGCACG
* *
631026 CTTT-CTTCGTTGGTTCGTATGGTTTCGTCTTGATCAACAC
1 CTTTCCTTCGTTGGTTCGTATGGTTTCATCTCGATCAACAC
* *
631066 CTTTCCTTTGTTGACTT-GTATGGTTTCATCTCGATC-A-A-
1 CTTTCCTTCGTTG-GTTCGTATGGTTTCATCTCGATCAACAC
* *
631104 CTTTCCTTCGTTGGTTCGTATGGTTGTC-T-TAG-CCAACACC
1 CTTTCCTTCGTTGGTTCGTATGGTT-TCATCTCGATCAACA-C
* * * * **
631144 CTTCCCTT-GTTGGTACATATGGTTTCGTCTCGGCCAACAC
1 CTTTCCTTCGTTGGTTCGTATGGTTTCATCTCGATCAACAC
631184 CTTTC
1 CTTTC
631189 TTTCATTAAC
Statistics
Matches: 99, Mismatches: 13, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
36 1 0.01
37 5 0.05
38 24 0.24
39 18 0.18
40 19 0.19
41 30 0.30
42 2 0.02
ACGTcount: A:0.13, C:0.26, G:0.18, T:0.42
Consensus pattern (41 bp):
CTTTCCTTCGTTGGTTCGTATGGTTTCATCTCGATCAACAC
Found at i:631165 original size:77 final size:77
Alignment explanation
Indices: 631026--631175 Score: 182
Period size: 77 Copynumber: 1.9 Consensus size: 77
631016 ACTTAGCACG
* * * *
631026 CTTTCTTCGTTGGTTCGTATGGTTTCGTCTTGATCAACACCTTTCCTTTGTTGACTTGTATGGTT
1 CTTTCTTCGTTGGTTCGTATGGTTTCGTCTTGACCAACACCCTTCCCTTGTTGAC-TATATGGTT
631091 TCATCTCGATCAA
65 TCATCTCGATCAA
631104 CTTTCCTTCGTTGGTTCGTATGG-TT-GTCTT-AGCCAACACCCTTCCCTTGTTGGTAC-ATATG
1 CTTT-CTTCGTTGGTTCGTATGGTTTCGTCTTGA-CCAACACCCTTCCCTTGTT-G-ACTATATG
*
631165 GTTTCGTCTCG
62 GTTTCATCTCG
631176 GCCAACACCT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
76 1 0.02
77 35 0.56
78 7 0.11
79 20 0.32
ACGTcount: A:0.13, C:0.24, G:0.19, T:0.44
Consensus pattern (77 bp):
CTTTCTTCGTTGGTTCGTATGGTTTCGTCTTGACCAACACCCTTCCCTTGTTGACTATATGGTTT
CATCTCGATCAA
Found at i:631244 original size:118 final size:118
Alignment explanation
Indices: 631034--631246 Score: 286
Period size: 118 Copynumber: 1.8 Consensus size: 118
631024 CGCTTTCTTC
* * * * * *
631034 GTTGGTTCGTATGGTTTCGTCTTGATCAACACCTTTCCTTTGTTGACTTGTATGGTTTCATCTCG
1 GTTGGTACATATGGTTTCGTCTCGACCAACACCTTTCCTTTATTAACTTGTATGGTTTCATCTCG
*
631099 ATCAACTTTCCTTCGTTGGTTCGTATGGTTGTCTTAGCCAACACCCTTCCCTT
66 ATCAACTTTCCTTCGTTGGTTCATATGGTTGTCTTAGCCAACACCCTTCCCTT
*
631152 GTTGGTACATATGGTTTCGTCTCGGCCAACACCTTT-CTTTCATTAACTTGTATGGTTTCATC-C
1 GTTGGTACATATGGTTTCGTCTCGACCAACACCTTTCCTTT-ATTAACTTGTATGGTTTCATCTC
* * * *
631215 TGATCAATTTTTCTTTGTTGGTTTATATGGTT
65 -GATCAACTTTCCTTCGTTGGTTCATATGGTT
631247 TCATCTCGGT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
117 5 0.06
118 76 0.94
ACGTcount: A:0.15, C:0.22, G:0.18, T:0.45
Consensus pattern (118 bp):
GTTGGTACATATGGTTTCGTCTCGACCAACACCTTTCCTTTATTAACTTGTATGGTTTCATCTCG
ATCAACTTTCCTTCGTTGGTTCATATGGTTGTCTTAGCCAACACCCTTCCCTT
Found at i:631465 original size:43 final size:43
Alignment explanation
Indices: 631419--632109 Score: 495
Period size: 43 Copynumber: 16.4 Consensus size: 43
631409 TTTTGTCTCA
* * * *
631419 GCCAACACCCTTCTAACTCGTTGGTACATATGGTTCCGTCCTA
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
** * * * *
631462 GCCAACACTTTTCTAACTCATTGGTTCATATAGTTTTATCTTG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* * * *
631505 GCCAACATCCTTCTAACTTATTGGTACATATGATTTCA-ACTCG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCT-G
* * * * ** *
631548 GGCGACACCCTTCTAACTCGTTAGTATGTATGGTTTCATCCCG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* * *
631591 ACCAACACCC-TCTTAACTTATTGGTACATATGGTTTCATCTTG
1 GCCAACACCCTTC-TAACTCATTGGTACATATGGTTTCATCCTG
* * * *** * *
631634 ACCAATA-TCTCTCTAACTCATTGGTGTGTGTGGTTTCATCTTG
1 GCCAACACCCT-TCTAACTCATTGGTACATATGGTTTCATCCTG
*
631677 ACCAACACCC-TCATAACTCATTGGTACATATGGTTTCATCCTG
1 GCCAACACCCTTC-TAACTCATTGGTACATATGGTTTCATCCTG
* *
631720 GCCAACA--C--CT-ACTCCTTGGTACGTA--G--T-ATCCT-
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* ** *** *
631752 ----ACACCTTTCTAACTTGTTGGTTTGTATGGTTTCATCTTG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* * ** ** *
631791 GTCAACACCCTCCTAACTTGTTTATACCTATGGTTTCATCCTG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* ***
631834 GCCAACACCCTTCTAACTCATTGGTACATATGTTTTTGCCCTG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* * * * ** *
631877 CCCTAATACCTTTCTAACTCATTGGTACGTATGGTTTTGTCCCG
1 GCC-AACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* * *
631921 ACCAACACCTTTCTAACTTATTGGTACATATGGTTTCATCCTG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* * * * ** *
631964 GTCAACATCC-TCTTAACTCGTTGGTACGTATGGTTTTGTCCCG
1 GCCAACACCCTTC-TAACTCATTGGTACATATGGTTTCATCCTG
* * *
632007 ACCAACACCTTTCTAACTCGTTGGTACATATGGTTTCATCCTG
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
* ** *
632050 GCCAACACCCTTCTAACTCATTGGTTCATATGGTTTTGTCCTA
1 GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
632093 GCCAACACCCTTCTAAC
1 GCCAACACCCTTCTAAC
632110 ATGTAGGTTC
Statistics
Matches: 501, Mismatches: 122, Indels: 50
0.74 0.18 0.07
Matches are distributed among these distances:
28 3 0.01
32 2 0.00
33 16 0.03
34 1 0.00
35 1 0.00
36 1 0.00
37 1 0.00
38 17 0.03
39 1 0.00
40 1 0.00
41 1 0.00
42 8 0.02
43 406 0.81
44 42 0.08
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.36
Consensus pattern (43 bp):
GCCAACACCCTTCTAACTCATTGGTACATATGGTTTCATCCTG
Found at i:632073 original size:129 final size:129
Alignment explanation
Indices: 631752--632153 Score: 432
Period size: 129 Copynumber: 3.1 Consensus size: 129
631742 GTAGTATCCT
* ** * * * * **
631752 ACACCTTTCTAACTTGTTGGTTTGTATGGTTTCATCTTGGTCAACACCCTCCTAACTTGTTTATA
1 ACACCTTTCTAACTCGTTGGTACGTATGGTTTCATCCTGGCCAACACCCTTCTAACTTATTGGTA
* * * * *
631817 CCTATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTACATATGTTTTTG-CCCTGCCCT
66 CATATGGTTTCATCCTGGCCAACACCCTTCTAACTCGTTGGTACGTATGGTTTTGTCCC-GACC-
631881 A
129 A
* * ** * * *
631882 ATACCTTTCTAACTCATTGGTACGTATGGTTTTGTCCCGACCAACACCTTTCTAACTTATTGGTA
1 ACACCTTTCTAACTCGTTGGTACGTATGGTTTCATCCTGGCCAACACCCTTCTAACTTATTGGTA
* *
631947 CATATGGTTTCATCCTGGTCAACATCC-TCTTAACTCGTTGGTACGTATGGTTTTGTCCCGACCA
66 CATATGGTTTCATCCTGGCCAACACCCTTC-TAACTCGTTGGTACGTATGGTTTTGTCCCGACCA
* * *
632011 ACACCTTTCTAACTCGTTGGTACATATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTT
1 ACACCTTTCTAACTCGTTGGTACGTATGGTTTCATCCTGGCCAACACCCTTCTAACTTATTGGTA
** * * * ** *
632076 CATATGGTTTTGTCCTAGCCAACACCCTTCTAACAT-GTAGGTTCGTATGGTTTCATCCCAACCA
66 CATATGGTTTCATCCTGGCCAACACCCTTCTAAC-TCGTTGGTACGTATGGTTTTGTCCCGACCA
*
632140 ACACTTTTCTAACT
1 ACACCTTTCTAACT
632154 AACTTGTTGG
Statistics
Matches: 224, Mismatches: 44, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
129 120 0.54
130 101 0.45
131 3 0.01
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.37
Consensus pattern (129 bp):
ACACCTTTCTAACTCGTTGGTACGTATGGTTTCATCCTGGCCAACACCCTTCTAACTTATTGGTA
CATATGGTTTCATCCTGGCCAACACCCTTCTAACTCGTTGGTACGTATGGTTTTGTCCCGACCA
Found at i:632141 original size:43 final size:43
Alignment explanation
Indices: 631898--632175 Score: 159
Period size: 43 Copynumber: 6.4 Consensus size: 43
631888 TTCTAACTCA
* ** * * * *
631898 TTGGTACGTATGGTTTTGTCCCGACCAACACCTTTCTAACTTA
1 TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTCTAACATG
* * **** *
631941 TTGGTACATATGGTTTCATCCTGGTCAACATCC-TCTTAAC-TCG
1 TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTC-TAACAT-G
* ** * *
631984 TTGGTACGTATGGTTTTGTCCCGACCAACACCTTTCTAAC-TCG
1 TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTCTAACAT-G
* * *** *
632027 TTGGTACATATGGTTTCATCCTGGCCAACACCCTTCTAAC-TCA
1 TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTCTAACAT-G
* ** * *
632070 TTGGTTCATATGGTTTTGTCCTAGCCAACACCCTTCTAACATG
1 TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTCTAACATG
* **
632113 TAGGTTCGTATGGTTTCATCCCAACCAACACTTTTCTAACTAACTTG
1 TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTCTAAC--A--TG
632160 TTGGTTCGTATGGTTT
1 TTGGTTCGTATGGTTT
632176 TGTCTCGGTC
Statistics
Matches: 189, Mismatches: 38, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
42 3 0.02
43 165 0.87
44 3 0.02
45 1 0.01
47 17 0.09
ACGTcount: A:0.21, C:0.26, G:0.17, T:0.37
Consensus pattern (43 bp):
TTGGTTCGTATGGTTTCATCCCAACCAACACCCTTCTAACATG
Found at i:632150 original size:86 final size:85
Alignment explanation
Indices: 631752--632153 Score: 342
Period size: 86 Copynumber: 4.7 Consensus size: 85
631742 GTAGTATCCT
*** * * * * ** **
631752 ACACCTTTCTAACTTGTTGGTTTGTATGGTTTCATCTTGGTCAACACCCTCCTAACTTGTTTATA
1 ACACCTTTCTAAC-TGTTGGTACATATGGTTTCATCCTGGCCAACACTCTTCTAACTCATTGGTA
* ** * *
631817 CCTATGGTTTCATCCTGGCCA
65 CGTATGGTTTTGTCCCGACCA
* * * *** * *
631838 ACACCCTTCTAACTCATTGGTACATATGTTTTTGCCCTGCCCTAATAC-CTTTCTAACTCATTGG
1 ACACCTTTCTAACT-GTTGGTACATATGGTTTCATCCTGGCC-AACACTC-TTCTAACTCATTGG
631902 TACGTATGGTTTTGTCCCGACCA
63 TACGTATGGTTTTGTCCCGACCA
* * * *
631925 ACACCTTTCTAACTTATTGGTACATATGGTTTCATCCTGGTCAACA-TCCTCTTAACTCGTTGGT
1 ACACCTTTCTAAC-TGTTGGTACATATGGTTTCATCCTGGCCAACACTCTTC-TAACTCATTGGT
631989 ACGTATGGTTTTGTCCCGACCA
64 ACGTATGGTTTTGTCCCGACCA
* *
632011 ACACCTTTCTAACTCGTTGGTACATATGGTTTCATCCTGGCCAACACCCTTCTAACTCATTGGTT
1 ACACCTTTCTAACT-GTTGGTACATATGGTTTCATCCTGGCCAACACTCTTCTAACTCATTGGTA
* *
632076 CATATGGTTTTGT-CCTAGCCA
65 CGTATGGTTTTGTCCCGA-CCA
* * * * *** *
632097 ACACCCTTCTAACATGTAGGTTCGTATGGTTTCATCCCAACCAACACTTTTCTAACT
1 ACACCTTTCTAAC-TGTTGGTACATATGGTTTCATCCTGGCCAACACTCTTCTAACT
632154 AACTTGTTGG
Statistics
Matches: 256, Mismatches: 50, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
85 7 0.03
86 180 0.70
87 68 0.27
88 1 0.00
ACGTcount: A:0.21, C:0.27, G:0.14, T:0.37
Consensus pattern (85 bp):
ACACCTTTCTAACTGTTGGTACATATGGTTTCATCCTGGCCAACACTCTTCTAACTCATTGGTAC
GTATGGTTTTGTCCCGACCA
Found at i:632398 original size:19 final size:18
Alignment explanation
Indices: 632354--632400 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
632344 TCCTTGGTTA
* *
632354 TTTTGCTTTGTGTACTTG
1 TTTTGTTTTGTATACTTG
632372 TTTATGTTTTGTATATCTTG
1 TTT-TGTTTTGTATA-CTTG
632392 TTTTGTTTT
1 TTTTGTTTT
632401 TTCTTGACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 7 0.28
ACGTcount: A:0.09, C:0.06, G:0.17, T:0.68
Consensus pattern (18 bp):
TTTTGTTTTGTATACTTG
Found at i:633448 original size:154 final size:150
Alignment explanation
Indices: 633265--633733 Score: 444
Period size: 154 Copynumber: 3.1 Consensus size: 150
633255 ATTTTCTTTC
* * * * * *
633265 TAATTTTTTCTATTTTCAAAATACGAAGTTTTCTATTCCGTAAATTTCTCCTATAGGATTTTTTT
1 TAATTTTTTCTGTTATCAAGATACAAAGTTTTCTATTCTGTAAATTTCT-CTATA-GATTTTTCT
* * *
633330 AAATTCATAATTTTCATAATTCTTAAAATATTATTGTTTAATTTATATTAAATCAGTTTTAAAAA
64 AAATT-AAAATTTTCAAAATTCTTAAAATATTATTGTTTAATTCATATTAAATCAGTTTT-AAAA
633395 ATTTAATTTATTTTATGAGTTTTA
127 ATTTAATTTATTTTATGAGTTTTA
* *
633419 TAATTTTTTCTGTTACCAAGATACAAAGTTTTTTATTCTGTAAATTTCTTCGGTAT-GATTTTTC
1 TAATTTTTTCTGTTATCAAGATACAAAGTTTTCTATTCTGTAAATTTC-TC--TATAGATTTTTC
* * * ** ** *
633483 TAAGCTTACAATTCTCAAAATTCTTCAAAA-ATTATTGTTTAACCCATAAAAAATCATTTTTGAA
63 TAA-ATTAAAATTTTCAAAATTCTT-AAAATATTATTGTTTAATTCATATTAAATCAGTTTT-AA
* * *
633547 AAATTCAATTGATTTTATGAATTTTA
125 AAATTTAATTTATTTTATGAGTTTTA
* *
633573 GAA-TTTTTCTGATATCAAGATACAAAGTTTTCTAATT-TGTAAATTTCTCTAGTTAGATTTTTC
1 TAATTTTTTCTGTTATCAAGATACAAAGTTTTCT-ATTCTGTAAATTTCTCTA--TAGATTTTTC
** * ** * * * * * *
633636 TCAGTTTAAAATTTTTAAAATTAATCAAATATTTTTATTAAATTCATATTAAAGCAGTTTGTGAA
63 T-AAATTAAAATTTTCAAAATTCTTAAAATATTATTGTTTAATTCATATTAAATCAGTTT-TAAA
633701 AATTTAATTTATTTTATGAGTTTT-
126 AATTTAATTTATTTTATGAGTTTTA
*
633725 TCATTTTTT
1 TAATTTTTT
633734 ATATAATAAT
Statistics
Matches: 253, Mismatches: 49, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
150 2 0.01
152 7 0.03
153 110 0.43
154 124 0.49
155 7 0.03
156 3 0.01
ACGTcount: A:0.34, C:0.09, G:0.07, T:0.49
Consensus pattern (150 bp):
TAATTTTTTCTGTTATCAAGATACAAAGTTTTCTATTCTGTAAATTTCTCTATAGATTTTTCTAA
ATTAAAATTTTCAAAATTCTTAAAATATTATTGTTTAATTCATATTAAATCAGTTTTAAAAATTT
AATTTATTTTATGAGTTTTA
Found at i:633703 original size:153 final size:153
Alignment explanation
Indices: 633355--633724 Score: 422
Period size: 153 Copynumber: 2.4 Consensus size: 153
633345 ATAATTCTTA
* * *
633355 AAATATTATTGTTTAATTTATATTAAATCAGTTTTAAAAAATTTAATTTATTTTATGAGTTTTAT
1 AAATATTATTGTTTAATTCATATTAAATCAGTTTT-GAAAATTTAATTTATTTTATGAGTTTTAG
* * *
633420 AATTTTTTCTGTTACCAAGATACAAAGTTTTTTATTCTGTAAATTTCTTCGGTATGATTTTTCTA
65 AATTTTTTCTGATACCAAGATACAAAGTTTTTAATTCTGTAAATTTCTTAGGTATGATTTTTCTA
* **
633485 AGCTTACAATTCTCAAAATTCTTC
130 AGCTTAAAATTCTCAAAATTAATC
* ** ** * * * *
633509 AAAAATTATTGTTTAACCCATAAAAAATCATTTTTGAAAAATTCAATTGATTTTATGAATTTTAG
1 AAATATTATTGTTTAATTCATATTAAATCAGTTTTG-AAAATTTAATTTATTTTATGAGTTTTAG
* *
633574 AA-TTTTTCTGATATCAAGATACAAAGTTTTCTAATT-TGTAAATTTCTCTAGTTA-GATTTTTC
65 AATTTTTTCTGATACCAAGATACAAAGTTTT-TAATTCTGTAAATTTCT-TAGGTATGATTTTTC
* * * *
633636 TCAGTTTAAAATTTTTAAAATTAATC
128 TAAGCTTAAAATTCTCAAAATTAATC
* * * *
633662 AAATATTTTTATTAAATTCATATTAAAGCAGTTTGTGAAAATTTAATTTATTTTATGAGTTTT
1 AAATATTATTGTTTAATTCATATTAAATCAGTTT-TGAAAATTTAATTTATTTTATGAGTTTT
633725 TCATTTTTTA
Statistics
Matches: 175, Mismatches: 37, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
153 111 0.63
154 64 0.37
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.48
Consensus pattern (153 bp):
AAATATTATTGTTTAATTCATATTAAATCAGTTTTGAAAATTTAATTTATTTTATGAGTTTTAGA
ATTTTTTCTGATACCAAGATACAAAGTTTTTAATTCTGTAAATTTCTTAGGTATGATTTTTCTAA
GCTTAAAATTCTCAAAATTAATC
Found at i:634072 original size:14 final size:13
Alignment explanation
Indices: 634053--634085 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
634043 AATCAAATTA
634053 AAAAAATAATAAT
1 AAAAAATAATAAT
634066 AATAAAATAATAAT
1 AA-AAAATAATAAT
634080 AAAAAA
1 AAAAAA
634086 GAAAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAAAATAATAAT
Found at i:641248 original size:26 final size:27
Alignment explanation
Indices: 641218--641274 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
641208 AACCTATAAT
641218 TCCCT-GTGGAATCAGGA-AAATTC-CAA
1 TCCCTAGTGGAA-CAGGATAAA-TCGCAA
641244 TCCCTAGTGGAACAGGATAAATCGCAA
1 TCCCTAGTGGAACAGGATAAATCGCAA
641271 TCCC
1 TCCC
641275 CATTACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
26 12 0.43
27 16 0.57
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.21
Consensus pattern (27 bp):
TCCCTAGTGGAACAGGATAAATCGCAA
Found at i:641628 original size:13 final size:13
Alignment explanation
Indices: 641553--641652 Score: 57
Period size: 12 Copynumber: 7.7 Consensus size: 13
641543 CAAAGTGCCA
*
641553 TTGTCAAGAAATCG
1 TTGTCAAGAAA-CT
641567 TTGTCAAGAAACT
1 TTGTCAAGAAACT
* *
641580 ATCGTTAA-AAACT
1 -TTGTCAAGAAACT
**
641593 TT-TGCGAAGAATGT
1 TTGT-C-AAGAAACT
*
641607 TTG-CTAGAAACT
1 TTGTCAAGAAACT
*
641619 TTGTCAAG-AATT
1 TTGTCAAGAAACT
641631 TTGTCAAG-AACT
1 TTGTCAAGAAACT
641643 TGTGTCAAGA
1 T-TGTCAAGA
641653 CCCTTTCATC
Statistics
Matches: 65, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
11 1 0.02
12 24 0.37
13 19 0.29
14 21 0.32
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (13 bp):
TTGTCAAGAAACT
Found at i:642164 original size:32 final size:32
Alignment explanation
Indices: 642070--642182 Score: 100
Period size: 32 Copynumber: 3.3 Consensus size: 32
642060 AGCCCAAATG
*
642070 AGTTGGTAGCATCCTTTCTTAAAAGCCCATACA
1 AGTTGGTGGCATCCTTTCTT-AAAGCCCATACA
* ** * *
642103 AGCTGGTGGCAGTCAAACCTTTCCAAAAGCTCACACA
1 AGTTGGTGGCA-T----CCTTTCTTAAAGCCCATACA
* *
642140 AGTTGGTGGCATCCTTTCTTAAAGCCCTTACG
1 AGTTGGTGGCATCCTTTCTTAAAGCCCATACA
642172 AGTTGGTGGCA
1 AGTTGGTGGCA
642183 CCCAAAAAGC
Statistics
Matches: 62, Mismatches: 13, Indels: 11
0.72 0.15 0.13
Matches are distributed among these distances:
32 25 0.40
33 9 0.15
34 1 0.02
36 1 0.02
37 20 0.32
38 6 0.10
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (32 bp):
AGTTGGTGGCATCCTTTCTTAAAGCCCATACA
Found at i:642288 original size:27 final size:28
Alignment explanation
Indices: 642256--642311 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
642246 ATCTTTTCTC
*
642256 AAAGCCCATATGAGTTGG-CGCACTCAA
1 AAAGCCCATATAAGTTGGTCGCACTCAA
* *
642283 AAAGCCTATATAAGTTGGTGGCACTCAA
1 AAAGCCCATATAAGTTGGTCGCACTCAA
642311 A
1 A
642312 CCTTTCCAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.21
Consensus pattern (28 bp):
AAAGCCCATATAAGTTGGTCGCACTCAA
Found at i:642981 original size:80 final size:80
Alignment explanation
Indices: 642809--643000 Score: 210
Period size: 80 Copynumber: 2.4 Consensus size: 80
642799 TAAAGCCTAT
* * * * *
642809 TGTCGCTAGCCCTGAATAAGCACATTGGCACCTAGCCCTAAGTCATGTAGCATCTGTCCAACTCG
1 TGTCACTAGCCTTGAATCAGCACATTGGCACCTAGCCCTAAGTCATGGAGCATCTGTCCAAATCG
*
642874 TTTTCCCAAGCTTAA
66 TTTTCCCAAGCTAAA
* *
642889 TGTCACTAGCCTT-AGATCAGGACATTGGCACTTTA-CCCTAAGTCATGCGA-CATCTGTCCAAA
1 TGTCACTAGCCTTGA-ATCAGCACATTGGCAC-CTAGCCCTAAGTCATG-GAGCATCTGTCCAAA
*
642951 TCTTTTTCCCAAGCTAAA
63 TCGTTTTCCCAAGCTAAA
* ** * *
642969 TTTTGCTGGCCTTGAATCAGCATATTGGCACC
1 TGTCACTAGCCTTGAATCAGCACATTGGCACC
643001 CTTCCTATGC
Statistics
Matches: 92, Mismatches: 16, Indels: 9
0.79 0.14 0.08
Matches are distributed among these distances:
79 1 0.01
80 87 0.95
81 4 0.04
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (80 bp):
TGTCACTAGCCTTGAATCAGCACATTGGCACCTAGCCCTAAGTCATGGAGCATCTGTCCAAATCG
TTTTCCCAAGCTAAA
Found at i:644030 original size:166 final size:164
Alignment explanation
Indices: 643836--644133 Score: 382
Period size: 165 Copynumber: 1.8 Consensus size: 164
643826 AATTTTTCAT
* * * **
643836 TTTTCTTTTGCAAACTTCCTGTTTTCGAAATACAAAGTTTTCTTATCTGTAAATTTTTTCAAGAA
1 TTTTCTTTTGCAAACCTCCTATTTTCGAAATACAAAGCTTTCTTATCCAT-AATTTTTTCAAGAA
* * * *
643901 GATTTTCATTGATCTAAAATTTTTAATATTTATAAAATATTATCACTTAGTCATCATTAAATCAG
65 GATTTTCATTGATCTAAAATTTTTAAAATTCATAAAATATTATCACTTAATCACCATTAAATCAG
643966 TTTCAAAAAAATTATTTTATTCCATGAGTTTTTTA
130 TTTCAAAAAAATTATTTTATTCCATGAGTTTTTTA
* * * *
644001 TTTTCTTTTAG-AATACCTCCTATTTTCGAAATATAGAGCTTTCTTCTCCATAATTTTTTCAGGA
1 TTTTCTTTT-GCAA-ACCTCCTATTTTCGAAATACAAAGCTTTCTTATCCATAATTTTTTCAAGA
* * * * * * *
644065 GGATTTTCATTGGTTTAAAATTTTTAAAATTCATCAAATATTATTACTTAATCACCATTTAATTA
64 AGATTTTCATTGATCTAAAATTTTTAAAATTCATAAAATATTATCACTTAATCACCATTAAATCA
644130 GTTT
129 GTTT
644134 TGAAAATTTC
Statistics
Matches: 111, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
165 81 0.73
166 30 0.27
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.47
Consensus pattern (164 bp):
TTTTCTTTTGCAAACCTCCTATTTTCGAAATACAAAGCTTTCTTATCCATAATTTTTTCAAGAAG
ATTTTCATTGATCTAAAATTTTTAAAATTCATAAAATATTATCACTTAATCACCATTAAATCAGT
TTCAAAAAAATTATTTTATTCCATGAGTTTTTTA
Found at i:644408 original size:160 final size:164
Alignment explanation
Indices: 644063--644476 Score: 441
Period size: 160 Copynumber: 2.5 Consensus size: 164
644053 ATTTTTTCAG
* * * * * *
644063 GAGGA-TTTTCATTGGTTTAAAATTTTTAAAATTCATCAAATATTATTACTTAATCACCATTTAA
1 GAGGATTTTTC-TTGGTTTATAATTTTTAAAATTCATCAAATATAATCACTTAATTAACATTAAA
* * * * **
644127 TTAGTTTTGAAAATTTCCTTTTATTTCATGATTTTTTCATTTTTTCTTCAAATTTTTCTCTTTCC
65 TCAGCTTTGAAAAATTCCTTTTATTTCATGAATTTTTCA-TAATTCTTCAAATTTTTCTCTTTCC
644192 AAAATACGAAATTTTCTACTCTGTAAATGTTTTTAA
129 AAAATACGAAATTTTCTACTCTGTAAATGTTTTTAA
* * * * *
644228 GAGGATTTTTCCTAGTTTATAATTTTTAAAATTTATCAAATATCATCAGTTAATTAACATTAAAT
1 GAGGATTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATAATCACTTAATTAACATTAAAT
* * *
644293 CA-CTTTGAAAAATTCCTTTTATTTCATGAATTTTTCA-AATT-TT-AAATTCTTT-TGTTTTCG
66 CAGCTTTGAAAAATTCCTTTTATTTCATGAATTTTTCATAATTCTTCAAATT-TTTCTCTTTCCA
* * *
644353 AAATACGGAGTTTTTTACT-TCGTAAATGTTTTT-A
130 AAATACGAAATTTTCTACTCT-GTAAATGTTTTTAA
* * * * **
644387 GGGTGATTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATAATCATTTAATTCATAAGAAA
1 GAG-GATTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATAATCACTTAATTAACATTAAA
* *
644452 TCAGTTTTGAAAAATT-CATTTATTT
65 TCAGCTTTGAAAAATTCCTTTTATTT
644477 TCTTAAGTTT
Statistics
Matches: 210, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
159 4 0.02
160 101 0.48
161 16 0.08
162 2 0.01
164 32 0.15
165 50 0.24
166 5 0.02
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.49
Consensus pattern (164 bp):
GAGGATTTTTCTTGGTTTATAATTTTTAAAATTCATCAAATATAATCACTTAATTAACATTAAAT
CAGCTTTGAAAAATTCCTTTTATTTCATGAATTTTTCATAATTCTTCAAATTTTTCTCTTTCCAA
AATACGAAATTTTCTACTCTGTAAATGTTTTTAA
Found at i:646618 original size:155 final size:152
Alignment explanation
Indices: 646358--646807 Score: 439
Period size: 155 Copynumber: 2.9 Consensus size: 152
646348 AAGTTATCGA
* * *
646358 GATACTTTCATGTCAAAGGTATACCCATAGGGGCATTTTTGTAATTTTATA-AAGTCGAGTCTTA
1 GATACTTTCATGTCAAA-GTATGCCAATAGGGGCATTTTTGTAATTTT-TAGAACT-GAGTCTTA
* **** * * * * * *
646422 GGTTGTCACCGAGTTTGTTTTTTTGCCAAAAGTGGGTATTTAGGATGGGTTCATCCTAT-TACTT
63 GATTGTCACCG-GTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTA-TA
* *
646486 ATCATTTTAATCTCC-AC-TAGGGTTACCGG
126 ATC-TTTT--T-TCCGACTTAAGGTTACCAG
* * *
646515 GATACTTTCATGTTAAAGTATGCCTATA-GGGCTATTTTTGTAATTTTTAGAACTAAGTCTTAGA
1 GATACTTTCATGTCAAAGTATGCCAATAGGGGC-ATTTTTGTAATTTTTAGAACTGAGTCTTAGA
646579 TTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATC
65 TTGTCACC-GGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATC
*
646644 TTTTTTCCGGTCTTTAAGGTTACCAG
129 TTTTTTCC-GAC-TTAAGGTTACCAG
* * *
646670 GATACTTTCATGTCGAAGT-TGTACCAATAGGGGCATTTTTGGAATTTTTCCAGAACTGAGTCCT
1 GATACTTTCATGTCAAAGTATG--CCAATAGGGGCATTTTTGTAATTTTT--AGAACTGAGTCTT
*
646734 A-AGTTGTCACTGGGTCCACTTTTATG-TCAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTA
62 AGA-TTGTCAC-CGGTCCACTTTTATGCT-AAAGGTGGGTATTTAGGATAGGTTCATCCCATCTA
*
646797 TAATCATTTTT
124 TAATCTTTTTT
646808 AAGTCTTTTA
Statistics
Matches: 250, Mismatches: 27, Indels: 31
0.81 0.09 0.10
Matches are distributed among these distances:
151 3 0.01
152 1 0.00
153 1 0.00
154 6 0.02
155 91 0.36
156 48 0.19
157 22 0.09
158 78 0.31
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (152 bp):
GATACTTTCATGTCAAAGTATGCCAATAGGGGCATTTTTGTAATTTTTAGAACTGAGTCTTAGAT
TGTCACCGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCATCTATAATCTT
TTTTCCGACTTAAGGTTACCAG
Found at i:646777 original size:158 final size:155
Alignment explanation
Indices: 646506--646807 Score: 423
Period size: 158 Copynumber: 1.9 Consensus size: 155
646496 TCTCCACTAG
* * * *
646506 GGTTACCGGGATACTTTCATGTTAAAGTATGCCTATAGGGCTATTTTTGTAATTTTTAGAACTAA
1 GGTTACCAGGATACTTTCATGTCAAAGTATGCCAATAGGGCTATTTTTGGAATTTTTAGAACTAA
*
646571 GTCTTAGATTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCAT
66 GTCTAAGATTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCAT
*
646636 CTATAATCTTTTTTCCGGTCTTTAA
131 CTATAATCATTTTTCCGGTCTTTAA
*
646661 GGTTACCAGGATACTTTCATGTCGAAGT-TGTACCAATAGGGGC-ATTTTTGGAATTTTTCCAGA
1 GGTTACCAGGATACTTTCATGTCAAAGTATG--CCAATA-GGGCTATTTTTGGAATTTTT--AGA
* **
646724 ACTGAGTCCTAAG-TTGTCACTGGGTCCACTTTTATG-TCAAAGGTGGGTATTTAGGATAGGTTC
61 ACTAAGT-CTAAGATTGTCACCAGGTCCACTTTTATGCT-AAAGGTGGGTATTTAGGATAGGTTC
646787 ATCCCATCTATAATCATTTTT
124 ATCCCATCTATAATCATTTTT
646808 AAGTCTTTTA
Statistics
Matches: 130, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
154 2 0.02
155 25 0.19
156 19 0.15
157 5 0.04
158 75 0.58
159 4 0.03
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (155 bp):
GGTTACCAGGATACTTTCATGTCAAAGTATGCCAATAGGGCTATTTTTGGAATTTTTAGAACTAA
GTCTAAGATTGTCACCAGGTCCACTTTTATGCTAAAGGTGGGTATTTAGGATAGGTTCATCCCAT
CTATAATCATTTTTCCGGTCTTTAA
Found at i:647662 original size:147 final size:147
Alignment explanation
Indices: 647395--647688 Score: 561
Period size: 147 Copynumber: 2.0 Consensus size: 147
647385 TTAAACTTTG
*
647395 AATGCTTTGATCTCTTGATGTTTCTTGAGTGATTCTCTTCAAGTTTAGCTATTGGAAACTTAAAT
1 AATGCTTTGATCTCTTGATGTTTCTTGAGTGATTCTCTTCAAGTTCAGCTATTGGAAACTTAAAT
*
647460 TTATAGGCTTAAATGTTGACATACTCGTTTGAGGTTGAATGATTGTGTTTCTAGTCGTTGTTGAC
66 TTATAGGCTTAAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTCTAGTCGTTGTTGAC
647525 TTGTTTGGTGCTTGTTT
131 TTGTTTGGTGCTTGTTT
*
647542 AATGCTTTGATCTCTTGATGTTTCTTGAGTGATTCTCTTCAAGTTCAGCTGTTGGAAACTTAAAT
1 AATGCTTTGATCTCTTGATGTTTCTTGAGTGATTCTCTTCAAGTTCAGCTATTGGAAACTTAAAT
647607 TTATAGGCTTAAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTCTAGTCGTTGTTGAC
66 TTATAGGCTTAAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTCTAGTCGTTGTTGAC
647672 TTGTTTGGTGCTTGTTT
131 TTGTTTGGTGCTTGTTT
647689 CAAAGCATTC
Statistics
Matches: 144, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 144 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.46
Consensus pattern (147 bp):
AATGCTTTGATCTCTTGATGTTTCTTGAGTGATTCTCTTCAAGTTCAGCTATTGGAAACTTAAAT
TTATAGGCTTAAATGTTGACATACTCGTTGGAGGTTGAATGATTGTGTTTCTAGTCGTTGTTGAC
TTGTTTGGTGCTTGTTT
Found at i:652365 original size:20 final size:20
Alignment explanation
Indices: 652340--652427 Score: 84
Period size: 20 Copynumber: 4.8 Consensus size: 20
652330 CTGCCAGTTT
652340 CATGTATCGATACAATTATG
1 CATGTATCGATACAATTATG
652360 CATGTATCGAT---A-TA--
1 CATGTATCGATACAATTATG
*
652374 -ATGTATCGATACAATTGTG
1 CATGTATCGATACAATTATG
**
652393 CATGTATCGATACAA-TAAA
1 CATGTATCGATACAATTATG
*
652412 CATGAATCGATACAAT
1 CATGTATCGATACAAT
652428 GTATCGATAC
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
13 10 0.18
16 3 0.05
17 2 0.04
19 15 0.27
20 25 0.45
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.32
Consensus pattern (20 bp):
CATGTATCGATACAATTATG
Found at i:652383 original size:33 final size:33
Alignment explanation
Indices: 652341--652404 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
652331 TGCCAGTTTC
652341 ATGTATCGATACAATTATGCATGTATCGATATA
1 ATGTATCGATACAATTATGCATGTATCGATATA
*
652374 ATGTATCGATACAATTGTGCATGTATCGATA
1 ATGTATCGATACAATTATGCATGTATCGATA
652405 CAATAAACAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (33 bp):
ATGTATCGATACAATTATGCATGTATCGATATA
Found at i:652433 original size:52 final size:53
Alignment explanation
Indices: 652340--652439 Score: 157
Period size: 52 Copynumber: 1.9 Consensus size: 53
652330 CTGCCAGTTT
** * *
652340 CATGTATCGATACAATTATGCATGTATCGATATAATGTATCGATACAATTGTG
1 CATGTATCGATACAATTAAACATGAATCGATACAATGTATCGATACAATTGTG
652393 CATGTATCGATACAA-TAAACATGAATCGATACAATGTATCGATACAA
1 CATGTATCGATACAATTAAACATGAATCGATACAATGTATCGATACAA
652440 AGCATAATAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
52 28 0.65
53 15 0.35
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (53 bp):
CATGTATCGATACAATTAAACATGAATCGATACAATGTATCGATACAATTGTG
Found at i:652453 original size:52 final size:53
Alignment explanation
Indices: 652344--652458 Score: 128
Period size: 52 Copynumber: 2.2 Consensus size: 53
652334 CAGTTTCATG
** * * * * *
652344 TATCGATACAATTATGCATGTATCGATATAATGTATCGATACAATTGTGCATG
1 TATCGATACAATTAAACATGAATCGATACAATGTATCGATACAATAGTGAATA
652397 TATCGATACAA-TAAACATGAATCGATACAATGTATCGATACAA-AGCAT-AATA
1 TATCGATACAATTAAACATGAATCGATACAATGTATCGATACAATAG--TGAATA
652449 TATCGATACA
1 TATCGATACA
652459 TTTGGATGTG
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
51 1 0.02
52 40 0.75
53 12 0.23
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (53 bp):
TATCGATACAATTAAACATGAATCGATACAATGTATCGATACAATAGTGAATA
Found at i:656370 original size:10 final size:10
Alignment explanation
Indices: 656348--656382 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
656338 ATGGATTTTC
656348 AAAAA-AAAA
1 AAAAAGAAAA
*
656357 AAAAAGAAAG
1 AAAAAGAAAA
656367 AAAAAGAAAA
1 AAAAAGAAAA
656377 AAAAAG
1 AAAAAG
656383 TCAATTGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.22
10 18 0.78
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAA
Found at i:656737 original size:16 final size:17
Alignment explanation
Indices: 656716--656757 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
656706 AATAAGAAAT
*
656716 AGAAAATAA-GAAAAAG
1 AGAAAAAAATGAAAAAG
*
656732 AGAAAAAAATGAAAAAAA
1 AGAAAAAAATG-AAAAAG
656750 AGAAAAAA
1 AGAAAAAA
656758 GCATAAAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 8 0.36
17 1 0.05
18 13 0.59
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (17 bp):
AGAAAAAAATGAAAAAG
Found at i:656745 original size:25 final size:24
Alignment explanation
Indices: 656712--656772 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 24
656702 TTTAAATAAG
*
656712 AAATAGAAAATAAGAAAAAGAGAAAA
1 AAAT-GAAAAAAAGAAAAA-AGAAAA
* *
656738 AAATGAAAAAAAAGAAAAAAGCATA
1 AAATG-AAAAAAAGAAAAAAGAAAA
656763 AAATGAAAAA
1 AAATGAAAAA
656773 GAAAAGTGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 5 0.16
25 10 0.32
26 16 0.52
ACGTcount: A:0.77, C:0.02, G:0.13, T:0.08
Consensus pattern (24 bp):
AAATGAAAAAAAGAAAAAAGAAAA
Found at i:656805 original size:11 final size:11
Alignment explanation
Indices: 656789--656829 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
656779 TGCAGATAGT
656789 AAGAAAAAATA
1 AAGAAAAAATA
*
656800 AAGAAAAAATG
1 AAGAAAAAATA
656811 AA-AAAAAA-A
1 AAGAAAAAATA
*
656820 AAGACAAAAT
1 AAGAAAAAAT
656830 GAATAAATAC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
9 2 0.08
10 11 0.44
11 12 0.48
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (11 bp):
AAGAAAAAATA
Found at i:656815 original size:20 final size:20
Alignment explanation
Indices: 656792--656832 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
656782 AGATAGTAAG
*
656792 AAAAAATAAAGAAAAAATGA
1 AAAAAAAAAAGAAAAAATGA
*
656812 AAAAAAAAAAGACAAAATGA
1 AAAAAAAAAAGAAAAAATGA
656832 A
1 A
656833 TAAATACTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.07
Consensus pattern (20 bp):
AAAAAAAAAAGAAAAAATGA
Found at i:657541 original size:113 final size:113
Alignment explanation
Indices: 657342--657671 Score: 359
Period size: 113 Copynumber: 2.9 Consensus size: 113
657332 AACTTGGAAG
* * * * *
657342 AACATCAAATGTGTCTAATTTTCAAAGAAATTCATATTTTATACATTCTGATCCATTTGTACCTA
1 AACATCAAATTTGTTTGATTTTCGAAGAAATTCATATTTTATACATTCTGATCCATTCGTACCTA
** * *
657407 GAAAAATAGGGCACGTGTCCTATGAATTTTGGAATTTTTAAGCCCAAT
66 GAAAAATAGGGCACGAATCCTATGAATTTTGAAATTTTTAAGCCCAAC
* *
657455 AACATCAAATTTGTTTGATTTTCGAAGAAATTCATATTTTATACATTCTAATCCATTCGTGCCTA
1 AACATCAAATTTGTTTGATTTTCGAAGAAATTCATATTTTATACATTCTGATCCATTCGTACCTA
** * * *
657520 GGTACAT-GGGACACGAATCCTATGAGTTTTGAAATTTTTGAGCCCAAC
66 GAAAAATAGGG-CACGAATCCTATGAATTTTGAAATTTTTAAGCCCAAC
* *
657568 AACATCAAATTTGTTTGATTCTT-G-ATAAATTCATATTTTACACGATT-TGATCCATTCGT-CG
1 AACATCAAATTTGTTTGATT-TTCGAAGAAATTCATATTTTATAC-ATTCTGATCCATTCGTAC-
* * * *
657629 CTA-AGAAAATAGGGCATGTA-CCTTATTAGTTTTGAAATTTTTA
63 CTAGA-AAAATAGGGCACGAATCC-TATGAATTTTGAAATTTTTA
657672 GGATAACCAA
Statistics
Matches: 184, Mismatches: 26, Indels: 15
0.82 0.12 0.07
Matches are distributed among these distances:
111 3 0.02
112 59 0.32
113 120 0.65
114 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (113 bp):
AACATCAAATTTGTTTGATTTTCGAAGAAATTCATATTTTATACATTCTGATCCATTCGTACCTA
GAAAAATAGGGCACGAATCCTATGAATTTTGAAATTTTTAAGCCCAAC
Found at i:658722 original size:71 final size:75
Alignment explanation
Indices: 658624--658793 Score: 188
Period size: 75 Copynumber: 2.3 Consensus size: 75
658614 TTATTGATGG
* * * * *
658624 AAAATTTTAGAAACCACATATTTTCCAT-TG-GCTAC-CCTTC-AACTTATTTTTAATTTGTTTT
1 AAAATTTTAAAAACAACATATTCTCCATATGTGCTACTCCTTCAAAC-TAGTATTAATTTGTTTT
*
658685 GGTTGTTGAT-
65 GGTTGTCGATA
* * * * *
658695 AAAATTGTAAAAACAACATATTCTCCATCATGTTCTTCTTCTTCAAACTAGTATTAGTTTGTTTT
1 AAAATTTTAAAAACAACATATTCTCCAT-ATGTGCTACTCCTTCAAACTAGTATTAATTTGTTTT
658760 GGTTGTCGATA
65 GGTTGTCGATA
658771 AAAATTTTAAAAACAACATATTC
1 AAAATTTTAAAAACAACATATTC
658794 CTTATCATGT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
71 24 0.30
73 2 0.02
74 3 0.04
75 27 0.33
76 25 0.31
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.42
Consensus pattern (75 bp):
AAAATTTTAAAAACAACATATTCTCCATATGTGCTACTCCTTCAAACTAGTATTAATTTGTTTTG
GTTGTCGATA
Found at i:659652 original size:43 final size:44
Alignment explanation
Indices: 659584--659711 Score: 159
Period size: 44 Copynumber: 2.9 Consensus size: 44
659574 GACCTAGATA
* * * *
659584 TCAAACTCCTTTTATCTTTCGTTTGACATAATGGTTCTGCCCTGG
1 TCAAACTCCTTTCA-CTTTCATTTGACATGATGGTTCTGCCCTAG
659629 TC-AACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTAG
1 TCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTAG
* ** **
659672 TCAAACCCCTTTCGTTTTCATTTGATGTGATGGTTCTGCC
1 TCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCC
659712 TTGCTCAAAC
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
43 29 0.40
44 42 0.58
45 2 0.03
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.41
Consensus pattern (44 bp):
TCAAACTCCTTTCACTTTCATTTGACATGATGGTTCTGCCCTAG
Found at i:659939 original size:81 final size:81
Alignment explanation
Indices: 659804--660059 Score: 300
Period size: 81 Copynumber: 3.2 Consensus size: 81
659794 CTTTTTATCC
**
659804 TTGGTTGACTTTATCGGTTTTGCCTTGGTCAACCCTAT-TAACCCATTGGCTTTATCGATTTTGC
1 TTGGTTGACTTTATCGGTTTCACCTTGGTCAACCCT-TCTAACCCATTGGCTTTATCGATTTTGC
* *
659868 CCTGGCCTACGTTTTAA
65 CCTAGCCTACCTTTTAA
* * *
659885 TTGGTTAACTTTATCGGTTTCATCTTGGTCAACCCTTCTAACCCGTTGGCTTTATCGATTTTGCC
1 TTGGTTGACTTTATCGGTTTCACCTTGGTCAACCCTTCTAACCCATTGGCTTTATCGATTTTGCC
*
659950 CTAG-CTAACCATTTAA
66 CTAGCCT-ACCTTTTAA
* ** * * * * * * *
659966 TTGGTTGACTTGATCAATTTCACCCTAGCCAACCTTTCTAAGCCATTGGCTTTATCGGTTTTACC
1 TTGGTTGACTTTATCGGTTTCACCTTGGTCAACCCTTCTAACCCATTGGCTTTATCGATTTTGCC
*
660031 CTAGCCAACCTTTTAA
66 CTAGCCTACCTTTTAA
*
660047 TTAGTTGACTTTA
1 TTGGTTGACTTTA
660060 GTGGTGCCCT
Statistics
Matches: 147, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 3 0.02
81 143 0.97
82 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.41
Consensus pattern (81 bp):
TTGGTTGACTTTATCGGTTTCACCTTGGTCAACCCTTCTAACCCATTGGCTTTATCGATTTTGCC
CTAGCCTACCTTTTAA
Found at i:660157 original size:117 final size:118
Alignment explanation
Indices: 659946--660173 Score: 316
Period size: 117 Copynumber: 1.9 Consensus size: 118
659936 TTATCGATTT
* * *
659946 TGCCCTAGCTAACCATTTAATTGGTTGACTTGATCAATTTCACCCTAGCCAACCTTTCTAAGCCA
1 TGCCCTAGCCAACCATTTAATTGGTTGACTTGATCAATTTCACCCTAGCCAACCCTTCTAACCCA
*
660011 TTGGCTTTATCGGTTTTACCCTAGCCAACCTTTTAATTAGTTGACTTTAGTGG
66 TTGGCTTTATCGGTTTCACCCTAGCCAACCTTTTAATTAGTTGACTTTAGTGG
* * ** ** *
660064 TGCCCTAGCCAACCTTTTAATTGGTTGACTTTATCGGTTTTGCCCTAG-TAACCCTTCTAACCCA
1 TGCCCTAGCCAACCATTTAATTGGTTGACTTGATCAATTTCACCCTAGCCAACCCTTCTAACCCA
* *
660128 TTGGCTTTATCGGTTTCA-CCTTGACCAACCTTTTAATTGGTTGACT
66 TTGGCTTTATCGGTTTCACCCTAG-CCAACCTTTTAATTAGTTGACT
660174 CTATCGATTT
Statistics
Matches: 96, Mismatches: 13, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
116 4 0.04
117 51 0.53
118 41 0.43
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (118 bp):
TGCCCTAGCCAACCATTTAATTGGTTGACTTGATCAATTTCACCCTAGCCAACCCTTCTAACCCA
TTGGCTTTATCGGTTTCACCCTAGCCAACCTTTTAATTAGTTGACTTTAGTGG
Done.